Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 257 of 311
Found at i:85631317 original size:131 final size:131
Alignment explanation
Indices: 85631083--85631383 Score: 451
Period size: 131 Copynumber: 2.3 Consensus size: 131
85631073 GTGAATTTAC
** * * * *
85631083 AGATCTTGTCTCCCTGAAGTTGCCTTGAAACAGATCGAAGACGGCGAATCTTGTCTTCCTAACCA
1 AGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAAACGACGAATCTTGTCTCCCTAACCA
* * * *
85631148 GTAGTGGAGCAAATTTAAGCGACCCTCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTG
66 GTAGAGGAGCAAATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTAAAGATTG
85631213 T
131 T
* *
85631214 AGATCTTGACTCCCTGAAGTTGCAGTGGAACA-AGTCGAAAACGACGAATCTTGTCTCCCTAACT
1 AGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGA-TCGAAAACGACGAATCTTGTCTCCCTAACC
* *
85631278 AGTAGAGGAGCAGATTTAAGCCACCATCTTATCTCCCTAAGCAGTAGTGGAGTAGGCTAAAGATT
65 AGTAGAGGAGCAAATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTAAAGATT
85631343 GT
130 GT
*
85631345 AGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAA
1 AGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAA
85631384 GTCACTAACC
Statistics
Matches: 152, Mismatches: 16, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
130 1 0.01
131 150 0.99
132 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (131 bp):
AGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAAACGACGAATCTTGTCTCCCTAACCA
GTAGAGGAGCAAATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTAAAGATTG
T
Found at i:85631419 original size:131 final size:131
Alignment explanation
Indices: 85631083--85631422 Score: 380
Period size: 131 Copynumber: 2.6 Consensus size: 131
85631073 GTGAATTTAC
* ** * * * * * * *
85631083 AGATCTTGTCTCCCTGAAGTTGCCTTGAAAC-AGATCGAAGACGGCGAATCTTGTCTTCCTAACC
1 AGATCTTGACTCCCTGAAGTTGCAGTGGAACAAG-TCGAAAACGACGAACCTTATCTCCCTAACT
* * * *
85631147 AGTAGTGGAGCAAATTTAAGCGACCCTCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATT
65 AGCAGTGGAGCAAATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTAAAGATT
85631212 GT
130 GT
* *
85631214 AGATCTTGACTCCCTGAAGTTGCAGTGGAACAAGTCGAAAACGACGAATCTTGTCTCCCTAACTA
1 AGATCTTGACTCCCTGAAGTTGCAGTGGAACAAGTCGAAAACGACGAACCTTATCTCCCTAACTA
* * * *
85631279 GTAGAGGAGCAGATTTAAGCCACCATCTTATCTCCCTAAGCAGTAGTGGAGTAGGCTAAAGATTG
66 GCAGTGGAGCAAATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTAAAGATTG
85631344 T
131 T
* * ** * * *
85631345 AGATCTTGTCTCCCTGAAGTTGCAGTGGAGC-AGATCGAAGTC-ACTAACCTTATCTCCTTGAAG
1 AGATCTTGACTCCCTGAAGTTGCAGTGGAACAAG-TCGAAAACGACGAACCTTATCTCCCT-AAC
*
85631408 TTGCAGTGGAGCAAA
64 TAGCAGTGGAGCAAA
85631423 CTCAAGATAG
Statistics
Matches: 179, Mismatches: 27, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
130 15 0.08
131 162 0.91
132 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (131 bp):
AGATCTTGACTCCCTGAAGTTGCAGTGGAACAAGTCGAAAACGACGAACCTTATCTCCCTAACTA
GCAGTGGAGCAAATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTAAAGATTG
T
Found at i:85631855 original size:44 final size:44
Alignment explanation
Indices: 85631764--85632007 Score: 149
Period size: 44 Copynumber: 5.6 Consensus size: 44
85631754 ATGGTGAATT
** * * *
85631764 TTATCTCTTTGAAGTTGCAGTGGAGCAGA-TAAAGA-CCATTAACC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATGCA--AATC
* *
85631808 TTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATGCAAGTC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATGCAAATC
* * * * *
85631852 TTATCTCTCTGAAGTTACAGTGGAGTAGACTGAATATAGCAAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT-GCAAATC
* * * * * * *** *
85631897 TTATCTCTCTGAAATTGTAGTAGAGTAGATCGAAGCCACAAACC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATGCAAATC
* * * * * *
85631941 TTGTCCCCCTGAAATTGCAGT--AGCAGGTTGAAGTTATG--ATTA
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG--ATGCAAATC
85631983 TTATCTCCCTGAAGTTGCAGTGGAG
1 TTATCTCCCTGAAGTTGCAGTGGAG
85632008 TGAATCAAAG
Statistics
Matches: 152, Mismatches: 41, Indels: 14
0.73 0.20 0.07
Matches are distributed among these distances:
42 28 0.18
44 83 0.55
45 39 0.26
46 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (44 bp):
TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATGCAAATC
Found at i:85633646 original size:26 final size:26
Alignment explanation
Indices: 85633617--85633687 Score: 85
Period size: 25 Copynumber: 2.8 Consensus size: 26
85633607 TATGTTAATC
*
85633617 ATTTTAAATTCCTTTTAT-TATTATTT
1 ATTTTAAATT-CTTTTATATATTACTT
*
85633643 ATTTTGAA--CTTTCTATATATTACTT
1 ATTTTAAATTCTTT-TATATATTACTT
85633668 ATTTTAAATTCTTTTATATA
1 ATTTTAAATTCTTTTATATA
85633688 CTCATCTGAA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
23 4 0.11
24 3 0.08
25 14 0.37
26 13 0.34
27 4 0.11
ACGTcount: A:0.30, C:0.08, G:0.01, T:0.61
Consensus pattern (26 bp):
ATTTTAAATTCTTTTATATATTACTT
Found at i:85633711 original size:2 final size:2
Alignment explanation
Indices: 85633704--85633730 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
85633694 TGAAAACTTT
85633704 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
85633731 GTTACTTTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:85633911 original size:27 final size:26
Alignment explanation
Indices: 85633868--85633956 Score: 67
Period size: 26 Copynumber: 3.4 Consensus size: 26
85633858 TTACTTTGTG
* *
85633868 TATTATTAATTTTAATTT-ATTTAACA
1 TATTATTTATTTAAATTTGATTT-ACA
* *
85633894 TATTATTTATTTGAAATTTGCTTTATA
1 TATTATTTATTT-AAATTTGATTTACA
*
85633921 TATTATTTTATTTCAAA-TTG-TTTATA
1 TATTA-TTTATTT-AAATTTGATTTACA
*
85633947 TTTTATTTAT
1 TATTATTTAT
85633957 GTTTAAACTT
Statistics
Matches: 54, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
25 5 0.09
26 21 0.39
27 15 0.28
28 13 0.24
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.62
Consensus pattern (26 bp):
TATTATTTATTTAAATTTGATTTACA
Found at i:85637225 original size:15 final size:15
Alignment explanation
Indices: 85637205--85637235 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
85637195 AAACACAAAT
*
85637205 AAATATTTAATATTC
1 AAATATTGAATATTC
85637220 AAATATTGAATATTC
1 AAATATTGAATATTC
85637235 A
1 A
85637236 TAAAACTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.42
Consensus pattern (15 bp):
AAATATTGAATATTC
Found at i:85637876 original size:95 final size:93
Alignment explanation
Indices: 85637769--85637954 Score: 214
Period size: 94 Copynumber: 2.0 Consensus size: 93
85637759 AGACGTTTAT
* * ** *
85637769 ATGTTTACTCAATCAAA-TATTATGTTTTACATTAATTA-ATTATTTTTATTTTATAAATATCAA
1 ATGTTTACTCAATCAAATTA-TATGTTGTACATCAATTATA-TA-TTCAATTTTACAAATATCAA
* *
85637832 ATCATTTTATATATTAGTAATCAATTAGTTAA
63 ATAATTTTATATATTAGCAATCAA-TAGTTAA
* * * *
85637864 ATGTTTATTCAATCAAATTATATGTTGTATATCAATTATATATTCAATTTTACAAATGTTAAATA
1 ATGTTTACTCAATCAAATTATATGTTGTACATCAATTATATATTCAATTTTACAAATATCAAATA
*
85637929 ATTTTTTATATTAGCAATCAATAGTT
66 ATTTTATATATTAGCAATCAATAGTT
85637955 TGTATGCTTA
Statistics
Matches: 77, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
93 5 0.06
94 36 0.47
95 33 0.43
96 3 0.04
ACGTcount: A:0.39, C:0.08, G:0.05, T:0.48
Consensus pattern (93 bp):
ATGTTTACTCAATCAAATTATATGTTGTACATCAATTATATATTCAATTTTACAAATATCAAATA
ATTTTATATATTAGCAATCAATAGTTAA
Found at i:85639841 original size:68 final size:66
Alignment explanation
Indices: 85639740--85639876 Score: 229
Period size: 68 Copynumber: 2.0 Consensus size: 66
85639730 CAATTTAGAC
*
85639740 GTTCAGGTTTTTTTTATAGTTCGGTCTGATTTTAGTCAGATGATATCATTGAACCATATCAATTT
1 GTTCAGGTTTTTTTTATAGTTCGATCTGATTTTAGTCAGATGATATCATTGAACCATATCAATTT
85639805 A
66 A
* *
85639806 GTTCAGGTTTTTTTTTTATAGTTCGATCTGGTTTTAGTCAGATGATATCATTGAACTATATCAAT
1 GTTCAGG--TTTTTTTTATAGTTCGATCTGATTTTAGTCAGATGATATCATTGAACCATATCAAT
85639871 TTA
64 TTA
85639874 GTT
1 GTT
85639877 TGATTTAAGT
Statistics
Matches: 66, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
66 7 0.11
68 59 0.89
ACGTcount: A:0.25, C:0.11, G:0.17, T:0.47
Consensus pattern (66 bp):
GTTCAGGTTTTTTTTATAGTTCGATCTGATTTTAGTCAGATGATATCATTGAACCATATCAATTT
A
Found at i:85640835 original size:89 final size:89
Alignment explanation
Indices: 85640724--85640901 Score: 356
Period size: 89 Copynumber: 2.0 Consensus size: 89
85640714 TATCTCACCA
85640724 CAGACCAATGTATGCTGCCATGTGAACTCCATTCAATTGCCCTTGAAATCATCCTTATTGACTAG
1 CAGACCAATGTATGCTGCCATGTGAACTCCATTCAATTGCCCTTGAAATCATCCTTATTGACTAG
85640789 ATAATATCTCATTAGCCTCCTTAT
66 ATAATATCTCATTAGCCTCCTTAT
85640813 CAGACCAATGTATGCTGCCATGTGAACTCCATTCAATTGCCCTTGAAATCATCCTTATTGACTAG
1 CAGACCAATGTATGCTGCCATGTGAACTCCATTCAATTGCCCTTGAAATCATCCTTATTGACTAG
85640878 ATAATATCTCATTAGCCTCCTTAT
66 ATAATATCTCATTAGCCTCCTTAT
85640902 TTCTAGCTCA
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
89 89 1.00
ACGTcount: A:0.28, C:0.26, G:0.12, T:0.34
Consensus pattern (89 bp):
CAGACCAATGTATGCTGCCATGTGAACTCCATTCAATTGCCCTTGAAATCATCCTTATTGACTAG
ATAATATCTCATTAGCCTCCTTAT
Found at i:85641916 original size:10 final size:11
Alignment explanation
Indices: 85641900--85641941 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
85641890 TGACCTTTCT
85641900 AAGGTATGGG-
1 AAGGTATGGGA
*
85641910 TAGGTATGGGA
1 AAGGTATGGGA
*
85641921 AAGGTATGGGC
1 AAGGTATGGGA
*
85641932 AAGGAATGGG
1 AAGGTATGGG
85641942 GTATATTCTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
10 9 0.33
11 18 0.67
ACGTcount: A:0.31, C:0.02, G:0.48, T:0.19
Consensus pattern (11 bp):
AAGGTATGGGA
Found at i:85646396 original size:11 final size:11
Alignment explanation
Indices: 85646380--85646421 Score: 66
Period size: 11 Copynumber: 3.8 Consensus size: 11
85646370 ATGTATGGGT
*
85646380 AGGTATGGGAA
1 AGGTATGGGCA
85646391 AGGTATGGGCA
1 AGGTATGGGCA
85646402 AGGTATGGGCA
1 AGGTATGGGCA
*
85646413 AGGAATGGG
1 AGGTATGGG
85646422 GTATATTCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.31, C:0.05, G:0.48, T:0.17
Consensus pattern (11 bp):
AGGTATGGGCA
Found at i:85646408 original size:22 final size:21
Alignment explanation
Indices: 85646372--85646421 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
85646362 CCTTTCCAAT
*
85646372 GTATGGGTAGGTATGGGAAAG
1 GTATGGGAAGGTATGGGAAAG
*
85646393 GTATGGGCAAGGTATGGGCAAG
1 GTATGGG-AAGGTATGGGAAAG
*
85646415 GAATGGG
1 GTATGGG
85646422 GTATATTCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 7 0.28
22 18 0.72
ACGTcount: A:0.28, C:0.04, G:0.48, T:0.20
Consensus pattern (21 bp):
GTATGGGAAGGTATGGGAAAG
Found at i:85647728 original size:22 final size:25
Alignment explanation
Indices: 85647681--85647731 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
85647671 TTTATTATTT
*
85647681 TAATAAATTATGTAATATTAATTAA
1 TAATAAATTATGTAACATTAATTAA
85647706 TAATAAATT-T-TAACATTAA-TAA
1 TAATAAATTATGTAACATTAATTAA
85647728 TAAT
1 TAAT
85647732 TTACATATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 7 0.28
23 8 0.32
24 1 0.04
25 9 0.36
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (25 bp):
TAATAAATTATGTAACATTAATTAA
Found at i:85650679 original size:24 final size:24
Alignment explanation
Indices: 85650652--85650703 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
85650642 ACCAATATTT
*
85650652 AATAATAAATATTTTA-TAGTATGA
1 AATAATAAATATTTTAGTAATAT-A
*
85650676 AAT-ATGAATATTTTAGTAATATA
1 AATAATAAATATTTTAGTAATATA
85650699 AATAA
1 AATAA
85650704 GGATATTTGG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
23 15 0.62
24 9 0.38
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (24 bp):
AATAATAAATATTTTAGTAATATA
Found at i:85650701 original size:23 final size:23
Alignment explanation
Indices: 85650659--85650711 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
85650649 TTTAATAATA
* *
85650659 AATATTTTATAGTATGAAATATG
1 AATATTTTATAATATGAAATAAG
85650682 AATATTTTAGTAATAT-AAATAAG
1 AATATTTTA-TAATATGAAATAAG
*
85650705 GATATTT
1 AATATTT
85650712 GGCAAGCAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 21 0.81
24 5 0.19
ACGTcount: A:0.45, C:0.00, G:0.11, T:0.43
Consensus pattern (23 bp):
AATATTTTATAATATGAAATAAG
Found at i:85652292 original size:22 final size:20
Alignment explanation
Indices: 85652267--85652321 Score: 69
Period size: 18 Copynumber: 2.8 Consensus size: 20
85652257 TTACACCATG
85652267 TTGTGGATAAAACCACACATCA
1 TTGTGGAT-AAACCACAC-TCA
*
85652289 TTGTGGACAAA-C-CACTCA
1 TTGTGGATAAACCACACTCA
85652307 TTGTGGATAAACCAC
1 TTGTGGATAAACCAC
85652322 TAGTGATAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
18 13 0.45
19 4 0.14
20 2 0.07
21 3 0.10
22 7 0.24
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.24
Consensus pattern (20 bp):
TTGTGGATAAACCACACTCA
Found at i:85656627 original size:30 final size:30
Alignment explanation
Indices: 85656593--85656651 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
85656583 ATTTTATTGC
85656593 TAATTTTATTATTATTTTAAAGACATTTGT
1 TAATTTTATTATTATTTTAAAGACATTTGT
* *
85656623 TAATTTTGTTATTATTTTAGAGACATTTG
1 TAATTTTATTATTATTTTAAAGACATTTG
85656652 ATTGTTAAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.03, G:0.10, T:0.56
Consensus pattern (30 bp):
TAATTTTATTATTATTTTAAAGACATTTGT
Found at i:85663845 original size:38 final size:38
Alignment explanation
Indices: 85663794--85663870 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
85663784 CTAGAGACAT
85663794 GGCCTACCAATAGTCATATAATAACTATTTTTAGTTAA
1 GGCCTACCAATAGTCATATAATAACTATTTTTAGTTAA
85663832 GGCCTACCAATAGTCATATAATAACTATTTTTAGTTAA
1 GGCCTACCAATAGTCATATAATAACTATTTTTAGTTAA
85663870 G
1 G
85663871 CCTCGAGACA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (38 bp):
GGCCTACCAATAGTCATATAATAACTATTTTTAGTTAA
Found at i:85665667 original size:24 final size:23
Alignment explanation
Indices: 85665640--85665773 Score: 96
Period size: 24 Copynumber: 5.7 Consensus size: 23
85665630 ACACACCTTA
85665640 GCTCTTATGAGCTTCCCGATTATG
1 GCTCTTATGAGCTTCCCG-TTATG
* *
85665664 GCTCTTCATGAGCTTCTCGTTAATTT
1 GCTCTT-ATGAGCTTCCCGTT-A-TG
* *
85665690 GCTCTTTGTGAGCTTCCCGATATG
1 GCTC-TTATGAGCTTCCCGTTATG
*
85665714 G--C-T-TGAACTTCCCGTTATTG
1 GCTCTTATGAGCTTCCCGTTA-TG
* * * *
85665734 GCTCGTATGAGCTTTCCGGCTATA
1 GCTCTTATGAGC-TTCCCGTTATG
85665758 GCTCTTATGAGCTTCC
1 GCTCTTATGAGCTTCC
85665774 TGTTTTAGCC
Statistics
Matches: 87, Mismatches: 13, Indels: 21
0.72 0.11 0.17
Matches are distributed among these distances:
19 12 0.14
20 4 0.05
22 2 0.02
23 5 0.06
24 26 0.30
25 20 0.23
26 16 0.18
27 2 0.02
ACGTcount: A:0.15, C:0.25, G:0.21, T:0.39
Consensus pattern (23 bp):
GCTCTTATGAGCTTCCCGTTATG
Found at i:85670661 original size:23 final size:19
Alignment explanation
Indices: 85670607--85670663 Score: 51
Period size: 23 Copynumber: 2.7 Consensus size: 19
85670597 GCTATATTAT
85670607 AAATATTGTTTTTATTTAA
1 AAATATTGTTTTTATTTAA
* *
85670626 AAACATCTATTTTTATTTTTAAA
1 AAATAT-TGTTTTTA--TTT-AA
85670649 AAATATGTGTTTTTA
1 AAATAT-TGTTTTTA
85670664 AACTTAAAAC
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
19 5 0.17
20 7 0.24
22 3 0.10
23 14 0.48
ACGTcount: A:0.37, C:0.04, G:0.05, T:0.54
Consensus pattern (19 bp):
AAATATTGTTTTTATTTAA
Found at i:85671015 original size:14 final size:14
Alignment explanation
Indices: 85670996--85671026 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
85670986 AAAAATTAAG
*
85670996 TATTAAATTTATTT
1 TATTAAATTTATAT
85671010 TATTAAATTTATAT
1 TATTAAATTTATAT
85671024 TAT
1 TAT
85671027 AAAAATGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
TATTAAATTTATAT
Found at i:85671792 original size:13 final size:13
Alignment explanation
Indices: 85671776--85671800 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
85671766 AATTTTGGAT
85671776 GAAAATATAAAAG
1 GAAAATATAAAAG
85671789 GAAAATATAAAA
1 GAAAATATAAAA
85671801 CCGCCGAAGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.00, G:0.12, T:0.16
Consensus pattern (13 bp):
GAAAATATAAAAG
Found at i:85673311 original size:47 final size:47
Alignment explanation
Indices: 85673242--85673346 Score: 174
Period size: 47 Copynumber: 2.2 Consensus size: 47
85673232 CAGGAAACTT
*
85673242 AATTATGCATGATTGAAACTTATTAATGGATTCCACTTCCCTTTCTC
1 AATTATGCATGATTGAAACTTATCAATGGATTCCACTTCCCTTTCTC
* *
85673289 AATTATGCATGATTGAAGCTTATCAATTGATTCCACTTCCCTTTCTC
1 AATTATGCATGATTGAAACTTATCAATGGATTCCACTTCCCTTTCTC
*
85673336 AGTTATGCATG
1 AATTATGCATG
85673347 CGTAATTCGA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 54 1.00
ACGTcount: A:0.27, C:0.21, G:0.12, T:0.40
Consensus pattern (47 bp):
AATTATGCATGATTGAAACTTATCAATGGATTCCACTTCCCTTTCTC
Found at i:85673371 original size:18 final size:18
Alignment explanation
Indices: 85673348--85673391 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
85673338 TTATGCATGC
*
85673348 GTAATTCGAATAATTCGG
1 GTAATTCGAATAATTCAG
*
85673366 GTAATTCGATTAATTCAG
1 GTAATTCGAATAATTCAG
*
85673384 TTAATTCG
1 GTAATTCG
85673392 GTTAATTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (18 bp):
GTAATTCGAATAATTCAG
Found at i:85679319 original size:14 final size:14
Alignment explanation
Indices: 85679300--85679329 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
85679290 TTATATCGAG
85679300 ACCAATCCAAATCA
1 ACCAATCCAAATCA
*
85679314 ACCAATCCAATTCA
1 ACCAATCCAAATCA
85679328 AC
1 AC
85679330 ATATTTTCAA
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:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (14 bp):
ACCAATCCAAATCA
Found at i:85695133 original size:19 final size:18
Alignment explanation
Indices: 85695109--85695151 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
85695099 TTCAAAACAA
85695109 TCATTT-ATCAAATATCAT
1 TCATTTAAT-AAATATCAT
85695127 CTCATTTCAATAAATATCAT
1 -TCATTT-AATAAATATCAT
85695147 TCATT
1 TCATT
85695152 CACATTCAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 11 0.50
20 9 0.41
21 2 0.09
ACGTcount: A:0.37, C:0.19, G:0.00, T:0.44
Consensus pattern (18 bp):
TCATTTAATAAATATCAT
Found at i:85696103 original size:5 final size:5
Alignment explanation
Indices: 85696093--85696118 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
85696083 GATCATGGGT
85696093 CGGGC CGGGC CGGGC CGGGC CGGGC C
1 CGGGC CGGGC CGGGC CGGGC CGGGC C
85696119 CAAAAAATAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.42, G:0.58, T:0.00
Consensus pattern (5 bp):
CGGGC
Found at i:85696215 original size:11 final size:11
Alignment explanation
Indices: 85696199--85696228 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
85696189 CCAGCCGTAT
85696199 TTATTTTTATA
1 TTATTTTTATA
85696210 TTA-TTTTATA
1 TTATTTTTATA
85696220 TTATTTTTA
1 TTATTTTTA
85696229 AATATATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
TTATTTTTATA
Found at i:85698193 original size:42 final size:44
Alignment explanation
Indices: 85698087--85698193 Score: 114
Period size: 44 Copynumber: 2.5 Consensus size: 44
85698077 ATATGTTCTA
* * *
85698087 CGTGTAAGACCAC-GTCTGAGACATTTGCATCAATTTCTATTTTG
1 CGTGTAAGACC-CTGTCTGGGACATTGGCATCAATATCTATTTTG
* * *
85698131 CGTGTAAGACCATGTTTGGGACATTGGCATC-GTATCTGA-TTT-
1 CGTGTAAGACCCTGTCTGGGACATTGGCATCAATATCT-ATTTTG
85698173 CGTGTAAGACCCTGTCTGGGA
1 CGTGTAAGACCCTGTCTGGGA
85698194 TAGTGGTATC
Statistics
Matches: 53, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
42 19 0.36
43 7 0.13
44 27 0.51
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.34
Consensus pattern (44 bp):
CGTGTAAGACCCTGTCTGGGACATTGGCATCAATATCTATTTTG
Found at i:85699505 original size:13 final size:13
Alignment explanation
Indices: 85699487--85699515 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
85699477 CACACGGACA
85699487 TGTCTTGTGGCCG
1 TGTCTTGTGGCCG
85699500 TGTCTTGTGGCCG
1 TGTCTTGTGGCCG
85699513 TGT
1 TGT
85699516 GGATAAGTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.00, C:0.21, G:0.38, T:0.41
Consensus pattern (13 bp):
TGTCTTGTGGCCG
Found at i:85700329 original size:45 final size:45
Alignment explanation
Indices: 85700260--85700370 Score: 141
Period size: 45 Copynumber: 2.4 Consensus size: 45
85700250 AGCTCCTCCT
* *
85700260 GAGCTGATGAACAGTAAACTCTATCAAGCTGAACAATAAACTCGTAC
1 GAGCTGA--AACAGTAAGCTCTATCAAGCTGAACAATAAACTCATAC
* * * *
85700307 GAGCTGAAACGGTAAGCTCTATCAAGCTGAACAGTAAGCTTATAC
1 GAGCTGAAACAGTAAGCTCTATCAAGCTGAACAATAAACTCATAC
*
85700352 GAGCTGAAATAGTAAGCTC
1 GAGCTGAAACAGTAAGCTC
85700371 CAATGAGCTG
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
45 49 0.88
47 7 0.12
ACGTcount: A:0.38, C:0.20, G:0.21, T:0.22
Consensus pattern (45 bp):
GAGCTGAAACAGTAAGCTCTATCAAGCTGAACAATAAACTCATAC
Found at i:85700346 original size:22 final size:22
Alignment explanation
Indices: 85700267--85700370 Score: 95
Period size: 22 Copynumber: 4.6 Consensus size: 22
85700257 CCTGAGCTGA
*
85700267 TGAACAGTAAACTCTATCAAGC
1 TGAACAGTAAGCTCTATCAAGC
* * *
85700289 TGAACAATAAACTCGTA-CGAGC
1 TGAACAGTAAGCTC-TATCAAGC
*
85700311 TGAAACGGTAAGCTCTATCAAGC
1 TG-AACAGTAAGCTCTATCAAGC
*
85700334 TGAACAGTAAGCT-TATACGAGC
1 TGAACAGTAAGCTCTAT-CAAGC
*
85700356 TGAAATAGTAAGCTC
1 TG-AACAGTAAGCTC
85700371 CAATGAGCTG
Statistics
Matches: 67, Mismatches: 9, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
21 3 0.04
22 37 0.55
23 27 0.40
ACGTcount: A:0.38, C:0.20, G:0.19, T:0.22
Consensus pattern (22 bp):
TGAACAGTAAGCTCTATCAAGC
Found at i:85700368 original size:23 final size:24
Alignment explanation
Indices: 85700304--85700429 Score: 102
Period size: 23 Copynumber: 5.3 Consensus size: 24
85700294 AATAAACTCG
**
85700304 TACGAGCTGAAACGGTAAGCTCTA
1 TACGAGCTGAAATAGTAAGCTCTA
* *
85700328 T-CAAGCTG-AACAGTAAGCT-TA
1 TACGAGCTGAAATAGTAAGCTCTA
*
85700349 TACGAGCTGAAATAGTAAGCTCCA
1 TACGAGCTGAAATAGTAAGCTCTA
*
85700373 -ATGAGCTGAAAATAGTAAGCTCT-
1 TACGAGCTG-AAATAGTAAGCTCTA
* *
85700396 TACGAGTTGATATATCGGTAAGCTC-A
1 TACGAGCTGA-A-AT-AGTAAGCTCTA
85700422 TACGAGCT
1 TACGAGCT
85700430 ATGGTGAGTC
Statistics
Matches: 82, Mismatches: 11, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
21 3 0.04
22 16 0.20
23 24 0.29
24 22 0.27
25 2 0.02
26 15 0.18
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (24 bp):
TACGAGCTGAAATAGTAAGCTCTA
Found at i:85700380 original size:45 final size:45
Alignment explanation
Indices: 85700260--85700386 Score: 123
Period size: 45 Copynumber: 2.8 Consensus size: 45
85700250 AGCTCCTCCT
* * *
85700260 GAGCTGATGAACAGTAAACTCTATCAAGCTGAACAATAAACTCGTAC
1 GAGCTGA--AACAGTAAGCTCAATCAAGCTGAACAATAAACTCATAC
* * * * *
85700307 GAGCTGAAACGGTAAGCTCTATCAAGCTGAACAGTAAGCTTATAC
1 GAGCTGAAACAGTAAGCTCAATCAAGCTGAACAATAAACTCATAC
* *
85700352 GAGCTGAAATAGTAAGCTCCAAT-GAGCTGAA-AATA
1 GAGCTGAAACAGTAAGCT-CAATCAAGCTGAACAATA
85700387 GTAAGCTCTT
Statistics
Matches: 68, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
44 3 0.04
45 55 0.81
46 3 0.04
47 7 0.10
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.21
Consensus pattern (45 bp):
GAGCTGAAACAGTAAGCTCAATCAAGCTGAACAATAAACTCATAC
Found at i:85704293 original size:23 final size:24
Alignment explanation
Indices: 85704259--85704303 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 24
85704249 TTTTGAAATC
*
85704259 TAAAAACTAAAAT-AATAAATTTT
1 TAAAAACTAAAATCAAGAAATTTT
85704282 TAAAAA-TAAAAATCAAGAAATT
1 TAAAAACT-AAAATCAAGAAATT
85704304 ACTTTCTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 1 0.05
23 11 0.58
24 7 0.37
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.29
Consensus pattern (24 bp):
TAAAAACTAAAATCAAGAAATTTT
Found at i:85705304 original size:88 final size:88
Alignment explanation
Indices: 85705155--85705330 Score: 334
Period size: 88 Copynumber: 2.0 Consensus size: 88
85705145 AAGGCATCCA
*
85705155 ACTTTTTGACCAAACGATAGTTCCTACAATATAGTAGGAAAAATATTATTTAGTAAAAAGTAATT
1 ACTTTTTGACCAAACGACAGTTCCTACAATATAGTAGGAAAAATATTATTTAGTAAAAAGTAATT
85705220 AATATTTGACACAATTAAAAAAT
66 AATATTTGACACAATTAAAAAAT
*
85705243 ACTTTTTGACCAAACGACAGTTCCTACAATATAGTAGGAAAAATATTATTTAGTGAAAAGTAATT
1 ACTTTTTGACCAAACGACAGTTCCTACAATATAGTAGGAAAAATATTATTTAGTAAAAAGTAATT
85705308 AATATTTGACACAATTAAAAAAT
66 AATATTTGACACAATTAAAAAAT
85705331 TCAAACTACC
Statistics
Matches: 86, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
88 86 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (88 bp):
ACTTTTTGACCAAACGACAGTTCCTACAATATAGTAGGAAAAATATTATTTAGTAAAAAGTAATT
AATATTTGACACAATTAAAAAAT
Found at i:85705982 original size:18 final size:18
Alignment explanation
Indices: 85705956--85705998 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
85705946 TGTCAGGTGC
*
85705956 GTATTCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
85705974 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
85705992 GTTTCCT
1 GTATCCT
85705999 TTTCTTAGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.23, C:0.26, G:0.07, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:85709674 original size:126 final size:126
Alignment explanation
Indices: 85709503--85709757 Score: 402
Period size: 126 Copynumber: 2.0 Consensus size: 126
85709493 TTATAGCCTC
* ** *
85709503 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTACTA
1 ATTTTTCTACGAACTACTGTAGCAAAAGAACACCCACGTGGGAGCTTCTTTCAGAAATTTTACTA
* * * *
85709568 ATAGTGCATCCTGCTTGAAGCATTTTCGACACTATTTGTTCAGAAACGTCTACTCAAAATT
66 ACAGTGCATCCTACTTGAAGCATTTTCGACACTATTTGTCCAGAAACATCTACTCAAAATT
* *
85709629 ATTTTTCTACGAACTACTGTAGCAAAAGAACACCCACGTGGGAGCTTCTTTCAGAAATTTTGCTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAACACCCACGTGGGAGCTTCTTTCAGAAATTTTACTA
* *
85709694 ACAGTGCATCCTATTTGAAGCATTTTTGACACTATTTGTCCAGAAACATCTACTCAAAATT
66 ACAGTGCATCCTACTTGAAGCATTTTCGACACTATTTGTCCAGAAACATCTACTCAAAATT
85709755 ATT
1 ATT
85709758 CTTGTAGAAA
Statistics
Matches: 117, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
126 117 1.00
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (126 bp):
ATTTTTCTACGAACTACTGTAGCAAAAGAACACCCACGTGGGAGCTTCTTTCAGAAATTTTACTA
ACAGTGCATCCTACTTGAAGCATTTTCGACACTATTTGTCCAGAAACATCTACTCAAAATT
Found at i:85710320 original size:19 final size:19
Alignment explanation
Indices: 85710296--85710357 Score: 76
Period size: 19 Copynumber: 3.4 Consensus size: 19
85710286 ACCATTATGT
85710296 ATCAATTTACCCTAAATTA
1 ATCAATTTACCCTAAATTA
*
85710315 ATCAATTAACCCTAAATTTA
1 ATCAATTTACCCTAAA-TTA
*
85710335 ATCAA--T-CCCTAATTTA
1 ATCAATTTACCCTAAATTA
85710351 ATCAATT
1 ATCAATT
85710358 AACTCTAATA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
16 8 0.22
17 6 0.16
19 15 0.41
20 8 0.22
ACGTcount: A:0.42, C:0.21, G:0.00, T:0.37
Consensus pattern (19 bp):
ATCAATTTACCCTAAATTA
Found at i:85710350 original size:16 final size:17
Alignment explanation
Indices: 85710303--85710356 Score: 65
Period size: 16 Copynumber: 3.1 Consensus size: 17
85710293 TGTATCAATT
*
85710303 TACCCTAAATTAATCAA
1 TACCCTAATTTAATCAA
85710320 TTAACCCTAAATTTAATCAA
1 -T-ACCCT-AATTTAATCAA
85710340 T-CCCTAATTTAATCAA
1 TACCCTAATTTAATCAA
85710356 T
1 T
85710357 TAACTCTAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
16 12 0.36
17 4 0.12
18 1 0.03
19 6 0.18
20 10 0.30
ACGTcount: A:0.43, C:0.22, G:0.00, T:0.35
Consensus pattern (17 bp):
TACCCTAATTTAATCAA
Found at i:85710477 original size:15 final size:15
Alignment explanation
Indices: 85710459--85710496 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
85710449 TTAAATTCTA
85710459 AACCCTAAAAACCCT
1 AACCCTAAAAACCCT
*
85710474 AA-CCTTAAAACCCT
1 AACCCTAAAAACCCT
*
85710488 AACCTTAAA
1 AACCCTAAA
85710497 TCCTAAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 2
0.79 0.12 0.08
Matches are distributed among these distances:
14 13 0.68
15 6 0.32
ACGTcount: A:0.47, C:0.34, G:0.00, T:0.18
Consensus pattern (15 bp):
AACCCTAAAAACCCT
Found at i:85710483 original size:14 final size:14
Alignment explanation
Indices: 85710466--85710496 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
85710456 CTAAACCCTA
85710466 AAAACCCTAACCTT
1 AAAACCCTAACCTT
85710480 AAAACCCTAACCTT
1 AAAACCCTAACCTT
85710494 AAA
1 AAA
85710497 TCCTAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.48, C:0.32, G:0.00, T:0.19
Consensus pattern (14 bp):
AAAACCCTAACCTT
Found at i:85710961 original size:29 final size:30
Alignment explanation
Indices: 85710929--85710987 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
85710919 TATGGTTTAA
85710929 TGTGCAATTATATACATG-AATTTTGATTT
1 TGTGCAATTATATACATGAAATTTTGATTT
* * * *
85710958 TGTGTAATTTTATACTTGAAATTTTTATTT
1 TGTGCAATTATATACATGAAATTTTGATTT
85710988 GATCCAATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 15 0.60
30 10 0.40
ACGTcount: A:0.29, C:0.05, G:0.12, T:0.54
Consensus pattern (30 bp):
TGTGCAATTATATACATGAAATTTTGATTT
Found at i:85711434 original size:55 final size:54
Alignment explanation
Indices: 85711364--85711474 Score: 186
Period size: 55 Copynumber: 2.0 Consensus size: 54
85711354 CTATAAGACA
* *
85711364 TTTTTCATCCCCTTCTTCATCCAGGTAAGTCTTCTTCTTCTTCCGTTCTTCAAC
1 TTTTTCATCCCCTTCTTCATCCAGGTAAGTCTTCTTCTTATTCCATTCTTCAAC
*
85711418 TTTTTCCATCTCCTTCTTCATCCAGGTAAGTCTTCTTCTTATTCCATTCTTCAAC
1 TTTTT-CATCCCCTTCTTCATCCAGGTAAGTCTTCTTCTTATTCCATTCTTCAAC
85711473 TT
1 TT
85711475 CTTATAATAT
Statistics
Matches: 53, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
54 5 0.09
55 48 0.91
ACGTcount: A:0.14, C:0.32, G:0.06, T:0.48
Consensus pattern (54 bp):
TTTTTCATCCCCTTCTTCATCCAGGTAAGTCTTCTTCTTATTCCATTCTTCAAC
Found at i:85716805 original size:32 final size:32
Alignment explanation
Indices: 85716766--85716826 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
85716756 TTCGATATTG
* *
85716766 ATTATGTTTTAAGCTTGTTAGATATTGAATTT
1 ATTATGTTTCAAGCCTGTTAGATATTGAATTT
*
85716798 ATTATGTTTCAAGCCTGTTGGATATTGAA
1 ATTATGTTTCAAGCCTGTTAGATATTGAA
85716827 ATGATTAACA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.28, C:0.07, G:0.18, T:0.48
Consensus pattern (32 bp):
ATTATGTTTCAAGCCTGTTAGATATTGAATTT
Found at i:85718097 original size:13 final size:13
Alignment explanation
Indices: 85718079--85718125 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
85718069 ATATAAAAAC
85718079 AATTTAAAATATA
1 AATTTAAAATATA
* *
85718092 AATTTATTAATAAAA
1 AATTTA-AAAT-ATA
85718107 AATTTAAAATATA
1 AATTTAAAATATA
85718120 AATTTA
1 AATTTA
85718126 TTAACAATTG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
13 14 0.50
14 6 0.21
15 8 0.29
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AATTTAAAATATA
Found at i:85718113 original size:28 final size:29
Alignment explanation
Indices: 85718074--85718129 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 29
85718064 TATATATATA
85718074 AAAACAATTTAAAATATAAATTTATTAAT
1 AAAACAATTTAAAATATAAATTTATTAAT
85718103 AAAA-AATTTAAAATATAAATTTATTAA
1 AAAACAATTTAAAATATAAATTTATTAA
85718130 CAATTGAGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
28 23 0.85
29 4 0.15
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (29 bp):
AAAACAATTTAAAATATAAATTTATTAAT
Found at i:85718129 original size:16 final size:16
Alignment explanation
Indices: 85718082--85718129 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
85718072 TAAAAACAAT
85718082 TTAAAATATAAATTTA
1 TTAAAATATAAATTTA
85718098 TTAATAA-A-AAA--T-
1 TTAA-AATATAAATTTA
85718110 TTAAAATATAAATTTA
1 TTAAAATATAAATTTA
85718126 TTAA
1 TTAA
85718130 CAATTGAGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 12
0.68 0.00 0.32
Matches are distributed among these distances:
11 2 0.08
12 5 0.19
13 4 0.15
15 4 0.15
16 9 0.35
17 2 0.08
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TTAAAATATAAATTTA
Found at i:85718653 original size:21 final size:22
Alignment explanation
Indices: 85718629--85718676 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
85718619 CTTTTTACGA
*
85718629 TTTTTATAAAA-TTTTACAGTT
1 TTTTTATAAAAGTTTTACAATT
85718650 TTTTTATAAAAGTTTTACAATT
1 TTTTTATAAAAGTTTTACAATT
85718672 TTTTT
1 TTTTT
85718677 CTAATTTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 11 0.44
22 14 0.56
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.60
Consensus pattern (22 bp):
TTTTTATAAAAGTTTTACAATT
Found at i:85718665 original size:22 final size:21
Alignment explanation
Indices: 85718629--85718713 Score: 79
Period size: 22 Copynumber: 4.1 Consensus size: 21
85718619 CTTTTTACGA
*
85718629 TTTTTATAAAATTTTACAGTT
1 TTTTTATAAAATTTTACAATT
85718650 TTTTTATAAAAGTTTTACAATT
1 TTTTTATAAAA-TTTTACAATT
* *
85718672 TTTTTCT--AATTTT-TAA-T
1 TTTTTATAAAATTTTACAATT
* *
85718689 TTTTTATTTAAATTTAACAATT
1 TTTTTA-TAAAATTTTACAATT
85718711 TTT
1 TTT
85718714 ATTAATTTTT
Statistics
Matches: 52, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
17 6 0.12
18 3 0.06
19 4 0.08
20 7 0.13
21 13 0.25
22 19 0.37
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (21 bp):
TTTTTATAAAATTTTACAATT
Found at i:85718685 original size:20 final size:19
Alignment explanation
Indices: 85718620--85718724 Score: 68
Period size: 19 Copynumber: 5.3 Consensus size: 19
85718610 TTTATATATC
* * *
85718620 TTTTTACGATTTTTATAAA
1 TTTTTACAATTTTTTTTAA
* *
85718639 ATTTTACAGTTTTTTTATAAAA
1 TTTTTACAATTTTTTT-T--AA
*
85718661 GTTTTACAATTTTTTTCTAA
1 TTTTTACAATTTTTTT-TAA
*
85718681 TTTTTA-ATTTTTTATTTAA
1 TTTTTACAATTTTT-TTTAA
* * *
85718700 ATTTAACAATTTTTATTAA
1 TTTTTACAATTTTTTTTAA
85718719 TTTTTA
1 TTTTTA
85718725 TTTTTTGTCA
Statistics
Matches: 65, Mismatches: 16, Indels: 10
0.71 0.18 0.11
Matches are distributed among these distances:
19 33 0.51
20 15 0.23
22 17 0.26
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.61
Consensus pattern (19 bp):
TTTTTACAATTTTTTTTAA
Found at i:85718709 original size:39 final size:37
Alignment explanation
Indices: 85718649--85718730 Score: 103
Period size: 39 Copynumber: 2.2 Consensus size: 37
85718639 ATTTTACAGT
* *
85718649 TTTTTTATAAAAGTTTTACAATTTTTTTCTAATTTTTAA
1 TTTTTTATAAAAGTTTAACAATTTTTAT-TAATTTTT-A
*
85718688 TTTTTTATTTAAA-TTTAACAATTTTTATTAATTTTTA
1 TTTTTTA-TAAAAGTTTAACAATTTTTATTAATTTTTA
85718725 TTTTTT
1 TTTTTT
85718731 GTCACATGTC
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
37 7 0.18
38 8 0.21
39 20 0.51
40 4 0.10
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.66
Consensus pattern (37 bp):
TTTTTTATAAAAGTTTAACAATTTTTATTAATTTTTA
Found at i:85725970 original size:15 final size:16
Alignment explanation
Indices: 85725944--85725984 Score: 61
Period size: 15 Copynumber: 2.8 Consensus size: 16
85725934 TTATTTCTAA
85725944 AAATATTAATTAATTT
1 AAATATTAATTAATTT
85725960 AAATA-TAATTAATTT
1 AAATATTAATTAATTT
85725975 -AAT-TTAATTA
1 AAATATTAATTA
85725985 TTTTTTAACT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 9 0.38
15 10 0.42
16 5 0.21
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
AAATATTAATTAATTT
Found at i:85728366 original size:21 final size:22
Alignment explanation
Indices: 85728340--85728384 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
85728330 TAATTATTTT
85728340 AAAATT-TTAA-AATTTTTAAAA
1 AAAATTATTAATAA-TTTTAAAA
*
85728361 AAAATTATTAATCATTTTAAAA
1 AAAATTATTAATAATTTTAAAA
85728383 AA
1 AA
85728385 TTAAATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 6 0.29
22 14 0.67
23 1 0.05
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (22 bp):
AAAATTATTAATAATTTTAAAA
Found at i:85736313 original size:76 final size:78
Alignment explanation
Indices: 85736127--85736305 Score: 281
Period size: 78 Copynumber: 2.3 Consensus size: 78
85736117 ATATTCGATG
**
85736127 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTAGTATTATATCCGGGCTTAAAGACCCGCAGGC
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTAGTAAAATATCCGGGCTTAAAGACCCGCAGGC
85736192 TTCGTGCTGGTAA
66 TTCGTGCTGGTAA
* *
85736205 AATATCCGGGTTAAATCCCGCAGGCTTCGTGCTAGTAAAATATCCGGG-TTAAA-TCCCGCAGGC
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTAGTAAAATATCCGGGCTTAAAGACCCGCAGGC
*
85736268 TTCGTGCTGGTAT
66 TTCGTGCTGGTAA
* *
85736281 TATATCCGAGATAAATCCCGCAGGC
1 TATATCCGGGTTAAATCCCGCAGGC
85736306 CTAGTGCTGG
Statistics
Matches: 93, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
76 43 0.46
77 5 0.05
78 45 0.48
ACGTcount: A:0.24, C:0.25, G:0.25, T:0.27
Consensus pattern (78 bp):
TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTAGTAAAATATCCGGGCTTAAAGACCCGCAGGC
TTCGTGCTGGTAA
Found at i:85736318 original size:38 final size:38
Alignment explanation
Indices: 85736127--85736323 Score: 277
Period size: 38 Copynumber: 5.1 Consensus size: 38
85736117 ATATTCGATG
*
85736127 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTAGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* *
85736165 TATATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTAA
1 TATATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTAT
* * *
85736205 AATATCCGGGTTAAATCCCGCAGGCTTCGTGCTAGTAA
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
*
85736243 AATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* * * *
85736281 TATATCCGAGATAAATCCCGCAGGCCTAGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
85736319 TATAT
1 TATAT
85736324 TCGCGCCTTC
Statistics
Matches: 144, Mismatches: 13, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
38 105 0.73
39 10 0.07
40 29 0.20
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.28
Consensus pattern (38 bp):
TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
Found at i:85736743 original size:45 final size:42
Alignment explanation
Indices: 85736676--85736783 Score: 128
Period size: 45 Copynumber: 2.5 Consensus size: 42
85736666 TTGACTTGAT
* *
85736676 TATTCGGGCCTTTGAGCTTAGCAAACTATAATGCCGGTGAGATAC
1 TATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGT--GA-AC
**
85736721 TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAC
1 TATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGTGAAC
85736763 TGATATCGGGCC-TCGAGCCTA
1 T-AT-TCGGGCCTTCGAGCCTA
85736784 ACAGGCGAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
42 3 0.05
43 13 0.23
44 7 0.12
45 34 0.60
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.26
Consensus pattern (42 bp):
TATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGTGAAC
Found at i:85739388 original size:18 final size:18
Alignment explanation
Indices: 85739365--85739404 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
85739355 AGTTAAAACT
85739365 TTTTTTATATA-TATATTA
1 TTTTTTATATATTAT-TTA
*
85739383 TTTTTTATGTATTATTTA
1 TTTTTTATATATTATTTA
85739401 TTTT
1 TTTT
85739405 AAAAATTGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 17 0.85
19 3 0.15
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (18 bp):
TTTTTTATATATTATTTA
Found at i:85742353 original size:2 final size:2
Alignment explanation
Indices: 85742342--85742376 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
85742332 ATTAAGTTAT
85742342 TA TA -A 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
85742377 AAGTAAAGGA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:85744271 original size:18 final size:18
Alignment explanation
Indices: 85744250--85744440 Score: 167
Period size: 18 Copynumber: 10.6 Consensus size: 18
85744240 TAACTGATTA
85744250 TTACTGAATAATTGACTG
1 TTACTGAATAATTGACTG
* * *
85744268 TTACCGGATACTTGACTG
1 TTACTGAATAATTGACTG
*
85744286 TTACTGGAT-ATTAGACTG
1 TTACTGAATAATT-GACTG
* * *
85744304 TTACTGAATAACTGAATA
1 TTACTGAATAATTGACTG
*
85744322 TTACTGAATAATTGA-TCA
1 TTACTGAATAATTGACT-G
* *
85744340 TTACTGAATAACTGATTG
1 TTACTGAATAATTGACTG
*
85744358 TCACTGAATGAA-TGACTG
1 TTACTGAAT-AATTGACTG
* *
85744376 TTACTGAATAACTTAATTG
1 TTACTGAATAA-TTGACTG
*
85744395 TTACTGAAT-ATATGA-TT
1 TTACTGAATAAT-TGACTG
85744412 TTACTGAATAATTGACTG
1 TTACTGAATAATTGACTG
*
85744430 TTACTGGATAA
1 TTACTGAATAA
85744441 CCGATCAATT
Statistics
Matches: 142, Mismatches: 21, Indels: 20
0.78 0.11 0.11
Matches are distributed among these distances:
17 19 0.13
18 105 0.74
19 18 0.13
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.38
Consensus pattern (18 bp):
TTACTGAATAATTGACTG
Found at i:85744375 original size:72 final size:73
Alignment explanation
Indices: 85744238--85744440 Score: 204
Period size: 72 Copynumber: 2.8 Consensus size: 73
85744228 AAAGGTATAA
* * * * * * *
85744238 AATAACTGATTATTACTGAATAATTGA-CTGTTACCGGAT-ACTTGACTGTTACTGGATATTAGA
1 AATAACTGAATATTACTGAATAATTGATC-ATTACTGAATAACTTGACTGTCACTGAATAATAGA
85744301 CTGTTACTG
65 CTGTTACTG
*
85744310 AATAACTGAATATTACTGAATAATTGATCATTACTGAATAAC-TGATTGTCACTGAATGAAT-GA
1 AATAACTGAATATTACTGAATAATTGATCATTACTGAATAACTTGACTGTCACTGAAT-AATAGA
85744373 CTGTTACTG
65 CTGTTACTG
* * * * *
85744382 AATAACTTAATTGTTACTGAAT-ATATGAT-TTTACTGAATAA-TTGACTGTTACTGGATAA
1 AATAACTGAA-TATTACTGAATAAT-TGATCATTACTGAATAACTTGACTGTCACTGAATAA
85744441 CCGATCAATT
Statistics
Matches: 111, Mismatches: 14, Indels: 13
0.80 0.10 0.09
Matches are distributed among these distances:
71 2 0.02
72 90 0.81
73 19 0.17
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (73 bp):
AATAACTGAATATTACTGAATAATTGATCATTACTGAATAACTTGACTGTCACTGAATAATAGAC
TGTTACTG
Found at i:85744529 original size:18 final size:18
Alignment explanation
Indices: 85744474--85744529 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
85744464 TAACTGGTTA
* *
85744474 TTATTGAATAATTGATTG
1 TTATTGAATAAATAATTG
** * *
85744492 TTACCGAATAACTAACTG
1 TTATTGAATAAATAATTG
85744510 TTATTGAATAAATAATTG
1 TTATTGAATAAATAATTG
85744528 TT
1 TT
85744530 CTGATTGTTA
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.38, C:0.07, G:0.12, T:0.43
Consensus pattern (18 bp):
TTATTGAATAAATAATTG
Found at i:85745261 original size:19 final size:18
Alignment explanation
Indices: 85745237--85745282 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
85745227 CTTTCTTTCT
85745237 TTTGCATTCATTCCATGCA
1 TTTGCATTCATTCCAT-CA
* *
85745256 TTTGCATAGCATTGCATCA
1 TTTGCAT-TCATTCCATCA
85745275 TTTGCATT
1 TTTGCATT
85745283 AGATTTTCAC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.22, C:0.22, G:0.13, T:0.43
Consensus pattern (18 bp):
TTTGCATTCATTCCATCA
Found at i:85751238 original size:44 final size:42
Alignment explanation
Indices: 85751190--85751294 Score: 156
Period size: 44 Copynumber: 2.4 Consensus size: 42
85751180 AGCCACCAGC
85751190 CTTATCTCTCTGAGGTAGCAAGAGAACAGGTTGAAGATACAAGT
1 CTTATCT-TCTGAGGTAGCAAGAGAACAGGTTGAA-ATACAAGT
* *
85751234 CTTATCTTTCTGAAGTAGCAAGAGAGCAGGTTGAAATACAAGT
1 CTTATC-TTCTGAGGTAGCAAGAGAACAGGTTGAAATACAAGT
85751277 CTTATCTTCCTGAGGTAG
1 CTTATCTT-CTGAGGTAG
85751295 TAAGGAAGCA
Statistics
Matches: 56, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
42 2 0.04
43 22 0.39
44 31 0.55
45 1 0.02
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (42 bp):
CTTATCTTCTGAGGTAGCAAGAGAACAGGTTGAAATACAAGT
Found at i:85751305 original size:43 final size:43
Alignment explanation
Indices: 85751190--85751327 Score: 149
Period size: 43 Copynumber: 3.2 Consensus size: 43
85751180 AGCCACCAGC
85751190 CTTATC-TCTCTGAGGTAGCAAGAGAA-CAGGTTGAAGATACAAGT
1 CTTATCTTC-CTGAGGTAGCAAG-GAAGCAGGTTGAA-ATACAAGT
* *
85751234 CTTATCTTTCTGAAGTAGCAA-GAGAGCAGGTTGAAATACAAGT
1 CTTATCTTCCTGAGGTAGCAAGGA-AGCAGGTTGAAATACAAGT
* **
85751277 CTTATCTTCCTGAGGTAGTAAGGAAGCAGACTGAAATTAC-AGAT
1 CTTATCTTCCTGAGGTAGCAAGGAAGCAGGTTGAAA-TACAAG-T
85751321 CTTATCT
1 CTTATCT
85751328 CCATGTATCA
Statistics
Matches: 81, Mismatches: 7, Indels: 12
0.81 0.07 0.12
Matches are distributed among these distances:
42 2 0.02
43 39 0.48
44 39 0.48
45 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.28
Consensus pattern (43 bp):
CTTATCTTCCTGAGGTAGCAAGGAAGCAGGTTGAAATACAAGT
Found at i:85751482 original size:177 final size:177
Alignment explanation
Indices: 85751231--85751759 Score: 828
Period size: 177 Copynumber: 3.0 Consensus size: 177
85751221 TGAAGATACA
*
85751231 AGTCTTATCTTTCTGAA-GTAGCAAGAGAGCAGGTTGAA-ATACAAGTCTTATCTTCCTGAGGTA
1 AGTCTTATCTCTCT-AAGGTAGCAAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTA
*
85751294 GTAAGGAAGCAGACTGAAATTACAGATCTTATCTCCATGTATCAGCTATGGAGCAGATCGAAGAT
65 GTAAGGAAGCAGACTGAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAGAT
*
85751359 GGCGAATCTTATCTCCATGTATCGACTGTGGAGCAGATTTTAGCCACC
130 GGCGAATCTTATCTCCATGTATCGACTATGGAGCAGATTTTAGCCACC
* *
85751407 AGTTTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTAAGGTAG
1 AGTCTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAG
* * *
85751472 CAAGGAAGCAGACTGAAATTGCAGATCTTATCTTCATGTATCGGCTATGGAGCAGATCGAAGATG
66 TAAGGAAGCAGACTGAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAGATG
* * * *
85751537 GCAAATCTTATCTCCATGTATCGGCTATAGAGTAGATTTTAGCCACC
131 GCGAATCTTATCTCCATGTATCGACTATGGAGCAGATTTTAGCCACC
* * *
85751584 AGTCTTATCTCTCTAAGGTAGCAAGATAGTAGGTTGAAGGTACAAGTCTTATCTTCCTGAGGTAG
1 AGTCTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAG
* **
85751649 TAAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGGCTATAGAATAGATCGAAGAT
66 TAAGGAAGCAGACTG-AAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAGAT
* * * *
85751714 GGCGAGTCTTATCTTCATGTATTGACAATGGAGCAGATTTTAGCCA
130 GGCGAATCTTATCTCCATGTATCGACTATGGAGCAGATTTTAGCCA
85751760 TCAACCTTAT
Statistics
Matches: 319, Mismatches: 31, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
175 2 0.01
176 33 0.10
177 202 0.63
178 82 0.26
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.29
Consensus pattern (177 bp):
AGTCTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAG
TAAGGAAGCAGACTGAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAGATG
GCGAATCTTATCTCCATGTATCGACTATGGAGCAGATTTTAGCCACC
Found at i:85753082 original size:19 final size:19
Alignment explanation
Indices: 85753058--85753099 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
85753048 TAGTTAAAAC
85753058 TTTTTTTATATA-TATATTA
1 TTTTTTTATATATTAT-TTA
*
85753077 TTTTTTTATGTATTATTTA
1 TTTTTTTATATATTATTTA
85753096 TTTT
1 TTTT
85753100 AAAAATTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 18 0.86
20 3 0.14
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (19 bp):
TTTTTTTATATATTATTTA
Found at i:85766517 original size:19 final size:20
Alignment explanation
Indices: 85766495--85766539 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
85766485 ATTTATATAC
*
85766495 ATATCAAACACA-ATTTCGA
1 ATATCAAACACATATTTCAA
* *
85766514 ATATTAATCACATATTTCAA
1 ATATCAAACACATATTTCAA
85766534 ATATCA
1 ATATCA
85766540 CCAATCAAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.47, C:0.18, G:0.02, T:0.33
Consensus pattern (20 bp):
ATATCAAACACATATTTCAA
Found at i:85768897 original size:17 final size:17
Alignment explanation
Indices: 85768877--85768910 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
85768867 AAATAGATTT
85768877 TTAATTAAAAATTTTAA
1 TTAATTAAAAATTTTAA
*
85768894 TTAATTAAAATTTTTAA
1 TTAATTAAAAATTTTAA
85768911 ACCTAAACCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTAATTAAAAATTTTAA
Found at i:85773836 original size:5 final size:5
Alignment explanation
Indices: 85773822--85773853 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
85773812 TTGTGTGTTC
85773822 TTTA- TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
85773854 TCACACTTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:85774614 original size:21 final size:21
Alignment explanation
Indices: 85774590--85774630 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
85774580 TTATTTTTAT
*
85774590 AATTTACCCTTTTATTATAAA
1 AATTTACCCTTTTATAATAAA
* *
85774611 AATTTTCCTTTTTATAATAA
1 AATTTACCCTTTTATAATAA
85774631 TATTTATTGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.37, C:0.12, G:0.00, T:0.51
Consensus pattern (21 bp):
AATTTACCCTTTTATAATAAA
Found at i:85778362 original size:22 final size:25
Alignment explanation
Indices: 85778334--85778379 Score: 71
Period size: 22 Copynumber: 2.0 Consensus size: 25
85778324 TTATGCAAAC
85778334 ATAAATTACA-A-TTTG-TAAATAT
1 ATAAATTACATAGTTTGCTAAATAT
85778356 ATAAATTACATAGTTTGCTAAATA
1 ATAAATTACATAGTTTGCTAAATA
85778380 AGTATGATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 10 0.48
23 1 0.05
24 4 0.19
25 6 0.29
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.39
Consensus pattern (25 bp):
ATAAATTACATAGTTTGCTAAATAT
Found at i:85782781 original size:46 final size:44
Alignment explanation
Indices: 85782722--85782836 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
85782712 ACAGGACAGA
* *
85782722 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
85782768 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
85782812 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
85782837 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:85782817 original size:44 final size:45
Alignment explanation
Indices: 85782722--85782855 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
85782712 ACAGGACAGA
* *
85782722 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
85782768 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
85782812 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
85782856 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:85790728 original size:19 final size:20
Alignment explanation
Indices: 85790704--85790742 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
85790694 ATTAATAAGC
85790704 AATACATAT-TTTATTATTA
1 AATACATATGTTTATTATTA
85790723 AATACATATGTTTATTATTA
1 AATACATATGTTTATTATTA
85790743 CACATGTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.51
Consensus pattern (20 bp):
AATACATATGTTTATTATTA
Found at i:85792630 original size:29 final size:29
Alignment explanation
Indices: 85792596--85792653 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
85792586 ATTATATAAA
85792596 ACAAATAAATTAAACTAAATCAAGACAAG
1 ACAAATAAATTAAACTAAATCAAGACAAG
85792625 ACAAATAAATTAAACTAAATCAAGACAAG
1 ACAAATAAATTAAACTAAATCAAGACAAG
85792654 TGTAGGGTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.62, C:0.14, G:0.07, T:0.17
Consensus pattern (29 bp):
ACAAATAAATTAAACTAAATCAAGACAAG
Found at i:85800639 original size:21 final size:21
Alignment explanation
Indices: 85800613--85800670 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
85800603 TTGAAGATTA
* *
85800613 GTTACTTGTGGGTCAACTTTG
1 GTTACTTATGGATCAACTTTG
*
85800634 GTTACTTATGGATCAAGTTTG
1 GTTACTTATGGATCAACTTTG
*
85800655 GTTACTTATGAATCAA
1 GTTACTTATGGATCAA
85800671 GTAAAGTCAC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.24, C:0.12, G:0.22, T:0.41
Consensus pattern (21 bp):
GTTACTTATGGATCAACTTTG
Found at i:85811884 original size:250 final size:251
Alignment explanation
Indices: 85811442--85811938 Score: 969
Period size: 250 Copynumber: 2.0 Consensus size: 251
85811432 GAAAAACCTA
85811442 GAAAAGTCTAACCTTATCCATGTCGGATACATACCTGTATTCGACACTCACACTCTAGTCCAAGT
1 GAAAAGTCTAACCTTATCCATGTCGGATACATACCTGTATTCGACACTCACACTCTAGTCCAAGT
85811507 AACATAACACAAAAGACTAAAGGTAAAAAACTGAAGTTTACTAAATCTAGAATGAAAATCCCATA
66 AACATAACACAAAAGACTAAAGGTAAAAAACTGAAGTTTACTAAATCTAGAATGAAAATCCCATA
85811572 GCTTATATAAAGTAATAACTAACAAGGAAAATCAACAACAGTTGCCTTCTTAATAATAAACAAAC
131 GCTTATATAAAGTAATAACTAACAAGGAAAATCAACAACAGTTGCCTTCTTAATAATAAACAAAC
85811637 ACTATACCCACGTAACAACCCCTCAAAAATAATTACAATCATAGAGCAAAATACCC
196 ACTATACCCACGTAACAACCCCTCAAAAATAATTACAATCATAGAGCAAAATACCC
85811693 GAAAAGTCTAACCTTATCCATGTCGGATACATACCTGTATTCGACACTCACACTCTAGTCCAAGT
1 GAAAAGTCTAACCTTATCCATGTCGGATACATACCTGTATTCGACACTCACACTCTAGTCCAAGT
*
85811758 AACATAACACAAAAGAGTAAAGGT-AAAAACTGAAGTTTACTAAATCTAGAATGAAAATCCCATA
66 AACATAACACAAAAGACTAAAGGTAAAAAACTGAAGTTTACTAAATCTAGAATGAAAATCCCATA
85811822 GCTTATATAAAGTAATAACTAACAAGGAAAATCAACAACAGTTGCCTTCTTAATAATAAACAAAC
131 GCTTATATAAAGTAATAACTAACAAGGAAAATCAACAACAGTTGCCTTCTTAATAATAAACAAAC
*
85811887 ACTATACCCTCGTAACAACCCCTCAAAAATAATTACAATCATAGAGCAAAAT
196 ACTATACCCACGTAACAACCCCTCAAAAATAATTACAATCATAGAGCAAAAT
85811939 CGTTAAACCC
Statistics
Matches: 244, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
250 156 0.64
251 88 0.36
ACGTcount: A:0.45, C:0.22, G:0.10, T:0.23
Consensus pattern (251 bp):
GAAAAGTCTAACCTTATCCATGTCGGATACATACCTGTATTCGACACTCACACTCTAGTCCAAGT
AACATAACACAAAAGACTAAAGGTAAAAAACTGAAGTTTACTAAATCTAGAATGAAAATCCCATA
GCTTATATAAAGTAATAACTAACAAGGAAAATCAACAACAGTTGCCTTCTTAATAATAAACAAAC
ACTATACCCACGTAACAACCCCTCAAAAATAATTACAATCATAGAGCAAAATACCC
Found at i:85814322 original size:96 final size:96
Alignment explanation
Indices: 85814165--85814358 Score: 379
Period size: 96 Copynumber: 2.0 Consensus size: 96
85814155 TTTGGGGACC
*
85814165 ATACTCTTAATATATAATTTTTACACATTAGCCTTAATTTTTAATCAACCCATCATCAATTAGAA
1 ATACTCTTAATATATAATTTTTACACATTAGCCTTAATTTTTAATCAACCCATCATCAATTAAAA
85814230 ATTAGTTACTAGAGTAGTTGATTCATACTTT
66 ATTAGTTACTAGAGTAGTTGATTCATACTTT
85814261 ATACTCTTAATATATAATTTTTACACATTAGCCTTAATTTTTAATCAACCCATCATCAATTAAAA
1 ATACTCTTAATATATAATTTTTACACATTAGCCTTAATTTTTAATCAACCCATCATCAATTAAAA
85814326 ATTAGTTACTAGAGTAGTTGATTCATACTTT
66 ATTAGTTACTAGAGTAGTTGATTCATACTTT
85814357 AT
1 AT
85814359 GTAATAACTA
Statistics
Matches: 97, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
96 97 1.00
ACGTcount: A:0.36, C:0.15, G:0.07, T:0.42
Consensus pattern (96 bp):
ATACTCTTAATATATAATTTTTACACATTAGCCTTAATTTTTAATCAACCCATCATCAATTAAAA
ATTAGTTACTAGAGTAGTTGATTCATACTTT
Found at i:85821592 original size:3 final size:3
Alignment explanation
Indices: 85821584--85821612 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
85821574 TTCAAGCACA
85821584 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
85821613 AGCCTTAACC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:85822847 original size:38 final size:38
Alignment explanation
Indices: 85822791--85822951 Score: 227
Period size: 38 Copynumber: 4.2 Consensus size: 38
85822781 GGCTCAAAGG
* *
85822791 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACTAAGCCTGCGGGATTTAA
* *
85822829 CCCGGATATAATACCAGCACGAAGGCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACTAAGCCTGCGGGATTTAA
*
85822867 CCCGGATA-AATTACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAA-TACCAGCACTAAGCCTGCGGGATTTAA
* *
85822905 CCCGGATATAATACCAGCA-TGAAGCCTACAGGATTTAA
1 CCCGGATATAATACCAGCACT-AAGCCTGCGGGATTTAA
85822943 CCCGGATAT
1 CCCGGATAT
85822952 CATATTTCGA
Statistics
Matches: 112, Mismatches: 8, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
37 2 0.02
38 108 0.96
39 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.22, T:0.20
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACTAAGCCTGCGGGATTTAA
Found at i:85825159 original size:20 final size:20
Alignment explanation
Indices: 85825127--85825164 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
85825117 TGTGTCACAT
85825127 TCATATAACTAATATTTATA
1 TCATATAACTAATATTTATA
*
85825147 TCAT-TAACATAATTTTTA
1 TCATATAAC-TAATATTTA
85825165 ACTTAATAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.47
Consensus pattern (20 bp):
TCATATAACTAATATTTATA
Found at i:85825669 original size:18 final size:18
Alignment explanation
Indices: 85825646--85825686 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
85825636 TACTTTTCTC
85825646 TTTCTA-TCACAATTCCAA
1 TTTCTATTCACAATT-CAA
*
85825664 TTTCTATTCATAATTCAA
1 TTTCTATTCACAATTCAA
85825682 TTTCT
1 TTTCT
85825687 TTTTTTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.29, C:0.22, G:0.00, T:0.49
Consensus pattern (18 bp):
TTTCTATTCACAATTCAA
Found at i:85826833 original size:12 final size:12
Alignment explanation
Indices: 85826818--85826848 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
85826808 TTCTCTTTTA
85826818 TTTTTCTTTCCC
1 TTTTTCTTTCCC
*
85826830 TTTTTCTTTCTC
1 TTTTTCTTTCCC
85826842 TTTTTCT
1 TTTTTCT
85826849 CCCCTCTTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:85833238 original size:29 final size:29
Alignment explanation
Indices: 85833196--85833258 Score: 126
Period size: 29 Copynumber: 2.2 Consensus size: 29
85833186 ACACATTCCA
85833196 TACAAACACAACATTCAATTTAACATATT
1 TACAAACACAACATTCAATTTAACATATT
85833225 TACAAACACAACATTCAATTTAACATATT
1 TACAAACACAACATTCAATTTAACATATT
85833254 TACAA
1 TACAA
85833259 GCTCAATTAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.49, C:0.21, G:0.00, T:0.30
Consensus pattern (29 bp):
TACAAACACAACATTCAATTTAACATATT
Found at i:85843292 original size:46 final size:46
Alignment explanation
Indices: 85843232--85843486 Score: 386
Period size: 46 Copynumber: 5.5 Consensus size: 46
85843222 TTTGACATGA
* * * * * *
85843232 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*** *
85843278 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
85843324 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
85843370 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
85843416 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
85843462 TGCCATGGTATCTTTCAACCCTGGT
1 TGCCATGGTATCTTTCAACCATGGT
85843487 ATCTTTCAAC
Statistics
Matches: 194, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 4 0.02
46 190 0.98
ACGTcount: A:0.21, C:0.24, G:0.16, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:85843486 original size:16 final size:16
Alignment explanation
Indices: 85843467--85843502 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
85843457 CAGGTTGCCA
85843467 TGGTATCTTTCAACCC
1 TGGTATCTTTCAACCC
85843483 TGGTATCTTTCAACCC
1 TGGTATCTTTCAACCC
85843499 TGGT
1 TGGT
85843503 CTTACACATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.17, C:0.28, G:0.17, T:0.39
Consensus pattern (16 bp):
TGGTATCTTTCAACCC
Found at i:85843490 original size:62 final size:62
Alignment explanation
Indices: 85843418--85843548 Score: 235
Period size: 62 Copynumber: 2.1 Consensus size: 62
85843408 TATCAGGCTG
*
85843418 CCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAA
1 CCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTATCTTTCAA
* *
85843480 CCCTGGTATCTTTCAACCCTGGTCTTACACATTTCATATCAGGCTGCCATGGTATCTTTCAA
1 CCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTATCTTTCAA
85843542 CCATGGT
1 CCATGGT
85843549 CTTACACATT
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
62 65 1.00
ACGTcount: A:0.22, C:0.27, G:0.15, T:0.36
Consensus pattern (62 bp):
CCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTATCTTTCAA
Found at i:85847377 original size:47 final size:47
Alignment explanation
Indices: 85847276--85847556 Score: 418
Period size: 47 Copynumber: 5.9 Consensus size: 47
85847266 ATCTGGTATT
85847276 GAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 GAATGGCCAATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
* *
85847325 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 GAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
85847372 GAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 GAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* * * *
85847419 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATGAGGCC
1 GAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* * * *
85847466 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCC
1 GAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* * * *
85847513 GAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 GAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAG
85847557 TCCCGAAGGG
Statistics
Matches: 212, Mismatches: 20, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
47 185 0.87
49 27 0.13
ACGTcount: A:0.33, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
GAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
Found at i:85847541 original size:141 final size:142
Alignment explanation
Indices: 85847285--85847556 Score: 465
Period size: 141 Copynumber: 1.9 Consensus size: 142
85847275 TGAATGGCCA
85847285 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * *
85847350 AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAA
65 AGTGTATATATGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATAAATGTGATAA
85847415 GGCCTAATAGCCG
130 GGCCTAATAGCCG
*
85847428 ATGTGATGAATGTGAAAGTG-TATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 ATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
* * *
85847492 GTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
66 GTGTATATATGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATAAATGTGATAAG
85847557 TCCCGAAGGG
Statistics
Matches: 122, Mismatches: 7, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
141 102 0.84
143 20 0.16
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.29
Consensus pattern (142 bp):
ATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
GTGTATATATGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATAAATGTGATAAG
GCCTAATAGCCG
Found at i:85850775 original size:5 final size:5
Alignment explanation
Indices: 85850767--85850793 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
85850757 TTTAGTTTAT
85850767 ATATA ATATA ATATA ATATA ATATA AT
1 ATATA ATATA ATATA ATATA ATATA AT
85850794 TAAAACATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:85856112 original size:28 final size:27
Alignment explanation
Indices: 85856072--85856125 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
85856062 TTAATATTAG
* *
85856072 TCAATATATTTCAGTAGCCATCAACCAA
1 TCAATATATTTCAATA-CAATCAACCAA
85856100 TCAATGATA-TTCAATACAATCAACCA
1 TCAAT-ATATTTCAATACAATCAACCA
85856126 GTCAGTAACA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 9 0.39
28 11 0.48
29 3 0.13
ACGTcount: A:0.43, C:0.24, G:0.06, T:0.28
Consensus pattern (27 bp):
TCAATATATTTCAATACAATCAACCAA
Found at i:85857348 original size:5 final size:5
Alignment explanation
Indices: 85857340--85857381 Score: 66
Period size: 5 Copynumber: 8.4 Consensus size: 5
85857330 TTTAGTTTAT
* *
85857340 ATATA ATATA ACATA ATATA ACATA ATATA ATATA ATATA AT
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA AT
85857382 TAAAACATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.36
Consensus pattern (5 bp):
ATATA
Found at i:85859416 original size:2 final size:2
Alignment explanation
Indices: 85859409--85859440 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
85859399 GTATCATTGT
85859409 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
85859441 GCTTGATTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:85863855 original size:4 final size:4
Alignment explanation
Indices: 85863846--85863883 Score: 76
Period size: 4 Copynumber: 9.5 Consensus size: 4
85863836 CAGTACAAAC
85863846 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
85863884 TTGCAAAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:85868020 original size:22 final size:21
Alignment explanation
Indices: 85867995--85868050 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 21
85867985 AAGGCGAGGT
*
85867995 AATAATAATAAACAGGAAAATA
1 AATAATAATAAAAAGGAAAA-A
*
85868017 AATAATAATAATAAAGTAAAAA
1 AATAATAATAA-AAAGGAAAAA
85868039 AATAA-AATAAAA
1 AATAATAATAAAA
85868051 TGAAATAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 2 0.06
21 5 0.16
22 17 0.55
23 7 0.23
ACGTcount: A:0.73, C:0.02, G:0.05, T:0.20
Consensus pattern (21 bp):
AATAATAATAAAAAGGAAAAA
Found at i:85868039 original size:25 final size:25
Alignment explanation
Indices: 85867994--85868063 Score: 67
Period size: 25 Copynumber: 2.8 Consensus size: 25
85867984 AAAGGCGAGG
* *
85867994 TAATAATAATAAACAGGAAAATA-AA
1 TAATAATAATAAATA-AAAAATATAA
85868019 TAATAATAATAAAGTAAAAAA-ATAA
1 TAATAATAATAAA-TAAAAAATATAA
85868044 -AATAA-AATGAAATAAAAAAT
1 TAATAATAAT-AAATAAAAAAT
85868064 CATTAAAAGG
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
23 10 0.26
24 9 0.23
25 19 0.49
26 1 0.03
ACGTcount: A:0.71, C:0.01, G:0.06, T:0.21
Consensus pattern (25 bp):
TAATAATAATAAATAAAAAATATAA
Found at i:85869692 original size:17 final size:15
Alignment explanation
Indices: 85869653--85869695 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 15
85869643 TATGTGATGA
85869653 ATTTATTGAATTTAT
1 ATTTATTGAATTTAT
*
85869668 ATTGATTGAATTTAT
1 ATTTATTGAATTTAT
85869683 ATATATATTGAAT
1 AT-T-TATTGAAT
85869696 ATATTGATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 16 0.67
16 1 0.04
17 7 0.29
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.53
Consensus pattern (15 bp):
ATTTATTGAATTTAT
Found at i:85874692 original size:12 final size:12
Alignment explanation
Indices: 85874677--85874707 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
85874667 TTCTCTTTTA
85874677 TTTTTCTTTCCC
1 TTTTTCTTTCCC
*
85874689 TTTTTCTTTCTC
1 TTTTTCTTTCCC
85874701 TTTTTCT
1 TTTTTCT
85874708 CCCCTGCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:85882258 original size:12 final size:12
Alignment explanation
Indices: 85882243--85882273 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
85882233 TTCTCTTTTA
85882243 TTTTTCTTTCCC
1 TTTTTCTTTCCC
*
85882255 TTTTTCTTTCTC
1 TTTTTCTTTCCC
85882267 TTTTTCT
1 TTTTTCT
85882274 CCCCTGCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:85885102 original size:43 final size:42
Alignment explanation
Indices: 85884964--85885114 Score: 196
Period size: 43 Copynumber: 3.6 Consensus size: 42
85884954 ACTAAGACTA
*
85884964 CGTGTAAGACCATATCTGGGATATGGCATCG-TATGGGATTT
1 CGTGTAAGACCATATCTGGGATATGGCATCGATATGAGATTT
* *
85885005 CGTGTAAGACTATATCTGGGATATGGCGTCGATATGAGATTT
1 CGTGTAAGACCATATCTGGGATATGGCATCGATATGAGATTT
* * * *
85885047 CGTGTAAAACCATAACTGGGCTATTGGCATCGATATGAGATTA
1 CGTGTAAGACCATATCTGGGATA-TGGCATCGATATGAGATTT
* * *
85885090 CATGTCAGACCATATATGGGATATG
1 CGTGTAAGACCATATCTGGGATATG
85885115 ACATTGGTAT
Statistics
Matches: 93, Mismatches: 15, Indels: 3
0.84 0.14 0.03
Matches are distributed among these distances:
41 29 0.31
42 30 0.32
43 34 0.37
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.30
Consensus pattern (42 bp):
CGTGTAAGACCATATCTGGGATATGGCATCGATATGAGATTT
Found at i:85885317 original size:15 final size:16
Alignment explanation
Indices: 85885290--85885319 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
85885280 ATGAACCCTT
85885290 AGTAAGATTATGATTG
1 AGTAAGATTATGATTG
85885306 AGTAAG-TTATGATT
1 AGTAAGATTATGATT
85885320 ATAAGAGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.37, C:0.00, G:0.23, T:0.40
Consensus pattern (16 bp):
AGTAAGATTATGATTG
Found at i:85891581 original size:24 final size:21
Alignment explanation
Indices: 85891541--85891677 Score: 179
Period size: 20 Copynumber: 6.3 Consensus size: 21
85891531 ATTGTTATTC
85891541 ATAATTTTTTTATTTTAATTA
1 ATAATTTTTTTATTTTAATTA
*
85891562 ATAATGGTTTTTAATATTTAATTA
1 ATAAT--TTTTTTAT-TTTAATTA
85891586 AT-ATTTTTTTATTTTAATTA
1 ATAATTTTTTTATTTTAATTA
*
85891606 ATAATGGTTTTTAATATTTAATTA
1 ATAAT--TTTTTTAT-TTTAATTA
85891630 ATAATTTTTTTATTTTAATTA
1 ATAATTTTTTTATTTTAATTA
*
85891651 ATAA-TTTTTTACTTTAATTA
1 ATAATTTTTTTATTTTAATTA
85891671 ATAATTT
1 ATAATTT
85891678 CATTTTTACT
Statistics
Matches: 103, Mismatches: 5, Indels: 16
0.83 0.04 0.13
Matches are distributed among these distances:
20 29 0.28
21 28 0.27
22 7 0.07
23 16 0.16
24 23 0.22
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.61
Consensus pattern (21 bp):
ATAATTTTTTTATTTTAATTA
Found at i:85891592 original size:20 final size:21
Alignment explanation
Indices: 85891541--85891677 Score: 138
Period size: 21 Copynumber: 6.3 Consensus size: 21
85891531 ATTGTTATTC
*
85891541 ATAATTTTTTTATTTTAATTA
1 ATAATTTTTATATTTTAATTA
85891562 ATAATGGTTTT-TAATATTTAATTA
1 ATAAT--TTTTAT-AT-TTTAATTA
*
85891586 AT-ATTTTTTTATTTTAATTA
1 ATAATTTTTATATTTTAATTA
85891606 ATAATGGTTTT-TAATATTTAATTA
1 ATAAT--TTTTAT-AT-TTTAATTA
*
85891630 ATAATTTTTTTATTTTAATTA
1 ATAATTTTTATATTTTAATTA
*
85891651 ATAATTTTT-TACTTTAATTA
1 ATAATTTTTATATTTTAATTA
85891671 ATAATTT
1 ATAATTT
85891678 CATTTTTACT
Statistics
Matches: 104, Mismatches: 1, Indels: 23
0.81 0.01 0.18
Matches are distributed among these distances:
20 27 0.26
21 30 0.29
22 9 0.09
23 15 0.14
24 23 0.22
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.61
Consensus pattern (21 bp):
ATAATTTTTATATTTTAATTA
Found at i:85891594 original size:44 final size:45
Alignment explanation
Indices: 85891527--85891677 Score: 231
Period size: 44 Copynumber: 3.4 Consensus size: 45
85891517 TCCTAAATAA
* *
85891527 TAATATTGTTATTCATAATTTTTTTATTTTAATTAATAATGGTTTT
1 TAATATT-TAATTAATAATTTTTTTATTTTAATTAATAATGGTTTT
85891573 TAATATTTAATTAAT-ATTTTTTTATTTTAATTAATAATGGTTTT
1 TAATATTTAATTAATAATTTTTTTATTTTAATTAATAATGGTTTT
85891617 TAATATTTAATTAATAATTTTTTTATTTTAATTAATAAT--TTTT
1 TAATATTTAATTAATAATTTTTTTATTTTAATTAATAATGGTTTT
*
85891660 T-A-CTTTAATTAATAATTT
1 TAATATTTAATTAATAATTT
85891678 CATTTTTACT
Statistics
Matches: 101, Mismatches: 3, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
41 15 0.15
42 1 0.01
43 5 0.05
44 44 0.44
45 29 0.29
46 7 0.07
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.61
Consensus pattern (45 bp):
TAATATTTAATTAATAATTTTTTTATTTTAATTAATAATGGTTTT
Found at i:85895275 original size:73 final size:73
Alignment explanation
Indices: 85895193--85895378 Score: 354
Period size: 73 Copynumber: 2.5 Consensus size: 73
85895183 ACAACTTGAC
85895193 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
85895258 CACTAACA
66 CACTAACA
*
85895266 AACTTAGTTGGAATACAACTAAGTTTTATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
85895331 CACTAACA
66 CACTAACA
*
85895339 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCA
85895379 AATAATAATA
Statistics
Matches: 110, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 110 1.00
ACGTcount: A:0.41, C:0.24, G:0.06, T:0.28
Consensus pattern (73 bp):
AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
CACTAACA
Found at i:85895996 original size:52 final size:50
Alignment explanation
Indices: 85895890--85895998 Score: 132
Period size: 50 Copynumber: 2.1 Consensus size: 50
85895880 AATTAACCCA
* *
85895890 GGATGGATTAAACTGCTATGTCCTAATTAGTACATTCACAATGATAAAAT
1 GGATAGATTAAACTGCTATGTCCTAATTAGAACATTCACAATGATAAAAT
* *
85895940 GGATAGATTAACCTGCTATGT-TTAATTAGGAACATATGCACAATGA-AAAGAT
1 GGATAGATTAAACTGCTATGTCCTAATTA-GAACAT-T-CACAATGATAAA-AT
85895992 GGATAGA
1 GGATAGA
85895999 CACAGAACTT
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
49 6 0.12
50 24 0.47
51 4 0.08
52 17 0.33
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.29
Consensus pattern (50 bp):
GGATAGATTAAACTGCTATGTCCTAATTAGAACATTCACAATGATAAAAT
Found at i:85897404 original size:79 final size:79
Alignment explanation
Indices: 85897247--85897405 Score: 194
Period size: 79 Copynumber: 2.0 Consensus size: 79
85897237 CCTACATGTG
* * * * * *
85897247 AACAACCACACTAGGGGTCGTGTACCTTACATACGATTAGGCGAGAAGAACAACATTACAAAACC
1 AACAACCACACCAGAGGCCGTGCACCTTAAATACGATTACGCGAGAAGAACAACATTACAAAACC
**
85897312 TAGGTTTTTATACC
66 TAGGTTTAGATACC
* *
85897326 AACAACCACACCAGAGGCCGTGCACCTTAAATAGGATTACGC-AGGAAGAGCAACATTACAAAAC
1 AACAACCACACCAGAGGCCGTGCACCTTAAATACGATTACGCGA-GAAGAACAACATTACAAAAC
* *
85897390 TTGGGTTTAGATACC
65 CTAGGTTTAGATACC
85897405 A
1 A
85897406 TGTTCAGCAT
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 1 0.01
79 66 0.99
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.20
Consensus pattern (79 bp):
AACAACCACACCAGAGGCCGTGCACCTTAAATACGATTACGCGAGAAGAACAACATTACAAAACC
TAGGTTTAGATACC
Found at i:85906704 original size:24 final size:24
Alignment explanation
Indices: 85906677--85906727 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
85906667 TGCTTATTTT
85906677 GGTATACTTTATTAAGAAATTTAA
1 GGTATACTTTATTAAGAAATTTAA
*
85906701 GGTATACTTTATTGAGAAATTTAA
1 GGTATACTTTATTAAGAAATTTAA
85906725 GGT
1 GGT
85906728 GAGTAAAACT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.37, C:0.04, G:0.18, T:0.41
Consensus pattern (24 bp):
GGTATACTTTATTAAGAAATTTAA
Found at i:85907011 original size:20 final size:20
Alignment explanation
Indices: 85906988--85907053 Score: 64
Period size: 21 Copynumber: 3.4 Consensus size: 20
85906978 TTTAAAATAT
**
85906988 TTATAAAATTTCCAAAAAAA
1 TTATAAAATTTTAAAAAAAA
* *
85907008 TTAT--ATTTTTTAAAAAAA
1 TTATAAAATTTTAAAAAAAA
85907026 TTATAATAATTTTAAAAAAAA
1 TTATAA-AATTTTAAAAAAAA
*
85907047 TTCTAAA
1 TTATAAA
85907054 GAATATACAA
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
18 15 0.41
20 5 0.14
21 17 0.46
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (20 bp):
TTATAAAATTTTAAAAAAAA
Found at i:85907024 original size:18 final size:20
Alignment explanation
Indices: 85906978--85907045 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 20
85906968 TTTTAAAATA
* *
85906978 TTTAAAATATTTATAA-AAT
1 TTTAAAAAAATTATAATAAT
* *
85906997 TTCCAAAAAAATTAT-AT-TT
1 TT-TAAAAAAATTATAATAAT
85907016 TTTAAAAAAATTATAATAAT
1 TTTAAAAAAATTATAATAAT
85907036 TTTAAAAAAA
1 TTTAAAAAAA
85907046 ATTCTAAAGA
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
18 11 0.28
19 8 0.21
20 20 0.51
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (20 bp):
TTTAAAAAAATTATAATAAT
Found at i:85907038 original size:21 final size:21
Alignment explanation
Indices: 85906978--85907048 Score: 69
Period size: 18 Copynumber: 3.6 Consensus size: 21
85906968 TTTTAAAATA
* *
85906978 TTTAAAATATTTATAA-AATT
1 TTTAAAAAAATTATAATAATT
**
85906998 TCCAAAAAAATTAT-AT--TT
1 TTTAAAAAAATTATAATAATT
85907016 TTTAAAAAAATTATAATAATT
1 TTTAAAAAAATTATAATAATT
*
85907037 TTAAAAAAAATT
1 TTTAAAAAAATT
85907049 CTAAAGAATA
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
18 14 0.35
19 3 0.08
20 10 0.25
21 13 0.32
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (21 bp):
TTTAAAAAAATTATAATAATT
Found at i:85908515 original size:21 final size:21
Alignment explanation
Indices: 85908489--85908529 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
85908479 TAACTGGACC
*
85908489 GCTGATGTGG-CAAGTTAACTA
1 GCTGATATGGTCAAG-TAACTA
85908510 GCTGATATGGTCAAGTAACT
1 GCTGATATGGTCAAGTAACT
85908530 TGCCACGTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (21 bp):
GCTGATATGGTCAAGTAACTA
Found at i:85916843 original size:40 final size:41
Alignment explanation
Indices: 85916799--85916887 Score: 108
Period size: 41 Copynumber: 2.2 Consensus size: 41
85916789 TATTATACAT
*
85916799 TAGCGGCGTTTGCAAT-AAAACGCCACTAAAAACTGAGCAA
1 TAGCGGCGTTTGCAATCAAAACGCCACTAAAAACTGAACAA
**** * *
85916839 TAGCGGCGTTTTTGGTCCAAACGCCGCTAAAAACTGAACAA
1 TAGCGGCGTTTGCAATCAAAACGCCACTAAAAACTGAACAA
85916880 TAGCGGCG
1 TAGCGGCG
85916888 CTTTTGGAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
40 12 0.29
41 29 0.71
ACGTcount: A:0.34, C:0.24, G:0.24, T:0.19
Consensus pattern (41 bp):
TAGCGGCGTTTGCAATCAAAACGCCACTAAAAACTGAACAA
Found at i:85916869 original size:41 final size:41
Alignment explanation
Indices: 85916816--85916894 Score: 131
Period size: 41 Copynumber: 1.9 Consensus size: 41
85916806 GTTTGCAATA
* *
85916816 AAACGCCACTAAAAACTGAGCAATAGCGGCGTTTTTGGTCC
1 AAACGCCACTAAAAACTGAACAATAGCGGCGCTTTTGGTCC
*
85916857 AAACGCCGCTAAAAACTGAACAATAGCGGCGCTTTTGG
1 AAACGCCACTAAAAACTGAACAATAGCGGCGCTTTTGG
85916895 AAAAACACCG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.33, C:0.24, G:0.23, T:0.20
Consensus pattern (41 bp):
AAACGCCACTAAAAACTGAACAATAGCGGCGCTTTTGGTCC
Found at i:85916925 original size:41 final size:41
Alignment explanation
Indices: 85916880--85917028 Score: 253
Period size: 41 Copynumber: 3.6 Consensus size: 41
85916870 AACTGAACAA
* *
85916880 TAGCGGCGCTTTTGGAAAAACACCGCTATAGGTCGAGGTTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGATCGAGGTTT
*
85916921 TAGCGGCGCTTTTAGAAAAACGCCGCTATAGATCGAGGTTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGATCGAGGTTT
*
85916962 TAGCGGCGCTTTTGGAAAAACGGCGCTATAGATCGAGGTTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGATCGAGGTTT
*
85917003 TAGCAGCGCTTTTGGAAAAACGCCGC
1 TAGCGGCGCTTTTGGAAAAACGCCGC
85917029 AAAAAAGTAA
Statistics
Matches: 101, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 101 1.00
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.26
Consensus pattern (41 bp):
TAGCGGCGCTTTTGGAAAAACGCCGCTATAGATCGAGGTTT
Found at i:85917669 original size:14 final size:14
Alignment explanation
Indices: 85917659--85917690 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
85917649 AATGTTTATT
*
85917659 GTTTTTGGTTTAGA
1 GTTTATGGTTTAGA
85917673 GTTTATGGTTTAGA
1 GTTTATGGTTTAGA
85917687 GTTT
1 GTTT
85917691 GTAGTTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.16, C:0.00, G:0.28, T:0.56
Consensus pattern (14 bp):
GTTTATGGTTTAGA
Found at i:85917885 original size:20 final size:19
Alignment explanation
Indices: 85917862--85917912 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
85917852 GTAATATATA
85917862 TTTAGGGTTTAGGATATAGG
1 TTTAGGGTTTAGG-TATAGG
** *
85917882 TTTATAGTTTGAGGTTTAGG
1 TTTAGGGTTT-AGGTATAGG
85917902 TTTAGGGTTTA
1 TTTAGGGTTTA
85917913 CTGTTGGAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.22, C:0.00, G:0.31, T:0.47
Consensus pattern (19 bp):
TTTAGGGTTTAGGTATAGG
Found at i:85918137 original size:17 final size:18
Alignment explanation
Indices: 85918115--85918148 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
85918105 TATTTGTTTT
85918115 AATATA-TTAAAATTATC
1 AATATAGTTAAAATTATC
*
85918132 AATATAGTTTAAATTAT
1 AATATAGTTAAAATTAT
85918149 TTAAGAGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (18 bp):
AATATAGTTAAAATTATC
Done.