Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009639.1 Hibiscus syriacus cultivar Beakdansim tig00117048_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: 15077257
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 49 of 62
Found at i:11053117 original size:115 final size:115
Alignment explanation
Indices: 11052907--11053212 Score: 303
Period size: 115 Copynumber: 2.7 Consensus size: 115
11052897 TACTCGAAAG
* * * *
11052907 AACTTGTTCAACCATGGCTCGTCTATCACAGAAGGAGGTGGATCAATATTTTCCGCAAAGAGTTC
1 AACTTATTCAACCATGGCTCATCTATCACAGAAGGAAGTGGATCAATATTTTCAGCAAAGAGTTC
* * *
11052972 ATAATGAGAAGAACTCACATGTTGAGGGAGAAGAAATTCCTAATGAGAAT
66 ATAATGAGAAGAAATCACATGATGAAGGAGAAGAAATTCCTAATGAGAAT
* * * * *
11053022 AACTTATTCAAGCTTGGCTCATCTATCATAG-AGGAAAGTGGATCAGTGTTTTCAGCAAAGAGTT
1 AACTTATTCAACCATGGCTCATCTATCACAGAAGG-AAGTGGATCAATATTTTCAGCAAAGAGTT
* * *
11053086 CATAATGAGAATAAATCAC-TCGATGAAGGAGAAGAAGTTTCTAATGAGAA-
65 CATAATGAGAAGAAATCACAT-GATGAAGGAGAAGAAATTCCTAATGAGAAT
* * * * * ** * * * **
11053136 ACACTTGTTGAACCTTGGCTCGTCCATCATGGAAGGAGGTAGATCAACATTTTTCAGTGAAGAGT
1 A-ACTTATTCAACCATGGCTCATCTATCACAGAAGGAAGTGGATCAATA-TTTTCAGCAAAGAGT
*
11053201 TCAAAATGAGAA
64 TCATAATGAGAA
11053213 AAACTTATCC
Statistics
Matches: 157, Mismatches: 29, Indels: 9
0.81 0.15 0.05
Matches are distributed among these distances:
114 5 0.03
115 125 0.80
116 27 0.17
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (115 bp):
AACTTATTCAACCATGGCTCATCTATCACAGAAGGAAGTGGATCAATATTTTCAGCAAAGAGTTC
ATAATGAGAAGAAATCACATGATGAAGGAGAAGAAATTCCTAATGAGAAT
Found at i:11055052 original size:21 final size:22
Alignment explanation
Indices: 11055016--11055058 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
11055006 TTGCAGAATT
*
11055016 TTAGTTTTCTTTATTTATTTTA
1 TTAGTTTTCATTATTTATTTTA
11055038 TTAGTTTT-ATTATTTATTTTA
1 TTAGTTTTCATTATTTATTTTA
11055059 CTATTAGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.21, C:0.02, G:0.05, T:0.72
Consensus pattern (22 bp):
TTAGTTTTCATTATTTATTTTA
Found at i:11058491 original size:45 final size:47
Alignment explanation
Indices: 11058375--11058508 Score: 159
Period size: 45 Copynumber: 2.9 Consensus size: 47
11058365 TAATCTTTAT
* * * * *
11058375 TTTCATTTATTGTATCCCTTCATG-CTTATAATGCACCATTATACCAA
1 TTTCATTTATGGTATCCTTTCATGCCTT-TTATACACTATTATACCAA
* *
11058422 TTCCATTT-TGGCATCCTTTCATGCCTTTTATACACTATTATA-C-A
1 TTTCATTTATGGTATCCTTTCATGCCTTTTATACACTATTATACCAA
*
11058466 TTTCATTTATGGTATCCTTTCATGCCTTTTATACATTATTATA
1 TTTCATTTATGGTATCCTTTCATGCCTTTTATACACTATTATA
11058509 TATCTAGTCT
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
44 8 0.11
45 33 0.44
46 24 0.32
47 10 0.13
ACGTcount: A:0.25, C:0.22, G:0.07, T:0.47
Consensus pattern (47 bp):
TTTCATTTATGGTATCCTTTCATGCCTTTTATACACTATTATACCAA
Found at i:11058988 original size:60 final size:60
Alignment explanation
Indices: 11058924--11059062 Score: 233
Period size: 60 Copynumber: 2.3 Consensus size: 60
11058914 CCCAATACAA
* * *
11058924 AAATTCATACGCTTAGTATGAATTTCTTTCTCGTGTTAGCACATGAAGTGCCCTATATGG
1 AAATTCATACACTTAGTATGAATTACTTTCTCATGTTAGCACATGAAGTGCCCTATATGG
* *
11058984 AAATTCATACAATTAGTATGCATTACTTTCTCATGTTAGCACATGAAGTGCCCTATATGG
1 AAATTCATACACTTAGTATGAATTACTTTCTCATGTTAGCACATGAAGTGCCCTATATGG
11059044 AAATTCATACACTTAGTAT
1 AAATTCATACACTTAGTAT
11059063 TTCATGTTAG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
60 73 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (60 bp):
AAATTCATACACTTAGTATGAATTACTTTCTCATGTTAGCACATGAAGTGCCCTATATGG
Found at i:11059344 original size:14 final size:14
Alignment explanation
Indices: 11059324--11059375 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
11059314 AATGAGAATT
*
11059324 AATCCCTGTAAATA
1 AATCCCTGCAAATA
*
11059338 CATCCCTGCAAATA
1 AATCCCTGCAAATA
*
11059352 AATCCTTGCATAA-A
1 AATCCCTGCA-AATA
*
11059366 AATCTCTGCA
1 AATCCCTGCA
11059376 TATAGACAGA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
14 29 0.94
15 2 0.06
ACGTcount: A:0.38, C:0.27, G:0.08, T:0.27
Consensus pattern (14 bp):
AATCCCTGCAAATA
Found at i:11059517 original size:59 final size:59
Alignment explanation
Indices: 11059445--11059897 Score: 771
Period size: 59 Copynumber: 7.7 Consensus size: 59
11059435 ACACAATACC
* *
11059445 CATGTTAGCACACGAAGTGCCCTATATGGAAATTCATACACATAGTATGAATTCTTTCT
1 CATGTTAGCACACGAAGTGCCCTATATGGAAATTCATACACTTAGTATGAATTCCTTCT
11059504 CATGTTAGCACACGAAGTGCCCTATATGGAAATTCATACACTTAGTATGAATTCCTTCT
1 CATGTTAGCACACGAAGTGCCCTATATGGAAATTCATACACTTAGTATGAATTCCTTCT
* * * *
11059563 CATGTTAGTACACGAAGTGCCCTATATGGAAATTCATAGACTTAGTATGAATTTCGTCT
1 CATGTTAGCACACGAAGTGCCCTATATGGAAATTCATACACTTAGTATGAATTCCTTCT
*
11059622 CATGTTAGCACACGAAGTGCCCTATATGGAAATTCATACACTTAGTAAGAATTCCTTCT
1 CATGTTAGCACACGAAGTGCCCTATATGGAAATTCATACACTTAGTATGAATTCCTTCT
*
11059681 CATGTTAGCACACGAAGTGCCCTATATGGAAATTCATACACTTAGTATGAATTCATTCT
1 CATGTTAGCACACGAAGTGCCCTATATGGAAATTCATACACTTAGTATGAATTCCTTCT
* * * *
11059740 CATGTTAGCATATGAAGTGCTCTATATGGAAATTCATACACTTAGTATGAATTCATTCT
1 CATGTTAGCACACGAAGTGCCCTATATGGAAATTCATACACTTAGTATGAATTCCTTCT
*
11059799 CATGTTAGCACACGAAGTGCCCTATATAGAAATTCATACACTTAGTATGAATTCCTTCT
1 CATGTTAGCACACGAAGTGCCCTATATGGAAATTCATACACTTAGTATGAATTCCTTCT
* *
11059858 CATCTTAGCACACAAAGTGCCCTATATGGAAATTCATACA
1 CATGTTAGCACACGAAGTGCCCTATATGGAAATTCATACA
11059898 AAGTGCCCTT
Statistics
Matches: 370, Mismatches: 24, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
59 370 1.00
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.32
Consensus pattern (59 bp):
CATGTTAGCACACGAAGTGCCCTATATGGAAATTCATACACTTAGTATGAATTCCTTCT
Found at i:11060345 original size:20 final size:20
Alignment explanation
Indices: 11060320--11060373 Score: 63
Period size: 22 Copynumber: 2.6 Consensus size: 20
11060310 ATGTTTCCTA
*
11060320 GTATCGATACCCTTACCATG
1 GTATCGATACCCATACCATG
* *
11060340 GTATCGATACTACAATACTATG
1 GTATCGATAC--CCATACCATG
11060362 GTATCGATACCC
1 GTATCGATACCC
11060374 CCTTCGGGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 11 0.39
22 17 0.61
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.30
Consensus pattern (20 bp):
GTATCGATACCCATACCATG
Found at i:11060386 original size:95 final size:93
Alignment explanation
Indices: 11060271--11060464 Score: 280
Period size: 95 Copynumber: 2.1 Consensus size: 93
11060261 ATTATTATAC
* * *
11060271 CGATACCCCATTCTGGTATCGATACCAAATTTAGGTTCGATGTTTCCTAGTATCGATACCCTTAC
1 CGATACCCCATTCGGGTATCGATACCAAATTTAGATTCGATGTTGCCTAGTATCGATACCCTTAC
11060336 CATGGTATCGATACTACAATACTATGGTAT
66 CATGGTATCGATAC--CAATACTATGGTAT
* * * *
11060366 CGATACCCCCTTCGGGTATCGATACCAAATTTAGATTCGATGTTGCTTGGTATCGATAGCCTTAC
1 CGATACCCCATTCGGGTATCGATACCAAATTTAGATTCGATGTTGCCTAGTATCGATACCCTTAC
* **
11060431 TATGGTATCGATACCCTTACTATGGTAT
66 CATGGTATCGATACCAATACTATGGTAT
11060459 CGATAC
1 CGATAC
11060465 TAATTGAATA
Statistics
Matches: 89, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
93 18 0.20
95 71 0.80
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.34
Consensus pattern (93 bp):
CGATACCCCATTCGGGTATCGATACCAAATTTAGATTCGATGTTGCCTAGTATCGATACCCTTAC
CATGGTATCGATACCAATACTATGGTAT
Found at i:11060438 original size:20 final size:20
Alignment explanation
Indices: 11060413--11060464 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
11060403 CGATGTTGCT
*
11060413 TGGTATCGATAGCCTTACTA
1 TGGTATCGATACCCTTACTA
11060433 TGGTATCGATACCCTTACTA
1 TGGTATCGATACCCTTACTA
11060453 TGGTATCGATAC
1 TGGTATCGATAC
11060465 TAATTGAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (20 bp):
TGGTATCGATACCCTTACTA
Found at i:11063312 original size:90 final size:90
Alignment explanation
Indices: 11063191--11063368 Score: 293
Period size: 90 Copynumber: 2.0 Consensus size: 90
11063181 TAATCCCGAA
* * * * *
11063191 TATTTAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCCTGATATGAT
1 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGAC
11063256 TAGGGTAACTTGGATATAAAAGGAT
66 TAGGGTAACTTGGATATAAAAGGAT
*
11063281 TATTAAATTCCAATTAATTAAATATAGATTTAGTTAATTTGAAATAATAAAAACCCTAATATGAC
1 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGAC
*
11063346 TAGGGTAACTTGGCTATAAAAGG
66 TAGGGTAACTTGGATATAAAAGG
11063369 GTGTGTTAGG
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
90 81 1.00
ACGTcount: A:0.44, C:0.07, G:0.12, T:0.37
Consensus pattern (90 bp):
TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGAC
TAGGGTAACTTGGATATAAAAGGAT
Found at i:11064498 original size:2 final size:2
Alignment explanation
Indices: 11064491--11064530 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
11064481 TTAGAAAAAC
11064491 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
11064531 CTTTTTTACA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11067097 original size:59 final size:59
Alignment explanation
Indices: 11066612--11067076 Score: 750
Period size: 59 Copynumber: 7.9 Consensus size: 59
11066602 TACCCAATAC
* * * *
11066612 GGAAATTCATACGCTTAGTATGAATTTCTTTCTCATGTTAGCATACGAAGTGCACTATAT
1 GGAAATTCATACACTTAGTATGAA-TTCCTTCTCATGTTAGCACACGAAGTGCCCTATAT
*
11066672 GGAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACATGAAGTGCCCTATAT
1 GGAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCCCTATAT
*
11066731 GGAAATTCATACACTTAGTATGAATTCATTCTCATGTTAGCACACGAAGTGCCCTATAT
1 GGAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCCCTATAT
* * * *
11066790 AGAAATTCATACACTTATTATGAATTTCTTCTCATGTTAGCACACCAAGTGCCCTATAT
1 GGAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCCCTATAT
11066849 GGAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCCCTATAT
1 GGAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCCCTATAT
* ** *
11066908 GGAAATTAATACACTTAGTATGAATTCCTTCTCACATTAGCACACGAAGTGCCCTATGT
1 GGAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCCCTATAT
** *
11066967 GGAAATTCATACACTTAGTGCGAATTCCTTCTCAAGTTAGCACACGAAGTGCCCTATAT
1 GGAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCCCTATAT
* *
11067026 GGAAATTCATACACTTAGTATGAATTTCTTCTTATGTTAGCACACGAAGTG
1 GGAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTG
11067077 TCCTTTGGTA
Statistics
Matches: 374, Mismatches: 31, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
59 351 0.94
60 23 0.06
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.33
Consensus pattern (59 bp):
GGAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCCCTATAT
Found at i:11067592 original size:95 final size:95
Alignment explanation
Indices: 11067431--11067618 Score: 270
Period size: 95 Copynumber: 2.0 Consensus size: 95
11067421 CGATACTTCT
* * * * * *
11067431 ATACTATGGTATCGATACCCCCTTTTCGGTATCAATACCAAATTTAGGTTCGATGTTTCCTGGTA
1 ATACTATGGTACCGACACCCCCTTTCCGGTATCAATACCAAATTTAGATTCAATGTTGCCTGGTA
11067496 TCGATACCCTTACCATGGTATCGATACTATA
66 TCGATACCCTTACCATGGTATC-ATACTATA
* * *
11067527 ATACTATGGTACCGACACCTCC-TTCCGGTATCGATACCAAATTTAGATTCAATGTTGCTTGGTA
1 ATACTATGGTACCGACACCCCCTTTCCGGTATCAATACCAAATTTAGATTCAATGTTGCCTGGTA
*
11067591 TCGATACCCTTACTATGGTATCATACTA
66 TCGATACCCTTACCATGGTATCATACTA
11067619 CCTCAATGGT
Statistics
Matches: 82, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
94 6 0.07
95 57 0.70
96 19 0.23
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (95 bp):
ATACTATGGTACCGACACCCCCTTTCCGGTATCAATACCAAATTTAGATTCAATGTTGCCTGGTA
TCGATACCCTTACCATGGTATCATACTATA
Found at i:11068905 original size:166 final size:166
Alignment explanation
Indices: 11068631--11068962 Score: 664
Period size: 166 Copynumber: 2.0 Consensus size: 166
11068621 AGATGTAACA
11068631 AAAGAAGAAATACCACCTTGGTGGGCAACACATAAAGATGTATTGCGGAAAAGAATGTTTTCCCT
1 AAAGAAGAAATACCACCTTGGTGGGCAACACATAAAGATGTATTGCGGAAAAGAATGTTTTCCCT
11068696 AGAATAAAAAATTGAAGAAACCAACATGTATGTGCAAAGAATATTGGAGCTCGTGTCCAAGGCAA
66 AGAATAAAAAATTGAAGAAACCAACATGTATGTGCAAAGAATATTGGAGCTCGTGTCCAAGGCAA
11068761 TAGACACCGTGGAACCATCACCTGCAAGTTACCAAC
131 TAGACACCGTGGAACCATCACCTGCAAGTTACCAAC
11068797 AAAGAAGAAATACCACCTTGGTGGGCAACACATAAAGATGTATTGCGGAAAAGAATGTTTTCCCT
1 AAAGAAGAAATACCACCTTGGTGGGCAACACATAAAGATGTATTGCGGAAAAGAATGTTTTCCCT
11068862 AGAATAAAAAATTGAAGAAACCAACATGTATGTGCAAAGAATATTGGAGCTCGTGTCCAAGGCAA
66 AGAATAAAAAATTGAAGAAACCAACATGTATGTGCAAAGAATATTGGAGCTCGTGTCCAAGGCAA
11068927 TAGACACCGTGGAACCATCACCTGCAAGTTACCAAC
131 TAGACACCGTGGAACCATCACCTGCAAGTTACCAAC
11068963 CAAAACATCA
Statistics
Matches: 166, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
166 166 1.00
ACGTcount: A:0.40, C:0.19, G:0.20, T:0.20
Consensus pattern (166 bp):
AAAGAAGAAATACCACCTTGGTGGGCAACACATAAAGATGTATTGCGGAAAAGAATGTTTTCCCT
AGAATAAAAAATTGAAGAAACCAACATGTATGTGCAAAGAATATTGGAGCTCGTGTCCAAGGCAA
TAGACACCGTGGAACCATCACCTGCAAGTTACCAAC
Found at i:11078049 original size:2 final size:2
Alignment explanation
Indices: 11078042--11078066 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
11078032 ATACAACATC
11078042 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 A
11078067 ATACACATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11082359 original size:32 final size:31
Alignment explanation
Indices: 11082222--11082373 Score: 103
Period size: 32 Copynumber: 4.8 Consensus size: 31
11082212 CTATCTCTCT
* * *
11082222 TGTGCATTATCTGAATGCAATAATAA-CTATA
1 TGTGCATTATCTGAATGTAATACTAATCTA-C
* * * *
11082253 TGGTGCATTATCTAAAT-TCCATGCTAACTCTAT
1 T-GTGCATTATCTGAATGT-AATACTAA-TCTAC
* * * *
11082286 TGTGCATTACCTGAATGTGATAATGGAT-TAAC
1 TGTGCATTATCTGAATGTAATACT-AATCT-AC
* *
11082318 TATGTATTATCTGAATGTAATACTAGATCTAC
1 TGTGCATTATCTGAATGTAATACTA-ATCTAC
11082350 TGTGCATTATCTGAATGTAATACT
1 TGTGCATTATCTGAATGTAATACT
11082374 GACTCTGTTG
Statistics
Matches: 91, Mismatches: 21, Indels: 17
0.71 0.16 0.13
Matches are distributed among these distances:
31 2 0.02
32 82 0.90
33 4 0.04
34 3 0.03
ACGTcount: A:0.32, C:0.14, G:0.15, T:0.38
Consensus pattern (31 bp):
TGTGCATTATCTGAATGTAATACTAATCTAC
Found at i:11085282 original size:2 final size:2
Alignment explanation
Indices: 11085271--11085350 Score: 153
Period size: 2 Copynumber: 40.5 Consensus size: 2
11085261 TGATTGCAAT
11085271 TA TA -A 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
11085312 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
11085351 GTAATATGTG
Statistics
Matches: 77, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.01
2 76 0.99
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11085476 original size:17 final size:17
Alignment explanation
Indices: 11085431--11085491 Score: 68
Period size: 17 Copynumber: 3.4 Consensus size: 17
11085421 TATATATAAT
* *
11085431 ATATATAGTCTTTTAAAA
1 ATATATAAT-TTTTGAAA
11085449 CATATTATAATTTTTGAAA
1 -ATA-TATAATTTTTGAAA
11085468 ATATATAATTTTTGAAA
1 ATATATAATTTTTGAAA
*
11085485 ACATATA
1 ATATATA
11085492 GAATATATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
17 20 0.53
18 3 0.08
19 10 0.26
20 5 0.13
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (17 bp):
ATATATAATTTTTGAAA
Found at i:11085537 original size:63 final size:64
Alignment explanation
Indices: 11085411--11085541 Score: 153
Period size: 65 Copynumber: 2.0 Consensus size: 64
11085401 TATAATGTAG
* *
11085411 TTTTTGAAAATATATATAATATATATAGTCTTTTAAAACATATTATAATTTTTGAAAATATATAA
1 TTTTTGAAAACATATAGAATATATATAG-CTTTTAAAACATATTATAATTTTTGAAAATATATAA
* * *
11085476 TTTTTGAAAACATATAGAATATATA-A-CTTTTGAAAGCATGTTATACAATTTTT-AGAA-ATAT
1 TTTTTGAAAACATATAGAATATATATAGCTTTT-AAAACATATTAT--AATTTTTGAAAATATAT
11085537 AA
63 AA
11085539 TTT
1 TTT
11085542 ATATTATATA
Statistics
Matches: 58, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
62 5 0.09
63 19 0.33
64 4 0.07
65 30 0.52
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.44
Consensus pattern (64 bp):
TTTTTGAAAACATATAGAATATATATAGCTTTTAAAACATATTATAATTTTTGAAAATATATAA
Found at i:11089193 original size:26 final size:27
Alignment explanation
Indices: 11089164--11089214 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
11089154 ACTTCGGTTA
11089164 GGTAAAATTAC-AAAATACCCTTATAG
1 GGTAAAATTACGAAAATACCCTTATAG
11089190 GGTAAAATTACGAAAATACCCTTAT
1 GGTAAAATTACGAAAATACCCTTAT
11089215 GTTGTAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 11 0.46
27 13 0.54
ACGTcount: A:0.45, C:0.16, G:0.12, T:0.27
Consensus pattern (27 bp):
GGTAAAATTACGAAAATACCCTTATAG
Found at i:11090377 original size:35 final size:36
Alignment explanation
Indices: 11090311--11090396 Score: 104
Period size: 35 Copynumber: 2.4 Consensus size: 36
11090301 TTGGTTAAAC
* *
11090311 TGGTAATTCCTTACGTCAGGTTCAGACCGATC-AAA
1 TGGTAATTCCTTACATCAGATTCAGACCGATCGAAA
* *
11090346 TTGGTAATTCCTTATAT-AGATTCAGACCGATCGAGA
1 -TGGTAATTCCTTACATCAGATTCAGACCGATCGAAA
*
11090382 TCGTAATTCCTTACA
1 TGGTAATTCCTTACA
11090397 GATCTAAGGT
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
35 27 0.63
36 16 0.37
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (36 bp):
TGGTAATTCCTTACATCAGATTCAGACCGATCGAAA
Found at i:11091202 original size:22 final size:25
Alignment explanation
Indices: 11091168--11091213 Score: 62
Period size: 22 Copynumber: 2.0 Consensus size: 25
11091158 TGTTTTATTA
*
11091168 TTTTAAGAGTTTTGCCA-ATTTTTT
1 TTTTAAGAGTTTTCCCAGATTTTTT
11091192 TTTTAA-A-TTTTCCCAGATTTTT
1 TTTTAAGAGTTTTCCCAGATTTTT
11091214 ATTGTGAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 7 0.35
23 7 0.35
24 6 0.30
ACGTcount: A:0.22, C:0.11, G:0.09, T:0.59
Consensus pattern (25 bp):
TTTTAAGAGTTTTCCCAGATTTTTT
Found at i:11094524 original size:32 final size:31
Alignment explanation
Indices: 11094488--11094554 Score: 100
Period size: 31 Copynumber: 2.1 Consensus size: 31
11094478 GATGGACTTA
11094488 TTGCGGCATTTT-TCAAAAAAATGCCACTATTG
1 TTGCGGC-TTTTAT-AAAAAAATGCCACTATTG
*
11094520 TTGCGGCTTTTATTAAAAAATGCCACTATTG
1 TTGCGGCTTTTATAAAAAAATGCCACTATTG
11094551 TTGC
1 TTGC
11094555 CTCGAAATCA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
31 25 0.76
32 8 0.24
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.37
Consensus pattern (31 bp):
TTGCGGCTTTTATAAAAAAATGCCACTATTG
Found at i:11100569 original size:20 final size:20
Alignment explanation
Indices: 11100546--11100587 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
11100536 TTCCATCACT
11100546 TGCAACTAAATGCTTCTAAA
1 TGCAACTAAATGCTTCTAAA
* * *
11100566 TGCATCTACATGGTTCTAAA
1 TGCAACTAAATGCTTCTAAA
11100586 TG
1 TG
11100588 AGCTCTTAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.33
Consensus pattern (20 bp):
TGCAACTAAATGCTTCTAAA
Found at i:11118723 original size:19 final size:16
Alignment explanation
Indices: 11118687--11118718 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
11118677 GAAAATGTAC
11118687 AATTTGTTGTATGTTA
1 AATTTGTTGTATGTTA
11118703 AATTTGTTGTATGTTA
1 AATTTGTTGTATGTTA
11118719 CTAAAATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.00, G:0.19, T:0.56
Consensus pattern (16 bp):
AATTTGTTGTATGTTA
Found at i:11128905 original size:24 final size:24
Alignment explanation
Indices: 11128878--11128936 Score: 64
Period size: 26 Copynumber: 2.4 Consensus size: 24
11128868 ATATACATAT
11128878 ATATATATAATAGTTTTTGAAAAC
1 ATATATATAATAGTTTTTGAAAAC
* * * *
11128902 ATATGTACTGTATAGTTTTTGAATAT
1 ATATATA-T-AATAGTTTTTGAAAAC
11128928 ATATATATA
1 ATATATATA
11128937 TATATATATA
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
24 6 0.22
25 2 0.07
26 19 0.70
ACGTcount: A:0.41, C:0.03, G:0.10, T:0.46
Consensus pattern (24 bp):
ATATATATAATAGTTTTTGAAAAC
Found at i:11128931 original size:2 final size:2
Alignment explanation
Indices: 11128924--11128990 Score: 118
Period size: 2 Copynumber: 34.0 Consensus size: 2
11128914 TAGTTTTTGA
11128924 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
*
11128966 AT AT AT AT AT AT AT AT -T GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
11128991 TATTATTATT
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
1 1 0.02
2 62 0.98
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (2 bp):
AT
Found at i:11130132 original size:29 final size:30
Alignment explanation
Indices: 11130100--11130158 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
11130090 TTTTCTTTCT
11130100 TTTTAC-AAAATTTTTATTATTTAATTTAA
1 TTTTACTAAAATTTTTATTATTTAATTTAA
** * *
11130129 TTTTACTATTATTTTTATTTTTTATTTTAA
1 TTTTACTAAAATTTTTATTATTTAATTTAA
11130159 GGGGATCCAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 6 0.24
30 19 0.76
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (30 bp):
TTTTACTAAAATTTTTATTATTTAATTTAA
Found at i:11136120 original size:81 final size:80
Alignment explanation
Indices: 11135997--11136285 Score: 373
Period size: 81 Copynumber: 3.6 Consensus size: 80
11135987 TTGTTTAAAA
* * *
11135997 TAAAAGATTAAATGTCTAACTGTGCATTTGACAG-AAGAGTGTCAATCATTCTAGTTAGATGAAA
1 TAAAAGATTAAATGCCTAGCTGTGCATTTGACAGAAAG-GTGTCAATCATGC-AGTTAGATGAAA
11136061 GGTTAAATACCTTTGAG
64 GGTTAAATACCTTTGAG
* ** * * *
11136078 TAAAAGATTAAATGCATATTTGTGTATTTGACAGAAAGGTGTCACTCATGGCAGTTAGATGAAAT
1 TAAAAGATTAAATGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATCAT-GCAGTTAGATGAAAG
11136143 GTTAAATACCTTTGAG
65 GTTAAATACCTTTGAG
* * * * ** *
11136159 TAAAAGTTTAAATACCTAGCTGTGCATTTGACAAAAATGTGTCAATCATGCCAAATAGATGAATG
1 TAAAAGATTAAATGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATCATG-CAGTTAGATGAAAG
11136224 GTTAAATACCTTTGAG
65 GTTAAATACCTTTGAG
* *
11136240 TAAAATATTAAATGCCTAGTTGTGCATTTGACAGAAAGGTGTCAAT
1 TAAAAGATTAAATGCCTAGCTGTGCATTTGACAGAAAGGTGTCAAT
11136286 TATGACATAA
Statistics
Matches: 178, Mismatches: 27, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
80 1 0.01
81 173 0.97
82 4 0.02
ACGTcount: A:0.37, C:0.11, G:0.19, T:0.32
Consensus pattern (80 bp):
TAAAAGATTAAATGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATCATGCAGTTAGATGAAAGG
TTAAATACCTTTGAG
Found at i:11146708 original size:94 final size:95
Alignment explanation
Indices: 11146572--11146749 Score: 254
Period size: 94 Copynumber: 1.9 Consensus size: 95
11146562 CCCAAAAAGG
* *
11146572 AAAGTATCGATACCATAGATTCCAGGATGACAAAATTGTATCGATACTGAAAGGGAGTATCG-GT
1 AAAGTATCGATACCATAGATTCCAGAATGACAAAATGGTATCGATACTGAAAGGGAGTAT-GAGT
* * *
11146636 ACCAGAGTATAGTAGTATCGGTACTAGGAGA
65 ACCACAATATAGAAGTATCGGTACTAGGAGA
* *
11146667 AAAGTATCGATACCATGGA-TCCAGAATGTA-GAAATGGTATCGATACTGAAAGGGAGTATGAGT
1 AAAGTATCGATACCATAGATTCCAGAATG-ACAAAATGGTATCGATACTGAAAGGGAGTATGAGT
11146730 ACCACAATATAGAAGTATCG
65 ACCACAATATAGAAGTATCG
11146750 ATACCATGGT
Statistics
Matches: 74, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
93 1 0.01
94 54 0.73
95 19 0.26
ACGTcount: A:0.38, C:0.13, G:0.25, T:0.24
Consensus pattern (95 bp):
AAAGTATCGATACCATAGATTCCAGAATGACAAAATGGTATCGATACTGAAAGGGAGTATGAGTA
CCACAATATAGAAGTATCGGTACTAGGAGA
Found at i:11148462 original size:59 final size:59
Alignment explanation
Indices: 11148395--11148727 Score: 551
Period size: 59 Copynumber: 5.7 Consensus size: 59
11148385 TGATTACCAA
* *
11148395 ATGATAAGGAATTCATACAAAGTGTATGGATTTCCATAAAGGGCACTTCGTGTGCTAAC
1 ATGATAAGGAATTCATACTAAGTGTATGGATTTCCATATAGGGCACTTCGTGTGCTAAC
11148454 ATGATAAGGAATTCATACTAAGTGTATGGATTTCCATATA-GGCACTTCGTGTGCTAAC
1 ATGATAAGGAATTCATACTAAGTGTATGGATTTCCATATAGGGCACTTCGTGTGCTAAC
* * *
11148512 ATGAGAAAGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTGCTAAC
1 ATGATAAGGAATTCATACTAAGTGTATGGATTTCCATATAGGGCACTTCGTGTGCTAAC
*
11148571 ATGATAAGGAATTCATACTAAGTGTATGGATTTCCATATAGGGCACTTCCTGTGCTAAC
1 ATGATAAGGAATTCATACTAAGTGTATGGATTTCCATATAGGGCACTTCGTGTGCTAAC
* * *
11148630 ATGATAAGGAATTCATACTAAGTGTACGGATTTCCATATAGGGCACTTTGTGTGATAAC
1 ATGATAAGGAATTCATACTAAGTGTATGGATTTCCATATAGGGCACTTCGTGTGCTAAC
* * *
11148689 ATGATAAGAAATTTATACTAAGTGTATGAATTTCCATAT
1 ATGATAAGGAATTCATACTAAGTGTATGGATTTCCATAT
11148728 GAGAAAGTAT
Statistics
Matches: 256, Mismatches: 17, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
58 55 0.21
59 201 0.79
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.32
Consensus pattern (59 bp):
ATGATAAGGAATTCATACTAAGTGTATGGATTTCCATATAGGGCACTTCGTGTGCTAAC
Found at i:11149056 original size:68 final size:68
Alignment explanation
Indices: 11148947--11149130 Score: 251
Period size: 68 Copynumber: 2.7 Consensus size: 68
11148937 ATTAATAGGG
* * * ** * *
11148947 CTAACTATGCATTTCACAGAAAGGTGTCATTTATGTTAGTTAGATGAAAGGCTAAGTGTCTTTGA
1 CTAACTGTGCATTTGACAGAAAAGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGCGCCTTTGA
11149012 GGC
66 GGC
* *
11149015 CTAACTGTGCATTTGACAGAAATGTGTCATTTATGCCAGTTAAATGAAAGGCTAAGCGCCTTTGA
1 CTAACTGTGCATTTGACAGAAAAGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGCGCCTTTGA
11149080 GGC
66 GGC
* * * *
11149083 CTAACTGTGAAATTGGCAGAAAAGTGTCAGTTATGCCAGTTAGATGAA
1 CTAACTGTGCATTTGACAGAAAAGTGTCATTTATGCCAGTTAGATGAA
11149131 TGGATAAATA
Statistics
Matches: 102, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
68 102 1.00
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (68 bp):
CTAACTGTGCATTTGACAGAAAAGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGCGCCTTTGA
GGC
Found at i:11149220 original size:81 final size:80
Alignment explanation
Indices: 11149080--11149318 Score: 282
Period size: 81 Copynumber: 3.0 Consensus size: 80
11149070 GCGCCTTTGA
* * * *
11149080 GGCCTAACTGTGAAATTGGCAGAAAAGTGTCAGTTATGCCAGTTAGATGAATGGATAAATACCGT
1 GGCCTAACTGTGCAATTGGCAGAAAAGTGTCAATTATGCCTGTTAGATGAATGGATAAATACAGT
11149145 TGAGAAAAAGGATAAT
66 TGAG-AAAAGGATAAT
* * *
11149161 GGTCTAACTGTGCAATTGGCAGAAAAGTGTCAATTATGCCTGTTAGAAGAATGGTTAAATACAGT
1 GGCCTAACTGTGCAATTGGCAGAAAAGTGTCAATTATGCCTGTTAGATGAATGGATAAATACAGT
*
11149226 TGAGTAAAAGGACAAT
66 TGAG-AAAAGGATAAT
* * * * * * * * *
11149242 GGCCTAATTGTACAATTGACATAAAGGTGTCAATTAT-ACTGGTTAGATGAATGGGTAAACACTG
1 GGCCTAACTGTGCAATTGGCAGAAAAGTGTCAATTATGCCT-GTTAGATGAATGGATAAATACAG
*
11149306 TTGAGTAAAGGAT
65 TTGAGAAAAGGAT
11149319 GAAAGGTTAA
Statistics
Matches: 135, Mismatches: 22, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
80 8 0.06
81 127 0.94
ACGTcount: A:0.37, C:0.11, G:0.25, T:0.27
Consensus pattern (80 bp):
GGCCTAACTGTGCAATTGGCAGAAAAGTGTCAATTATGCCTGTTAGATGAATGGATAAATACAGT
TGAGAAAAGGATAAT
Found at i:11149329 original size:29 final size:29
Alignment explanation
Indices: 11149287--11149343 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
11149277 ATACTGGTTA
* * *
11149287 GATGAATGGGTAAACACTGTTGAGTAAAG
1 GATGAAAGGGTAAACAATATTGAGTAAAG
*
11149316 GATGAAAGGTTAAACAATATTGAGTAAA
1 GATGAAAGGGTAAACAATATTGAGTAAA
11149344 AGAATAATGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.44, C:0.05, G:0.26, T:0.25
Consensus pattern (29 bp):
GATGAAAGGGTAAACAATATTGAGTAAAG
Found at i:11149488 original size:2 final size:2
Alignment explanation
Indices: 11149481--11149505 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
11149471 TGAAGGGATG
11149481 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
11149506 TATATATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:11150374 original size:81 final size:81
Alignment explanation
Indices: 11150269--11150707 Score: 520
Period size: 81 Copynumber: 5.4 Consensus size: 81
11150259 ATGTTTAAAA
* ** * * * * *
11150269 TAAAAGTTTAAATGAGTAGTTGTGCATTTAACAGAAAATTATCAATCATGCCAGATAGATGAAAG
1 TAAAAGATTAAATGCCTAGCTGTGCATTTGACAGAAAAGTGTCAATCATGCCAGTTAGATGAAAG
11150334 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * * *
11150350 TAAAAGATTAAATGCCTAGTTGTGCATTTGACAGAAAGGTGCCAATAATGCCAGTTAGATGAAAG
1 TAAAAGATTAAATGCCTAGCTGTGCATTTGACAGAAAAGTGTCAATCATGCCAGTTAGATGAAAG
11150415 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * * * *
11150431 TAAAAGATTAAATGCTTAGCTCTGCATTTGACAGAAAGGTGTCAATCATGCCAGATAGATAAAAG
1 TAAAAGATTAAATGCCTAGCTGTGCATTTGACAGAAAAGTGTCAATCATGCCAGTTAGATGAAAG
* *
11150496 GTTAAACACCTTTAAG
66 GTTAAATACCTTTGAG
* *
11150512 AAAAAGATTAAATGCCTAGCTGTGCATTTGACAGAAATA-TGTCAATCATGGCAGTTAGATGAAA
1 TAAAAGATTAAATGCCTAGCTGTGCATTTGACAGAAA-AGTGTCAATCATGCCAGTTAGATGAAA
**
11150576 ACTTAAATACCTTTGAG
65 GGTTAAATACCTTTGAG
* * * * *** *
11150593 TAAAAGATTAAATGCCTAGCTCTGCAGTTGGCAGAAAGGACCCATTCATGCCAGTTAGATGAAAG
1 TAAAAGATTAAATGCCTAGCTGTGCATTTGACAGAAAAGTGTCAATCATGCCAGTTAGATGAAAG
* *
11150658 GTTAAATGCCTTTGGG
66 GTTAAATACCTTTGAG
* * * *
11150674 TGAAAGACTAAATGCTTAGCAGTGCATTTTGACA
1 TAAAAGATTAAATGCCTAGCTGTGCA-TTTGACA
11150708 TAAACGGTGT
Statistics
Matches: 304, Mismatches: 51, Indels: 5
0.84 0.14 0.01
Matches are distributed among these distances:
81 299 0.98
82 5 0.02
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.28
Consensus pattern (81 bp):
TAAAAGATTAAATGCCTAGCTGTGCATTTGACAGAAAAGTGTCAATCATGCCAGTTAGATGAAAG
GTTAAATACCTTTGAG
Found at i:11158201 original size:50 final size:50
Alignment explanation
Indices: 11158126--11158226 Score: 202
Period size: 50 Copynumber: 2.0 Consensus size: 50
11158116 GCTAGCTTAA
11158126 AAATGTCTTCTTTCACTTTTCTCTCTTTTGAAATGCCAGTCGAACTTAGC
1 AAATGTCTTCTTTCACTTTTCTCTCTTTTGAAATGCCAGTCGAACTTAGC
11158176 AAATGTCTTCTTTCACTTTTCTCTCTTTTGAAATGCCAGTCGAACTTAGC
1 AAATGTCTTCTTTCACTTTTCTCTCTTTTGAAATGCCAGTCGAACTTAGC
11158226 A
1 A
11158227 TTTTCATTCT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.23, C:0.24, G:0.12, T:0.42
Consensus pattern (50 bp):
AAATGTCTTCTTTCACTTTTCTCTCTTTTGAAATGCCAGTCGAACTTAGC
Found at i:11160563 original size:23 final size:23
Alignment explanation
Indices: 11160533--11160579 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
11160523 AGTTGCTGGT
*
11160533 CGTTCCATTGAGTATCGGGAAGA
1 CGTTCCATTAAGTATCGGGAAGA
11160556 CGTTCCATTAAGTATCGGGAAGA
1 CGTTCCATTAAGTATCGGGAAGA
11160579 C
1 C
11160580 AGAGGTCTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.26
Consensus pattern (23 bp):
CGTTCCATTAAGTATCGGGAAGA
Found at i:11163488 original size:23 final size:23
Alignment explanation
Indices: 11163461--11163506 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
11163451 ATCATCCATG
* *
11163461 AAAATTTCTAGAACATCCTCAAC
1 AAAATTTCCAAAACATCCTCAAC
11163484 AAAATTTCCAAAACATCCTCAAC
1 AAAATTTCCAAAACATCCTCAAC
11163507 CATGTCAGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.46, C:0.28, G:0.02, T:0.24
Consensus pattern (23 bp):
AAAATTTCCAAAACATCCTCAAC
Found at i:11163939 original size:27 final size:27
Alignment explanation
Indices: 11163895--11163953 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 27
11163885 GAAATGGGGT
*
11163895 AAATCACTCTAGCATCAAGCCATTTGA
1 AAATCACTCCAGCATCAAGCCATTTGA
* *
11163922 GAATCACTCCAGCGTCAAGCCATTTGA
1 AAATCACTCCAGCATCAAGCCATTTGA
11163949 AAATC
1 AAATC
11163954 TCTTTCATCA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.36, C:0.27, G:0.14, T:0.24
Consensus pattern (27 bp):
AAATCACTCCAGCATCAAGCCATTTGA
Found at i:11164133 original size:12 final size:12
Alignment explanation
Indices: 11164114--11164142 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
11164104 TGTTGTGACA
11164114 AAAC-ACTTAAC
1 AAACTACTTAAC
11164125 AAACTACTTAAC
1 AAACTACTTAAC
11164137 AAACTA
1 AAACTA
11164143 GATTCTTGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 4 0.24
12 13 0.76
ACGTcount: A:0.55, C:0.24, G:0.00, T:0.21
Consensus pattern (12 bp):
AAACTACTTAAC
Found at i:11169658 original size:20 final size:20
Alignment explanation
Indices: 11169633--11169672 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
11169623 AATTATGGAG
11169633 GATGTTTAACTGTATCAAAA
1 GATGTTTAACTGTATCAAAA
11169653 GATGTTTAACTGTATCAAAA
1 GATGTTTAACTGTATCAAAA
11169673 CATACAACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (20 bp):
GATGTTTAACTGTATCAAAA
Found at i:11172251 original size:20 final size:19
Alignment explanation
Indices: 11172226--11172276 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
11172216 TGATTCAATC
* *
11172226 AGTATCGATACCGAAGGGGG
1 AGTATCGATACC-AAAGGGA
11172246 AGTATCGATACCAAAGGGA
1 AGTATCGATACCAAAGGGA
11172265 AGGTATCGATAC
1 A-GTATCGATAC
11172277 TATTTTTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 6 0.21
20 22 0.79
ACGTcount: A:0.35, C:0.16, G:0.31, T:0.18
Consensus pattern (19 bp):
AGTATCGATACCAAAGGGA
Found at i:11172777 original size:55 final size:55
Alignment explanation
Indices: 11172693--11172983 Score: 379
Period size: 55 Copynumber: 5.3 Consensus size: 55
11172683 ATTACCAAAT
* * * *
11172693 AGGCACTATATGTGCAAATCCATGTAATTCATCATGAGTTGATGAATAACCATAC
1 AGGCACTATGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCGTAC
* **
11172748 AGGCACTATGTGTGCAAATCCACGAAATTCTTCATGAGTTGATGAATAATTGTAC
1 AGGCACTATGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCGTAC
* * *
11172803 AAGCACTATGTGTGCAAATTCAC-AGAATTCATCAAGAGTTGATGAATAACCGTAC
1 AGGCACTATGTGTGCAAATCCACGA-AATTCATCATGAGTTGATGAATAACCGTAC
* * * *
11172858 AGGAACTATATGTGCAAATCCACGATATTCATCATGAGTTGATGAATAACCGTAT
1 AGGCACTATGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCGTAC
* * * *
11172913 AGGCACAATGTGTGC-AACCCATGAAATTCATCATGAGTTGACGAATAACCGTAC
1 AGGCACTATGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCGTAC
* *
11172967 AGACACGATGTGTGCAA
1 AGGCACTATGTGTGCAA
11172984 CCCATGGAAT
Statistics
Matches: 203, Mismatches: 30, Indels: 6
0.85 0.13 0.03
Matches are distributed among these distances:
54 48 0.24
55 154 0.76
56 1 0.00
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (55 bp):
AGGCACTATGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCGTAC
Found at i:11173349 original size:45 final size:45
Alignment explanation
Indices: 11173275--11173390 Score: 142
Period size: 45 Copynumber: 2.5 Consensus size: 45
11173265 TGCATAATGA
* *
11173275 TGTACAAAAGGCATATGAAAGGATGCCATAAATAAAATGTATTATGG
1 TGTATAAAAGGC--ATGAAAGGATGCCATAAATAAAATGTATCATGG
* *
11173322 TGTATAAAAGGCATGAAAGGATTCCATAAATGAAATGTATCATGG
1 TGTATAAAAGGCATGAAAGGATGCCATAAATAAAATGTATCATGG
* * *
11173367 TTTATAAATAGGCATAAAATGATG
1 TGTATAAA-AGGCATGAAAGGATG
11173391 TATAAACGAA
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
45 37 0.62
46 12 0.20
47 11 0.18
ACGTcount: A:0.44, C:0.08, G:0.21, T:0.28
Consensus pattern (45 bp):
TGTATAAAAGGCATGAAAGGATGCCATAAATAAAATGTATCATGG
Found at i:11180025 original size:28 final size:28
Alignment explanation
Indices: 11179962--11180026 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 28
11179952 GTCACAACCC
11179962 AATT-TAAATAAAAATAGAGAAAATATA
1 AATTATAAATAAAAATAGAGAAAATATA
* *
11179989 AA-TACTAAATAAAAATTTGA-AAATTATA
1 AATTA-TAAATAAAAA-TAGAGAAAATATA
11180017 AATTATAAAT
1 AATTATAAAT
11180027 CAATTTTAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
26 1 0.03
27 2 0.06
28 24 0.75
29 5 0.16
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.31
Consensus pattern (28 bp):
AATTATAAATAAAAATAGAGAAAATATA
Found at i:11182656 original size:19 final size:20
Alignment explanation
Indices: 11182616--11182657 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
11182606 AATCAGATTG
11182616 CCCAGGGGGTACAGATTCCC
1 CCCAGGGGGTACAGATTCCC
*
11182636 CCCAGGGGGTACCGATTCCC
1 CCCAGGGGGTACAGATTCCC
11182656 CC
1 CC
11182658 TGTCTAACGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.17, C:0.40, G:0.29, T:0.14
Consensus pattern (20 bp):
CCCAGGGGGTACAGATTCCC
Found at i:11183959 original size:19 final size:20
Alignment explanation
Indices: 11183935--11183982 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
11183925 AATGATTTTC
*
11183935 TTTTGAAAACAAAAAT-ATA
1 TTTTGAAAACAAAAATGAAA
* *
11183954 TTTTGAAAGCCAAAATGAAA
1 TTTTGAAAACAAAAATGAAA
11183974 TTTTGAAAA
1 TTTTGAAAA
11183983 AGGATTTAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.52, C:0.06, G:0.10, T:0.31
Consensus pattern (20 bp):
TTTTGAAAACAAAAATGAAA
Found at i:11184013 original size:23 final size:23
Alignment explanation
Indices: 11183986--11184031 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
11183976 TTGAAAAAGG
* *
11183986 ATTTAGAGCTTTCAAAAATAAAA
1 ATTTAAAGCTTTCAAAAAGAAAA
* *
11184009 ATTTAAAGTTTTGAAAAAGAAAA
1 ATTTAAAGCTTTCAAAAAGAAAA
11184032 TTTTGATTTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.54, C:0.04, G:0.11, T:0.30
Consensus pattern (23 bp):
ATTTAAAGCTTTCAAAAAGAAAA
Found at i:11185441 original size:21 final size:21
Alignment explanation
Indices: 11185418--11185515 Score: 107
Period size: 22 Copynumber: 4.8 Consensus size: 21
11185408 GATTGCACAG
*
11185418 GGGGTACAGATTCCCCCCCAG
1 GGGGTACAGATTCCCCCCCAA
*
11185439 GGGGTACAAATTTCCCCCCCAA
1 GGGGTACAGA-TTCCCCCCCAA
*
11185461 GGGGTACCGATT---CCCCAA
1 GGGGTACAGATTCCCCCCCAA
*
11185479 GGGGAACAGATT-CCCCCCAA
1 GGGGTACAGATTCCCCCCCAA
11185499 GGGGTACCA-ATTCCCCC
1 GGGGTA-CAGATTCCCCC
11185516 TTGTCTAACG
Statistics
Matches: 65, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
18 16 0.25
20 14 0.22
21 17 0.26
22 18 0.28
ACGTcount: A:0.23, C:0.37, G:0.24, T:0.15
Consensus pattern (21 bp):
GGGGTACAGATTCCCCCCCAA
Found at i:11185453 original size:22 final size:21
Alignment explanation
Indices: 11185415--11185515 Score: 84
Period size: 21 Copynumber: 5.0 Consensus size: 21
11185405 TCAGATTGCA
*
11185415 CAGGGGGTACAGATTCCCCCC
1 CAGGGGGTACAAATTCCCCCC
11185436 CAGGGGGTACAAATTTCCCCCC
1 CAGGGGGTACAAA-TTCCCCCC
* **
11185458 CAAGGGGTACCGATT---CCC
1 CAGGGGGTACAAATTCCCCCC
* * *
11185476 CAAGGGGAACAGATT-CCCCC
1 CAGGGGGTACAAATTCCCCCC
* *
11185496 CAAGGGGTACCAATTCCCCC
1 CAGGGGGTACAAATTCCCCC
11185516 TTGTCTAACG
Statistics
Matches: 67, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
18 16 0.24
20 15 0.22
21 18 0.27
22 18 0.27
ACGTcount: A:0.24, C:0.37, G:0.25, T:0.15
Consensus pattern (21 bp):
CAGGGGGTACAAATTCCCCCC
Found at i:11185478 original size:18 final size:18
Alignment explanation
Indices: 11185455--11185514 Score: 75
Period size: 18 Copynumber: 3.2 Consensus size: 18
11185445 CAAATTTCCC
11185455 CCCCAAGGGGTACCGATT
1 CCCCAAGGGGTACCGATT
* *
11185473 CCCCAAGGGGAACAGATT
1 CCCCAAGGGGTACCGATT
*
11185491 CCCCCCAAGGGGTACCAATT
1 --CCCCAAGGGGTACCGATT
11185511 CCCC
1 CCCC
11185515 CTTGTCTAAC
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
18 20 0.57
20 15 0.43
ACGTcount: A:0.25, C:0.38, G:0.23, T:0.13
Consensus pattern (18 bp):
CCCCAAGGGGTACCGATT
Found at i:11185498 original size:20 final size:20
Alignment explanation
Indices: 11185418--11185515 Score: 103
Period size: 20 Copynumber: 4.8 Consensus size: 20
11185408 GATTGCACAG
*
11185418 GGGGTACAGATTCCCCCCCAG
1 GGGGTACAGATT-CCCCCCAA
*
11185439 GGGGTACAAATTTCCCCCCCAA
1 GGGGTACAGA-TT-CCCCCCAA
*
11185461 GGGGTACCGATT--CCCCAA
1 GGGGTACAGATTCCCCCCAA
*
11185479 GGGGAACAGATTCCCCCCAA
1 GGGGTACAGATTCCCCCCAA
11185499 GGGGTACCA-ATTCCCCC
1 GGGGTA-CAGATTCCCCC
11185516 TTGTCTAACG
Statistics
Matches: 66, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
18 16 0.24
20 19 0.29
21 13 0.20
22 18 0.27
ACGTcount: A:0.23, C:0.37, G:0.24, T:0.15
Consensus pattern (20 bp):
GGGGTACAGATTCCCCCCAA
Found at i:11189753 original size:53 final size:52
Alignment explanation
Indices: 11189673--11189930 Score: 335
Period size: 53 Copynumber: 5.0 Consensus size: 52
11189663 TAAGGTAACG
* * * *
11189673 AAATGGTAATTCACAAACTCGTTATGAATAACATGAATGCACACATAGTGCC
1 AAATGGTAATTCACAAACTCATTATAAATACCATGGATGCACACATAGTGCC
* *
11189725 AAAATGGTAATTCACAAACTCATTATGAATACCATGGATACACACATAGTGCC
1 -AAATGGTAATTCACAAACTCATTATAAATACCATGGATGCACACATAGTGCC
*
11189778 GAAATGGTAATTCACAAA--C-TTATTAATACCATGGATGCACACATAGTGCC
1 -AAATGGTAATTCACAAACTCATTATAAATACCATGGATGCACACATAGTGCC
* * *
11189828 -AATGGTAATTCACAAACTCATTAAAAATATCATGGATGCACACATAGTGCT
1 AAATGGTAATTCACAAACTCATTATAAATACCATGGATGCACACATAGTGCC
* * * * *
11189879 AATTGATAATTCACAAACTCGTTAAAAATACCATGGATGCACACATACTGCC
1 AAATGGTAATTCACAAACTCATTATAAATACCATGGATGCACACATAGTGCC
11189931 GAAAGTACAC
Statistics
Matches: 184, Mismatches: 17, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
48 16 0.09
50 30 0.16
51 28 0.15
52 45 0.24
53 65 0.35
ACGTcount: A:0.40, C:0.20, G:0.14, T:0.26
Consensus pattern (52 bp):
AAATGGTAATTCACAAACTCATTATAAATACCATGGATGCACACATAGTGCC
Found at i:11189921 original size:103 final size:105
Alignment explanation
Indices: 11189671--11189930 Score: 350
Period size: 103 Copynumber: 2.5 Consensus size: 105
11189661 AATAAGGTAA
* * * *
11189671 CGAAATGGTAATTCACAAACTCGTTATGAATAACATGAATGCACACATAGTGCCAAAATGGTAAT
1 CGAAATGATAATTCACAAACTCGTTATAAATACCATGGATGCACACATAGTGCC-AAATGGTAAT
**
11189736 TCACAAACTCATTATGAATACCATGGATACACACATAGTGC
65 TCACAAACTCATTAAAAATACCATGGATACACACATAGTGC
* *
11189777 CGAAATGGTAATTCACAAA--C-TTATTAATACCATGGATGCACACATAGTGCC-AATGGTAATT
1 CGAAATGATAATTCACAAACTCGTTATAAATACCATGGATGCACACATAGTGCCAAATGGTAATT
* *
11189838 CACAAACTCATTAAAAATATCATGGATGCACACATAGTG-
66 CACAAACTCATTAAAAATACCATGGATACACACATAGTGC
* * * *
11189877 CTAATTGATAATTCACAAACTCGTTAAAAATACCATGGATGCACACATACTGCC
1 CGAAATGATAATTCACAAACTCGTTATAAATACCATGGATGCACACATAGTGCC
11189931 GAAAGTACAC
Statistics
Matches: 138, Mismatches: 13, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
100 16 0.12
101 45 0.33
102 1 0.01
103 56 0.41
104 1 0.01
106 19 0.14
ACGTcount: A:0.40, C:0.20, G:0.14, T:0.25
Consensus pattern (105 bp):
CGAAATGATAATTCACAAACTCGTTATAAATACCATGGATGCACACATAGTGCCAAATGGTAATT
CACAAACTCATTAAAAATACCATGGATACACACATAGTGC
Found at i:11196992 original size:53 final size:53
Alignment explanation
Indices: 11196894--11197146 Score: 346
Period size: 53 Copynumber: 4.8 Consensus size: 53
11196884 ACTAATGTAA
* * *
11196894 CGAAATGGTAATTCACAAACTCATTATTAATACCATGAATACACACATAGTGT
1 CGAAATGGTAATTCACAAACTCATTATGAATACCATGGATGCACACATAGTGT
* * *
11196947 CGAAATGGTAATTCACAAACTTATTATGAATAGCATGGATGCACACGTAGTGT
1 CGAAATGGTAATTCACAAACTCATTATGAATACCATGGATGCACACATAGTGT
* *
11197000 CGAAATAGTAGTTCACAAACTCATTATGAATACCATGGATGCACACATAGTGT
1 CGAAATGGTAATTCACAAACTCATTATGAATACCATGGATGCACACATAGTGT
* * *
11197053 CGAAATGGTAATTCACAAACTCATTAT-ATAAACCATAGATGCACACATAGTGC
1 CGAAATGGTAATTCACAAACTCATTATGA-ATACCATGGATGCACACATAGTGT
* * * * *
11197106 CGAAAAGATAACTCACAAGCTCATTATGAATACCATAGATG
1 CGAAATGGTAATTCACAAACTCATTATGAATACCATGGATG
11197147 AATGCATAGT
Statistics
Matches: 177, Mismatches: 21, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
52 1 0.01
53 175 0.99
54 1 0.01
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.26
Consensus pattern (53 bp):
CGAAATGGTAATTCACAAACTCATTATGAATACCATGGATGCACACATAGTGT
Found at i:11200795 original size:90 final size:90
Alignment explanation
Indices: 11200642--11200819 Score: 284
Period size: 90 Copynumber: 2.0 Consensus size: 90
11200632 CCTAACACAC
* * * *
11200642 CCTTTTATAGCCAAGTTACCCTAGTAATATTAGGGTTTTTATTATTTCAAATTAATTAAATCTAT
1 CCTTTTATAGCCAAGTTACCCTAATAATATCAAGGATTTTATTATTTCAAATTAATTAAATCTAT
* *
11200707 ATTTAATTAATTGGAATTTAATAAT
66 ATTTAATTAATTGAAATTAAATAAT
* *
11200732 CCTTTTATATCCAAGTTACCCTAATCATATCAAGGATTTTATTATTTCAAATTAATTAAATCTAT
1 CCTTTTATAGCCAAGTTACCCTAATAATATCAAGGATTTTATTATTTCAAATTAATTAAATCTAT
11200797 ATTTAATTAATTGAAATTAAATA
66 ATTTAATTAATTGAAATTAAATA
11200820 TTCAGGATTA
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
90 80 1.00
ACGTcount: A:0.38, C:0.11, G:0.07, T:0.44
Consensus pattern (90 bp):
CCTTTTATAGCCAAGTTACCCTAATAATATCAAGGATTTTATTATTTCAAATTAATTAAATCTAT
ATTTAATTAATTGAAATTAAATAAT
Found at i:11202525 original size:21 final size:21
Alignment explanation
Indices: 11202501--11202547 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
11202491 GCTCATGAAG
11202501 CTGCAAAAGTCTTTCGGCTAA
1 CTGCAAAAGTCTTTCGGCTAA
11202522 CTGCAAAAGTCTTTCGGCTAA
1 CTGCAAAAGTCTTTCGGCTAA
*
11202543 GTGCA
1 CTGCA
11202548 TCAGCTACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (21 bp):
CTGCAAAAGTCTTTCGGCTAA
Found at i:11208164 original size:27 final size:27
Alignment explanation
Indices: 11208113--11208164 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
11208103 ATTTTTGTTA
*
11208113 GGTAAAATTTAAAAAATACCCTTATGG
1 GGTAAAATTTAAAAAATACACTTATGG
*
11208140 GGTAAAA-TTACAAAAATACATTTAT
1 GGTAAAATTTA-AAAAATACACTTAT
11208165 ATTATATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 3 0.14
27 19 0.86
ACGTcount: A:0.48, C:0.10, G:0.12, T:0.31
Consensus pattern (27 bp):
GGTAAAATTTAAAAAATACACTTATGG
Found at i:11209737 original size:55 final size:55
Alignment explanation
Indices: 11209591--11209907 Score: 458
Period size: 55 Copynumber: 5.8 Consensus size: 55
11209581 AATTTAAACT
* *
11209591 TTCATAAACTTATTATAAATTTCTTAGTTTTGCACACACAGTG-CCATACAAAAA
1 TTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAGTGCCCATACAGAAA
* * *
11209645 TTCAGAAACTTATTATGAATTTCTTAGTTTTTGCACACACAATGCCCATACGGAAA
1 TTCATAAACTTATTATGAATTTCTTAG-TTTTGCACACACAGTGCCCATACAGAAA
* * * * * *
11209701 CTCATAAAGTTATTATGAATTTTTTAGTTCTACACACACAGTGCCCATACGGAAA
1 TTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAGTGCCCATACAGAAA
* *
11209756 TTAATAAAATTATTATGAATTTCTTAGTTTTGCACACACAGTGCCCATACAGAAA
1 TTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAGTGCCCATACAGAAA
* *
11209811 TTTATAAACTTATTATGAATTTCTTAGTTTTGCACACACAGT-ACCATACAGAAA
1 TTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAGTGCCCATACAGAAA
* *
11209865 TTCATAAACTTATTATGAATTTCTTAGTTTTGTACACGCAGTG
1 TTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAGTG
11209908 TGTTAGAGTA
Statistics
Matches: 235, Mismatches: 25, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
54 75 0.32
55 128 0.54
56 32 0.14
ACGTcount: A:0.35, C:0.18, G:0.11, T:0.36
Consensus pattern (55 bp):
TTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAGTGCCCATACAGAAA
Found at i:11222040 original size:38 final size:38
Alignment explanation
Indices: 11221989--11222065 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
11221979 GAAATTTTTT
11221989 TGAGTCTTTTCACAAAGAAAAATGGGAGGATAAATCGG
1 TGAGTCTTTTCACAAAGAAAAATGGGAGGATAAATCGG
*
11222027 TGAGTCTTTTCACAAAGGAAAATGGGAGGATAAATCGG
1 TGAGTCTTTTCACAAAGAAAAATGGGAGGATAAATCGG
11222065 T
1 T
11222066 AAATCATTGA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.38, C:0.10, G:0.27, T:0.25
Consensus pattern (38 bp):
TGAGTCTTTTCACAAAGAAAAATGGGAGGATAAATCGG
Found at i:11226662 original size:61 final size:61
Alignment explanation
Indices: 11226567--11226846 Score: 249
Period size: 61 Copynumber: 4.6 Consensus size: 61
11226557 CAACAAGCTT
* * *
11226567 CAATTAGGTCTTTAATTAGTTAAATTAATAAATAACTAAACCTAATAAGTTTAGTTTCTTA
1 CAATTAGGTCTTTAATTAGTTAAATTAATTAATAAGTGAACCTAATAAGTTTAGTTTCTTA
* * * * *
11226628 CAATTAGATCTTTATTTAGTTAAATTAATTAATAAGTGTACCTAATAATTTTAGCATTT-TTT
1 CAATTAGGTCTTTAATTAGTTAAATTAATTAATAAGTGAACCTAATAAGTTTAG--TTTCTTA
*** * * * *
11226690 TTGTTAGGTCTTTAAATGGTTAAATTAATTAGTAAGTGAACCTAATAAGTTTAGTTGCTTA
1 CAATTAGGTCTTTAATTAGTTAAATTAATTAATAAGTGAACCTAATAAGTTTAGTTTCTTA
** * * * * * * * * *
11226751 CAATTAGGAATTTAATTTGTTAAACTATTTAGT-AGATGAGCCTTAGAAGTTTAGCTTCTTT
1 CAATTAGGTCTTTAATTAGTTAAATTAATTAATAAG-TGAACCTAATAAGTTTAGTTTCTTA
* * * *
11226812 CAGTCAAGTCCTTAATTAGTTAAATTAATTAATAA
1 CAATTAGGTCTTTAATTAGTTAAATTAATTAATAA
11226847 TTAAGCCCCA
Statistics
Matches: 169, Mismatches: 45, Indels: 9
0.76 0.20 0.04
Matches are distributed among these distances:
60 4 0.02
61 115 0.68
62 47 0.28
63 3 0.02
ACGTcount: A:0.36, C:0.09, G:0.12, T:0.43
Consensus pattern (61 bp):
CAATTAGGTCTTTAATTAGTTAAATTAATTAATAAGTGAACCTAATAAGTTTAGTTTCTTA
Found at i:11226804 original size:123 final size:123
Alignment explanation
Indices: 11226570--11226846 Score: 285
Period size: 123 Copynumber: 2.3 Consensus size: 123
11226560 CAAGCTTCAA
* *
11226570 TTAGGTCTTTAATTAGTTAAATTAATAAATAACTAAACCTAATAAGTTTAGTTTCTTACAATTAG
1 TTAGGTCTTTAAATAGTTAAATTAATAAATAACTAAACCTAATAAGTTTAGTTGCTTACAATTAG
* * * *
11226635 ATCTTTATTTAGTTAAATTAATTAATAAGTGTACCTAATAATTTTAGCATTTTTTTTG
66 ATCTTAATTTAGTTAAACTAATTAATAAGTGTACCTAAGAAGTTTAGCATTTTTTTTG
* * * * *
11226693 TTAGGTCTTTAAATGGTTAAATTAATTAGTAAGTGAACCTAATAAGTTTAGTTGCTTACAATTAG
1 TTAGGTCTTTAAATAGTTAAATTAATAAATAACTAAACCTAATAAGTTTAGTTGCTTACAATTA-
* * * * **
11226758 GAAT-TTAATTT-GTTAAACTATTTAGT-AGATG-AGCCTTAGAAGTTTAGC-TTCTTTCAG
65 G-ATCTTAATTTAGTTAAACTAATTAATAAG-TGTA-CCTAAGAAGTTTAGCATTTTTTTTG
* * * * *
11226815 TCAAGTCCTTAATTAGTTAAATTAATTAATAA
1 TTAGGTCTTTAAATAGTTAAATTAATAAATAA
11226847 TTAAGCCCCA
Statistics
Matches: 127, Mismatches: 23, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
122 35 0.28
123 83 0.65
124 7 0.06
125 2 0.02
ACGTcount: A:0.36, C:0.09, G:0.12, T:0.43
Consensus pattern (123 bp):
TTAGGTCTTTAAATAGTTAAATTAATAAATAACTAAACCTAATAAGTTTAGTTGCTTACAATTAG
ATCTTAATTTAGTTAAACTAATTAATAAGTGTACCTAAGAAGTTTAGCATTTTTTTTG
Found at i:11227043 original size:69 final size:71
Alignment explanation
Indices: 11226903--11227046 Score: 177
Period size: 69 Copynumber: 2.1 Consensus size: 71
11226893 AATTGATCAA
* * *
11226903 TAATCAAGCCTAAGAAGTTTAGCATCTTTTAGTTAGGTCCTCATTTAATTAAATTAATCAAAAGT
1 TAATCAAGCCTAAGAAGTTTAGCATCTTTAAATTAGGTCCTCATTTAATTAAATCAATCAAAAGT
**
11226968 TTAGCC
66 CAAGCC
* * * *
11226974 TAAT-AAG-CTAAGAAGTTTAGCTTCTTTAAATTAGGTCCTTATTTAATTAAATCAATTGAGAA-
1 TAATCAAGCCTAAGAAGTTTAGCATCTTTAAATTAGGTCCTCATTTAATTAAATCAA-TCAAAAG
11227036 TCAAGCC
65 TCAAGCC
11227043 TAAT
1 TAAT
11227047 TGCAAGAAGC
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
69 52 0.83
70 7 0.11
71 4 0.06
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (71 bp):
TAATCAAGCCTAAGAAGTTTAGCATCTTTAAATTAGGTCCTCATTTAATTAAATCAATCAAAAGT
CAAGCC
Found at i:11227664 original size:27 final size:26
Alignment explanation
Indices: 11227604--11227668 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 26
11227594 TATTAAATGC
* *
11227604 ATAAATATTATTATTCATTATTAATA
1 ATAAATAATATTATTCATTATAAATA
*
11227630 ACTTAATAATATTATTCA-TATGAAATTA
1 A-TAAATAATATTATTCATTAT-AAA-TA
11227658 ATAAATAATAT
1 ATAAATAATAT
11227669 AAATTTTATT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
26 4 0.12
27 25 0.78
28 3 0.09
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.45
Consensus pattern (26 bp):
ATAAATAATATTATTCATTATAAATA
Found at i:11227718 original size:24 final size:22
Alignment explanation
Indices: 11227654--11227723 Score: 61
Period size: 24 Copynumber: 3.1 Consensus size: 22
11227644 TTCATATGAA
*
11227654 ATTAATAAATAATATAA-ATTTT
1 ATTAATAAA-AATATAATATATT
** *
11227676 ATTAATAAATTTATTATATATT
1 ATTAATAAAAATATAATATATT
*
11227698 ATTAAAATAAAAATATAATATCTT
1 ATT--AATAAAAATATAATATATT
11227722 AT
1 AT
11227724 ATTATATTAT
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
21 4 0.11
22 16 0.43
24 17 0.46
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (22 bp):
ATTAATAAAAATATAATATATT
Found at i:11232500 original size:36 final size:36
Alignment explanation
Indices: 11232460--11232589 Score: 108
Period size: 36 Copynumber: 3.6 Consensus size: 36
11232450 ATATCTTTTG
11232460 ATATCTTTTTAATATTGAA-ATTTAAAATGATAATAA
1 ATATC-TTTTAATATTGAATATTTAAAATGATAATAA
* * * *
11232496 ATATCTTTTACT-TTGAGATATTTAAAATTAT-GTAG
1 ATATCTTTTAATATTGA-ATATTTAAAATGATAATAA
* * * *
11232531 TTATCCTATTAATATTTAA-ATGTAAAGA-GATAATAA
1 ATAT-CTTTTAATATTGAATATTTAAA-ATGATAATAA
*
11232567 ATATCTTTTAATTTTGAATATTT
1 ATATCTTTTAATATTGAATATTT
11232590 CATCAACAAG
Statistics
Matches: 70, Mismatches: 17, Indels: 14
0.69 0.17 0.14
Matches are distributed among these distances:
34 4 0.06
35 31 0.44
36 32 0.46
37 3 0.04
ACGTcount: A:0.41, C:0.05, G:0.08, T:0.47
Consensus pattern (36 bp):
ATATCTTTTAATATTGAATATTTAAAATGATAATAA
Found at i:11234311 original size:20 final size:20
Alignment explanation
Indices: 11234286--11234331 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
11234276 AAATTGATTT
11234286 GATCAACATCAATTGTCATA
1 GATCAACATCAATTGTCATA
*
11234306 GATCAACATGAATTGTCATA
1 GATCAACATCAATTGTCATA
11234326 GATCAA
1 GATCAA
11234332 TAACCGTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.28
Consensus pattern (20 bp):
GATCAACATCAATTGTCATA
Found at i:11243535 original size:47 final size:45
Alignment explanation
Indices: 11243439--11243563 Score: 164
Period size: 47 Copynumber: 2.8 Consensus size: 45
11243429 GGTAAGTATG
* * *
11243439 AAAATAAGCTTATGAGCTTAT-GAAT-AATGGCAAGTATATTGAT
1 AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAATATATTGAT
* *
11243482 AAAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAATATTTTGGT
1 AAAATAAGCTTACGAGCTTATGGAA--TAAATGGTAAATATATTGAT
*
11243529 AAAATAAGCTTACGAGCTTATGGGATAAATGGTAA
1 AAAATAAGCTTACGAGCTTATGGAATAAATGGTAA
11243564 GAGATTTTAT
Statistics
Matches: 72, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
43 20 0.28
44 3 0.04
45 10 0.14
46 1 0.01
47 38 0.53
ACGTcount: A:0.41, C:0.07, G:0.20, T:0.32
Consensus pattern (45 bp):
AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAATATATTGAT
Found at i:11246155 original size:47 final size:45
Alignment explanation
Indices: 11246087--11246258 Score: 229
Period size: 47 Copynumber: 3.8 Consensus size: 45
11246077 ATAAAATCTT
*
11246087 TTACCATTTATCCCATAAGCTCGTAAGCTTATTTTACCAAAATAC
1 TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATAC
* *
11246132 TTACCATTTAAATTCCATAAGCTCATAAGCTTATTTTATACAAAATAC
1 TTACCATTT--ATTCCATAAGCTCGTAAGCTTATTTTA-CCAAAATAC
* * *
11246180 TTACCATTTAATCTCATAAGCTCGTAAGCTTATTTTACCCATATAC
1 TTACCATTTATTC-CATAAGCTCGTAAGCTTATTTTACCAAAATAC
* *
11246226 TTGCCA-TTATTCCAAAAGCTCGTAAGCTTATTT
1 TTACCATTTATTCCATAAGCTCGTAAGCTTATTT
11246259 GTATGCTTAC
Statistics
Matches: 112, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
44 20 0.18
45 14 0.12
46 14 0.12
47 47 0.42
48 17 0.15
ACGTcount: A:0.33, C:0.22, G:0.07, T:0.38
Consensus pattern (45 bp):
TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATAC
Found at i:11246423 original size:40 final size:40
Alignment explanation
Indices: 11246366--11246524 Score: 282
Period size: 40 Copynumber: 4.0 Consensus size: 40
11246356 GTAGTGCTAT
*
11246366 ACATAAGGTCGTGCCCACCATATACATCGAAGTGTATTAC
1 ACATAAGGTCGTGCCCACCATATACACCGAAGTGTATTAC
* *
11246406 AAATAAGGTCGTGCCCACTATATACACCGAAGTGTATTAC
1 ACATAAGGTCGTGCCCACCATATACACCGAAGTGTATTAC
*
11246446 ACATAAGGTCGTGCCCACCATATACACCAAAGTGTATTAC
1 ACATAAGGTCGTGCCCACCATATACACCGAAGTGTATTAC
11246486 ACATAAGGTCGTGCCCACCATATACACCGAAGTGTATTA
1 ACATAAGGTCGTGCCCACCATATACACCGAAGTGTATTA
11246525 TAAACCTGCA
Statistics
Matches: 112, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 112 1.00
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.24
Consensus pattern (40 bp):
ACATAAGGTCGTGCCCACCATATACACCGAAGTGTATTAC
Found at i:11253145 original size:21 final size:20
Alignment explanation
Indices: 11253097--11253150 Score: 99
Period size: 20 Copynumber: 2.6 Consensus size: 20
11253087 CTATGAACAG
11253097 TGGGGGAATCGGTTCCCTGT
1 TGGGGGAATCGGTTCCCTGT
11253117 TGGGGGAATCGGTTCCCTGT
1 TGGGGGAATCGGTTCCCTGT
11253137 TGTGGGGAATCGGT
1 TG-GGGGAATCGGT
11253151 ACCCCAAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 22 0.67
21 11 0.33
ACGTcount: A:0.11, C:0.17, G:0.43, T:0.30
Consensus pattern (20 bp):
TGGGGGAATCGGTTCCCTGT
Found at i:11254267 original size:47 final size:45
Alignment explanation
Indices: 11254199--11254370 Score: 229
Period size: 47 Copynumber: 3.8 Consensus size: 45
11254189 ATAAAATCTT
*
11254199 TTACCATTTATCCCATAAGCTCGTAAGCTTATTTTACCAAAATAC
1 TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATAC
* *
11254244 TTACCATTTAAATTCCATAAGCTCATAAGCTTATTTTATACAAAATAC
1 TTACCATTT--ATTCCATAAGCTCGTAAGCTTATTTTA-CCAAAATAC
* * *
11254292 TTACCATTTAATCTCATAAGCTCGTAAGCTTATTTTACCCATATAC
1 TTACCATTTATTC-CATAAGCTCGTAAGCTTATTTTACCAAAATAC
* *
11254338 TTGCCA-TTATTCCAAAAGCTCGTAAGCTTATTT
1 TTACCATTTATTCCATAAGCTCGTAAGCTTATTT
11254371 GTATGCTTAC
Statistics
Matches: 112, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
44 20 0.18
45 14 0.12
46 14 0.12
47 47 0.42
48 17 0.15
ACGTcount: A:0.33, C:0.22, G:0.07, T:0.38
Consensus pattern (45 bp):
TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATAC
Found at i:11254533 original size:40 final size:40
Alignment explanation
Indices: 11254478--11254636 Score: 291
Period size: 40 Copynumber: 4.0 Consensus size: 40
11254468 GTAGTGCTAT
*
11254478 ACATAAGGTCGTGCCCACCATATACATCGAAGTGTATTAC
1 ACATAAGGTCGTGCCCACCATATACACCGAAGTGTATTAC
*
11254518 ACATAAGGTCGTGCCCACTATATACACCGAAGTGTATTAC
1 ACATAAGGTCGTGCCCACCATATACACCGAAGTGTATTAC
*
11254558 ACATAAGGTCGTGCCCACCATATACACCAAAGTGTATTAC
1 ACATAAGGTCGTGCCCACCATATACACCGAAGTGTATTAC
11254598 ACATAAGGTCGTGCCCACCATATACACCGAAGTGTATTA
1 ACATAAGGTCGTGCCCACCATATACACCGAAGTGTATTA
11254637 TAAACCTGCA
Statistics
Matches: 114, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 114 1.00
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (40 bp):
ACATAAGGTCGTGCCCACCATATACACCGAAGTGTATTAC
Found at i:11261747 original size:10 final size:10
Alignment explanation
Indices: 11261732--11261766 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
11261722 AAAGATATCG
11261732 ATATCTTTTA
1 ATATCTTTTA
*
11261742 ATATCTTTTG
1 ATATCTTTTA
11261752 ATATCTTTTCA
1 ATATCTTTT-A
11261763 ATAT
1 ATAT
11261767 TCAAATTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 18 0.82
11 4 0.18
ACGTcount: A:0.29, C:0.11, G:0.03, T:0.57
Consensus pattern (10 bp):
ATATCTTTTA
Found at i:11262167 original size:16 final size:16
Alignment explanation
Indices: 11262148--11262178 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11262138 TTTGAGTTTT
*
11262148 AAAAAATGAAATAGCG
1 AAAAAAGGAAATAGCG
11262164 AAAAAAGGAAATAGC
1 AAAAAAGGAAATAGC
11262179 AGTCCGCTAT
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:0.65, C:0.06, G:0.19, T:0.10
Consensus pattern (16 bp):
AAAAAAGGAAATAGCG
Found at i:11264696 original size:18 final size:18
Alignment explanation
Indices: 11264670--11264704 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
11264660 ATTTAGTTTG
11264670 AATTAATTAAATCAAAAA
1 AATTAATTAAATCAAAAA
* *
11264688 AATTTATTAATTCAAAA
1 AATTAATTAAATCAAAA
11264705 TAACTTAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (18 bp):
AATTAATTAAATCAAAAA
Found at i:11270964 original size:77 final size:78
Alignment explanation
Indices: 11270832--11270975 Score: 186
Period size: 77 Copynumber: 1.9 Consensus size: 78
11270822 GTAAACATTA
**
11270832 AAAGAATGTAATTTTGATTACAACTCTTTTAATCGATATTTAATTCGGAATAATTAAATAAGATT
1 AAAGAATGTAATTCAGATTACAACTCTTTTAATCGATATTTAATTCGGAATAATTAAATAAGATT
11270897 TTAAATAAATGTT
66 TTAAATAAATGTT
* * * * *
11270910 AAAGATTGTAATTCAGATTATAAGTC-TTTAAT-GTATATTTAATT-TGAATTAATTAAATCAGA
1 AAAGAATGTAATTCAGATTACAACTCTTTTAATCG-ATATTTAATTCGGAA-TAATTAAATAAGA
11270972 TTTT
64 TTTT
11270976 TTATTAATTT
Statistics
Matches: 57, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
76 4 0.07
77 32 0.56
78 21 0.37
ACGTcount: A:0.41, C:0.06, G:0.10, T:0.43
Consensus pattern (78 bp):
AAAGAATGTAATTCAGATTACAACTCTTTTAATCGATATTTAATTCGGAATAATTAAATAAGATT
TTAAATAAATGTT
Found at i:11271574 original size:12 final size:12
Alignment explanation
Indices: 11271557--11271668 Score: 97
Period size: 12 Copynumber: 9.5 Consensus size: 12
11271547 AATCCACCAC
11271557 TAGTAACCGATA
1 TAGTAACCGATA
*
11271569 TAGTAACTGATA
1 TAGTAACCGATA
*
11271581 TAGTAATCGATA
1 TAGTAACCGATA
*
11271593 TAGTAA--GTTCA
1 TAGTAACCGAT-A
* **
11271604 CCAAAAACC-A-A
1 -TAGTAACCGATA
11271615 TAGTAACCGATA
1 TAGTAACCGATA
*
11271627 TAGTAATCGATA
1 TAGTAACCGATA
*
11271639 TAGTAACTGATA
1 TAGTAACCGATA
*
11271651 TAGTAATCGATA
1 TAGTAACCGATA
11271663 TAGTAA
1 TAGTAA
11271669 GTTCACCAAA
Statistics
Matches: 78, Mismatches: 16, Indels: 12
0.74 0.15 0.11
Matches are distributed among these distances:
10 7 0.09
11 3 0.04
12 68 0.87
ACGTcount: A:0.44, C:0.12, G:0.15, T:0.29
Consensus pattern (12 bp):
TAGTAACCGATA
Found at i:11271591 original size:24 final size:24
Alignment explanation
Indices: 11271557--11271668 Score: 115
Period size: 24 Copynumber: 4.8 Consensus size: 24
11271547 AATCCACCAC
*
11271557 TAGTAACCGATATAGTAACTGATA
1 TAGTAATCGATATAGTAACTGATA
*
11271581 TAGTAATCGATATAGTAA--GTTCA
1 TAGTAATCGATATAGTAACTGAT-A
* * * * *
11271604 CCA-AAAACCA-ATAGTAACCGATA
1 -TAGTAATCGATATAGTAACTGATA
11271627 TAGTAATCGATATAGTAACTGATA
1 TAGTAATCGATATAGTAACTGATA
11271651 TAGTAATCGATATAGTAA
1 TAGTAATCGATATAGTAA
11271669 GTTCACCAAA
Statistics
Matches: 70, Mismatches: 12, Indels: 12
0.74 0.13 0.13
Matches are distributed among these distances:
22 10 0.14
23 10 0.14
24 50 0.71
ACGTcount: A:0.44, C:0.12, G:0.15, T:0.29
Consensus pattern (24 bp):
TAGTAATCGATATAGTAACTGATA
Found at i:11271651 original size:70 final size:70
Alignment explanation
Indices: 11271557--11271702 Score: 283
Period size: 70 Copynumber: 2.1 Consensus size: 70
11271547 AATCCACCAC
11271557 TAGTAACCGATATAGTAACTGATATAGTAATCGATATAGTAAGTTCACCAAAAACCAATAGTAAC
1 TAGTAACCGATATAGTAACTGATATAGTAATCGATATAGTAAGTTCACCAAAAACCAATAGTAAC
11271622 CGATA
66 CGATA
*
11271627 TAGTAATCGATATAGTAACTGATATAGTAATCGATATAGTAAGTTCACCAAAAACCAATAGTAAC
1 TAGTAACCGATATAGTAACTGATATAGTAATCGATATAGTAAGTTCACCAAAAACCAATAGTAAC
11271692 CGATA
66 CGATA
11271697 TAGTAA
1 TAGTAA
11271703 ACCCTAAACC
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 75 1.00
ACGTcount: A:0.45, C:0.14, G:0.14, T:0.27
Consensus pattern (70 bp):
TAGTAACCGATATAGTAACTGATATAGTAATCGATATAGTAAGTTCACCAAAAACCAATAGTAAC
CGATA
Found at i:11271712 original size:7 final size:7
Alignment explanation
Indices: 11271700--11271724 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
11271690 ACCGATATAG
11271700 TAAACCC
1 TAAACCC
11271707 TAAACCC
1 TAAACCC
11271714 TAAACCC
1 TAAACCC
11271721 TAAA
1 TAAA
11271725 TCTTATATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.48, C:0.36, G:0.00, T:0.16
Consensus pattern (7 bp):
TAAACCC
Found at i:11272777 original size:16 final size:16
Alignment explanation
Indices: 11272742--11272780 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
11272732 ATTTTAAAAT
*
11272742 ATTTTATTATAATTTT
1 ATTTTATTATAATTTG
11272758 ATTTTATTA-AATTTAG
1 ATTTTATTATAATTT-G
11272774 ATTTTAT
1 ATTTTAT
11272781 CTTTTTCCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 5 0.24
16 16 0.76
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (16 bp):
ATTTTATTATAATTTG
Found at i:11282166 original size:21 final size:20
Alignment explanation
Indices: 11282141--11282185 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
11282131 GTTTTAATCT
11282141 ATTTTAAAATATTTTATTATA
1 ATTTTAAAATATTTTATTA-A
***
11282162 ATTTTATTTTATTTTATTAA
1 ATTTTAAAATATTTTATTAA
11282182 ATTT
1 ATTT
11282186 AGATTTTATC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (20 bp):
ATTTTAAAATATTTTATTAA
Found at i:11282191 original size:21 final size:21
Alignment explanation
Indices: 11282150--11282194 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
11282140 TATTTTAAAA
*
11282150 TATTTTATTATAATTTTATTT
1 TATTTTATTATAATTTGATTT
11282171 TATTTTATTA-AATTTAGATTT
1 TATTTTATTATAATTT-GATTT
11282192 TAT
1 TAT
11282195 CTTTTTCCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 5 0.23
21 17 0.77
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (21 bp):
TATTTTATTATAATTTGATTT
Found at i:11285261 original size:19 final size:19
Alignment explanation
Indices: 11285239--11285280 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
11285229 TGAATTTTTT
11285239 CTTTTGCTCATGAACCCCC
1 CTTTTGCTCATGAACCCCC
**
11285258 CTTTTGCTTGTGAACCCCC
1 CTTTTGCTCATGAACCCCC
11285277 CTTT
1 CTTT
11285281 CTCCTTACTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.12, C:0.38, G:0.12, T:0.38
Consensus pattern (19 bp):
CTTTTGCTCATGAACCCCC
Found at i:11287192 original size:55 final size:54
Alignment explanation
Indices: 11286530--11288021 Score: 1332
Period size: 55 Copynumber: 27.8 Consensus size: 54
11286520 ATCGTGTCTA
* * * * *
11286530 CTCCCTATTTCTTCAGAGAGTAT-GAGACTCGAACAATCTTCAAT-AATCGTGTTTG
1 CTCCCTCTTTCTTCAGGGAGTATAGA-ACTCGAACAATCTTC--TCAAACGGGTTCG
* * * * *
11286585 CTCCCTATTTCTTCAGAGAGTAT-GAGACTCGAACAATCTTCAACAATCGTG-TCTG
1 CTCCCTCTTTCTTCAGGGAGTATAGA-ACTCGAACAATCTTC-TCAAACGGGTTC-G
* * * * * *
11286640 CTCCCTATTTCTTCAGAGAGTATATG-ACTCGAACAATCTTCAACAATCGTGTCCG
1 CTCCCTCTTTCTTCAGGGAGTATA-GAACTCGAACAATCTTC-TCAAACGGGTTCG
* * * * * * *
11286695 CTCCCTATTTTTTCAGAGAGTATA-AGACTTGAACAATCTTCAAT-AATCGTGTTTG
1 CTCCCTCTTTCTTCAGGGAGTATAGA-ACTCGAACAATCTTC--TCAAACGGGTTCG
* * * * *
11286750 CTCCCT-ATTCTTTTAGAGAGTATA-AGACTCGAACAATCTTCAAT-AATCGTG-TCTG
1 CTCCCTCTTTC-TTCAGGGAGTATAGA-ACTCGAACAATCTTC--TCAAACGGGTTC-G
* * ***
11286805 CTCCCT-ATTCTTTCAGAGAGTAT-GAGACTCGAACAATC-T-TCAATAATTGTGTCTG
1 CTCCCTCTTTC-TTCAGGGAGTATAGA-ACTCGAACAATCTTCTCAA-ACGGGT-TC-G
* * ***
11286860 CTCCCT-ATTCTTTCAGAGAGTATA-AGACTCGAACAATC-T-TCAATAATTGTGTCTG
1 CTCCCTCTTTC-TTCAGGGAGTATAGA-ACTCGAACAATCTTCTCAA-ACGGGT-TC-G
* * * * * *
11286915 CTCCCT-ATTCTTTCAGAGAGTATA-AGACTCGAACAATCTTCAACAATCGTGTCCG
1 CTCCCTCTTTC-TTCAGGGAGTATAGA-ACTCGAACAATCTTC-TCAAACGGGTTCG
* * * * *
11286970 CTCCCT-ATTCTTCAGAGAGTAT-GAGACTCGAACAATCTTCAACCATCGGGTTCG
1 CTCCCTCTTTCTTCAGGGAGTATAGA-ACTCGAACAATCTTC-TCAAACGGGTTCG
* ** *
11287024 CTCCCTCTTT-TTTAAAGAGTATAGAACTCGAAC-TTCTTCTGCAAACGGGTTCG
1 CTCCCTCTTTCTTCAGGGAGTATAGAACTCGAACAATCTTCT-CAAACGGGTTCG
** * *
11287077 CTCCCTCTTTAGTCAGGGAGTATAGAACTC-AAAAATC-T-TCAAACGGGTTCA
1 CTCCCTCTTTCTTCAGGGAGTATAGAACTCGAACAATCTTCTCAAACGGGTTCG
* *
11287128 CTCCCTCTTTCTTCAGGGAGTATAGAACTCAAACAATCTTCATCAAACAGGTTCG
1 CTCCCTCTTTCTTCAGGGAGTATAGAACTCGAACAATCTTC-TCAAACGGGTTCG
*
11287183 CTCCCTCTTTCTTCAGGAAGTATAGAACTCGAACAATC-T-TCAAACGGGTTCG
1 CTCCCTCTTTCTTCAGGGAGTATAGAACTCGAACAATCTTCTCAAACGGGTTCG
* *
11287235 CTCCCTCTTTC-TCTAGGGAGTATAGAACTCGGAC-ATCTTCTTCAAACGGGTTTG
1 CTCCCTCTTTCTTC-AGGGAGTATAGAACTCGAACAATCTTC-TCAAACGGGTTCG
* * *
11287289 CTTCCTCTTTCTTTAGGAAGTATAGAACTCGAACAATC-T-TCAAACGGGTTCG
1 CTCCCTCTTTCTTCAGGGAGTATAGAACTCGAACAATCTTCTCAAACGGGTTCG
* * ** *
11287341 CTCCCTC--TCTTTAGGGAGTATGGAACTCGAAC-ATCTTCTTCTTACGAGTTCG
1 CTCCCTCTTTCTTCAGGGAGTATAGAACTCGAACAATCTTC-TCAAACGGGTTCG
*
11287393 CTCCCTCTTTC-TCTAGGGAGTATAGAACTCGGAC-ATCTTCTTCAAACGGGTTCG
1 CTCCCTCTTTCTTC-AGGGAGTATAGAACTCGAACAATCTTC-TCAAACGGGTTCG
* *
11287447 CTCCCTCTTTCTTCAGGGAGTATAAAACTCGAACAATCTTCTGAAAACGGGTTCG
1 CTCCCTCTTTCTTCAGGGAGTATAGAACTCGAACAATCTTCT-CAAACGGGTTCG
*
11287502 CTCCCTCTTTCTTCAGGGAGTATAGAACTCGAACAATCTTCTGAAAACGGGTTCG
1 CTCCCTCTTTCTTCAGGGAGTATAGAACTCGAACAATCTTCT-CAAACGGGTTCG
* * *
11287557 CTCCCTTTTTCTTCAGGGAGTATAGAACTCGAACAATCTTCTGAAAATGGGTTCG
1 CTCCCTCTTTCTTCAGGGAGTATAGAACTCGAACAATCTTCT-CAAACGGGTTCG
*
11287612 CTCCCTCTTTCTTCAGGGAGTATAGAACTCAAACAATC-T-TCAAACGGGTTCG
1 CTCCCTCTTTCTTCAGGGAGTATAGAACTCGAACAATCTTCTCAAACGGGTTCG
* * * * *
11287664 CTCCCTC--TCTTTAGGTAGTATAGAACTCGAAC-ATATTCTTAAAACGGGTCCG
1 CTCCCTCTTTCTTCAGGGAGTATAGAACTCGAACAATCTTC-TCAAACGGGTTCG
*
11287716 CTCCCTCTTTC-TCTAGGGAGTATAGAACTC-AGAC-ATCTTCTTCAAACAGGTTCG
1 CTCCCTCTTTCTTC-AGGGAGTATAGAACTCGA-ACAATCTTC-TCAAACGGGTTCG
* *
11287770 CTCCCTCTTTCTTCAGGAAGTATAGAACACGAACAATC-T-TCAAACGGGTTCG
1 CTCCCTCTTTCTTCAGGGAGTATAGAACTCGAACAATCTTCTCAAACGGGTTCG
* *
11287822 CTCCCTCTTTC-TCTAGGGAGTATAGAACTCGGAC-ATCTTCTTCAAACGGTTTCG
1 CTCCCTCTTTCTTC-AGGGAGTATAGAACTCGAACAATCTTC-TCAAACGGGTTCG
* *
11287876 CTCCCTCTTTCTTTAGGAAGTATAGAACTCGAACAATC-T-TCAAACGGGTTCG
1 CTCCCTCTTTCTTCAGGGAGTATAGAACTCGAACAATCTTCTCAAACGGGTTCG
* *
11287928 CTCCCTC--TCTTTAGGGAGTATAGAACTCGAACAATCTTCTGAAAACGGGTTCG
1 CTCCCTCTTTCTTCAGGGAGTATAGAACTCGAACAATCTTCT-CAAACGGGTTCG
11287981 CTCCCTCTTTCTTCAGGGAGTATAGAACTCGAA-AATCTTCT
1 CTCCCTCTTTCTTCAGGGAGTATAGAACTCGAACAATCTTCT
11288022 TTTGCTTCAC
Statistics
Matches: 1269, Mismatches: 103, Indels: 131
0.84 0.07 0.09
Matches are distributed among these distances:
49 5 0.00
50 75 0.06
51 51 0.04
52 182 0.14
53 53 0.04
54 310 0.24
55 582 0.46
56 4 0.00
57 4 0.00
58 3 0.00
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (54 bp):
CTCCCTCTTTCTTCAGGGAGTATAGAACTCGAACAATCTTCTCAAACGGGTTCG
Found at i:11287658 original size:587 final size:588
Alignment explanation
Indices: 11286871--11288022 Score: 1680
Period size: 587 Copynumber: 2.0 Consensus size: 588
11286861 TCCCTATTCT
* **
11286871 TTCAGAGAGTATAAGACTCGAACAATCTTCAATAATTGTGTCTGCTCCCTATTCTTTCAGAGAGT
1 TTCAGAGAGTATAAAACTCGAACAATCTTCAATAAGGGTGTCTGCTCCCTATTCTTTCAGAGAGT
*
11286936 ATAAGACTCGAACAATCTTCAACAATCGTGTCCGCTCCCTATTCTTCAGAGAGTATGAGACTCGA
66 ATAAGACTCGAACAATCTTCAACAATCGGGTCCGCTCCCTATTCTTCAGAGAGTATGAGACTCGA
* * * *
11287001 ACAATCTTCAACCATCGGGTTCGCTCCCTCTTTTTTAAAGAGTATAGAACTCGAACTTCTTCTGC
131 ACAATCTTCAACAATCGGGTTCGCTCCCTCTTTTTCAAAGAGTATAGAACTCAAACATCTTCTGC
* *
11287066 AAACGGGTTCGCTCCCTCT-TTAGTCAGGGAGTATAGAACTC-AA-A-AATCTTCAAACGGGTTC
196 AAACGGGTTCGCTCCCTCTCTT--T-AGGGAGTATAGAACTCGAACATAATCTTAAAACGGGTCC
11287127 ACTCCCTCTTTCT-TCAGGGAGTATAGAACTCAAACAATCTTCATCAAACAGGTTCGCTCCCTCT
258 ACTCCCTCTTTCTCT-AGGGAGTATAGAACTCAAAC-ATCTTCATCAAACAGGTTCGCTCCCTCT
*
11287191 TTCTTCAGGAAGTATAGAACTCGAACAATCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGT
321 TTCTTCAGGAAGTATAGAACACGAACAATCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGT
*
11287256 ATAGAACTCGGACATCTTCTTCAAACGGGTTT-GCTTCCTCTTTCTTTAGGAAGTATAGAACTCG
386 ATAGAACTCGGACATCTTCTTCAAAC-GGTTTCGCTCCCTCTTTCTTTAGGAAGTATAGAACTCG
* ****
11287320 AACAATCTTCAAACGGGTTCGCTCCCTCTCTTTAGGGAGTATGGAACTCGAAC-ATCTTCTTCTT
450 AACAATCTTCAAACGGGTTCGCTCCCTCTCTTTAGGGAGTATAGAACTCGAACAATCTTCTGAAA
* *
11287384 ACGAGTTCGCTCCCTCTTTC-TCTAGGGAGTATAGAACTCGGACATCTTCTTCAAACGGGTTCGC
515 ACGAGTTCGCTCCCTCTTTCTTC-AGGGAGTATAGAACTCGAAAATCTTCTTCAAACGGGTTCGC
11287448 TCCCTCTTTC
579 TCCCTCTTTC
* * *
11287458 TTCAGGGAGTATAAAACTCGAACAATCTTCTGAA-AACGGGT-TC-GCTCCCTCTT-TCTTCAGG
1 TTCAGAGAGTATAAAACTCGAACAATCTTC--AATAA-GGGTGTCTGCTCCCTATTCT-TTCAGA
* * *
11287519 GAGTAT-AGAACTCGAACAATCTTCTGAA-AA-CGGGTTCGCTCCCTTTTTCTTCAGGGAGTAT-
62 GAGTATAAG-ACTCGAACAATCTTC--AACAATCGGGTCCGCTCCC-TATTCTTCAGAGAGTATG
**
11287580 AGAACTCGAACAATCTTCTGAA-AAT-GGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCA
123 AG-ACTCGAACAATCTTC--AACAATCGGGTTCGCTCCCTCTTT-TTCAAAGAGTATAGAACTCA
* *
11287643 AACAATC-T-T-CAAACGGGTTCGCTCCCTCTCTTTAGGTAGTATAGAACTCGAACATATTCTTA
184 AAC-ATCTTCTGCAAACGGGTTCGCTCCCTCTCTTTAGGGAGTATAGAACTCGAACATAATCTTA
* * *
11287705 AAACGGGTCCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCAGACATCTTCTTCAAACAGGTTCG
248 AAACGGGTCCACTCCCTCTTTCTCTAGGGAGTATAGAACTCAAACATCTTCATCAAACAGGTTCG
11287770 CTCCCTCTTTCTTCAGGAAGTATAGAACACGAACAATCTTCAAACGGGTTCGCTCCCTCTTTCTC
313 CTCCCTCTTTCTTCAGGAAGTATAGAACACGAACAATCTTCAAACGGGTTCGCTCCCTCTTTCTC
11287835 TAGGGAGTATAGAACTCGGACATCTTCTTCAAACGGTTTCGCTCCCTCTTTCTTTAGGAAGTATA
378 TAGGGAGTATAGAACTCGGACATCTTCTTCAAACGGTTTCGCTCCCTCTTTCTTTAGGAAGTATA
11287900 GAACTCGAACAATCTTCAAACGGGTTCGCTCCCTCTCTTTAGGGAGTATAGAACTCGAACAATCT
443 GAACTCGAACAATCTTCAAACGGGTTCGCTCCCTCTCTTTAGGGAGTATAGAACTCGAACAATCT
*
11287965 TCTGAAAACGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAAAATCTTCTT
508 TCTGAAAACGAGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAAAATCTTCTT
11288023 TTGCTTCACT
Statistics
Matches: 511, Mismatches: 33, Indels: 41
0.87 0.06 0.07
Matches are distributed among these distances:
585 15 0.03
586 11 0.02
587 297 0.58
588 153 0.30
589 31 0.06
590 4 0.01
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.31
Consensus pattern (588 bp):
TTCAGAGAGTATAAAACTCGAACAATCTTCAATAAGGGTGTCTGCTCCCTATTCTTTCAGAGAGT
ATAAGACTCGAACAATCTTCAACAATCGGGTCCGCTCCCTATTCTTCAGAGAGTATGAGACTCGA
ACAATCTTCAACAATCGGGTTCGCTCCCTCTTTTTCAAAGAGTATAGAACTCAAACATCTTCTGC
AAACGGGTTCGCTCCCTCTCTTTAGGGAGTATAGAACTCGAACATAATCTTAAAACGGGTCCACT
CCCTCTTTCTCTAGGGAGTATAGAACTCAAACATCTTCATCAAACAGGTTCGCTCCCTCTTTCTT
CAGGAAGTATAGAACACGAACAATCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGA
ACTCGGACATCTTCTTCAAACGGTTTCGCTCCCTCTTTCTTTAGGAAGTATAGAACTCGAACAAT
CTTCAAACGGGTTCGCTCCCTCTCTTTAGGGAGTATAGAACTCGAACAATCTTCTGAAAACGAGT
TCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAAAATCTTCTTCAAACGGGTTCGCTCCCTCT
TTC
Found at i:11293167 original size:7 final size:7
Alignment explanation
Indices: 11293155--11293187 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
11293145 AAATACATAC
11293155 AATGCAA
1 AATGCAA
11293162 AATGCAA
1 AATGCAA
*
11293169 AATGCAG
1 AATGCAA
11293176 AATGC-A
1 AATGCAA
11293182 AATGCA
1 AATGCA
11293188 CGATGTGTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
6 5 0.22
7 18 0.78
ACGTcount: A:0.52, C:0.15, G:0.18, T:0.15
Consensus pattern (7 bp):
AATGCAA
Found at i:11293462 original size:21 final size:21
Alignment explanation
Indices: 11293444--11293540 Score: 142
Period size: 21 Copynumber: 4.6 Consensus size: 21
11293434 TGATCTTCAT
*
11293444 GTCTTTATGAAGGGTCTTCAT-
1 GTCTTTATGAATGGTCTTC-TC
11293465 GTCTTTATGAATGGTCTTCTC
1 GTCTTTATGAATGGTCTTCTC
11293486 GTCTTTATGAATGGTCTTCTC
1 GTCTTTATGAATGGTCTTCTC
*
11293507 GTCTTTATGAATGCTCTTCTC
1 GTCTTTATGAATGGTCTTCTC
* *
11293528 GTCCTTATAAATG
1 GTCTTTATGAATG
11293541 ACTATATATA
Statistics
Matches: 71, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
20 1 0.01
21 70 0.99
ACGTcount: A:0.18, C:0.19, G:0.19, T:0.45
Consensus pattern (21 bp):
GTCTTTATGAATGGTCTTCTC
Found at i:11295589 original size:2 final size:2
Alignment explanation
Indices: 11295584--11295636 Score: 99
Period size: 2 Copynumber: 27.0 Consensus size: 2
11295574 ACATTATACC
11295584 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
11295626 AT AT AT A- AT AT
1 AT AT AT AT AT AT
11295637 GCAATGCAAA
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 49 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:11295751 original size:19 final size:19
Alignment explanation
Indices: 11295727--11295764 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
11295717 TTTAAATAAG
11295727 TACCAAATCATATTAAACC
1 TACCAAATCATATTAAACC
11295746 TACCAAATCATATTAAACC
1 TACCAAATCATATTAAACC
11295765 AAACTTCACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.26, G:0.00, T:0.26
Consensus pattern (19 bp):
TACCAAATCATATTAAACC
Found at i:11296769 original size:18 final size:19
Alignment explanation
Indices: 11296727--11296768 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
11296717 TGAATTTTTT
11296727 CTTTTGCTCGTGAACCCCC
1 CTTTTGCTCGTGAACCCCC
11296746 CTTTTGCTCGTGAACCCCC
1 CTTTTGCTCGTGAACCCCC
11296765 CTTT
1 CTTT
11296769 GTCCTTGCTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.10, C:0.40, G:0.14, T:0.36
Consensus pattern (19 bp):
CTTTTGCTCGTGAACCCCC
Found at i:11297747 original size:3 final size:3
Alignment explanation
Indices: 11297741--11297776 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
11297731 ACATTATTAT
11297741 TAA TAA TAA -AA TAA T-A TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
11297777 TCTCGGACAA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 4 0.13
3 27 0.87
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:11301431 original size:39 final size:39
Alignment explanation
Indices: 11301377--11301465 Score: 115
Period size: 39 Copynumber: 2.3 Consensus size: 39
11301367 GAACATGCGA
** *
11301377 TAAGGACTTACCCTGAGCAAAAAGTAGAGGAGCCTGCAG
1 TAAGGACTTACCCTGAGCAAAAACCAGACGAGCCTGCAG
* * *
11301416 TAAGGACTTATCCTGAGCACAAACCAGACGAGCCTGCGG
1 TAAGGACTTACCCTGAGCAAAAACCAGACGAGCCTGCAG
*
11301455 TAAGGTCTTAC
1 TAAGGACTTAC
11301466 AAGTCATAGA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.33, C:0.24, G:0.26, T:0.18
Consensus pattern (39 bp):
TAAGGACTTACCCTGAGCAAAAACCAGACGAGCCTGCAG
Found at i:11301657 original size:29 final size:26
Alignment explanation
Indices: 11301592--11301657 Score: 62
Period size: 29 Copynumber: 2.3 Consensus size: 26
11301582 AGACTCAAAA
11301592 ATCAGATACAGAAATACAGAAATCATAG
1 ATCAGATA-AGAAATACAGAAATCA-AG
*
11301620 ATCATATAAGAAATGTACAGTAAATC-AG
1 ATCAGATAAGAAA--TACAG-AAATCAAG
11301648 ATTCAGATAA
1 A-TCAGATAA
11301658 ACAATATTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
27 5 0.16
28 10 0.31
29 12 0.38
30 5 0.16
ACGTcount: A:0.52, C:0.12, G:0.14, T:0.23
Consensus pattern (26 bp):
ATCAGATAAGAAATACAGAAATCAAG
Found at i:11303602 original size:42 final size:42
Alignment explanation
Indices: 11303543--11303858 Score: 469
Period size: 41 Copynumber: 7.6 Consensus size: 42
11303533 GATTCGCAAC
* * *
11303543 GCGATAGTCGAAGTTCGCATTGCGATTTATTCCAAATTCGTT
1 GCGATAGGCGAAGTTCGCGTTGCGATTCATTCCAAATTCGTT
* * *
11303585 GCGATAGGGGAAATTCGCGTTGCGATTCATTTCAAA-TCGTT
1 GCGATAGGCGAAGTTCGCGTTGCGATTCATTCCAAATTCGTT
*
11303626 GCGATAGTCGAAGTTCGCGTTGCGATTCATTCCAAA-TCGTT
1 GCGATAGGCGAAGTTCGCGTTGCGATTCATTCCAAATTCGTT
* *
11303667 ACGATAGGCGAAGTTCGCATTGCGATTCATTCC-AATTCGTT
1 GCGATAGGCGAAGTTCGCGTTGCGATTCATTCCAAATTCGTT
*
11303708 GCGATAGGCGAAGTTCGCGTTGCGATTCATTCC-AATTTGTT
1 GCGATAGGCGAAGTTCGCGTTGCGATTCATTCCAAATTCGTT
*
11303749 GTGATAGGCGAAGTTCGCGTTGCGATTCATTCCAAATTCGTT
1 GCGATAGGCGAAGTTCGCGTTGCGATTCATTCCAAATTCGTT
* * *
11303791 GAGATTGGCGAAGTTCGCGTTGCGATTCATTCCAAATTCATT
1 GCGATAGGCGAAGTTCGCGTTGCGATTCATTCCAAATTCGTT
*
11303833 GCGATAGGTGAAGTTCGCGTTGCGAT
1 GCGATAGGCGAAGTTCGCGTTGCGAT
11303859 AGTCCAAATA
Statistics
Matches: 248, Mismatches: 24, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
40 2 0.01
41 147 0.59
42 99 0.40
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.33
Consensus pattern (42 bp):
GCGATAGGCGAAGTTCGCGTTGCGATTCATTCCAAATTCGTT
Found at i:11303711 original size:20 final size:20
Alignment explanation
Indices: 11303602--11303712 Score: 59
Period size: 20 Copynumber: 5.5 Consensus size: 20
11303592 GGGAAATTCG
* *
11303602 CGTTGCGATTCATTTCAAAT
1 CGTTGCGATTCATTCCAATT
* *
11303622 CGTTGCGA-T-AGTCGAAGTT
1 CGTTGCGATTCATTCCAA-TT
*
11303641 CGCGTTGCGATTCATTCCAAAT
1 --CGTTGCGATTCATTCCAATT
* ** *
11303663 CGTTACGA-T-AGGCGAAGTT
1 CGTTGCGATTCATTCCAA-TT
11303682 CGCATTGCGATTCATTCCAATT
1 CG--TTGCGATTCATTCCAATT
11303704 CGTTGCGAT
1 CGTTGCGAT
11303713 AGGCGAAGTT
Statistics
Matches: 65, Mismatches: 16, Indels: 20
0.64 0.16 0.20
Matches are distributed among these distances:
18 8 0.12
19 6 0.09
20 22 0.34
21 13 0.20
22 7 0.11
23 9 0.14
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.33
Consensus pattern (20 bp):
CGTTGCGATTCATTCCAATT
Found at i:11303949 original size:6 final size:6
Alignment explanation
Indices: 11303938--11303970 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
11303928 GACATGTATT
11303938 ACCACG ACCACG ACCACG ACCACG ACCACG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACC
11303971 CGAGACGAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.33, C:0.52, G:0.15, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:11304678 original size:6 final size:6
Alignment explanation
Indices: 11304649--11304688 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
11304639 TCCCGTCCCG
* * *
11304649 GGTCGT GGCCGT GGCCGT GGTCGT GTTCGT GGTCGT GGTC
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTC
11304689 ATACGTGTCT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.00, C:0.23, G:0.47, T:0.30
Consensus pattern (6 bp):
GGTCGT
Found at i:11320449 original size:9 final size:9
Alignment explanation
Indices: 11320437--11320507 Score: 70
Period size: 9 Copynumber: 7.3 Consensus size: 9
11320427 TTTTTTGAAA
11320437 TTTTGTCTTT
1 TTTTGT-TTT
*
11320447 TTTGGTTTTTT
1 TTTTG-TT-TT
*
11320458 TTTTGGTTT
1 TTTTGTTTT
11320467 TTTTGTTTT
1 TTTTGTTTT
*
11320476 TTTTGCCTTT
1 TTTTG-TTTT
11320486 TTTTGTTTTT
1 TTTTG-TTTT
11320496 TTTTGTTTT
1 TTTTGTTTT
11320505 TTT
1 TTT
11320508 AAAAAAAAAT
Statistics
Matches: 51, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
9 22 0.43
10 22 0.43
11 7 0.14
ACGTcount: A:0.00, C:0.04, G:0.13, T:0.83
Consensus pattern (9 bp):
TTTTGTTTT
Found at i:11320459 original size:19 final size:19
Alignment explanation
Indices: 11320437--11320507 Score: 72
Period size: 20 Copynumber: 3.7 Consensus size: 19
11320427 TTTTTTGAAA
11320437 TTTTGTCTTTTTTGGTTTT
1 TTTTGTCTTTTTTGGTTTT
* * *
11320456 TTTTTTGGTTTTTTTGTTTT
1 TTTTGT-CTTTTTTGGTTTT
* *
11320476 TTTTGCCTTTTTTTGTTTTT
1 TTTTGTC-TTTTTTGGTTTT
11320496 TTTTGT-TTTTTT
1 TTTTGTCTTTTTT
11320508 AAAAAAAAAT
Statistics
Matches: 41, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
18 6 0.15
19 5 0.12
20 30 0.73
ACGTcount: A:0.00, C:0.04, G:0.13, T:0.83
Consensus pattern (19 bp):
TTTTGTCTTTTTTGGTTTT
Found at i:11320461 original size:12 final size:12
Alignment explanation
Indices: 11320444--11320470 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
11320434 AAATTTTGTC
11320444 TTTTTTGGTTTT
1 TTTTTTGGTTTT
11320456 TTTTTTGGTTTT
1 TTTTTTGGTTTT
11320468 TTT
1 TTT
11320471 GTTTTTTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (12 bp):
TTTTTTGGTTTT
Found at i:11323623 original size:21 final size:21
Alignment explanation
Indices: 11323598--11323643 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
11323588 TGTTTCCTTC
11323598 TTTTAGAGTTTAATTGATGGG
1 TTTTAGAGTTTAATTGATGGG
* * **
11323619 TTTTATATTTTCTTTGATGGG
1 TTTTAGAGTTTAATTGATGGG
11323640 TTTT
1 TTTT
11323644 TATTTACTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.17, C:0.02, G:0.22, T:0.59
Consensus pattern (21 bp):
TTTTAGAGTTTAATTGATGGG
Found at i:11323655 original size:21 final size:21
Alignment explanation
Indices: 11323611--11323653 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
11323601 TAGAGTTTAA
*
11323611 TTGATGGGTTTTATATTTTCT
1 TTGATGGGTTTTATATTTACT
11323632 TTGATGGGTTTT-TATTTACT
1 TTGATGGGTTTTATATTTACT
11323652 TT
1 TT
11323654 TGTCTTTCCC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.14, C:0.05, G:0.19, T:0.63
Consensus pattern (21 bp):
TTGATGGGTTTTATATTTACT
Found at i:11325297 original size:31 final size:31
Alignment explanation
Indices: 11325262--11325365 Score: 181
Period size: 31 Copynumber: 3.4 Consensus size: 31
11325252 ACATTAGTCT
*
11325262 CTAAACTTTAATCTATACATCAATTTGGTCA
1 CTAAACTTTAATTTATACATCAATTTGGTCA
*
11325293 CTAAACTTTGATTTATACATCAATTTGGTCA
1 CTAAACTTTAATTTATACATCAATTTGGTCA
*
11325324 CTAAACTTTGATTTATACATCAATTTGGTCA
1 CTAAACTTTAATTTATACATCAATTTGGTCA
11325355 CTAAACTTTAA
1 CTAAACTTTAA
11325366 AACACTTACG
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 70 1.00
ACGTcount: A:0.35, C:0.17, G:0.08, T:0.40
Consensus pattern (31 bp):
CTAAACTTTAATTTATACATCAATTTGGTCA
Found at i:11345059 original size:19 final size:19
Alignment explanation
Indices: 11345024--11345067 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
11345014 TGTATATATA
*
11345024 TTTCTATCATTTCTGAAAC
1 TTTCTATCATCTCTGAAAC
11345043 TTTCTTATCATCT-TGAAAC
1 TTTC-TATCATCTCTGAAAC
11345062 -TTCTAT
1 TTTCTAT
11345068 GGAAGGTTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 3 0.13
18 3 0.13
19 10 0.43
20 7 0.30
ACGTcount: A:0.25, C:0.20, G:0.05, T:0.50
Consensus pattern (19 bp):
TTTCTATCATCTCTGAAAC
Found at i:11350729 original size:14 final size:14
Alignment explanation
Indices: 11350710--11350739 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
11350700 GTTTGTATTG
11350710 TTCGTTTATGTTCA
1 TTCGTTTATGTTCA
*
11350724 TTCGTTTGTGTTCA
1 TTCGTTTATGTTCA
11350738 TT
1 TT
11350740 TATATTCGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.10, C:0.13, G:0.17, T:0.60
Consensus pattern (14 bp):
TTCGTTTATGTTCA
Found at i:11351436 original size:12 final size:12
Alignment explanation
Indices: 11351421--11351446 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
11351411 ATTATATTCA
11351421 AATAAAATCTTT
1 AATAAAATCTTT
11351433 AATAAAATCTTT
1 AATAAAATCTTT
11351445 AA
1 AA
11351447 ATATTCAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (12 bp):
AATAAAATCTTT
Found at i:11353236 original size:20 final size:20
Alignment explanation
Indices: 11353213--11353257 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
11353203 GAACAATACT
11353213 GATACTATTCATGTGGTACC
1 GATACTATTCATGTGGTACC
*
11353233 GATACTTTTCATGTGGTACC
1 GATACTATTCATGTGGTACC
11353253 GATAC
1 GATAC
11353258 CCAAGGTAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (20 bp):
GATACTATTCATGTGGTACC
Found at i:11355277 original size:19 final size:19
Alignment explanation
Indices: 11355253--11355305 Score: 88
Period size: 19 Copynumber: 2.8 Consensus size: 19
11355243 AGTTGAAAAT
11355253 GATTTGGTTTTGAAAGCAA
1 GATTTGGTTTTGAAAGCAA
11355272 GATTTGGTTTTGAAAGCAA
1 GATTTGGTTTTGAAAGCAA
* *
11355291 AATTTGATTTTGAAA
1 GATTTGGTTTTGAAA
11355306 AACAAAATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.34, C:0.04, G:0.23, T:0.40
Consensus pattern (19 bp):
GATTTGGTTTTGAAAGCAA
Found at i:11358296 original size:21 final size:21
Alignment explanation
Indices: 11358272--11358320 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
11358262 ATTTCATAAT
* *
11358272 AAAAGTTGGTTACGTCCCAGG
1 AAAAGTTAGTTACATCCCAGG
* *
11358293 AAAAGCTAGTTGCATCCCAGG
1 AAAAGTTAGTTACATCCCAGG
11358314 AAAAGTT
1 AAAAGTT
11358321 CCAAATTCGA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.22
Consensus pattern (21 bp):
AAAAGTTAGTTACATCCCAGG
Found at i:11366272 original size:20 final size:20
Alignment explanation
Indices: 11366249--11366296 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
11366239 CAAATTTAAC
* *
11366249 AATGCAAATGCAAAAATGAA
1 AATGCAAATACAAAAATAAA
* *
11366269 AATGTAAATACAAACATAAA
1 AATGCAAATACAAAAATAAA
11366289 AATGCAAA
1 AATGCAAA
11366297 GATGTGAATG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.62, C:0.10, G:0.10, T:0.17
Consensus pattern (20 bp):
AATGCAAATACAAAAATAAA
Found at i:11366311 original size:20 final size:20
Alignment explanation
Indices: 11366288--11366326 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
11366278 ACAAACATAA
11366288 AAATGCAAAGATGTGAATGC
1 AAATGCAAAGATGTGAATGC
11366308 AAATGCAAAGATGTGAATG
1 AAATGCAAAGATGTGAATG
11366327 TAAAATGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.46, C:0.08, G:0.26, T:0.21
Consensus pattern (20 bp):
AAATGCAAAGATGTGAATGC
Found at i:11374070 original size:2 final size:2
Alignment explanation
Indices: 11374063--11374170 Score: 216
Period size: 2 Copynumber: 54.0 Consensus size: 2
11374053 TCCTAACAAC
11374063 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
11374105 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
11374147 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
11374171 CTTTCAAAAA
Statistics
Matches: 106, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 106 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11375987 original size:23 final size:23
Alignment explanation
Indices: 11375961--11376008 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
11375951 TAAATTTTGA
*
11375961 TTTATT-TTCATTTTATCTTTATT
1 TTTATTATTCATTATA-CTTTATT
*
11375984 TTTATTATTGATTATACTTTATT
1 TTTATTATTCATTATACTTTATT
11376007 TT
1 TT
11376009 CTCAAACAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 15 0.68
24 7 0.32
ACGTcount: A:0.21, C:0.06, G:0.02, T:0.71
Consensus pattern (23 bp):
TTTATTATTCATTATACTTTATT
Found at i:11379268 original size:22 final size:22
Alignment explanation
Indices: 11379240--11379288 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
11379230 AACTTTTTCT
11379240 GTCAAAGTCAACGGTCAGACCA
1 GTCAAAGTCAACGGTCAGACCA
* *
11379262 GTCAAAGTCAATGGTCTGACCA
1 GTCAAAGTCAACGGTCAGACCA
11379284 GTCAA
1 GTCAA
11379289 CGGTCAACTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.35, C:0.24, G:0.22, T:0.18
Consensus pattern (22 bp):
GTCAAAGTCAACGGTCAGACCA
Found at i:11380830 original size:16 final size:16
Alignment explanation
Indices: 11380801--11380843 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
11380791 AATTTAACCA
**
11380801 AACCGAAAATAACCCG
1 AACCGAAAGCAACCCG
* *
11380817 AACCTAAAGCAACCTG
1 AACCGAAAGCAACCCG
11380833 AACCGAAAGCA
1 AACCGAAAGCA
11380844 TCCGAATCGA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.49, C:0.30, G:0.14, T:0.07
Consensus pattern (16 bp):
AACCGAAAGCAACCCG
Found at i:11381217 original size:64 final size:64
Alignment explanation
Indices: 11381090--11381218 Score: 152
Period size: 64 Copynumber: 2.0 Consensus size: 64
11381080 TATTGACCAT
* * ** * * **
11381090 ACCCGACTTACTATAGACCTGAATAAAATTGAAACCTGAAAATGACCCGATCGACCCGGACCTG
1 ACCCAACTTACTATAGACCCGAATAAAACCGAAACCCGAAAATGACCCGATCAACCCAAACCTG
**
11381154 ACCCAACTTACTATAGACCCGAATAAAACCGAAACCCG-AAATGACTTGATCCAACCCAAACCTG
1 ACCCAACTTACTATAGACCCGAATAAAACCGAAACCCGAAAATGACCCGAT-CAACCCAAACCTG
11381218 A
1 A
11381219 TCCGAATTAA
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
63 10 0.19
64 44 0.81
ACGTcount: A:0.39, C:0.30, G:0.14, T:0.17
Consensus pattern (64 bp):
ACCCAACTTACTATAGACCCGAATAAAACCGAAACCCGAAAATGACCCGATCAACCCAAACCTG
Found at i:11384752 original size:110 final size:111
Alignment explanation
Indices: 11384558--11384778 Score: 336
Period size: 110 Copynumber: 2.0 Consensus size: 111
11384548 ATTACAAAAA
* * * * * *
11384558 TTAATTCTTAATATAATAATCATGCATTAAATGAATCAACTAATTATTAATAATAATTTAAATTA
1 TTAATTATTAATATAATAATAATGAATTAAATAAATCAACTAAATATTAATAATAAATTAAATTA
* *
11384623 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAACAAAGTGTAGAGATAT
*
11384669 TTAATTATTAATATAATAATAATGAATTAAATAAAT-AACTAAATATTACTAATAAATTAAATTA
1 TTAATTATTAATATAATAATAATGAATTAAATAAATCAACTAAATATTAATAATAAATTAAATTA
* *
11384733 AATTAAAATGTTAAAATGTTACTGTATCAACAAAGTGTAGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAACAAAGTGTAGAGATAT
11384779 ATGATTTCCA
Statistics
Matches: 99, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
110 67 0.68
111 32 0.32
ACGTcount: A:0.48, C:0.07, G:0.08, T:0.36
Consensus pattern (111 bp):
TTAATTATTAATATAATAATAATGAATTAAATAAATCAACTAAATATTAATAATAAATTAAATTA
AATTAAAACGTTAAAATGTTACCGTATCAACAAAGTGTAGAGATAT
Done.