Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 130 of 318
Found at i:39711895 original size:40 final size:40
Alignment explanation
Indices: 39711817--39711976 Score: 189
Period size: 40 Copynumber: 4.0 Consensus size: 40
39711807 CGGATGATAA
* ** *
39711817 CCGGACTAAGA-CCGAAGGCATTCGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGTTATAT
* * * *
39711856 CCAGGCTATGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTG-TTATAT
** *
39711896 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGTTATAT
*
39711936 CCGGGCTAAGACCCGAAGGAATTTATGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGTTATAT
39711976 C
1 C
39711977 TGGCTAAATC
Statistics
Matches: 99, Mismatches: 19, Indels: 5
0.80 0.15 0.04
Matches are distributed among these distances:
39 9 0.09
40 88 0.89
41 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGTTATAT
Found at i:39711961 original size:80 final size:79
Alignment explanation
Indices: 39711817--39711976 Score: 241
Period size: 80 Copynumber: 2.0 Consensus size: 79
39711807 CGGATGATAA
* * *
39711817 CCGGACTAAGACCGAAGGCATTCGTGCGAGTTGCTATATCCAGGCTATGTCCCGAAGGCATTTAT
1 CCGGACTAAGACCGAAGGCATTCGTGCGAGTTGCTATATCCAGGCTAAGACCCGAAGGAATTTAT
*
39711882 GCTAG-TGATTATAT
66 GCGAGTTG-TTATAT
* *
39711896 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGAATTTA
1 CCGGACTAAGA-CCGAAGGCATTCGTGCGAGTTGCTATATCCAGGCTAAGACCCGAAGGAATTTA
39711961 TGCGAGTTGTTATAT
65 TGCGAGTTGTTATAT
39711976 C
1 C
39711977 TGGCTAAATC
Statistics
Matches: 73, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
79 10 0.14
80 61 0.84
81 2 0.03
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGGACTAAGACCGAAGGCATTCGTGCGAGTTGCTATATCCAGGCTAAGACCCGAAGGAATTTAT
GCGAGTTGTTATAT
Found at i:39726408 original size:40 final size:40
Alignment explanation
Indices: 39726302--39726485 Score: 147
Period size: 40 Copynumber: 4.6 Consensus size: 40
39726292 TGCTGGAAAT
* * * * * **
39726302 TATAACCGGGTTAAGACCCGAAGGCAATGGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
*
39726342 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAT
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * *
39726382 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATC-G
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * * * * *
39726420 TGATATCCGGGTTAAGTCCCGTAGGCCTTGGTGCGGGTTAC
1 T-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * *
39726461 CATATCCGGGCTATGTCCCGAAGGC
1 TATATCCGGGCTAAGACCCGAAGGC
39726486 GTTTGAACGA
Statistics
Matches: 115, Mismatches: 26, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
38 1 0.01
39 29 0.25
40 85 0.74
ACGTcount: A:0.22, C:0.24, G:0.30, T:0.23
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
Found at i:39731405 original size:40 final size:40
Alignment explanation
Indices: 39731326--39731502 Score: 198
Period size: 40 Copynumber: 4.5 Consensus size: 40
39731316 CGGATGATAA
* * ** *
39731326 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGTTATAT
* * * *
39731366 CCAGGCTATGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTG-TTATAT
** *
39731406 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGTTATAT
39731446 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGTTATAT
*
39731486 -CTGGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
39731503 ATGCTTGGGT
Statistics
Matches: 114, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
38 1 0.01
39 16 0.14
40 95 0.83
41 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGTTATAT
Found at i:39731464 original size:80 final size:80
Alignment explanation
Indices: 39731326--39731502 Score: 252
Period size: 80 Copynumber: 2.2 Consensus size: 80
39731316 CGGATGATAA
* * * *
39731326 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATATCCAGGCTATGTCCCGAAGGCATTTA
1 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTATATCCAGGCTAAGACCCGAAGGCATTTA
*
39731391 TGCTAG-TGATTATAT
66 TGCGAGTTG-TTATAT
*
39731406 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTA
1 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTATATCCAGGCTAAGACCCGAAGGCATTTA
39731471 TGCGAGTTGTTATAT
66 TGCGAGTTGTTATAT
*
39731486 -CTGGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
39731503 ATGCTTGGGT
Statistics
Matches: 88, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
78 1 0.01
79 14 0.16
80 71 0.81
81 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTATATCCAGGCTAAGACCCGAAGGCATTTA
TGCGAGTTGTTATAT
Found at i:39741972 original size:20 final size:21
Alignment explanation
Indices: 39741947--39741986 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
39741937 CATAAATATG
39741947 TTTAAA-CACTAA-ACAAATAA
1 TTTAAATCA-TAATACAAATAA
39741967 TTTAAATCATAATACAAATA
1 TTTAAATCATAATACAAATA
39741987 TCAATGAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.30
Consensus pattern (21 bp):
TTTAAATCATAATACAAATAA
Found at i:39743483 original size:20 final size:22
Alignment explanation
Indices: 39743460--39743501 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
39743450 GATTCATATA
*
39743460 CATTTC-CAA-ACTTATAATTT
1 CATTTCTCAAGACATATAATTT
39743480 CATTTCTCAAGACATATAATTT
1 CATTTCTCAAGACATATAATTT
39743502 TGCGTAAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 6 0.32
21 3 0.16
22 10 0.53
ACGTcount: A:0.36, C:0.19, G:0.02, T:0.43
Consensus pattern (22 bp):
CATTTCTCAAGACATATAATTT
Found at i:39745374 original size:40 final size:39
Alignment explanation
Indices: 39745268--39745430 Score: 159
Period size: 40 Copynumber: 4.1 Consensus size: 39
39745258 CGGGATTTAA
* *
39745268 CCGGATATAACACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACACTAGCACAATTGCCTTCGGGTCTTAGC
* * * *
39745307 CCGGATTTGGTA-ACTTGCACAATTGCCTTCGGGTTTTAGC
1 CCGGATAT--AACACTAGCACAATTGCCTTCGGGTCTTAGC
* *
39745347 CCGGATATAACAACTCGCACGAA-TGCCTTCAGGTCTTAGC
1 CCGGATATAAC-ACTAGCAC-AATTGCCTTCGGGTCTTAGC
* * * *
39745387 CCAGATATAATCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAA-CACTAGCACAATTGCCTTCGGGTCTTAGC
39745427 CCGG
1 CCGG
39745431 GTATCATTCA
Statistics
Matches: 100, Mismatches: 17, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
38 1 0.01
39 9 0.09
40 86 0.86
41 4 0.04
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (39 bp):
CCGGATATAACACTAGCACAATTGCCTTCGGGTCTTAGC
Found at i:39748652 original size:39 final size:40
Alignment explanation
Indices: 39748516--39748722 Score: 236
Period size: 40 Copynumber: 5.2 Consensus size: 40
39748506 CATTGGAATG
* * * *
39748516 ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTATT
* *
39748556 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTATT
**
39748596 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC-AGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTATT
* * * * *
39748635 AAATCCGGGTTAAGACCCGAAGGCAATTGTGCGAGTCACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTATT
* ** * * *
39748675 ATAACCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTATT
39748715 ATATCCGG
1 ATATCCGG
39748723 TTAAATTCCG
Statistics
Matches: 141, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 33 0.23
40 108 0.77
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTATT
Found at i:39748736 original size:79 final size:79
Alignment explanation
Indices: 39748520--39748726 Score: 238
Period size: 79 Copynumber: 2.6 Consensus size: 79
39748510 GGAATGATAT
* *
39748520 CCGGGCTAAGTCCCGAAGGCAGTTGTGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-AGTAATTATATCCGGGTTAAGACCCGAAGGCATTCG
*** *
39748585 TGCGAGTTGTTATAT
65 TGCGAGTCACTATAA
* * ** *
39748600 CCGGGCTAAGACCCGAAGGCATTTGTGCAGTTACCAAATCCGGGTTAAGACCCGAAGGCAATT-G
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAGTAATTATATCCGGGTTAAGACCCGAAGGC-ATTCG
39748664 TGCGAGTCACTATAA
65 TGCGAGTCACTATAA
** * *
39748679 CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCATTATATCC-GGTTAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-AGTAATTATATCCGGGTTAA
39748727 ATTCCGAAGG
Statistics
Matches: 106, Mismatches: 19, Indels: 5
0.82 0.15 0.04
Matches are distributed among these distances:
79 68 0.64
80 38 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAGTAATTATATCCGGGTTAAGACCCGAAGGCATTCGT
GCGAGTCACTATAA
Found at i:39755694 original size:8 final size:8
Alignment explanation
Indices: 39755677--39755728 Score: 61
Period size: 8 Copynumber: 6.6 Consensus size: 8
39755667 ATGAATCGCC
39755677 AAAAGCCG
1 AAAAGCCG
*
39755685 AAATGCCG
1 AAAAGCCG
*
39755693 AAAAGTCG
1 AAAAGCCG
*
39755701 AAAAGTCG
1 AAAAGCCG
*
39755709 AAATGCCG
1 AAAAGCCG
39755717 AAAAGCC-
1 AAAAGCCG
39755724 AAAAG
1 AAAAG
39755729 TTTGGCTACG
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
7 5 0.13
8 33 0.87
ACGTcount: A:0.50, C:0.19, G:0.23, T:0.08
Consensus pattern (8 bp):
AAAAGCCG
Found at i:39755992 original size:29 final size:29
Alignment explanation
Indices: 39755937--39756052 Score: 128
Period size: 29 Copynumber: 4.0 Consensus size: 29
39755927 TGTGGCATGA
* * *
39755937 ATATGAATGTG-TCTGGGCCTAACGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
39755965 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
* * *
39755994 ATATACAGGTGATTTGGGCCTAAAGGGGCC
1 ATATAAATGTGATTTGGGCCT-AATGGGCC
* * *
39756024 ATATGAATATGA-TTGGGCTTAATGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
39756052 A
1 A
39756053 GATACAGGTA
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
28 18 0.24
29 41 0.55
30 15 0.20
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.28
Consensus pattern (29 bp):
ATATAAATGTGATTTGGGCCTAATGGGCC
Found at i:39756040 original size:58 final size:58
Alignment explanation
Indices: 39755950--39756061 Score: 163
Period size: 58 Copynumber: 1.9 Consensus size: 58
39755940 TGAATGTGTC
* *
39755950 TGGGCCTAACGGGCCATATAAATGTGATTTGGGCCTAATGGGCCATATACAGGTGATT
1 TGGGCCTAACGGGCCATATAAATATGATTTGGGCCTAATGGGCCAGATACAGGTGATT
* * *
39756008 TGGGCCTAAAGGGGCCATATGAATATGA-TTGGGCTTAATGGGCCAGATACAGGT
1 TGGGCCT-AACGGGCCATATAAATATGATTTGGGCCTAATGGGCCAGATACAGGT
39756062 ATGTGAATTT
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
58 31 0.65
59 17 0.35
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (58 bp):
TGGGCCTAACGGGCCATATAAATATGATTTGGGCCTAATGGGCCAGATACAGGTGATT
Found at i:39758874 original size:33 final size:33
Alignment explanation
Indices: 39758787--39758881 Score: 86
Period size: 33 Copynumber: 2.9 Consensus size: 33
39758777 TATACATTTA
* *
39758787 TGATACTG-TATTGAGATGGGCTAAGGCCCACAC
1 TGATACTGAGATTGATATGGGCTAAGG-CCACAC
* * *
39758820 TGATGCTGATACTGCAT-TGGGCTAAGGCCACAC
1 TGATACTGAGATTG-ATATGGGCTAAGGCCACAC
* * *
39758853 TGATATTGCGATTGATATGGGCTTAGGCC
1 TGATACTGAGATTGATATGGGCTAAGGCC
39758882 CAGTTTTTTC
Statistics
Matches: 50, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
32 2 0.04
33 33 0.66
34 14 0.28
35 1 0.02
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (33 bp):
TGATACTGAGATTGATATGGGCTAAGGCCACAC
Found at i:39761737 original size:43 final size:43
Alignment explanation
Indices: 39761689--39761855 Score: 153
Period size: 43 Copynumber: 3.9 Consensus size: 43
39761679 ATTATCAAGA
*
39761689 TGTGATTACATGTAAGACAATGTCTGGGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
* *
39761732 TGTGATTACGTGTAAGACCATGTCTAGGACATTGGCATCAT-TA-
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCAT--TGTAT
* * * * * * *
39761775 TATGATTTCGTATAAGACCATGTTTGGGACATTAGCATCG-AT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
* * * *
39761817 ATGTGGTAACATGTAAGACCATATCTGGGATA-TGGCATT
1 -TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATT
39761856 ATACGAGCTA
Statistics
Matches: 98, Mismatches: 21, Indels: 11
0.75 0.16 0.08
Matches are distributed among these distances:
41 1 0.01
42 5 0.05
43 89 0.91
44 2 0.02
45 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.34
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
Found at i:39767514 original size:37 final size:38
Alignment explanation
Indices: 39767470--39767549 Score: 126
Period size: 37 Copynumber: 2.1 Consensus size: 38
39767460 CCACGTCTGG
*
39767470 GACATGGCATCAGCACAGATATGTGAGAGATAGTGT-A
1 GACATGGCACCAGCACAGATATGTGAGAGATAGTGTAA
* *
39767507 GACATGGCACCGGCACAGATATGTGAGAGCTAGTGTAA
1 GACATGGCACCAGCACAGATATGTGAGAGATAGTGTAA
39767545 GACAT
1 GACAT
39767550 ATCTGGGACA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
37 33 0.85
38 6 0.15
ACGTcount: A:0.34, C:0.16, G:0.30, T:0.20
Consensus pattern (38 bp):
GACATGGCACCAGCACAGATATGTGAGAGATAGTGTAA
Found at i:39770430 original size:26 final size:26
Alignment explanation
Indices: 39770401--39770511 Score: 125
Period size: 27 Copynumber: 4.2 Consensus size: 26
39770391 AGCATGGCTG
* *
39770401 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
39770427 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
39770455 CCAGAACA-AAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
39770481 CCAGATCAAATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
39770508 CCAG
1 CCAG
39770512 GACGCTTCCT
Statistics
Matches: 74, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
26 27 0.36
27 32 0.43
28 15 0.20
ACGTcount: A:0.39, C:0.23, G:0.23, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:39771771 original size:21 final size:21
Alignment explanation
Indices: 39771747--39771790 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
39771737 GAACAGAAGA
* *
39771747 AGAAAAGAATAACAAATGGAG
1 AGAAAAGAAAAACAAAAGGAG
*
39771768 AGAAAAGAAAAATAAAAGGAG
1 AGAAAAGAAAAACAAAAGGAG
39771789 AG
1 AG
39771791 GAAGAGTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.66, C:0.02, G:0.25, T:0.07
Consensus pattern (21 bp):
AGAAAAGAAAAACAAAAGGAG
Found at i:39778263 original size:27 final size:26
Alignment explanation
Indices: 39778226--39778337 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
39778216 CACATGGCTG
* *
39778226 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
39778252 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
* *
39778280 CCAGAACAAAAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
39778307 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
39778334 CCAG
1 CCAG
39778338 GACTCTTCCT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 6 0.08
27 51 0.69
28 17 0.23
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:39779614 original size:23 final size:23
Alignment explanation
Indices: 39779567--39779614 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
39779557 AGCTATGGGG
*
39779567 AATAGAAGAAGAAAAGAATAAAA
1 AATAGAAGAAGAAAAGAAAAAAA
39779590 AATAG-AG-AGAAAATGAAAAATAA
1 AATAGAAGAAGAAAA-GAAAAA-AA
39779613 AA
1 AA
39779615 GGAGAGGAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
21 6 0.27
22 7 0.32
23 9 0.41
ACGTcount: A:0.73, C:0.00, G:0.17, T:0.10
Consensus pattern (23 bp):
AATAGAAGAAGAAAAGAAAAAAA
Found at i:39781873 original size:15 final size:15
Alignment explanation
Indices: 39781849--39781881 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
39781839 CATGTAAGAC
39781849 CATGTCAAGACATGG
1 CATGTCAAGACATGG
*
39781864 CATGTTAAGACATGG
1 CATGTCAAGACATGG
39781879 CAT
1 CAT
39781882 TGATAAGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.24
Consensus pattern (15 bp):
CATGTCAAGACATGG
Found at i:39781986 original size:53 final size:55
Alignment explanation
Indices: 39781870--39782000 Score: 151
Period size: 53 Copynumber: 2.4 Consensus size: 55
39781860 ATGGCATGTT
* *
39781870 AAGACATGGCATTGATAAGTTTCTATAAGGCAAAGGTCCCATGTAAGACCATGCC
1 AAGACATGGCATTGGTAAGTTTCTATAAGGCAAAGGTACCATGTAAGACCATGCC
* * * *
39781925 AAGGCATGGCATTGGTGAG-TTC-ATAAGGC-AAGGATACCATGTAAGACTATGTC
1 AAGACATGGCATTGGTAAGTTTCTATAAGGCAAAGG-TACCATGTAAGACCATGCC
* * *
39781978 GAGACATGGCAATGGTAAATTTC
1 AAGACATGGCATTGGTAAGTTTC
39782001 AAAAGGATAC
Statistics
Matches: 63, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
52 4 0.06
53 37 0.59
54 6 0.10
55 16 0.25
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.24
Consensus pattern (55 bp):
AAGACATGGCATTGGTAAGTTTCTATAAGGCAAAGGTACCATGTAAGACCATGCC
Found at i:39784970 original size:39 final size:39
Alignment explanation
Indices: 39784889--39785051 Score: 272
Period size: 39 Copynumber: 4.2 Consensus size: 39
39784879 TATGGTAACC
* *
39784889 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
39784929 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
39784968 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
39785007 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
39785046 CGCACA
1 CGCACA
39785052 TTCATACACA
Statistics
Matches: 116, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 99 0.85
40 17 0.15
ACGTcount: A:0.25, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:39792947 original size:39 final size:39
Alignment explanation
Indices: 39792866--39793020 Score: 265
Period size: 39 Copynumber: 3.9 Consensus size: 39
39792856 TATGGTAACC
* *
39792866 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
39792906 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATATCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
39792945 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
39792984 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAA
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAA
39793021 TTCACACATT
Statistics
Matches: 109, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 92 0.84
40 17 0.16
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:39795178 original size:5 final size:5
Alignment explanation
Indices: 39795168--39795199 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
39795158 TTTTGTGTTC
39795168 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
39795200 TCACAAATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:39795182 original size:9 final size:9
Alignment explanation
Indices: 39795168--39795198 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
39795158 TTTTGTGTTC
39795168 TTTATTTTA
1 TTTATTTTA
39795177 TTTATTTTA
1 TTTATTTTA
39795186 TTTTATTTTA
1 -TTTATTTTA
39795196 TTT
1 TTT
39795199 TTCACAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:39800637 original size:22 final size:22
Alignment explanation
Indices: 39800602--39800656 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 22
39800592 ACTTGTGTTT
39800602 ATTATGATTATTGATATG-ATGAG
1 ATTAT-ATT-TTGATATGTATGAG
*
39800625 ATTGATATTTTGATATGTATGTG
1 ATT-ATATTTTGATATGTATGAG
39800648 ATTATATTT
1 ATTATATTT
39800657 GTGTTGATCT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
22 14 0.48
23 13 0.45
24 2 0.07
ACGTcount: A:0.31, C:0.00, G:0.18, T:0.51
Consensus pattern (22 bp):
ATTATATTTTGATATGTATGAG
Found at i:39801190 original size:18 final size:19
Alignment explanation
Indices: 39801167--39801205 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
39801157 GAGTTTCCTA
*
39801167 AAGATAAACAAA-TGAAAC
1 AAGATAAAAAAATTGAAAC
39801185 AAGATAAAAAAATTGAAAC
1 AAGATAAAAAAATTGAAAC
39801204 AA
1 AA
39801206 AATCTGATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.69, C:0.08, G:0.10, T:0.13
Consensus pattern (19 bp):
AAGATAAAAAAATTGAAAC
Found at i:39802959 original size:19 final size:19
Alignment explanation
Indices: 39802935--39802975 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
39802925 ATCTTTTGTG
39802935 AATATAATAGAGAGCACAA
1 AATATAATAGAGAGCACAA
39802954 AATATAATAGAGAGCACAA
1 AATATAATAGAGAGCACAA
39802973 AAT
1 AAT
39802976 TCTCAAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.59, C:0.10, G:0.15, T:0.17
Consensus pattern (19 bp):
AATATAATAGAGAGCACAA
Found at i:39805762 original size:13 final size:13
Alignment explanation
Indices: 39805744--39805770 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
39805734 TAAAAAAATG
39805744 CAAAAGTTGAGTT
1 CAAAAGTTGAGTT
39805757 CAAAAGTTGAGTT
1 CAAAAGTTGAGTT
39805770 C
1 C
39805771 TACATGTTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.11, G:0.22, T:0.30
Consensus pattern (13 bp):
CAAAAGTTGAGTT
Found at i:39807052 original size:43 final size:43
Alignment explanation
Indices: 39806999--39807084 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
39806989 GATATATGTG
* *
39806999 GCATCTGAGCTCGTTGATTGGTTCGAGTTCATTATGGATGCGA
1 GCATCTGAGCTCGTTGAGTGGTTCGAGTTCATAATGGATGCGA
39807042 GCATCTGAGCTCGTTGAGTGGTTCGAGTTCATAATGGATGCGA
1 GCATCTGAGCTCGTTGAGTGGTTCGAGTTCATAATGGATGCGA
39807085 TACATGTGAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.20, C:0.16, G:0.31, T:0.33
Consensus pattern (43 bp):
GCATCTGAGCTCGTTGAGTGGTTCGAGTTCATAATGGATGCGA
Found at i:39821765 original size:46 final size:46
Alignment explanation
Indices: 39821621--39821816 Score: 211
Period size: 46 Copynumber: 4.2 Consensus size: 46
39821611 TTTGTGGGCT
* * *
39821621 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GACGAGAGCC
* * * * *
39821667 AGTGTAAGACCATGTCTGGGACACGGCATCAGCAAT-GAGACAAGAGCT
1 AGTGTAAGA-CATGTCTGGGACA-TGCATCGGC-CTCGAGACGAGAGCC
39821715 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACG-AGAGCC
* * *
39821761 AGTGTAAGACATGTCTGGGACATGCATCGG-CTACGAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGACGAGAGCC
39821807 AGTGTAAGAC
1 AGTGTAAGAC
39821817 CATATCTAAG
Statistics
Matches: 127, Mismatches: 15, Indels: 16
0.80 0.09 0.10
Matches are distributed among these distances:
45 4 0.03
46 73 0.57
47 27 0.21
48 22 0.17
49 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.30, T:0.20
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGAGAGCC
Found at i:39821836 original size:94 final size:94
Alignment explanation
Indices: 39821618--39821836 Score: 214
Period size: 94 Copynumber: 2.3 Consensus size: 94
39821608 TTGTTTGTGG
* ** * * *
39821618 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATG-AGAGCCAGTGTAAGACCATG
1 GCTAGTGTAAGACATATCTAAGACATGCATCGGCCTCGA-GACGTA-AGCCAGTGTAAGACCATG
*
39821681 TCTGGGACACGGCATCAGCAATGAGACAAGA
64 TCTGGGACACGGCATCAGCAACGAGACAAGA
* **
39821712 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTAAGCCAGTGTAAGA-CATGTC
1 GCTAGTGTAAGACATATCTAAGACATGCATCGGCCTCGAGACGTAAGCCAGTGTAAGACCATGTC
* * * ** *
39821776 TGGGACA-TGCATCGGCTACGAGATGATA
66 TGGGACACGGCATCAGCAACGAGACAAGA
39821804 G-TCAGTGTAAGACCATATCTAAGACATGGCATC
1 GCT-AGTGTAAGA-CATATCTAAGACAT-GCATC
39821837 AAGCCAGTGT
Statistics
Matches: 107, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
91 1 0.01
92 24 0.22
93 24 0.22
94 56 0.52
95 2 0.02
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.21
Consensus pattern (94 bp):
GCTAGTGTAAGACATATCTAAGACATGCATCGGCCTCGAGACGTAAGCCAGTGTAAGACCATGTC
TGGGACACGGCATCAGCAACGAGACAAGA
Found at i:39827471 original size:21 final size:20
Alignment explanation
Indices: 39827447--39827485 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
39827437 GTGTAAATGT
39827447 AGTAACATAATTGTTATTTTA
1 AGTAACATAA-TGTTATTTTA
**
39827468 AGTAATTTAATGTTATTT
1 AGTAACATAATGTTATTT
39827486 ATATGATATG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.36, C:0.03, G:0.10, T:0.51
Consensus pattern (20 bp):
AGTAACATAATGTTATTTTA
Found at i:39829321 original size:216 final size:216
Alignment explanation
Indices: 39828941--39829367 Score: 703
Period size: 216 Copynumber: 2.0 Consensus size: 216
39828931 AAAAATTCTG
* * *
39828941 AAAAAGAATTAGTAAATAGATATATGAGTCTAGTTTTAGGAAAATTTTACAGATTTAAATTTTGA
1 AAAAAAAATTAGTAAATAGATATATGAGTCTAGTTTCAGGAAAATTTTACAGATTTAAATTTCGA
* * **
39829006 GTTTCGTAACTTGAGATATGAATTTTTTTAGCGACTGTGATGCAAATGGGCAGTTTATTATGAAA
66 GTTTCGTAACTCGAGATATGAATTTTTTTAGCGACTGTGATGCAAATGGGCAATTTATTACAAAA
* * * *
39829071 GGTAAAATAATTTTTTTGAAATTGTTTAAGTGATAATTTAAGTCTGTTAATGCTTCGTACTCGAC
131 GGTAAAATAAATTGTCTGAAATTGTTTAAGTGATAATTTAAGTCTGTTAATGCCTCGTACTCGAC
* *
39829136 TCCGGTGATTGTCTAGTCATT
196 TCCGGCGATGGTCTAGTCATT
*
39829157 AAAAAAAATTAGTAAATATATATATGAGTCTAGTTTCAGGGAAAA-TTTACAGATTTAAATTTCG
1 AAAAAAAATTAGTAAATAGATATATGAGTCTAGTTTCA-GGAAAATTTTACAGATTTAAATTTCG
*
39829221 AGTTTCGTAACTCGAGATATGAATTTTTTTAGCGACTGTGATGCATATGGGCAATTTATTACAAA
65 AGTTTCGTAACTCGAGATATGAATTTTTTTAGCGACTGTGATGCAAATGGGCAATTTATTACAAA
39829286 AGGTAAAATAAATTGTCTGAAATTGTTTAAGTGATAATTTAAGTCTGTTAATGCCTCGTACTCGA
130 AGGTAAAATAAATTGTCTGAAATTGTTTAAGTGATAATTTAAGTCTGTTAATGCCTCGTACTCGA
39829351 CTCCGGCGATGGTCTAG
195 CTCCGGCGATGGTCTAG
39829368 GGTAAGGGGG
Statistics
Matches: 195, Mismatches: 15, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
216 189 0.97
217 6 0.03
ACGTcount: A:0.34, C:0.10, G:0.19, T:0.37
Consensus pattern (216 bp):
AAAAAAAATTAGTAAATAGATATATGAGTCTAGTTTCAGGAAAATTTTACAGATTTAAATTTCGA
GTTTCGTAACTCGAGATATGAATTTTTTTAGCGACTGTGATGCAAATGGGCAATTTATTACAAAA
GGTAAAATAAATTGTCTGAAATTGTTTAAGTGATAATTTAAGTCTGTTAATGCCTCGTACTCGAC
TCCGGCGATGGTCTAGTCATT
Found at i:39831919 original size:19 final size:19
Alignment explanation
Indices: 39831895--39831933 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
39831885 CATGCGGAGC
39831895 ACTTGAGGATAGTTTTGCA
1 ACTTGAGGATAGTTTTGCA
39831914 ACTTGAGGATAGTTTTGCA
1 ACTTGAGGATAGTTTTGCA
39831933 A
1 A
39831934 ACTTTGAGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.28, C:0.10, G:0.26, T:0.36
Consensus pattern (19 bp):
ACTTGAGGATAGTTTTGCA
Found at i:39848377 original size:35 final size:35
Alignment explanation
Indices: 39848326--39848396 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
39848316 CACATTATGA
*
39848326 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATC
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
*
39848361 GAGCCAGTGTAAGACCATGTTTGGGACATGGCATC
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
39848396 G
1 G
39848397 GTACCTTACC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.25, C:0.20, G:0.32, T:0.23
Consensus pattern (35 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
Found at i:39856406 original size:93 final size:93
Alignment explanation
Indices: 39856293--39856463 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
39856283 GCCCATAAGA
* *
39856293 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
39856358 CGAGTTCGGATGCCTAGTTACATTCCAC
66 CGAGTTCGGATGCCTAGTTACATTCCAC
*
39856386 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
39856451 CGAGTTCGGATGC
66 CGAGTTCGGATGC
39856464 TCAACATCCT
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTCCAC
Found at i:39856460 original size:46 final size:46
Alignment explanation
Indices: 39856285--39856460 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
39856275 TGTAACCCGC
* * * *
39856285 CCATAAGAGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
39856331 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACATT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCA-T
*
39856382 CC---A-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
39856424 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
39856461 TGCTCAACAT
Statistics
Matches: 111, Mismatches: 8, Indels: 22
0.79 0.06 0.16
Matches are distributed among these distances:
42 5 0.05
43 3 0.03
44 1 0.01
45 1 0.01
46 63 0.57
47 29 0.26
48 1 0.01
49 1 0.01
50 2 0.02
51 5 0.05
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:39863971 original size:46 final size:46
Alignment explanation
Indices: 39863825--39863952 Score: 213
Period size: 46 Copynumber: 2.8 Consensus size: 46
39863815 TGTAACCCGC
* *
39863825 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG-CGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
* *
39863870 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
39863916 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
39863953 TGCTCAACTA
Statistics
Matches: 77, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
45 33 0.43
46 44 0.57
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
Found at i:39868270 original size:26 final size:29
Alignment explanation
Indices: 39868225--39868281 Score: 84
Period size: 26 Copynumber: 2.1 Consensus size: 29
39868215 AAAGATTGTT
*
39868225 AAAACTCTTCTAAAAGAAAACTTAA-GAG
1 AAAACTCTTCTAAAAGAAAACTCAACGAG
39868253 AAAA-TCTTC-AAAAGAAAACTCAACGAG
1 AAAACTCTTCTAAAAGAAAACTCAACGAG
39868280 AA
1 AA
39868282 TTTTATTAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 13 0.48
27 10 0.37
28 4 0.15
ACGTcount: A:0.56, C:0.16, G:0.11, T:0.18
Consensus pattern (29 bp):
AAAACTCTTCTAAAAGAAAACTCAACGAG
Found at i:39874603 original size:29 final size:29
Alignment explanation
Indices: 39874571--39874632 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
39874561 GACATAAATA
* **
39874571 TTTT-AAATTTTTTTAGAAAAATATGGTAG
1 TTTTGAAATTATTTT-GAAAAATATACTAG
*
39874600 TTTTGAGATTATTTTGAAAAATATACTAG
1 TTTTGAAATTATTTTGAAAAATATACTAG
39874629 TTTT
1 TTTT
39874633 CCTCTAAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 20 0.71
30 8 0.29
ACGTcount: A:0.35, C:0.02, G:0.13, T:0.50
Consensus pattern (29 bp):
TTTTGAAATTATTTTGAAAAATATACTAG
Found at i:39874866 original size:22 final size:22
Alignment explanation
Indices: 39874823--39874880 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
39874813 GGGAAAAAAC
* * *
39874823 ACATGTTAAAATGTCATTTTTAT
1 ACAT-TTAAAATTTAATATTTAT
39874846 ACATTTAAAATTTAATATTTAT
1 ACATTTAAAATTTAATATTTAT
*
39874868 A-TTTTAAAATTTA
1 ACATTTAAAATTTA
39874881 TTAATATGAC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 11 0.35
22 16 0.52
23 4 0.13
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.50
Consensus pattern (22 bp):
ACATTTAAAATTTAATATTTAT
Found at i:39888727 original size:40 final size:40
Alignment explanation
Indices: 39888680--39888755 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 40
39888670 CAGCTAAGAA
* *
39888680 TGGCACTTAGTGTGTGGTTTGAAATAGCTTCGGCTAAATG
1 TGGCACTTAGTGTGCGATTTGAAATAGCTTCGGCTAAATG
* *
39888720 TGGCACTTGGTGTGCGATTTGAGATAGCTTCGGCTA
1 TGGCACTTAGTGTGCGATTTGAAATAGCTTCGGCTA
39888756 TATATATATG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.20, C:0.14, G:0.32, T:0.34
Consensus pattern (40 bp):
TGGCACTTAGTGTGCGATTTGAAATAGCTTCGGCTAAATG
Found at i:39888839 original size:28 final size:28
Alignment explanation
Indices: 39888770--39888840 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
39888760 TATATGTGGC
* * *
39888770 ACTTAGTGTGCAAAATATTGAGAATGAC
1 ACTTAGTGTGCGAGATATTGAGAATGAA
* * *
39888798 ACTTGGTGTACGAGATATTGAGTATGAA
1 ACTTAGTGTGCGAGATATTGAGAATGAA
39888826 ACTTAGTGTGCGAGA
1 ACTTAGTGTGCGAGA
39888841 CATCGAAGAT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.34, C:0.10, G:0.27, T:0.30
Consensus pattern (28 bp):
ACTTAGTGTGCGAGATATTGAGAATGAA
Found at i:39897376 original size:56 final size:55
Alignment explanation
Indices: 39897236--39897395 Score: 182
Period size: 56 Copynumber: 2.9 Consensus size: 55
39897226 TTTGATGACA
* *
39897236 TGATACATGCTAGGTTCCGGAGCTTATGTAGCCTCGTTGAGAGGCAT-GTAATTATG
1 TGATACATGCTAGG-TCCGGAGCTTATGTAGCCCCGTTGAGAGGCGTGGTAA-TATG
* *
39897292 TGGTACACGCTAGGTCCAGGAGCTTATGTAGCCCCGTTGAGAGGCGTGGT-A-ATG
1 TGATACATGCTAGGTCC-GGAGCTTATGTAGCCCCGTTGAGAGGCGTGGTAATATG
* * *
39897346 TGATGCATGCTAGGTCCGGGTGCTCATATGTAGCCCTGTTGAGAGGCGTG
1 TGATACATGCTAGGTCC-GGAGCT--TATGTAGCCCCGTTGAGAGGCGTG
39897396 CTATGTCATG
Statistics
Matches: 90, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
54 22 0.24
55 3 0.03
56 63 0.70
57 2 0.02
ACGTcount: A:0.20, C:0.19, G:0.33, T:0.28
Consensus pattern (55 bp):
TGATACATGCTAGGTCCGGAGCTTATGTAGCCCCGTTGAGAGGCGTGGTAATATG
Found at i:39912260 original size:8 final size:8
Alignment explanation
Indices: 39912247--39912275 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
39912237 GAAGTTAAAA
39912247 TATTATTT
1 TATTATTT
39912255 TATTATTT
1 TATTATTT
39912263 TATTATTT
1 TATTATTT
39912271 TATTA
1 TATTA
39912276 AAGCTTACAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (8 bp):
TATTATTT
Found at i:39913366 original size:40 final size:40
Alignment explanation
Indices: 39913297--39913382 Score: 100
Period size: 40 Copynumber: 2.1 Consensus size: 40
39913287 TGGTGACACA
** * *
39913297 TAGTGTGCGAATTGACATTGCTTCGGCTATATGTGGAACT
1 TAGTGTGCGAATTGACATAACTTCAGCTATATATGGAACT
* * * *
39913337 TAGTGTGCGATTTGAGATAACTTCAGCTATGTATGGCACT
1 TAGTGTGCGAATTGACATAACTTCAGCTATATATGGAACT
39913377 TAGTGT
1 TAGTGT
39913383 ATGAGATATC
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.23, C:0.14, G:0.27, T:0.36
Consensus pattern (40 bp):
TAGTGTGCGAATTGACATAACTTCAGCTATATATGGAACT
Found at i:39913407 original size:28 final size:28
Alignment explanation
Indices: 39913367--39913482 Score: 133
Period size: 28 Copynumber: 4.1 Consensus size: 28
39913357 CTTCAGCTAT
* *
39913367 GTATGGCACTTAGTGTATGAGATATCGA
1 GTATGACACTTAGTGTACGAGATATCGA
* ** *
39913395 GTATGGCACTTAGTGTGGGAGTTATCGA
1 GTATGACACTTAGTGTACGAGATATCGA
* *
39913423 GTATGAAACTTCGTGTACGAGATATCGA
1 GTATGACACTTAGTGTACGAGATATCGA
* * *
39913451 GTATGACATTTAGTGTGCGAGATATTGA
1 GTATGACACTTAGTGTACGAGATATCGA
39913479 GTAT
1 GTAT
39913483 TCAACTGCAT
Statistics
Matches: 74, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 74 1.00
ACGTcount: A:0.28, C:0.10, G:0.29, T:0.33
Consensus pattern (28 bp):
GTATGACACTTAGTGTACGAGATATCGA
Found at i:39913453 original size:56 final size:56
Alignment explanation
Indices: 39913374--39913482 Score: 155
Period size: 56 Copynumber: 1.9 Consensus size: 56
39913364 TATGTATGGC
* * * *
39913374 ACTTAGTGTATGAGATATCGAGTATGGCACTTAGTGTGGGAGTTATCGAGTATGAA
1 ACTTAGTGTACGAGATATCGAGTATGACACTTAGTGTGCGAGATATCGAGTATGAA
* * *
39913430 ACTTCGTGTACGAGATATCGAGTATGACATTTAGTGTGCGAGATATTGAGTAT
1 ACTTAGTGTACGAGATATCGAGTATGACACTTAGTGTGCGAGATATCGAGTAT
39913483 TCAACTGCAT
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
56 46 1.00
ACGTcount: A:0.28, C:0.10, G:0.28, T:0.33
Consensus pattern (56 bp):
ACTTAGTGTACGAGATATCGAGTATGACACTTAGTGTGCGAGATATCGAGTATGAA
Found at i:39913548 original size:31 final size:31
Alignment explanation
Indices: 39913513--39913606 Score: 74
Period size: 31 Copynumber: 3.2 Consensus size: 31
39913503 TATGAACTCT
39913513 TTATGAATTGGTACAAGTATGTACATGTATA
1 TTATGAATTGGTACAAGTATGTACATGTATA
** * * * *
39913544 TTATGAGCT--TAAAATCTATG-A-A-CTCT-
1 TTATGAATTGGTACAA-GTATGTACATGTATA
*
39913570 TTATGGATTGGTACAAGTATGTACATGTATA
1 TTATGAATTGGTACAAGTATGTACATGTATA
39913601 TTATGA
1 TTATGA
39913607 GCTTAAAATC
Statistics
Matches: 42, Mismatches: 14, Indels: 14
0.60 0.20 0.20
Matches are distributed among these distances:
26 6 0.14
27 6 0.14
28 6 0.14
29 6 0.14
30 6 0.14
31 12 0.29
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.39
Consensus pattern (31 bp):
TTATGAATTGGTACAAGTATGTACATGTATA
Found at i:39913572 original size:57 final size:57
Alignment explanation
Indices: 39913503--39913618 Score: 223
Period size: 57 Copynumber: 2.0 Consensus size: 57
39913493 TTCGTGTATG
39913503 TATGAACTCTTTATGAATTGGTACAAGTATGTACATGTATATTATGAGCTTAAAATC
1 TATGAACTCTTTATGAATTGGTACAAGTATGTACATGTATATTATGAGCTTAAAATC
*
39913560 TATGAACTCTTTATGGATTGGTACAAGTATGTACATGTATATTATGAGCTTAAAATC
1 TATGAACTCTTTATGAATTGGTACAAGTATGTACATGTATATTATGAGCTTAAAATC
39913617 TA
1 TA
39913619 AAAAGATACA
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.39
Consensus pattern (57 bp):
TATGAACTCTTTATGAATTGGTACAAGTATGTACATGTATATTATGAGCTTAAAATC
Found at i:39915027 original size:34 final size:34
Alignment explanation
Indices: 39914987--39915064 Score: 129
Period size: 34 Copynumber: 2.3 Consensus size: 34
39914977 GATAATATAC
39914987 ATATATATATCACACCAACACATCATGGGCATAA
1 ATATATATATCACACCAACACATCATGGGCATAA
* * *
39915021 ATATATATATCATACCAACAGATCATGTGCATAA
1 ATATATATATCACACCAACACATCATGGGCATAA
39915055 ATATATATAT
1 ATATATATAT
39915065 ATATATATAT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
34 41 1.00
ACGTcount: A:0.45, C:0.18, G:0.08, T:0.29
Consensus pattern (34 bp):
ATATATATATCACACCAACACATCATGGGCATAA
Found at i:39915062 original size:2 final size:2
Alignment explanation
Indices: 39915055--39915086 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
39915045 ATGTGCATAA
39915055 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
39915087 GCAAGTACCG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:39922062 original size:49 final size:49
Alignment explanation
Indices: 39921984--39922227 Score: 299
Period size: 49 Copynumber: 4.9 Consensus size: 49
39921974 CTATTGTGAG
* * * *
39921984 GTCACGTGTGTAGTACTAAGTTCAGGCTACTACGTGTATCGGATAATTA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTA
* * * * *
39922033 GTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTC
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TTA
* * **
39922083 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTA
1 G-TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTA
* *
39922133 GGTCACGTGTGTAGTACTAAGTGCAGGGTACTACGTGTACCAGATAATTA
1 -GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTA
* * *
39922183 GTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
39922228 GCTTTGGCTA
Statistics
Matches: 166, Mismatches: 26, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
49 79 0.48
50 49 0.30
51 38 0.23
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.29
Consensus pattern (49 bp):
GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTA
Found at i:39927135 original size:49 final size:50
Alignment explanation
Indices: 39927055--39927287 Score: 272
Period size: 49 Copynumber: 4.7 Consensus size: 50
39927045 ATCTATTGTG
*
39927055 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * * *
39927105 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TT
* * * * * * **
39927155 CGATCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * * *
39927205 AGGTTACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACTGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* *
39927255 -GGTCGCATGTGTAGCACTAAGTGCAGGCTACTA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
39927288 TGCGTACCAG
Statistics
Matches: 153, Mismatches: 28, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
49 70 0.46
50 46 0.30
51 37 0.24
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.30
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
Found at i:39934034 original size:33 final size:33
Alignment explanation
Indices: 39933941--39934038 Score: 101
Period size: 34 Copynumber: 2.9 Consensus size: 33
39933931 GTTTTAGTTA
* * *
39933941 GGGCCTTAGCCCATTTCAGTAACAGTAGCAGTCT
1 GGGCCTAAGCCCATTTCAGTAATAGTA-CAGTCG
*
39933975 GGGCC-AGAGCCCATTTTAGTAATAGTATCAGT-G
1 GGGCCTA-AGCCCATTTCAGTAATAGTA-CAGTCG
* *
39934008 GGGCCTAAGCCCATTACAGTATTAGTACAGT
1 GGGCCTAAGCCCATTTCAGTAATAGTACAGT
39934039 ATGCAATTAG
Statistics
Matches: 54, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
32 4 0.07
33 22 0.41
34 28 0.52
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (33 bp):
GGGCCTAAGCCCATTTCAGTAATAGTACAGTCG
Found at i:39937094 original size:45 final size:44
Alignment explanation
Indices: 39937006--39937096 Score: 103
Period size: 45 Copynumber: 2.0 Consensus size: 44
39936996 CACAAATCAA
* * *
39937006 ATATGATGCCGATGTCCCAGATATGGTATTACACGTAACCACAT
1 ATATGATGCCAACGTCCCAGATATGGTATTACACGTAAACACAT
* * *
39937050 ATATAGATGCCAACGTCCCAGATGTGGTCTTACATG-AGAACACAT
1 ATAT-GATGCCAACGTCCCAGATATGGTATTACACGTA-AACACAT
39937095 AT
1 AT
39937097 CGAAAATCCA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
44 5 0.13
45 34 0.87
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (44 bp):
ATATGATGCCAACGTCCCAGATATGGTATTACACGTAAACACAT
Found at i:39938514 original size:65 final size:66
Alignment explanation
Indices: 39938457--39938601 Score: 161
Period size: 66 Copynumber: 2.2 Consensus size: 66
39938447 CACGGTCTCA
*
39938457 CACACGAGCGTGTGAC-TGGCCATGTGGTACAAGTCAGTATACCCTCTGATTGGCACACGGCCTA
1 CACACGAGCGTGTGACTTGGCCATGTGGCACAAGTCAGTATACCCTCTGATTGGCACACGGCCTA
39938521 G
66 G
* * * * * * * *
39938522 GATACGGGCGTGTGACTTGGCCATGTTGCATAAGTCAGTATACCCTACAAGTTTGG--CACTGCC
1 CACACGAGCGTGTGACTTGGCCATGTGGCACAAGTCAGTATACCCT-C-TGATTGGCACACGGCC
39938585 TAG
64 TAG
*
39938588 CACACAAGCGTGTG
1 CACACGAGCGTGTG
39938602 TGGCCATTTC
Statistics
Matches: 64, Mismatches: 13, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
65 13 0.20
66 45 0.70
67 1 0.02
68 5 0.08
ACGTcount: A:0.23, C:0.26, G:0.28, T:0.23
Consensus pattern (66 bp):
CACACGAGCGTGTGACTTGGCCATGTGGCACAAGTCAGTATACCCTCTGATTGGCACACGGCCTA
G
Found at i:39944908 original size:40 final size:40
Alignment explanation
Indices: 39944872--39944965 Score: 118
Period size: 40 Copynumber: 2.4 Consensus size: 40
39944862 CAGCTATTGG
39944872 TGGCACTTAGTGTGCG-TATCGACATAGCTTCGGCTATATA
1 TGGCACTTAGTGTGCGAT-TCGACATAGCTTCGGCTATATA
* * * *
39944912 TGGCACTTAGTGTGCGATTTGAGATAGCTTCGGGTATGTA
1 TGGCACTTAGTGTGCGATTCGACATAGCTTCGGCTATATA
* *
39944952 CGACACTTAGTGTG
1 TGGCACTTAGTGTG
39944966 TGAGATATCG
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
40 46 0.98
41 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.29, T:0.33
Consensus pattern (40 bp):
TGGCACTTAGTGTGCGATTCGACATAGCTTCGGCTATATA
Found at i:39944997 original size:28 final size:28
Alignment explanation
Indices: 39944953--39945036 Score: 125
Period size: 28 Copynumber: 3.0 Consensus size: 28
39944943 GGGTATGTAC
*
39944953 GACACTTAGTGTGTGAGATATCGAGTAT
1 GACACTTAGTGTCTGAGATATCGAGTAT
*
39944981 GACACTTAGTGTCTGAGATATCAAGTAT
1 GACACTTAGTGTCTGAGATATCGAGTAT
*
39945009 GACACTTAGTGTGC-GAGATATTGAGTAT
1 GACACTTAGTGT-CTGAGATATCGAGTAT
39945037 TCAATTGCAT
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 50 0.98
29 1 0.02
ACGTcount: A:0.30, C:0.12, G:0.26, T:0.32
Consensus pattern (28 bp):
GACACTTAGTGTCTGAGATATCGAGTAT
Found at i:39953466 original size:42 final size:42
Alignment explanation
Indices: 39953405--39953505 Score: 125
Period size: 42 Copynumber: 2.4 Consensus size: 42
39953395 AATTAAGAAG
* * *
39953405 TCCGAACTCATTGAGTGGTCTAGGTTCATGATAT-ATGTG-GCA
1 TCCGAGCTCGTTGAGTGGTCTAAGTTCAT--TATGATGTGAGCA
*
39953447 TCCGAGCTCGTTGGGTGGTCTAAGTTCATTATGATGTGAGCA
1 TCCGAGCTCGTTGAGTGGTCTAAGTTCATTATGATGTGAGCA
*
39953489 TCCGAGCTCGTTAAGTG
1 TCCGAGCTCGTTGAGTG
39953506 TTTCGAGTTC
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
40 3 0.06
41 5 0.10
42 43 0.84
ACGTcount: A:0.21, C:0.18, G:0.29, T:0.33
Consensus pattern (42 bp):
TCCGAGCTCGTTGAGTGGTCTAAGTTCATTATGATGTGAGCA
Found at i:39957502 original size:26 final size:26
Alignment explanation
Indices: 39957473--39957529 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
39957463 AAGGGCATTC
* *
39957473 CTTTCATATCCCGCCACAAAGGCTTT
1 CTTTCATATCACACCACAAAGGCTTT
*
39957499 CTTTCATATTACACCACAAAGGCTTT
1 CTTTCATATCACACCACAAAGGCTTT
39957525 CTTTC
1 CTTTC
39957530 CTAACATGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.25, C:0.32, G:0.09, T:0.35
Consensus pattern (26 bp):
CTTTCATATCACACCACAAAGGCTTT
Found at i:39958223 original size:115 final size:115
Alignment explanation
Indices: 39958021--39958248 Score: 411
Period size: 115 Copynumber: 2.0 Consensus size: 115
39958011 GACTGGAATA
*
39958021 ACGAAAATGTGCAAGTGCACACAATCGCAACAAGTAATAAAGTGACATGTAAGTGTCGAGTTATC
1 ACGAAAATGTGCAAGTGCACACAATCGCAACAAGTAATAAAGTGACATGTAAATGTCGAGTTATC
* *
39958086 GTACCCACAGGGACTGCAAAAAGAATTATTTATGAATGCAAATTAAAATG
66 GTACCCACAGGGACTACAAAAAGAACTATTTATGAATGCAAATTAAAATG
39958136 ACGAAAATGTGCAAGTGCACACAATCGCAACAAGTAATAAAGTGACATGTAAATGTCGAGTTATC
1 ACGAAAATGTGCAAGTGCACACAATCGCAACAAGTAATAAAGTGACATGTAAATGTCGAGTTATC
* *
39958201 GTACCCACAGGGACTACAAAAAGAACTATTTATGAATGCTATTTAAAA
66 GTACCCACAGGGACTACAAAAAGAACTATTTATGAATGCAAATTAAAA
39958249 CACTTTGGTG
Statistics
Matches: 108, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
115 108 1.00
ACGTcount: A:0.42, C:0.16, G:0.19, T:0.23
Consensus pattern (115 bp):
ACGAAAATGTGCAAGTGCACACAATCGCAACAAGTAATAAAGTGACATGTAAATGTCGAGTTATC
GTACCCACAGGGACTACAAAAAGAACTATTTATGAATGCAAATTAAAATG
Found at i:39961092 original size:40 final size:39
Alignment explanation
Indices: 39961047--39961173 Score: 130
Period size: 40 Copynumber: 3.2 Consensus size: 39
39961037 CGGAACATAA
39961047 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
39961087 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
39961127 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
39961167 CCGGATA
1 CCGGATA
39961174 AAATTTCCAG
Statistics
Matches: 70, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
38 1 0.01
40 67 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:39961191 original size:40 final size:40
Alignment explanation
Indices: 39961063--39961213 Score: 137
Period size: 40 Copynumber: 3.8 Consensus size: 40
39961053 ATAACCATGT
* * *
39961063 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAAAATCTC-CA
** ** * *
39961103 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATAAAATCTCCA
* *
39961143 GCACAATTGCCTTCGGGTCTTAACCCGGATAAAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAAAATCTCCA
* *
39961183 GCATAATTGTCTTCGGGAT-TTAGCCCGGATA
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATA
39961214 TCATTCAATT
Statistics
Matches: 89, Mismatches: 18, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
39 2 0.02
40 84 0.94
41 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATAAAATCTCCA
Found at i:39961197 original size:80 final size:80
Alignment explanation
Indices: 39961063--39961212 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
39961053 ATAACCATGT
* *
39961063 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAAAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
39961127 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * *
39961143 GCACAATTGCCTTCGGGTCTTAACCCGGATAAAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAAAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
39961206 CCCGGAT
64 CCCGGAT
39961213 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAAAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:39973039 original size:47 final size:47
Alignment explanation
Indices: 39972988--39973226 Score: 374
Period size: 47 Copynumber: 5.1 Consensus size: 47
39972978 TTAGGATTTT
* * *
39972988 ATGTGATGAATGCGAACATGCATATATGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
39973035 ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
39973082 ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
*
39973129 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * *
39973176 ATGTGGTGAATATGAACATGC--ATATGTGGTAAAGCCGAATGGTCA
1 ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
39973221 ATGTGA
1 ATGTGA
39973227 AATATATATG
Statistics
Matches: 180, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 25 0.14
47 155 0.86
ACGTcount: A:0.32, C:0.12, G:0.30, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:39973041 original size:22 final size:22
Alignment explanation
Indices: 39973013--39973135 Score: 74
Period size: 22 Copynumber: 5.3 Consensus size: 22
39973003 ACATGCATAT
39973013 ATGTGATAAGGCTGAATGGCCA
1 ATGTGATAAGGCTGAATGGCCA
* *
39973035 ATGTGATGAATG-TGAGCAT-GCATA
1 ATGTGAT-AAGGCTGA--ATGGC-CA
*
39973059 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCTGAATGGCCA
* *
39973082 ATGTGATGAATG-TGAGCAT-GCATA
1 ATGTGAT-AAGGCTGA--ATGGC-CA
*
39973106 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCTGAATGGCCA
39973129 ATGTGAT
1 ATGTGAT
39973136 GAATGTGAGC
Statistics
Matches: 76, Mismatches: 11, Indels: 28
0.66 0.10 0.24
Matches are distributed among these distances:
22 26 0.34
23 16 0.21
24 16 0.21
25 18 0.24
ACGTcount: A:0.32, C:0.12, G:0.30, T:0.26
Consensus pattern (22 bp):
ATGTGATAAGGCTGAATGGCCA
Found at i:39973184 original size:25 final size:25
Alignment explanation
Indices: 39973109--39973184 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
39973099 ATGCATATAT
39973109 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
39973134 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
39973156 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
39973181 GTGA
1 GTGA
39973185 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:39973236 original size:47 final size:47
Alignment explanation
Indices: 39973001--39973378 Score: 285
Period size: 47 Copynumber: 7.9 Consensus size: 47
39972991 TGATGAATGC
* * * *
39973001 GAACATGCATATATGTGATAAGGCTGAATGGCCAATGTG--ATGA-ATGT
1 GAACATGC--ATATGTGGTAAAGCCGAATGGCCAATGTGAAAT-ATATAT
* * * *
39973048 GAGCATGCATATATGTGATAAGGCCGAATGGCCAATGTG--ATGA-ATGT
1 GAACATGC--ATATGTGGTAAAGCCGAATGGCCAATGTGAAAT-ATATAT
* * * *
39973095 GAGCATGCATATATGTGATAAGGCCGAATGGCCAATGTG--ATGA-ATGT
1 GAACATGC--ATATGTGGTAAAGCCGAATGGCCAATGTGAAAT-ATATAT
* * *
39973142 GAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTG--GTGA-ATAT
1 GAACATGCATATGTG-G-TAAAGCCGAATGGCCAATGTGAAAT-ATATAT
*
39973189 GAACATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATATAT
1 GAACATGCATATGTGGTAAAGCCGAATGGCCAATGTGAAATATATAT
* *
39973236 GAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATATATAT
1 GA-ACATGCATATGTGGTAAAGCCGAATGGCCAATGTG-AA-ATATATAT
* *
39973286 GAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATATATAT
1 GA-ACATGCATATGTGGTAAAGCCGAATGGCCAATGTG-AA-ATATATAT
* * * * *
39973336 GCATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATAT
1 GAACATGCATATGTGGTAAAGCCGAATGGCCAATGTGAAATAT
39973379 GTAGGCGATG
Statistics
Matches: 308, Mismatches: 15, Indels: 16
0.91 0.04 0.05
Matches are distributed among these distances:
45 26 0.08
46 2 0.01
47 152 0.49
48 36 0.12
49 33 0.11
50 59 0.19
ACGTcount: A:0.34, C:0.11, G:0.27, T:0.28
Consensus pattern (47 bp):
GAACATGCATATGTGGTAAAGCCGAATGGCCAATGTGAAATATATAT
Found at i:39973256 original size:48 final size:48
Alignment explanation
Indices: 39973105--39973378 Score: 298
Period size: 47 Copynumber: 5.7 Consensus size: 48
39973095 GAGCATGCAT
* * * * *
39973105 ATATGTGATAAGGCCGAATGGCCAATGTG--ATGA-ATGTGAG-CATGC
1 ATATGTGGTAAAGCCGAATGGTCAATGTGAAAT-ATATATGAGATATGC
* * * *
39973150 ATATGTGTGATAAGGCCGAATGGCCAATGTG--GTGA-ATATGA-ACATGC
1 ATATGTG-G-TAAAGCCGAATGGTCAATGTGAAAT-ATATATGAGATATGC
39973197 ATATGTGGTAAAGCCGAATGGTCAATGTGAAATATATATGAGATATGC
1 ATATGTGGTAAAGCCGAATGGTCAATGTGAAATATATATGAGATATGC
39973245 ATATGTGGTAAAGCCGAATGGTCAATGTGAAATATATATATGAGATATGC
1 ATATGTGGTAAAGCCGAATGGTCAATGTG-AA-ATATATATGAGATATGC
*
39973295 ATATGTGGTAAAGCCGAATGGTCAATGTGAAATATATAT-ATGCATATGT
1 ATATGTGGTAAAGCCGAATGGTCAATGTGAAATATATATGA-G-ATATGC
*
39973344 ATATGTGGTAAAGCCGAATGG-CTAGTGTGAAATAT
1 ATATGTGGTAAAGCCGAATGGTC-AATGTGAAATAT
39973379 GTAGGCGATG
Statistics
Matches: 208, Mismatches: 9, Indels: 20
0.88 0.04 0.08
Matches are distributed among these distances:
45 26 0.12
46 2 0.01
47 49 0.24
48 44 0.21
49 41 0.20
50 46 0.22
ACGTcount: A:0.35, C:0.10, G:0.27, T:0.28
Consensus pattern (48 bp):
ATATGTGGTAAAGCCGAATGGTCAATGTGAAATATATATGAGATATGC
Found at i:39973303 original size:50 final size:50
Alignment explanation
Indices: 39973185--39973378 Score: 308
Period size: 50 Copynumber: 4.0 Consensus size: 50
39973175 AATGTGGTGA
*
39973185 ATATGA-ACATGCATATGTGGTAAAGCCGAATGGTCAATGTG-AA-ATAT
1 ATATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATAT
39973232 ATATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATAT
1 ATATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATAT
39973282 ATATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATAT
1 ATATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATAT
* * *
39973332 ATATG-CATATGTATATGTGGTAAAGCCGAATGG-CTAGTGTGAAATAT
1 ATATGAGATATGCATATGTGGTAAAGCCGAATGGTC-AATGTGAAATAT
39973379 GTAGGCGATG
Statistics
Matches: 139, Mismatches: 4, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
47 6 0.04
48 35 0.25
49 39 0.28
50 59 0.42
ACGTcount: A:0.37, C:0.09, G:0.24, T:0.30
Consensus pattern (50 bp):
ATATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATAT
Found at i:39973309 original size:98 final size:98
Alignment explanation
Indices: 39973185--39973378 Score: 313
Period size: 98 Copynumber: 2.0 Consensus size: 98
39973175 AATGTGGTGA
39973185 ATATGAACATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATATATGA-G-ATATGCATA
1 ATATGAACATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATATAT-ATGCATATGCATA
39973248 TGTGGTAAAGCCGAATGG-TCAATGTGAAATATAT
65 TGTGGTAAAGCCGAATGGCT-AATGTGAAATATAT
* *
39973282 ATATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATATATATGCATATGTATA
1 ATATGA-ACATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATATATATGCATATGCATA
*
39973347 TGTGGTAAAGCCGAATGGCTAGTGTGAAATAT
65 TGTGGTAAAGCCGAATGGCTAATGTGAAATAT
39973379 GTAGGCGATG
Statistics
Matches: 90, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
97 7 0.08
98 45 0.50
99 37 0.41
100 1 0.01
ACGTcount: A:0.37, C:0.09, G:0.24, T:0.30
Consensus pattern (98 bp):
ATATGAACATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATATATATGCATATGCATAT
GTGGTAAAGCCGAATGGCTAATGTGAAATATAT
Found at i:39973576 original size:36 final size:36
Alignment explanation
Indices: 39973528--39973634 Score: 171
Period size: 36 Copynumber: 3.0 Consensus size: 36
39973518 GGAAATATAT
39973528 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT-TG
*
39973565 TCC-GGTAAGACCCGATGACTACGTGTGGAGATTTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTG
* *
39973600 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
39973635 CGTCTGAGCT
Statistics
Matches: 66, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
35 4 0.06
36 59 0.89
37 3 0.05
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (36 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTG
Found at i:39974957 original size:40 final size:40
Alignment explanation
Indices: 39974899--39975303 Score: 621
Period size: 40 Copynumber: 10.1 Consensus size: 40
39974889 GAGAATTGAG
39974899 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
39974939 AGTGATGTATCCGAGCTAAGTCCTGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
39974979 AGTGATATATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
39975019 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
39975059 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
39975099 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
39975139 AATGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
39975179 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
** **
39975219 AGTGATATATCCATGCTAAACCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * * *
39975259 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCAATCATGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
39975299 AGTGA
1 AGTGA
39975304 CGTGTATTCG
Statistics
Matches: 330, Mismatches: 35, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 330 1.00
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:39978658 original size:26 final size:26
Alignment explanation
Indices: 39978622--39978731 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
39978612 TGATACAAAT
39978622 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
39978648 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
39978674 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
39978700 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
39978726 TGATAA
1 TGATAA
39978732 GAATTTCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:39980735 original size:136 final size:137
Alignment explanation
Indices: 39980489--39980774 Score: 529
Period size: 136 Copynumber: 2.1 Consensus size: 137
39980479 GAGTAGTCTC
39980489 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
39980554 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATTTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
39980619 ACTGTTA
131 ACTGTTA
*
39980626 CCCAAATGGGCTTGCATATG-TTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
39980690 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
39980755 ACTGTTA
131 ACTGTTA
**
39980762 CCTGAATGGGCTT
1 CCCAAATGGGCTT
39980775 AGGCCCAATG
Statistics
Matches: 145, Mismatches: 4, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
136 125 0.86
137 20 0.14
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:39982658 original size:47 final size:47
Alignment explanation
Indices: 39982607--39982845 Score: 356
Period size: 47 Copynumber: 5.1 Consensus size: 47
39982597 TTAGGATTTT
39982607 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
39982654 ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
39982701 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
39982748 ATGTGGTGAATATGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * *
39982795 ATGTGGTGAATATGAACATGC--ATATGTGGTAAAGTCGAATGGTCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
39982840 ATGTGA
1 ATGTGA
39982846 AATATATATA
Statistics
Matches: 181, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 24 0.13
47 157 0.87
ACGTcount: A:0.32, C:0.12, G:0.30, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:39982660 original size:22 final size:22
Alignment explanation
Indices: 39982632--39982707 Score: 66
Period size: 22 Copynumber: 3.3 Consensus size: 22
39982622 ACATGCATAT
39982632 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * *
39982654 ATGTGATGAATGTG-AGCAT-GCATA
1 ATGTGAT-AA-G-GCCGAATGGC-CA
39982678 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
39982701 ATGTGAT
1 ATGTGAT
39982708 GAATGTGAGC
Statistics
Matches: 41, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 15 0.37
23 9 0.22
24 9 0.22
25 8 0.20
ACGTcount: A:0.32, C:0.13, G:0.30, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:39982756 original size:25 final size:25
Alignment explanation
Indices: 39982681--39982803 Score: 77
Period size: 23 Copynumber: 5.2 Consensus size: 25
39982671 ATGCATATAT
39982681 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
39982706 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
39982728 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* **
39982753 GTGAATATGAAC--AT-G-CATATGT-
1 GTG-ATAAGGCCGAATGGCCA-ATGTG
39982775 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
39982800 GTGA
1 GTGA
39982804 ATATGAACAT
Statistics
Matches: 70, Mismatches: 14, Indels: 28
0.62 0.12 0.25
Matches are distributed among these distances:
21 5 0.07
22 11 0.16
23 17 0.24
24 17 0.24
25 15 0.21
26 5 0.07
ACGTcount: A:0.30, C:0.13, G:0.33, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:39982775 original size:23 final size:23
Alignment explanation
Indices: 39982748--39982824 Score: 70
Period size: 23 Copynumber: 3.3 Consensus size: 23
39982738 CGAATGGCCA
39982748 ATGTGGTGAATATGAACATGCAT
1 ATGTGGTGAATATGAACATGCAT
* **
39982771 ATGT-GTG-ATAAGGCCGAATGGCCA-
1 ATGTGGTGAATATGAAC--AT-G-CAT
39982795 ATGTGGTGAATATGAACATGCAT
1 ATGTGGTGAATATGAACATGCAT
39982818 ATGTGGT
1 ATGTGGT
39982825 AAAGTCGAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
21 5 0.12
22 5 0.12
23 14 0.34
24 7 0.17
25 5 0.12
26 5 0.12
ACGTcount: A:0.31, C:0.10, G:0.30, T:0.29
Consensus pattern (23 bp):
ATGTGGTGAATATGAACATGCAT
Found at i:39982875 original size:50 final size:50
Alignment explanation
Indices: 39982804--39982999 Score: 317
Period size: 50 Copynumber: 4.0 Consensus size: 50
39982794 AATGTGGTGA
* *
39982804 ATATGA-ACATGCATATGTGGTAAAGTCGAATGGTCAATGTGAAATATAT
1 ATATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATAT
39982853 ATATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATAT
1 ATATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATAT
39982903 ATATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATAT
1 ATATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATAT
* * *
39982953 ATATG-CATATGTATATGTGGTAAAGCCGAATGG-CTAGTGTGAAATAT
1 ATATGAGATATGCATATGTGGTAAAGCCGAATGGTC-AATGTGAAATAT
39983000 GTAGGCGATG
Statistics
Matches: 140, Mismatches: 5, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
48 1 0.01
49 43 0.31
50 96 0.69
ACGTcount: A:0.37, C:0.08, G:0.24, T:0.31
Consensus pattern (50 bp):
ATATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATAT
Found at i:39982914 original size:141 final size:140
Alignment explanation
Indices: 39982619--39982945 Score: 358
Period size: 141 Copynumber: 2.3 Consensus size: 140
39982609 GTGATGAATG
* * *
39982619 TGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCATGCATATATGTG
1 TGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATATGAACATGCA-ATATGTG
* * *
39982684 ATAAGGCCGAATGGCCAATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAA
65 ATAAAGCCGAATGGCCAATGTGATGAATATGAGCATGCATATGTGTGATAAAGCCGAATGGCCAA
*
39982749 TGTGGTGAATA
130 TGTGGTAAATA
* *
39982760 TGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGC-ATATGTGG
1 TGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATATGAACATGCAATATGTGA
* * * *
39982824 TAAAGTCGAATGGTCAATGTGAAATATATATATGAGATATGCATATGTG-G-TAAAGCCGAATGG
66 TAAAGCCGAATGGCCAATGTG--AT-GA-ATATGAG-CATGCATATGTGTGATAAAGCCGAATGG
* *
39982887 TCAATGTGAAATATATATA
126 CCAATGTG--GTA-A-ATA
* * *
39982906 TGAGATATGCATATGTG-G-TAAAGCCGAATGGTCAATGTGA
1 TGA-ACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGA
39982946 AATATATATA
Statistics
Matches: 157, Mismatches: 19, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
139 25 0.16
141 54 0.34
142 20 0.13
143 7 0.04
144 12 0.08
145 20 0.13
146 7 0.04
147 12 0.08
ACGTcount: A:0.34, C:0.11, G:0.28, T:0.27
Consensus pattern (140 bp):
TGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATATGAACATGCAATATGTGA
TAAAGCCGAATGGCCAATGTGATGAATATGAGCATGCATATGTGTGATAAAGCCGAATGGCCAAT
GTGGTAAATA
Found at i:39983257 original size:37 final size:37
Alignment explanation
Indices: 39983149--39983257 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
39983139 GGAAATATAT
* *
39983149 TCCGGGTAAGACCCGATGACTACCTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
39983186 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
39983223 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
39983258 CGTCTGAGCT
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:39992924 original size:47 final size:47
Alignment explanation
Indices: 39992846--39992958 Score: 138
Period size: 47 Copynumber: 2.4 Consensus size: 47
39992836 CATTAATTTG
* * * *
39992846 AACATCTTTAATGTGTCATAAGTTCAATAATTGTGTCTTATTTAGTAC
1 AACAT-TTTAATGTGTCTTAAGTTCAATAATTATGTCTTACTTAGAAC
* * *
39992894 AGCATTTTAATGTGTCTTAAG-TCTATTAATTATGTCTTACTTAGAAT
1 AACATTTTAATGTGTCTTAAGTTC-AATAATTATGTCTTACTTAGAAC
39992941 AACATTTTAATGTGTCTT
1 AACATTTTAATGTGTCTT
39992959 TGTTCAGACA
Statistics
Matches: 56, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
46 2 0.04
47 50 0.89
48 4 0.07
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.46
Consensus pattern (47 bp):
AACATTTTAATGTGTCTTAAGTTCAATAATTATGTCTTACTTAGAAC
Found at i:40001187 original size:27 final size:27
Alignment explanation
Indices: 40001131--40001218 Score: 115
Period size: 27 Copynumber: 3.3 Consensus size: 27
40001121 AAAAATAATT
* * *
40001131 ATTTTACCCTAC-AGGGTATATCGGTC
1 ATTTTACACTACAAGGGTATTTCGGTA
* *
40001157 ATTTTATACTACAAGGGTATTTTGGTA
1 ATTTTACACTACAAGGGTATTTCGGTA
*
40001184 ATTTTACACTACAAGGGTATTTCGATA
1 ATTTTACACTACAAGGGTATTTCGGTA
40001211 ATTTTACA
1 ATTTTACA
40001219 AATTGGGGGT
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
26 10 0.19
27 43 0.81
ACGTcount: A:0.30, C:0.15, G:0.16, T:0.40
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATTTCGGTA
Found at i:40001259 original size:54 final size:54
Alignment explanation
Indices: 40001197--40001404 Score: 220
Period size: 54 Copynumber: 3.9 Consensus size: 54
40001187 TTACACTACA
* * * * * *
40001197 AGGGTATTTCGATAATTTTACAAATTGGGGGTGTTTCAGTTATTTGAAAAATCG
1 AGGGTATTTCGATAATTTTACAAATCGAGGGTGTTTCGGTAATTTCACAAATCG
* * * * * *
40001251 AGGATATTTTGATAATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCGAGGGTGTTTCGGTAATTTCACAAATCG
* *
40001305 AGGGTGTTTC-AGTAATTTTACAAATCGAGGGTGTTTCGGTAATTTCACATATCG
1 AGGGTATTTCGA-TAATTTTACAAATCGAGGGTGTTTCGGTAATTTCACAAATCG
* * * * **
40001359 AGGGTATTTCAATGATTTTACAAATCAAGGGTATTTTAGTAATTTC
1 AGGGTATTTCGATAATTTTACAAATCGAGGGTGTTTCGGTAATTTC
40001405 TCTTTATTAT
Statistics
Matches: 127, Mismatches: 25, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
53 1 0.01
54 125 0.98
55 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (54 bp):
AGGGTATTTCGATAATTTTACAAATCGAGGGTGTTTCGGTAATTTCACAAATCG
Found at i:40001267 original size:81 final size:81
Alignment explanation
Indices: 40001174--40001403 Score: 273
Period size: 81 Copynumber: 2.8 Consensus size: 81
40001164 ACTACAAGGG
* * *
40001174 TATTTTGGTAATTTTACACTA-CAAGGGTATTTCGATAATTTTACAAATTGGGGGTGTTTCAGTT
1 TATTTTGGTAATTTTACA-TATCAAGGGTATTTCGATAATTTTACAAATCGAGGGTGTTTCAGTA
40001238 ATTTGAAAAATCGAGGA
65 ATTTGAAAAATCGAGGA
* * * *
40001255 TATTTTGATAATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAATCGAGGGTGTTTCAGTAA
1 TATTTTGGTAATTTTACATATCAAGGGTATTTCGATAATTTTACAAATCGAGGGTGTTTCAGTAA
* * *
40001320 TTTTACAAATCGAGGG
66 TTTGAAAAATCGAGGA
* * * * * * * * *
40001336 TGTTTCGGTAATTTCACATATCGAGGGTATTTCAATGATTTTACAAATCAAGGGTATTTTAGTAA
1 TATTTTGGTAATTTTACATATCAAGGGTATTTCGATAATTTTACAAATCGAGGGTGTTTCAGTAA
40001401 TTT
66 TTT
40001404 CTCTTTATTA
Statistics
Matches: 125, Mismatches: 23, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
80 1 0.01
81 124 0.99
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (81 bp):
TATTTTGGTAATTTTACATATCAAGGGTATTTCGATAATTTTACAAATCGAGGGTGTTTCAGTAA
TTTGAAAAATCGAGGA
Found at i:40001403 original size:27 final size:27
Alignment explanation
Indices: 40001170--40001403 Score: 195
Period size: 27 Copynumber: 8.7 Consensus size: 27
40001160 TTATACTACA
* * *
40001170 AGGGTATTTTGGTAATTTTAC-ACTACA
1 AGGGTATTTTAGTAATTTTACAAAT-CG
* *
40001197 AGGGTA-TTTCGATAATTTTACAAATTG
1 AGGGTATTTTAG-TAATTTTACAAATCG
* * * * * *
40001224 GGGGTGTTTCAGTTATTTGAAAAATCG
1 AGGGTATTTTAGTAATTTTACAAATCG
* *
40001251 AGGATATTTT-GATAATTTTACAAATCA
1 AGGGTATTTTAG-TAATTTTACAAATCG
*
40001278 AGGGTATTTTGGTAATTTTACAAATCG
1 AGGGTATTTTAGTAATTTTACAAATCG
* *
40001305 AGGGTGTTTCAGTAATTTTACAAATCG
1 AGGGTATTTTAGTAATTTTACAAATCG
* ** * *
40001332 AGGGTGTTTCGGTAATTTCACATATCG
1 AGGGTATTTTAGTAATTTTACAAATCG
* * * *
40001359 AGGGTATTTCAATGATTTTACAAATCA
1 AGGGTATTTTAGTAATTTTACAAATCG
40001386 AGGGTATTTTAGTAATTT
1 AGGGTATTTTAGTAATTT
40001404 CTCTTTATTA
Statistics
Matches: 164, Mismatches: 38, Indels: 10
0.77 0.18 0.05
Matches are distributed among these distances:
26 5 0.03
27 153 0.93
28 6 0.04
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
AGGGTATTTTAGTAATTTTACAAATCG
Found at i:40001756 original size:28 final size:28
Alignment explanation
Indices: 40001719--40001835 Score: 171
Period size: 28 Copynumber: 4.2 Consensus size: 28
40001709 TGGCCCCTTT
*
40001719 AGGCCCAATCTCGTTCACATGGCCCATC
1 AGGCCCAATCTCATTCACATGGCCCATC
* *
40001747 AGGCCCAATCTCATTCACATGACCCATT
1 AGGCCCAATCTCATTCACATGGCCCATC
40001775 AGGCCCAATCTCATTCACATGGCCCATC
1 AGGCCCAATCTCATTCACATGGCCCATC
* * * *
40001803 AGGCCCAATCACATTTATATGGCCTATC
1 AGGCCCAATCTCATTCACATGGCCCATC
40001831 AGGCC
1 AGGCC
40001836 AAACTACTTC
Statistics
Matches: 80, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 80 1.00
ACGTcount: A:0.26, C:0.36, G:0.15, T:0.23
Consensus pattern (28 bp):
AGGCCCAATCTCATTCACATGGCCCATC
Found at i:40004649 original size:27 final size:27
Alignment explanation
Indices: 40004619--40004680 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
40004609 GGCAAAATAG
40004619 TCATTTTAC-CTTACAAGGGTATGTCGA
1 TCATTTTACAC-TACAAGGGTATGTCGA
*
40004646 TCATTTTACACTACAAGGGTATTTCGA
1 TCATTTTACACTACAAGGGTATGTCGA
*
40004673 TAATTTTA
1 TCATTTTA
40004681 AAAATCGAGG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.29, C:0.16, G:0.15, T:0.40
Consensus pattern (27 bp):
TCATTTTACACTACAAGGGTATGTCGA
Found at i:40004691 original size:27 final size:27
Alignment explanation
Indices: 40004634--40004894 Score: 285
Period size: 27 Copynumber: 9.7 Consensus size: 27
40004624 TTACCTTACA
* * * *
40004634 AGGGTATGTCGATCATTTTAC-ACTACA
1 AGGGTATTTCGATAATTTTACAAAT-CG
*
40004661 AGGGTATTTCGATAATTTTAAAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* ** *
40004688 AGGGTGTTTTAATAATTTTACAAATCA
1 AGGGTATTTCGATAATTTTACAAATCG
* ** *
40004715 AGGGTATTTTGATAATTTTATGAATCA
1 AGGGTATTTCGATAATTTTACAAATCG
* *
40004742 AGGGTATTTCGATAATTTTAGAAATTG
1 AGGGTATTTCGATAATTTTACAAATCG
*
40004769 AGGGTGTTTCGATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
*
40004796 AGGGTGTTTC-AGTAATTTTACAAATCG
1 AGGGTATTTCGA-TAATTTTACAAATCG
* *
40004823 AGGGTGTTTCGATAATTTCACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* *
40004850 AGGGTATTTCGATAATTATACAAATCA
1 AGGGTATTTCGATAATTTTACAAATCG
40004877 AGGGTATTTC-AGTAATTT
1 AGGGTATTTCGA-TAATTT
40004895 CTCTTTATTA
Statistics
Matches: 202, Mismatches: 28, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
26 2 0.01
27 197 0.98
28 3 0.01
ACGTcount: A:0.33, C:0.10, G:0.20, T:0.38
Consensus pattern (27 bp):
AGGGTATTTCGATAATTTTACAAATCG
Found at i:40004756 original size:81 final size:82
Alignment explanation
Indices: 40004659--40004894 Score: 316
Period size: 81 Copynumber: 2.9 Consensus size: 82
40004649 TTTTACACTA
**
40004659 CAAGGGTATTTCGATAATTTTAAAAATCGAGGGTGTTTTAATAATTTTACAAATCAAGGGTATTT
1 CAAGGGTATTTCGATAATTTTAAAAATCGAGGGTGTTTCGATAATTTTACAAATCAAGGGTATTT
* **
40004724 TGA-TAATTTTATGAAT
66 TCAGTAATTTTACAAAT
* * * *
40004740 CAAGGGTATTTCGATAATTTTAGAAATTGAGGGTGTTTCGATAATTTTACAAATCGAGGGT-GTT
1 CAAGGGTATTTCGATAATTTTAAAAATCGAGGGTGTTTCGATAATTTTACAAATCAAGGGTATTT
40004804 TCAGTAATTTTACAAAT
66 TCAGTAATTTTACAAAT
* * * * * *
40004821 CGAGGGTGTTTCGATAATTTCACAAATCGAGGGTATTTCGATAATTATACAAATCAAGGGTA-TT
1 CAAGGGTATTTCGATAATTTTAAAAATCGAGGGTGTTTCGATAATTTTACAAATCAAGGGTATTT
40004885 TCAGTAATTT
66 TCAGTAATTT
40004895 CTCTTTATTA
Statistics
Matches: 136, Mismatches: 17, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
80 4 0.03
81 132 0.97
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.38
Consensus pattern (82 bp):
CAAGGGTATTTCGATAATTTTAAAAATCGAGGGTGTTTCGATAATTTTACAAATCAAGGGTATTT
TCAGTAATTTTACAAAT
Found at i:40005255 original size:28 final size:28
Alignment explanation
Indices: 40005211--40005274 Score: 83
Period size: 28 Copynumber: 2.3 Consensus size: 28
40005201 TGGCCCCTTT
* *
40005211 AGGCCCAATCTCGTTCACATGGCCAATC
1 AGGCCCAATCACCTTCACATGGCCAATC
* * *
40005239 AGGTCCAATCACCTTCATATGGCCCATC
1 AGGCCCAATCACCTTCACATGGCCAATC
40005267 AGGCCCAA
1 AGGCCCAA
40005275 CTACTTCCCA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.27, C:0.36, G:0.17, T:0.20
Consensus pattern (28 bp):
AGGCCCAATCACCTTCACATGGCCAATC
Found at i:40011006 original size:40 final size:39
Alignment explanation
Indices: 40010841--40011024 Score: 129
Period size: 40 Copynumber: 4.6 Consensus size: 39
40010831 AAATTGATTG
* * *
40010841 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
40010881 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * * *
40010921 ACATCTGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
40010961 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
40011000 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
40011025 CTTGGTGCGG
Statistics
Matches: 111, Mismatches: 28, Indels: 10
0.74 0.19 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 102 0.92
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:40011033 original size:80 final size:80
Alignment explanation
Indices: 40010885--40011033 Score: 174
Period size: 80 Copynumber: 1.9 Consensus size: 80
40010875 GAAATTATAA
* * * * *
40010885 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCTGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCATTCG
40010950 TGCGAGTCATTCTAT
66 TGCGAGTCATTCTAT
* * * * * * *
40010965 CCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGCCTTG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGCATTC
40011029 GTGCG
65 GTGCG
40011034 GGTTACCATA
Statistics
Matches: 56, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
79 1 0.02
80 55 0.98
ACGTcount: A:0.22, C:0.24, G:0.30, T:0.23
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCATTCG
TGCGAGTCATTCTAT
Found at i:40020668 original size:29 final size:30
Alignment explanation
Indices: 40020609--40020665 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
40020599 TTTCTGATCC
40020609 TAGGGGAAAAATCATAATTTTGCAAAGGTT
1 TAGGGGAAAAATCATAATTTTGCAAAGGTT
**
40020639 TAGGGG-AAAATTGTAATTTTGCCAAAG
1 TAGGGGAAAAATCATAATTTTG-CAAAG
40020666 TTTGAGTTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 13 0.54
30 11 0.46
ACGTcount: A:0.39, C:0.07, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGAAAAATCATAATTTTGCAAAGGTT
Found at i:40021440 original size:47 final size:47
Alignment explanation
Indices: 40021388--40021502 Score: 221
Period size: 47 Copynumber: 2.4 Consensus size: 47
40021378 CCCTAAGACG
40021388 AGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATA
1 AGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATA
40021435 AGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATA
1 AGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATA
*
40021482 AGGATATCATGTAAGACCATG
1 AGGATACCATGTAAGACCATG
40021503 CCAAGGCATG
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
47 67 1.00
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.27
Consensus pattern (47 bp):
AGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATA
Found at i:40021605 original size:55 final size:53
Alignment explanation
Indices: 40021475--40021689 Score: 198
Period size: 53 Copynumber: 4.0 Consensus size: 53
40021465 TGGCATTTGG
* * * * * * * *
40021475 TAAGATAAGGATATCATGTAAGACCATGCCAAGGCATGACATTGATAAGTTCTA
1 TAAGACAAGGATACCACGTAAGACCATGTCAAGACATGGCAATGATGAGTTC-A
* * * * *
40021529 TAAGGCAAGGAAATCATGTAAGACCATATCAAGACATGGCAATGATGAGTTACTA
1 TAAGACAAGGATACCACGTAAGACCATGTCAAGACATGGCAATGATGAGTT-C-A
* * * * * *
40021584 TAAGGCAAAGG-TCCCACGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCA
1 TAAGAC-AAGGATACCACGTAAGACCATGTCAAGACATGGCAATGATGAGTTCA
* *
40021637 TAAGACAAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTTCA
1 TAAGACAAGGATACCACGTAAGACCATGTCAAGACATGGCAATGATGAGTTCA
40021690 AAAAGGAAAA
Statistics
Matches: 134, Mismatches: 24, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
52 4 0.03
53 43 0.32
54 43 0.32
55 40 0.30
56 4 0.03
ACGTcount: A:0.38, C:0.18, G:0.23, T:0.21
Consensus pattern (53 bp):
TAAGACAAGGATACCACGTAAGACCATGTCAAGACATGGCAATGATGAGTTCA
Found at i:40021689 original size:53 final size:54
Alignment explanation
Indices: 40021475--40021688 Score: 207
Period size: 54 Copynumber: 4.0 Consensus size: 54
40021465 TGGCATTTGG
* * * * * *
40021475 TAAGATAAGGATATCATGTAAGACCATGCCAAGGCATGACATTGATAAGTTCTA
1 TAAGACAAGGATACCACGTAAGACCATGCCAAGACATGGCAATGATAAGTTCTA
* * * * ** *
40021529 TAAGGCAAGGAAATCATGTAAGACCATATCAAGACATGGCAATGATGAGTTACTA
1 TAAGACAAGGATACCACGTAAGACCATGCCAAGACATGGCAATGATAAGTT-CTA
* * * * * *
40021584 TAAGGCAAAGG-TCCCACGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-A
1 TAAGAC-AAGGATACCACGTAAGACCATGCCAAGACATGGCAATGATAAGTTCTA
* *
40021637 TAAGACAAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTTC
1 TAAGACAAGGATACCACGTAAGACCATGCCAAGACATGGCAATGATAAGTTC
40021689 AAAAAGGAAA
Statistics
Matches: 133, Mismatches: 24, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
52 4 0.03
53 42 0.32
54 43 0.32
55 40 0.30
56 4 0.03
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.21
Consensus pattern (54 bp):
TAAGACAAGGATACCACGTAAGACCATGCCAAGACATGGCAATGATAAGTTCTA
Found at i:40021827 original size:24 final size:24
Alignment explanation
Indices: 40021800--40021855 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
40021790 TATTGAGATT
40021800 GTAAGTAATTGAGGTTATCAAGTA
1 GTAAGTAATTGAGGTTATCAAGTA
40021824 GTAAGTAATTGAGGTTATCAAGTA
1 GTAAGTAATTGAGGTTATCAAGTA
*
40021848 TTAAGTAA
1 GTAAGTAA
40021856 GTGATGAGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.39, C:0.04, G:0.23, T:0.34
Consensus pattern (24 bp):
GTAAGTAATTGAGGTTATCAAGTA
Found at i:40023867 original size:19 final size:17
Alignment explanation
Indices: 40023843--40023877 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 17
40023833 TTCAATAATG
40023843 ACAATATCTAAAATATTAA
1 ACAATA-CTAAAA-ATTAA
40023862 ACAATACTAAAAATTA
1 ACAATACTAAAAATTA
40023878 TGAGATTCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 6 0.38
19 6 0.38
ACGTcount: A:0.60, C:0.11, G:0.00, T:0.29
Consensus pattern (17 bp):
ACAATACTAAAAATTAA
Found at i:40026151 original size:14 final size:14
Alignment explanation
Indices: 40026125--40026162 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
40026115 ATTTTCTATT
40026125 TTTATTATGTGTGAA
1 TTTATT-TGTGTGAA
40026140 TTTATTTGTGTGAA
1 TTTATTTGTGTGAA
*
40026154 ATT-TTTGTG
1 TTTATTTGTG
40026163 CTTTAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 6 0.27
14 10 0.45
15 6 0.27
ACGTcount: A:0.21, C:0.00, G:0.21, T:0.58
Consensus pattern (14 bp):
TTTATTTGTGTGAA
Found at i:40026369 original size:12 final size:13
Alignment explanation
Indices: 40026343--40026371 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
40026333 TTTATTAAGG
40026343 TTAAACATGTAAA
1 TTAAACATGTAAA
40026356 TTAAACAT-TAAA
1 TTAAACATGTAAA
40026368 TTAA
1 TTAA
40026372 TATAAGTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.55, C:0.07, G:0.03, T:0.34
Consensus pattern (13 bp):
TTAAACATGTAAA
Found at i:40026891 original size:55 final size:54
Alignment explanation
Indices: 40026831--40026938 Score: 155
Period size: 55 Copynumber: 1.9 Consensus size: 54
40026821 CATGGCATCG
40026831 ATATATGTGTGCGAGTAAGACCATGTTT-ATATGTTGGCATCGATATGTGATTCCA
1 ATATATGTGTGCGAGTAAGACCATGTTTGATA-G-TGGCATCGATATGTGATTCCA
* *
40026886 ATATATGTGTGCGAGTAAGACCCTGTTTGGGATAGTGGCATTGATATGTGATT
1 ATATATGTGTGCGAGTAAGACCATGTTT--GATAGTGGCATCGATATGTGATT
40026939 ACATGTTAGA
Statistics
Matches: 48, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
55 27 0.56
56 17 0.35
57 1 0.02
58 3 0.06
ACGTcount: A:0.26, C:0.11, G:0.27, T:0.36
Consensus pattern (54 bp):
ATATATGTGTGCGAGTAAGACCATGTTTGATAGTGGCATCGATATGTGATTCCA
Found at i:40034211 original size:2 final size:2
Alignment explanation
Indices: 40034204--40034229 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
40034194 GAAAATGATG
40034204 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
40034230 AGTTAAAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:40041539 original size:66 final size:67
Alignment explanation
Indices: 40041410--40041539 Score: 174
Period size: 66 Copynumber: 1.9 Consensus size: 67
40041400 GGGATGTATC
*
40041410 CCATGTAGACAAGAGAGCTACGTGAGAGATAAATGTAGCTAGGTCGCATGAGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTAC--G-GAGATAAATG-AGCTAGGTCGCATGAGTGATACCAAGTGA
40041475 AGGACA
62 AGGACA
* *
40041481 CCATGTAGACAAGAGAGCTAC-GAGATAAATCG-GCTAGGTCGCATGAGTGGTACTAAGTG
1 CCATGTAGACAAGAGAGCTACGGAGATAAAT-GAGCTAGGTCGCATGAGTGATACCAAGTG
40041540 TTCACCATGT
Statistics
Matches: 55, Mismatches: 3, Indels: 7
0.85 0.05 0.11
Matches are distributed among these distances:
66 24 0.44
67 9 0.16
68 1 0.02
71 21 0.38
ACGTcount: A:0.34, C:0.16, G:0.30, T:0.20
Consensus pattern (67 bp):
CCATGTAGACAAGAGAGCTACGGAGATAAATGAGCTAGGTCGCATGAGTGATACCAAGTGAAGGA
CA
Found at i:40050088 original size:28 final size:27
Alignment explanation
Indices: 40050057--40050119 Score: 74
Period size: 26 Copynumber: 2.3 Consensus size: 27
40050047 AATTACTAGA
* *
40050057 ATACCCCTAAGTATGGAAAATTACCATT
1 ATACCCCTAAG-ATGCAAAATGACCATT
*
40050085 ATACCCCT-AGGTGCAAAATGACCATT
1 ATACCCCTAAGATGCAAAATGACCATT
*
40050111 TTACCCCTA
1 ATACCCCTA
40050120 GGGTTAATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
26 20 0.67
27 2 0.07
28 8 0.27
ACGTcount: A:0.35, C:0.27, G:0.11, T:0.27
Consensus pattern (27 bp):
ATACCCCTAAGATGCAAAATGACCATT
Found at i:40054106 original size:46 final size:46
Alignment explanation
Indices: 40054047--40054140 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
40054037 GATCTTGATT
40054047 AATTATGTGATTGAATATATGTTAACTCTATAATTACATGATTTTG
1 AATTATGTGATTGAATATATGTTAACTCTATAATTACATGATTTTG
40054093 AATTATGTGATTGAATATATGTTAACTCTATAATTACATGATTTTG
1 AATTATGTGATTGAATATATGTTAACTCTATAATTACATGATTTTG
40054139 AA
1 AA
40054141 GTATACCATG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.36, C:0.06, G:0.13, T:0.45
Consensus pattern (46 bp):
AATTATGTGATTGAATATATGTTAACTCTATAATTACATGATTTTG
Found at i:40056912 original size:34 final size:34
Alignment explanation
Indices: 40056864--40056961 Score: 160
Period size: 34 Copynumber: 2.9 Consensus size: 34
40056854 GCGAATACAT
* * *
40056864 TCTGGGCCTAAGCCCATATCAGTAACAGTAGCAG
1 TCTGGGCCTTAGCCCATTTTAGTAACAGTAGCAG
40056898 TCTGGGCCTTAGCCCATTTTAGTAACAGTAGCAG
1 TCTGGGCCTTAGCCCATTTTAGTAACAGTAGCAG
*
40056932 TCTAGGCCTTAGCCCATTTTAGTAACAGTA
1 TCTGGGCCTTAGCCCATTTTAGTAACAGTA
40056962 ATCAGTGCAG
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 60 1.00
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (34 bp):
TCTGGGCCTTAGCCCATTTTAGTAACAGTAGCAG
Found at i:40056975 original size:18 final size:18
Alignment explanation
Indices: 40056952--40057009 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
40056942 AGCCCATTTT
40056952 AGTAACAGTAATCAGTGC
1 AGTAACAGTAATCAGTGC
* * *
40056970 AGTAACCA-TGATCAATGT
1 AGTAA-CAGTAATCAGTGC
**
40056988 AGTATTAGTAATCAGTGC
1 AGTAACAGTAATCAGTGC
40057006 AGTA
1 AGTA
40057010 TGCAAGCAGA
Statistics
Matches: 30, Mismatches: 8, Indels: 4
0.71 0.19 0.10
Matches are distributed among these distances:
17 1 0.03
18 27 0.90
19 2 0.07
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.28
Consensus pattern (18 bp):
AGTAACAGTAATCAGTGC
Found at i:40057317 original size:23 final size:23
Alignment explanation
Indices: 40057268--40057317 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
40057258 ACCCCATGTA
*
40057268 ATGCAACATAATATTATACATGG
1 ATGCAACATAATATTATACATGC
40057291 ATGCAACATACATA-TA-ACATGAC
1 ATGCAACATA-ATATTATACATG-C
40057314 ATGC
1 ATGC
40057318 TCAAATATAG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
22 5 0.21
23 16 0.67
24 3 0.12
ACGTcount: A:0.44, C:0.18, G:0.12, T:0.26
Consensus pattern (23 bp):
ATGCAACATAATATTATACATGC
Found at i:40057443 original size:27 final size:27
Alignment explanation
Indices: 40057352--40057441 Score: 110
Period size: 27 Copynumber: 3.3 Consensus size: 27
40057342 GAACAAATCT
* *
40057352 GTCATTTTACCCTA-CAGTGGTATTTCA
1 GTCATTTTACCCTATGAG-GGTATTTCG
* * *
40057379 GCCATTCTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGAGGGTATTTCG
*
40057406 GTCATTTTATCCTATGAGGGTATTTCG
1 GTCATTTTACCCTATGAGGGTATTTCG
40057433 GTCATTTTA
1 GTCATTTTA
40057442 TCACATAAGG
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
27 52 0.98
28 1 0.02
ACGTcount: A:0.19, C:0.20, G:0.20, T:0.41
Consensus pattern (27 bp):
GTCATTTTACCCTATGAGGGTATTTCG
Found at i:40057452 original size:27 final size:27
Alignment explanation
Indices: 40057396--40057478 Score: 98
Period size: 27 Copynumber: 3.1 Consensus size: 27
40057386 TACCCTATGG
*
40057396 GGGTATTTCGGTCATTTTATC-CTATGA
1 GGGTATTTCGGTCATTTTATCAC-ATAA
40057423 GGGTATTTCGGTCATTTTATCACATAA
1 GGGTATTTCGGTCATTTTATCACATAA
* **
40057450 GGGAAAAATC-GTCATTTTATCACATAA
1 GGG-TATTTCGGTCATTTTATCACATAA
40057477 GG
1 GG
40057479 TTTCAGGTAT
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
27 46 0.92
28 4 0.08
ACGTcount: A:0.28, C:0.14, G:0.20, T:0.37
Consensus pattern (27 bp):
GGGTATTTCGGTCATTTTATCACATAA
Found at i:40059846 original size:12 final size:12
Alignment explanation
Indices: 40059831--40059855 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
40059821 GATTGTGGAC
40059831 TAAATTGCAAAA
1 TAAATTGCAAAA
40059843 TAAATTGCAAAA
1 TAAATTGCAAAA
40059855 T
1 T
40059856 CTTTGTATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.08, G:0.08, T:0.28
Consensus pattern (12 bp):
TAAATTGCAAAA
Found at i:40060200 original size:46 final size:46
Alignment explanation
Indices: 40060150--40060325 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
40060140 TGGTTGAGCA
40060150 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
40060196 TCCGAACTCGTTGAGTTGAGTCCGAATT--C-T-TGAGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCGAA-T--G
*
40060241 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
40060289 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
40060326 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 8, Indels: 22
0.79 0.06 0.16
Matches are distributed among these distances:
42 4 0.04
43 6 0.05
44 1 0.01
45 1 0.01
46 61 0.55
47 27 0.24
48 1 0.01
49 1 0.01
50 5 0.05
51 4 0.04
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:40065289 original size:30 final size:31
Alignment explanation
Indices: 40065218--40065296 Score: 83
Period size: 30 Copynumber: 2.6 Consensus size: 31
40065208 CTTTTGTTTC
* *
40065218 AATTTCTTTTTCATCTTCTTTTTCACTCTCA
1 AATTTCTTTTTCATCTTCTGTTTCAATCTCA
*
40065249 AATTTC-TTTTCGT-TCTCTGTTTCAATCTC-
1 AATTTCTTTTTCATCT-TCTGTTTCAATCTCA
* *
40065278 ATTTTCTTTTTCATTTTCT
1 AATTTCTTTTTCATCTTCT
40065297 TTTTTCTTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
29 6 0.15
30 27 0.68
31 7 0.17
ACGTcount: A:0.14, C:0.23, G:0.03, T:0.61
Consensus pattern (31 bp):
AATTTCTTTTTCATCTTCTGTTTCAATCTCA
Found at i:40065307 original size:12 final size:12
Alignment explanation
Indices: 40065276--40065300 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
40065266 TGTTTCAATC
40065276 TCATTTTCTTTT
1 TCATTTTCTTTT
40065288 TCATTTTCTTTT
1 TCATTTTCTTTT
40065300 T
1 T
40065301 TCTTTTCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (12 bp):
TCATTTTCTTTT
Found at i:40065379 original size:5 final size:5
Alignment explanation
Indices: 40065369--40065425 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
40065359 CTCTTGCCTC
*
40065369 TCTTT TCTTT T-TATT TCATTT TCTTT T-TCT TCTTT TGCTTTT TCTTT
1 TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTTT TCTTT T-C-TTT TCTTT
40065416 TCTTT TCTTT
1 TCTTT TCTTT
40065426 GTTTTCTCTT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
4 4 0.09
5 29 0.66
6 6 0.14
7 5 0.11
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.77
Consensus pattern (5 bp):
TCTTT
Done.