Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 271 of 292
Found at i:77873692 original size:17 final size:17
Alignment explanation
Indices: 77873660--77873715 Score: 62
Period size: 18 Copynumber: 3.3 Consensus size: 17
77873650 ATAATTTTTA
*
77873660 ATAAAAATATAATTAATT
1 ATAAAAATAT-TTTAATT
77873678 ATAAAAATATTTTAATT
1 ATAAAAATATTTTAATT
*
77873695 ATTAAAAA-A-TTAAATT
1 A-TAAAAATATTTTAATT
77873711 ATAAA
1 ATAAA
77873716 TTGCATTATA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
15 4 0.11
16 7 0.20
17 8 0.23
18 16 0.46
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
ATAAAAATATTTTAATT
Found at i:77874197 original size:51 final size:51
Alignment explanation
Indices: 77874133--77874248 Score: 133
Period size: 51 Copynumber: 2.3 Consensus size: 51
77874123 ATGGAAACAT
** * * *
77874133 GATATGATATTATAATCTTAGAGATCTTAGATATGATATGGAATCTTATAA
1 GATATGATATTATAAGATTACAGATCTTAGATAAGATATGGAATCTTAGAA
* * * ** *
77874184 GATATTATTTTATAAGATTACATATCTTATCTAAGATATGTAATCTTAGAA
1 GATATGATATTATAAGATTACAGATCTTAGATAAGATATGGAATCTTAGAA
77874235 GATATGATATTATA
1 GATATGATATTATA
77874249 TTTGGTAGTA
Statistics
Matches: 52, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.40, C:0.06, G:0.13, T:0.41
Consensus pattern (51 bp):
GATATGATATTATAAGATTACAGATCTTAGATAAGATATGGAATCTTAGAA
Found at i:77877001 original size:51 final size:51
Alignment explanation
Indices: 77876937--77877052 Score: 133
Period size: 51 Copynumber: 2.3 Consensus size: 51
77876927 ATGGAAACAT
** * * *
77876937 GATATGATATTATAATCTTAGAGATCTTAGATATGATATGGAATCTTATAA
1 GATATGATATTATAAGATTACAGATCTTAGATAAGATATGGAATCTTAGAA
* * * ** *
77876988 GATATTATTTTATAAGATTACATATCTTATCTAAGATATGTAATCTTAGAA
1 GATATGATATTATAAGATTACAGATCTTAGATAAGATATGGAATCTTAGAA
77877039 GATATGATATTATA
1 GATATGATATTATA
77877053 TTTGGTAGTA
Statistics
Matches: 52, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.40, C:0.06, G:0.13, T:0.41
Consensus pattern (51 bp):
GATATGATATTATAAGATTACAGATCTTAGATAAGATATGGAATCTTAGAA
Found at i:77877880 original size:94 final size:91
Alignment explanation
Indices: 77877761--77877928 Score: 275
Period size: 94 Copynumber: 1.8 Consensus size: 91
77877751 TAAGACCATT
*
77877761 AATTAAGTCATTAATTATGAAGTCAATTTGTTCAT-TCAAAGTTCATATTGTGTCCAACAACATG
1 AATTAAGTCATTAATTATGAAGTCAATTTGTTC-TCTCAAAGTTCACATTGTGT-C--CAACATG
77877825 TATTACATGGTCACCCTTGGAATAACCACC
62 TATTACATGGTCACCCTTGGAATAACCACC
*
77877855 AATTAAGTCATTAATTATGAAGTCAATTTGTTCTCTCAAAGTTCACGTTGTGTCCAACATGTATT
1 AATTAAGTCATTAATTATGAAGTCAATTTGTTCTCTCAAAGTTCACATTGTGTCCAACATGTATT
77877920 ACATGGTCA
66 ACATGGTCA
77877929 AGCAATACTA
Statistics
Matches: 71, Mismatches: 2, Indels: 5
0.91 0.03 0.06
Matches are distributed among these distances:
91 20 0.28
93 2 0.03
94 49 0.69
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.36
Consensus pattern (91 bp):
AATTAAGTCATTAATTATGAAGTCAATTTGTTCTCTCAAAGTTCACATTGTGTCCAACATGTATT
ACATGGTCACCCTTGGAATAACCACC
Found at i:77878265 original size:21 final size:21
Alignment explanation
Indices: 77878239--77878278 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
77878229 AAACGTGACA
77878239 AGTTAACTGACCACATCAGTT
1 AGTTAACTGACCACATCAGTT
* *
77878260 AGTTAACTGGCCACGTCAG
1 AGTTAACTGACCACATCAG
77878279 CGGTCCCATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (21 bp):
AGTTAACTGACCACATCAGTT
Found at i:77879746 original size:13 final size:14
Alignment explanation
Indices: 77879730--77879765 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
77879720 CAATCTCATA
77879730 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
77879743 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
77879756 TCTC-ATTTCA
1 TCTCAATTTCA
77879766 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:77879755 original size:18 final size:19
Alignment explanation
Indices: 77879717--77879757 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
77879707 TGGTTCATGT
77879717 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
77879736 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
77879754 TTTC
1 TTTC
77879758 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:77879947 original size:39 final size:38
Alignment explanation
Indices: 77879880--77880014 Score: 101
Period size: 39 Copynumber: 3.4 Consensus size: 38
77879870 ACCAATATGG
* * *
77879880 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATATTTGA
1 CACCCAGTGCCTCATCGGCTAG-CCGAAGAAATATTTGA
* * * *
77879919 CACCCAGTGTCTCATCGGCCTAGCCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-CTAGCCGAAGAAATATTTGA
* * * * *
77879957 TACCCAGTACCTCATCGAATCTATCCGAAGAAATATAGTGA
1 CACCCAGTGCCTCATCG--GCTAGCCGAAGAAATAT-TTGA
*
77879998 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
77880015 ACTCGAGGTC
Statistics
Matches: 73, Mismatches: 18, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGCTAGCCGAAGAAATATTTGA
Found at i:77880280 original size:18 final size:18
Alignment explanation
Indices: 77880254--77880341 Score: 61
Period size: 18 Copynumber: 4.6 Consensus size: 18
77880244 TTTCAATTCA
77880254 ATTCAAATAATCAATATAT
1 ATTC-AATAATCAATATAT
*
77880273 ATTCAATATTCAATATAT
1 ATTCAATAATCAATATAT
*
77880291 ATATCTATATAT-ATATATAT
1 AT-TCAATA-ATCA-ATATAT
** *
77880311 ACGCCAATTCAATCAATATAA
1 A-TTCAA-T-AATCAATATAT
77880332 ATTCAATAAT
1 ATTCAATAAT
77880342 TTCATCACAT
Statistics
Matches: 53, Mismatches: 9, Indels: 15
0.69 0.12 0.19
Matches are distributed among these distances:
18 18 0.34
19 11 0.21
20 13 0.25
21 9 0.17
22 2 0.04
ACGTcount: A:0.48, C:0.12, G:0.01, T:0.39
Consensus pattern (18 bp):
ATTCAATAATCAATATAT
Found at i:77884309 original size:21 final size:21
Alignment explanation
Indices: 77884283--77884330 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
77884273 TCAACTTAGA
*
77884283 GCGGAGGCAGCAGCGCGGGAG
1 GCGGAGGCAGCAGCGAGGGAG
77884304 GCGGAGGCAGCAGCGAGGGAG
1 GCGGAGGCAGCAGCGAGGGAG
77884325 GCGGAG
1 GCGGAG
77884331 CAGAATAGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.21, C:0.21, G:0.58, T:0.00
Consensus pattern (21 bp):
GCGGAGGCAGCAGCGAGGGAG
Found at i:77884711 original size:43 final size:44
Alignment explanation
Indices: 77884624--77884720 Score: 126
Period size: 43 Copynumber: 2.2 Consensus size: 44
77884614 ACTAGGCAAA
* * * **
77884624 TTAGTGGCG-TTTTTTATAAAAGCGCCGCTAAAGGTCCCGGTCT
1 TTAGCGGCGTTTTTTTATAAAAGCGCCGCTAAAAGTCACAATCT
*
77884667 TTAGCGGCGTTTTTTTA-AAAAGCGCCGCTAAAAGTCATAATCT
1 TTAGCGGCGTTTTTTTATAAAAGCGCCGCTAAAAGTCACAATCT
77884710 TTAGCGGCGTT
1 TTAGCGGCGTT
77884721 CCGCTAAAGC
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
43 40 0.85
44 7 0.15
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.33
Consensus pattern (44 bp):
TTAGCGGCGTTTTTTTATAAAAGCGCCGCTAAAAGTCACAATCT
Found at i:77885083 original size:19 final size:19
Alignment explanation
Indices: 77885052--77885101 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
77885042 AATCTGTTTG
77885052 TAAAATCTA-ATTTAAATA-
1 TAAAATC-ACATTTAAATAC
77885070 TATAAATCACATTTTAAATAC
1 TA-AAATCACA-TTTAAATAC
77885091 TAAAATCACAT
1 TAAAATCACAT
77885102 ATAGGCATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
18 3 0.11
19 7 0.25
20 16 0.57
21 2 0.07
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (19 bp):
TAAAATCACATTTAAATAC
Found at i:77885085 original size:20 final size:20
Alignment explanation
Indices: 77885062--77885101 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
77885052 TAAAATCTAA
77885062 TTTAAATA-TATAAATCACAT
1 TTTAAATACTA-AAATCACAT
77885082 TTTAAATACTAAAATCACAT
1 TTTAAATACTAAAATCACAT
77885102 ATAGGCATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 17 0.89
21 2 0.11
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (20 bp):
TTTAAATACTAAAATCACAT
Found at i:77885787 original size:16 final size:18
Alignment explanation
Indices: 77885766--77885798 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
77885756 ATATAAATTT
77885766 AAAAA-TTAAAA-AAAAC
1 AAAAATTTAAAAGAAAAC
77885782 AAAAATTTAAAAGAAAA
1 AAAAATTTAAAAGAAAA
77885799 ATTAAAATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 6 0.40
18 4 0.27
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.15
Consensus pattern (18 bp):
AAAAATTTAAAAGAAAAC
Found at i:77888725 original size:23 final size:23
Alignment explanation
Indices: 77888679--77888721 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
77888669 ATCATAATTT
*
77888679 AAAATATATCTTATAAATAAATA
1 AAAATATATCTTAAAAATAAATA
*
77888702 AAAATAT-TTTTAAAAATAAA
1 AAAATATATCTTAAAAATAAA
77888722 ATAATTATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (23 bp):
AAAATATATCTTAAAAATAAATA
Found at i:77888739 original size:17 final size:17
Alignment explanation
Indices: 77888695--77888740 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
77888685 TATCTTATAA
*
77888695 ATAAAT-AAAAATATTT
1 ATAAATAAAAAATAATT
*
77888711 TTAAA-AATAAAATAATT
1 ATAAATAA-AAAATAATT
77888728 ATAAATAAAAAAT
1 ATAAATAAAAAAT
77888741 GTTAAAAGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
16 5 0.21
17 17 0.71
18 2 0.08
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
ATAAATAAAAAATAATT
Found at i:77890419 original size:5 final size:6
Alignment explanation
Indices: 77890403--77890427 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
77890393 ATGATTGAAA
77890403 ATTTTT ATTTTT ATTTTT ATTTTT A
1 ATTTTT ATTTTT ATTTTT ATTTTT A
77890428 ATATTTAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (6 bp):
ATTTTT
Found at i:77890434 original size:7 final size:7
Alignment explanation
Indices: 77890424--77890461 Score: 76
Period size: 7 Copynumber: 5.4 Consensus size: 7
77890414 TATTTTTATT
77890424 TTTAATA
1 TTTAATA
77890431 TTTAATA
1 TTTAATA
77890438 TTTAATA
1 TTTAATA
77890445 TTTAATA
1 TTTAATA
77890452 TTTAATA
1 TTTAATA
77890459 TTT
1 TTT
77890462 TAAATAAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (7 bp):
TTTAATA
Found at i:77894790 original size:3 final size:3
Alignment explanation
Indices: 77894782--77894833 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
77894772 TTGAAACTTA
77894782 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
77894830 AAT A
1 AAT A
77894834 GGAATTACAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:77903802 original size:121 final size:120
Alignment explanation
Indices: 77903664--77903907 Score: 443
Period size: 121 Copynumber: 2.0 Consensus size: 120
77903654 GCACCAATGT
77903664 CTTCAAACTATGACTCGGATTCTAAATCGATCCCTAAACTTTATAATGTTCTAATTAAGTCTTCA
1 CTTCAAACTATGACTCGGATTCTAAATCGATCCCTAAACTTTATAATGTTCTAATTAAGTCTTCA
* *
77903729 AAGAATCAAATATTCTATAAACCAAATCCTTCCATTAGCTTAACATCAACTTTGAC
66 AAGAATC-AATATTCTATAAACCAAATCCTTCCATTAGCCTAACATCAACTCTGAC
77903785 CTTCAAACTATGACTCGGATTCTAAATCGATCCCTAAACTTTATAATGTTCTAATTAAGTCTTCA
1 CTTCAAACTATGACTCGGATTCTAAATCGATCCCTAAACTTTATAATGTTCTAATTAAGTCTTCA
* *
77903850 AAGTATCAATATTTTATAAACCAAATCCTTCCATTAGCCTAACATCAACTCTGAC
66 AAGAATCAATATTCTATAAACCAAATCCTTCCATTAGCCTAACATCAACTCTGAC
77903905 CTT
1 CTT
77903908 AAATGCTAGT
Statistics
Matches: 119, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
120 48 0.40
121 71 0.60
ACGTcount: A:0.35, C:0.23, G:0.07, T:0.34
Consensus pattern (120 bp):
CTTCAAACTATGACTCGGATTCTAAATCGATCCCTAAACTTTATAATGTTCTAATTAAGTCTTCA
AAGAATCAATATTCTATAAACCAAATCCTTCCATTAGCCTAACATCAACTCTGAC
Found at i:77904027 original size:22 final size:21
Alignment explanation
Indices: 77903995--77904070 Score: 64
Period size: 21 Copynumber: 3.4 Consensus size: 21
77903985 CACATTTTTA
*
77903995 TAATTTATAAAATTTTAAAAT
1 TAATTTTTAAAATTTTAAAAT
*
77904016 TAATCTTTTAAAAATTATAAAAAT
1 TAAT-TTTT-AAAATT-TTAAAAT
* *
77904040 AAATTATTT-AAATTGTAAAAT
1 TAATT-TTTAAAATTTTAAAAT
77904061 TATATTTTTA
1 TA-ATTTTTA
77904071 TTATCGTAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
21 13 0.30
22 11 0.26
23 7 0.16
24 12 0.28
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (21 bp):
TAATTTTTAAAATTTTAAAAT
Found at i:77904049 original size:24 final size:24
Alignment explanation
Indices: 77903997--77904051 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
77903987 CATTTTTATA
* *
77903997 ATTTATAAAATTTTAAAATTAATCT
1 ATTTA-AAAATTTAAAAATAAATCT
77904022 -TTTAAAAATTATAAAAATAAAT-T
1 ATTTAAAAATT-TAAAAATAAATCT
77904045 ATTTAAA
1 ATTTAAA
77904052 TTGTAAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 7 0.27
24 19 0.73
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (24 bp):
ATTTAAAAATTTAAAAATAAATCT
Found at i:77909393 original size:15 final size:16
Alignment explanation
Indices: 77909366--77909408 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
77909356 TCAAAAAAAG
77909366 ATATTTTTAATACAAC
1 ATATTTTTAATACAAC
*
77909382 ATATTTTT-ATACAAA
1 ATATTTTTAATACAAC
77909397 AT-TTGTTTAATA
1 ATATT-TTTAATA
77909409 TCAATTTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 2 0.08
15 11 0.46
16 11 0.46
ACGTcount: A:0.42, C:0.07, G:0.02, T:0.49
Consensus pattern (16 bp):
ATATTTTTAATACAAC
Found at i:77923975 original size:2 final size:2
Alignment explanation
Indices: 77923968--77924004 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
77923958 TAGATTAATT
77923968 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
77924005 GGTGATACGC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:77938762 original size:28 final size:27
Alignment explanation
Indices: 77938724--77938799 Score: 73
Period size: 28 Copynumber: 2.7 Consensus size: 27
77938714 CTTTCTTCCT
77938724 AAATTCTTAATCTTCAATTTTCAAT-CCC
1 AAATT-TTAAT-TTCAATTTTCAATACCC
* * *
77938752 CAATTTCTAATTTTATATTTTCAATATCC
1 AAATTT-TAATTTCA-ATTTTCAATACCC
77938781 AAATTTTAATTTTCAATTT
1 AAATTTTAA-TTTCAATTT
77938800 CAAACTTTCA
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
27 4 0.10
28 24 0.62
29 11 0.28
ACGTcount: A:0.33, C:0.17, G:0.00, T:0.50
Consensus pattern (27 bp):
AAATTTTAATTTCAATTTTCAATACCC
Found at i:77938776 original size:21 final size:20
Alignment explanation
Indices: 77938752--77938803 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 20
77938742 TTTCAATCCC
*
77938752 CAATTTCTAATTTTATATTTT
1 CAATTTCAAATTTTA-ATTTT
*
77938773 CAATATCCAAATTTTAATTTT
1 CAAT-TTCAAATTTTAATTTT
77938794 CAATTTCAAA
1 CAATTTCAAA
77938804 CTTTCAATCC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.19
21 13 0.48
22 9 0.33
ACGTcount: A:0.37, C:0.13, G:0.00, T:0.50
Consensus pattern (20 bp):
CAATTTCAAATTTTAATTTT
Found at i:77938863 original size:15 final size:16
Alignment explanation
Indices: 77938838--77938867 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
77938828 AAATATTTTT
77938838 TTTGAATTTTATTCTC
1 TTTGAATTTTATTCTC
77938854 TTTG-ATTTTATTCT
1 TTTGAATTTTATTCT
77938868 TTTCTTATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.17, C:0.10, G:0.07, T:0.67
Consensus pattern (16 bp):
TTTGAATTTTATTCTC
Found at i:77940632 original size:7 final size:7
Alignment explanation
Indices: 77940620--77940653 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
77940610 GGCATCATCA
77940620 CCTTATC
1 CCTTATC
77940627 CCTTATC
1 CCTTATC
77940634 CCTTATC
1 CCTTATC
77940641 CCTTATC
1 CCTTATC
77940648 CCTTAT
1 CCTTAT
77940654 AGGGAACATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.15, C:0.41, G:0.00, T:0.44
Consensus pattern (7 bp):
CCTTATC
Found at i:77940942 original size:20 final size:20
Alignment explanation
Indices: 77940905--77941020 Score: 92
Period size: 20 Copynumber: 5.8 Consensus size: 20
77940895 TATATAACAG
77940905 TTTACCAAAACTTT-TAAGGA
1 TTTACCAAAA-TTTCTAAGGA
* * *
77940925 TTTATCAAAATATCTAAGAA
1 TTTACCAAAATTTCTAAGGA
** *
77940945 TTTACCAAAATTTCTATTGT
1 TTTACCAAAATTTCTAAGGA
* * *
77940965 TTTACCAATATATCTAA-TA
1 TTTACCAAAATTTCTAAGGA
* * *
77940984 GTTTATCAAATTTTCTAAAGA
1 -TTTACCAAAATTTCTAAGGA
77941005 TTTACCAAAATTTCTA
1 TTTACCAAAATTTCTA
77941021 TCCTTTTGCC
Statistics
Matches: 72, Mismatches: 21, Indels: 6
0.73 0.21 0.06
Matches are distributed among these distances:
19 2 0.03
20 69 0.96
21 1 0.01
ACGTcount: A:0.40, C:0.14, G:0.05, T:0.41
Consensus pattern (20 bp):
TTTACCAAAATTTCTAAGGA
Found at i:77940978 original size:40 final size:40
Alignment explanation
Indices: 77940925--77941020 Score: 102
Period size: 40 Copynumber: 2.4 Consensus size: 40
77940915 CTTTTAAGGA
*
77940925 TTTATCAAAATATCTAAGAATTTACCAAAATTTCTATTGT
1 TTTACCAAAATATCTAAGAATTTACCAAAATTTCTATTGT
* * * * * ** *
77940965 TTTACCAATATATCTAATAGTTTATCAAATTTTCTAAAGA
1 TTTACCAAAATATCTAAGAATTTACCAAAATTTCTATTGT
*
77941005 TTTACCAAAATTTCTA
1 TTTACCAAAATATCTA
77941021 TCCTTTTGCC
Statistics
Matches: 45, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.40, C:0.14, G:0.04, T:0.43
Consensus pattern (40 bp):
TTTACCAAAATATCTAAGAATTTACCAAAATTTCTATTGT
Found at i:77941059 original size:60 final size:61
Alignment explanation
Indices: 77940925--77941062 Score: 156
Period size: 60 Copynumber: 2.3 Consensus size: 61
77940915 CTTTTAAGGA
* ** * *
77940925 TTTATCAAAATATCT-AAGAATTTACCAAAATTTCTATTGTTTTACCAATATATCTAATAG
1 TTTATCAAAATTTCTAAAGAATTTACCAAAATTTCTATCCTTTTACCAATATATCTAAGAC
* * * *
77940985 TTTATCAAATTTTCTAAAG-ATTTACCAAAATTTCTATCCTTTTGCCAATACT-TTTGAGAC
1 TTTATCAAAATTTCTAAAGAATTTACCAAAATTTCTATCCTTTTACCAATA-TATCTAAGAC
*
77941045 TTTACCAAAATTTCTAAA
1 TTTATCAAAATTTCTAAA
77941063 CCTTATACCA
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
60 61 0.94
61 4 0.06
ACGTcount: A:0.37, C:0.16, G:0.05, T:0.42
Consensus pattern (61 bp):
TTTATCAAAATTTCTAAAGAATTTACCAAAATTTCTATCCTTTTACCAATATATCTAAGAC
Found at i:77941126 original size:20 final size:20
Alignment explanation
Indices: 77941103--77941140 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
77941093 TTTCTATAAT
77941103 TTTACCAAAATATCTAACAA
1 TTTACCAAAATATCTAACAA
* *
77941123 TTTACCAATATATTTAAC
1 TTTACCAAAATATCTAAC
77941141 GATTCTAAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.18, G:0.00, T:0.37
Consensus pattern (20 bp):
TTTACCAAAATATCTAACAA
Found at i:77941302 original size:20 final size:19
Alignment explanation
Indices: 77941253--77941321 Score: 59
Period size: 20 Copynumber: 3.5 Consensus size: 19
77941243 AGACCAAGTC
77941253 CTAACAA-TTACCAAAATT
1 CTAACAATTTACCAAAATT
** *
77941271 CCTATGAGTTTACCAAAATAT
1 -CTAACAATTTACCAAAAT-T
*
77941292 CTAACAATTTACCAAATTTT
1 CTAACAATTTACCAAA-ATT
*
77941312 CTATCAATTT
1 CTAACAATTT
77941322 TATTAATATT
Statistics
Matches: 39, Mismatches: 8, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
19 4 0.10
20 33 0.85
21 2 0.05
ACGTcount: A:0.41, C:0.20, G:0.03, T:0.36
Consensus pattern (19 bp):
CTAACAATTTACCAAAATT
Found at i:77941455 original size:20 final size:19
Alignment explanation
Indices: 77941420--77941465 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
77941410 TTTTTAAAGT
77941420 TTTACC-AAACATCTAACAA
1 TTTACCAAAACATCTAAC-A
*
77941439 TTTACCAAAATATCTAACA
1 TTTACCAAAACATCTAACA
77941458 TTTACCAA
1 TTTACCAA
77941466 TATTTATGAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (19 bp):
TTTACCAAAACATCTAACA
Found at i:77941789 original size:20 final size:20
Alignment explanation
Indices: 77941764--77941951 Score: 157
Period size: 20 Copynumber: 9.3 Consensus size: 20
77941754 TTTCTGACTG
**
77941764 TACCAAAATTTCTAACAATT
1 TACCAAAATTTCTATGAATT
* * *
77941784 TACCAAAACTTCTCTGAGTT
1 TACCAAAATTTCTATGAATT
*
77941804 TACCAATATTTCTAAT-AACTT
1 TACCAAAATTTCT-ATGAA-TT
* *
77941825 TACCAAAATTTATGTGAATT
1 TACCAAAATTTCTATGAATT
* *
77941845 TACCAATATTTCTATCAATT
1 TACCAAAATTTCTATGAATT
* *
77941865 TACCAAAACTTCTATGAGTT
1 TACCAAAATTTCTATGAATT
*
77941885 TACCAATATTTCTAAT-AACTT
1 TACCAAAATTTCT-ATGAA-TT
**
77941906 TACCAAAA-TTAAAGTGAATT
1 TACCAAAATTTCTA-TGAATT
* *
77941926 TACCAATATTTCTATCAATT
1 TACCAAAATTTCTATGAATT
77941946 TACCAA
1 TACCAA
77941952 TTTTTATATG
Statistics
Matches: 130, Mismatches: 30, Indels: 16
0.74 0.17 0.09
Matches are distributed among these distances:
19 1 0.01
20 97 0.75
21 32 0.25
ACGTcount: A:0.39, C:0.19, G:0.04, T:0.38
Consensus pattern (20 bp):
TACCAAAATTTCTATGAATT
Found at i:77941834 original size:61 final size:58
Alignment explanation
Indices: 77941764--77941951 Score: 169
Period size: 61 Copynumber: 3.1 Consensus size: 58
77941754 TTTCTGACTG
* *
77941764 TACCAAAATTTCTAACAATTTACCAAAACTTCTCTGAGTTTACCAATATTTCTAATAACTT
1 TACCAAAATTTCTAACAATTTACCAAAA-TTCTATGAATTTACCAATATTTCT-ATAA-TT
* *** * * * * *
77941825 TACCAAAATTTATGTGAATTTACCAATATTTCTATCAATTTACCAAAACTTCTATGAGTT
1 TACCAAAATTTCTAACAATTTACCAA-AATTCTATGAATTTACCAATATTTCTAT-AATT
* * **
77941885 TACCAATATTTCTAATAACTTTACCAAAATTAAAGTGAATTTACCAATATTTCTATCAATT
1 TACCAAAATTTCTAACAA-TTTACCAAAATTCTA-TGAATTTACCAATATTTCTAT-AATT
77941946 TACCAA
1 TACCAA
77941952 TTTTTATATG
Statistics
Matches: 99, Mismatches: 24, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
60 21 0.21
61 77 0.78
62 1 0.01
ACGTcount: A:0.39, C:0.19, G:0.04, T:0.38
Consensus pattern (58 bp):
TACCAAAATTTCTAACAATTTACCAAAATTCTATGAATTTACCAATATTTCTATAATT
Found at i:77941857 original size:81 final size:81
Alignment explanation
Indices: 77941764--77941951 Score: 331
Period size: 81 Copynumber: 2.3 Consensus size: 81
77941754 TTTCTGACTG
* * *
77941764 TACCAAAATTTCTAACAATTTACCAAAACTTCTCTGAGTTTACCAATATTTCTAATAACTTTACC
1 TACCAATATTTCTATCAATTTACCAAAACTTCTATGAGTTTACCAATATTTCTAATAACTTTACC
* *
77941829 AAAATTTATGTGAATT
66 AAAATTAAAGTGAATT
77941845 TACCAATATTTCTATCAATTTACCAAAACTTCTATGAGTTTACCAATATTTCTAATAACTTTACC
1 TACCAATATTTCTATCAATTTACCAAAACTTCTATGAGTTTACCAATATTTCTAATAACTTTACC
77941910 AAAATTAAAGTGAATT
66 AAAATTAAAGTGAATT
77941926 TACCAATATTTCTATCAATTTACCAA
1 TACCAATATTTCTATCAATTTACCAA
77941952 TTTTTATATG
Statistics
Matches: 102, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
81 102 1.00
ACGTcount: A:0.39, C:0.19, G:0.04, T:0.38
Consensus pattern (81 bp):
TACCAATATTTCTATCAATTTACCAAAACTTCTATGAGTTTACCAATATTTCTAATAACTTTACC
AAAATTAAAGTGAATT
Found at i:77962138 original size:21 final size:23
Alignment explanation
Indices: 77962099--77962143 Score: 67
Period size: 21 Copynumber: 2.0 Consensus size: 23
77962089 ACATGCATAT
77962099 ATATATAAATAACAGTATTAGAA
1 ATATATAAATAACAGTATTAGAA
*
77962122 ATATAT-AATATCA-TATTAGAA
1 ATATATAAATAACAGTATTAGAA
77962143 A
1 A
77962144 CACACATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 9 0.43
22 6 0.29
23 6 0.29
ACGTcount: A:0.56, C:0.04, G:0.07, T:0.33
Consensus pattern (23 bp):
ATATATAAATAACAGTATTAGAA
Found at i:77962388 original size:13 final size:14
Alignment explanation
Indices: 77962370--77962400 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
77962360 ATGTATGAAT
77962370 ATATACATATA-TA
1 ATATACATATATTA
77962383 ATATACATATATTA
1 ATATACATATATTA
77962397 ATAT
1 ATAT
77962401 TGATAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (14 bp):
ATATACATATATTA
Found at i:77962479 original size:22 final size:22
Alignment explanation
Indices: 77962436--77962483 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
77962426 AACAACCATT
77962436 AATAATAATAATACTTAAAAAA
1 AATAATAATAATACTTAAAAAA
*
77962458 AATAATTAAT-ATA-TTAATAAA
1 AATAA-TAATAATACTTAAAAAA
77962479 AATAA
1 AATAA
77962484 CAGTAACAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 12 0.50
22 8 0.33
23 4 0.17
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (22 bp):
AATAATAATAATACTTAAAAAA
Found at i:77963559 original size:23 final size:23
Alignment explanation
Indices: 77963511--77963583 Score: 103
Period size: 23 Copynumber: 3.2 Consensus size: 23
77963501 TACGAGGACT
* * *
77963511 GTGGCGGTAT-GGGATTGTTGTG
1 GTGGGGGTATGGGGCTTGTTGTA
*
77963533 GTGGGGGTATGGGGCTTGTGGTA
1 GTGGGGGTATGGGGCTTGTTGTA
77963556 GTGGGGGTATGGGGCTTGTTGTA
1 GTGGGGGTATGGGGCTTGTTGTA
77963579 GTGGG
1 GTGGG
77963584 TCAGTTTGTA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
22 9 0.20
23 36 0.80
ACGTcount: A:0.08, C:0.04, G:0.55, T:0.33
Consensus pattern (23 bp):
GTGGGGGTATGGGGCTTGTTGTA
Found at i:77963592 original size:15 final size:15
Alignment explanation
Indices: 77963574--77963622 Score: 80
Period size: 15 Copynumber: 3.3 Consensus size: 15
77963564 ATGGGGCTTG
*
77963574 TTGTAGTGGGTCAGT
1 TTGTAATGGGTCAGT
77963589 TTGTAATGGGTCAGT
1 TTGTAATGGGTCAGT
*
77963604 TAGTAATGGGTCAGT
1 TTGTAATGGGTCAGT
77963619 TTGT
1 TTGT
77963623 TTTAAGTGGG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.18, C:0.06, G:0.35, T:0.41
Consensus pattern (15 bp):
TTGTAATGGGTCAGT
Found at i:77964454 original size:13 final size:13
Alignment explanation
Indices: 77964421--77964454 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
77964411 ATACGAGTTG
77964421 ATTAAAAACAGAA
1 ATTAAAAACAGAA
* *
77964434 ATTGAAAATAGAA
1 ATTAAAAACAGAA
77964447 ATTAAAAA
1 ATTAAAAA
77964455 GACTCAACTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.68, C:0.03, G:0.09, T:0.21
Consensus pattern (13 bp):
ATTAAAAACAGAA
Found at i:77964689 original size:71 final size:71
Alignment explanation
Indices: 77964457--77964852 Score: 456
Period size: 71 Copynumber: 5.5 Consensus size: 71
77964447 ATTAAAAAGA
* * * * *
77964457 CTCAACTCATCTCTCGCAATATGAATTGAATTTTGAAA-ATAGAATTTGAAAATACCTTAGCGTG
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACATA-AA-TTGAAATTACCTCAGCGTG
* *
77964521 ACGC-AAGG
64 -CCCTGAGG
* *
77964529 CTCAACTCACCTCTCGCAATATGAGTTGATTTTAGATTTA-ATAGGAATTGAAATTACCTCAGCG
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA--AACATA--AATTGAAATTACCTCAGCG
*
77964593 TGCCCCGAGG
62 TGCCCTGAGG
* * * * *
77964603 TTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACATGTC
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAGCGTGCC
*
77964668 TTGAGG
66 CTGAGG
* * * *
77964674 CTCAACTCACCTCTCGCAATGTGAGCTGATTTTCTTGGAAAGCAGAAATTGAAAATACCTCAGCG
1 CTCAACTCACCTCTCGCAATATGAGTTGA-TTT-TT-GAAA-CATAAATTGAAATTACCTCAGCG
77964739 TGCCCTGAGG
62 TGCCCTGAGG
* *
77964749 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTC
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAGCGTGCC
*
77964814 TTGAGG
66 CTGAGG
*
77964820 CTCAACTCACCTCTCGCAATATGAGCTGATTTT
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTT
77964853 CTTGGAAAAC
Statistics
Matches: 279, Mismatches: 36, Indels: 19
0.84 0.11 0.06
Matches are distributed among these distances:
71 109 0.39
72 40 0.14
73 9 0.03
74 64 0.23
75 57 0.20
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.31
Consensus pattern (71 bp):
CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAGCGTGCC
CTGAGG
Found at i:77964737 original size:146 final size:143
Alignment explanation
Indices: 77964457--77964860 Score: 544
Period size: 146 Copynumber: 2.8 Consensus size: 143
77964447 ATTAAAAAGA
* * * * *
77964457 CTCAACTCA-TCTCTCGCAATATGAATTGAATTTTGAAA-ATAGAATTTGAAAATACCTTAGCGT
1 CTCAACTCACT-TCTCGCAATATGAGTTGATTTTTGAAACATA-AA-TTGAAATTACCTCAACGT
* *** * * * *
77964520 GACGCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAGATT-TAATAGGAATTGAAATT
63 GTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT--CTTGGAA-AGGAATTGAAAAT
77964584 ACCTCAGCGTGCCCCGAGG
125 ACCTCAGCGTGCCCCGAGG
* *
77964603 TTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACATGTC
1 CTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTC
*
77964668 TTGAGGCTCAACTCACCTCTCGCAATGTGAGCTGATTTTCTTGGAAAGCAGAAATTGAAAATACC
66 TTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTCTTGGAAAG--G-AATTGAAAATACC
*
77964733 TCAGCGTGCCCTGAGG
128 TCAGCGTGCCCCGAGG
*
77964749 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTC
1 CTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTC
77964814 TTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTCTTGGAAA
66 TTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTCTTGGAAA
77964861 ACATGAATTA
Statistics
Matches: 231, Mismatches: 21, Indels: 12
0.88 0.08 0.05
Matches are distributed among these distances:
143 4 0.02
144 2 0.01
145 51 0.22
146 170 0.74
147 4 0.02
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (143 bp):
CTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTC
TTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTCTTGGAAAGGAATTGAAAATACCTCA
GCGTGCCCCGAGG
Found at i:77965764 original size:1 final size:1
Alignment explanation
Indices: 77965758--77965783 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
77965748 CCCTTCCTCC
77965758 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
77965784 AGATGCCCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:77987205 original size:14 final size:13
Alignment explanation
Indices: 77987183--77987227 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
77987173 CGCCGAGGTA
77987183 TTTTTAATTTCTG
1 TTTTTAATTTCTG
77987196 TTTTTCAATTTCTG
1 TTTTT-AATTTCTG
* *
77987210 CTTTTAATTTCTA
1 TTTTTAATTTCTG
77987223 TTTTT
1 TTTTT
77987228 CAAAAATCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
13 16 0.57
14 12 0.43
ACGTcount: A:0.16, C:0.11, G:0.04, T:0.69
Consensus pattern (13 bp):
TTTTTAATTTCTG
Found at i:77987218 original size:13 final size:13
Alignment explanation
Indices: 77987184--77987221 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
77987174 GCCGAGGTAT
*
77987184 TTTTAATTTCTGT
1 TTTTAATTTCTGC
77987197 TTTTCAATTTCTGC
1 TTTT-AATTTCTGC
77987211 TTTTAATTTCT
1 TTTTAATTTCT
77987222 ATTTTTCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.16, C:0.13, G:0.05, T:0.66
Consensus pattern (13 bp):
TTTTAATTTCTGC
Found at i:77987292 original size:100 final size:98
Alignment explanation
Indices: 77987115--77987490 Score: 409
Period size: 100 Copynumber: 3.9 Consensus size: 98
77987105 CCGTTTTTCC
* * * * * * *
77987115 AATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGATGAGCTGAGCCTCGGGCCACGCCGAG
1 AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
*
77987180 GTATTTTTAATTTCTGTTTTTCAATTTCTGCTTTT
66 GTATTTTCAATTTCT-TTTTTCAATTT-TGCTTTT
* * *
77987215 AATTTCTATTTTTCAAAAATCAACACATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAG
1 AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
**
77987280 GTATTTTCAATTTCTATTTTTCAATTTTTGCCTTAC
66 GTATTTTCAATTTCT-TTTTTCAA-TTTTG-CTTTT
* *
77987316 AAATTCTGCTTTTC--AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
1 AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
77987379 GTATTTTCAA------TTTTC-A-TTT--TTTT
66 GTATTTTCAATTTCTTTTTTCAATTTTGCTTTT
* ** * *
77987402 AATTTATGTTTCTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCATGACACGCTGA
1 AATTTCTGTTT-TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
*
77987467 GGTAATTTCAATTT-TTTTTGTCAA
65 GGTATTTTCAATTTCTTTTT-TCAA
77987491 AAATCAACTC
Statistics
Matches: 236, Mismatches: 28, Indels: 28
0.81 0.10 0.10
Matches are distributed among these distances:
86 10 0.04
87 1 0.00
89 59 0.25
91 1 0.00
92 5 0.02
94 3 0.01
95 2 0.01
96 1 0.00
99 57 0.24
100 80 0.34
101 17 0.07
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (98 bp):
AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
GTATTTTCAATTTCTTTTTTCAATTTTGCTTTT
Found at i:77987591 original size:146 final size:146
Alignment explanation
Indices: 77987397--77987825 Score: 562
Period size: 146 Copynumber: 2.9 Consensus size: 146
77987387 AATTTTCATT
* * *
77987397 TTTTTAATTTATGTTTCTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCATGACAC
1 TTTTCAATTTATGTTTCTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC
* * * *
77987462 GCTGAGGTAATTTCAATTT-TTTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
66 GTTGAGGTATTTTCAATTTCTTTTT-TCAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCT
*
77987526 CAAGACACGTTGAGATA
130 CAAGACACGCTGAGATA
* * * *
77987543 TTTTCAATTTCTGTCTT-TAAAAAAATCAGCTCATATTGCAAGAGGTGAGTTGAACCTCAAGACA
1 TTTTCAATTTATGT-TTCTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
*
77987607 CGTTGAGGTATTTTCAATTTCTTTTTTCAAAAAAATCAGCTCATATTGCGATAGGTGAGTTGAAC
65 CGTTGAGGTATTTTCAATTTCTTTTTTC--AAAAATCAGCTCATATTGCGAGAGGTGAGTTGAAC
*
77987672 CTCAAG--ACGCTGAGGTA
128 CTCAAGACACGCTGAGATA
* * * * *
77987689 ATTTCAATTTTTGTTTGT-CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAAGACAC
1 TTTTCAATTTATGTTTCTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC
** *
77987753 GTTGAGGTATTTTCAATTTCTGTCTTTAAAAAAAATCAGCTCATATTGCGAGAGGTAAGTTGAAC
66 GTTGAGGTATTTTCAATTTCT-T-TTT-TCAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAAC
77987818 CTCAAGAC
128 CTCAAGAC
77987826 GCTGAGGTGT
Statistics
Matches: 248, Mismatches: 25, Indels: 18
0.85 0.09 0.06
Matches are distributed among these distances:
145 64 0.26
146 136 0.55
147 10 0.04
148 38 0.15
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.34
Consensus pattern (146 bp):
TTTTCAATTTATGTTTCTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC
GTTGAGGTATTTTCAATTTCTTTTTTCAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTC
AAGACACGCTGAGATA
Found at i:77987601 original size:74 final size:74
Alignment explanation
Indices: 77987397--77987849 Score: 539
Period size: 74 Copynumber: 6.2 Consensus size: 74
77987387 AATTTTCATT
* * * * *
77987397 TTTTTAATTTATGTTTCT-AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCATGACA
1 TTTTCAATTTCTGTTT-TAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACA
*
77987461 CGCTGAGGTA
65 CGTTGAGGTA
* *** *
77987471 ATTTCAATTT-T-TTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC
1 TTTTCAATTTCTGTTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACAC
*
77987534 GTTGAGATA
66 GTTGAGGTA
* *
77987543 TTTTCAATTTCTGTCTTT-AAAAAAATCAGCTCATATTGCAAGAGGTGAGTTGAACCTCAAGACA
1 TTTTCAATTTCTGT-TTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACA
77987607 CGTTGAGGTA
65 CGTTGAGGTA
* * * *
77987617 TTTTCAATTTCTTTTTTCAAAAAAATCAGCTCATATTGCGATAGGTGAGTTGAACCTCAAG--AC
1 TTTTCAATTTCTGTTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACAC
*
77987680 GCTGAGGTA
66 GTTGAGGTA
* * * * *
77987689 ATTTCAATTTTTGTTTGT--CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAAGACA
1 TTTTCAATTTCTGTTT-TAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACA
77987752 CGTTGAGGTA
65 CGTTGAGGTA
* *
77987762 TTTTCAATTTCTGTCTTTAAAAAAAATCAGCTCATATTGCGAGAGGTAAGTTGAACCTCAAG--A
1 TTTTCAATTTCTGT-TTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACA
* *
77987825 CGCTGAGGTG
65 CGTTGAGGTA
*
77987835 TTTTCCATTTCTGTT
1 TTTTCAATTTCTGTT
77987850 CTTCAATTTC
Statistics
Matches: 330, Mismatches: 38, Indels: 24
0.84 0.10 0.06
Matches are distributed among these distances:
71 38 0.12
72 86 0.26
73 51 0.15
74 115 0.35
75 40 0.12
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (74 bp):
TTTTCAATTTCTGTTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACAC
GTTGAGGTA
Found at i:77987732 original size:219 final size:219
Alignment explanation
Indices: 77987397--77987855 Score: 710
Period size: 220 Copynumber: 2.1 Consensus size: 219
77987387 AATTTTCATT
* * * *
77987397 TTTTTAATTTATGTTTCT-AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCATGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTCA-GACA
77987461 CGCTGAGGTAATTTCAATTTTTTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
65 CGCTGAGGTAATTTCAATTTTTTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
*
77987526 CAAGACACGTTGAGATATTTTCAATTTCTGTCTTT-AAAAAAATCAGCTCATATTGCAAGAGGTG
130 CAAGACACGTTGAGATATTTTCAATTTCTGTCTTTAAAAAAAATCAGCTCATATTGCAAGAGGTA
*
77987590 AGTTGAACCTCAAGACACGTTGAGGTA
195 AGTTGAACCTCAAG--ACGCTGAGGTA
* * * *
77987617 TTTTCAATTTCT-TTTTTCAAAAAAATCAGCTCATATTGCGATAGGTGAGTTGAACCTCA-AGAC
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTCAGACAC
77987680 GCTGAGGTAATTTCAATTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
66 GCTGAGGTAATTTCAATTTTT-TTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
* * *
77987745 TAAGACACGTTGAGGTATTTTCAATTTCTGTCTTTAAAAAAAATCAGCTCATATTGCGAGAGGTA
130 CAAGACACGTTGAGATATTTTCAATTTCTGTCTTTAAAAAAAATCAGCTCATATTGCAAGAGGTA
*
77987810 AGTTGAACCTCAAGACGCTGAGGTG
195 AGTTGAACCTCAAGACGCTGAGGTA
* *
77987835 TTTTCCATTTCTGTTCTTCAA
1 TTTTCAATTTCTGTTTTTCAA
77987856 TTTCTGTGTT
Statistics
Matches: 219, Mismatches: 16, Indels: 9
0.90 0.07 0.04
Matches are distributed among these distances:
218 44 0.20
219 87 0.40
220 88 0.40
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (219 bp):
TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTCAGACAC
GCTGAGGTAATTTCAATTTTTTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
AAGACACGTTGAGATATTTTCAATTTCTGTCTTTAAAAAAAATCAGCTCATATTGCAAGAGGTAA
GTTGAACCTCAAGACGCTGAGGTA
Found at i:77987962 original size:15 final size:14
Alignment explanation
Indices: 77987926--77987958 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
77987916 TGCTGAGGTA
77987926 TTTTCAAATTCTGT
1 TTTTCAAATTCTGT
*
77987940 TTTTCAAATTTTGT
1 TTTTCAAATTCTGT
77987954 TTTTC
1 TTTTC
77987959 CAAAAAAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.64
Consensus pattern (14 bp):
TTTTCAAATTCTGT
Found at i:77987964 original size:91 final size:90
Alignment explanation
Indices: 77987824--77988310 Score: 341
Period size: 87 Copynumber: 5.3 Consensus size: 90
77987814 GAACCTCAAG
* * * * * * * * *
77987824 ACGCTGAGGTGTTTTCCATTTCTGTTCTTCAATTTCTGTGTTTCAAAAAAATCAGCTTATATTAC
1 ACGCTGAGGTATTTTCAAATTCTGTTTTTCAATTTATGTTTTTCAAAAAAATCAACTCATATTGC
*
77987889 GAGTGGTGAGTTGAGCCTTGACTCAC
66 GAGAGGTGAGTTGAGCCTTGA-TCAC
*
77987915 ATGCTGAGGTATTTTCAAATTCTGTTTTTCAAATTT-TGTTTTTCCAAAAAAATCAACTCATATT
1 ACGCTGAGGTATTTTCAAATTCTGTTTTTC-AATTTATGTTTTT-CAAAAAAATCAACTCATATT
* * **
77987979 GCGAGAGGTGAGTTCAGCC-TCAGGAC
64 GCGAGAGGTGAGTTGAGCCTTGATCAC
* * * *
77988005 ACGCTAAGATATTTTC-AATT-T-TTTTTTAATTTATGTTTGTCAAAAAAATCAACTCATATTGC
1 ACGCTGAGGTATTTTCAAATTCTGTTTTTCAATTTATGTTTTTCAAAAAAATCAACTCATATTGC
*
77988067 GAGAGGTGAGTTGAGCCTCAGATCAC
66 GAGAGGTGAGTTGAGCCT-TGATCAC
* * * * * **
77988093 ACG-TCGAGGTATTTTCAATTGATT-TTTATTTTTATTTTTTTTCAATTTATGCTTTGCAAAAAT
1 ACGCT-GAGGTATTTTCAA---ATTCTGT-TTTTCAATTTATGT---TTT-T-C---AAAAAAAT
* * *
77988156 CAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCAC
53 CAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGATCAC
** * *
77988195 ATACTGAGGTATTTTCAAAATCTGTTTTACAAATTT-TG-TTTT---AAAAATCAACTCATATTG
1 ACGCTGAGGTATTTTCAAATTCTGTTTTTC-AATTTATGTTTTTCAAAAAAATCAACTCATATTG
* * *
77988255 CGAAAAGTGAGTTGAGCCTTGGCTCAC
65 CGAGAGGTGAGTTGAGCCTT-GATCAC
** * *
77988282 GTGCTGAGCTATTTTCAATTTCTGTTTTT
1 ACGCTGAGGTATTTTCAAATTCTGTTTTT
77988311 AATGTTTAGT
Statistics
Matches: 318, Mismatches: 54, Indels: 52
0.75 0.13 0.12
Matches are distributed among these distances:
86 43 0.14
87 74 0.23
88 16 0.05
89 5 0.02
90 15 0.05
91 33 0.10
92 43 0.14
93 1 0.00
94 12 0.04
95 3 0.01
97 2 0.01
98 1 0.00
99 7 0.02
100 6 0.02
102 56 0.18
103 1 0.00
ACGTcount: A:0.27, C:0.16, G:0.17, T:0.39
Consensus pattern (90 bp):
ACGCTGAGGTATTTTCAAATTCTGTTTTTCAATTTATGTTTTTCAAAAAAATCAACTCATATTGC
GAGAGGTGAGTTGAGCCTTGATCAC
Found at i:77988061 original size:86 final size:84
Alignment explanation
Indices: 77987762--77988364 Score: 317
Period size: 87 Copynumber: 6.7 Consensus size: 84
77987752 CGTTGAGGTA
* * * * * *
77987762 TTTTCAATTTCTGTCTTTAAAAAAAATCAGCTCATATTGCGAGAGGTAAGTTGAACCTCA-AGAC
1 TTTTAAATTT-TGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACAC
* *
77987826 GCTGAGGTGTTTTCCATTTCT
64 GCTGAGGTATTTTCAATTTCT
* * * * * *
77987847 GTTCTTCAATTTCTGTGTTTCAAAAAAATCAGCTTATATTACGAGTGGTGAGTTGAGCCT-TGAC
1 -TT-TTAAATTT-TGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGA-
*
77987911 TCACATGCTGAGGTATTTTCAAATTCTGT
61 -CAC--GCTGAGGTATTTTC-AATT-TCT
*
77987940 TTTTCAAATTTTGTTTTTCCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCAGGAC
1 TTTT-AAATTTTG-TTTT-CAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-GAC
* *
77988005 ACGCTAAGATATTTTCAATTT-T
62 ACGCTGAGGTATTTTCAATTTCT
*
77988027 TTTTTAATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCA
1 TTTTAAATTT-TGTTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGA-CA
* *
77988092 CACGTCGAGGTATTTTCAATTGATTTT
63 CGC-T-GAGGTATTTTCAA-T--TTCT
** *
77988119 TATTTTTATTTT-TTTTCAATTTATGCTTTGCAAAAATCAACTCATATTACGAGAGGTGAGTTGA
1 T-TTTAAATTTTGTTTTC-A---A--------AAAAATCAACTCATATTGCGAGAGGTGAGTTGA
* ** **
77988183 GCCTCGGGTCACATACTGAGGTATTTTCAAAATCT
53 GCCTC-AG--ACACGCTGAGGTATTTTCAATTTCT
* * ** *
77988218 GTTTTACAAATTTTGTTTT---AAAAATCAACTCATATTGCGAAAAGTGAGTTGAGCCTTGGCTC
1 -TTTT--AAATTTTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG-AC
*
77988280 ACGTGCTGAGCTATTTTCAATTTCT
62 AC--GCTGAGGTATTTTCAATTTCT
* * * * ** *
77988305 GTTTTTAATGTTTAGTTTT--AAAGAGTCAATTCATATTGCGAGAAATGAGTTAAG-CTCAGA
1 -TTTTAAAT-TTT-GTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGA
77988365 TCACATGCCG
Statistics
Matches: 415, Mismatches: 55, Indels: 94
0.74 0.10 0.17
Matches are distributed among these distances:
85 8 0.02
86 60 0.14
87 123 0.30
88 40 0.10
89 7 0.02
90 14 0.03
91 26 0.06
92 52 0.13
93 10 0.02
94 3 0.01
99 5 0.01
100 1 0.00
101 5 0.01
102 54 0.13
103 2 0.00
104 4 0.01
105 1 0.00
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (84 bp):
TTTTAAATTTTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACGC
TGAGGTATTTTCAATTTCT
Found at i:77988078 original size:178 final size:179
Alignment explanation
Indices: 77987781--77988110 Score: 420
Period size: 178 Copynumber: 1.8 Consensus size: 179
77987771 TCTGTCTTTA
* * * * * * *
77987781 AAAAAAATCAGCTCATATTGCGAGAGGTAAGTTGAACCTCAAGACGCTGAGGTGTTTTCCATTTC
1 AAAAAAATCAACTCATATTGCGAGAGGTAAGTTCAACCTCAACACGCTAAGATATTTTCAATTTC
* * * * *
77987846 TGTTCTTCAATTTCTGTGTTTCAAAAAAATCAGCTTATATTACGAGTGGTGAGTTGAGCCT-TGA
66 TGTTCTTCAATTTATGTGTTTCAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGA
*
77987910 CTCACATG-CTGAGGTATTTTCAAATTCTGTTTTTCAAATTTTGTTTTTCC
131 -TCACACGTC-GAGGTATTTTCAAATTCTGTTTTTCAAATTTTGTTTTTCC
* *
77987960 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCAGGACACGCTAAGATATTTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTAAGTTCAACCTCA--ACACGCTAAGATATTTTCAATT
* *
77988025 T-T-TT-TTTAATTTATGT-TTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
64 TCTGTTCTTCAATTTATGTGTT-TCAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTC
77988086 AGATCACACGTCGAGGTATTTTCAA
128 AGATCACACGTCGAGGTATTTTCAA
77988111 TTGATTTTTA
Statistics
Matches: 129, Mismatches: 17, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
177 2 0.02
178 66 0.51
179 42 0.33
180 1 0.01
181 18 0.14
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (179 bp):
AAAAAAATCAACTCATATTGCGAGAGGTAAGTTCAACCTCAACACGCTAAGATATTTTCAATTTC
TGTTCTTCAATTTATGTGTTTCAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGA
TCACACGTCGAGGTATTTTCAAATTCTGTTTTTCAAATTTTGTTTTTCC
Found at i:77988204 original size:102 final size:103
Alignment explanation
Indices: 77988022--77988212 Score: 282
Period size: 102 Copynumber: 1.9 Consensus size: 103
77988012 GATATTTTCA
* *
77988022 ATTTTTTTTTAATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
1 ATTTTTTTTCAATTTATGTTTGTC-AAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCA
77988087 GATCACACGTCGAGGTATTTTCAATTGATTTTTATTTTT
65 GATCACACGTCGAGGTATTTTCAATTGATTTTTATTTTT
*
77988126 ATTTTTTTTCAATTTATGCTTTG-C-AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCG
1 ATTTTTTTTCAATTTATG-TTTGTCAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCA
*
77988189 GGTCACA--TACTGAGGTATTTTCAA
65 GATCACACGT-C-GAGGTATTTTCAA
77988213 AATCTGTTTT
Statistics
Matches: 80, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
100 1 0.01
101 1 0.01
102 56 0.70
104 18 0.22
105 4 0.05
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.40
Consensus pattern (103 bp):
ATTTTTTTTCAATTTATGTTTGTCAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAG
ATCACACGTCGAGGTATTTTCAATTGATTTTTATTTTT
Found at i:77989024 original size:18 final size:18
Alignment explanation
Indices: 77989001--77989054 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
77988991 CCACCACCAA
77989001 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
*
77989019 CTCCACCA-CCA-A----
1 CTCCACTAGCCACACTTG
77989031 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
77989049 CTCCAC
1 CTCCAC
77989055 CACCTACTCC
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
12 7 0.25
13 3 0.11
14 1 0.04
16 1 0.04
17 3 0.11
18 13 0.46
ACGTcount: A:0.24, C:0.50, G:0.07, T:0.19
Consensus pattern (18 bp):
CTCCACTAGCCACACTTG
Found at i:77989027 original size:30 final size:30
Alignment explanation
Indices: 77988991--77989089 Score: 180
Period size: 30 Copynumber: 3.3 Consensus size: 30
77988981 CTAGCCTTTG
77988991 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
77989021 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
* *
77989051 CCACCACCTACTCCATTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
77989081 CCACCACCA
1 CCACCACCA
77989090 CTTGTACCTA
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 66 1.00
ACGTcount: A:0.26, C:0.51, G:0.06, T:0.17
Consensus pattern (30 bp):
CCACCACCAACTCCACTAGCCACACTTGCT
Found at i:77989591 original size:15 final size:15
Alignment explanation
Indices: 77989571--77989617 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
77989561 TTTTTGTTAT
77989571 TATTATATTTTTTAA
1 TATTATATTTTTTAA
* *
77989586 TATTATATATTAT-A
1 TATTATATTTTTTAA
77989600 TA-TATATTCTTTTAA
1 TATTATATT-TTTTAA
77989615 TAT
1 TAT
77989618 ATTATGTATA
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
13 5 0.20
14 6 0.24
15 14 0.56
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (15 bp):
TATTATATTTTTTAA
Found at i:77989637 original size:29 final size:29
Alignment explanation
Indices: 77989580--77989638 Score: 68
Period size: 29 Copynumber: 2.0 Consensus size: 29
77989570 TTATTATATT
*
77989580 TTTTAATATTATATATTATATATATATTC
1 TTTTAATATTATATATTATATATAAATTC
*
77989609 TTTTAATA-TAT-TATGTATATTCTAAATTC
1 TTTTAATATTATATAT-TATA-TATAAATTC
77989638 T
1 T
77989639 ATATTACGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
27 3 0.12
28 7 0.27
29 16 0.62
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.58
Consensus pattern (29 bp):
TTTTAATATTATATATTATATATAAATTC
Found at i:77989675 original size:25 final size:25
Alignment explanation
Indices: 77989568--77989705 Score: 83
Period size: 23 Copynumber: 5.7 Consensus size: 25
77989558 TTTTTTTTGT
* *
77989568 TATTAT-TATAT-TTTTTAATATTA
1 TATTATGTATATATATTTAATACTA
* ** *
77989591 TA-TATTATATATATATTCTTTTAATA
1 TATTA-TGTATATATATT-TAATACTA
* * *
77989617 TATTATGTATAT-T-CTAAATTCTA
1 TATTATGTATATATATTTAATACTA
*
77989640 TATTACGTATATATA-TT-ATACTA
1 TATTATGTATATATATTTAATACTA
* *
77989663 TTTTATGTATATATCTTTAATACTA
1 TATTATGTATATATATTTAATACTA
* *
77989688 TATTATTTATTTATATTT
1 TATTATGTATATATATTT
77989706 TTTTTCTACA
Statistics
Matches: 85, Mismatches: 21, Indels: 16
0.70 0.17 0.13
Matches are distributed among these distances:
22 2 0.02
23 34 0.40
24 10 0.12
25 24 0.28
26 13 0.15
27 2 0.02
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (25 bp):
TATTATGTATATATATTTAATACTA
Found at i:77989697 original size:29 final size:28
Alignment explanation
Indices: 77989664--77989773 Score: 88
Period size: 29 Copynumber: 4.0 Consensus size: 28
77989654 ATTATACTAT
77989664 TTTATGTATATATCTTTAATACTATATTA
1 TTTATGTATATAT-TTTAATACTATATTA
* * ** *
77989693 TTTATTTATATTTTTTTTCTAC-ATGTTA
1 TTTATGTATA-TATTTTAATACTATATTA
77989721 TCTTATGTATATATTTTAAT--TATATTA
1 T-TTATGTATATATTTTAATACTATATTA
* *
77989748 TGTATGTAT-T-TTTT-ACACTATATTA
1 TTTATGTATATATTTTAATACTATATTA
77989773 T
1 T
77989774 GTACATATTT
Statistics
Matches: 64, Mismatches: 12, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
23 1 0.02
24 4 0.06
25 9 0.14
26 7 0.11
27 6 0.09
28 12 0.19
29 23 0.36
30 2 0.03
ACGTcount: A:0.29, C:0.06, G:0.05, T:0.60
Consensus pattern (28 bp):
TTTATGTATATATTTTAATACTATATTA
Found at i:77989774 original size:25 final size:24
Alignment explanation
Indices: 77989724--77989786 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
77989714 CATGTTATCT
*
77989724 TATGTATATATTTTAATTATATTATG
1 TATGTAT-T-TTTTAACTATATTATG
77989750 TATGTATTTTTTACACTATATTATG
1 TATGTATTTTTTA-ACTATATTATG
**
77989775 TACATATTTTTT
1 TATGTATTTTTT
77989787 TATATCTATT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
24 5 0.15
25 21 0.64
26 7 0.21
ACGTcount: A:0.30, C:0.05, G:0.06, T:0.59
Consensus pattern (24 bp):
TATGTATTTTTTAACTATATTATG
Found at i:77989875 original size:25 final size:24
Alignment explanation
Indices: 77989847--77989902 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
77989837 GTTATATTTT
*
77989847 CACTATTTTAT-GTATATACTTCAAA
1 CACTATTATATAGTATAT--TTCAAA
*
77989872 CACTA-TATATAGTATATTTCTAA
1 CACTATTATATAGTATATTTCAAA
77989895 CACTATTA
1 CACTATTA
77989903 CTATTTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 10 0.37
24 6 0.22
25 11 0.41
ACGTcount: A:0.38, C:0.16, G:0.04, T:0.43
Consensus pattern (24 bp):
CACTATTATATAGTATATTTCAAA
Found at i:77992092 original size:19 final size:19
Alignment explanation
Indices: 77992070--77992107 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
77992060 TTATATATAA
*
77992070 TTTAGAATTTTTTGAAAAT
1 TTTAGAATTTTTTAAAAAT
*
77992089 TTTATAATTTTTTAAAAAT
1 TTTAGAATTTTTTAAAAAT
77992108 ATAATTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.55
Consensus pattern (19 bp):
TTTAGAATTTTTTAAAAAT
Found at i:77992124 original size:24 final size:24
Alignment explanation
Indices: 77992086--77992133 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
77992076 ATTTTTTGAA
*
77992086 AATTTTATAATTTTTTAAAAATAT
1 AATTTTATAAATTTTTAAAAATAT
* *
77992110 AATTTTTTAAATTTTTATAAATAT
1 AATTTTATAAATTTTTAAAAATAT
77992134 TTTGAATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (24 bp):
AATTTTATAAATTTTTAAAAATAT
Found at i:77992150 original size:19 final size:20
Alignment explanation
Indices: 77992115--77992164 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
77992105 AATATAATTT
* *
77992115 TTTAAATTTTTATAAAT-AT
1 TTTAATTTTTTATAAATCAA
77992134 TTTGAATTTTTTA-AAATCAA
1 TTT-AATTTTTTATAAATCAA
77992154 TTTAATTTTTT
1 TTTAATTTTTT
77992165 TTAATTTTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 15 0.56
20 12 0.44
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (20 bp):
TTTAATTTTTTATAAATCAA
Found at i:77993291 original size:2 final size:2
Alignment explanation
Indices: 77993278--77993313 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
77993268 AGGCACATAA
* *
77993278 AT AT AT AC AT AT AT AT AT AT AT AT AT AT TT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
77993314 TCAAACAACA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:77993658 original size:51 final size:51
Alignment explanation
Indices: 77993582--77993683 Score: 204
Period size: 51 Copynumber: 2.0 Consensus size: 51
77993572 AACGGAAAAG
77993582 ATAGAACCTAAATATTTCCGGCCATTGTCTGAACTAAATGTCAAAATCCAA
1 ATAGAACCTAAATATTTCCGGCCATTGTCTGAACTAAATGTCAAAATCCAA
77993633 ATAGAACCTAAATATTTCCGGCCATTGTCTGAACTAAATGTCAAAATCCAA
1 ATAGAACCTAAATATTTCCGGCCATTGTCTGAACTAAATGTCAAAATCCAA
77993684 TCGTTGTAAC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.39, C:0.22, G:0.12, T:0.27
Consensus pattern (51 bp):
ATAGAACCTAAATATTTCCGGCCATTGTCTGAACTAAATGTCAAAATCCAA
Found at i:77996737 original size:17 final size:17
Alignment explanation
Indices: 77996712--77996754 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
77996702 AATTAAAATG
77996712 AATTTAATTGATTTTT-TC
1 AATTTAATT--TTTTTCTC
77996730 AA-TTAATTTTTTTCTC
1 AATTTAATTTTTTTCTC
77996746 AATTTAATT
1 AATTTAATT
77996755 CTAATTCTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 5 0.22
16 4 0.17
17 12 0.52
18 2 0.09
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.60
Consensus pattern (17 bp):
AATTTAATTTTTTTCTC
Found at i:78001591 original size:43 final size:43
Alignment explanation
Indices: 78001541--78001693 Score: 182
Period size: 43 Copynumber: 3.6 Consensus size: 43
78001531 TATCCCAGAT
* * *
78001541 ATGGTCTTACATGTTATCACATATCGATGCCAATGTCCCAAAC
1 ATGGTCTTACACGTAATCACATATAGATGCCAATGTCCCAAAC
* ** * *
78001584 ATAGTCTTACACCAAATCATATAAAGATGCCAATGTCCCAAAC
1 ATGGTCTTACACGTAATCACATATAGATGCCAATGTCCCAAAC
* *
78001627 ATGGTCTTACACGTAATCACA-ATAAAATGCCAATGTCCCAGAC
1 ATGGTCTTACACGTAATCACATAT-AGATGCCAATGTCCCAAAC
* *
78001670 ATGGTTTTACATGTAATCACATAT
1 ATGGTCTTACACGTAATCACATAT
78001694 TGGTAATCCT
Statistics
Matches: 91, Mismatches: 17, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
42 1 0.01
43 88 0.97
44 2 0.02
ACGTcount: A:0.36, C:0.24, G:0.12, T:0.28
Consensus pattern (43 bp):
ATGGTCTTACACGTAATCACATATAGATGCCAATGTCCCAAAC
Found at i:78003500 original size:13 final size:13
Alignment explanation
Indices: 78003482--78003510 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
78003472 ATAACCACGT
78003482 TCATTTTCATCTA
1 TCATTTTCATCTA
78003495 TCA-TTTCATCTA
1 TCATTTTCATCTA
78003507 TCAT
1 TCAT
78003511 GTAATTACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
12 12 0.80
13 3 0.20
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (13 bp):
TCATTTTCATCTA
Found at i:78006704 original size:21 final size:21
Alignment explanation
Indices: 78006653--78006706 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 21
78006643 ATTTTTAGCA
*
78006653 AATA-TAATTTTTATATGTGT
1 AATATTAATTTTTATATGAGT
*
78006673 AATATTTATTTTTATATGAGT
1 AATATTAATTTTTATATGAGT
* *
78006694 -GTATTAAATTTTA
1 AATATTAATTTTTA
78006707 GCATTATATA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.35, C:0.00, G:0.09, T:0.56
Consensus pattern (21 bp):
AATATTAATTTTTATATGAGT
Found at i:78006800 original size:22 final size:21
Alignment explanation
Indices: 78006729--78006800 Score: 54
Period size: 22 Copynumber: 3.2 Consensus size: 21
78006719 ATAGTATGTT
*
78006729 TATTTAAAATGATTATTTGAAA
1 TATTTAAAAT-ATTAATTGAAA
* * * * *
78006751 TATTTCACATATAAACATGATGA
1 TATTTAAAATATTAA-TTGA-AA
78006774 TATTTAAAATAATTAATTGAAA
1 TATTTAAAAT-ATTAATTGAAA
78006796 TATTT
1 TATTT
78006801 TACATATAAA
Statistics
Matches: 36, Mismatches: 11, Indels: 6
0.68 0.21 0.11
Matches are distributed among these distances:
21 3 0.08
22 17 0.47
23 12 0.33
24 4 0.11
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.43
Consensus pattern (21 bp):
TATTTAAAATATTAATTGAAA
Found at i:78008440 original size:2 final size:2
Alignment explanation
Indices: 78008433--78008463 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
78008423 GAAAAGAGGA
*
78008433 TC TC TC TC TC TT TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
78008464 AACTTCCTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (2 bp):
TC
Found at i:78011056 original size:39 final size:39
Alignment explanation
Indices: 78010975--78011091 Score: 146
Period size: 39 Copynumber: 3.0 Consensus size: 39
78010965 TGATATTGGG
* * * * ** *
78010975 AATATATCTGGACATGAGGTCCG-TGGCTATAAGCTGGG
1 AATATATCCGGACTTGAAGTCCGCAGGCTATGTGCTGGA
78011013 AATATATCCGGACTTGAAGTCCGCAGGCTATGTGCTGGA
1 AATATATCCGGACTTGAAGTCCGCAGGCTATGTGCTGGA
* *
78011052 AATATATCCAGACTTGAAGTCCGCAGGCTACGTGCTGGA
1 AATATATCCGGACTTGAAGTCCGCAGGCTATGTGCTGGA
78011091 A
1 A
78011092 TGGAATCCGG
Statistics
Matches: 69, Mismatches: 9, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
38 20 0.29
39 49 0.71
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (39 bp):
AATATATCCGGACTTGAAGTCCGCAGGCTATGTGCTGGA
Found at i:78018705 original size:39 final size:39
Alignment explanation
Indices: 78018592--78018709 Score: 155
Period size: 39 Copynumber: 3.0 Consensus size: 39
78018582 TGATATTGGG
* * * ** *
78018592 AATATATCTGGACATGAGGTCCGCAGGCTATAAGCTGGG
1 AATATATCCGGACTTGAAGTCCGCAGGCTATGTGCTGGA
*
78018631 AATATATCCGGACTTGAAGTCCTCAGGCTATGTGCTGGA
1 AATATATCCGGACTTGAAGTCCGCAGGCTATGTGCTGGA
* *
78018670 AATATATCCGGACTTGAAGTTCGCAGGCTACGTGCTGGA
1 AATATATCCGGACTTGAAGTCCGCAGGCTATGTGCTGGA
78018709 A
1 A
78018710 TGGAATCCGG
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 69 1.00
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.25
Consensus pattern (39 bp):
AATATATCCGGACTTGAAGTCCGCAGGCTATGTGCTGGA
Found at i:78023198 original size:15 final size:15
Alignment explanation
Indices: 78023178--78023212 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
78023168 TAACTAATTT
*
78023178 AATAAATTAAAATAA
1 AATAAATAAAAATAA
78023193 AATAAATAAAAATAA
1 AATAAATAAAAATAA
78023208 AATAA
1 AATAA
78023213 TATCTTCCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
AATAAATAAAAATAA
Found at i:78027887 original size:2 final size:2
Alignment explanation
Indices: 78027880--78027911 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
78027870 TGAAAAGTTA
78027880 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
78027912 TAAGACAAAA
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:78028075 original size:61 final size:61
Alignment explanation
Indices: 78028009--78028132 Score: 169
Period size: 61 Copynumber: 2.0 Consensus size: 61
78027999 TTGTCCTATT
* * * * *
78028009 AATTAATTTTCTATATTATTTCAACGGATT-TTTTACAAGTATTTTATATTCATCATTTTTA
1 AATTAATTTTCTATATTATTTCAACAGATTCTTCT-CAAGTATTATATATACATAATTTTTA
* *
78028070 AATTAATTTTTTGTATTATTTCAACAGATTCTTCTCAAGTATTATATATACATAATTTTTA
1 AATTAATTTTCTATATTATTTCAACAGATTCTTCTCAAGTATTATATATACATAATTTTTA
78028131 AA
1 AA
78028133 ATTTATTCAA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
61 52 0.95
62 3 0.05
ACGTcount: A:0.34, C:0.10, G:0.05, T:0.52
Consensus pattern (61 bp):
AATTAATTTTCTATATTATTTCAACAGATTCTTCTCAAGTATTATATATACATAATTTTTA
Found at i:78033129 original size:105 final size:105
Alignment explanation
Indices: 78033020--78033216 Score: 358
Period size: 105 Copynumber: 1.9 Consensus size: 105
78033010 TAAAAAAAAA
78033020 TTACCTTATAGATTAAATTAATTTATAAAATTAAAATTTAAAATATAAAAATAACGTGTAGAAAT
1 TTACCTTATAGATTAAATTAATTTATAAAATTAAAATTTAAAATATAAAAATAACGTGTAGAAAT
* *
78033085 TACGTCTATAAATTAAATTTATAAATATACTACTCGTTAT
66 AACATCTATAAATTAAATTTATAAATATACTACTCGTTAT
* *
78033125 TTACCTTATAGATTAAATTAATTTATAAAATTAAATTTTAAAATATAAAAATAATGTGTAGAAAT
1 TTACCTTATAGATTAAATTAATTTATAAAATTAAAATTTAAAATATAAAAATAACGTGTAGAAAT
78033190 AACATCTATAAATTAAATTTATAAATA
66 AACATCTATAAATTAAATTTATAAATA
78033217 ATTTTTTGGG
Statistics
Matches: 88, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
105 88 1.00
ACGTcount: A:0.50, C:0.06, G:0.05, T:0.39
Consensus pattern (105 bp):
TTACCTTATAGATTAAATTAATTTATAAAATTAAAATTTAAAATATAAAAATAACGTGTAGAAAT
AACATCTATAAATTAAATTTATAAATATACTACTCGTTAT
Found at i:78045284 original size:13 final size:13
Alignment explanation
Indices: 78045266--78045295 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
78045256 ACTCACTCTC
*
78045266 TTCTTTTTTCTTT
1 TTCTTTTTCCTTT
78045279 TTCTTTTTCCTTT
1 TTCTTTTTCCTTT
78045292 TTCT
1 TTCT
78045296 AGTTTCGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (13 bp):
TTCTTTTTCCTTT
Found at i:78047609 original size:24 final size:24
Alignment explanation
Indices: 78047582--78047627 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
78047572 TATATATATA
*
78047582 TATTA-GTAATAAAATCTTTGATTC
1 TATTATGTAACAAAAT-TTTGATTC
*
78047606 TATTATTTAACAAAATTTTGAT
1 TATTATGTAACAAAATTTTGAT
78047628 CCAAAAACAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 11 0.58
25 8 0.42
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.48
Consensus pattern (24 bp):
TATTATGTAACAAAATTTTGATTC
Found at i:78047966 original size:57 final size:57
Alignment explanation
Indices: 78047878--78047995 Score: 227
Period size: 57 Copynumber: 2.1 Consensus size: 57
78047868 AGTAACTTCA
78047878 AATTACTTGGTGTCTTAGCCTTCAATAGGTTGTGCTCGACATGAATAATATGACTAC
1 AATTACTTGGTGTCTTAGCCTTCAATAGGTTGTGCTCGACATGAATAATATGACTAC
*
78047935 AATTACTTGGTGTCTTAGTCTTCAATAGGTTGTGCTCGACATGAATAATATGACTAC
1 AATTACTTGGTGTCTTAGCCTTCAATAGGTTGTGCTCGACATGAATAATATGACTAC
78047992 AATT
1 AATT
78047996 CAGTTGATTT
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 60 1.00
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (57 bp):
AATTACTTGGTGTCTTAGCCTTCAATAGGTTGTGCTCGACATGAATAATATGACTAC
Found at i:78049927 original size:33 final size:33
Alignment explanation
Indices: 78049885--78049950 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
78049875 CATATGCAAC
78049885 TTTATGAATTAAGTATACCTGAGTTGGATTACA
1 TTTATGAATTAAGTATACCTGAGTTGGATTACA
78049918 TTTATGAATTAAGTATACCTGAGTTGGATTACA
1 TTTATGAATTAAGTATACCTGAGTTGGATTACA
78049951 AAATGTTATG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.39
Consensus pattern (33 bp):
TTTATGAATTAAGTATACCTGAGTTGGATTACA
Found at i:78059948 original size:8 final size:8
Alignment explanation
Indices: 78059935--78059963 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
78059925 TTATGTTTAG
78059935 TATATTAT
1 TATATTAT
78059943 TATATTAT
1 TATATTAT
78059951 TATATTAT
1 TATATTAT
78059959 TATAT
1 TATAT
78059964 AATAAAGATA
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:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TATATTAT
Found at i:78059996 original size:5 final size:5
Alignment explanation
Indices: 78059976--78060026 Score: 77
Period size: 5 Copynumber: 10.2 Consensus size: 5
78059966 TAAAGATACT
*
78059976 TTATA TTTTAA TTATA TTATA TTATA TTATA TTATA TTATA TTATA -TATA
1 TTATA TTAT-A TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
78060026 T
1 T
78060027 AAACTAAAGA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
4 4 0.10
5 34 0.81
6 4 0.10
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TTATA
Found at i:78061321 original size:15 final size:15
Alignment explanation
Indices: 78061301--78061357 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
78061291 CGATGAATTT
78061301 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
78061316 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
78061331 ATTGAATTTATATTG
1 ATTGAATTTATATTG
78061346 ATTGAA-TTATAT
1 ATTGAATTTATAT
78061358 AATATATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:78061759 original size:23 final size:23
Alignment explanation
Indices: 78061729--78061815 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
78061719 GCTTTATCGA
* *
78061729 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTCATGTGTCGTATT
*
78061752 TCAGGCACCTCGTGTGTCGTA--
1 TCAGGCACCTCATGTGTCGTATT
*
78061773 TCAGGCACCTCGTGTGTCGT-TT
1 TCAGGCACCTCATGTGTCGTATT
* *
78061795 T-AGGCACTTTATGTGTCGTAT
1 TCAGGCACCTCATGTGTCGTAT
78061816 ACTGACCAGG
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
21 35 0.64
22 2 0.04
23 18 0.33
ACGTcount: A:0.15, C:0.22, G:0.25, T:0.38
Consensus pattern (23 bp):
TCAGGCACCTCATGTGTCGTATT
Found at i:78065997 original size:47 final size:47
Alignment explanation
Indices: 78065980--78066220 Score: 401
Period size: 47 Copynumber: 5.1 Consensus size: 47
78065970 CTCTTCCACG
** *
78065980 TTCATCACATTGGCCATTCTACCTTATCACATATATGCATGTTCGCA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
78066027 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
78066074 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATATTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
78066121 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* * * **
78066168 TTCATCACATTGGCCATTCGGCCTTATCTCAAATATACACATTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
78066215 TTCATC
1 TTCATC
78066221 TCATAAAATC
Statistics
Matches: 184, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 184 1.00
ACGTcount: A:0.27, C:0.28, G:0.11, T:0.34
Consensus pattern (47 bp):
TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
Found at i:78070199 original size:6 final size:6
Alignment explanation
Indices: 78070188--78070213 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
78070178 ACACCGTAGG
78070188 GTAACA GTAACA GTAACA GTAACA GT
1 GTAACA GTAACA GTAACA GTAACA GT
78070214 CATAGTCAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.46, C:0.15, G:0.19, T:0.19
Consensus pattern (6 bp):
GTAACA
Found at i:78073294 original size:15 final size:15
Alignment explanation
Indices: 78073276--78073310 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
78073266 AACCTAACCT
78073276 AAAAAAAA-AACAAAG
1 AAAAAAAAGAA-AAAG
78073291 AAAAAAAAGAAAAAG
1 AAAAAAAAGAAAAAG
78073306 AAAAA
1 AAAAA
78073311 CCTACCCCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 17 0.89
16 2 0.11
ACGTcount: A:0.89, C:0.03, G:0.09, T:0.00
Consensus pattern (15 bp):
AAAAAAAAGAAAAAG
Found at i:78073324 original size:15 final size:17
Alignment explanation
Indices: 78073306--78073342 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
78073296 AAAGAAAAAG
78073306 AAAAACCT-A-CCCCAA
1 AAAAACCTAACCCCCAA
78073321 AAAAACCTAACCCCCAA
1 AAAAACCTAACCCCCAA
78073338 AAAAA
1 AAAAA
78073343 AAGAAGAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 8 0.40
16 1 0.05
17 11 0.55
ACGTcount: A:0.59, C:0.35, G:0.00, T:0.05
Consensus pattern (17 bp):
AAAAACCTAACCCCCAA
Found at i:78074168 original size:11 final size:11
Alignment explanation
Indices: 78074150--78074179 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
78074140 GTGTATATTG
78074150 TATATATTATA
1 TATATATTATA
*
78074161 TTTATATTATA
1 TATATATTATA
78074172 TATATATT
1 TATATATT
78074180 CTTAATGTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TATATATTATA
Found at i:78076051 original size:14 final size:14
Alignment explanation
Indices: 78076032--78076061 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
78076022 TATCTTATAA
78076032 ATATGCGTGAATCT
1 ATATGCGTGAATCT
*
78076046 ATATGCGTTAATCT
1 ATATGCGTGAATCT
78076060 AT
1 AT
78076062 CTTGAAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.40
Consensus pattern (14 bp):
ATATGCGTGAATCT
Found at i:78076414 original size:21 final size:22
Alignment explanation
Indices: 78076376--78076419 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
78076366 TTCCCTGTTC
*
78076376 TTTCTTTTTTTTTCTATT-TTA
1 TTTCTTTTTCTTTCTATTATTA
78076397 TTTCTTTATTCTTT-TATTATTA
1 TTTCTTT-TTCTTTCTATTATTA
78076419 T
1 T
78076420 ATTATATCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.14, C:0.09, G:0.00, T:0.77
Consensus pattern (22 bp):
TTTCTTTTTCTTTCTATTATTA
Found at i:78077881 original size:11 final size:11
Alignment explanation
Indices: 78077851--78077881 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
78077841 ACAGCCCCCT
*
78077851 TTCTCTCTCCC
1 TTCTCTCTTCC
78077862 TTCTCTCTTCC
1 TTCTCTCTTCC
78077873 TTCTCTCTT
1 TTCTCTCTT
78077882 TTTTTTTCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (11 bp):
TTCTCTCTTCC
Found at i:78078378 original size:22 final size:23
Alignment explanation
Indices: 78078339--78078387 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 23
78078329 AGTATTTTCG
*
78078339 TTATTTTATTTCACTTT-AAATA
1 TTATTTGATTTCACTTTAAAATA
78078361 TTATTTGATTATCA-TTTACAAATA
1 TTATTTGATT-TCACTTTA-AAATA
78078385 TTA
1 TTA
78078388 GTGTATATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 12 0.52
23 3 0.13
24 8 0.35
ACGTcount: A:0.35, C:0.08, G:0.02, T:0.55
Consensus pattern (23 bp):
TTATTTGATTTCACTTTAAAATA
Found at i:78078544 original size:3 final size:3
Alignment explanation
Indices: 78078531--78078633 Score: 127
Period size: 3 Copynumber: 33.7 Consensus size: 3
78078521 TTTTCTTTTG
* ** *
78078531 TAT TTT TAT TAT TAT TGC TAT TAT TGT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
78078579 TAT TAT TAT TAT TAT TAT TAT TAT TAT TATT TAT TA- TATT TAT ATAA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TA-T TAT -TAT
78078626 TAT TAT TA
1 TAT TAT TA
78078634 ATAGGTACTT
Statistics
Matches: 86, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
2 2 0.02
3 77 0.90
4 7 0.08
ACGTcount: A:0.32, C:0.01, G:0.02, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:78078702 original size:24 final size:24
Alignment explanation
Indices: 78078674--78078739 Score: 78
Period size: 25 Copynumber: 2.7 Consensus size: 24
78078664 ATGTAAATGC
* *
78078674 TATGTAAATATTTTAATACTATAT
1 TATGTATATATTTTAATACCATAT
* * *
78078698 TATGTATGTATTTTCATTGCCATAT
1 TATGTATATATTTT-AATACCATAT
78078723 TATGTATATATTTTAAT
1 TATGTATATATTTTAAT
78078740 GTTATGTGTA
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
24 14 0.41
25 20 0.59
ACGTcount: A:0.33, C:0.06, G:0.08, T:0.53
Consensus pattern (24 bp):
TATGTATATATTTTAATACCATAT
Found at i:78078897 original size:24 final size:22
Alignment explanation
Indices: 78078870--78078927 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 22
78078860 TAGTGTGTTT
78078870 TATTATATGTATATATACTCTCAA
1 TATTATAT-TAT-TATACTCTCAA
* *
78078894 TATTATATTCTTATACTCTTAA
1 TATTATATTATTATACTCTCAA
**
78078916 TACCATATTATT
1 TATTATATTATT
78078928 CTTATTATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
22 19 0.66
23 2 0.07
24 8 0.28
ACGTcount: A:0.34, C:0.14, G:0.02, T:0.50
Consensus pattern (22 bp):
TATTATATTATTATACTCTCAA
Found at i:78079346 original size:21 final size:23
Alignment explanation
Indices: 78079294--78079361 Score: 68
Period size: 21 Copynumber: 3.0 Consensus size: 23
78079284 ATGTGCATAC
* *
78079294 ATTTTTCAATATTTATTTTATAT
1 ATTTTTAAATATTTATTGTATAT
* *
78079317 ATATGTAAAT-TTTA-TGTATAT
1 ATTTTTAAATATTTATTGTATAT
*
78079338 ATTTTTAAATACTATATTGTATAT
1 ATTTTTAAATA-TTTATTGTATAT
78079362 GTATATATAT
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
21 14 0.40
22 4 0.11
23 10 0.29
24 7 0.20
ACGTcount: A:0.35, C:0.03, G:0.04, T:0.57
Consensus pattern (23 bp):
ATTTTTAAATATTTATTGTATAT
Found at i:78079373 original size:36 final size:38
Alignment explanation
Indices: 78079333--78079418 Score: 106
Period size: 38 Copynumber: 2.3 Consensus size: 38
78079323 AAATTTTATG
78079333 TATATATTTTTAAATACTATATT-GTATAT-GTATATA
1 TATATATTTTTAAATACTATATTAGTATATAGTATATA
* * *
78079369 TATATATTCTT-AGTACTATATTACGTATATATTATATA
1 TATATATTTTTAAATACTATATTA-GTATATAGTATATA
*
78079407 TATTTATTTTTA
1 TATATATTTTTA
78079419 CCCCTATTAT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
35 10 0.24
36 10 0.24
37 6 0.15
38 15 0.37
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.55
Consensus pattern (38 bp):
TATATATTTTTAAATACTATATTAGTATATAGTATATA
Found at i:78083179 original size:17 final size:18
Alignment explanation
Indices: 78083149--78083186 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
78083139 CCTCCCTCTC
*
78083149 TTTTCCTCTCGTTTTTCT
1 TTTTCCTCTCGTTTTCCT
*
78083167 TTTTCTTCT-GTTTTCCT
1 TTTTCCTCTCGTTTTCCT
78083184 TTT
1 TTT
78083187 ATGTTTGCTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.00, C:0.24, G:0.05, T:0.71
Consensus pattern (18 bp):
TTTTCCTCTCGTTTTCCT
Found at i:78090795 original size:24 final size:24
Alignment explanation
Indices: 78090768--78090818 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
78090758 ATAAAATTTA
*
78090768 TTTTTT-AA-AATTATATATATAAT
1 TTTTTTAAACAATTATAT-TATAAG
*
78090791 TTTTTTAAACAATTTTATTATAAG
1 TTTTTTAAACAATTATATTATAAG
78090815 TTTT
1 TTTT
78090819 GATTATATCT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 6 0.25
24 11 0.46
25 7 0.29
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (24 bp):
TTTTTTAAACAATTATATTATAAG
Found at i:78090954 original size:41 final size:41
Alignment explanation
Indices: 78090895--78090974 Score: 115
Period size: 41 Copynumber: 2.0 Consensus size: 41
78090885 AGAGGATAAT
* *
78090895 ACGCTTCATCACAATCTAACCCACATATTCCTGTATTGAAA
1 ACGCTTCAGCACAATCTAACCCACATATTCCTATATTGAAA
* * *
78090936 ACGCTTCAGCACAGTCTAACCCATATCTTCCTATATTGA
1 ACGCTTCAGCACAATCTAACCCACATATTCCTATATTGA
78090975 CATTTGACAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.31, C:0.30, G:0.09, T:0.30
Consensus pattern (41 bp):
ACGCTTCAGCACAATCTAACCCACATATTCCTATATTGAAA
Found at i:78091043 original size:20 final size:20
Alignment explanation
Indices: 78091018--78091059 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
78091008 GACTTAATCA
78091018 ACTATAAATTTTAAGTGAAG
1 ACTATAAATTTTAAGTGAAG
78091038 ACTATAAATTTTAAGTGAAG
1 ACTATAAATTTTAAGTGAAG
78091058 AC
1 AC
78091060 GTGACATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.45, C:0.07, G:0.14, T:0.33
Consensus pattern (20 bp):
ACTATAAATTTTAAGTGAAG
Found at i:78091077 original size:24 final size:20
Alignment explanation
Indices: 78091018--78091074 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 20
78091008 GACTTAATCA
*
78091018 ACTATAAATTTTAAGTGAAG
1 ACTACAAATTTTAAGTGAAG
*
78091038 ACTATAAATTTTAAGTGAAG
1 ACTACAAATTTTAAGTGAAG
78091058 ACGTGACATAATTTTAA
1 AC-T-ACA-AATTTTAA
78091075 AGTATAGTGC
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
20 22 0.67
21 1 0.03
22 2 0.06
23 8 0.24
ACGTcount: A:0.44, C:0.07, G:0.14, T:0.35
Consensus pattern (20 bp):
ACTACAAATTTTAAGTGAAG
Found at i:78102559 original size:24 final size:24
Alignment explanation
Indices: 78102531--78102587 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
78102521 AAATTAATGA
78102531 AATATTTAAAATATATTTT-TAATT
1 AATATTTAAAATAT-TTTTATAATT
* *
78102555 AATATTTTATATATTTTTATAATT
1 AATATTTAAAATATTTTTATAATT
78102579 AA-ATTTAAA
1 AATATTTAAA
78102588 TAATAAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
23 9 0.32
24 19 0.68
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (24 bp):
AATATTTAAAATATTTTTATAATT
Found at i:78103457 original size:30 final size:31
Alignment explanation
Indices: 78103409--78103469 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
78103399 CAACATATTA
* * *
78103409 AATATTAACATTTTTAATTAT-GTGAAAAAG
1 AATAATAACATTTATAATTATAGTAAAAAAG
*
78103439 AATAATAATATTTATAATTATAGTAAAAAAG
1 AATAATAACATTTATAATTATAGTAAAAAAG
78103470 TTGGATAAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 18 0.69
31 8 0.31
ACGTcount: A:0.52, C:0.02, G:0.08, T:0.38
Consensus pattern (31 bp):
AATAATAACATTTATAATTATAGTAAAAAAG
Found at i:78108829 original size:2 final size:2
Alignment explanation
Indices: 78108822--78108848 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
78108812 CAATGGTCGA
78108822 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
78108849 ATGGTTAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:78121152 original size:29 final size:30
Alignment explanation
Indices: 78121119--78121179 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 30
78121109 ATAATGAAAC
*
78121119 AATTAACTAAAATAAT-TATTTAA-AAATTA
1 AATTAAAT-AAATAATCTATTTAATAAATTA
*
78121148 AATTAAATCAATAATCTATTTAATAAATTA
1 AATTAAATAAATAATCTATTTAATAAATTA
78121178 AA
1 AA
78121180 AACACTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 6 0.21
29 14 0.50
30 8 0.29
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (30 bp):
AATTAAATAAATAATCTATTTAATAAATTA
Found at i:78121923 original size:31 final size:27
Alignment explanation
Indices: 78121885--78121946 Score: 79
Period size: 27 Copynumber: 2.1 Consensus size: 27
78121875 AAGCAATATT
*
78121885 TTTTATTTAATTATAATATATATTTTTAAAA
1 TTTTATTT-ATT-TAA-A-ATATTTATAAAA
78121916 TTTTATTTATTTAAAATATTTATAAAA
1 TTTTATTTATTTAAAATATTTATAAAA
78121943 TTTT
1 TTTT
78121947 GCAAATATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
27 15 0.50
28 1 0.03
29 3 0.10
30 3 0.10
31 8 0.27
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (27 bp):
TTTTATTTATTTAAAATATTTATAAAA
Found at i:78122503 original size:27 final size:25
Alignment explanation
Indices: 78122442--78122515 Score: 85
Period size: 27 Copynumber: 2.8 Consensus size: 25
78122432 GCCTTTAAAA
* *
78122442 AAAAAGTCAAGCTTAATTTTTTTTAT
1 AAAAAGTCAAACTTAA-TTTTTTGAT
78122468 AAAAAGTCAAACTTAATTTTTTGAT
1 AAAAAGTCAAACTTAATTTTTTGAT
* *
78122493 ACAGAAGGTCAAACTTAGTTTTT
1 A-A-AAAGTCAAACTTAATTTTT
78122516 GATTCTTTAA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
25 9 0.21
26 16 0.38
27 17 0.40
ACGTcount: A:0.39, C:0.09, G:0.11, T:0.41
Consensus pattern (25 bp):
AAAAAGTCAAACTTAATTTTTTGAT
Found at i:78125792 original size:2 final size:2
Alignment explanation
Indices: 78125785--78125825 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
78125775 CCCTTTTTCT
78125785 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
78125826 TTAAATTTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:78129446 original size:13 final size:13
Alignment explanation
Indices: 78129428--78129452 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
78129418 CCTTCTTTTA
78129428 TTTTTAATTAATG
1 TTTTTAATTAATG
78129441 TTTTTAATTAAT
1 TTTTTAATTAAT
78129453 AAATATATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (13 bp):
TTTTTAATTAATG
Found at i:78129749 original size:19 final size:20
Alignment explanation
Indices: 78129712--78129751 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
78129702 GTGCTAATAC
* *
78129712 ATTAAAAACATTAATTAAAA
1 ATTAAAAACAATAACTAAAA
78129732 ATTAAAAA-AATAACTAAAA
1 ATTAAAAACAATAACTAAAA
78129751 A
1 A
78129752 AATATAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (20 bp):
ATTAAAAACAATAACTAAAA
Found at i:78132250 original size:25 final size:26
Alignment explanation
Indices: 78132221--78132271 Score: 95
Period size: 25 Copynumber: 2.0 Consensus size: 26
78132211 AAAAGTAGAA
78132221 AAGGAATTATTTAGG-TTTTTTTTAC
1 AAGGAATTATTTAGGCTTTTTTTTAC
78132246 AAGGAATTATTTAGGCTTTTTTTTAC
1 AAGGAATTATTTAGGCTTTTTTTTAC
78132272 TTAAATAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 15 0.60
26 10 0.40
ACGTcount: A:0.27, C:0.06, G:0.16, T:0.51
Consensus pattern (26 bp):
AAGGAATTATTTAGGCTTTTTTTTAC
Found at i:78136665 original size:46 final size:44
Alignment explanation
Indices: 78136561--78136668 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
78136551 TGTCTTTGAC
** * * *
78136561 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
78136605 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
78136651 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
78136669 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Done.