Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007823.1 Hibiscus syriacus cultivar Beakdansim tig00110160_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 6287495
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 16 of 33
Found at i:3022263 original size:234 final size:234
Alignment explanation
Indices: 3021854--3022308 Score: 901
Period size: 234 Copynumber: 1.9 Consensus size: 234
3021844 GATGTGAGAC
3021854 TTCCCCTCTAATTCTTTTTCCCCAAACCCATATTTCCTAAACCCTAACCCTAATTGTAAAATTCT
1 TTCCCCTCTAATTCTTTTTCCCCAAACCCATATTTCCTAAACCCTAACCCTAATTGTAAAATTCT
3021919 TCCAATTGTATAATCTGAATTCCTTAATTGATTTCCAAAATTCCCTTTCTAGACCCCCAATTTGA
66 TCCAATTGTATAATCTGAATTCCTTAATTGATTTCCAAAATTCCCTTTCTAGACCCCCAATTTGA
3021984 ACAATTGATCCTTAATTTTCTCGTTGAAAATGGTTTATTTCAATCCAATTCTCGATTCCCAAATT
131 ACAATTGATCCTTAATTTTCTCGTTGAAAATGGTTTATTTCAATCCAATTCTCGATTCCCAAATT
3022049 GCAATTCATGTAGGGTGTACTGGTACACCCTAATTCTTT
196 GCAATTCATGTAGGGTGTACTGGTACACCCTAATTCTTT
3022088 TTCCCCTCTAATTCTTTTTCCCCAAACCCATATTTCCTAAACCCTAACCCTAATTGTAAAATTCT
1 TTCCCCTCTAATTCTTTTTCCCCAAACCCATATTTCCTAAACCCTAACCCTAATTGTAAAATTCT
3022153 TCCAATTGTATAATCTGAATTCCTTAATTGATTTCCAAAATTCCCTTTCTAGACCCCCAATTTGA
66 TCCAATTGTATAATCTGAATTCCTTAATTGATTTCCAAAATTCCCTTTCTAGACCCCCAATTTGA
*
3022218 ACAATTGATCCTTAATTTTCTCGTTGAAAATGGTTTATTTCAATCCAATTCTTGATTCCCAAATT
131 ACAATTGATCCTTAATTTTCTCGTTGAAAATGGTTTATTTCAATCCAATTCTCGATTCCCAAATT
3022283 GCAATTCATGTAGGGTGTACTGGTAC
196 GCAATTCATGTAGGGTGTACTGGTAC
3022309 TCCGGCAATG
Statistics
Matches: 220, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
234 220 1.00
ACGTcount: A:0.28, C:0.25, G:0.09, T:0.38
Consensus pattern (234 bp):
TTCCCCTCTAATTCTTTTTCCCCAAACCCATATTTCCTAAACCCTAACCCTAATTGTAAAATTCT
TCCAATTGTATAATCTGAATTCCTTAATTGATTTCCAAAATTCCCTTTCTAGACCCCCAATTTGA
ACAATTGATCCTTAATTTTCTCGTTGAAAATGGTTTATTTCAATCCAATTCTCGATTCCCAAATT
GCAATTCATGTAGGGTGTACTGGTACACCCTAATTCTTT
Found at i:3023997 original size:6 final size:6
Alignment explanation
Indices: 3023982--3024020 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
3023972 AGATTTGTAT
*
3023982 AAAGAT AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAA
3024021 AGATGAAGAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (6 bp):
AAAGAA
Found at i:3024225 original size:6 final size:6
Alignment explanation
Indices: 3024020--3024222 Score: 307
Period size: 6 Copynumber: 33.8 Consensus size: 6
3024010 AAAAAGAAAA
*
3024020 AAGATG AAGATG AAGATG AAGATG AAGATG AAGATA AAGATG AAGATG
1 AAGATG AAGATG AAGATG AAGATG AAGATG AAGATG AAGATG AAGATG
* * * * * *
3024068 AAAATG AAGATG AAGATG AAGGTG AAGGTG AAGGTG AAGGTG AAGGTG
1 AAGATG AAGATG AAGATG AAGATG AAGATG AAGATG AAGATG AAGATG
*
3024116 AAGGTG AAGATG AAGATG AAGATG AAGATG AAGATG AAGATG AAGATG
1 AAGATG AAGATG AAGATG AAGATG AAGATG AAGATG AAGATG AAGATG
* *
3024164 AAGATG AAGATG AAGATG AAGATG AAGATG AAGATG AAGATA AAGATA
1 AAGATG AAGATG AAGATG AAGATG AAGATG AAGATG AAGATG AAGATG
*
3024212 AAGATA AAGAT
1 AAGATG AAGAT
3024223 AAATTGGCAG
Statistics
Matches: 190, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 190 1.00
ACGTcount: A:0.50, C:0.00, G:0.33, T:0.17
Consensus pattern (6 bp):
AAGATG
Found at i:3026178 original size:126 final size:126
Alignment explanation
Indices: 3025968--3026194 Score: 280
Period size: 126 Copynumber: 1.8 Consensus size: 126
3025958 TGTTTAATTA
* * *
3025968 TGGTATCGATACACATACAATATCGATACCCGTGGCAAGCCTTAAAAAACTAAGAAGTATAGTAA
1 TGGTATCGATACACATACAATATCCATACCCGTGGCAAGCCTTAAAAAACCAAGAAGCATAGTAA
* * *
3026033 GTATCGATACCATTTTGGTATATGTACCATGTAATTCAATTCATATTCCAGTATGGAATAG
66 GTATCGATACCATTGTGGTATAGGTACCATATAATTCAATTCATATTCCAGTATGGAATAG
* * * *
3026094 TGGTATCGATACA-ACTATAGTATCCATACTCGTGGTAAGCC-TAAAAAATCCAAGAAGCATTA-
1 TGGTATCGATACACA-TACAATATCCATACCCGTGGCAAGCCTTAAAAAA-CCAAGAAGCA-TAG
* * * *
3026156 TATGTATCGATATCGTTGTGGTATCGGTACCATATAATT
63 TAAGTATCGATACCATTGTGGTATAGGTACCATATAATT
3026195 TAACTCATTG
Statistics
Matches: 84, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
125 8 0.10
126 74 0.88
127 2 0.02
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (126 bp):
TGGTATCGATACACATACAATATCCATACCCGTGGCAAGCCTTAAAAAACCAAGAAGCATAGTAA
GTATCGATACCATTGTGGTATAGGTACCATATAATTCAATTCATATTCCAGTATGGAATAG
Found at i:3031907 original size:16 final size:16
Alignment explanation
Indices: 3031886--3031916 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
3031876 AAATTTTAAT
*
3031886 TTATTGGTGCTCGTCA
1 TTATTGGCGCTCGTCA
3031902 TTATTGGCGCTCGTC
1 TTATTGGCGCTCGTC
3031917 GCCGCTCGTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.23, G:0.26, T:0.42
Consensus pattern (16 bp):
TTATTGGCGCTCGTCA
Found at i:3033615 original size:2 final size:2
Alignment explanation
Indices: 3033608--3033644 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
3033598 ATCTACATAC
3033608 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3033645 AAAGTTAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3034759 original size:43 final size:42
Alignment explanation
Indices: 3034689--3034973 Score: 204
Period size: 43 Copynumber: 6.7 Consensus size: 42
3034679 AGGCTTAAAC
** * *
3034689 TATAAAAGTAAAAAACATGATTGAAAAAATTAGGGATCTTAAT
1 TATAAAAGTAAAAATGA-GATTGAAAAAATTAGGGACCTCAAT
* * * *
3034732 TATAAAAGTAAAAAGAGAGACTAAAAAAATCAGGG-CCTCAAT
1 TATAAAAGTAAAAA-TGAGATTGAAAAAATTAGGGACCTCAAT
* * *
3034774 TTTAAAGGTAAAAATTGAGATT-AAAAGAAATAGGG--CTCGAAAT
1 TATAAAAGTAAAAA-TGAGATTGAAAA-AATTAGGGACCTC--AAT
* * * *
3034817 TATATAAGGAAAATATGAGATTGAAAAAATTAGAGACCACAAT
1 TATAAAAGTAAAA-ATGAGATTGAAAAAATTAGGGACCTCAAT
* * ** *
3034860 TATAAAGGTAAAAAGTGAGATTGAAAAAATCA-TAAGCTCAAT
1 TATAAAAGTAAAAA-TGAGATTGAAAAAATTAGGGACCTCAAT
* * * *
3034902 TATAAATGTATAAAATGGGATTGAAAAACTTA-GGATCGTCAAT
1 TATAAAAGTA-AAAATGAGATTGAAAAAATTAGGGA-CCTCAAT
*
3034945 TATAAATGTAAAAAATGAGATTGAAAAAA
1 TATAAAAGT-AAAAATGAGATTGAAAAAA
3034974 AATTAAGGAC
Statistics
Matches: 192, Mismatches: 38, Indels: 24
0.76 0.15 0.09
Matches are distributed among these distances:
41 7 0.04
42 59 0.31
43 116 0.60
44 8 0.04
45 2 0.01
ACGTcount: A:0.52, C:0.06, G:0.17, T:0.25
Consensus pattern (42 bp):
TATAAAAGTAAAAATGAGATTGAAAAAATTAGGGACCTCAAT
Found at i:3034785 original size:42 final size:42
Alignment explanation
Indices: 3034729--3034809 Score: 101
Period size: 42 Copynumber: 1.9 Consensus size: 42
3034719 TAGGGATCTT
3034729 AATTATAAAAGTAAAAAGAGAGACTAAAA-AAATCAGGGCCTC
1 AATTATAAAAGTAAAAAGAGAGACTAAAAGAAAT-AGGGCCTC
* * ** *
3034771 AATTTTAAAGGTAAAAATTGAGATTAAAAGAAATAGGGC
1 AATTATAAAAGTAAAAAGAGAGACTAAAAGAAATAGGGC
3034810 TCGAAATTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
42 29 0.88
43 4 0.12
ACGTcount: A:0.53, C:0.07, G:0.19, T:0.21
Consensus pattern (42 bp):
AATTATAAAAGTAAAAAGAGAGACTAAAAGAAATAGGGCCTC
Found at i:3036161 original size:25 final size:24
Alignment explanation
Indices: 3036133--3036222 Score: 69
Period size: 25 Copynumber: 3.7 Consensus size: 24
3036123 AATATTTAAG
* *
3036133 TTAAATTTATAATATTTTATATATA
1 TTAAATTAAAAATATTTT-TATATA
*
3036158 TTAACTTAAAAATA-TTTT-TATA
1 TTAAATTAAAAATATTTTTATATA
* *
3036180 TTAACTTATTAAATATATTTTAT-TA
1 TTAAATTA-AAAATAT-TTTTATATA
*
3036205 TTAAATTTAAAAACATTT
1 TTAAA-TTAAAAATATTT
3036223 AATTCAAAGA
Statistics
Matches: 53, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
22 12 0.23
23 6 0.11
24 5 0.09
25 26 0.49
26 4 0.08
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.52
Consensus pattern (24 bp):
TTAAATTAAAAATATTTTTATATA
Found at i:3036182 original size:22 final size:22
Alignment explanation
Indices: 3036154--3036222 Score: 75
Period size: 22 Copynumber: 3.0 Consensus size: 22
3036144 ATATTTTATA
3036154 TATATTAACTTAAAAATATTTT
1 TATATTAACTTAAAAATATTTT
*
3036176 TATATTAACTTATTAAATATATTT
1 TATATTAACTTA-AAAATAT-TTT
* *
3036200 TATTATTAAATTTAAAAACATTT
1 TA-TATT-AACTTAAAAATATTT
3036223 AATTCAAAGA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
22 12 0.31
23 6 0.15
24 7 0.18
25 9 0.23
26 5 0.13
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (22 bp):
TATATTAACTTAAAAATATTTT
Found at i:3036369 original size:31 final size:31
Alignment explanation
Indices: 3036331--3036391 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
3036321 TGATCACATT
3036331 TTAATTAAATAAAAACGAAAGTGACGATATC
1 TTAATTAAATAAAAACGAAAGTGACGATATC
*
3036362 TTAATTAAATAAAAACGAAAGTGACTATAT
1 TTAATTAAATAAAAACGAAAGTGACGATAT
3036392 ATTATATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.52, C:0.08, G:0.11, T:0.28
Consensus pattern (31 bp):
TTAATTAAATAAAAACGAAAGTGACGATATC
Found at i:3038553 original size:107 final size:107
Alignment explanation
Indices: 3038367--3038580 Score: 311
Period size: 107 Copynumber: 2.0 Consensus size: 107
3038357 CCACGTATAC
* * ** * *
3038367 AAACACTGTCCAATGACATAGATCAATCATAGAGTGTAGCATAGAAATTACATGTAATGGGAACG
1 AAACACAGTCAAATGACATAGATCAATCATAGAGCATAGCATAGAAATCACATGTAATGGGAACC
* *
3038432 ACACATGTCTATTTTCAACTGGTTTTCTTTAAACATTAGTGA
66 ACACATGCCTATTTTCAACTGGTCTTCTTTAAACATTAGTGA
* *
3038474 AAACACAGTCAAATGACATAGATCAATCATGGAGCATAGCATAGAAATCACATGTAATGTGAACC
1 AAACACAGTCAAATGACATAGATCAATCATAGAGCATAGCATAGAAATCACATGTAATGGGAACC
* * *
3038539 CCACATGCCTATTTTCAATTGGTCTTCTTTTAACATTAGTGA
66 ACACATGCCTATTTTCAACTGGTCTTCTTTAAACATTAGTGA
3038581 GATCAAATTT
Statistics
Matches: 94, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
107 94 1.00
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (107 bp):
AAACACAGTCAAATGACATAGATCAATCATAGAGCATAGCATAGAAATCACATGTAATGGGAACC
ACACATGCCTATTTTCAACTGGTCTTCTTTAAACATTAGTGA
Found at i:3043266 original size:72 final size:72
Alignment explanation
Indices: 3043149--3043296 Score: 278
Period size: 72 Copynumber: 2.1 Consensus size: 72
3043139 ATAATTAGTG
*
3043149 AATATCGCGATGTTGAGATCTATTCAACCTTTTTTGACCCAGAGTCTTGATAATTCGATAAAAAC
1 AATATCGCGATGTTGAGATCTATTCAACCTATTTTGACCCAGAGTCTTGATAATTCGATAAAAAC
3043214 CCAGAAT
66 CCAGAAT
*
3043221 AATATCGCGATGTTGAGATCTATTCAACCTATTTTGACCCAGAGTCTTGATAATTCGATATAAAC
1 AATATCGCGATGTTGAGATCTATTCAACCTATTTTGACCCAGAGTCTTGATAATTCGATAAAAAC
3043286 CCAGAAT
66 CCAGAAT
3043293 AATA
1 AATA
3043297 CAAAATATTA
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 74 1.00
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.32
Consensus pattern (72 bp):
AATATCGCGATGTTGAGATCTATTCAACCTATTTTGACCCAGAGTCTTGATAATTCGATAAAAAC
CCAGAAT
Found at i:3043963 original size:60 final size:59
Alignment explanation
Indices: 3043829--3043970 Score: 194
Period size: 60 Copynumber: 2.4 Consensus size: 59
3043819 TTTGATCATT
* *
3043829 CATATTAGACTCCTAGATCCTAGTGGTCTAGGGTAAGTCCTTATGGATACAAGTATCTTC
1 CATATTA-ACTCCTAGATCCTAGTGGTCTAAGGTAAATCCTTATGGATACAAGTATCTTC
* * **
3043889 CATATTGAATTCCTAGATCCTAGTGGTCTAAGGTAAATCCTTATGGATTCTTGTATCTTC
1 CATATT-AACTCCTAGATCCTAGTGGTCTAAGGTAAATCCTTATGGATACAAGTATCTTC
*
3043949 CATATTATACTCCTACATCCTA
1 CATATTA-ACTCCTAGATCCTA
3043971 AGGTGGCGTT
Statistics
Matches: 72, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
59 1 0.01
60 70 0.97
61 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.37
Consensus pattern (59 bp):
CATATTAACTCCTAGATCCTAGTGGTCTAAGGTAAATCCTTATGGATACAAGTATCTTC
Found at i:3044313 original size:28 final size:28
Alignment explanation
Indices: 3044270--3044421 Score: 189
Period size: 28 Copynumber: 5.3 Consensus size: 28
3044260 GGTTGGGTCG
* *
3044270 GGTCGGGTTTTCTTAAGTTTGATATTCA
1 GGTCGGGTTTTTTTAAGTGTGATATTCA
*
3044298 AGTCGGGTTTTTTTAAGTGTGAGTCGAGTTCA
1 GGTCGGGTTTTTTTAAGTGTGA-T--A-TTCA
* **
3044330 GGTCGGGTTTTTTTAAGTTTGATATTTG
1 GGTCGGGTTTTTTTAAGTGTGATATTCA
*
3044358 GGTCGGGTTTTTTTAAGTGTGATATTCG
1 GGTCGGGTTTTTTTAAGTGTGATATTCA
*
3044386 GGTTGGG-TTTTTTAAGTGTGATATTCA
1 GGTCGGGTTTTTTTAAGTGTGATATTCA
3044413 GGTCGGGTT
1 GGTCGGGTT
3044422 CGACTTTAGG
Statistics
Matches: 107, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
27 25 0.23
28 54 0.50
29 2 0.02
31 2 0.02
32 24 0.22
ACGTcount: A:0.16, C:0.07, G:0.31, T:0.46
Consensus pattern (28 bp):
GGTCGGGTTTTTTTAAGTGTGATATTCA
Found at i:3044363 original size:60 final size:56
Alignment explanation
Indices: 3044270--3044421 Score: 198
Period size: 60 Copynumber: 2.7 Consensus size: 56
3044260 GGTTGGGTCG
* *
3044270 GGTCGGGTTTTCTTAAGTTTGATATTCAAGTCGGGTTTTTTTAAGTGTGAGTCGAGTTCA
1 GGTCGGGTTTTTTTAAGTTTGATATTCAGGTCGGGTTTTTTTAAGTGTGA-T--A-TTCA
** *
3044330 GGTCGGGTTTTTTTAAGTTTGATATTTGGGTCGGGTTTTTTTAAGTGTGATATTCG
1 GGTCGGGTTTTTTTAAGTTTGATATTCAGGTCGGGTTTTTTTAAGTGTGATATTCA
* *
3044386 GGTTGGG-TTTTTTAAGTGTGATATTCAGGTCGGGTT
1 GGTCGGGTTTTTTTAAGTTTGATATTCAGGTCGGGTT
3044422 CGACTTTAGG
Statistics
Matches: 83, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
55 26 0.31
56 9 0.11
57 1 0.01
59 1 0.01
60 46 0.55
ACGTcount: A:0.16, C:0.07, G:0.31, T:0.46
Consensus pattern (56 bp):
GGTCGGGTTTTTTTAAGTTTGATATTCAGGTCGGGTTTTTTTAAGTGTGATATTCA
Found at i:3053575 original size:3 final size:3
Alignment explanation
Indices: 3053567--3053636 Score: 79
Period size: 3 Copynumber: 23.0 Consensus size: 3
3053557 AAATTTAAAT
** *
3053567 TTA TTA TTA TTA TTA AAA TTA TTA TTA TTA -TA TAA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
3053614 ATA TTA TTA TATA TTA TTTA TTA
1 TTA TTA TTA T-TA TTA -TTA TTA
3053637 AATATTACAA
Statistics
Matches: 56, Mismatches: 8, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
2 2 0.04
3 48 0.86
4 6 0.11
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:3053607 original size:29 final size:28
Alignment explanation
Indices: 3053567--3053643 Score: 90
Period size: 26 Copynumber: 2.8 Consensus size: 28
3053557 AAATTTAAAT
*
3053567 TTAT-TATTATTATTAAAATTATTATTA
1 TTATATATTATTATTAAAATTAATATTA
3053594 TTATATAATTATTATT---ATTAATATTA
1 TTATAT-ATTATTATTAAAATTAATATTA
3053620 TTATATATTATTTATTAAATATTA
1 TTATATATTA-TTATTAAA-ATTA
3053644 CAAAGCCCAA
Statistics
Matches: 42, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
25 4 0.10
26 20 0.48
27 4 0.10
28 1 0.02
29 9 0.21
30 4 0.10
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (28 bp):
TTATATATTATTATTAAAATTAATATTA
Found at i:3053634 original size:26 final size:25
Alignment explanation
Indices: 3053568--3053643 Score: 72
Period size: 23 Copynumber: 3.2 Consensus size: 25
3053558 AATTTAAATT
*
3053568 TATTATTATTATTAAAATTATTAT-
1 TATTATTATTATTAATATTATTATA
* *
3053592 TATTA-TATAATTATTATTATTA-A
1 TATTATTATTATTAATATTATTATA
*
3053615 TATTATTATATATT-AT-TTATTAAA
1 TATTATTAT-TATTAATATTATTATA
3053639 TATTA
1 TATTA
3053644 CAAAGCCCAA
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
23 25 0.58
24 15 0.35
25 3 0.07
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (25 bp):
TATTATTATTATTAATATTATTATA
Found at i:3061248 original size:1 final size:1
Alignment explanation
Indices: 3061242--3061281 Score: 53
Period size: 1 Copynumber: 40.0 Consensus size: 1
3061232 ATTATACTTG
* **
3061242 AAAAAAAGAAAAAAAAAAAAAAAAAGGAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
3061282 GAATTGAACC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (1 bp):
A
Found at i:3061265 original size:18 final size:19
Alignment explanation
Indices: 3061242--3061281 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
3061232 ATTATACTTG
3061242 AAAAAAA-GAAAAAAAAAA
1 AAAAAAAGGAAAAAAAAAA
3061260 AAAAAAAGGAAAAAAAAAA
1 AAAAAAAGGAAAAAAAAAA
3061279 AAA
1 AAA
3061282 GAATTGAACC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (19 bp):
AAAAAAAGGAAAAAAAAAA
Found at i:3064899 original size:23 final size:23
Alignment explanation
Indices: 3064872--3064952 Score: 85
Period size: 23 Copynumber: 3.6 Consensus size: 23
3064862 ACATCTACAC
*
3064872 TTTTCAAAGATGATAAACTTTTT
1 TTTTCAAAGATGATAGACTTTTT
* * *
3064895 TTTTCAAAGATGATAGCCTATCT
1 TTTTCAAAGATGATAGACTTTTT
* *
3064918 CTTT-AAAGATAATAGA-TTCTTT
1 TTTTCAAAGATGATAGACTT-TTT
3064940 TTTTCAAAGATGA
1 TTTTCAAAGATGA
3064953 AAGTTTTATT
Statistics
Matches: 45, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
21 1 0.02
22 15 0.33
23 29 0.64
ACGTcount: A:0.35, C:0.11, G:0.11, T:0.43
Consensus pattern (23 bp):
TTTTCAAAGATGATAGACTTTTT
Found at i:3065801 original size:45 final size:46
Alignment explanation
Indices: 3065607--3065915 Score: 532
Period size: 46 Copynumber: 6.7 Consensus size: 46
3065597 CTATTTCCAA
*
3065607 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTC-AAAAACCTTCGGGT
* *
3065654 CATCAGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCAGGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGT
3065700 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGT
* * *
3065746 CATCTGTAAGTCCTTCAGTGCTTAATGTTTTC-AAAGCCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGT
3065791 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGT
3065837 CATCTGTAAGTCCTTCAGTGCATGATGTTTTC-AAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGT
*
3065882 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAA
3065916 CATTTCCATC
Statistics
Matches: 248, Mismatches: 12, Indels: 5
0.94 0.05 0.02
Matches are distributed among these distances:
45 86 0.35
46 132 0.53
47 30 0.12
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (46 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGT
Found at i:3065827 original size:91 final size:91
Alignment explanation
Indices: 3065607--3065915 Score: 537
Period size: 91 Copynumber: 3.4 Consensus size: 91
3065597 CTATTTCCAA
*
3065607 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAACCTTCGGGTCATCAGTAAGTCCTTCAG
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTC-AAAAACCTTCGGGTCATCTGTAAGTCCTTCAG
*
3065672 TGCATGATGTTTTCAAAAACCTTCAGGT
65 TGCATGATGTTTTC-AAAACCTTCGGGT
*
3065700 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGT
* * *
3065765 GCTTAATGTTTTCAAAGCCTTCGGGT
66 GCATGATGTTTTCAAAACCTTCGGGT
*
3065791 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGT
3065856 GCATGATGTTTTCAAAACCTTCGGGT
66 GCATGATGTTTTCAAAACCTTCGGGT
3065882 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAA
3065916 CATTTCCATC
Statistics
Matches: 206, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
91 132 0.64
92 43 0.21
93 31 0.15
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (91 bp):
CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGT
GCATGATGTTTTCAAAACCTTCGGGT
Found at i:3066057 original size:3 final size:3
Alignment explanation
Indices: 3066049--3066101 Score: 70
Period size: 3 Copynumber: 17.0 Consensus size: 3
3066039 AAATTTAAAT
**
3066049 TTA TTA TTA TTA TTA AAA TTA TTA TTA TTA TTA TTA TTA TATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
3066095 TTTA TTA
1 -TTA TTA
3066102 AATATTACAA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
3 38 0.86
4 6 0.14
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:3066069 original size:12 final size:12
Alignment explanation
Indices: 3066054--3066108 Score: 56
Period size: 12 Copynumber: 4.3 Consensus size: 12
3066044 TAAATTTATT
3066054 ATTATTATTAAA
1 ATTATTATTAAA
**
3066066 ATTATTATTATT
1 ATTATTATTAAA
*
3066078 ATTATTATTATAT
1 ATTATTATTA-AA
3066091 ATTATTTATTAAA
1 ATTA-TTATTAAA
3066104 TATTA
1 -ATTA
3066109 CAAAGCCCAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
12 20 0.56
13 6 0.17
14 10 0.28
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
ATTATTATTAAA
Found at i:3076196 original size:207 final size:212
Alignment explanation
Indices: 3075819--3076240 Score: 757
Period size: 207 Copynumber: 2.0 Consensus size: 212
3075809 ATTACACCCT
3075819 GAAAATTGCTCTCAATTTTTTCTTACTAAAGCTTTTCTCTTTAAGCTTTTCTTTTGTGTTTCTCA
1 GAAAATTGCTCTCAATTTTTTCTTACTAAAGCTTTTCTC-TT-A--TTTTCTTTTGTGTTTCTCA
3075884 CTTGGATTAATAAAGAACCGTTGGTGAGCTATTTATAGATGCAGAATCCCCCCATTCTATTTCAC
62 CTTGGATTAATAAAGAACCGTTGGTGAGCTATTTATAGATGCAGAATCCCCCCATTCTATTTCAC
3075949 CCAACTAATTCATTTAATTGGCTTTCCTTATTTTCAACAAAGGATGCACCGTCAATTAGGTTGTT
127 CCAACTAATTCATTTAATTGGCTTTCCTTATTTTCAACAAAGGATGCACCGTCAATTAGGTTGTT
3076014 GG-TTGGC-ACCAATTTTCCC
192 GGCTTGGCAACCAATTTTCCC
3076033 GAAAATTGCTCTCAA-TTTTTCTTACTAAAGCTTTTCTC-T-TTTTCTTTTGTGTTTCTCACTTG
1 GAAAATTGCTCTCAATTTTTTCTTACTAAAGCTTTTCTCTTATTTTCTTTTGTGTTTCTCACTTG
3076095 GATTAATAAAGAACCTGTT-GTGAGCTATTTATAGATGCAGAATCCCCCCATTCTATTTCACCCA
66 GATTAATAAAGAACC-GTTGGTGAGCTATTTATAGATGCAGAATCCCCCCATTCTATTTCACCCA
3076159 ACTAATTCATTTAATTGGCTTTCCTTATTTTCAACAAAGGATGCACCGTCAATTAGGTTGTTGGC
130 ACTAATTCATTTAATTGGCTTTCCTTATTTTCAACAAAGGATGCACCGTCAATTAGGTTGTTGGC
3076224 TTGGCAACCAATTTTCC
195 TTGGCAACCAATTTTCC
3076241 AACCAATTTC
Statistics
Matches: 205, Mismatches: 0, Indels: 11
0.95 0.00 0.05
Matches are distributed among these distances:
207 147 0.72
208 8 0.04
209 11 0.05
211 1 0.00
213 23 0.11
214 15 0.07
ACGTcount: A:0.25, C:0.21, G:0.14, T:0.40
Consensus pattern (212 bp):
GAAAATTGCTCTCAATTTTTTCTTACTAAAGCTTTTCTCTTATTTTCTTTTGTGTTTCTCACTTG
GATTAATAAAGAACCGTTGGTGAGCTATTTATAGATGCAGAATCCCCCCATTCTATTTCACCCAA
CTAATTCATTTAATTGGCTTTCCTTATTTTCAACAAAGGATGCACCGTCAATTAGGTTGTTGGCT
TGGCAACCAATTTTCCC
Found at i:3077209 original size:17 final size:17
Alignment explanation
Indices: 3077189--3077221 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
3077179 TATGAGATCT
3077189 AATTGAATA-AAATAAAA
1 AATTG-ATAGAAATAAAA
3077206 AATTGATAGAAATAAA
1 AATTGATAGAAATAAA
3077222 TTACCCATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.67, C:0.00, G:0.09, T:0.24
Consensus pattern (17 bp):
AATTGATAGAAATAAAA
Found at i:3099337 original size:2 final size:2
Alignment explanation
Indices: 3099330--3099356 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3099320 GGTTAAATCA
3099330 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
3099357 GGGCTAACTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:3099405 original size:75 final size:75
Alignment explanation
Indices: 3099282--3099431 Score: 291
Period size: 75 Copynumber: 2.0 Consensus size: 75
3099272 TTGGAGGAAG
3099282 GGGCTAACTAGAGGGTAGAGTTAAAAAGAGTTAACCATGGTTAAATCATCTCTCTCTCTCTCTCT
1 GGGCTAACTAGAGGGTAGAGTTAAAAAGAGTTAACCATGGTTAAATCATCTCTCTCTCTCTCTCT
*
3099347 CTCTCTCTCT
66 CTCCCTCTCT
3099357 GGGCTAACTAGAGGGTAGAGTTAAAAAGAGTTAACCATGGTTAAATCATCTCTCTCTCTCTCTCT
1 GGGCTAACTAGAGGGTAGAGTTAAAAAGAGTTAACCATGGTTAAATCATCTCTCTCTCTCTCTCT
3099422 CTCCCTCTCT
66 CTCCCTCTCT
3099432 CCCTCTCTCT
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 74 1.00
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (75 bp):
GGGCTAACTAGAGGGTAGAGTTAAAAAGAGTTAACCATGGTTAAATCATCTCTCTCTCTCTCTCT
CTCCCTCTCT
Found at i:3099418 original size:8 final size:8
Alignment explanation
Indices: 3099405--3099580 Score: 158
Period size: 8 Copynumber: 22.2 Consensus size: 8
3099395 GGTTAAATCA
3099405 TCTCTCTC
1 TCTCTCTC
3099413 TCTCTCTC
1 TCTCTCTC
*
3099421 TCTCCCTC
1 TCTCTCTC
*
3099429 TCTCCCTC
1 TCTCTCTC
3099437 TCTCTCTC
1 TCTCTCTC
*
3099445 CCTCTCTC
1 TCTCTCTC
*
3099453 TCCCTCTC
1 TCTCTCTC
*
3099461 TCTCCCTC
1 TCTCTCTC
*
3099469 TCTCCCTC
1 TCTCTCTC
3099477 TCTCTCTC
1 TCTCTCTC
* *
3099485 CCCCTCTC
1 TCTCTCTC
* *
3099493 CCCCTCTC
1 TCTCTCTC
*
3099501 CCTCTCTC
1 TCTCTCTC
*
3099509 CCTCTCTC
1 TCTCTCTC
* *
3099517 CCTCTCCC
1 TCTCTCTC
*
3099525 CCTCTCTC
1 TCTCTCTC
*
3099533 TCTCCCTC
1 TCTCTCTC
*
3099541 TCTCCCTC
1 TCTCTCTC
3099549 TCT-TC-C
1 TCTCTCTC
*
3099555 TCTCCCTC
1 TCTCTCTC
3099563 TCTCTCTC
1 TCTCTCTC
* *
3099571 CCACTCTC
1 TCTCTCTC
3099579 TC
1 TC
3099581 CCCTTGATTA
Statistics
Matches: 145, Mismatches: 21, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
6 4 0.03
7 2 0.01
8 139 0.96
ACGTcount: A:0.01, C:0.61, G:0.00, T:0.39
Consensus pattern (8 bp):
TCTCTCTC
Found at i:3099437 original size:22 final size:22
Alignment explanation
Indices: 3099405--3099582 Score: 201
Period size: 22 Copynumber: 8.4 Consensus size: 22
3099395 GGTTAAATCA
*
3099405 TCTCTCTCTCTCTCTCTCTCCC
1 TCTCTCCCTCTCTCTCTCTCCC
3099427 TCTCT-CC-CTCTCTCTCTCCC
1 TCTCTCCCTCTCTCTCTCTCCC
*
3099447 TCTCT--CTCCCTCTCTCTCCC
1 TCTCTCCCTCTCTCTCTCTCCC
*
3099467 TCTCTCCCTCTCTCTCTCCCCC
1 TCTCTCCCTCTCTCTCTCTCCC
* *
3099489 TCTCCCCCTCTCCCTCTCTCCC
1 TCTCTCCCTCTCTCTCTCTCCC
* *
3099511 TCTCTCCCTCTC-C-CCCTCTC
1 TCTCTCCCTCTCTCTCTCTCCC
* *
3099531 TCTCTCCCTCTCTCCCTCT-CT
1 TCTCTCCCTCTCTCTCTCTCCC
3099552 TCCTCTCCCTCTCTCTCTC-CCAC
1 T-CTCTCCCTCTCTCTCTCTCC-C
3099575 TCTCTCCC
1 TCTCTCCC
3099583 CTTGATTAGA
Statistics
Matches: 133, Mismatches: 15, Indels: 16
0.81 0.09 0.10
Matches are distributed among these distances:
19 1 0.01
20 52 0.39
21 4 0.03
22 75 0.56
23 1 0.01
ACGTcount: A:0.01, C:0.61, G:0.00, T:0.38
Consensus pattern (22 bp):
TCTCTCCCTCTCTCTCTCTCCC
Found at i:3099449 original size:28 final size:28
Alignment explanation
Indices: 3099406--3099582 Score: 194
Period size: 28 Copynumber: 6.0 Consensus size: 28
3099396 GTTAAATCAT
*
3099406 CTCTCTCTCTCTCTCTCTCCCTCTCTCC
1 CTCTCTCTCTCCCTCTCTCCCTCTCTCC
3099434 CTCTCTCTCTCCCTCTCTCTCCCTCTCTCTCC
1 CTCTCTCTCT-CC-CTCTCT-CC-CTCTCTCC
* * *
3099466 CTCTCTCCCTCTCTCTCTCCCCCTCTCCCC
1 CTCTCT--CTCTCCCTCTCTCCCTCTCTCC
*
3099496 CTCTCCCTCTCTCCCTCTCTCCCTCTCCCC
1 CTCT--CTCTCTCCCTCTCTCCCTCTCTCC
*
3099526 CTCTCTCTCTCCCTCTCTCCCTCTCTTC
1 CTCTCTCTCTCCCTCTCTCCCTCTCTCC
* *
3099554 CTCTCCCTCTCTCTCTC-CCACTCTCTCC
1 CTCTCTCTCTCCCTCTCTCC-CTCTCTCC
3099582 C
1 C
3099583 CTTGATTAGA
Statistics
Matches: 129, Mismatches: 11, Indels: 18
0.82 0.07 0.11
Matches are distributed among these distances:
27 2 0.02
28 55 0.43
29 1 0.01
30 41 0.32
31 4 0.03
32 21 0.16
33 1 0.01
34 4 0.03
ACGTcount: A:0.01, C:0.62, G:0.00, T:0.38
Consensus pattern (28 bp):
CTCTCTCTCTCCCTCTCTCCCTCTCTCC
Found at i:3099793 original size:19 final size:21
Alignment explanation
Indices: 3099769--3099808 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
3099759 ATTAATTGTA
*
3099769 TATTT-ATTTTTA-AAAATTT
1 TATTTAATTTATATAAAATTT
3099788 TATTTAATTTATATAAAATTT
1 TATTTAATTTATATAAAATTT
3099809 AAAAAAAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 6 0.33
21 7 0.39
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TATTTAATTTATATAAAATTT
Found at i:3101009 original size:21 final size:22
Alignment explanation
Indices: 3100985--3101036 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
3100975 TTATATACTT
3100985 TTATAAAAAAATA-TGA-AATAA
1 TTATAAAAAAATATTGATAAT-A
* *
3101006 TTATAAAAATATATTTATAATA
1 TTATAAAAAAATATTGATAATA
3101028 TTATAAAAA
1 TTATAAAAA
3101037 TATTTATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 12 0.44
22 12 0.44
23 3 0.11
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (22 bp):
TTATAAAAAAATATTGATAATA
Found at i:3101279 original size:26 final size:28
Alignment explanation
Indices: 3101224--3101282 Score: 70
Period size: 26 Copynumber: 2.2 Consensus size: 28
3101214 TATTTAAAGC
* *
3101224 AAATAATTAATATTATTAAAATATATAT
1 AAATAATTAATATTATAAAAATATAAAT
3101252 AAATAATATAAT-TT-TAAAAAT-TAAAT
1 AAATAAT-TAATATTATAAAAATATAAAT
3101278 AAATA
1 AAATA
3101283 TTTTAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 9 0.32
27 6 0.21
28 9 0.32
29 4 0.14
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (28 bp):
AAATAATTAATATTATAAAAATATAAAT
Found at i:3101291 original size:19 final size:22
Alignment explanation
Indices: 3101251--3101290 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
3101241 AAAATATATA
3101251 TAAATAATATAATTTTAAAAAT
1 TAAATAATATAATTTTAAAAAT
3101273 TAAATAA-AT-ATTTTAAAA
1 TAAATAATATAATTTTAAAA
3101291 TAATTTCATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.50
21 2 0.11
22 7 0.39
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
TAAATAATATAATTTTAAAAAT
Found at i:3101301 original size:22 final size:21
Alignment explanation
Indices: 3101276--3101350 Score: 53
Period size: 23 Copynumber: 3.4 Consensus size: 21
3101266 TAAAAATTAA
3101276 ATAAATATTTTAAAATAATTT
1 ATAAATATTTTAAAATAATTT
* *
3101297 CAT-AATATTATAAATATACTTT
1 -ATAAATATTTTAAA-ATAATTT
* * *
3101319 TTAAAATAATTTAATATAAATTTT
1 AT-AAATATTTTAAAAT-AA-TTT
3101343 ATAAATAT
1 ATAAATAT
3101351 AGAAAAAAAA
Statistics
Matches: 39, Mismatches: 9, Indels: 9
0.68 0.16 0.16
Matches are distributed among these distances:
21 11 0.28
22 10 0.26
23 14 0.36
24 4 0.10
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.47
Consensus pattern (21 bp):
ATAAATATTTTAAAATAATTT
Found at i:3104734 original size:39 final size:40
Alignment explanation
Indices: 3104691--3104771 Score: 146
Period size: 40 Copynumber: 2.0 Consensus size: 40
3104681 ACCGTAGTGC
3104691 TACACATAAGGTCGTGC-CACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCTCACCATATACACCGAAGTGTAT
*
3104730 TACACATAAGGTCGTGCTCACCATATACACTGAAGTGTAT
1 TACACATAAGGTCGTGCTCACCATATACACCGAAGTGTAT
3104770 TA
1 TA
3104772 TAAACCTGCA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
39 17 0.43
40 23 0.57
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.26
Consensus pattern (40 bp):
TACACATAAGGTCGTGCTCACCATATACACCGAAGTGTAT
Found at i:3108592 original size:25 final size:27
Alignment explanation
Indices: 3108564--3108614 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 27
3108554 ACATTGCATA
3108564 TTTTGCATTTTATA-TTT-CATGTTTG
1 TTTTGCATTTTATATTTTCCATGTTTG
**
3108589 TTTTTTATTTTATATTTTCCATGTTT
1 TTTTGCATTTTATATTTTCCATGTTT
3108615 TTACATTCGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 12 0.55
26 3 0.14
27 7 0.32
ACGTcount: A:0.16, C:0.08, G:0.08, T:0.69
Consensus pattern (27 bp):
TTTTGCATTTTATATTTTCCATGTTTG
Found at i:3112399 original size:62 final size:62
Alignment explanation
Indices: 3112302--3112427 Score: 252
Period size: 62 Copynumber: 2.0 Consensus size: 62
3112292 CATTTGTCTC
3112302 GGGGAATTTGATGAATGTGACACTGAAGATGAGTGTAACTTGCCTACCGAATTGGTGAGAAT
1 GGGGAATTTGATGAATGTGACACTGAAGATGAGTGTAACTTGCCTACCGAATTGGTGAGAAT
3112364 GGGGAATTTGATGAATGTGACACTGAAGATGAGTGTAACTTGCCTACCGAATTGGTGAGAAT
1 GGGGAATTTGATGAATGTGACACTGAAGATGAGTGTAACTTGCCTACCGAATTGGTGAGAAT
3112426 GG
1 GG
3112428 TAGAAAGAGA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 64 1.00
ACGTcount: A:0.30, C:0.11, G:0.32, T:0.27
Consensus pattern (62 bp):
GGGGAATTTGATGAATGTGACACTGAAGATGAGTGTAACTTGCCTACCGAATTGGTGAGAAT
Found at i:3115763 original size:9 final size:8
Alignment explanation
Indices: 3115746--3115791 Score: 56
Period size: 8 Copynumber: 5.5 Consensus size: 8
3115736 TCCTAAGTTG
3115746 AAAAAAGA
1 AAAAAAGA
3115754 AAAAAGAGA
1 AAAAA-AGA
*
3115763 AAAAAAGG
1 AAAAAAGA
*
3115771 AAAAAACA
1 AAAAAAGA
3115779 AAAAAGAGA
1 AAAAA-AGA
3115788 AAAA
1 AAAA
3115792 CGTTTAGGGT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
8 18 0.56
9 14 0.44
ACGTcount: A:0.83, C:0.02, G:0.15, T:0.00
Consensus pattern (8 bp):
AAAAAAGA
Found at i:3115839 original size:6 final size:6
Alignment explanation
Indices: 3115828--3115879 Score: 52
Period size: 6 Copynumber: 8.0 Consensus size: 6
3115818 GCCCTAAATT
3115828 GAAAAA GAAAAA GAAAAAGA GAAAAA GAATAAAA GAAAAA -AGAAAA GAAAAA
1 GAAAAA GAAAAA G-AAAA-A GAAAAA G-A-AAAA GAAAAA GA-AAAA GAAAAA
3115880 TAAGGTAGGT
Statistics
Matches: 40, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
5 1 0.03
6 21 0.52
7 11 0.28
8 7 0.17
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (6 bp):
GAAAAA
Found at i:3115852 original size:8 final size:7
Alignment explanation
Indices: 3115829--3115873 Score: 58
Period size: 8 Copynumber: 6.4 Consensus size: 7
3115819 CCCTAAATTG
3115829 AAAAAG-
1 AAAAAGA
3115835 AAAAAG-
1 AAAAAGA
3115841 AAAAAGA
1 AAAAAGA
3115848 GAAAAAGA
1 -AAAAAGA
3115856 ATAAAAGA
1 A-AAAAGA
3115864 AAAAAGA
1 AAAAAGA
3115871 AAA
1 AAA
3115874 GAAAAATAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
6 12 0.33
7 10 0.28
8 14 0.39
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (7 bp):
AAAAAGA
Found at i:3115852 original size:14 final size:13
Alignment explanation
Indices: 3115829--3115879 Score: 68
Period size: 14 Copynumber: 3.8 Consensus size: 13
3115819 CCCTAAATTG
3115829 AAAAAGAAAAAGA
1 AAAAAGAAAAAGA
3115842 AAAAGAGAAAAAGA
1 AAAA-AGAAAAAGA
3115856 ATAAAAGAAAAA-A
1 A-AAAAGAAAAAGA
*
3115869 GAAAAGAAAAA
1 AAAAAGAAAAA
3115880 TAAGGTAGGT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
12 10 0.29
13 5 0.14
14 17 0.49
15 3 0.09
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (13 bp):
AAAAAGAAAAAGA
Found at i:3115882 original size:23 final size:22
Alignment explanation
Indices: 3115836--3115878 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
3115826 TTGAAAAAGA
*
3115836 AAAAGAAAAAGAGAAAAAGAAT
1 AAAAGAAAAAGAGAAAAAAAAT
3115858 AAAAGAAAAA-AGAAAAGAAAA
1 AAAAGAAAAAGAGAAAA-AAAA
3115879 ATAAGGTAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.02
Consensus pattern (22 bp):
AAAAGAAAAAGAGAAAAAAAAT
Found at i:3117161 original size:100 final size:104
Alignment explanation
Indices: 3116988--3117216 Score: 306
Period size: 100 Copynumber: 2.2 Consensus size: 104
3116978 GCTTCACAAT
*** *
3116988 TTCAGAGCCAATTTCAACTTCACGGTGAAGGATATTGGACCCAAGACAACACAAGCTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTAGACCCAAGACAACACAAGCTCAACTTCA
* *
3117053 CGATGAAGGGGTGGCTGATTGTCAA-AAA-AATTT-CA-
66 CGACGAAGGGGTGGCTGACTGTCAACAAACAATTTCCAG
* * *
3117088 TTCAGAGTCAATTTCAACTTCACAACGAAGGATATTAGACTCGAGACAACACAAGCTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTAGACCCAAGACAACACAAGCTCAACTTCA
3117153 C-AGCGAAGGGGTGGCTGACTGTCAACAAACAATTTCCCAG
66 CGA-CGAAGGGGTGGCTGACTGTCAACAAACAATTT-CCAG
*
3117193 TTCCAGAACCAATTTCAACTTCAC
1 TT-CAGAGCCAATTTCAACTTCAC
3117217 GGCGGAGGAT
Statistics
Matches: 111, Mismatches: 11, Indels: 8
0.85 0.08 0.06
Matches are distributed among these distances:
99 1 0.01
100 79 0.71
101 3 0.03
102 5 0.05
104 2 0.02
105 2 0.02
106 19 0.17
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (104 bp):
TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTAGACCCAAGACAACACAAGCTCAACTTCA
CGACGAAGGGGTGGCTGACTGTCAACAAACAATTTCCAG
Found at i:3117476 original size:150 final size:148
Alignment explanation
Indices: 3117202--3117486 Score: 367
Period size: 150 Copynumber: 1.9 Consensus size: 148
3117192 GTTCCAGAAC
* * * * * *
3117202 CAATTTCAACTTCACGGCGGAGGATATTGGTCTCGGAGCTATACAACTTACTTGGATTTCAACTT
1 CAATTTCAACTTCACAGCGGAGGATATTGGCCTCGAAACAACACAACTTACTTGGATTTCAACTT
* *
3117267 CACGACGAAGGATATCCAATTCCTAGGCTCAACTTCACGACGAATGGGCCACCCACGATTTCAAC
66 CACGACGAAGGATATCCAATTCCTAGGCTCAACTTCACGACGAATGGGCCACACACGATTCCAAC
3117332 TTCACGACAAAGGGAATT
131 TTCACGACAAAGGGAATT
* * * *
3117350 CAATTTCAACTTCATAGTGGAGGATATTGGCCTCGAAACAACGCAACTTACATTGGATTTTTAAC
1 CAATTTCAACTTCACAGCGGAGGATATTGGCCTCGAAACAACACAACTTAC-TTGGA-TTTCAAC
* * * **
3117415 TTCACGACGAATGATATCCAATT-CTCAGGCTCAACTTCATGACGAA-GAGGCCATATTCGATTC
64 TTCACGACGAAGGATATCCAATTCCT-AGGCTCAACTTCACGACGAATG-GGCCACACACGATTC
3117478 CAACTTCAC
127 CAACTTCAC
3117487 AAACAAGTTG
Statistics
Matches: 116, Mismatches: 17, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
148 42 0.36
149 8 0.07
150 66 0.57
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.27
Consensus pattern (148 bp):
CAATTTCAACTTCACAGCGGAGGATATTGGCCTCGAAACAACACAACTTACTTGGATTTCAACTT
CACGACGAAGGATATCCAATTCCTAGGCTCAACTTCACGACGAATGGGCCACACACGATTCCAAC
TTCACGACAAAGGGAATT
Found at i:3124366 original size:2 final size:2
Alignment explanation
Indices: 3124359--3124385 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3124349 GTTTAAACAT
3124359 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
3124386 GAAGGTTGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3125490 original size:24 final size:25
Alignment explanation
Indices: 3125456--3125506 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 25
3125446 ACTTAATTAA
*
3125456 TTTTATATTCATTTGTTTAG-GTTTG
1 TTTTATATTCATTCGTTT-GTGTTTG
3125481 TTTT-TATTCATTCGTTTGTGTTTG
1 TTTTATATTCATTCGTTTGTGTTTG
3125505 TT
1 TT
3125507 CGTTTACGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 1 0.04
24 19 0.79
25 4 0.17
ACGTcount: A:0.12, C:0.06, G:0.16, T:0.67
Consensus pattern (25 bp):
TTTTATATTCATTCGTTTGTGTTTG
Found at i:3125508 original size:14 final size:14
Alignment explanation
Indices: 3125491--3125529 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
3125481 TTTTTATTCA
3125491 TTCGTTTGTGTTTG
1 TTCGTTTGTGTTTG
**
3125505 TTCGTTTACGTTTG
1 TTCGTTTGTGTTTG
*
3125519 TTCATTTGTGT
1 TTCGTTTGTGT
3125530 CAGTTTATCA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.05, C:0.10, G:0.23, T:0.62
Consensus pattern (14 bp):
TTCGTTTGTGTTTG
Found at i:3125918 original size:23 final size:22
Alignment explanation
Indices: 3125874--3125970 Score: 79
Period size: 23 Copynumber: 4.2 Consensus size: 22
3125864 ATATATTTAA
* *
3125874 TTAATAAAATACAATTTTTAAATAT
1 TTAATAATATA-AA-TTATAAAT-T
*
3125899 TTAATAATATAAATTATAAATA
1 TTAATAATATAAATTATAAATT
* *
3125921 TAAAGTTATATAAATT-TAAATT
1 TTAA-TAATATAAATTATAAATT
*
3125943 TTAAAATAATATTAATTATAAATT
1 TT--AATAATATAAATTATAAATT
3125967 TTAA
1 TTAA
3125971 AAATGAAATT
Statistics
Matches: 59, Mismatches: 9, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
22 11 0.19
23 26 0.44
24 12 0.20
25 10 0.17
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (22 bp):
TTAATAATATAAATTATAAATT
Found at i:3126613 original size:17 final size:17
Alignment explanation
Indices: 3126585--3126625 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
3126575 TAGTTGAAAG
*
3126585 TTATCTTTGAACAAATA
1 TTATCTTAGAACAAATA
* *
3126602 TTGTCTTAGAACATATA
1 TTATCTTAGAACAAATA
3126619 TTATCTT
1 TTATCTT
3126626 GTACTTATCA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.34, C:0.12, G:0.07, T:0.46
Consensus pattern (17 bp):
TTATCTTAGAACAAATA
Found at i:3129694 original size:21 final size:21
Alignment explanation
Indices: 3129670--3129709 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
3129660 AATCATAATA
3129670 TTGAACAGTTAAAAGATTCGG
1 TTGAACAGTTAAAAGATTCGG
3129691 TTGAACAGTTAAAAGATTC
1 TTGAACAGTTAAAAGATTC
3129710 AGTAAAACAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.10, G:0.20, T:0.30
Consensus pattern (21 bp):
TTGAACAGTTAAAAGATTCGG
Found at i:3129718 original size:21 final size:21
Alignment explanation
Indices: 3129673--3129720 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
3129663 CATAATATTG
* **
3129673 AACAGTTAAAAGATTCGGTTG
1 AACAGTTAAAAGATTCAGTAA
3129694 AACAGTTAAAAGATTCAGTAA
1 AACAGTTAAAAGATTCAGTAA
3129715 AACAGT
1 AACAGT
3129721 AACTTCAGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.46, C:0.10, G:0.19, T:0.25
Consensus pattern (21 bp):
AACAGTTAAAAGATTCAGTAA
Found at i:3130564 original size:27 final size:27
Alignment explanation
Indices: 3130526--3130591 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
3130516 ATGAAGATAT
* *
3130526 TTTTAATCATTTT-ACACTTCAGGAGTA
1 TTTTAGTCATTTTGACACTTAAGG-GTA
***
3130553 TTTTAGTCATTTTGAGGTTTAAGGGTA
1 TTTTAGTCATTTTGACACTTAAGGGTA
3130580 TTTTAGTCATTT
1 TTTTAGTCATTT
3130592 CCTTCAGTCT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
27 27 0.82
28 6 0.18
ACGTcount: A:0.24, C:0.09, G:0.17, T:0.50
Consensus pattern (27 bp):
TTTTAGTCATTTTGACACTTAAGGGTA
Found at i:3131404 original size:17 final size:17
Alignment explanation
Indices: 3131382--3131424 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
3131372 ACTTAAAATA
3131382 TGACTTTTTAAAATTTT
1 TGACTTTTTAAAATTTT
* *
3131399 TGACTTTTCAAATTTTT
1 TGACTTTTTAAAATTTT
3131416 TGACTTTTT
1 TGACTTTTT
3131425 GGGTCAAAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.23, C:0.09, G:0.07, T:0.60
Consensus pattern (17 bp):
TGACTTTTTAAAATTTT
Found at i:3135602 original size:27 final size:28
Alignment explanation
Indices: 3135547--3135606 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 28
3135537 TGCATGAAGA
*
3135547 TATTTTGGATCATTTTACACTTCAGGGG
1 TATTTTGGATCATTTTACACTTCAAGGG
** *
3135575 TATTTTGG-TCATTTTACGGTTTAAGGG
1 TATTTTGGATCATTTTACACTTCAAGGG
3135602 TATTT
1 TATTT
3135607 CAATCCTTCC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 20 0.71
28 8 0.29
ACGTcount: A:0.20, C:0.10, G:0.22, T:0.48
Consensus pattern (28 bp):
TATTTTGGATCATTTTACACTTCAAGGG
Found at i:3139929 original size:21 final size:22
Alignment explanation
Indices: 3139900--3139942 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
3139890 TTAGGATAAA
*
3139900 TGGGAATAGGAATAGGATTTGG
1 TGGGAATAGGAAGAGGATTTGG
*
3139922 TGGG-ATAGGAGGAGGATTTGG
1 TGGGAATAGGAAGAGGATTTGG
3139943 AGGAGGGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.28, C:0.00, G:0.47, T:0.26
Consensus pattern (22 bp):
TGGGAATAGGAAGAGGATTTGG
Found at i:3140630 original size:21 final size:21
Alignment explanation
Indices: 3140606--3140671 Score: 78
Period size: 21 Copynumber: 3.1 Consensus size: 21
3140596 ATATCCAGAA
*
3140606 CCCTTGGGGGGGTATCGATTC
1 CCCTTAGGGGGGTATCGATTC
* * *
3140627 CCCTAAGGGGGGAATCGGTTC
1 CCCTTAGGGGGGTATCGATTC
*
3140648 CCCTTCATGGGGGTATCGATTC
1 CCCTT-AGGGGGGTATCGATTC
3140670 CC
1 CC
3140672 TCTGCCCTAT
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
21 21 0.58
22 15 0.42
ACGTcount: A:0.14, C:0.27, G:0.33, T:0.26
Consensus pattern (21 bp):
CCCTTAGGGGGGTATCGATTC
Found at i:3151716 original size:23 final size:23
Alignment explanation
Indices: 3151674--3151780 Score: 68
Period size: 23 Copynumber: 4.9 Consensus size: 23
3151664 AAAATACTCA
* *
3151674 ATTATATTATAATAAT-ATAAGAT
1 ATTATATTATATTATTAATAA-AT
3151697 ATTATATTATATT-TTAAT-AAT
1 ATTATATTATATTATTAATAAAT
* *
3151718 A-TATAATAAATTATTAATAAA-
1 ATTATATTATATTATTAATAAAT
* **
3151739 ATTTATATTATTTTAGAAAT-AAT
1 A-TTATATTATATTATTAATAAAT
*
3151762 A-T-TATTAAATTATTAATAA
1 ATTATATTATATTATTAATAA
3151781 CGAATAATAT
Statistics
Matches: 64, Mismatches: 13, Indels: 16
0.69 0.14 0.17
Matches are distributed among these distances:
20 20 0.31
21 11 0.17
22 6 0.09
23 27 0.42
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (23 bp):
ATTATATTATATTATTAATAAAT
Found at i:3151791 original size:44 final size:44
Alignment explanation
Indices: 3151712--3151795 Score: 118
Period size: 44 Copynumber: 1.9 Consensus size: 44
3151702 ATTATATTTT
*
3151712 AATAATATATAATAAATTATTAATAAAATTTATATTATTTTAGA
1 AATAATATATAATAAATTATTAATAAAATTAATATTATTTTAGA
*
3151756 AATAATAT-TATTAAATTATTAATAACGAA-TAATATTATTT
1 AATAATATATAATAAATTATTAATAA--AATTAATATTATTT
3151796 ATGTATTTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
43 16 0.44
44 18 0.50
45 2 0.06
ACGTcount: A:0.51, C:0.01, G:0.02, T:0.45
Consensus pattern (44 bp):
AATAATATATAATAAATTATTAATAAAATTAATATTATTTTAGA
Found at i:3151858 original size:23 final size:22
Alignment explanation
Indices: 3151826--3151876 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
3151816 ATAAACTAAT
*
3151826 AATATTTTAA-TAATGATATTTAA
1 AATATATTAATTAAT-AT-TTTAA
3151849 AATATATTAATTAATATTTTAA
1 AATATATTAATTAATATTTTAA
3151871 AATATA
1 AATATA
3151877 ATCTAATACT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 11 0.42
23 11 0.42
24 4 0.15
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (22 bp):
AATATATTAATTAATATTTTAA
Found at i:3151996 original size:14 final size:14
Alignment explanation
Indices: 3151950--3151997 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
3151940 GTATTAATAT
*
3151950 TAATATTTTAATTAA
1 TAATATTTTAA-AAA
* * *
3151965 TAAAATTATAGAAA
1 TAATATTTTAAAAA
3151979 TAATATTTTAAAAA
1 TAATATTTTAAAAA
3151993 TAATA
1 TAATA
3151998 ATATTAAGTT
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
14 18 0.69
15 8 0.31
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (14 bp):
TAATATTTTAAAAA
Found at i:3152134 original size:14 final size:15
Alignment explanation
Indices: 3152115--3152149 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
3152105 CAAACACCAT
3152115 AAAATGTTTTTC-AG
1 AAAATGTTTTTCTAG
3152129 AAAATG-TTTTCTAG
1 AAAATGTTTTTCTAG
3152143 AAAATGT
1 AAAATGT
3152150 AATTAATTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 5 0.26
14 14 0.74
ACGTcount: A:0.40, C:0.06, G:0.14, T:0.40
Consensus pattern (15 bp):
AAAATGTTTTTCTAG
Found at i:3153084 original size:42 final size:42
Alignment explanation
Indices: 3153037--3153274 Score: 210
Period size: 42 Copynumber: 5.7 Consensus size: 42
3153027 AAAGATCCGT
*
3153037 ACCTTAGTGGCATTTGTTA-TAAAATCGCCGCAATAGAGGCGA
1 ACCTTAGTGGCGTTTGTTATTAAAA-CGCCGCAATAGAGGCGA
* * ** * * * *
3153079 ACCTTAGTGGCGTTTATCACAAAAATGCCGCTATAGA-TCCA
1 ACCTTAGTGGCGTTTGTTATTAAAACGCCGCAATAGAGGCGA
3153120 TACCTTAGTGGCGTTTGTTATTAAAACGCCGCAATAGAGGCGA
1 -ACCTTAGTGGCGTTTGTTATTAAAACGCCGCAATAGAGGCGA
* * * ** *
3153163 ACCTTAGTGGCGTTTGGTATTAAAACACCGCAATATATTCGT
1 ACCTTAGTGGCGTTTGTTATTAAAACGCCGCAATAGAGGCGA
* * * * * * * *
3153205 ACCTTAGTGGTGTTTGTTGTTGAAACACCACAGTAGAGGTGC
1 ACCTTAGTGGCGTTTGTTATTAAAACGCCGCAATAGAGGCGA
* * *
3153247 ACGTTAGTAGCGTTTGTTATTACAACGC
1 ACCTTAGTGGCGTTTGTTATTAAAACGC
3153275 GGCCTTGGGA
Statistics
Matches: 153, Mismatches: 40, Indels: 6
0.77 0.20 0.03
Matches are distributed among these distances:
41 2 0.01
42 145 0.95
43 6 0.04
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (42 bp):
ACCTTAGTGGCGTTTGTTATTAAAACGCCGCAATAGAGGCGA
Found at i:3153208 original size:84 final size:84
Alignment explanation
Indices: 3153029--3153268 Score: 259
Period size: 84 Copynumber: 2.9 Consensus size: 84
3153019 ACGTCGTTAA
*
3153029 AGATCCGTACCTTAGTGGCATTTGTTA-TAAAATCGCCGCAATAGAGGCGAACCTTAGTGGCGTT
1 AGATCCGTACCTTAGTGGCGTTTGTTATTAAAA-CGCCGCAATAGAGGCGAACCTTAGTGGCGTT
** ** *
3153093 T-ATCACAAAAATGCCGCTAT
65 TGAT-ATTAAAACACCGCAAT
*
3153113 AGATCCATACCTTAGTGGCGTTTGTTATTAAAACGCCGCAATAGAGGCGAACCTTAGTGGCGTTT
1 AGATCCGTACCTTAGTGGCGTTTGTTATTAAAACGCCGCAATAGAGGCGAACCTTAGTGGCGTTT
*
3153178 GGTATTAAAACACCGCAAT
66 GATATTAAAACACCGCAAT
* * * * * * * * * * * *
3153197 ATATTCGTACCTTAGTGGTGTTTGTTGTTGAAACACCACAGTAGAGGTGCACGTTAGTAGCGTTT
1 AGATCCGTACCTTAGTGGCGTTTGTTATTAAAACGCCGCAATAGAGGCGAACCTTAGTGGCGTTT
*
3153262 GTTATTA
66 GATATTA
3153269 CAACGCGGCC
Statistics
Matches: 132, Mismatches: 22, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
84 126 0.95
85 6 0.05
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (84 bp):
AGATCCGTACCTTAGTGGCGTTTGTTATTAAAACGCCGCAATAGAGGCGAACCTTAGTGGCGTTT
GATATTAAAACACCGCAAT
Found at i:3153421 original size:21 final size:21
Alignment explanation
Indices: 3153379--3153426 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
3153369 TCGGCACGCT
* *
3153379 AGTCACCACCGTCGCGCCGCC
1 AGTCACCACCGTCACACCGCC
* *
3153400 AGTCACCACCTTCACACTGCC
1 AGTCACCACCGTCACACCGCC
3153421 AGTCAC
1 AGTCAC
3153427 TCCTCAAAGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.21, C:0.48, G:0.17, T:0.15
Consensus pattern (21 bp):
AGTCACCACCGTCACACCGCC
Found at i:3158767 original size:20 final size:20
Alignment explanation
Indices: 3158718--3158768 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
3158708 TATTGTTCAT
* * * *
3158718 TACTGTTCACACAGTATCGA
1 TACTATTCATACAATATCAA
3158738 TACTATTCATACAATATCAA
1 TACTATTCATACAATATCAA
3158758 TACTATTCATA
1 TACTATTCATA
3158769 AAAAAATATT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.37, C:0.22, G:0.06, T:0.35
Consensus pattern (20 bp):
TACTATTCATACAATATCAA
Found at i:3161496 original size:20 final size:20
Alignment explanation
Indices: 3161468--3161516 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
3161458 TACTGTTCAT
* *
3161468 TACTGTTCACACAGTATCGG
1 TACTATTCACACAATATCGG
*
3161488 TACTATTCATACAATATCGG
1 TACTATTCACACAATATCGG
*
3161508 CACTATTCA
1 TACTATTCA
3161517 TAAAAAAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.12, T:0.33
Consensus pattern (20 bp):
TACTATTCACACAATATCGG
Found at i:3162716 original size:22 final size:21
Alignment explanation
Indices: 3162687--3162727 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
3162677 TCGAATATAT
3162687 ATATTACTAGTATTGTTGTCG
1 ATATTACTAGTATTGTTGTCG
*
3162708 ATATCTACTATTATTGTTGT
1 ATAT-TACTAGTATTGTTGT
3162728 TTGTTTATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.24, C:0.10, G:0.15, T:0.51
Consensus pattern (21 bp):
ATATTACTAGTATTGTTGTCG
Found at i:3164544 original size:117 final size:117
Alignment explanation
Indices: 3164245--3164546 Score: 430
Period size: 117 Copynumber: 2.6 Consensus size: 117
3164235 TTTTATATAT
* * **
3164245 TTCCCC-GAAACATACACCCACCTGCACAACAGTAAGGACTTACCCTAAGCACGA-AGTTGAGGA
1 TTCCCCAGAACCATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCAC-ACAGTAAAGGA
* *
3164308 GCCTGCAGTAATAACGTCTCCATCCAGTCGCTTCCATAACTACAATGTGTAGG
65 GCCTGCAGTAATAACGTCCCCATCCAGTCACTTCCATAACTACAATGTGTAGG
* * ** *
3164361 TTCCCCAGTACCATACTCCCACCTGCACACCAGTAAGGACTTACCCTAAGCACACAACAAAAGAG
1 TTCCCCAGAACCATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCACACAGTAAAGGAG
* * *
3164426 CCTGCAGTAATAACTTCCCCATCCAGTCAC-TCCAATCACTATAATGTGTAGG
66 CCTGCAGTAATAACGTCCCCATCCAGTCACTTCC-ATAACTACAATGTGTAGG
*
3164478 TTCCCCAGAACCATACACCCACCTGCACACCAGTAAGGACTTACCCTGAGCACACAGTAAAGGAG
1 TTCCCCAGAACCATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCACACAGTAAAGGAG
3164543 CCTG
66 CCTG
3164547 AAATACTTCC
Statistics
Matches: 163, Mismatches: 20, Indels: 5
0.87 0.11 0.03
Matches are distributed among these distances:
116 10 0.06
117 153 0.94
ACGTcount: A:0.32, C:0.33, G:0.16, T:0.19
Consensus pattern (117 bp):
TTCCCCAGAACCATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCACACAGTAAAGGAG
CCTGCAGTAATAACGTCCCCATCCAGTCACTTCCATAACTACAATGTGTAGG
Found at i:3170907 original size:117 final size:117
Alignment explanation
Indices: 3170725--3171026 Score: 423
Period size: 117 Copynumber: 2.6 Consensus size: 117
3170715 TTTTATATAT
* **
3170725 TTCCCC-GAAACATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCACGA-AGCTGAGGA
1 TTCCCCAGAACCATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCAC-ACAGCAAAGGA
*
3170788 GCCTGCAGTAATAACGTCTCC-ATCCAGTCGCTTCC-ATAACTACAATATGTAGG
65 GCCTGCAGTAATAACGTC-CCTATCCAGTCAC-TCCAATAACTACAATATGTAGG
* * * *
3170841 TTCCCCAGTACCATACACCCACCTACACACCAATAAGGACTTACCCTAAGCACACAGCAAAAGAG
1 TTCCCCAGAACCATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCACACAGCAAAGGAG
* * * *
3170906 CCTGCAGTAATAACTTCCCTATCCAGTCACTCCAATCACTATAATGTGTAGG
66 CCTGCAGTAATAACGTCCCTATCCAGTCACTCCAATAACTACAATATGTAGG
* *
3170958 TTCCCTAGAACCATACACCCACCTGCACACCAGTAAGGACTTACCCTGAGCACACAGCAAAGGAG
1 TTCCCCAGAACCATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCACACAGCAAAGGAG
3171023 CCTG
66 CCTG
3171027 AAATACTTCC
Statistics
Matches: 164, Mismatches: 18, Indels: 7
0.87 0.10 0.04
Matches are distributed among these distances:
116 12 0.07
117 152 0.93
ACGTcount: A:0.32, C:0.33, G:0.15, T:0.19
Consensus pattern (117 bp):
TTCCCCAGAACCATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCACACAGCAAAGGAG
CCTGCAGTAATAACGTCCCTATCCAGTCACTCCAATAACTACAATATGTAGG
Found at i:3172570 original size:21 final size:21
Alignment explanation
Indices: 3172546--3172591 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
3172536 AGCCGAAGAT
3172546 GAAGCAAA-AGAAGTAGCGAGA
1 GAAGCAAAGAG-AGTAGCGAGA
3172567 GAAGCAAAGAGAGTAGCGAGA
1 GAAGCAAAGAGAGTAGCGAGA
3172588 GAAG
1 GAAG
3172592 TATCATTTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 22 0.92
22 2 0.08
ACGTcount: A:0.50, C:0.09, G:0.37, T:0.04
Consensus pattern (21 bp):
GAAGCAAAGAGAGTAGCGAGA
Found at i:3180199 original size:43 final size:43
Alignment explanation
Indices: 3180130--3180218 Score: 106
Period size: 43 Copynumber: 2.1 Consensus size: 43
3180120 CTCAGTTTTC
* * * *
3180130 TTGTTTTACTGTTTTATGCATGCTTTCTTTTGTCTTATCTTCT
1 TTGTTTTACTGTTTGATGCATGCTTTCTCTTGCCATATCTTCT
* * * *
3180173 TTGTTTTATTGTTTGATGCTTTCTTTCTCTTGCCATGTCTTCT
1 TTGTTTTACTGTTTGATGCATGCTTTCTCTTGCCATATCTTCT
3180216 TTG
1 TTG
3180219 CATTGAAACT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.08, C:0.17, G:0.13, T:0.62
Consensus pattern (43 bp):
TTGTTTTACTGTTTGATGCATGCTTTCTCTTGCCATATCTTCT
Found at i:3185708 original size:17 final size:16
Alignment explanation
Indices: 3185666--3185716 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
3185656 TGAACATAGG
3185666 GAATGACATGAATATGT
1 GAAT-ACATGAATATGT
* *
3185683 -AATAGATGAACTATTT
1 GAATACATGAA-TATGT
*
3185699 GAATACATGAATGTGT
1 GAATACATGAATATGT
3185715 GA
1 GA
3185717 TAAATCATAT
Statistics
Matches: 27, Mismatches: 5, Indels: 5
0.73 0.14 0.14
Matches are distributed among these distances:
15 6 0.22
16 12 0.44
17 9 0.33
ACGTcount: A:0.41, C:0.06, G:0.22, T:0.31
Consensus pattern (16 bp):
GAATACATGAATATGT
Found at i:3186036 original size:18 final size:18
Alignment explanation
Indices: 3185989--3186041 Score: 88
Period size: 18 Copynumber: 2.9 Consensus size: 18
3185979 GAGGGTTATA
* *
3185989 AGTGGTCCTTCAGAACAT
1 AGTGGTCCTTCGGGACAT
3186007 AGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
3186025 AGTGGTCCTTCGGGACA
1 AGTGGTCCTTCGGGACA
3186042 AATTCTAAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.21, C:0.23, G:0.30, T:0.26
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:3186345 original size:11 final size:12
Alignment explanation
Indices: 3186321--3186365 Score: 56
Period size: 11 Copynumber: 3.8 Consensus size: 12
3186311 ATAAAGTTGC
3186321 TTATATGAATTG
1 TTATATGAATTG
3186333 TTATATG-ATTG
1 TTATATGAATTG
* *
3186344 TTATATTATATTA
1 TTATATGA-ATTG
3186357 TTATATGAA
1 TTATATGAA
3186366 ATGTGAATTG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
11 10 0.36
12 8 0.29
13 10 0.36
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (12 bp):
TTATATGAATTG
Found at i:3187648 original size:419 final size:414
Alignment explanation
Indices: 3186852--3187690 Score: 1290
Period size: 419 Copynumber: 2.0 Consensus size: 414
3186842 GGTCCTCCTG
* * *
3186852 ATGCTAAGTCTGCTAGCCTATTGTCGGATAGTATCTGAAAAGTTAAAAAATAAAGAATGAGCTAA
1 ATGCCAAGTCCGCTAGCCTATTGTCGGATAGTATCTGAAAAGTTAAAAAATAAAGAATAAGCTAA
3186917 AAAGTCCAGTGTGCTCCTTGCGGTGTATAAAAATATACATATAAAATAGTTTAGTAAAAATTTAT
66 AAAGTCCAGTGTGCTCCTTGCGGTGTATAAAAATATACATATAAAATAGTTTAGTAAAAATTTAT
* * * ** *
3186982 TTGTAAAACATGATTTTTAAAACATGAACACTACTCCGGTCCAAACACCAGAATGTGCAGGTTCC
131 TTATAAAACATCATTTTTAAAACATGAACACTACCCCCATCCAAACAACAGAATGTGCAGGTTCC
* *
3187047 CCTGAACCATACACCCACCTATACTCCCGGTAAGGACCTTATACTGATAGCATAAGGGCATGCGG
196 CCTGAACCATACACCCACCTATACTCCCAGTAAGGACCTTATACTGATAACATAAGGGCATGCGG
* * * *
3187112 TAAGGTCTTAGCCAATGAACAAAGAAGAGGAGCCTGCGGTAAGGTCTTATAAGTCACAGACTAGG
261 TAAGGTCTTAGCCAATGAACAAAGAAGAGGAGCATGCAGTAAGGTCTTACAAGACACAGACTAGG
3187177 CCTGAGATACTTCCTCCAATCATATCCCCCAATGATAGTAAATATACATGAATTTGAGTGAAAAC
326 CCTGAGATACTTCCTCCAATCATATCCCCCAATGATAGTAAATATACATGAATTTGAGTGAAAAC
3187242 AATAATTTAATTTAATAAAACATTAAAAC
391 ---AA--TAATTTAATAAAACATTAAAAC
* *
3187271 ATGCCAAGTCCGCTAGCCTATTGTCGGATTGTATCTGAAAAGTTAAAAATTAAAGAATAAGCTAA
1 ATGCCAAGTCCGCTAGCCTATTGTCGGATAGTATCTGAAAAGTTAAAAAATAAAGAATAAGCTAA
* * *
3187336 AAAG-CCTAGTGTGCTCCTTGTGGTGTATAAAAATGTACATATAAAATA-TTTCAGTAAAATTTT
66 AAAGTCC-AGTGTGCTCCTTGCGGTGTATAAAAATATACATATAAAATAGTTT-AGTAAAAATTT
* *
3187399 ATTTATAAAACATCATTTTTAAAACATGAACACTACCCCCCATCCAAACAACATAATGTGTAGGT
129 ATTTATAAAACATCATTTTTAAAACATGAACACTA-CCCCCATCCAAACAACAGAATGTGCAGGT
*
3187464 TCCCCTGAACCATACACCCACCTATA-TGCCCAGTAAGGACCTTATACTGATAACATAAGGGCCT
193 TCCCCTGAACCATACACCCACCTATACT-CCCAGTAAGGACCTTATACTGATAACATAAGGGCAT
* * *
3187528 GCGGTAAGGTCTTAGCCAATGCACAAAGCAGAGGAGCATGCAGTAAGGTCTTACAAGACATAGAC
257 GCGGTAAGGTCTTAGCCAATGAACAAAGAAGAGGAGCATGCAGTAAGGTCTTACAAGACACAGAC
* * * * *
3187593 TAGGCCTGAGATATTTCTTCCAATTATA-CCCCCATTGATAGTAAATATGCATGAATTTGAGTGA
322 TAGGCCTGAGATACTTCCTCCAATCATATCCCCCAATGATAGTAAATATACATGAATTTGAGTGA
3187657 AAACAATAATTTAATAAAACATTAAAAC
387 AAACAATAATTTAATAAAACATTAAAAC
3187685 ATGCCA
1 ATGCCA
3187691 TTTTTCATAA
Statistics
Matches: 385, Mismatches: 31, Indels: 13
0.90 0.07 0.03
Matches are distributed among these distances:
414 28 0.07
416 2 0.01
418 5 0.01
419 185 0.48
420 165 0.43
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.27
Consensus pattern (414 bp):
ATGCCAAGTCCGCTAGCCTATTGTCGGATAGTATCTGAAAAGTTAAAAAATAAAGAATAAGCTAA
AAAGTCCAGTGTGCTCCTTGCGGTGTATAAAAATATACATATAAAATAGTTTAGTAAAAATTTAT
TTATAAAACATCATTTTTAAAACATGAACACTACCCCCATCCAAACAACAGAATGTGCAGGTTCC
CCTGAACCATACACCCACCTATACTCCCAGTAAGGACCTTATACTGATAACATAAGGGCATGCGG
TAAGGTCTTAGCCAATGAACAAAGAAGAGGAGCATGCAGTAAGGTCTTACAAGACACAGACTAGG
CCTGAGATACTTCCTCCAATCATATCCCCCAATGATAGTAAATATACATGAATTTGAGTGAAAAC
AATAATTTAATAAAACATTAAAAC
Found at i:3190388 original size:32 final size:30
Alignment explanation
Indices: 3190313--3190388 Score: 80
Period size: 32 Copynumber: 2.4 Consensus size: 30
3190303 ACCTGCGAAC
*
3190313 AACATGAACCCGAATTGAACCGAAAATATG
1 AACATGAACCCGAACTGAACCGAAAATATG
* * **
3190343 ATACTTGAACCCGAACTGCATCCGACTGATATG
1 A-ACATGAACCCGAACTG-AACCGA-AAATATG
3190376 AACATGAACCCGA
1 AACATGAACCCGA
3190389 GGTTGACCTG
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
30 1 0.03
31 14 0.38
32 16 0.43
33 6 0.16
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.18
Consensus pattern (30 bp):
AACATGAACCCGAACTGAACCGAAAATATG
Found at i:3190436 original size:16 final size:16
Alignment explanation
Indices: 3190415--3190457 Score: 77
Period size: 16 Copynumber: 2.7 Consensus size: 16
3190405 AACTGGTATT
3190415 ACCCGACCTGTTTTTA
1 ACCCGACCTGTTTTTA
3190431 ACCCGACCTGTTTTTA
1 ACCCGACCTGTTTTTA
*
3190447 ACCTGACCTGT
1 ACCCGACCTGT
3190458 AAATGATCCG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.19, C:0.33, G:0.14, T:0.35
Consensus pattern (16 bp):
ACCCGACCTGTTTTTA
Found at i:3190669 original size:13 final size:13
Alignment explanation
Indices: 3190653--3190679 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3190643 GACTTATAAT
3190653 ATAAAATTATTTA
1 ATAAAATTATTTA
3190666 ATAAAATTATTTA
1 ATAAAATTATTTA
3190679 A
1 A
3190680 ATGTAAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATAAAATTATTTA
Found at i:3190747 original size:23 final size:23
Alignment explanation
Indices: 3190720--3190763 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
3190710 TCAAAGGAAA
3190720 ATATAGTTTAATTTATATAAATT
1 ATATAGTTTAATTTATATAAATT
3190743 ATATAGTTTAATTTATATAAA
1 ATATAGTTTAATTTATATAAA
3190764 GAAAAAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (23 bp):
ATATAGTTTAATTTATATAAATT
Found at i:3194055 original size:102 final size:102
Alignment explanation
Indices: 3193876--3194087 Score: 370
Period size: 102 Copynumber: 2.1 Consensus size: 102
3193866 AATGAATAAC
*
3193876 CAACAGTAGCTACAAATTAAACAGTTTATTTAAACTGTAAATAAAGACATCTAACAACCTTATAA
1 CAACAGTAGCTACAAATTAAACAGTTTATTTAAACTGTAAATAAAGACAACTAACAACCTTATAA
*
3193941 AAGCAATCCGAATGAACAACCAACAACACAAACAAAT
66 AAACAATCCGAATGAACAACCAACAACACAAACAAAT
* * * *
3193978 CATCAGTAGCTACAAATTAAACAGTTTATTTAAACTTTAAATAAAGGCAACTAATAACCTTATAA
1 CAACAGTAGCTACAAATTAAACAGTTTATTTAAACTGTAAATAAAGACAACTAACAACCTTATAA
3194043 AAACAATCCGAATGAACAACCAACAACACAAACAAAT
66 AAACAATCCGAATGAACAACCAACAACACAAACAAAT
3194080 CAACAGTA
1 CAACAGTA
3194088 TAAACAAATC
Statistics
Matches: 103, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
102 103 1.00
ACGTcount: A:0.51, C:0.20, G:0.08, T:0.21
Consensus pattern (102 bp):
CAACAGTAGCTACAAATTAAACAGTTTATTTAAACTGTAAATAAAGACAACTAACAACCTTATAA
AAACAATCCGAATGAACAACCAACAACACAAACAAAT
Found at i:3194092 original size:17 final size:17
Alignment explanation
Indices: 3194072--3194104 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
3194062 CCAACAACAC
3194072 AAACAAATCAACAGTAT
1 AAACAAATCAACAGTAT
3194089 AAACAAATCAACAGTA
1 AAACAAATCAACAGTA
3194105 GCTACAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.61, C:0.18, G:0.06, T:0.15
Consensus pattern (17 bp):
AAACAAATCAACAGTAT
Found at i:3194474 original size:5 final size:6
Alignment explanation
Indices: 3194439--3194540 Score: 109
Period size: 6 Copynumber: 17.3 Consensus size: 6
3194429 CGGGTTCAGA
* *
3194439 TTTGAG TTTGGG TTTGGG TTTAGG TTTGGG -TTGGG TTTGGG TTTGGG
1 TTTGGG TTTGGG TTTGGG TTTGGG TTTGGG TTTGGG TTTGGG TTTGGG
** * * * *
3194486 TTT-AA TTAGGG TTTGGG TTTAGG TTAGGG TTTAGG TTTGGG TTTGGG
1 TTTGGG TTTGGG TTTGGG TTTGGG TTTGGG TTTGGG TTTGGG TTTGGG
*
3194533 TTTAGG TT
1 TTTGGG TT
3194541 CTAATTTAGG
Statistics
Matches: 78, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
5 7 0.09
6 71 0.91
ACGTcount: A:0.09, C:0.00, G:0.42, T:0.49
Consensus pattern (6 bp):
TTTGGG
Found at i:3194559 original size:6 final size:6
Alignment explanation
Indices: 3194444--3194559 Score: 62
Period size: 6 Copynumber: 19.5 Consensus size: 6
3194434 TCAGATTTGA
* * * * * *
3194444 GTTTGG GTTTGG GTTTAG GTTT-G GGTTGG GTTTGG GTTTGG GTTTA-
1 GTTTAG GTTTAG GTTTAG GTTTAG GTTTAG GTTTAG GTTTAG GTTTAG
* * * *
3194490 -ATTAGG GTTTGG GTTTAG G-TTAGG GTTTAG GTTTGG GTTTGG GTTTAG
1 GTTTA-G GTTTAG GTTTAG GTTTA-G GTTTAG GTTTAG GTTTAG GTTTAG
*
3194538 GTTCTA- ATTTAGG GTTTAG GTT
1 GTT-TAG GTTTA-G GTTTAG GTT
3194560 CAAGTTAAGG
Statistics
Matches: 89, Mismatches: 12, Indels: 18
0.75 0.10 0.15
Matches are distributed among these distances:
4 3 0.03
5 9 0.10
6 66 0.74
7 11 0.12
ACGTcount: A:0.10, C:0.01, G:0.41, T:0.48
Consensus pattern (6 bp):
GTTTAG
Found at i:3195275 original size:13 final size:12
Alignment explanation
Indices: 3195257--3195309 Score: 52
Period size: 13 Copynumber: 4.0 Consensus size: 12
3195247 ATAATTTTTA
3195257 TTAATTAACTATT
1 TTAATTAA-TATT
3195270 TTAATTAATATT
1 TTAATTAATATT
3195282 ATAATAATTATATATT
1 -T--TAATTA-ATATT
*
3195298 ATAATTAATATT
1 TTAATTAATATT
3195310 AATATTAATA
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
12 9 0.26
13 15 0.43
15 6 0.17
16 5 0.14
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (12 bp):
TTAATTAATATT
Found at i:3195310 original size:6 final size:6
Alignment explanation
Indices: 3195273--3195416 Score: 68
Period size: 6 Copynumber: 23.3 Consensus size: 6
3195263 AACTATTTTA
3195273 ATTAAT ATTATAAT AATTATAT ATT-AT AATTAAT ATTAAT ATTAAT A-T-A-
1 ATTAAT A-T-TAAT -ATTA-AT ATTAAT -ATTAAT ATTAAT ATTAAT ATTAAT
* * * *
3195322 ATTAAT ATTAAT ATTAA- CTT-AT ATTAAT ATAATAT AGTTTAT AATTTAT
1 ATTAAT ATTAAT ATTAAT ATTAAT ATTAAT ATTA-AT A-TTAAT -ATTAAT
* * * *
3195371 GATTAAT ATTAAT A-TAAC ATATAGT CTATAAC ATTAAT ATTAAT AT
1 -ATTAAT ATTAAT ATTAAT AT-TAAT AT-TAAT ATTAAT ATTAAT AT
3195417 AAACTATATG
Statistics
Matches: 107, Mismatches: 15, Indels: 32
0.69 0.10 0.21
Matches are distributed among these distances:
3 1 0.01
4 3 0.03
5 12 0.11
6 51 0.48
7 30 0.28
8 9 0.08
9 1 0.01
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (6 bp):
ATTAAT
Found at i:3195410 original size:31 final size:29
Alignment explanation
Indices: 3195372--3195552 Score: 143
Period size: 31 Copynumber: 5.7 Consensus size: 29
3195362 ATAATTTATG
3195372 ATTAATATTAATAT-AACATATAGTCTATAA
1 ATTAATATTAATATAAAC-TATAGT-TATAA
3195402 CATTAATATTAATATAAACTATATGTTATAA
1 -ATTAATATTAATATAAACTATA-GTTATAA
3195433 ATTATATAGTATAATTTATAAACTATAGTTAATATA
1 ATTA-ATA-T-TAA--TATAAACTATAGTT-ATA-A
3195469 ATTAATATTAATAT-AA-TATAGTTTATAAA
1 ATTAATATTAATATAAACTATAG-TTAT-AA
*
3195498 CTATATACTATATTAATATAAATTATAGTTAATATA
1 --AT-TA--ATATTAATATAAACTATAGTT-ATA-A
*
3195534 ATTAACATTAATATAAACT
1 ATTAATATTAATATAAACT
3195553 CTATAGTACA
Statistics
Matches: 128, Mismatches: 2, Indels: 40
0.75 0.01 0.24
Matches are distributed among these distances:
29 8 0.06
30 9 0.07
31 44 0.34
32 8 0.06
33 8 0.06
34 16 0.12
35 22 0.17
36 13 0.10
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (29 bp):
ATTAATATTAATATAAACTATAGTTATAA
Found at i:3195423 original size:24 final size:25
Alignment explanation
Indices: 3195378--3195424 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
3195368 TATGATTAAT
**
3195378 ATTAATATAACATATAGTCTATAAC
1 ATTAATATAACATATAAACTATAAC
*
3195403 ATTAATATTA-ATATAAACTATA
1 ATTAATATAACATATAAACTATA
3195425 TGTTATAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 10 0.53
25 9 0.47
ACGTcount: A:0.51, C:0.09, G:0.02, T:0.38
Consensus pattern (25 bp):
ATTAATATAACATATAAACTATAAC
Found at i:3195431 original size:131 final size:130
Alignment explanation
Indices: 3195271--3195557 Score: 308
Period size: 131 Copynumber: 2.2 Consensus size: 130
3195261 TTAACTATTT
* *
3195271 TAATTAATATT-ATA-ATAATTATATATTAT-AATTA-ATA-T-TAATATTAATATAATTAATA-
1 TAATTAATATTAATATA-AACTATATATTATAAATTATATAGTATAAT-TT-ATA-AACT-ATAG
* * **
3195329 TTAATATTAACTTATATTAATATAATATAGTTTATAATTTATGATTA-ATATTAATATAACA-TA
61 TTAATA-TAATTAATATTAATATAATATAGTTTATAAACTAT-A-TACATATTAATATAA-ATTA
3195392 TAGTCT-ATA
122 TAGT-TAATA
*
3195401 -ACATTAATATTAATATAAACTATATGTTATAAATTATATAGTATAATTTATAAACTATAGTTAA
1 TA-ATTAATATTAATATAAACTATATATTATAAATTATATAGTATAATTTATAAACTATAGTTAA
3195465 TATAATTAATATTAATATAATATAGTTTATAAACTATATACTATATTAATATAAATTATAGTTAA
65 TATAATTAATATTAATATAATATAGTTTATAAACTATATAC-ATATTAATATAAATTATAGTTAA
3195530 TA
129 TA
* *
3195532 TAATTAACATTAATATAAACTCTATA
1 TAATTAATATTAATATAAACTATATA
3195558 GTACATTAAT
Statistics
Matches: 134, Mismatches: 10, Indels: 25
0.79 0.06 0.15
Matches are distributed among these distances:
129 3 0.02
130 12 0.09
131 90 0.67
132 16 0.12
133 6 0.04
134 3 0.02
135 4 0.03
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (130 bp):
TAATTAATATTAATATAAACTATATATTATAAATTATATAGTATAATTTATAAACTATAGTTAAT
ATAATTAATATTAATATAATATAGTTTATAAACTATATACATATTAATATAAATTATAGTTAATA
Found at i:3195489 original size:29 final size:30
Alignment explanation
Indices: 3195456--3195549 Score: 100
Period size: 34 Copynumber: 3.0 Consensus size: 30
3195446 ATTTATAAAC
3195456 TATAGTTAATATAATTAATATTAATATAA-
1 TATAGTTAATATAATTAATATTAATATAAT
* *
3195485 TATAGTTTATAAACTATATACTATATTAATATAAAT
1 TATAGTTAATATA--AT-TA--ATATTAATAT-AAT
*
3195521 TATAGTTAATATAATTAACATTAATATAA
1 TATAGTTAATATAATTAATATTAATATAA
3195550 ACTCTATAGT
Statistics
Matches: 53, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
29 11 0.21
30 2 0.04
31 11 0.21
32 2 0.04
33 2 0.04
34 12 0.23
35 2 0.04
36 11 0.21
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (30 bp):
TATAGTTAATATAATTAATATTAATATAAT
Found at i:3195530 original size:65 final size:64
Alignment explanation
Indices: 3195271--3195549 Score: 242
Period size: 65 Copynumber: 4.3 Consensus size: 64
3195261 TTAACTATTT
* *
3195271 TAATTAATATT-ATAATAATTATA-TATTATAATTA-ATATTAATATTAATAT-AATTAATA-TT
1 TAATTAATATTAAT-ATAA-TATAGT-TTATAAATATATACT-ATATTAATATAAATT-ATAGTT
3195331 AATA
61 AATA
* *
3195335 TTAACTT-ATATTAATATAATATAGTTTAT-AATTTATGATTAATATTAATATAACA-TATAGTC
1 -TAA-TTAATATTAATATAATATAGTTTATAAATATAT-ACT-ATATTAATATAA-ATTATAGT-
3195397 T-ATA
60 TAATA
* *
3195401 -ACATTAATATTAATATAAACTATA-TGTTATAAATTATATAGTATAATT--TATAAACTATAGT
1 TA-ATTAATATTAATAT-AA-TATAGT-TTATAAA-TATATACTAT-ATTAATATAAATTATAGT
3195462 TAATA
60 TAATA
3195467 TAATTAATATTAATATAATATAGTTTATAAACTATATACTATATTAATATAAATTATAGTTAATA
1 TAATTAATATTAATATAATATAGTTTATAAA-TATATACTATATTAATATAAATTATAGTTAATA
*
3195532 TAATTAACATTAATATAA
1 TAATTAATATTAATATAA
3195550 ACTCTATAGT
Statistics
Matches: 183, Mismatches: 8, Indels: 46
0.77 0.03 0.19
Matches are distributed among these distances:
63 5 0.03
64 33 0.18
65 80 0.44
66 41 0.22
67 13 0.07
68 7 0.04
69 4 0.02
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.45
Consensus pattern (64 bp):
TAATTAATATTAATATAATATAGTTTATAAATATATACTATATTAATATAAATTATAGTTAATA
Found at i:3195578 original size:20 final size:21
Alignment explanation
Indices: 3195538--3195579 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
3195528 AATATAATTA
3195538 ACATTAATATAAACTCTATAGT
1 ACATTAATATAAAC-CTATAGT
3195560 ACATTAATATAAA-CTATAGT
1 ACATTAATATAAACCTATAGT
3195580 TTATAAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 7 0.35
22 13 0.65
ACGTcount: A:0.48, C:0.12, G:0.05, T:0.36
Consensus pattern (21 bp):
ACATTAATATAAACCTATAGT
Found at i:3195596 original size:21 final size:21
Alignment explanation
Indices: 3195567--3195619 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
3195557 AGTACATTAA
* *
3195567 TATAAACTATAGTTTATAAAT
1 TATAAACTATAGGTTATAAAG
*
3195588 TATATACTATAGGTTATAAAG
1 TATAAACTATAGGTTATAAAG
3195609 TATAAACTATA
1 TATAAACTATA
3195620 TATTACACTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.47, C:0.06, G:0.08, T:0.40
Consensus pattern (21 bp):
TATAAACTATAGGTTATAAAG
Found at i:3195689 original size:20 final size:21
Alignment explanation
Indices: 3195659--3195770 Score: 105
Period size: 20 Copynumber: 5.5 Consensus size: 21
3195649 AACTATAGGT
3195659 TACATAT--ATAGTTTATATA
1 TACATATACATAGTTTATATA
*
3195678 -ACATATAAATAGATTGTATATA
1 TACATATACATAG-TT-TATATA
*
3195700 TACATATACTATAG-GT-TATA
1 TACATATAC-ATAGTTTATATA
3195720 T--ATATACATAGTTTATATA
1 TACATATACATAGTTTATATA
*
3195739 TAC-TATACATAGTTTATACA
1 TACATATACATAGTTTATATA
3195759 TACATGATACAT
1 TACAT-ATACAT
3195771 GTACTATAAG
Statistics
Matches: 77, Mismatches: 4, Indels: 21
0.75 0.04 0.21
Matches are distributed among these distances:
17 4 0.05
18 13 0.17
19 5 0.06
20 28 0.36
21 4 0.05
22 12 0.16
23 7 0.09
24 4 0.05
ACGTcount: A:0.43, C:0.09, G:0.07, T:0.41
Consensus pattern (21 bp):
TACATATACATAGTTTATATA
Found at i:3195701 original size:24 final size:24
Alignment explanation
Indices: 3195672--3195729 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
3195662 ATATATAGTT
*
3195672 TATATA-ACATATA-AATAGATTG
1 TATATATACATATACAATAGATTA
* *
3195694 TATATATACATATACTATAGGTTA
1 TATATATACATATACAATAGATTA
3195718 TATATATACATA
1 TATATATACATA
3195730 GTTTATATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
22 6 0.19
23 7 0.23
24 18 0.58
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.40
Consensus pattern (24 bp):
TATATATACATATACAATAGATTA
Found at i:3195738 original size:15 final size:18
Alignment explanation
Indices: 3195698--3195745 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
3195688 AGATTGTATA
*
3195698 TATACATATACTATAGGT
1 TATATATATACTATAGGT
3195716 TATATATATAC-ATA-GT
1 TATATATATACTATAGGT
3195732 T-TATATATACTATA
1 TATATATATACTATA
3195746 CATAGTTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
15 9 0.32
16 6 0.21
17 3 0.11
18 10 0.36
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.44
Consensus pattern (18 bp):
TATATATATACTATAGGT
Found at i:3195873 original size:7 final size:7
Alignment explanation
Indices: 3195861--3195913 Score: 70
Period size: 7 Copynumber: 7.6 Consensus size: 7
3195851 TATGTATAGT
3195861 GTTTAGG
1 GTTTAGG
3195868 GTTTAGG
1 GTTTAGG
* *
3195875 GATTATG
1 GTTTAGG
*
3195882 ATTTAGG
1 GTTTAGG
3195889 GTTTAGG
1 GTTTAGG
3195896 GTTTAGG
1 GTTTAGG
*
3195903 GTTTAAG
1 GTTTAGG
3195910 GTTT
1 GTTT
3195914 TTATAAACTA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 39 1.00
ACGTcount: A:0.19, C:0.00, G:0.36, T:0.45
Consensus pattern (7 bp):
GTTTAGG
Found at i:3196004 original size:2 final size:2
Alignment explanation
Indices: 3195997--3196038 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
3195987 TTATATGGTT
3195997 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3196039 CACACTATAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3196308 original size:2 final size:2
Alignment explanation
Indices: 3196301--3196592 Score: 248
Period size: 2 Copynumber: 147.5 Consensus size: 2
3196291 TATTTCTTTA
3196301 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
3196343 AT AT AT AT AT AT AGT -T AT AC AT AC AT AT AT AT ACT AT AT A- AT
1 AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT A-T AT AT AT AT
* * * *
3196385 AT AA AT -T AT A- AT AT AT A- AT AT AA ACT AT AT AT -T TT TT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT
* * *
3196424 AGT TT AT AC AT AT AT AGT TT AT AT AT AT AT AT AT AT AT AT AT AT
1 A-T AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT
3196468 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT ACT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT
* * * * *
3196511 -T A- AT AT AA AT A- AT AT -T TT AT AA ACT AT AT AT -T TT CT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT
* * * * *
3196549 AGT TT AT AC AT AT AT AGT TT AT AC AT AT AT A- AT TT AT AT AT AT
1 A-T AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT
3196592 A
1 A
3196593 ATTCACATAA
Statistics
Matches: 237, Mismatches: 32, Indels: 42
0.76 0.10 0.14
Matches are distributed among these distances:
1 12 0.05
2 214 0.90
3 11 0.05
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3196537 original size:125 final size:129
Alignment explanation
Indices: 3196303--3196592 Score: 441
Period size: 125 Copynumber: 2.3 Consensus size: 129
3196293 TTTCTTTAAT
*
3196303 ATATATA-TATATATATATATATATATATATATATATATATATATATATATATAGTTATACATAC
1 ATATATAGTTTATATATATATATATATATATATATATATATATATATATATATAG-TATACATAC
*
3196367 ATATATATACTATATAATATAAATTATAATATATAATATAAACTATATATTTTTTATAGTTTATA
65 ATATATATACTATATAATATAAA-TATAATATATAATATAAACTATATATTTTCTATAGTTTATA
3196432 C
129 C
* *
3196433 ATATATAGTTTATATATATATATATATATATATATATATATATATATATATATA-TATATATATA
1 ATATATAGTTTATATATATATATATATATATATATATATATATATATATATATAGTATACATACA
*
3196497 TATATATACTATATTAATAT-AA-ATAATAT-T-TTATAAACTATATATTTTCTATAGTTTATAC
66 TATATATACTATA-TAATATAAATATAATATATAATATAAACTATATATTTTCTATAGTTTATAC
* *
3196558 ATATATAGTTTATACATATATA-ATTTATATATATA
1 ATATATAGTTTATATATATATATATATATATATATA
3196593 ATTCACATAA
Statistics
Matches: 151, Mismatches: 7, Indels: 10
0.90 0.04 0.06
Matches are distributed among these distances:
124 12 0.08
125 50 0.33
126 1 0.01
127 7 0.05
129 23 0.15
130 13 0.09
131 45 0.30
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (129 bp):
ATATATAGTTTATATATATATATATATATATATATATATATATATATATATATAGTATACATACA
TATATATACTATATAATATAAATATAATATATAATATAAACTATATATTTTCTATAGTTTATAC
Found at i:3196634 original size:18 final size:19
Alignment explanation
Indices: 3196613--3196692 Score: 65
Period size: 18 Copynumber: 3.9 Consensus size: 19
3196603 ACATAATTTA
3196613 TATATAGTTTATA-ATAAT
1 TATATAGTTTATACATAAT
*
3196631 TATATAGTTCACATAAACATAATTT
1 TATATAGTT----TATACATAA--T
3196656 ATATATAGTTTATA-ATAAT
1 -TATATAGTTTATACATAAT
*
3196675 TATATAGTTTATATATAA
1 TATATAGTTTATACATAA
3196693 ACTTATATTA
Statistics
Matches: 51, Mismatches: 2, Indels: 17
0.73 0.03 0.24
Matches are distributed among these distances:
18 22 0.43
19 5 0.10
21 4 0.08
22 6 0.12
23 4 0.08
25 1 0.02
26 9 0.18
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.46
Consensus pattern (19 bp):
TATATAGTTTATACATAAT
Found at i:3196699 original size:19 final size:20
Alignment explanation
Indices: 3196657--3196710 Score: 62
Period size: 18 Copynumber: 2.9 Consensus size: 20
3196647 ACATAATTTA
*
3196657 TATATAGTTTATA-AT-AAT
1 TATATAGTTTATATATAAAC
3196675 TATATAGTTTATATATAAAC
1 TATATAGTTTATATATAAAC
3196695 T-TATA-TTATATATATA
1 TATATAGTT-TATATATA
3196711 TATTATATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
18 15 0.47
19 14 0.44
20 3 0.09
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (20 bp):
TATATAGTTTATATATAAAC
Found at i:3196707 original size:46 final size:44
Alignment explanation
Indices: 3196587--3196683 Score: 185
Period size: 44 Copynumber: 2.2 Consensus size: 44
3196577 ATAATTTATA
*
3196587 TATATAATTCACATAAACATAATTTATATATAGTTTATAATAAT
1 TATATAGTTCACATAAACATAATTTATATATAGTTTATAATAAT
3196631 TATATAGTTCACATAAACATAATTTATATATAGTTTATAATAAT
1 TATATAGTTCACATAAACATAATTTATATATAGTTTATAATAAT
3196675 TATATAGTT
1 TATATAGTT
3196684 TATATATAAA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 52 1.00
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.44
Consensus pattern (44 bp):
TATATAGTTCACATAAACATAATTTATATATAGTTTATAATAAT
Found at i:3206953 original size:71 final size:70
Alignment explanation
Indices: 3206849--3206980 Score: 210
Period size: 71 Copynumber: 1.9 Consensus size: 70
3206839 TCATGAAGAC
* *
3206849 ATTTTCCTTTTTCATTTTCCTATGTCTTTCTCTTCATTATTTTCCCCTATTCAAGATGTTTCTGA
1 ATTTTCCCTTTTCATTTTCCTATGTCTTCCTCTTCATTATTTTCCCCTATTCAAGATGTTTCTGA
3206914 TTTAT
66 TTTAT
* * *
3206919 ATTTTCCCCTTTTCATTTTCCTATTTCTTCCTCTTCATTATTTTTCCCTGTTCAAGATGTTT
1 ATTTT-CCCTTTTCATTTTCCTATGTCTTCCTCTTCATTATTTTCCCCTATTCAAGATGTTT
3206981 TTGAATCAGA
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
70 5 0.09
71 51 0.91
ACGTcount: A:0.14, C:0.23, G:0.05, T:0.57
Consensus pattern (70 bp):
ATTTTCCCTTTTCATTTTCCTATGTCTTCCTCTTCATTATTTTCCCCTATTCAAGATGTTTCTGA
TTTAT
Found at i:3206994 original size:71 final size:71
Alignment explanation
Indices: 3206849--3206995 Score: 206
Period size: 71 Copynumber: 2.1 Consensus size: 71
3206839 TCATGAAGAC
* *
3206849 ATTTT-CCTTTTTCATTTTCCTATGTCTTTCTCTTCATTATTTTCCCCTATTCAAGATGTTTCTG
1 ATTTTCCCCTTTTCATTTTCCTATGTCTTCCTCTTCATTATTTTCCCCTATTCAAGATGTTTCTG
* * *
3206913 ATTTAT
66 AATCAG
* * * *
3206919 ATTTTCCCCTTTTCATTTTCCTATTTCTTCCTCTTCATTATTTTTCCCTGTTCAAGATGTTTTTG
1 ATTTTCCCCTTTTCATTTTCCTATGTCTTCCTCTTCATTATTTTCCCCTATTCAAGATGTTTCTG
3206984 AATCAG
66 AATCAG
3206990 ATTTTC
1 ATTTTC
3206996 TGGTTATGTC
Statistics
Matches: 67, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
70 5 0.07
71 62 0.93
ACGTcount: A:0.16, C:0.22, G:0.06, T:0.56
Consensus pattern (71 bp):
ATTTTCCCCTTTTCATTTTCCTATGTCTTCCTCTTCATTATTTTCCCCTATTCAAGATGTTTCTG
AATCAG
Found at i:3214417 original size:84 final size:84
Alignment explanation
Indices: 3214318--3215174 Score: 995
Period size: 84 Copynumber: 10.2 Consensus size: 84
3214308 CTATTGGAAT
* *
3214318 ACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCGAGAAG
1 ACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAGCTCAAGGCAAGAAG
* * *
3214383 GGCTATCTACCAACAAAAT
66 GGTTATCTGCCAACAAAAG
* * ** *
3214402 ACCTTCGAGTTCGATTACACTCAGCTCAAAGACACATCCAATTTACAACATAATTCAAGGCGAGA
1 ACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACAT-C-ATTTACAGCATAGCTCAAGGCAAGA
* *
3214467 AGGGTTATCTGTCAAC-CAAG
64 AGGGTTATCTGCCAACAAAAG
* * * * ** *
3214487 ACATTTGAGTTTGATTGCACTCAGCTCAAAGGCACATCATTTGTAGCATAGCTCAAGGCGAGAAG
1 ACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAGCTCAAGGCAAGAAG
* *
3214552 GGCTATCTGCCAACAAAAT
66 GGTTATCTGCCAACAAAAG
* * * *
3214571 ACCTTCAAGTTCGATTACATTCAGCTCAAATGCACATCATTTGCAGCATAGCTCAAGGCAAGAAG
1 ACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAGCTCAAGGCAAGAAG
* * *
3214636 GGCTATCTTCCAACAAAAA
66 GGTTATCTGCCAACAAAAG
* * ** * *
3214655 ACCTTCGAGTTTGATTACACTCAGCTCAAAGGCATATCATTTACAATATAACTCAAGGAAAGAAG
1 ACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAGCTCAAGGCAAGAAG
** *
3214720 GGTTATCTATCAAC-CAAG
66 GGTTATCTGCCAACAAAAG
* * *
3214738 ACCTTCGAGTTCGATTACACTTAGCTCAAAGGCGCATCATTTACAGCATAGCTCAAGGGAAGAAG
1 ACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAGCTCAAGGCAAGAAG
* * *
3214803 GGCTATCTTCCAATAAAAG
66 GGTTATCTGCCAACAAAAG
* * ** *
3214822 ACCTTCGAGTTCGATTACACTCAACTCAAAGACACATCATTTGTAGCATAGCTCAAGGCAAGAAA
1 ACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAGCTCAAGGCAAGAAG
*
3214887 GGTTATCTGCCAATAAAAG
66 GGTTATCTGCCAACAAAAG
* * *
3214906 ACCTTCGGGTTCGATTACACTCAGCTCAAAGGCGCATCATTTGCAGCATAGCTCAAGGCAAGAAG
1 ACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAGCTCAAGGCAAGAAG
* * *
3214971 GGATATCTACCAATAAAAG
66 GGTTATCTGCCAACAAAAG
* * * * *
3214990 ACCTTCGAGTTCGATTACATTTAGCTCAAAGGCATATCAAATTTACAGCATAACTCAAGGCGAGA
1 ACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATC--ATTTACAGCATAGCTCAAGGCAAGA
* *
3215055 AGGGTTATCTGTCATC-AAAG
64 AGGGTTATCTGCCAACAAAAG
* * * * * *
3215075 ACCTTCGAGTTCGATTATATTCAACTCAGAGGCAAATCAAATTTACAGCATAGCTCAAGGTAAGA
1 ACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATC--ATTTACAGCATAGCTCAAGGCAAGA
*
3215140 AGGGTTATCTGTCAACAAAA-
64 AGGGTTATCTGCCAACAAAAG
*
3215160 A-TTTCGAGTTCGATT
1 ACCTTCGAGTTCGATT
3215175 CCATTTAGCT
Statistics
Matches: 662, Mismatches: 104, Indels: 14
0.85 0.13 0.02
Matches are distributed among these distances:
83 103 0.16
84 377 0.57
85 112 0.17
86 70 0.11
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (84 bp):
ACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAGCTCAAGGCAAGAAG
GGTTATCTGCCAACAAAAG
Found at i:3214860 original size:251 final size:251
Alignment explanation
Indices: 3214318--3215174 Score: 1078
Period size: 251 Copynumber: 3.4 Consensus size: 251
3214308 CTATTGGAAT
* *
3214318 ACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCGAGAAG
1 ACCTTCGAGTTCGATTACACTCAACTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAG
* * *
3214383 GGCTATCTACCAACAAAATACCTTCGAGTTCGATTACACTCAGCTCAAAGACACATCCAATTTAC
66 GGCTATCTTCCAACAAAAAACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACAT-C-ATTTAC
* * * * * * * *
3214448 AACATAATTCAAGGCGAGAAGGGTTATCTGTCAACCAAGACATTTGAGTTTGATTGCACTCAGCT
129 AACATAACTCAAGGCAAGAAGGGTTATCTATCAACCAAGACCTTCGAGTTCGATTACACTTAGCT
** * * *
3214513 CAAAGGCACATCATTTGTAGCATAGCTCAAGGCGAGAAGGGCTATCTGCCAACAAAAT
194 CAAAGGCACATCATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTTCCAATAAAAG
* * * *
3214571 ACCTTCAAGTTCGATTACATTCAGCTCAAATGCACATCATTTGCAGCATAGCTCAAGGCAAGAAG
1 ACCTTCGAGTTCGATTACACTCAACTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAG
* *
3214636 GGCTATCTTCCAACAAAAAACCTTCGAGTTTGATTACACTCAGCTCAAAGGCATATCATTTACAA
66 GGCTATCTTCCAACAAAAAACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAA
* *
3214701 TATAACTCAAGGAAAGAAGGGTTATCTATCAACCAAGACCTTCGAGTTCGATTACACTTAGCTCA
131 CATAACTCAAGGCAAGAAGGGTTATCTATCAACCAAGACCTTCGAGTTCGATTACACTTAGCTCA
*
3214766 AAGGCGCATCATTTACAGCATAGCTCAAGG-GAAGAAGGGCTATCTTCCAATAAAAG
196 AAGGCACATCATTTACAGCATAGCTCAAGGCG-AGAAGGGCTATCTTCCAATAAAAG
* * *
3214822 ACCTTCGAGTTCGATTACACTCAACTCAAAGACACATCATTTGTAGCATAGCTCAAGGCAAGAAA
1 ACCTTCGAGTTCGATTACACTCAACTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAG
* * * * * * * *
3214887 GGTTATCTGCCAATAAAAGACCTTCGGGTTCGATTACACTCAGCTCAAAGGCGCATCATTTGCAG
66 GGCTATCTTCCAACAAAAAACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAA
* * * ** *
3214952 CATAGCTCAAGGCAAGAAGGGATATCTACCAATAAAAGACCTTCGAGTTCGATTACATTTAGCTC
131 CATAACTCAAGGCAAGAAGGGTTATCTATCAA-CCAAGACCTTCGAGTTCGATTACACTTAGCTC
* * * *
3215017 AAAGGCATATCAAATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGT-C-ATCAAAG
195 AAAGGCACATC--ATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCT-TCCAATAAAAG
* * * * * *
3215075 ACCTTCGAGTTCGATTATATTCAACTCAGAGGCAAATCAAATTTACAGCATAGCTCAAGGTAAGA
1 ACCTTCGAGTTCGATTACACTCAACTCAAAGGCACATC--ATTTGCAGCATAGCTCAAGGCAAGA
* *
3215140 AGGGTTATCTGT-CAAC-AAAAA-TTTCGAGTTCGATT
64 AGGGCTATCT-TCCAACAAAAAACCTTCGAGTTCGATT
3215175 CCATTTAGCT
Statistics
Matches: 526, Mismatches: 69, Indels: 18
0.86 0.11 0.03
Matches are distributed among these distances:
250 1 0.00
251 251 0.48
252 39 0.07
253 163 0.31
254 36 0.07
255 36 0.07
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (251 bp):
ACCTTCGAGTTCGATTACACTCAACTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAG
GGCTATCTTCCAACAAAAAACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAA
CATAACTCAAGGCAAGAAGGGTTATCTATCAACCAAGACCTTCGAGTTCGATTACACTTAGCTCA
AAGGCACATCATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTTCCAATAAAAG
Found at i:3217971 original size:182 final size:181
Alignment explanation
Indices: 3217664--3218327 Score: 945
Period size: 182 Copynumber: 3.7 Consensus size: 181
3217654 TGTCGGTTTA
* *
3217664 TGTCGATACTTTATAAAAATGTATCGATCCACATCAATATAACAGGTAAAAATATGACAAAACCG
1 TGTCGATACTTTATAAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAA-CG
* * * *
3217729 GTCTCGAAAAGACAAAACCGGTA-A-AGCGTTATCGGATATATTGAAAGTGTCGATACTTTAAAA
65 GTCTCTAAAGGACAAAACCGGTATAGAGCG--ACCGGATATATTGAAAGTGTCGATACTTTAATA
*
3217792 TAAGTATCGACACTTTGTGAATTTAAAAGAGAAACAGTTTTAGCGCCTATAAAG
128 TAAGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAG
* * * * *
3217846 TGTCGATACTTTATAACAATGTATCAATCCATACCGATATAATAGGTAAAAATATGACAAAACTG
1 TGTCGATACTTTATAAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAAC-G
* * *
3217911 GTCTCTAAAGGACAAAACCAGTATAGAGCGACCAGATATATTAAAAGTGTCGATACTTTAATATA
65 GTCTCTAAAGGACAAAACCGGTATAGAGCGACCGGATATATTGAAAGTGTCGATACTTTAATATA
*
3217976 AGTATCGAAACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAG
130 AGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAG
* * *
3218028 TATCGATACTTTATAACAATGTATCGATCCACAACGATATAACAGGTAAAAATATGATAAAAACG
1 TGTCGATACTTTATAAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGA-CAAAACG
* *
3218093 ATCTCTAAAGGAAAAAACCGGTATAGAGCGACCGGATATATTGAAAGTGTCGATACTTTAATATA
65 GTCTCTAAAGGACAAAACCGGTATAGAGCGACCGGATATATTGAAAGTGTCGATACTTTAATATA
*
3218158 AGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGTGCCTATAAAG
130 AGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAG
* * *
3218210 TGTTGATACTTTATAAAAATGTATCGATCCATAATGATATAACAGGTAAAAATATGACAAAA---
1 TGTCGATACTTTATAAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACGG
* * * *
3218272 -C-C---A-GTCAAAACCGGTAAAGTGCTACCGGATATATTGAAAGTGTCGATACTTTAATA
66 TCTCTAAAGGACAAAACCGGTATAGAGCGACCGGATATATTGAAAGTGTCGATACTTTAATA
3218328 AGTACGCATA
Statistics
Matches: 439, Mismatches: 39, Indels: 18
0.89 0.08 0.04
Matches are distributed among these distances:
172 48 0.11
173 1 0.00
176 1 0.00
177 1 0.00
181 5 0.01
182 373 0.85
183 6 0.01
184 4 0.01
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (181 bp):
TGTCGATACTTTATAAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACGG
TCTCTAAAGGACAAAACCGGTATAGAGCGACCGGATATATTGAAAGTGTCGATACTTTAATATAA
GTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAG
Found at i:3220742 original size:21 final size:21
Alignment explanation
Indices: 3220716--3220757 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
3220706 GACAATCAAA
*
3220716 AGTCGAAGAGAAATTTGAGAG
1 AGTCGAAGAGAAACTTGAGAG
*
3220737 AGTCGAAGAGACACTTGAGAG
1 AGTCGAAGAGAAACTTGAGAG
3220758 GCATAAGGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.10, G:0.33, T:0.17
Consensus pattern (21 bp):
AGTCGAAGAGAAACTTGAGAG
Found at i:3221016 original size:15 final size:15
Alignment explanation
Indices: 3220996--3221047 Score: 50
Period size: 18 Copynumber: 3.2 Consensus size: 15
3220986 ACGATGAACT
*
3220996 GAAAAAATATGAAGAA
1 GAAAAGATA-GAAGAA
3221012 GAAAAGATGGAGGAAGAA
1 GAAAAGAT--A-GAAGAA
*
3221030 GAAAAGATAGAGGAA
1 GAAAAGATAGAAGAA
3221045 GAA
1 GAA
3221048 GAAAAGATGA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
15 8 0.26
16 8 0.26
18 15 0.48
ACGTcount: A:0.62, C:0.00, G:0.31, T:0.08
Consensus pattern (15 bp):
GAAAAGATAGAAGAA
Found at i:3221029 original size:18 final size:18
Alignment explanation
Indices: 3221006--3221062 Score: 96
Period size: 18 Copynumber: 3.2 Consensus size: 18
3220996 GAAAAAATAT
3221006 GAAGAAGAAAAGATGGAG
1 GAAGAAGAAAAGATGGAG
*
3221024 GAAGAAGAAAAGATAGAG
1 GAAGAAGAAAAGATGGAG
*
3221042 GAAGAAGAAAAGATGAAG
1 GAAGAAGAAAAGATGGAG
3221060 GAA
1 GAA
3221063 ATGAGGAGGA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.60, C:0.00, G:0.35, T:0.05
Consensus pattern (18 bp):
GAAGAAGAAAAGATGGAG
Found at i:3222640 original size:19 final size:19
Alignment explanation
Indices: 3222616--3222665 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
3222606 TATGTAGGGT
*
3222616 TAATTTTGTATAAGATTTA
1 TAATTTTATATAAGATTTA
* *
3222635 TAATTTTATCTACGATTTA
1 TAATTTTATATAAGATTTA
3222654 TAATTTTATATA
1 TAATTTTATATA
3222666 TGAATGTAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.36, C:0.04, G:0.06, T:0.54
Consensus pattern (19 bp):
TAATTTTATATAAGATTTA
Found at i:3223325 original size:200 final size:199
Alignment explanation
Indices: 3222949--3223620 Score: 809
Period size: 200 Copynumber: 3.4 Consensus size: 199
3222939 ACACAAAATT
* * * * * *
3222949 AATATACCGATTTTATGAGCAAATAGGTCAACATAAAGTATCGACACCTTTTAAATTTGTGTTGA
1 AATATACCGGTTTTATGAGAAAATAGGTTAACATAATGTATCGACA-CTTTTAAATTTATGTCGA
* * ** * * ** * * * * * *
3223014 TACTTTTTGTCTGAGCCT--TTGCTCAACGAGCTTCACGTATAAAAGTGTCGACACA--TTTAAA
65 TACATTTTGTC-CAGAATGAATACAAAATGGGGTGCACGCAT-AAAGTGTCGATACATTTTTAAA
*
3223075 ATTGTATCGATCCAAAAAATATCGAAACCGAAAATTATAATGTAATAGGTAAATATACAATGTAA
128 A-AGTATCGATCCAAAAAATATCGAAACCGAAAATTATAATGTAATAGGTAAATATACAATGTAA
3223140 CCGGTATA
192 CCGGTATA
* *
3223148 AATATATCGGTTTTATGAGAAAATATG-TATACATAATGTATCGACACTGTTTAAATTTATGTCG
1 AATATACCGGTTTTATGAGAAAATAGGTTA-ACATAATGTATCGACACT-TTTAAATTTATGTCG
*
3223212 ATACATTTTGTCCATAATGAATACCAAAA-GGGGTGCACGCATAAAGTGTCGATACATTTTTAAA
64 ATACATTTTGTCCAGAATGAATA-CAAAATGGGGTGCACGCATAAAGTGTCGATACATTTTTAAA
* *
3223276 AAGTATCGATCTC-AAAAATATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAA
128 AAGTATCGATC-CAAAAAATATCGAAACCGAAAATTATAATGTAATAGGTAAATATACAATGTAA
*
3223340 CCAGTATA
192 CCGGTATA
* * * * *
3223348 AGTATACCGATTTTATGAGAAAATAGGTTAACATAATGTATCGACACTTTTTAGATTTGTGTCAA
1 AATATACCGGTTTTATGAGAAAATAGGTTAACATAATGTATCGACAC-TTTTAAATTTATGTCGA
*
3223413 TACATTTTGTCCAGAATGAATACAAAATGGGGTGCACGCATAAAGTGTCGATACATTTATAAAAA
65 TACATTTTGTCCAGAATGAATACAAAATGGGGTGCACGCATAAAGTGTCGATACATTT-TTAAAA
* * ** * * *
3223478 AGTATCGATCCAAAAAACATTGAAACTAAAAATTATAATGTAATAGGTAAATGTATAATATAACC
129 AGTATCGATCCAAAAAATATCGAAACCGAAAATTATAATGTAATAGGTAAATATACAATGTAACC
3223543 GGTATA
194 GGTATA
* * *
3223549 AATATACCGGTTTTATGAGATAATAGGTTAACATAGTGTATCAACACTTTTAAATTTATGTCGAT
1 AATATACCGGTTTTATGAGAAAATAGGTTAACATAATGTATCGACACTTTTAAATTTATGTCGAT
*
3223614 ACGTTTT
66 ACATTTT
3223621 TAAATTACGC
Statistics
Matches: 407, Mismatches: 53, Indels: 25
0.84 0.11 0.05
Matches are distributed among these distances:
198 5 0.01
199 80 0.20
200 201 0.49
201 121 0.30
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (199 bp):
AATATACCGGTTTTATGAGAAAATAGGTTAACATAATGTATCGACACTTTTAAATTTATGTCGAT
ACATTTTGTCCAGAATGAATACAAAATGGGGTGCACGCATAAAGTGTCGATACATTTTTAAAAAG
TATCGATCCAAAAAATATCGAAACCGAAAATTATAATGTAATAGGTAAATATACAATGTAACCGG
TATA
Found at i:3227755 original size:198 final size:198
Alignment explanation
Indices: 3227238--3227761 Score: 689
Period size: 200 Copynumber: 2.6 Consensus size: 198
3227228 TATCTAGAAT
* *
3227238 ATAAAGTGTCGATACATTTATTAAAAGTATTGATCCCAATAACATCGAAACCGATAATTATAATG
1 ATAAAGTGTCGATACATTTA-TAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATG
* ** * *
3227303 TAATAGGTAAATTTACAATGTAAATGATATAAATATACCAGTTTTATAAGAAAATAGGTCAGCAT
65 TAATAGGTAAATTTACAATGTTACCGATATAAATATACC-GGTTTATAAGAAAATAGGTCAGAAT
* * *
3227368 AAAGTATCGACATTATTTAAATTTGTGTCGATACTTTTTGTCCATAATGAATGTCAAACGGGGTG
129 AAAGTATCGACATTACTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGTCAAACGAGGTG
3227433 CACGC
194 CACGC
* *
3227438 ATAAAGTGTCGATACATTTATTAAAAGTATCGATCCCACAAACATCGAAACCGATAATTACAATG
1 ATAAAGTGTCGATACATTTA-TAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATG
* * ** *
3227503 TGATAGGTAAATTTACAATG-TACCCGATAGAAATATATTGGTTTTATGAGAAAATAGGTCTA-A
65 TAATAGGTAAATTTACAATGTTA-CCGATATAAATATACCGG-TTTATAAGAAAATAGGTC-AGA
* * * *
3227566 ATAATGTATCGACACTT-CTTAAGTTTGTGTCGATACTTTTT-TCTAGAATGAATGTCTAACGAG
127 ATAAAGTATCGACA-TTACTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGTCAAACGAG
*
3227629 GTGCATGC
191 GTGCACGC
* *
3227637 ATAAAGTGTCGATACATTTA-AAATTGTATCGATCCAAAAAACATCGAAACCGATAATTATAATG
1 ATAAAGTGTCGATACATTTATAAA-AGTATCGATCCCAAAAACATCGAAACCGATAATTATAATG
* * *
3227701 TAATAGGTAAATTTGCAATGTTACCGATATAAATATACCGGTTTACTTAGAAAATATGTCA
65 TAATAGGTAAATTTACAATGTTACCGATATAAATATACCGGTTTA-TAAGAAAATAGGTCA
3227762 ATATAAGCGC
Statistics
Matches: 284, Mismatches: 33, Indels: 17
0.85 0.10 0.05
Matches are distributed among these distances:
197 8 0.03
198 81 0.29
199 49 0.17
200 143 0.50
201 3 0.01
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (198 bp):
ATAAAGTGTCGATACATTTATAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGT
AATAGGTAAATTTACAATGTTACCGATATAAATATACCGGTTTATAAGAAAATAGGTCAGAATAA
AGTATCGACATTACTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGTCAAACGAGGTGCA
CGC
Found at i:3227966 original size:23 final size:23
Alignment explanation
Indices: 3227847--3227957 Score: 168
Period size: 23 Copynumber: 4.8 Consensus size: 23
3227837 TGTCTATTTT
* *
3227847 ATTATATAAGTGTTACCTATTAC
1 ATTATATAAGCGATACCTATTAC
* * *
3227870 ATTATATAAGAGCTACATATTAC
1 ATTATATAAGCGATACCTATTAC
3227893 ATTATATAAGCGATACCTATTAC
1 ATTATATAAGCGATACCTATTAC
3227916 ATTATATAAGCGATACCTATTAC
1 ATTATATAAGCGATACCTATTAC
*
3227939 ATTATATAAGCGCTACCTA
1 ATTATATAAGCGATACCTA
3227958 ATATGTTATT
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 81 1.00
ACGTcount: A:0.39, C:0.16, G:0.09, T:0.36
Consensus pattern (23 bp):
ATTATATAAGCGATACCTATTAC
Found at i:3228426 original size:24 final size:25
Alignment explanation
Indices: 3228378--3228426 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
3228368 ATTCAAAAAT
* *
3228378 AAAAAATTAAAAGATATATATTATA
1 AAAAAATTAAAAAATATATACTATA
3228403 AAAAAATTAAAAAATAT-TACTATA
1 AAAAAATTAAAAAATATATACTATA
3228427 TATTGAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 6 0.27
25 16 0.73
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (25 bp):
AAAAAATTAAAAAATATATACTATA
Found at i:3228500 original size:17 final size:18
Alignment explanation
Indices: 3228473--3228514 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
3228463 TACAAATACA
3228473 AATACAAAATATA-ATTAT
1 AATA-AAAATATATATTAT
*
3228491 AATAAAAATATATTTTAT
1 AATAAAAATATATATTAT
3228509 AATAAA
1 AATAAA
3228515 TTAATACTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (18 bp):
AATAAAAATATATATTAT
Done.