Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 158 of 310
Found at i:51716017 original size:120 final size:120
Alignment explanation
Indices: 51715799--51716040 Score: 466
Period size: 120 Copynumber: 2.0 Consensus size: 120
51715789 TTGCAAGTAC
51715799 ATAATACCTCTCCTTTCTTCGAATTCCAAAATCGAACCGCATCTTCCCATTGGTACCTCAGCATT
1 ATAATACCTCTCCTTTCTTCGAATTCCAAAATCGAACCGCATCTTCCCATTGGTACCTCAGCATT
*
51715864 CCCGGTGGGACATTTTGCAATTTTTCTTCGAGGCTTATGGGTTTTTTAAAATATT
66 CCCGGTGGGACATTTTGCAATTTTTCTTCGAGGCTTATAGGTTTTTTAAAATATT
51715919 ATAATACCTCTCCTTTCTTCGAATTCCAAAATCGAACCGCATCTTCCCATTGGTACCTCAGCATT
1 ATAATACCTCTCCTTTCTTCGAATTCCAAAATCGAACCGCATCTTCCCATTGGTACCTCAGCATT
*
51715984 CCCGGTGGGACATTTTGCAATTTTTCTTTGAGGCTTATAGGTTTTTTAAAATATT
66 CCCGGTGGGACATTTTGCAATTTTTCTTCGAGGCTTATAGGTTTTTTAAAATATT
51716039 AT
1 AT
51716041 TTTTTTAAAC
Statistics
Matches: 120, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 120 1.00
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.38
Consensus pattern (120 bp):
ATAATACCTCTCCTTTCTTCGAATTCCAAAATCGAACCGCATCTTCCCATTGGTACCTCAGCATT
CCCGGTGGGACATTTTGCAATTTTTCTTCGAGGCTTATAGGTTTTTTAAAATATT
Found at i:51720700 original size:9 final size:9
Alignment explanation
Indices: 51720686--51720813 Score: 121
Period size: 9 Copynumber: 13.6 Consensus size: 9
51720676 ATGTATTAGT
51720686 TAAGTTATG
1 TAAGTTATG
51720695 TAAGTTGTTATG
1 TAA---GTTATG
*
51720707 TACGTTATG
1 TAAGTTATG
*
51720716 TGAGTTATG
1 TAAGTTATG
*
51720725 TAAATTATG
1 TAAGTTATG
51720734 TAAGTTATG
1 TAAGTTATG
*
51720743 TGAGTTATG
1 TAAGTTATG
51720752 TAAGTTGTTATG
1 TAA---GTTATG
*
51720764 TAAATTATG
1 TAAGTTATG
*
51720773 TAAGTTATA
1 TAAGTTATG
*
51720782 TGAGTTATG
1 TAAGTTATG
51720791 TAAGTTATG
1 TAAGTTATG
* *
51720800 TAATTTATT
1 TAAGTTATG
51720809 TAAGT
1 TAAGT
51720814 AATGATAATT
Statistics
Matches: 96, Mismatches: 17, Indels: 12
0.77 0.14 0.10
Matches are distributed among these distances:
9 79 0.82
12 17 0.18
ACGTcount: A:0.31, C:0.01, G:0.21, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:51720813 original size:57 final size:57
Alignment explanation
Indices: 51720686--51720813 Score: 175
Period size: 57 Copynumber: 2.2 Consensus size: 57
51720676 ATGTATTAGT
** * *
51720686 TAAGTTATGTAAGTTGTTATGTACGTTATGTGAGTTATGTAAATTATGTAAGTTATG
1 TAAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATG
* * *
51720743 TGAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATGAGTTATGTAAGTTATG
1 TAAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATG
* *
51720800 TAATTTATTTAAGT
1 TAAGTTATGTAAGT
51720814 AATGATAATT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
57 61 1.00
ACGTcount: A:0.31, C:0.01, G:0.21, T:0.47
Consensus pattern (57 bp):
TAAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATG
Found at i:51720825 original size:27 final size:26
Alignment explanation
Indices: 51720761--51720829 Score: 68
Period size: 27 Copynumber: 2.6 Consensus size: 26
51720751 GTAAGTTGTT
* * *
51720761 ATGTAAATTATGTAAGTTATATGAGTT
1 ATGT-AATTATGTAATTTATATAAGTA
*
51720788 ATGTAAGTTATGTAATTTATTTAAGTA
1 ATGTAA-TTATGTAATTTATATAAGTA
51720815 ATGATAATTAT-TAAT
1 ATG-TAATTATGTAAT
51720830 ACTATTTTGA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
26 6 0.17
27 27 0.75
28 3 0.08
ACGTcount: A:0.39, C:0.00, G:0.14, T:0.46
Consensus pattern (26 bp):
ATGTAATTATGTAATTTATATAAGTA
Found at i:51737864 original size:23 final size:23
Alignment explanation
Indices: 51737838--51737897 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
51737828 TGTCCCAATG
*
51737838 CACAAAGGCGTGTGCATTGTCTC
1 CACAAGGGCGTGTGCATTGTCTC
* *
51737861 CACACGGGCGTTTGCATTGTCTC
1 CACAAGGGCGTGTGCATTGTCTC
*
51737884 CACATGGGCGTGTG
1 CACAAGGGCGTGTG
51737898 AGGCATTAAC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.17, C:0.27, G:0.30, T:0.27
Consensus pattern (23 bp):
CACAAGGGCGTGTGCATTGTCTC
Found at i:51744671 original size:55 final size:55
Alignment explanation
Indices: 51744567--51744677 Score: 125
Period size: 55 Copynumber: 2.0 Consensus size: 55
51744557 CCAAAGACAT
* * *
51744567 GCCCGTGTCACAGCCCGTGTGGACATTCGAAATGGAATCACATGGCCGTGTCCCA
1 GCCCGTGTCACAGCCCGTATGGACATTCGAAATGGAATCACACGCCCGTGTCCCA
* * ** * *
51744622 GCCCGTGTCACACGCCCGTAT-GCCCTTCGAAATGGCCTCAGACGCCCGTGTGCCA
1 GCCCGTGTCACA-GCCCGTATGGACATTCGAAATGGAATCACACGCCCGTGTCCCA
51744677 G
1 G
51744678 GCCATATGCT
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
55 39 0.85
56 7 0.15
ACGTcount: A:0.19, C:0.35, G:0.27, T:0.19
Consensus pattern (55 bp):
GCCCGTGTCACAGCCCGTATGGACATTCGAAATGGAATCACACGCCCGTGTCCCA
Found at i:51756042 original size:46 final size:47
Alignment explanation
Indices: 51755909--51756071 Score: 151
Period size: 46 Copynumber: 3.5 Consensus size: 47
51755899 ATTGTGGACT
* * *
51755909 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-ATTGAGATG-AGAGCT
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGCTACT-AGATGTA-ATCC
* * * *
51755957 AATGTAA-AACATGTCTGGGACACGCATCGGCCT-CGAGATGTAATCC
1 AGTGTAAGACCATGTCTGGGACATGCATCGG-CTACTAGATGTAATCC
* *
51756003 AGTGTAAGA-CATGTCTGGGACATGCATCAGCTACTAGATGT-GT-C
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCTACTAGATGTAATCC
*
51756047 AGTGTAAGACCATGTCTAGGACATG
1 AGTGTAAGACCATGTCTGGGACATG
51756072 GAATCAACAC
Statistics
Matches: 96, Mismatches: 13, Indels: 15
0.77 0.10 0.12
Matches are distributed among these distances:
44 10 0.10
45 17 0.18
46 46 0.48
47 17 0.18
48 6 0.06
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGCATCGGCTACTAGATGTAATCC
Found at i:51757536 original size:49 final size:49
Alignment explanation
Indices: 51757480--51757651 Score: 215
Period size: 49 Copynumber: 3.5 Consensus size: 49
51757470 CTGGTACGCA
51757480 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
* * ** * * *
51757529 TAATAGCCTGCACTTAGTAC-ACACGTGATCGA--TGTTATCAGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATG--CGACCAATTATCCGGTACACG
* * *
51757577 TAGTAGCCTACACATAGTACTACACATGCGACCAATTATCCAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
51757626 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
51757652 CATGACCTCA
Statistics
Matches: 99, Mismatches: 19, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
47 3 0.03
48 34 0.34
49 59 0.60
50 3 0.03
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
Found at i:51757638 original size:97 final size:98
Alignment explanation
Indices: 51757467--51757650 Score: 316
Period size: 97 Copynumber: 1.9 Consensus size: 98
51757457 TGGCCAAAGC
* * * *
51757467 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAA
1 TATCAGGTACGCATAGTAGCCTACACATAGTACTACACATGCGACCAATTATCCAGTACACGTAA
51757532 TAGCCTGCACTTAGTAC-ACACGTGATCGATGT
66 TAGCCTGCACTTAGTACTACACGTGATCGATGT
*
51757564 TATCAGGTACGCATAGTAGCCTACACATAGTACTACACATGCGACCAATTATCCAGTACACGTAG
1 TATCAGGTACGCATAGTAGCCTACACATAGTACTACACATGCGACCAATTATCCAGTACACGTAA
51757629 TAGCCTGCACTTAGTACTACAC
66 TAGCCTGCACTTAGTACTACAC
51757651 ACATGACCTC
Statistics
Matches: 81, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
97 77 0.95
98 4 0.05
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.26
Consensus pattern (98 bp):
TATCAGGTACGCATAGTAGCCTACACATAGTACTACACATGCGACCAATTATCCAGTACACGTAA
TAGCCTGCACTTAGTACTACACGTGATCGATGT
Found at i:51771134 original size:27 final size:26
Alignment explanation
Indices: 51771103--51771280 Score: 142
Period size: 27 Copynumber: 6.6 Consensus size: 26
51771093 TAAATTGTAC
*
51771103 AGCACTAAGTGTGCGATTCTACTTTGT
1 AGCACTAAGTGTGCGATT-TACTATGT
* * * *
51771130 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTTACTATGT
* * *
51771156 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTTACTATGT
*
51771184 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTT-ACTATGT
* *
51771212 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTT-ACTATGT
* * *
51771239 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTTACTATGT
*
51771266 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
51771281 GGCTCAATAT
Statistics
Matches: 125, Mismatches: 20, Indels: 12
0.80 0.13 0.08
Matches are distributed among these distances:
26 1 0.01
27 100 0.80
28 24 0.19
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTTACTATGT
Found at i:51771164 original size:54 final size:54
Alignment explanation
Indices: 51771103--51771280 Score: 166
Period size: 54 Copynumber: 3.3 Consensus size: 54
51771093 TAAATTGTAC
* *
51771103 AGCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGATT-TACTTTGTAGCACTAAGTGTGCGAATTGAATATGAT
* ** ** * *
51771158 -GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATG-T
1 AGCACTAAGTGTGCG-ATTTACTTTGTAGCACTAAGTGTGCGA-ATTGAATATGAT
* * *
51771212 AGCACTAAGTGTGCGATTTGA-TTACGTAGCACTAAGTGTGCGAGTTGATTAT-AT
1 AGCACTAAGTGTGCGATTT-ACTT-TGTAGCACTAAGTGTGCGAATTGAATATGAT
*
51771266 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
51771281 GGCTCAATAT
Statistics
Matches: 100, Mismatches: 17, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
54 59 0.59
55 41 0.41
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (54 bp):
AGCACTAAGTGTGCGATTTACTTTGTAGCACTAAGTGTGCGAATTGAATATGAT
Found at i:51771227 original size:55 final size:54
Alignment explanation
Indices: 51771131--51771280 Score: 167
Period size: 55 Copynumber: 2.8 Consensus size: 54
51771121 CTACTTTGTT
** * *
51771131 GCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAGTTGAATATGTA-GCACTAAGTGTGCGAATTGACCACGCA
* * ** *
51771185 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAG-TTGAATATGTAGCACTAAGTGTGCGAATTGACCACGCA
* * *
51771240 GCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCG
51771281 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
54 37 0.45
55 44 0.54
56 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAATTGACCACGCA
Found at i:51771227 original size:82 final size:81
Alignment explanation
Indices: 51771104--51771259 Score: 208
Period size: 82 Copynumber: 1.9 Consensus size: 81
51771094 AAATTGTACA
* * *
51771104 GCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
51771168 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
51771185 GCACTAAGTGTGCGAGTT-TGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGT
1 GCACTAAGTGTGCGA-TTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGT
*
51771249 GTGCGAGTTGA
64 GTGCGAATTGA
51771260 TTATATAGCA
Statistics
Matches: 65, Mismatches: 7, Indels: 5
0.84 0.09 0.06
Matches are distributed among these distances:
81 16 0.25
82 48 0.74
83 1 0.02
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:51771271 original size:82 final size:81
Alignment explanation
Indices: 51771100--51771280 Score: 204
Period size: 82 Copynumber: 2.2 Consensus size: 81
51771090 GATTAAATTG
* * *
51771100 TACAGCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
51771165 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
51771181 TGCGGCACTAAGTGTGCGAGTT-TGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCAC
1 TACAGCACTAAGTGTGCGA-TTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCAC
* **
51771244 TAAGTGTGCGAGTTGATTA
63 TAAGTGTGCGAATTGACCA
* *
51771263 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
51771281 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
81 19 0.23
82 63 0.77
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:51771291 original size:27 final size:27
Alignment explanation
Indices: 51771185--51771291 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
51771175 TGACCATGCG
* * * *
51771185 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
51771213 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
51771240 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
51771267 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
51771292 CATTCGTGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 53 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:51774803 original size:36 final size:36
Alignment explanation
Indices: 51774756--51774828 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
51774746 AAAGCTAACG
* *
51774756 AAAACAGCCGGCGTGTATAATGTTGATTCTGTCACC
1 AAAACAGCCGGCGTGTATAACGTTGATTCGGTCACC
51774792 AAAACAGCCGGCGTGTATAACGTTGATTCGGTCACC
1 AAAACAGCCGGCGTGTATAACGTTGATTCGGTCACC
51774828 A
1 A
51774829 TTCTTTCTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (36 bp):
AAAACAGCCGGCGTGTATAACGTTGATTCGGTCACC
Found at i:51780875 original size:315 final size:315
Alignment explanation
Indices: 51780303--51780933 Score: 1262
Period size: 315 Copynumber: 2.0 Consensus size: 315
51780293 CCCCAAATTT
51780303 AGGTATTCCTTTGAATCGGAATTCACAAGTTTTTATCATCAAAAAGCCATAATTTTTTGTGAGAT
1 AGGTATTCCTTTGAATCGGAATTCACAAGTTTTTATCATCAAAAAGCCATAATTTTTTGTGAGAT
51780368 TTTTGAGCCTTTTGAGCATCTATTCATTCTTTCATGCTCACTCTTATCATTGCTTTGAGTGTGTC
66 TTTTGAGCCTTTTGAGCATCTATTCATTCTTTCATGCTCACTCTTATCATTGCTTTGAGTGTGTC
51780433 AGTATTGAACTGTTATTCTATAACTTGCTTGATTATGCATGTCGAGACCACACCATTTGATTTGA
131 AGTATTGAACTGTTATTCTATAACTTGCTTGATTATGCATGTCGAGACCACACCATTTGATTTGA
51780498 TATGTCAAAATGATTAAGGCACTTAGGATTAACACACTCATGCCATGAAAAGCCTACCTCCACGA
196 TATGTCAAAATGATTAAGGCACTTAGGATTAACACACTCATGCCATGAAAAGCCTACCTCCACGA
51780563 TTAACCCCTAATAAACCCCCTTGAGCCTAACAAACCATTTTTTGTATTACCCTTA
261 TTAACCCCTAATAAACCCCCTTGAGCCTAACAAACCATTTTTTGTATTACCCTTA
51780618 AGGTATTCCTTTGAATCGGAATTCACAAGTTTTTATCATCAAAAAGCCATAATTTTTTGTGAGAT
1 AGGTATTCCTTTGAATCGGAATTCACAAGTTTTTATCATCAAAAAGCCATAATTTTTTGTGAGAT
51780683 TTTTGAGCCTTTTGAGCATCTATTCATTCTTTCATGCTCACTCTTATCATTGCTTTGAGTGTGTC
66 TTTTGAGCCTTTTGAGCATCTATTCATTCTTTCATGCTCACTCTTATCATTGCTTTGAGTGTGTC
51780748 AGTATTGAACTGTTATTCTATAACTTGCTTGATTATGCATGTCGAGACCACACCATTTGATTTGA
131 AGTATTGAACTGTTATTCTATAACTTGCTTGATTATGCATGTCGAGACCACACCATTTGATTTGA
51780813 TATGTCAAAATGATTAAGGCACTTAGGATTAACACACTCATGCCATGAAAAGCCTACCTCCACGA
196 TATGTCAAAATGATTAAGGCACTTAGGATTAACACACTCATGCCATGAAAAGCCTACCTCCACGA
51780878 TTAACCCCTAATAAACCCCCTTGAGCCTAACAAACCATTTTTTGTATTACCCTTA
261 TTAACCCCTAATAAACCCCCTTGAGCCTAACAAACCATTTTTTGTATTACCCTTA
51780933 A
1 A
51780934 TATTAACCCT
Statistics
Matches: 316, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
315 316 1.00
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (315 bp):
AGGTATTCCTTTGAATCGGAATTCACAAGTTTTTATCATCAAAAAGCCATAATTTTTTGTGAGAT
TTTTGAGCCTTTTGAGCATCTATTCATTCTTTCATGCTCACTCTTATCATTGCTTTGAGTGTGTC
AGTATTGAACTGTTATTCTATAACTTGCTTGATTATGCATGTCGAGACCACACCATTTGATTTGA
TATGTCAAAATGATTAAGGCACTTAGGATTAACACACTCATGCCATGAAAAGCCTACCTCCACGA
TTAACCCCTAATAAACCCCCTTGAGCCTAACAAACCATTTTTTGTATTACCCTTA
Found at i:51783519 original size:53 final size:53
Alignment explanation
Indices: 51783450--51783555 Score: 142
Period size: 53 Copynumber: 2.0 Consensus size: 53
51783440 TTTTCCTTTT
* * * * *
51783450 TGAACTTACCATTGCCATGTCTT-GACATGGTCTTACGTGGTATCCTTACCTTA
1 TGAACTCACCAATGCCATGACTTAG-CATGGTCTTACATGATATCCTTACCTTA
*
51783503 TGAACTCACCAATGCCATGACTTAGCATGGTCTTACATGATATCCTTATCTTA
1 TGAACTCACCAATGCCATGACTTAGCATGGTCTTACATGATATCCTTACCTTA
51783556 CCAAATGCCA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
53 45 0.98
54 1 0.02
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.36
Consensus pattern (53 bp):
TGAACTCACCAATGCCATGACTTAGCATGGTCTTACATGATATCCTTACCTTA
Found at i:51783585 original size:47 final size:47
Alignment explanation
Indices: 51783528--51783649 Score: 208
Period size: 47 Copynumber: 2.6 Consensus size: 47
51783518 CATGACTTAG
*
51783528 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
* *
51783575 CTTGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
*
51783622 CACGGTCTTACATGGTATCCTTATCTTA
1 CATGGTCTTACATGGTATCCTTATCTTA
51783650 GTGCCAATGC
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 69 1.00
ACGTcount: A:0.25, C:0.25, G:0.13, T:0.36
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
Found at i:51783838 original size:44 final size:44
Alignment explanation
Indices: 51783787--51783873 Score: 129
Period size: 44 Copynumber: 2.0 Consensus size: 44
51783777 GTATCCTTAA
* *
51783787 CCGTCAATTCCTCCTTAAATGCCATGTTATAAACATGGACTTTT
1 CCGTCAATTCCTCCTTAAATGCCATGGTACAAACATGGACTTTT
* * *
51783831 CCGTCAATTCTTCCTTAATTGCCATGGTACAACCATGGACTTT
1 CCGTCAATTCCTCCTTAAATGCCATGGTACAAACATGGACTTT
51783874 GAGATATCAA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.25, C:0.26, G:0.13, T:0.36
Consensus pattern (44 bp):
CCGTCAATTCCTCCTTAAATGCCATGGTACAAACATGGACTTTT
Found at i:51790225 original size:54 final size:54
Alignment explanation
Indices: 51790032--51790239 Score: 251
Period size: 55 Copynumber: 3.9 Consensus size: 54
51790022 TTTCCTTTTT
* * * * *
51790032 GAACTTACCATTGCCATGTCTTGACATGGTCATACATGGTATCCTTGCCATAT-
1 GAACTTACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* * **
51790085 GAACTCACCAATGCCATGCCTTGTCATGGTCTTACATGGGA-CCTTTGCCTTATA
1 GAACTTACCAATGCCATGCCTTGACATGGTCTTACATGATATCC-TTGCCTTATA
* *
51790139 GTAA-TTCATCAATGCCATGCCTTGACATGGTCTTACATGATTTCCTTGCCTTATA
1 G-AACTT-ACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* *
51790194 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTT
1 GAACTTACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTT
51790240 ATCTTACCAA
Statistics
Matches: 134, Mismatches: 15, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
52 2 0.01
53 43 0.32
54 42 0.31
55 45 0.34
56 2 0.01
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.35
Consensus pattern (54 bp):
GAACTTACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
Found at i:51791021 original size:31 final size:30
Alignment explanation
Indices: 51790986--51791043 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
51790976 CTAACTCAAA
51790986 CTTTGGAAAAATTACAATTTTGCCCCTACAC
1 CTTT-GAAAAATTACAATTTTGCCCCTACAC
* * *
51791017 CTTTGCAAAATTACGATTTTTCCCCTA
1 CTTTGAAAAATTACAATTTTGCCCCTA
51791044 GGCTTGAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 20 0.83
31 4 0.17
ACGTcount: A:0.29, C:0.26, G:0.09, T:0.36
Consensus pattern (30 bp):
CTTTGAAAAATTACAATTTTGCCCCTACAC
Found at i:51797331 original size:46 final size:46
Alignment explanation
Indices: 51797199--51797331 Score: 121
Period size: 46 Copynumber: 2.8 Consensus size: 46
51797189 ATTGTGGACT
* *
51797199 AGTGTAAGACCATGTCT-GAGACATGGCATCGGC-ATTGAGATGAGAGCT
1 AGTGTAA-AACATGTCTAG-GACAT-GCATCGGCTA-TGAGATGAGAGCC
* * * *
51797247 AGTGTAAGACATGTCTAGGACAAGTATCAGCCT-TGAGATGTA-AGCC
1 AGTGTAAAACATGTCTAGGACATGCATC-GGCTATGAGATG-AGAGCC
*
51797293 AGTGTAAAACATGTCTAGGACATGCATCGGCTACGAGAT
1 AGTGTAAAACATGTCTAGGACATGCATCGGCTATGAGAT
51797332 ATGTCAGTTT
Statistics
Matches: 69, Mismatches: 11, Indels: 12
0.75 0.12 0.13
Matches are distributed among these distances:
45 3 0.04
46 44 0.64
47 14 0.20
48 8 0.12
ACGTcount: A:0.32, C:0.17, G:0.28, T:0.23
Consensus pattern (46 bp):
AGTGTAAAACATGTCTAGGACATGCATCGGCTATGAGATGAGAGCC
Found at i:51797384 original size:31 final size:31
Alignment explanation
Indices: 51797346--51797407 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
51797336 CAGTTTAAGA
* * *
51797346 CATGTCTAAGACATGGCGTCGACATGGATAT
1 CATGTCTAAAACATGGCATCGACACGGATAT
51797377 CATGTCTAAAACATGGCATCGACACGGATAT
1 CATGTCTAAAACATGGCATCGACACGGATAT
51797408 GTGAGAGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.24
Consensus pattern (31 bp):
CATGTCTAAAACATGGCATCGACACGGATAT
Found at i:51797483 original size:47 final size:47
Alignment explanation
Indices: 51797412--51797541 Score: 224
Period size: 47 Copynumber: 2.8 Consensus size: 47
51797402 GGATATGTGA
* *
51797412 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATTGACTTGATGGAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATGGAT
*
51797459 GAGCCAGTGGAAGACCATGTCTGGGACATGGCATCGACTTGATGGAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATGGAT
*
51797506 GAGCCAGTGTAAGACCATGTCTGGAACATGGCATCG
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
51797542 GCTTTATACC
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 78 1.00
ACGTcount: A:0.26, C:0.18, G:0.32, T:0.23
Consensus pattern (47 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATGGAT
Found at i:51805533 original size:46 final size:46
Alignment explanation
Indices: 51805478--51805694 Score: 407
Period size: 46 Copynumber: 4.7 Consensus size: 46
51805468 GGTTGAGCAT
*
51805478 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
51805524 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
51805570 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATCGATGCGAACGC
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
51805616 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGC
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
51805662 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
51805695 GGGGCGGGTT
Statistics
Matches: 166, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 166 1.00
ACGTcount: A:0.20, C:0.25, G:0.29, T:0.26
Consensus pattern (46 bp):
CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:51821867 original size:13 final size:13
Alignment explanation
Indices: 51821851--51821878 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
51821841 GACACACCCC
51821851 TGGCACACGCCTG
1 TGGCACACGCCTG
51821864 TGGCACACGCCTG
1 TGGCACACGCCTG
51821877 TG
1 TG
51821879 TTCGATTACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.36, G:0.32, T:0.18
Consensus pattern (13 bp):
TGGCACACGCCTG
Found at i:51824977 original size:46 final size:46
Alignment explanation
Indices: 51824910--51825002 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
51824900 CTCAGCTCTC
51824910 TCAGCATCATTTTCAACGGTAGCCCAGAACTCCTAAGCCCCGTGTT
1 TCAGCATCATTTTCAACGGTAGCCCAGAACTCCTAAGCCCCGTGTT
51824956 TCAGCATCATTTTCAACGGTAGCCCAGAACTCCTAAGCCCCGTGTT
1 TCAGCATCATTTTCAACGGTAGCCCAGAACTCCTAAGCCCCGTGTT
51825002 T
1 T
51825003 ATGAATCTTA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.27
Consensus pattern (46 bp):
TCAGCATCATTTTCAACGGTAGCCCAGAACTCCTAAGCCCCGTGTT
Found at i:51827033 original size:27 final size:27
Alignment explanation
Indices: 51826993--51827104 Score: 138
Period size: 27 Copynumber: 4.1 Consensus size: 27
51826983 AGGAAGCGTC
*
51826993 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
51827020 CTGGTGGCTCTGCCACATATT-TCTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTGAT
*
51827047 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * *
51827075 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGAT
51827101 CTGG
1 CTGG
51827105 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 8 0.11
27 49 0.65
28 18 0.24
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:51827099 original size:54 final size:54
Alignment explanation
Indices: 51826993--51827104 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
51826983 AGGAAGCGTC
* *
51826993 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATTTCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * *
51827047 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
51827101 CTGG
1 CTGG
51827105 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:51828170 original size:11 final size:10
Alignment explanation
Indices: 51828142--51828175 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
51828132 AGCTTGTAAG
51828142 TATTCTGAAT
1 TATTCTGAAT
*
51828152 TTTTCTGAAT
1 TATTCTGAAT
51828162 ATATTCTGAAT
1 -TATTCTGAAT
51828173 TAT
1 TAT
51828176 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:51834555 original size:27 final size:27
Alignment explanation
Indices: 51834515--51834626 Score: 138
Period size: 27 Copynumber: 4.1 Consensus size: 27
51834505 AGGAAGCGTC
*
51834515 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
51834542 CTGGTGGCTCTGCCACATATT-TCTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTGAT
*
51834569 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * *
51834597 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGAT
51834623 CTGG
1 CTGG
51834627 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 8 0.11
27 49 0.65
28 18 0.24
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:51834621 original size:54 final size:54
Alignment explanation
Indices: 51834515--51834626 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
51834505 AGGAAGCGTC
* *
51834515 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATTTCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * *
51834569 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
51834623 CTGG
1 CTGG
51834627 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:51860247 original size:25 final size:25
Alignment explanation
Indices: 51860199--51860247 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
51860189 ATGGTCATGG
* *
51860199 CATATTTTGTAAAGCCTTTGTGGCA
1 CATATTCTGTAAAGCCTTTATGGCA
51860224 CATATTCTGTAAAGACC-TTATGGC
1 CATATTCTGTAAAG-CCTTTATGGC
51860248 TTATTATCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 19 0.90
26 2 0.10
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (25 bp):
CATATTCTGTAAAGCCTTTATGGCA
Found at i:51861919 original size:20 final size:20
Alignment explanation
Indices: 51861894--51861996 Score: 53
Period size: 20 Copynumber: 5.2 Consensus size: 20
51861884 CACATAAGTG
51861894 CCCCTGTTTGTACTTCGGTA
1 CCCCTGTTTGTACTTCGGTA
** ** * ** *
51861914 CCCCTGAATACACATAAGTG
1 CCCCTGTTTGTACTTCGGTA
*
51861934 CCTCTGTTTGTACTTCGGTA
1 CCCCTGTTTGTACTTCGGTA
** * * ** *
51861954 CCCCTGAATGCACATAAGTG
1 CCCCTGTTTGTACTTCGGTA
*
51861974 CACCTGTTTGTACTTCGGTA
1 CCCCTGTTTGTACTTCGGTA
51861994 CCC
1 CCC
51861997 TTGAATGCAC
Statistics
Matches: 49, Mismatches: 34, Indels: 0
0.59 0.41 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.19, C:0.30, G:0.18, T:0.32
Consensus pattern (20 bp):
CCCCTGTTTGTACTTCGGTA
Found at i:51861933 original size:40 final size:40
Alignment explanation
Indices: 51861878--51862086 Score: 319
Period size: 40 Copynumber: 5.2 Consensus size: 40
51861868 TATATATATA
51861878 TGAATGCACATAAGTGCCCCTGTTTGTACTTCGGTACCCC
1 TGAATGCACATAAGTGCCCCTGTTTGTACTTCGGTACCCC
* *
51861918 TGAATACACATAAGTGCCTCTGTTTGTACTTCGGTACCCC
1 TGAATGCACATAAGTGCCCCTGTTTGTACTTCGGTACCCC
* *
51861958 TGAATGCACATAAGTGCACCTGTTTGTACTTCGGTACCCT
1 TGAATGCACATAAGTGCCCCTGTTTGTACTTCGGTACCCC
* * * * *
51861998 TGAATGCACATAAGTGGCCTTGTTTGTACTTTGGTAACCT
1 TGAATGCACATAAGTGCCCCTGTTTGTACTTCGGTACCCC
* *
51862038 TGAATGCACATAAGTGCCCCTGTTTGCACTTCGATACCCC
1 TGAATGCACATAAGTGCCCCTGTTTGTACTTCGGTACCCC
51862078 TGAATGCAC
1 TGAATGCAC
51862087 CTGTTTGTAC
Statistics
Matches: 151, Mismatches: 18, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 151 1.00
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (40 bp):
TGAATGCACATAAGTGCCCCTGTTTGTACTTCGGTACCCC
Found at i:51862847 original size:31 final size:31
Alignment explanation
Indices: 51862809--51862873 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
51862799 CTTAGTGTCC
51862809 AAGAAAGCATGTTTTGGTGAACTTGAGTTTT
1 AAGAAAGCATGTTTTGGTGAACTTGAGTTTT
51862840 AAGAAAGCATGTTTTGGTGAACTTGAGTTTT
1 AAGAAAGCATGTTTTGGTGAACTTGAGTTTT
51862871 AAG
1 AAG
51862874 GTACATTTAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.31, C:0.06, G:0.26, T:0.37
Consensus pattern (31 bp):
AAGAAAGCATGTTTTGGTGAACTTGAGTTTT
Found at i:51875288 original size:30 final size:29
Alignment explanation
Indices: 51875254--51875328 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 29
51875244 ACACGAGTGG
51875254 CCACACGGATGTGTG-CAGCACACAGGCGGT
1 CCACACGG-TGTGTGCCA-CACACAGGCGGT
*
51875284 CCACACAGGTGTGTGCCACACACGGGCGGT
1 CCACAC-GGTGTGTGCCACACACAGGCGGT
51875314 CCACACGGTCGTGTG
1 CCACACGGT-GTGTG
51875329 ATTTTGGAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
29 3 0.07
30 34 0.83
31 4 0.10
ACGTcount: A:0.20, C:0.32, G:0.33, T:0.15
Consensus pattern (29 bp):
CCACACGGTGTGTGCCACACACAGGCGGT
Found at i:51875447 original size:21 final size:21
Alignment explanation
Indices: 51875423--51875476 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
51875413 CGAGCGTGTG
*
51875423 CCTTAGACACAAGGCCGTATC
1 CCTTGGACACAAGGCCGTATC
**
51875444 CCTTGGACACAAGGTTGTATC
1 CCTTGGACACAAGGCCGTATC
51875465 CCTTGGACACAA
1 CCTTGGACACAA
51875477 AGTTGTGTCC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (21 bp):
CCTTGGACACAAGGCCGTATC
Found at i:51875496 original size:21 final size:21
Alignment explanation
Indices: 51875439--51875489 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
51875429 ACACAAGGCC
*
51875439 GTATCCCTTGGACACAAGGTT
1 GTATCCCTTGGACACAAAGTT
51875460 GTATCCCTTGGACACAAAGTT
1 GTATCCCTTGGACACAAAGTT
*
51875481 GTGTCCCTT
1 GTATCCCTT
51875490 AGCCACACGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.31
Consensus pattern (21 bp):
GTATCCCTTGGACACAAAGTT
Found at i:51880233 original size:26 final size:26
Alignment explanation
Indices: 51880196--51880251 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
51880186 TTTCACCCCT
51880196 AAAATCCTAACCTTAAAAAAATTAAA
1 AAAATCCTAACCTTAAAAAAATTAAA
**
51880222 AAAACTCC-AACCTTATCAAAATTAAA
1 AAAA-TCCTAACCTTAAAAAAATTAAA
51880248 AAAA
1 AAAA
51880252 AATCGAGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
26 24 0.89
27 3 0.11
ACGTcount: A:0.61, C:0.18, G:0.00, T:0.21
Consensus pattern (26 bp):
AAAATCCTAACCTTAAAAAAATTAAA
Found at i:51880450 original size:17 final size:18
Alignment explanation
Indices: 51880417--51880451 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
51880407 ATTTAATTTT
*
51880417 TTTTTATAATTTAAAAAC
1 TTTTTATAATCTAAAAAC
51880435 TTTTTATAATCTAAAAA
1 TTTTTATAATCTAAAAA
51880452 TATTGACGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.49
Consensus pattern (18 bp):
TTTTTATAATCTAAAAAC
Found at i:51881122 original size:17 final size:17
Alignment explanation
Indices: 51881100--51881133 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
51881090 ATCCACTAAT
*
51881100 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
51881117 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
51881134 AATCCACTAC
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:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:51885761 original size:17 final size:17
Alignment explanation
Indices: 51885739--51885772 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
51885729 ATCCACTAAT
*
51885739 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
51885756 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
51885773 AATCCACTAC
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:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:51886356 original size:17 final size:17
Alignment explanation
Indices: 51886334--51886367 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
51886324 TCGTAGAAAA
* *
51886334 GAATTTTTAATTTTTAT
1 GAATTTATAATATTTAT
51886351 GAATTTATAATATTTAT
1 GAATTTATAATATTTAT
51886368 TTAACCGAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (17 bp):
GAATTTATAATATTTAT
Found at i:51893390 original size:21 final size:21
Alignment explanation
Indices: 51893366--51893406 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
51893356 CCACCTTCTC
*
51893366 CATCCCCACCTCCACCTCCAA
1 CATCCCCACCGCCACCTCCAA
* *
51893387 CATCTCCATCGCCACCTCCA
1 CATCCCCACCGCCACCTCCA
51893407 CCTCCTCCGC
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:0.22, C:0.59, G:0.02, T:0.17
Consensus pattern (21 bp):
CATCCCCACCGCCACCTCCAA
Found at i:51894681 original size:79 final size:79
Alignment explanation
Indices: 51894550--51894701 Score: 184
Period size: 79 Copynumber: 1.9 Consensus size: 79
51894540 AGTATGTATC
* * * *
51894550 TGTTTTAAAAGTTAAAGAGTCTGGATGATAACCCTTCTAATTGTTCTTTTGTTGAACGAT-TGAG
1 TGTTTTAAAAGTCAAAGAGTCTGGATGATAACCCCTCTAATTGTTCCTTTGTTGAA-AATCTGAG
*
51894614 CTATGTTATGCTCTT
65 CTATATTATGCTCTT
* * *
51894629 TGTTTTAAAAGTCAAAGAGTGTGGATGGA-AACCCCTGTCATCT-TTCCTTTGTTGAAAATCTGA
1 TGTTTTAAAAGTCAAAGAGTCTGGAT-GATAACCCCTCTAAT-TGTTCCTTTGTTGAAAATCTGA
51894692 GCTATATTAT
64 GCTATATTAT
51894702 CCTTCTTTCG
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
78 2 0.03
79 57 0.92
80 3 0.05
ACGTcount: A:0.27, C:0.14, G:0.19, T:0.40
Consensus pattern (79 bp):
TGTTTTAAAAGTCAAAGAGTCTGGATGATAACCCCTCTAATTGTTCCTTTGTTGAAAATCTGAGC
TATATTATGCTCTT
Found at i:51903231 original size:12 final size:13
Alignment explanation
Indices: 51903204--51903236 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
51903194 AATAGTATAT
51903204 ATATATAAAAGGTA
1 ATATATAAAA-GTA
51903218 ATATATAAAA-TA
1 ATATATAAAAGTA
51903230 ATATATA
1 ATATATA
51903237 CTTCAATCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 9 0.47
14 10 0.53
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (13 bp):
ATATATAAAAGTA
Found at i:51904821 original size:88 final size:88
Alignment explanation
Indices: 51904729--51904955 Score: 325
Period size: 88 Copynumber: 2.6 Consensus size: 88
51904719 CGATACATGG
** *
51904729 AGATAAGA-TCTGTAATCTTCAGTCTACT-TCCTGCAACTTCAGGAAGATAAGACTTGTATCTTC
1 AGATAAGACT-TGT-ATCTTCAACCTACTCTCCTGCAACCTCAGGAAGATAAGACTTGTATCTTC
51904792 AACCTGCTCTCTTGCTACCTCAGGA
64 AACCTGCTCTCTTGCTACCTCAGGA
* * *
51904817 AGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACCTCAGGAAGATAAGACTTGTATCTTCAA
1 AGATAAGACTTGTATCTTCAACCTACTCTCCTGCAACCTCAGGAAGATAAGACTTGTATCTTCAA
51904882 CCTGCTCTCTTGCTACCTCAGGA
66 CCTGCTCTCTTGCTACCTCAGGA
* * *
51904905 AGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACCTCA-GAGAGATAAG
1 AGATAAGACTTGTATCTTCAACCTACTCTCCTGCAACCTCAGGA-AGATAAG
51904956 GCTGGTGGCT
Statistics
Matches: 130, Mismatches: 6, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
87 13 0.10
88 116 0.89
89 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.31
Consensus pattern (88 bp):
AGATAAGACTTGTATCTTCAACCTACTCTCCTGCAACCTCAGGAAGATAAGACTTGTATCTTCAA
CCTGCTCTCTTGCTACCTCAGGA
Found at i:51904976 original size:44 final size:44
Alignment explanation
Indices: 51904767--51904955 Score: 362
Period size: 44 Copynumber: 4.3 Consensus size: 44
51904757 TCCTGCAACT
51904767 TCAGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACC
1 TCAGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACC
51904811 TCAGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACC
1 TCAGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACC
51904855 TCAGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACC
1 TCAGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACC
51904899 TCAGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACC
1 TCAGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACC
51904943 TCA-GAGAGATAAG
1 TCAGGA-AGATAAG
51904956 GCTGGTGGCT
Statistics
Matches: 144, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
43 2 0.01
44 142 0.99
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (44 bp):
TCAGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACC
Found at i:51904997 original size:132 final size:132
Alignment explanation
Indices: 51904679--51905001 Score: 388
Period size: 132 Copynumber: 2.4 Consensus size: 132
51904669 CACTGCAACT
*
51904679 TCAGAGAGATAAGACTGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAA
1 TCAGAGAGATAAGACTGGTGGCTAAAATCTGCTCCATAGCCGATATATGGAGATAAGATCTGTAA
** *
51904744 TCTTCAGTCTACTTCCTGCAACTTCAGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTA
66 TCTTCAACCTACTTCCTGCAACCTCAGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTA
51904809 CC
131 CC
* ** ** * * * **
51904811 TCAG-GAAGATAAGACTTGTATCTTCAACCTGCTCTC-TTG-CTACCTCA-GGAAGATAAGA-CT
1 TCAGAG-AGATAAGACTGGTGGCTAAAATCTGCTC-CATAGCCGATAT-ATGG-AGATAAGATC-
* * *
51904871 TGT-ATCTTCAACCTGCTCTCTTGCTACCTCAGGAAGATAAGACTTGTATCTTCAACCTGCTCTC
61 TGTAATCTTCAACCTACT-TCCTGCAACCTCAGGAAGATAAGACTTGTATCTTCAACCTGCTCTC
51904935 TTGCTACC
125 TTGCTACC
*
51904943 TCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATATATGGAGATAAGAT
1 TCAGAGAGATAAGACTGGTGGCTAAAATCTGCTCCATAGCCGATATATGGAGATAAGAT
51905002 TCGCCATCTT
Statistics
Matches: 152, Mismatches: 28, Indels: 21
0.76 0.14 0.10
Matches are distributed among these distances:
131 18 0.12
132 127 0.84
133 7 0.05
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (132 bp):
TCAGAGAGATAAGACTGGTGGCTAAAATCTGCTCCATAGCCGATATATGGAGATAAGATCTGTAA
TCTTCAACCTACTTCCTGCAACCTCAGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTA
CC
Found at i:51905000 original size:88 final size:88
Alignment explanation
Indices: 51904685--51904976 Score: 254
Period size: 88 Copynumber: 3.3 Consensus size: 88
51904675 AACTTCAGAG
* * *
51904685 AGATAAGACTGGTGGCTAAAATCTGCTC-CATAGCCGATA-CATGG-AGATAAGA-TCTGTAATC
1 AGATAAGACTGGTAGCTAAAACCTGCTCTC-TAG-CGACATCA-GGAAGATAAGACT-TGT-ATC
** * * * *
51904746 TTCAGTCTACT-TCCTGCAACTTCAGGA
61 TTCAACCTGCTCTCTTGCTACCTCAGGA
* * ** * * *
51904773 AGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACCTCAGGAAGATAAGACTTGTATCTTCAA
1 AGATAAGACTGGTAGCTAAAACCTGCTCTCTAGCGACATCAGGAAGATAAGACTTGTATCTTCAA
51904838 CCTGCTCTCTTGCTACCTCAGGA
66 CCTGCTCTCTTGCTACCTCAGGA
* * ** * * *
51904861 AGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACCTCAGGAAGATAAGACTTGTATCTTCAA
1 AGATAAGACTGGTAGCTAAAACCTGCTCTCTAGCGACATCAGGAAGATAAGACTTGTATCTTCAA
51904926 CCTGCTCTCTTGCTACCTCA-GA
66 CCTGCTCTCTTGCTACCTCAGGA
* * *
51904948 GAGATAAGGCTGGTGGCTAAAATCTGCTC
1 -AGATAAGACTGGTAGCTAAAACCTGCTC
51904977 CATAGCCGAT
Statistics
Matches: 175, Mismatches: 23, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
87 17 0.10
88 156 0.89
89 2 0.01
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (88 bp):
AGATAAGACTGGTAGCTAAAACCTGCTCTCTAGCGACATCAGGAAGATAAGACTTGTATCTTCAA
CCTGCTCTCTTGCTACCTCAGGA
Found at i:51905152 original size:176 final size:177
Alignment explanation
Indices: 51904899--51905411 Score: 760
Period size: 176 Copynumber: 2.9 Consensus size: 177
51904889 TCTTGCTACC
*
51904899 TCAGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGG
1 TCAGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACCTTAGAGAGATAAGGCTGGTGG
* * * *
51904964 CTAAAATCTGCTCCATAGCCGATATATGGAGATAAGATTCGCCATCTTCGATCTGTTCCATAGCC
66 CTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTTTCGATCTGCTCCATAGCC
*
51905029 GATACATGGAGATAAGATCTGTAATTTTCAGTCTGA-TTTCTGCAACT
131 GATACATGGAGATAAGATCTGTAATTTTCAGTCT-ACTTCCTGCAACT
* * * *
51905076 TCAGGAAGATAAGACTTGTATCTTTAACTTGCTCTC-TGCAACTTTAGAGAGATAAGGCTGGTGG
1 TCAGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACCTTAGAGAGATAAGGCTGGTGG
* ** *
51905140 CTAAAATCTGCTCCGTAATCAATACATGGAGATAAGACTCGCCATTTTCGATCTGCTCCATAGCC
66 CTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTTTCGATCTGCTCCATAGCC
* * * * *
51905205 GATAAATGGAGATAATATCTATATTTTTTAGTCTACTTCCTGCAACT
131 GATACATGGAGATAAGATCTGTAATTTTCAGTCTACTTCCTGCAACT
* * * * *
51905252 TCAAGAAGATAAGACTTGTACCTTCAACCTGTTCTCTTGCTACCTTAGAGAGATAAGGTTGGTGT
1 TCAGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACCTTAGAGAGATAAGGCTGGTGG
* *
51905317 CTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGTCATTTTCGATCTGCTCCATAGTC
66 CTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTTTCGATCTGCTCCATAGCC
*
51905382 GATACATAGAGATAAGATCTGTAATTTTCA
131 GATACATGGAGATAAGATCTGTAATTTTCA
51905412 CCGATGTCGC
Statistics
Matches: 294, Mismatches: 40, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
175 1 0.00
176 152 0.52
177 141 0.48
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.31
Consensus pattern (177 bp):
TCAGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACCTTAGAGAGATAAGGCTGGTGG
CTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTTTCGATCTGCTCCATAGCC
GATACATGGAGATAAGATCTGTAATTTTCAGTCTACTTCCTGCAACT
Found at i:51905409 original size:45 final size:45
Alignment explanation
Indices: 51905322--51905410 Score: 135
Period size: 45 Copynumber: 2.0 Consensus size: 45
51905312 GGTGTCTAAA
* *
51905322 ATCTGCTCCATAGCCGATACATGGAGATAAGACTCGTCATTTTCG
1 ATCTGCTCCATAGCCGATACATAGAGATAAGACTCGTAATTTTCG
*
51905367 ATCTGCTCCATAGTCGATACATAGAGATAAGA-TCTGTAATTTTC
1 ATCTGCTCCATAGCCGATACATAGAGATAAGACTC-GTAATTTTC
51905411 ACCGATGTCG
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
44 2 0.05
45 38 0.95
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.31
Consensus pattern (45 bp):
ATCTGCTCCATAGCCGATACATAGAGATAAGACTCGTAATTTTCG
Found at i:51905532 original size:23 final size:22
Alignment explanation
Indices: 51905481--51905533 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
51905471 TATGTTTATG
*
51905481 CCAAATGATTAGAATGCTATGA
1 CCAAATGATTAGAATGCTATAA
*
51905503 CCGAAATGAATTAG-ATGCTCCTAA
1 CC-AAATG-ATTAGAATGCT-ATAA
51905527 CCAAATG
1 CCAAATG
51905534 TGTTATGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 2 0.08
23 15 0.58
24 9 0.35
ACGTcount: A:0.40, C:0.19, G:0.17, T:0.25
Consensus pattern (22 bp):
CCAAATGATTAGAATGCTATAA
Found at i:51912742 original size:19 final size:20
Alignment explanation
Indices: 51912711--51912764 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
51912701 GTTCTTTTTG
* *
51912711 TGAAATTTAATGCACATG-A
1 TGAAATGTAATGCAAATGCA
*
51912730 TGCAATGTAATGCAAATGCA
1 TGAAATGTAATGCAAATGCA
51912750 TGAAATGT-ATGCAAA
1 TGAAATGTAATGCAAA
51912765 AATAAAGAGA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 22 0.73
20 8 0.27
ACGTcount: A:0.43, C:0.11, G:0.19, T:0.28
Consensus pattern (20 bp):
TGAAATGTAATGCAAATGCA
Found at i:51919774 original size:19 final size:19
Alignment explanation
Indices: 51919750--51919790 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
51919740 TATTTTAAAG
51919750 TTATTTAGGTAAATAAATC
1 TTATTTAGGTAAATAAATC
*
51919769 TTATTTAGGTAGATAAATC
1 TTATTTAGGTAAATAAATC
51919788 TTA
1 TTA
51919791 GAATAAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.39, C:0.05, G:0.12, T:0.44
Consensus pattern (19 bp):
TTATTTAGGTAAATAAATC
Found at i:51923199 original size:41 final size:41
Alignment explanation
Indices: 51923170--51923248 Score: 131
Period size: 41 Copynumber: 1.9 Consensus size: 41
51923160 TTTTATTTTT
*
51923170 TATTTTAGTAGTTCATTAGAATTAGGGAATTATTTTCCTTA
1 TATTTTAGTAGTTCATTAGAATAAGGGAATTATTTTCCTTA
* *
51923211 TGTTTTAGTAGTTTATTAGAATAAGGGAATTATTTTCC
1 TATTTTAGTAGTTCATTAGAATAAGGGAATTATTTTCC
51923249 CAATTAGGTT
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:0.29, C:0.06, G:0.16, T:0.48
Consensus pattern (41 bp):
TATTTTAGTAGTTCATTAGAATAAGGGAATTATTTTCCTTA
Found at i:51929437 original size:9 final size:9
Alignment explanation
Indices: 51929423--51929450 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
51929413 TCTCTCACTC
51929423 TTGCCTTTA
1 TTGCCTTTA
51929432 TTGCCTTTA
1 TTGCCTTTA
51929441 TTGCCTTTA
1 TTGCCTTTA
51929450 T
1 T
51929451 CCTACTCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.11, C:0.21, G:0.11, T:0.57
Consensus pattern (9 bp):
TTGCCTTTA
Found at i:51942905 original size:93 final size:93
Alignment explanation
Indices: 51942792--51942963 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
51942782 CGCCCATAAG
*
51942792 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
51942856 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
*
51942885 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
51942950 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
51942964 TCAACCATCC
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:51942958 original size:46 final size:46
Alignment explanation
Indices: 51942785--51942960 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
51942775 TGTACCCCGC
* *
51942785 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* *
51942831 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
51942881 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
51942924 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
51942961 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 61 0.55
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:51952373 original size:15 final size:15
Alignment explanation
Indices: 51952353--51952382 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
51952343 ATTATTCATT
*
51952353 AGTTGTGAAAATTAA
1 AGTTGTAAAAATTAA
51952368 AGTTGTAAAAATTAA
1 AGTTGTAAAAATTAA
51952383 CAAATATCAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.17, T:0.33
Consensus pattern (15 bp):
AGTTGTAAAAATTAA
Found at i:51952805 original size:32 final size:32
Alignment explanation
Indices: 51952769--51952833 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
51952759 TGTATGCATT
51952769 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
51952801 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
51952833 T
1 T
51952834 GGTAAGCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGGATGATGGGCA
Found at i:51960576 original size:43 final size:42
Alignment explanation
Indices: 51960525--51960756 Score: 272
Period size: 43 Copynumber: 5.5 Consensus size: 42
51960515 TATCTCAAAT
* * * * * *
51960525 ATGGTCTTACATGTTATCACATATCGATGCCATTATCCCAGAC
1 ATGGTCTTACACGTAATCACA-AACAATGCCAATGTCCCAGAC
* * * * *
51960568 AGGGTCTTACACGAAAT--C-AACGATGCTAATGTCCCAGAG
1 ATGGTCTTACACGTAATCACAAACAATGCCAATGTCCCAGAC
* *
51960607 ATGGTCTTGCACGTAATCAGAATACAATGCCAATGTCCCAGAC
1 ATGGTCTTACACGTAATCACAA-ACAATGCCAATGTCCCAGAC
51960650 ATGGTCTTACACGTAATCACAAAACAATGCCAATGTCCCAGAC
1 ATGGTCTTACACGTAATCAC-AAACAATGCCAATGTCCCAGAC
51960693 ATGGTCTTACACGTAATCACAAAACAATGCCAATGTCCCAGAC
1 ATGGTCTTACACGTAATCAC-AAACAATGCCAATGTCCCAGAC
* *
51960736 ATGGTCTTACATGTAACCACA
1 ATGGTCTTACACGTAATCACA
51960757 TCTCTGTAAC
Statistics
Matches: 164, Mismatches: 20, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
39 30 0.18
41 1 0.01
42 2 0.01
43 129 0.79
44 2 0.01
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (42 bp):
ATGGTCTTACACGTAATCACAAACAATGCCAATGTCCCAGAC
Found at i:51969640 original size:21 final size:21
Alignment explanation
Indices: 51969599--51969640 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
51969589 TTAGAGTTAT
* *
51969599 TAGAGTTTGACTGGGAAAAGA
1 TAGAGTTTAACTAGGAAAAGA
*
51969620 TAGAGTTTAACTAGGAGAAGA
1 TAGAGTTTAACTAGGAAAAGA
51969641 AACCCGATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.05, G:0.31, T:0.24
Consensus pattern (21 bp):
TAGAGTTTAACTAGGAAAAGA
Found at i:51972514 original size:25 final size:25
Alignment explanation
Indices: 51972486--51972533 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
51972476 TAAGTTAATC
51972486 AGAGTCTAAGTGGAA-AACTAAAAAT
1 AGAGTCTAAGTGGAAGAAC-AAAAAT
* *
51972511 AGAGTTTAATTGGAAGAACAAAA
1 AGAGTCTAAGTGGAAGAACAAAA
51972534 GTTGAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 17 0.85
26 3 0.15
ACGTcount: A:0.52, C:0.06, G:0.21, T:0.21
Consensus pattern (25 bp):
AGAGTCTAAGTGGAAGAACAAAAAT
Found at i:51974281 original size:9 final size:9
Alignment explanation
Indices: 51974269--51974304 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
51974259 AATAGGGAGA
51974269 AAAGAAAGG
1 AAAGAAAGG
*
51974278 AAAGAAAGA
1 AAAGAAAGG
51974287 AAAGAAA-G
1 AAAGAAAGG
51974295 AAAGAAAGG
1 AAAGAAAGG
51974304 A
1 A
51974305 GAAACTAGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
8 7 0.29
9 17 0.71
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (9 bp):
AAAGAAAGG
Found at i:51974284 original size:4 final size:4
Alignment explanation
Indices: 51974269--51974302 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
51974259 AATAGGGAGA
51974269 AAAG AAAGG AAAG AAAG AAAAG AAAG AAAG AAAG
1 AAAG AAA-G AAAG AAAG -AAAG AAAG AAAG AAAG
51974303 GAGAAACTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:51974287 original size:13 final size:13
Alignment explanation
Indices: 51974269--51974304 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
51974259 AATAGGGAGA
51974269 AAAGAAAGGAAAG
1 AAAGAAAGGAAAG
*
51974282 AAAGAAAAGAAAG
1 AAAGAAAGGAAAG
51974295 AAAGAAAGGA
1 AAAGAAAGGA
51974305 GAAACTAGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (13 bp):
AAAGAAAGGAAAG
Found at i:51974581 original size:30 final size:28
Alignment explanation
Indices: 51974527--51974583 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 28
51974517 AATTGTGGAA
51974527 TAAATTGTAAAATTTGAATATTAGGGAC
1 TAAATTGTAAAATTTGAATATTAGGGAC
51974555 TAAATTGTGAAAATTTTGAA-ATTTAGGGA
1 TAAATTGT-AAAA-TTTGAATA-TTAGGGA
51974584 TTTAAGTGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
28 8 0.31
29 5 0.19
30 13 0.50
ACGTcount: A:0.42, C:0.02, G:0.19, T:0.37
Consensus pattern (28 bp):
TAAATTGTAAAATTTGAATATTAGGGAC
Found at i:51984562 original size:13 final size:13
Alignment explanation
Indices: 51984552--51984576 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
51984542 GAAAAGAAGG
51984552 GAAAGAAAGAAAA
1 GAAAGAAAGAAAA
51984565 GAAAGAAAGAAA
1 GAAAGAAAGAAA
51984577 GGAGAAACTA
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:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (13 bp):
GAAAGAAAGAAAA
Found at i:51990048 original size:25 final size:25
Alignment explanation
Indices: 51990000--51990048 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
51989990 CTAGGTTAAT
* *
51990000 TAGAGTTTAAGTGGGAAACTAAAAA
1 TAGAGTTTAACTGGGAAACGAAAAA
51990025 TAGAGTTTAACTGGGATAA-GAAAA
1 TAGAGTTTAACTGGGA-AACGAAAA
51990049 GCTGAAAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 19 0.90
26 2 0.10
ACGTcount: A:0.47, C:0.04, G:0.24, T:0.24
Consensus pattern (25 bp):
TAGAGTTTAACTGGGAAACGAAAAA
Found at i:51998039 original size:29 final size:30
Alignment explanation
Indices: 51997984--51998041 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
51997974 GCCTTTTGAA
* *
51997984 AATATTTACAAAAAGAGGCATCTAATTTTT
1 AATATTTACAAAAAGAGGCACCAAATTTTT
51998014 AATATTTAC-AAAAGA-GCAACCAAATTTT
1 AATATTTACAAAAAGAGGC-ACCAAATTTT
51998042 AAAAATAGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 2 0.08
29 14 0.56
30 9 0.36
ACGTcount: A:0.47, C:0.12, G:0.09, T:0.33
Consensus pattern (30 bp):
AATATTTACAAAAAGAGGCACCAAATTTTT
Found at i:52000594 original size:26 final size:26
Alignment explanation
Indices: 52000563--52000670 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
52000553 TGAAATGCCC
*
52000563 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
52000589 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
52000615 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
52000641 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
52000667 ATCA
1 ATCA
52000671 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:52011061 original size:17 final size:17
Alignment explanation
Indices: 52010995--52011063 Score: 52
Period size: 17 Copynumber: 4.0 Consensus size: 17
52010985 TTTTTTTCAA
*
52010995 AATA-TTTTTTGTTGTAG
1 AATACTTTTCTGTTG-AG
* *
52011012 AATATTTTTCGGTTGAG
1 AATACTTTTCTGTTGAG
**
52011029 AATACTCTGACTGTTGCAG
1 AATACT-TTTCTGTTG-AG
52011048 AATA-TTTTCTGTTGAG
1 AATACTTTTCTGTTGAG
52011064 GAAAATCCTC
Statistics
Matches: 41, Mismatches: 8, Indels: 7
0.73 0.14 0.12
Matches are distributed among these distances:
16 2 0.05
17 18 0.44
18 15 0.37
19 6 0.15
ACGTcount: A:0.25, C:0.09, G:0.20, T:0.46
Consensus pattern (17 bp):
AATACTTTTCTGTTGAG
Found at i:52013036 original size:12 final size:10
Alignment explanation
Indices: 52013007--52013032 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
52012997 TTTTTCTATA
52013007 ATTTTTATTG
1 ATTTTTATTG
52013017 ATTTTTATTG
1 ATTTTTATTG
52013027 ATTTTT
1 ATTTTT
52013033 TTATCATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.08, T:0.73
Consensus pattern (10 bp):
ATTTTTATTG
Found at i:52013193 original size:18 final size:18
Alignment explanation
Indices: 52013172--52013224 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 18
52013162 AAAAAATTCT
52013172 AATTTATATTTTTATTAA
1 AATTTATATTTTTATTAA
*
52013190 AATTTAATAATTTTT-CTAA
1 AATTT-AT-ATTTTTATTAA
*
52013209 AATTTAT-TATTTATTA
1 AATTTATATTTTTATTA
52013225 TATTTTCTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
16 4 0.14
17 2 0.07
18 7 0.24
19 10 0.34
20 6 0.21
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (18 bp):
AATTTATATTTTTATTAA
Found at i:52026620 original size:21 final size:21
Alignment explanation
Indices: 52026589--52026632 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
52026579 AGAGAGTGTA
52026589 TCTTCTTTTTATATATATTTT
1 TCTTCTTTTTATATATATTTT
52026610 NTCTT-TTTTTATATATATTTT
1 -TCTTCTTTTTATATATATTTT
52026631 TC
1 TC
52026633 ATGAGTACAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 2 0.09
21 16 0.73
22 4 0.18
ACGTcount: A:0.18, C:0.09, G:0.00, T:0.70
Consensus pattern (21 bp):
TCTTCTTTTTATATATATTTT
Found at i:52027171 original size:78 final size:78
Alignment explanation
Indices: 52027052--52027287 Score: 472
Period size: 78 Copynumber: 3.0 Consensus size: 78
52027042 CAATAGTGTA
52027052 TTAACTATATAAAAATAGCCTATATATTGTATACAAAAATTTGAAGCAAATTAACAAATTTGACT
1 TTAACTATATAAAAATAGCCTATATATTGTATACAAAAATTTGAAGCAAATTAACAAATTTGACT
52027117 TAACAATATAAGT
66 TAACAATATAAGT
52027130 TTAACTATATAAAAATAGCCTATATATTGTATACAAAAATTTGAAGCAAATTAACAAATTTGACT
1 TTAACTATATAAAAATAGCCTATATATTGTATACAAAAATTTGAAGCAAATTAACAAATTTGACT
52027195 TAACAATATAAGT
66 TAACAATATAAGT
52027208 TTAACTATATAAAAATAGCCTATATATTGTATACAAAAATTTGAAGCAAATTAACAAATTTGACT
1 TTAACTATATAAAAATAGCCTATATATTGTATACAAAAATTTGAAGCAAATTAACAAATTTGACT
52027273 TAACAATATAAGT
66 TAACAATATAAGT
52027286 TT
1 TT
52027288 TATCTTGATT
Statistics
Matches: 158, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
78 158 1.00
ACGTcount: A:0.48, C:0.10, G:0.08, T:0.34
Consensus pattern (78 bp):
TTAACTATATAAAAATAGCCTATATATTGTATACAAAAATTTGAAGCAAATTAACAAATTTGACT
TAACAATATAAGT
Found at i:52030665 original size:17 final size:18
Alignment explanation
Indices: 52030645--52030678 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
52030635 AAAATGGAAA
52030645 TGAAAAGC-TAATGTTTT
1 TGAAAAGCTTAATGTTTT
*
52030662 TGAAAATCTTAATGTTT
1 TGAAAAGCTTAATGTTT
52030679 GAAATTATAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.35, C:0.06, G:0.15, T:0.44
Consensus pattern (18 bp):
TGAAAAGCTTAATGTTTT
Found at i:52032704 original size:29 final size:28
Alignment explanation
Indices: 52032667--52032928 Score: 184
Period size: 29 Copynumber: 9.3 Consensus size: 28
52032657 AACAAAGTTT
* *
52032667 GCCAC-AAGGCATTCATTTAACTGATATA
1 GCCACAAAGGCATTC-TTTAACAGAGATA
* *
52032695 GCCACAAAGGTACGTT-TTTAACAGAAATA
1 GCCACAAAGG--CATTCTTTAACAGAGATA
*
52032724 GCCACAAAGGCATCCTTTTAACAGAGATA
1 GCCACAAAGGCATTC-TTTAACAGAGATA
* * *
52032753 GCCACAAATGC-TTCTTTATAGTAGAGATC
1 GCCACAAAGGCATTCTTTA-A-CAGAGATA
*
52032782 GCCACAAAGGC-TTCCATTTAACAAAGATA
1 GCCACAAAGGCATT-C-TTTAACAGAGATA
*
52032811 GCCACAAAGGCA-TCTTT-TCAGAGATA
1 GCCACAAAGGCATTCTTTAACAGAGATA
* *
52032837 GCCATAAAGGC-TTCCTTATAACAAAGATA
1 GCCACAAAGGCATT-CTT-TAACAGAGATA
* ** * *
52032866 ACCACAAAGGTGTCCTTT--CAGAGAGA
1 GCCACAAAGGCATTCTTTAACAGAGATA
*
52032892 GCCACAAAGGC-TTCCTTATAATAGAGATA
1 GCCACAAAGGCATT-CTT-TAACAGAGATA
52032921 GCCACAAA
1 GCCACAAA
52032929 TGCTCACTTA
Statistics
Matches: 185, Mismatches: 30, Indels: 37
0.73 0.12 0.15
Matches are distributed among these distances:
25 1 0.01
26 36 0.19
27 13 0.07
28 11 0.06
29 114 0.62
30 3 0.02
31 7 0.04
ACGTcount: A:0.38, C:0.22, G:0.17, T:0.23
Consensus pattern (28 bp):
GCCACAAAGGCATTCTTTAACAGAGATA
Found at i:52032859 original size:55 final size:55
Alignment explanation
Indices: 52032716--52032928 Score: 239
Period size: 55 Copynumber: 3.8 Consensus size: 55
52032706 ACGTTTTTAA
* * * * * *
52032716 CAGAAATAGCCACAAAGGCATCCTTTTAACAGAGATAGCCACAAATGCTTCTTTAT
1 CAGAGATAGCCACAAAGGCTTCCTTATAACAAAGATAGCCACAAAGGCATCTTT-T
* *
52032772 AGTAGAGATCGCCACAAAGGCTTCCATT-TAACAAAGATAGCCACAAAGGCATCTTTT
1 --CAGAGATAGCCACAAAGGCTTCC-TTATAACAAAGATAGCCACAAAGGCATCTTTT
* * ** *
52032829 CAGAGATAGCCATAAAGGCTTCCTTATAACAAAGATAACCACAAAGGTGTCCTTT
1 CAGAGATAGCCACAAAGGCTTCCTTATAACAAAGATAGCCACAAAGGCATCTTTT
* * *
52032884 CAGAGAGAGCCACAAAGGCTTCCTTATAATAGAGATAGCCACAAA
1 CAGAGATAGCCACAAAGGCTTCCTTATAACAAAGATAGCCACAAA
52032929 TGCTCACTTA
Statistics
Matches: 134, Mismatches: 19, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
54 2 0.01
55 85 0.63
57 1 0.01
58 44 0.33
59 2 0.01
ACGTcount: A:0.38, C:0.23, G:0.17, T:0.22
Consensus pattern (55 bp):
CAGAGATAGCCACAAAGGCTTCCTTATAACAAAGATAGCCACAAAGGCATCTTTT
Found at i:52032939 original size:84 final size:85
Alignment explanation
Indices: 52032723--52032940 Score: 225
Period size: 84 Copynumber: 2.6 Consensus size: 85
52032713 TAACAGAAAT
* * ** * **
52032723 AGCCACAAAGGCATCCTTTTAACAGAGATAGCCACAAATGCTTCTTTATAGTAGAGATCGCCACA
1 AGCCACAAAGGCATCC-TTTAATAGAGATAGCCACAAATGCTTCCTTATAACAAAGATAACCACA
*
52032788 AAGGCTTCCATTTAACAAAGAT
65 AAGGCTTCCATTT-ACAAAGAG
* *
52032810 AGCCACAAAGGCAT-CTTT--TCAGAGATAGCCATAAAGGCTTCCTTATAACAAAGATAACCACA
1 AGCCACAAAGGCATCCTTTAAT-AGAGATAGCCACAAATGCTTCCTTATAACAAAGATAACCACA
*
52032872 AAGG-TGTCC-TTT-CAGAGAG
65 AAGGCT-TCCATTTACAAAGAG
*
52032891 AGCCACAAAGGCTTCCTTATAATAGAGATAGCCACAAATGC-TCACTTATA
1 AGCCACAAAGGCATCCTT-TAATAGAGATAGCCACAAATGCTTC-CTTATA
52032941 CGGAAATTGG
Statistics
Matches: 110, Mismatches: 14, Indels: 17
0.78 0.10 0.12
Matches are distributed among these distances:
81 18 0.16
82 3 0.03
83 7 0.06
84 63 0.57
85 4 0.04
86 1 0.01
87 14 0.13
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.23
Consensus pattern (85 bp):
AGCCACAAAGGCATCCTTTAATAGAGATAGCCACAAATGCTTCCTTATAACAAAGATAACCACAA
AGGCTTCCATTTACAAAGAG
Found at i:52037517 original size:65 final size:65
Alignment explanation
Indices: 52037437--52037566 Score: 251
Period size: 65 Copynumber: 2.0 Consensus size: 65
52037427 TCCTTATATC
*
52037437 CATCATATTAATGCCATTTTCATAATTAAAATCATATTCCATTATATATCGTTACACTTCATACT
1 CATCATATTAATGCCATTTTCATAATTAAAATCATATTCCATTATATATCATTACACTTCATACT
52037502 CATCATATTAATGCCATTTTCATAATTAAAATCATATTCCATTATATATCATTACACTTCATACT
1 CATCATATTAATGCCATTTTCATAATTAAAATCATATTCCATTATATATCATTACACTTCATACT
52037567 TTGAATATAT
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 64 1.00
ACGTcount: A:0.36, C:0.20, G:0.02, T:0.42
Consensus pattern (65 bp):
CATCATATTAATGCCATTTTCATAATTAAAATCATATTCCATTATATATCATTACACTTCATACT
Found at i:52039185 original size:26 final size:26
Alignment explanation
Indices: 52039156--52039215 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 26
52039146 TCCCTTTGAA
* * *
52039156 TCATTCGATATTTCGCACACTAAGTG
1 TCATTCAATATCTCACACACTAAGTG
52039182 TCATTCTCAATATCTCACACACTAAGTG
1 TCA-T-TCAATATCTCACACACTAAGTG
*
52039210 CCATTC
1 TCATTC
52039216 TCAATATTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 5 0.18
27 2 0.07
28 21 0.75
ACGTcount: A:0.28, C:0.28, G:0.10, T:0.33
Consensus pattern (26 bp):
TCATTCAATATCTCACACACTAAGTG
Found at i:52039231 original size:28 final size:28
Alignment explanation
Indices: 52039163--52039241 Score: 113
Period size: 28 Copynumber: 2.8 Consensus size: 28
52039153 GAATCATTCG
*
52039163 ATATTTCGCACACTAAGTGTCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
* *
52039191 ATATCTCACACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
* *
52039219 ATATTTCGTACACTGAGTGCCAT
1 ATATTTCGCACACTAAGTGCCAT
52039242 ATTTGATTGC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.29, C:0.27, G:0.11, T:0.33
Consensus pattern (28 bp):
ATATTTCGCACACTAAGTGCCATTCTCA
Found at i:52043380 original size:11 final size:10
Alignment explanation
Indices: 52043348--52043403 Score: 62
Period size: 11 Copynumber: 5.6 Consensus size: 10
52043338 CATGAGATTT
52043348 TGATAT-ACA
1 TGATATGACA
*
52043357 TGATTTGACA
1 TGATATGACA
52043367 TGATATGCACA
1 TGATATG-ACA
*
52043378 TGATATG-TA
1 TGATATGACA
52043387 TGATATGCACA
1 TGATATG-ACA
52043398 TGATAT
1 TGATAT
52043404 AGTCATATAT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
9 13 0.33
10 9 0.23
11 17 0.44
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.36
Consensus pattern (10 bp):
TGATATGACA
Found at i:52043391 original size:20 final size:22
Alignment explanation
Indices: 52043365--52043416 Score: 83
Period size: 20 Copynumber: 2.5 Consensus size: 22
52043355 CATGATTTGA
52043365 CATGATATGCACATGATAT-GT
1 CATGATATGCACATGATATAGT
52043386 -ATGATATGCACATGATATAGT
1 CATGATATGCACATGATATAGT
52043407 CAT-ATATGCA
1 CATGATATGCA
52043417 TGGGTTGGGT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
20 18 0.62
21 9 0.31
22 2 0.07
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (22 bp):
CATGATATGCACATGATATAGT
Found at i:52043480 original size:24 final size:25
Alignment explanation
Indices: 52043449--52043517 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
52043439 GAGGAAGTGA
52043449 AAAAGGGCTTT-CCCCAGTTTACCG
1 AAAAGGGCTTTCCCCCAGTTTACCG
52043473 AAAAGGGCTTTCCCCCAGTTTACCG
1 AAAAGGGCTTTCCCCCAGTTTACCG
* *
52043498 AAAAGGGCTTTGCCCTAGTT
1 AAAAGGGCTTTCCCCCAGTT
52043518 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
24 11 0.26
25 31 0.74
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTCCCCCAGTTTACCG
Found at i:52049581 original size:103 final size:103
Alignment explanation
Indices: 52049453--52049762 Score: 595
Period size: 103 Copynumber: 3.0 Consensus size: 103
52049443 AGGGGATCAC
52049453 ATAGTCATTCTT-AGTGAGTCACACACAAATATAAATATCTCAAAATATAGAGTTCCTTTACTTG
1 ATAGTCATT-TTGAGTGAGTCACACACAAATATAAATATCTCAAAATATAGAGTTCCTTTACTTG
52049517 ATCTGTTTCTTTTACATGGGAATAGACTTATTAAGCTTT
65 ATCTGTTTCTTTTACATGGGAATAGACTTATTAAGCTTT
52049556 ATAGTCATTTTGAGTGAGTCACACACAAATATAAATATCTCAAAATATAGAGTTCCTTTACTTGA
1 ATAGTCATTTTGAGTGAGTCACACACAAATATAAATATCTCAAAATATAGAGTTCCTTTACTTGA
52049621 TCTGTTTCTTTTACATGGGAATAGACTTATTAAGCTTT
66 TCTGTTTCTTTTACATGGGAATAGACTTATTAAGCTTT
52049659 ATAGTCATTTTGAGTGAGTCACACACAAATATAAATATCTCAAAATATAGAGTTCCTTTACTTGA
1 ATAGTCATTTTGAGTGAGTCACACACAAATATAAATATCTCAAAATATAGAGTTCCTTTACTTGA
*
52049724 TCTGTTTCTTTTACATGGGAATAGACTCATTAAGCTTT
66 TCTGTTTCTTTTACATGGGAATAGACTTATTAAGCTTT
52049762 A
1 A
52049763 ATTTCATATC
Statistics
Matches: 205, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
102 2 0.01
103 203 0.99
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.38
Consensus pattern (103 bp):
ATAGTCATTTTGAGTGAGTCACACACAAATATAAATATCTCAAAATATAGAGTTCCTTTACTTGA
TCTGTTTCTTTTACATGGGAATAGACTTATTAAGCTTT
Found at i:52055765 original size:28 final size:28
Alignment explanation
Indices: 52055702--52055992 Score: 512
Period size: 28 Copynumber: 10.4 Consensus size: 28
52055692 ATATTAAGTC
* *
52055702 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
52055729 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
52055757 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
52055785 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
52055813 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
52055841 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
52055869 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
52055897 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
52055925 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
* * *
52055953 CGCACACTTAGTGCTACACAATTTAAACC
1 CGCACACTTAGTGCTACATAA-TCAAACT
52055982 CGCACACTTAG
1 CGCACACTTAG
52055993 CGCCAATCTC
Statistics
Matches: 257, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
27 22 0.09
28 219 0.85
29 16 0.06
ACGTcount: A:0.35, C:0.29, G:0.11, T:0.25
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:52058069 original size:46 final size:46
Alignment explanation
Indices: 52057899--52058074 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
52057889 TGTAACCCGC
* * * *
52057899 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCAT
*
52057945 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GA-ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGACATTCGC-A--T
* *** *
52057991 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCAT
*
52058038 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGA
52058075 TGCCCAAATA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 2 0.02
45 1 0.01
46 68 0.62
47 30 0.28
48 2 0.02
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCAT
Found at i:52071329 original size:40 final size:39
Alignment explanation
Indices: 52071298--52071507 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
52071288 GGACTAAGAT
* *
52071298 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
52071338 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
52071378 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
52071418 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
52071458 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
52071497 CCGAAGGCATT
1 CCGAAGGCATT
52071508 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:52071461 original size:120 final size:120
Alignment explanation
Indices: 52071245--52071507 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
52071235 TTGAATGCTG
* *
52071245 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
52071309 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
52071365 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
52071428 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
52071484 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
52071508 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:52071527 original size:79 final size:80
Alignment explanation
Indices: 52071246--52071542 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
52071236 TGAATGCTGT
* ** * * * **
52071246 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
52071309 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
52071326 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
52071390 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
52071406 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
52071470 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
52071485 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
52071543 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:52074056 original size:68 final size:68
Alignment explanation
Indices: 52073888--52074063 Score: 175
Period size: 68 Copynumber: 2.6 Consensus size: 68
52073878 TAGTACCACC
* * * *
52073888 CATGTGACCTAGC--CA-ATTTATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGTGACCTAGCTACACATATATCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAAT
52073950 CACA
65 CACA
** * *
52073954 CATGTGACCTAGCTACATTTATCTCTCCCGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGT
1 CATGTGACCTAGCTACACATATATCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGA
52074016 ATCACA
63 ATCACA
*
52074022 CGTGTGACCTAGCTACTACATAGTATCTCGTAGCTCTCTTGT
1 CATGTGACCTAGCTAC-ACATA-TATCTCGTAGCTCTCTTGT
52074064 ACACATGATG
Statistics
Matches: 91, Mismatches: 11, Indels: 14
0.78 0.09 0.12
Matches are distributed among these distances:
66 13 0.14
68 38 0.42
69 8 0.09
70 6 0.07
71 26 0.29
ACGTcount: A:0.21, C:0.28, G:0.16, T:0.34
Consensus pattern (68 bp):
CATGTGACCTAGCTACACATATATCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATC
ACA
Found at i:52080783 original size:52 final size:52
Alignment explanation
Indices: 52080718--52080841 Score: 196
Period size: 52 Copynumber: 2.4 Consensus size: 52
52080708 CATGAGAGCT
52080718 AATCCAACCGATAACACGCCCCGGCACTAAGTGCCTAACCCATAGGCTATAC
1 AATCCAACCGATAACACGCCCCGGCACTAAGTGCCTAACCCATAGGCTATAC
**
52080770 AATCCAATTGATAACACGCCCCGGCACTAAGTGCCTAACCCATAGGCTATAC
1 AATCCAACCGATAACACGCCCCGGCACTAAGTGCCTAACCCATAGGCTATAC
* *
52080822 -ATCCACCCCCATAACACGCC
1 AATCCA-ACCGATAACACGCC
52080842 AGAACAGGAT
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
51 5 0.08
52 60 0.92
ACGTcount: A:0.32, C:0.38, G:0.14, T:0.16
Consensus pattern (52 bp):
AATCCAACCGATAACACGCCCCGGCACTAAGTGCCTAACCCATAGGCTATAC
Found at i:52082767 original size:17 final size:17
Alignment explanation
Indices: 52082745--52082779 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
52082735 TACGGTTTAG
52082745 TCGATTATAGGAATAAA
1 TCGATTATAGGAATAAA
52082762 TCGATTATAGGAATAAA
1 TCGATTATAGGAATAAA
52082779 T
1 T
52082780 GTAGTGTGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.06, G:0.17, T:0.31
Consensus pattern (17 bp):
TCGATTATAGGAATAAA
Found at i:52087592 original size:37 final size:37
Alignment explanation
Indices: 52087542--52087620 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
52087532 TTATTACGAA
* * *
52087542 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
52087579 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
52087616 GTCTT
1 GTCTT
52087621 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:52087865 original size:49 final size:49
Alignment explanation
Indices: 52087741--52088662 Score: 1753
Period size: 49 Copynumber: 18.9 Consensus size: 49
52087731 CTTCGGGACT
* * * * *
52087741 TATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
52087788 TGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
52087835 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
52087884 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
52087933 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
52087982 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
52088031 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
52088080 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
52088129 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
52088178 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
52088227 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
52088276 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
52088325 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
52088374 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
52088423 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
52088472 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
52088521 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
52088570 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
52088619 TATCACATATATATACACTTTCACATTCATCACATCGGTCATTA
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTA
52088663 CGCCATACTA
Statistics
Matches: 863, Mismatches: 8, Indels: 6
0.98 0.01 0.01
Matches are distributed among these distances:
46 1 0.00
47 43 0.05
49 819 0.95
ACGTcount: A:0.30, C:0.31, G:0.08, T:0.31
Consensus pattern (49 bp):
TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
Found at i:52091366 original size:16 final size:16
Alignment explanation
Indices: 52091345--52091375 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
52091335 ATTTGTTTTC
*
52091345 ATTTGCATCATATATA
1 ATTTGCATCAAATATA
52091361 ATTTGCATCAAATAT
1 ATTTGCATCAAATAT
52091376 CAAATAACCA
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:0.39, C:0.13, G:0.06, T:0.42
Consensus pattern (16 bp):
ATTTGCATCAAATATA
Found at i:52091661 original size:56 final size:56
Alignment explanation
Indices: 52091593--52091782 Score: 281
Period size: 56 Copynumber: 3.4 Consensus size: 56
52091583 CCAGACCGCA
* * * * * *
52091593 TCTTACTTGCACACACATATCGGAGTCACATATTGATGCCAATGTATTAAATGTGG
1 TCTTACTCGCACACATATATCGGAGTCACATATCGCTGCCAACGTATTAAACGTGG
*
52091649 TCTTACTCGCACACATATATCAGAGTCACATATCGCTGCCAACGTATTAAACGTGG
1 TCTTACTCGCACACATATATCGGAGTCACATATCGCTGCCAACGTATTAAACGTGG
* * *
52091705 TCTTACTCGCACACATATATCGAAGTCACATATCGCTACCAACATATTAAACGTGG
1 TCTTACTCGCACACATATATCGGAGTCACATATCGCTGCCAACGTATTAAACGTGG
*
52091761 TCTTACTCACACACATATATCG
1 TCTTACTCGCACACATATATCG
52091783 ATGCCATGGT
Statistics
Matches: 122, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 122 1.00
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (56 bp):
TCTTACTCGCACACATATATCGGAGTCACATATCGCTGCCAACGTATTAAACGTGG
Found at i:52099500 original size:43 final size:41
Alignment explanation
Indices: 52099398--52099531 Score: 153
Period size: 43 Copynumber: 3.1 Consensus size: 41
52099388 TGACATTAGG
**
52099398 GTTACTGAGATTATGTGTAAGACCATATCTGGGATATGGCATC
1 GTTAC-GAGATTACATGTAAGACCATATCT-GGATATGGCATC
* * *
52099441 GATATGAGACTT-CATGTAAGACCATAGCTGGACTATTGGCATC
1 GTTACGAGA-TTACATGTAAGACCATATCTGGA-TA-TGGCATC
*
52099484 GTTACGAGATTACATGTAAGACCATATCTGAGATATGGCATT
1 GTTACGAGATTACATGTAAGACCATATCTG-GATATGGCATC
52099526 GTTACG
1 GTTACG
52099532 GTACTGTGTG
Statistics
Matches: 77, Mismatches: 9, Indels: 11
0.79 0.09 0.11
Matches are distributed among these distances:
41 3 0.04
42 34 0.44
43 38 0.49
44 2 0.03
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.31
Consensus pattern (41 bp):
GTTACGAGATTACATGTAAGACCATATCTGGATATGGCATC
Found at i:52104933 original size:27 final size:27
Alignment explanation
Indices: 52104898--52105076 Score: 184
Period size: 27 Copynumber: 6.6 Consensus size: 27
52104888 TTAAATTGTA
52104898 TAGCACTAAGTGTGCGATATGACTATG
1 TAGCACTAAGTGTGCGATATGACTATG
* * *
52104925 TTGCACTAAGTGTGCGAAATGAATATG
1 TAGCACTAAGTGTGCGATATGACTATG
*
52104952 -ATGCACTAAGTGTGCGA-ATTGACCATG
1 TA-GCACTAAGTGTGCGATA-TGACTATG
** *
52104979 CGGCACTAAGTGTGCGAGTTTGACTATG
1 TAGCACTAAGTGTGCGA-TATGACTATG
* * *
52105007 TAGCACTAAGTGTGCGATTTGATTACG
1 TAGCACTAAGTGTGCGATATGACTATG
* *
52105034 TAGCACTAAGTGTGCGAGT-TGATTATA
1 TAGCACTAAGTGTGCGA-TATGACTATG
*
52105061 TAGCACTGAGTGTGCG
1 TAGCACTAAGTGTGCG
52105077 GACTCAATAT
Statistics
Matches: 130, Mismatches: 16, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
26 1 0.01
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
TAGCACTAAGTGTGCGATATGACTATG
Found at i:52105014 original size:82 final size:81
Alignment explanation
Indices: 52104900--52105055 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
52104890 AAATTGTATA
* *
52104900 GCACTAAGTGTGCGATATGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
52104964 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
52104981 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
52105046 TGCGAGTTGA
65 TGCGAATTGA
52105056 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:52105067 original size:82 final size:81
Alignment explanation
Indices: 52104896--52105076 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
52104886 TATTAAATTG
* *
52104896 TATAGCACTAAGTGTGCGATATGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TATAGCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
52104961 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
*** * ** *
52104977 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TATAGCACTAAGTGTGCGA-TATGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
52105041 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
*
52105059 TATAGCACTGAGTGTGCG
1 TATAGCACTAAGTGTGCG
52105077 GACTCAATAT
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 17 0.21
82 65 0.79
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TATAGCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:52113503 original size:26 final size:26
Alignment explanation
Indices: 52113467--52113517 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
52113457 TATTTGAGTG
52113467 TGTAGGGTGTCATTTTAGGTTAAAGT
1 TGTAGGGTGTCATTTTAGGTTAAAGT
52113493 TGTAGGGTGTCATTTTAGGTTAAAG
1 TGTAGGGTGTCATTTTAGGTTAAAG
52113518 AACACAAAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.24, C:0.04, G:0.31, T:0.41
Consensus pattern (26 bp):
TGTAGGGTGTCATTTTAGGTTAAAGT
Found at i:52115648 original size:21 final size:21
Alignment explanation
Indices: 52115624--52115678 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
52115614 CTTATAAAAT
52115624 TTTATTATATATACATTTTAC
1 TTTATTATATATACATTTTAC
**
52115645 TTTA-TATATTATTTATTTTAC
1 TTTATTATA-TATACATTTTAC
*
52115666 TATATTTATATAT
1 TTTA-TTATATAT
52115679 GTAAATTATT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 4 0.14
21 17 0.61
22 3 0.11
23 4 0.14
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTATTATATATACATTTTAC
Found at i:52115713 original size:41 final size:40
Alignment explanation
Indices: 52115573--52115713 Score: 110
Period size: 41 Copynumber: 3.4 Consensus size: 40
52115563 AAAAATAATG
*
52115573 TATATTATTTTTATTTATATATTATATTATTATATACGTTTCT
1 TATATTATTTTTATTTATATATTATATTATTATATA---TTAT
* * * *
52115616 TATA-AAATTTTA-TTATATATACATTTTACTTTATATATTAT
1 TATATTATTTTTATTTATATAT-TATATTA--TTATATATTAT
* *
52115657 T-TATT-TTACTATATTTATATATGTAAATTATTATATATTAT
1 TATATTATT--TTTATTTATATAT-TATATTATTATATATTAT
52115698 TATATTATTTTTATTT
1 TATATTATTTTTATTT
52115714 TTAACTATTT
Statistics
Matches: 76, Mismatches: 13, Indels: 20
0.70 0.12 0.18
Matches are distributed among these distances:
40 3 0.04
41 30 0.39
42 18 0.24
43 18 0.24
44 7 0.09
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (40 bp):
TATATTATTTTTATTTATATATTATATTATTATATATTAT
Found at i:52118685 original size:47 final size:47
Alignment explanation
Indices: 52118634--52119096 Score: 856
Period size: 47 Copynumber: 9.9 Consensus size: 47
52118624 TATACACTTC
* * * * *
52118634 CACATCCATCACATTGGCCATTCGACCTTATCACATATATACACT-TT
1 CACATTCATCACATTGGCCATTCGGCCATATCTCATATATGCA-TGTT
52118681 CACATTCATCACATTGGCCATTCGGCCATATCTCATATATGCATGTT
1 CACATTCATCACATTGGCCATTCGGCCATATCTCATATATGCATGTT
52118728 CACATTCATCACATTGGCCATTCGGCCATATCTCATATATGCATGTT
1 CACATTCATCACATTGGCCATTCGGCCATATCTCATATATGCATGTT
52118775 CACATTCATCACATTGGCCATTCGGCCATATCTCATATATGCATGTT
1 CACATTCATCACATTGGCCATTCGGCCATATCTCATATATGCATGTT
52118822 CACATTCATCACATTGGCCATTCGGCCATATCTCATATATGCATGTT
1 CACATTCATCACATTGGCCATTCGGCCATATCTCATATATGCATGTT
52118869 CACATTCATCACATTGGCCATTCGGCCATATCTCATATATGCATGTT
1 CACATTCATCACATTGGCCATTCGGCCATATCTCATATATGCATGTT
52118916 CACATTCATCACATTGGCCATTCGGCCATATCTCATATATGCATGTT
1 CACATTCATCACATTGGCCATTCGGCCATATCTCATATATGCATGTT
52118963 CACATTCATCACATTGGCCATTCGGCCATATCTCATATATGCATGTT
1 CACATTCATCACATTGGCCATTCGGCCATATCTCATATATGCATGTT
52119010 CACATTCATCACATTGGCCATTCGGCCATATCTCATATATGCATGTT
1 CACATTCATCACATTGGCCATTCGGCCATATCTCATATATGCATGTT
*
52119057 CACATTCATCACATTGGCCATTCGGCCATATCACATATAT
1 CACATTCATCACATTGGCCATTCGGCCATATCTCATATAT
52119097 ATATACACTT
Statistics
Matches: 409, Mismatches: 6, Indels: 2
0.98 0.01 0.00
Matches are distributed among these distances:
46 1 0.00
47 408 1.00
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.33
Consensus pattern (47 bp):
CACATTCATCACATTGGCCATTCGGCCATATCTCATATATGCATGTT
Found at i:52120272 original size:56 final size:56
Alignment explanation
Indices: 52120205--52120324 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
52120195 TATTAGTTTA
52120205 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
52120261 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
52120317 TTGCCCAT
1 TTGCCCAT
52120325 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:52122581 original size:15 final size:15
Alignment explanation
Indices: 52122563--52122604 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
52122553 TCTATTTTAT
52122563 TTCTTTTTCTTTTTC
1 TTCTTTTTCTTTTTC
*
52122578 TTCTTTTGC-TTTTC
1 TTCTTTTTCTTTTTC
*
52122592 -TCGTTTTCTTTTT
1 TTCTTTTTCTTTTT
52122605 ACAAGAAGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
13 6 0.26
14 9 0.39
15 8 0.35
ACGTcount: A:0.00, C:0.19, G:0.05, T:0.76
Consensus pattern (15 bp):
TTCTTTTTCTTTTTC
Found at i:52123503 original size:11 final size:11
Alignment explanation
Indices: 52123487--52123525 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
52123477 TTTAACACAC
*
52123487 TTTTTTTTGAA
1 TTTTTTTAGAA
*
52123498 TTTTTTTCGAA
1 TTTTTTTAGAA
52123509 TTTTTTTAGAA
1 TTTTTTTAGAA
52123520 TTTTTT
1 TTTTTT
52123526 CTTTCACTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.18, C:0.03, G:0.08, T:0.72
Consensus pattern (11 bp):
TTTTTTTAGAA
Found at i:52125966 original size:21 final size:20
Alignment explanation
Indices: 52125927--52125969 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
52125917 ATTAGCTCAC
*
52125927 TTGAGCTCGTTTCAGCTCGT
1 TTGAGCTCGTTTTAGCTCGT
*
52125947 TTGAGCTTGATTTTAGCTCGT
1 TTGAGCTCG-TTTTAGCTCGT
52125968 TT
1 TT
52125970 TGGCTCATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.12, C:0.19, G:0.23, T:0.47
Consensus pattern (20 bp):
TTGAGCTCGTTTTAGCTCGT
Found at i:52139623 original size:20 final size:19
Alignment explanation
Indices: 52139600--52139664 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
52139590 AAGCTCAAAC
52139600 GAGCTAAAGTAAGCTAAATT
1 GAGCTAAAGT-AGCTAAATT
52139620 GAGCTCAAACG-AGCTAAATT
1 GAGCT-AAA-GTAGCTAAATT
* * * *
52139640 AAGCTCATGTGAGCTAAATC
1 GAGCTAAAGT-AGCTAAATT
52139660 GAGCT
1 GAGCT
52139665 GGGAAAAACT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 30 0.83
21 3 0.08
22 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (19 bp):
GAGCTAAAGTAGCTAAATT
Found at i:52141437 original size:86 final size:86
Alignment explanation
Indices: 52141327--52141501 Score: 350
Period size: 86 Copynumber: 2.0 Consensus size: 86
52141317 GAAAGGTAAT
52141327 GAAGTTGGAACCAATCCGTGGATGGAATCTTGCAAACCTGAAACAAAGAAAAATCACAAGGTAAT
1 GAAGTTGGAACCAATCCGTGGATGGAATCTTGCAAACCTGAAACAAAGAAAAATCACAAGGTAAT
52141392 TTCGAAAGGGGGTTAGCAAAA
66 TTCGAAAGGGGGTTAGCAAAA
52141413 GAAGTTGGAACCAATCCGTGGATGGAATCTTGCAAACCTGAAACAAAGAAAAATCACAAGGTAAT
1 GAAGTTGGAACCAATCCGTGGATGGAATCTTGCAAACCTGAAACAAAGAAAAATCACAAGGTAAT
52141478 TTCGAAAGGGGGTTAGCAAAA
66 TTCGAAAGGGGGTTAGCAAAA
52141499 GAA
1 GAA
52141502 TTCCTCTCTT
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
86 89 1.00
ACGTcount: A:0.42, C:0.15, G:0.25, T:0.18
Consensus pattern (86 bp):
GAAGTTGGAACCAATCCGTGGATGGAATCTTGCAAACCTGAAACAAAGAAAAATCACAAGGTAAT
TTCGAAAGGGGGTTAGCAAAA
Found at i:52141617 original size:21 final size:21
Alignment explanation
Indices: 52141588--52141724 Score: 51
Period size: 21 Copynumber: 6.7 Consensus size: 21
52141578 CAAGCTCTCT
*
52141588 TTCAATTTCTTTTTTCGCTTT-
1 TTCATTTTCTTTTTTC-CTTTC
* ** *
52141609 TTCTTTTTCAATTTTCTTTTC
1 TTCATTTTCTTTTTTCCTTTC
52141630 TTCATTTTCTTTTTCTCTCACTTT-
1 TTCATTTTC-TTTT-T-TC-CTTTC
*
52141654 TTCAATTTC-TTTTT-CTTT-
1 TTCATTTTCTTTTTTCCTTTC
* *
52141672 TGCAATTTC-TTTTT-CTTT-
1 TTCATTTTCTTTTTTCCTTTC
*
52141690 TTCGTTTTCTTTTTGT--TTTC
1 TTCATTTTCTTTTT-TCCTTTC
*
52141710 TTTCAATTTCTTTTT
1 -TTCATTTTCTTTTT
52141725 CAATCTCTTT
Statistics
Matches: 91, Mismatches: 16, Indels: 18
0.73 0.13 0.14
Matches are distributed among these distances:
18 27 0.30
19 7 0.08
20 5 0.05
21 33 0.36
22 5 0.05
23 1 0.01
24 10 0.11
25 3 0.03
ACGTcount: A:0.09, C:0.18, G:0.03, T:0.70
Consensus pattern (21 bp):
TTCATTTTCTTTTTTCCTTTC
Found at i:52141636 original size:14 final size:14
Alignment explanation
Indices: 52141587--52141643 Score: 57
Period size: 14 Copynumber: 4.1 Consensus size: 14
52141577 TCAAGCTCTC
52141587 TTTCAA-TTTCTTT
1 TTTCAATTTTCTTT
**
52141600 TTTCGCTTTT-TCTT
1 TTTCAATTTTCT-TT
52141614 TTTCAATTTTCTTT
1 TTTCAATTTTCTTT
52141628 TCTTC-ATTTTCTTT
1 T-TTCAATTTTCTTT
52141642 TT
1 TT
52141644 CTCTCACTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
13 6 0.17
14 26 0.72
15 4 0.11
ACGTcount: A:0.09, C:0.18, G:0.02, T:0.72
Consensus pattern (14 bp):
TTTCAATTTTCTTT
Found at i:52141665 original size:12 final size:12
Alignment explanation
Indices: 52141608--52141734 Score: 55
Period size: 12 Copynumber: 10.6 Consensus size: 12
52141598 TTTTTCGCTT
52141608 TTTCTTTTTCAA
1 TTTCTTTTTCAA
*
52141620 TTTTCTTTTCTTCAT
1 -TTTC-TTT-TTCAA
**
52141635 TTTCTTTTTCTC
1 TTTCTTTTTCAA
**
52141647 TCACTTTTTCAA
1 TTTCTTTTTCAA
*
52141659 TTTCTTTTTC-T
1 TTTCTTTTTCAA
** **
52141670 TTTGCAATTTCTT
1 TTT-CTTTTTCAA
**
52141683 TTTCTTTTTCGT
1 TTTCTTTTTCAA
*
52141695 TTTCTTTTT--G
1 TTTCTTTTTCAA
*
52141705 TTT-TCTTTCAA
1 TTTCTTTTTCAA
52141716 TTTCTTTTTCAA
1 TTTCTTTTTCAA
*
52141728 TCTCTTT
1 TTTCTTT
52141735 CTCCTTTTCT
Statistics
Matches: 87, Mismatches: 20, Indels: 15
0.71 0.16 0.12
Matches are distributed among these distances:
9 4 0.05
10 3 0.03
11 6 0.07
12 52 0.60
13 11 0.13
14 7 0.08
15 4 0.05
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.69
Consensus pattern (12 bp):
TTTCTTTTTCAA
Found at i:52141703 original size:18 final size:18
Alignment explanation
Indices: 52141605--52141708 Score: 91
Period size: 18 Copynumber: 5.6 Consensus size: 18
52141595 TCTTTTTTCG
52141605 CTTTTTCTTTTTCAATTTT
1 CTTTTTCTTTTTC-ATTTT
* *
52141624 CTTTTCTTCATTTTCTTTTT
1 C-TTT-TTCTTTTTCATTTT
* ** *
52141644 CTCTCACTTTTTCAATTT
1 CTTTTTCTTTTTCATTTT
* *
52141662 CTTTTTCTTTTGCAATTT
1 CTTTTTCTTTTTCATTTT
*
52141680 CTTTTTCTTTTTCGTTTT
1 CTTTTTCTTTTTCATTTT
*
52141698 CTTTTTGTTTT
1 CTTTTTCTTTT
52141709 CTTTCAATTT
Statistics
Matches: 67, Mismatches: 16, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
18 48 0.72
19 3 0.04
20 8 0.12
21 8 0.12
ACGTcount: A:0.08, C:0.18, G:0.03, T:0.71
Consensus pattern (18 bp):
CTTTTTCTTTTTCATTTT
Done.