Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 216 of 297
Found at i:73319672 original size:14 final size:15
Alignment explanation
Indices: 73319655--73319683 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
73319645 ACACGAAAAT
73319655 TTCACACAT-ATAAA
1 TTCACACATAATAAA
73319669 TTCACACATAATAAA
1 TTCACACATAATAAA
73319684 CACAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:73323207 original size:163 final size:163
Alignment explanation
Indices: 73322937--73323264 Score: 593
Period size: 163 Copynumber: 2.0 Consensus size: 163
73322927 CTTTAACAGG
*
73322937 GCACCACCCATGAGTATAACATACGTACCTGTACATATCCGTAGCATATTAAATAACTTTACCTT
1 GCACCACCCATGAGTATAACATACGTACCTGTACATATCCGTAGCATATCAAATAACTTTACCTT
* *
73323002 TATTGCCATGCCCATCTTAGGACTTTCATCTCATCATTCATATAATACCCGTTGAACACTCGAAA
66 CATTGCCATGCCCAGCTTAGGACTTTCATCTCATCATTCATATAATACCCGTTGAACACTCGAAA
*
73323067 TACTATTGGATACACGGAAAATTGCACACAAGT
131 TACTATTGGATACACAGAAAATTGCACACAAGT
* *
73323100 GCACCACCCATGAGTATAACGTACGTACCTGTACATATCTGTAGCATATCAAATAACTTTACCTT
1 GCACCACCCATGAGTATAACATACGTACCTGTACATATCCGTAGCATATCAAATAACTTTACCTT
*
73323165 CATTGCCATGCCCAGCTTAGGACTTTCATCTCATCATTCATATAATACTCGTTGAACACTCGAAA
66 CATTGCCATGCCCAGCTTAGGACTTTCATCTCATCATTCATATAATACCCGTTGAACACTCGAAA
73323230 TACTATTGGATACACAGAAAATTGCACACAAGT
131 TACTATTGGATACACAGAAAATTGCACACAAGT
73323263 GC
1 GC
73323265 CACATAAACA
Statistics
Matches: 158, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
163 158 1.00
ACGTcount: A:0.33, C:0.25, G:0.13, T:0.29
Consensus pattern (163 bp):
GCACCACCCATGAGTATAACATACGTACCTGTACATATCCGTAGCATATCAAATAACTTTACCTT
CATTGCCATGCCCAGCTTAGGACTTTCATCTCATCATTCATATAATACCCGTTGAACACTCGAAA
TACTATTGGATACACAGAAAATTGCACACAAGT
Found at i:73326080 original size:27 final size:27
Alignment explanation
Indices: 73325971--73326138 Score: 227
Period size: 27 Copynumber: 6.4 Consensus size: 27
73325961 CTTTAATCGA
* *
73325971 TAAAAAGACTATTTTTCCC-T-TGTGG
1 TAAAATGACTATTTTGCCCTTATGTGG
*
73325996 TAAAATGACTGTTTTGCCCTTATGTGG
1 TAAAATGACTATTTTGCCCTTATGTGG
* *
73326023 T-AAATAACTGTTTTGCCCTTATGTGG
1 TAAAATGACTATTTTGCCCTTATGTGG
*
73326049 T-AAATGACTATTTTTCCCTTATGTGG
1 TAAAATGACTATTTTGCCCTTATGTGG
*
73326075 TAAAATGACTATTTTGCCCTTCTGTGG
1 TAAAATGACTATTTTGCCCTTATGTGG
* *
73326102 TAAAATGACTATTTTTCCCTCATGTGG
1 TAAAATGACTATTTTGCCCTTATGTGG
73326129 TAAAATGACT
1 TAAAATGACT
73326139 GAAATTCCAC
Statistics
Matches: 128, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
25 16 0.12
26 49 0.38
27 63 0.49
ACGTcount: A:0.26, C:0.16, G:0.17, T:0.41
Consensus pattern (27 bp):
TAAAATGACTATTTTGCCCTTATGTGG
Found at i:73326157 original size:54 final size:54
Alignment explanation
Indices: 73325993--73326167 Score: 162
Period size: 54 Copynumber: 3.3 Consensus size: 54
73325983 TTTTCCCTTG
* * * * *** *
73325993 TGGTAAAATGACTGTTTTGCCCTTATGTGGT-AAATAACTGTTTTGCCCTTA-TG
1 TGGTAAAATGACTATTTTTCCCTCATGTGGTAAAATGACTAAATTGCCC-TACTA
* ** * *
73326046 TGGT-AAATGACTATTTTTCCCTTATGTGGTAAAATGACTATTTTGCCCTTCTG
1 TGGTAAAATGACTATTTTTCCCTCATGTGGTAAAATGACTAAATTGCCCTACTA
73326099 TGGTAAAATGACTATTTTTCCCTCATGTGGTAAAATGACTGAAATT-CCACTAC-A
1 TGGTAAAATGACTATTTTTCCCTCATGTGGTAAAATGACT-AAATTGCC-CTACTA
*
73326153 TGGTAAATTGACTAT
1 TGGTAAAATGACTAT
73326168 GTTGCCCCTA
Statistics
Matches: 106, Mismatches: 11, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
52 25 0.24
53 25 0.24
54 50 0.47
55 6 0.06
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (54 bp):
TGGTAAAATGACTATTTTTCCCTCATGTGGTAAAATGACTAAATTGCCCTACTA
Found at i:73326487 original size:18 final size:18
Alignment explanation
Indices: 73326464--73326505 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
73326454 CATACTTTTT
73326464 ACTATTGCTGCATTGTTC
1 ACTATTGCTGCATTGTTC
* *
73326482 ACTATTGCTGCATTTTTT
1 ACTATTGCTGCATTGTTC
73326500 ACTATT
1 ACTATT
73326506 ACTACAATGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.19, G:0.12, T:0.50
Consensus pattern (18 bp):
ACTATTGCTGCATTGTTC
Found at i:73329806 original size:20 final size:20
Alignment explanation
Indices: 73329781--73329827 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
73329771 TAGACCCACA
*
73329781 TGGGCCTGCAATATGGGACT
1 TGGGCCCGCAATATGGGACT
*
73329801 TGGGCCCGCAATATGGGCCT
1 TGGGCCCGCAATATGGGACT
73329821 TGGGCCC
1 TGGGCCC
73329828 ATTTTCTCTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.15, C:0.28, G:0.36, T:0.21
Consensus pattern (20 bp):
TGGGCCCGCAATATGGGACT
Found at i:73329952 original size:27 final size:27
Alignment explanation
Indices: 73329922--73330010 Score: 133
Period size: 27 Copynumber: 3.3 Consensus size: 27
73329912 TCTTAATTGA
* *
73329922 TAAAATGAGTGTTTTTCCCTTATCTGG
1 TAAAATGATTGTTTTTCCCTTATATGG
* *
73329949 TAAAATGATTGTTTTGCCCTTATGTGG
1 TAAAATGATTGTTTTTCCCTTATATGG
*
73329976 TAAAATGATTATTTTTCCCTTATATGG
1 TAAAATGATTGTTTTTCCCTTATATGG
73330003 TAAAATGA
1 TAAAATGA
73330011 CTGAAATGCC
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.28, C:0.11, G:0.17, T:0.44
Consensus pattern (27 bp):
TAAAATGATTGTTTTTCCCTTATATGG
Found at i:73330031 original size:54 final size:54
Alignment explanation
Indices: 73329922--73330033 Score: 134
Period size: 54 Copynumber: 2.1 Consensus size: 54
73329912 TCTTAATTGA
* * * *** * **
73329922 TAAAATGAGTGTTTTTCCCTTATCTGGTAAAATGATTGTTTTGCCCTTATGTGG
1 TAAAATGAGTATTTTTCCCTTATATGGTAAAATGACTGAAATGCCCCTACATGG
*
73329976 TAAAATGATTATTTTTCCCTTATATGGTAAAATGACTGAAATGCCCCTACATGG
1 TAAAATGAGTATTTTTCCCTTATATGGTAAAATGACTGAAATGCCCCTACATGG
73330030 TAAA
1 TAAA
73330034 TTGACTGTTT
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.39
Consensus pattern (54 bp):
TAAAATGAGTATTTTTCCCTTATATGGTAAAATGACTGAAATGCCCCTACATGG
Found at i:73334099 original size:21 final size:21
Alignment explanation
Indices: 73334075--73334142 Score: 57
Period size: 21 Copynumber: 3.1 Consensus size: 21
73334065 CACATGCATC
73334075 ATGAACTCAGACCACAACTCA
1 ATGAACTCAGACCACAACTCA
** * *
73334096 ATGAGTTCAGATGTCACAAAT-A
1 ATGAACTCAGA--CCACAACTCA
73334118 TCATGAACTCAGACCACAACTCA
1 --ATGAACTCAGACCACAACTCA
73334141 AT
1 AT
73334143 AAGTTCAGAT
Statistics
Matches: 34, Mismatches: 8, Indels: 10
0.65 0.15 0.19
Matches are distributed among these distances:
21 11 0.32
22 7 0.21
23 7 0.21
24 9 0.26
ACGTcount: A:0.41, C:0.26, G:0.12, T:0.21
Consensus pattern (21 bp):
ATGAACTCAGACCACAACTCA
Found at i:73334112 original size:45 final size:45
Alignment explanation
Indices: 73334062--73334152 Score: 146
Period size: 45 Copynumber: 2.0 Consensus size: 45
73334052 CCAAAACATG
** *
73334062 TGTCACATGCATCATGAACTCAGACCACAACTCAATGAGTTCAGA
1 TGTCACAAACATCATGAACTCAGACCACAACTCAATAAGTTCAGA
*
73334107 TGTCACAAATATCATGAACTCAGACCACAACTCAATAAGTTCAGA
1 TGTCACAAACATCATGAACTCAGACCACAACTCAATAAGTTCAGA
73334152 T
1 T
73334153 CACATAGTTC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.38, C:0.25, G:0.13, T:0.23
Consensus pattern (45 bp):
TGTCACAAACATCATGAACTCAGACCACAACTCAATAAGTTCAGA
Found at i:73337166 original size:45 final size:44
Alignment explanation
Indices: 73337054--73337166 Score: 118
Period size: 45 Copynumber: 2.5 Consensus size: 44
73337044 TACGTCTAAG
* * * *
73337054 AATGAGTAAGACCATAGTTGAAAGATGCTATGGCGTCATGATAA
1 AATGAGTAAGAACATAGTTGAAAGATGCTAAGGCATCATAATAA
* * *
73337098 AATTGAGTAAGAACATAGCTGAAAGATGCTAAGGCATTATAACTGA
1 AA-TGAGTAAGAACATAGTTGAAAGATGCTAAGGCATCATAA-TAA
* * *
73337144 AATGACTAAGATCATGGTTGAAA
1 AATGAGTAAGAACATAGTTGAAA
73337167 AACACCATGA
Statistics
Matches: 56, Mismatches: 11, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
44 2 0.04
45 50 0.89
46 4 0.07
ACGTcount: A:0.42, C:0.11, G:0.23, T:0.25
Consensus pattern (44 bp):
AATGAGTAAGAACATAGTTGAAAGATGCTAAGGCATCATAATAA
Found at i:73338401 original size:28 final size:28
Alignment explanation
Indices: 73338356--73338424 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 28
73338346 TTTAGAGTAC
* *
73338356 ACCACAAAGG-TT-TTTTTTCGTAGATA
1 ACCACAAAGGCTTCATTTTTAGTAGATA
* *
73338382 ACCATAAAGGCTTCATTTTTAGTAGATC
1 ACCACAAAGGCTTCATTTTTAGTAGATA
*
73338410 CCCACAAAGGCTTCA
1 ACCACAAAGGCTTCA
73338425 CCATAAAGAC
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
26 9 0.26
27 2 0.06
28 24 0.69
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (28 bp):
ACCACAAAGGCTTCATTTTTAGTAGATA
Found at i:73343730 original size:27 final size:26
Alignment explanation
Indices: 73343695--73343863 Score: 194
Period size: 27 Copynumber: 6.2 Consensus size: 26
73343685 AGCATGGCTG
* *
73343695 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
73343721 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
73343749 CCAGAACAGAAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
*
73343776 CCAGATCAGATAATTGTGGTGGCAGAGCCA
1 CCAGAACAGATAA---T-GTGGCAGAGCCA
*
73343806 CCAGAACAGAAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
73343833 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
73343860 CCAG
1 CCAG
73343864 GACGCTTCCT
Statistics
Matches: 124, Mismatches: 10, Indels: 17
0.82 0.07 0.11
Matches are distributed among these distances:
26 7 0.06
27 75 0.60
28 18 0.15
29 1 0.01
30 22 0.18
31 1 0.01
ACGTcount: A:0.37, C:0.22, G:0.25, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:73343811 original size:57 final size:57
Alignment explanation
Indices: 73343695--73343851 Score: 241
Period size: 57 Copynumber: 2.8 Consensus size: 57
73343685 AGCATGGCTG
* * * *
73343695 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAA---TCGTGGCAGAGCCA
1 CCAGAACAGAAATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGTGGCAGAGCCA
73343749 CCAGAACAGAAATATGTGGCAGAGCCACCAGATCAGATAATTGTGGTGGCAGAGCCA
1 CCAGAACAGAAATATGTGGCAGAGCCACCAGATCAGATAATTGTGGTGGCAGAGCCA
73343806 CCAGAACAGAAATATGTGGCAGAGCCACCAGATCAGATAATTGTGG
1 CCAGAACAGAAATATGTGGCAGAGCCACCAGATCAGATAATTGTGG
73343852 CATAGCCACC
Statistics
Matches: 95, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
54 18 0.19
55 18 0.19
57 59 0.62
ACGTcount: A:0.37, C:0.21, G:0.26, T:0.16
Consensus pattern (57 bp):
CCAGAACAGAAATATGTGGCAGAGCCACCAGATCAGATAATTGTGGTGGCAGAGCCA
Found at i:73345305 original size:24 final size:24
Alignment explanation
Indices: 73345278--73345348 Score: 124
Period size: 24 Copynumber: 3.0 Consensus size: 24
73345268 CTAGATTTCC
**
73345278 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
73345302 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
73345326 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
73345349 CTCCTGACAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.25, C:0.38, G:0.01, T:0.35
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:73348881 original size:27 final size:27
Alignment explanation
Indices: 73348850--73349027 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
73348840 TAAATTGTAC
*
73348850 AGCACTAAGGGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * ** *
73348877 TGCACTAAGTGGGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * * *
73348903 ATGCACTGAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
73348931 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
73348959 AGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* *
73348986 AGCACTAAGTGTGCGATTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
73349013 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
73349028 GACTAAAGAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:73348991 original size:82 final size:81
Alignment explanation
Indices: 73348851--73349006 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
73348841 AAATTGTACA
* *
73348851 GCACTAAGGGTGCGATTTGACTATGTTGCACTAAGTGGGCGAAATGAATATGATGCACTGAGTGT
1 GCACTAAGGGTGCGATTTGACTATGTAGCACTAAGTGGGCGAAATGAATATGATGCACTAAGTGT
73348916 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* * ** *
73348932 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATG-TAGCACTAAGT
1 GCACTAAGGGTGCGA-TTTGACTATGTAGCACTAAGTGGGCGAAATGAATATGAT-GCACTAAGT
*
73348996 GTGCGATTTGA
64 GTGCGAATTGA
73349007 TTATATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.77
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (81 bp):
GCACTAAGGGTGCGATTTGACTATGTAGCACTAAGTGGGCGAAATGAATATGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:73349018 original size:82 final size:81
Alignment explanation
Indices: 73348847--73349027 Score: 211
Period size: 82 Copynumber: 2.2 Consensus size: 81
73348837 GATTAAATTG
* * *
73348847 TACAGCACTAAGGGTGCGATTTGACTATGTTGCACTAAGTGGGCGAAATGAATATGATGCACTGA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGGGCGAAATGAATATGATGCACTAA
73348912 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
73348928 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGGGCGAAATGAATATGAT-GCACT
* **
73348992 AAGTGTGCGATTTGATTA
64 AAGTGTGCGAATTGACCA
* *
73349010 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
73349028 GACTAAAGAT
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 17 0.21
82 65 0.79
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGGGCGAAATGAATATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:73353723 original size:47 final size:47
Alignment explanation
Indices: 73353623--73353809 Score: 266
Period size: 47 Copynumber: 3.9 Consensus size: 47
73353613 TAGTATGGCG
*
73353623 TAATGGCTGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
73353672 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* *
73353719 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* * * * * * *
73353766 GAGTCGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
73353810 TCCCGAAGGG
Statistics
Matches: 126, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
47 98 0.78
49 28 0.22
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
Found at i:73357858 original size:77 final size:77
Alignment explanation
Indices: 73357765--73357918 Score: 272
Period size: 77 Copynumber: 2.0 Consensus size: 77
73357755 GAATGGAAGC
73357765 TGTGCACCAGGTAGGAAACCGAAAAAAGGAGGTGAGACCATCGGACTGCTTAAGTACCAAGCTCT
1 TGTGCACCAGGTAGGAAACCGAAAAAAGGAGGTGAGACCATCGGACTGCTTAAGTACCAAGCTCT
73357830 TTCGGATCCAAT
66 TTCGGATCCAAT
* * *
73357842 TGTGCACCAGGTAGGAAACCGGAAAAAGGAGGTGAGTCCATCGGACTGCTTCAGTACCAAGCTCT
1 TGTGCACCAGGTAGGAAACCGAAAAAAGGAGGTGAGACCATCGGACTGCTTAAGTACCAAGCTCT
*
73357907 TTCTGATCCAAT
66 TTCGGATCCAAT
73357919 CCTAGACATG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
77 73 1.00
ACGTcount: A:0.31, C:0.23, G:0.26, T:0.21
Consensus pattern (77 bp):
TGTGCACCAGGTAGGAAACCGAAAAAAGGAGGTGAGACCATCGGACTGCTTAAGTACCAAGCTCT
TTCGGATCCAAT
Found at i:73358391 original size:104 final size:104
Alignment explanation
Indices: 73358211--73358418 Score: 380
Period size: 104 Copynumber: 2.0 Consensus size: 104
73358201 AAAACCCAAA
73358211 TCATCAAAGTAAAGAAAATTGAAGTCCAAATCACCAGAAGAAATCCATATTGCAGAACAAGTGGC
1 TCATCAAAGTAAAGAAAATTGAAGTCCAAATCACCAGAAGAAATCCATATTGCAGAACAAGTGGC
*
73358276 CACTCTGAATCCCACGCAGCTCCAAGCCCACTATGGCTG
66 CACTCCGAATCCCACGCAGCTCCAAGCCCACTATGGCTG
**
73358315 TCATCAAAGTAAAGAAAATTGAAGTCCAAATCACCAGAAGAAATCCATATTGCAGAATGAGTGGC
1 TCATCAAAGTAAAGAAAATTGAAGTCCAAATCACCAGAAGAAATCCATATTGCAGAACAAGTGGC
*
73358380 CACTCCGAATCCCTCGCAGCTCCAAGCCCACTATGGCTG
66 CACTCCGAATCCCACGCAGCTCCAAGCCCACTATGGCTG
73358419 GGGATTACCT
Statistics
Matches: 100, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
104 100 1.00
ACGTcount: A:0.37, C:0.27, G:0.18, T:0.19
Consensus pattern (104 bp):
TCATCAAAGTAAAGAAAATTGAAGTCCAAATCACCAGAAGAAATCCATATTGCAGAACAAGTGGC
CACTCCGAATCCCACGCAGCTCCAAGCCCACTATGGCTG
Found at i:73358752 original size:27 final size:26
Alignment explanation
Indices: 73358717--73358828 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
73358707 AGCATGGCTG
** *
73358717 CCAGAACAGATAATGTGATAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
73358743 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
73358771 CCAGAACAGAAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
73358798 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
73358825 CCAG
1 CCAG
73358829 GACGCTTCCT
Statistics
Matches: 75, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 6 0.08
27 53 0.71
28 16 0.21
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:73358808 original size:54 final size:54
Alignment explanation
Indices: 73358717--73358828 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
73358707 AGCATGGCTG
* * *
73358717 CCAGAACAGATAATGTGATAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * *
73358771 CCAGAACAGAAATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGAAA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
73358825 CCAG
1 CCAG
73358829 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 34 0.67
55 17 0.33
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (54 bp):
CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:73360272 original size:24 final size:24
Alignment explanation
Indices: 73360245--73360291 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
73360235 CTAGATTTGC
** *
73360245 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAACTCCGAAATCCTA
73360269 TCCCTTATCAACTCCGAAATCCT
1 TCCCTTATCAACTCCGAAATCCT
73360292 CTCCTGATAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.23, C:0.38, G:0.04, T:0.34
Consensus pattern (24 bp):
TCCCTTATCAACTCCGAAATCCTA
Found at i:73365119 original size:49 final size:49
Alignment explanation
Indices: 73365014--73365142 Score: 124
Period size: 49 Copynumber: 2.7 Consensus size: 49
73365004 CTTCGGGACT
* * * *
73365014 TATCACAT-T-TATGCACTTTCACATCCATCACGTTGGCCACTCGGCCC
1 TATCACATATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
* * * *
73365061 TGTCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
* *
73365110 TATCTC--ATATATGCA-TGTTCACATCCATCACAT
1 TATCACATATATATACACT-TTCACATCCATCACAT
73365143 AGAATCCTAA
Statistics
Matches: 67, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
46 1 0.01
47 30 0.45
48 1 0.01
49 35 0.52
ACGTcount: A:0.26, C:0.31, G:0.10, T:0.33
Consensus pattern (49 bp):
TATCACATATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
Found at i:73367435 original size:112 final size:113
Alignment explanation
Indices: 73367197--73367436 Score: 430
Period size: 112 Copynumber: 2.1 Consensus size: 113
73367187 CACTTTTTTT
73367197 TGTTTTTCTTTCCTTCAACTCACGGCAAGGGGGGGGACAATCACACATATCCTTTCTTTTTTTTT
1 TGTTTTTCTTTCCTTCAACTCACGGCAAGGGGGGGGACAATCACACATATCCTTTC-TTTTTTTT
73367262 TTTCTTTCTCATCCTACTAACACTAATATTTTATTGCCCATGCTCTTTA
65 TTTCTTTCTCATCCTACTAACACTAATATTTTATTGCCCATGCTCTTTA
73367311 TGTTTTTCTTTCCTTCAACTCACGGCAAGGGGGGGGACAATCACACATATCCTTTC-TTTTTTTT
1 TGTTTTTCTTTCCTTCAACTCACGGCAAGGGGGGGGACAATCACACATATCCTTTCTTTTTTTTT
*
73367375 TTGTTTCTCATCCTACTAACACTAATATTTTATTGCCCATGCTCTTTA
66 TTCTTTCTCATCCTACTAACACTAATATTTTATTGCCCATGCTCTTTA
*
73367423 T-TTTATTGTTTCCT
1 TGTTT-TTCTTTCCT
73367437 CCCATGATGC
Statistics
Matches: 123, Mismatches: 2, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
111 3 0.02
112 64 0.52
114 56 0.46
ACGTcount: A:0.20, C:0.24, G:0.12, T:0.45
Consensus pattern (113 bp):
TGTTTTTCTTTCCTTCAACTCACGGCAAGGGGGGGGACAATCACACATATCCTTTCTTTTTTTTT
TTCTTTCTCATCCTACTAACACTAATATTTTATTGCCCATGCTCTTTA
Found at i:73372700 original size:27 final size:27
Alignment explanation
Indices: 73372669--73372846 Score: 223
Period size: 27 Copynumber: 6.6 Consensus size: 27
73372659 TAAATTGTAC
73372669 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
73372696 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
73372722 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
73372750 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
73372778 AGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* *
73372805 AGCACTAAGTGTGCGATTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
73372832 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
73372847 GACTAAAGAT
Statistics
Matches: 132, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
27 109 0.83
28 23 0.17
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:73372783 original size:82 final size:81
Alignment explanation
Indices: 73372670--73372825 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
73372660 AAATTGTACA
*
73372670 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTA-GCACTAAGTG
73372734 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
73372751 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTG
*
73372816 TGCGATTTGA
65 TGCGAATTGA
73372826 TTATATAGCA
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 15 0.22
82 52 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.31
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:73372837 original size:82 final size:81
Alignment explanation
Indices: 73372666--73372846 Score: 238
Period size: 82 Copynumber: 2.2 Consensus size: 81
73372656 GATTAAATTG
*
73372666 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
73372731 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
73372747 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGAT-GCACT
* **
73372811 AAGTGTGCGATTTGATTA
64 AAGTGTGCGAATTGACCA
* *
73372829 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
73372847 GACTAAAGAT
Statistics
Matches: 85, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
81 18 0.21
82 67 0.79
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:73377364 original size:22 final size:22
Alignment explanation
Indices: 73377322--73377415 Score: 86
Period size: 22 Copynumber: 4.2 Consensus size: 22
73377312 AATTAACACC
73377322 AATTATTTTTTAAATATTTAATTT
1 AATTATTTTTTAAA-A-TTAATTT
*
73377346 AATTA-TTTTTAAAGATTAATGT
1 AATTATTTTTTAAA-ATTAATTT
* **
73377368 AATTA-ATAGT-AAATTACATTT
1 AATTATTTTTTAAAATTA-ATTT
*
73377389 TATTATTTTTTAAAATTAATTT
1 AATTATTTTTTAAAATTAATTT
73377411 AATTA
1 AATTA
73377416 AATATTGAAA
Statistics
Matches: 56, Mismatches: 11, Indels: 8
0.75 0.15 0.11
Matches are distributed among these distances:
20 4 0.07
21 9 0.16
22 23 0.41
23 15 0.27
24 5 0.09
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.54
Consensus pattern (22 bp):
AATTATTTTTTAAAATTAATTT
Found at i:73389787 original size:9 final size:9
Alignment explanation
Indices: 73389767--73389821 Score: 65
Period size: 9 Copynumber: 6.1 Consensus size: 9
73389757 TATAGTTTGA
*
73389767 TATTCGAAT
1 TATTTGAAT
*
73389776 TATTTGAGT
1 TATTTGAAT
73389785 TATTTGAAT
1 TATTTGAAT
73389794 TATTTGAAT
1 TATTTGAAT
* *
73389803 TATTCGAGT
1 TATTTGAAT
*
73389812 TATTCGAAT
1 TATTTGAAT
73389821 T
1 T
73389822 TGAAAACTCA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 40 1.00
ACGTcount: A:0.29, C:0.05, G:0.15, T:0.51
Consensus pattern (9 bp):
TATTTGAAT
Found at i:73389793 original size:18 final size:18
Alignment explanation
Indices: 73389767--73389821 Score: 74
Period size: 18 Copynumber: 3.1 Consensus size: 18
73389757 TATAGTTTGA
*
73389767 TATTCGAATTATTTGAGT
1 TATTCGAATTATTTGAAT
*
73389785 TATTTGAATTATTTGAAT
1 TATTCGAATTATTTGAAT
* *
73389803 TATTCGAGTTATTCGAAT
1 TATTCGAATTATTTGAAT
73389821 T
1 T
73389822 TGAAAACTCA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.29, C:0.05, G:0.15, T:0.51
Consensus pattern (18 bp):
TATTCGAATTATTTGAAT
Found at i:73389802 original size:27 final size:27
Alignment explanation
Indices: 73389767--73389821 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
73389757 TATAGTTTGA
* *
73389767 TATTCGAATTATTTGAGTTATTTGAAT
1 TATTCGAATTATTCGAGTTATTCGAAT
*
73389794 TATTTGAATTATTCGAGTTATTCGAAT
1 TATTCGAATTATTCGAGTTATTCGAAT
73389821 T
1 T
73389822 TGAAAACTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.29, C:0.05, G:0.15, T:0.51
Consensus pattern (27 bp):
TATTCGAATTATTCGAGTTATTCGAAT
Found at i:73389898 original size:18 final size:17
Alignment explanation
Indices: 73389875--73389924 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 17
73389865 TGAGTTGACT
73389875 TGAATAACTCGATTAACC
1 TGAATAACTCGATTAA-C
*
73389893 TGAATAATTCGATTAAC
1 TGAATAACTCGATTAAC
*
73389910 TCAAATAACTCGATT
1 T-GAATAACTCGATT
73389925 TGTTTAGCTC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
17 2 0.07
18 26 0.93
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (17 bp):
TGAATAACTCGATTAAC
Found at i:73392323 original size:6 final size:6
Alignment explanation
Indices: 73392312--73392339 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
73392302 TCTAGGTCAT
73392312 TTTTCA TTTTCA TTTTCA TTTTCA TTTT
1 TTTTCA TTTTCA TTTTCA TTTTCA TTTT
73392340 GGAGAAAACC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (6 bp):
TTTTCA
Found at i:73392417 original size:57 final size:58
Alignment explanation
Indices: 73392310--73392436 Score: 158
Period size: 57 Copynumber: 2.2 Consensus size: 58
73392300 TTTCTAGGTC
* *
73392310 ATTTTTCATTT-T-CATTTTCATTTTCATTTTGGAGAAAACCACATTCATTTCCAAAT
1 ATTTCTCATTTCTCCATTTTCATTTTCATTTTGGAGAAAACCACATACATTTCCAAAT
*
73392366 GA-TTCT-ATTTCTCCATTTTCATTTTCATTTTGGAGAAAA-TA-ATAACAATTTCCAAAT
1 -ATTTCTCATTTCTCCATTTTCATTTTCATTTTGGAGAAAACCACAT-AC-ATTTCCAAAT
73392423 ATTTCTCATTTCTC
1 ATTTCTCATTTCTC
73392437 TATATTCACC
Statistics
Matches: 61, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
55 6 0.10
56 7 0.11
57 41 0.67
58 7 0.11
ACGTcount: A:0.29, C:0.18, G:0.06, T:0.47
Consensus pattern (58 bp):
ATTTCTCATTTCTCCATTTTCATTTTCATTTTGGAGAAAACCACATACATTTCCAAAT
Found at i:73400008 original size:40 final size:39
Alignment explanation
Indices: 73399949--73400080 Score: 158
Period size: 40 Copynumber: 3.3 Consensus size: 39
73399939 CATTTGAATG
*
73399949 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTG-TT
* * *
73399989 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGTT
* * * *
73400029 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGT-GTT
73400069 ATATCC-GGCTAA
1 ATATCCGGGCTAA
73400081 ATTCCGAAGA
Statistics
Matches: 77, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
39 6 0.08
40 69 0.90
41 2 0.03
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGTT
Found at i:73406886 original size:3 final size:3
Alignment explanation
Indices: 73406878--73406946 Score: 54
Period size: 3 Copynumber: 22.7 Consensus size: 3
73406868 CTATACAAAA
* *
73406878 AAT AAT AAT AAC AGT AAT AAT AA- AAT AACT AAAT AACT AA- ATAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T -AAT AA-T AAT A-AT AAT
*
73406925 AAT AA- AAT AAT AAT AAA AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AA
73406947 GGAAATGGCC
Statistics
Matches: 53, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
2 5 0.09
3 40 0.75
4 6 0.11
5 2 0.04
ACGTcount: A:0.68, C:0.04, G:0.01, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:73406928 original size:16 final size:15
Alignment explanation
Indices: 73406878--73406940 Score: 53
Period size: 13 Copynumber: 4.1 Consensus size: 15
73406868 CTATACAAAA
73406878 AATAATAATAACAGTAAT
1 AATAA-AATAAC--TAAT
73406896 AATAAAATAACTAAAT
1 AATAAAATAACT-AAT
73406912 AACT-AAAT-A-TAAT
1 AA-TAAAATAACTAAT
73406925 AATAAAATAA-TAAT
1 AATAAAATAACTAAT
73406939 AA
1 AA
73406941 AAATAAGGAA
Statistics
Matches: 41, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
12 1 0.02
13 9 0.22
14 8 0.20
15 2 0.05
16 9 0.22
17 7 0.17
18 5 0.12
ACGTcount: A:0.67, C:0.05, G:0.02, T:0.27
Consensus pattern (15 bp):
AATAAAATAACTAAT
Found at i:73406943 original size:12 final size:12
Alignment explanation
Indices: 73406875--73406946 Score: 65
Period size: 12 Copynumber: 5.7 Consensus size: 12
73406865 CAACTATACA
73406875 AAAAATAATAAT
1 AAAAATAATAAT
* *
73406887 AACAGTAATAAT
1 AAAAATAATAAT
73406899 AAAATAACTAAATAACT
1 -AAA-AA-T-AATAA-T
*
73406916 AAATATAATAAT
1 AAAAATAATAAT
73406928 -AAAATAATAAT
1 AAAAATAATAAT
73406939 AAAAATAA
1 AAAAATAA
73406947 GGAAATGGCC
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
11 10 0.21
12 18 0.38
13 7 0.15
14 2 0.04
15 2 0.04
16 8 0.17
17 1 0.02
ACGTcount: A:0.69, C:0.04, G:0.01, T:0.25
Consensus pattern (12 bp):
AAAAATAATAAT
Found at i:73415393 original size:29 final size:27
Alignment explanation
Indices: 73415377--73415498 Score: 118
Period size: 27 Copynumber: 4.5 Consensus size: 27
73415367 ATTAAGTCCG
73415377 CACACTCAGTGCTATATAATCAACTCC
1 CACACTCAGTGCTATATAATCAACTCC
* * *
73415404 CACACTTAGTGCTACATAATCAAACTCG
1 CACACTCAGTGCTATATAATC-AACTCC
* * * *
73415432 CACACTTAGTGCTACATAGTCAACTCG
1 CACACTCAGTGCTATATAATCAACTCC
* * * * *
73415459 CACACTTAGTGCTACATAGTCAATTCG
1 CACACTCAGTGCTATATAATCAACTCC
*
73415486 CACACTTAGTGCT
1 CACACTCAGTGCT
73415499 GCACAATTTA
Statistics
Matches: 89, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
27 64 0.72
28 25 0.28
ACGTcount: A:0.31, C:0.30, G:0.12, T:0.27
Consensus pattern (27 bp):
CACACTCAGTGCTATATAATCAACTCC
Found at i:73415463 original size:55 final size:54
Alignment explanation
Indices: 73415375--73415498 Score: 185
Period size: 55 Copynumber: 2.3 Consensus size: 54
73415365 ATATTAAGTC
* *
73415375 CGCACACTCAGTGCTATATAATCAACTCCCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAACTCCCACACTTAGTGCTACATAATC-AACT
* * * *
73415430 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAATCAACTCCCACACTTAGTGCTACATAATCAACT
73415484 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
73415499 GCACAATTTA
Statistics
Matches: 63, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
54 18 0.29
55 45 0.71
ACGTcount: A:0.31, C:0.30, G:0.13, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCCCACACTTAGTGCTACATAATCAACT
Found at i:73431098 original size:6 final size:6
Alignment explanation
Indices: 73431089--73431133 Score: 56
Period size: 6 Copynumber: 7.7 Consensus size: 6
73431079 TAAAACAACT
* * *
73431089 AAAAAC AAAAAC AAAAAG AAAGAG AAAAAG AAAAAG -AAAAG AAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAA
73431134 GAATTAAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
5 5 0.14
6 30 0.86
ACGTcount: A:0.82, C:0.04, G:0.13, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:73431290 original size:52 final size:52
Alignment explanation
Indices: 73431193--73431296 Score: 127
Period size: 52 Copynumber: 2.0 Consensus size: 52
73431183 ACCGGAGCTG
* * ** * *
73431193 AAGAAGAGATGTGGAGGTGCTGAAAGATCTACTGGAAGGTTGCATCAATACT
1 AAGAAGACATGTAGAGGTGCTGAAAGATCTACTACAACGTCGCATCAATACT
* * *
73431245 AAGAAGACATGTAGAGGTGCTGATAGATTTGCTACAACGTCGCATCAATACT
1 AAGAAGACATGTAGAGGTGCTGAAAGATCTACTACAACGTCGCATCAATACT
73431297 GTTGAACCGC
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
52 43 1.00
ACGTcount: A:0.35, C:0.14, G:0.27, T:0.24
Consensus pattern (52 bp):
AAGAAGACATGTAGAGGTGCTGAAAGATCTACTACAACGTCGCATCAATACT
Found at i:73433023 original size:12 final size:10
Alignment explanation
Indices: 73432990--73433033 Score: 52
Period size: 10 Copynumber: 4.2 Consensus size: 10
73432980 TATTTTGGAC
73432990 TTAAATAATT
1 TTAAATAATT
73433000 TTAAATAATT
1 TTAAATAATT
73433010 TTATAATAAATT
1 TTA-AAT-AATT
* *
73433022 TTGATTAATT
1 TTAAATAATT
73433032 TT
1 TT
73433034 GATTATTTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
10 19 0.63
11 5 0.17
12 6 0.20
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (10 bp):
TTAAATAATT
Found at i:73433606 original size:19 final size:17
Alignment explanation
Indices: 73433582--73433621 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 17
73433572 CACACCACAA
*
73433582 CTTTCTCATCTCTTCTCTT
1 CTTTCTCAACT-TTCTC-T
73433601 CTTTCTCAACTTTCTCT
1 CTTTCTCAACTTTCTCT
73433618 CTTT
1 CTTT
73433622 GTTTTTCCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 5 0.25
18 5 0.25
19 10 0.50
ACGTcount: A:0.07, C:0.35, G:0.00, T:0.57
Consensus pattern (17 bp):
CTTTCTCAACTTTCTCT
Found at i:73435066 original size:18 final size:18
Alignment explanation
Indices: 73435045--73435082 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
73435035 CGGCCCAAAA
73435045 GTTAGGCCCGAATCTAGC
1 GTTAGGCCCGAATCTAGC
73435063 GTTAGGCCCGAATCTAGC
1 GTTAGGCCCGAATCTAGC
73435081 GT
1 GT
73435083 GTCACATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.21, C:0.26, G:0.29, T:0.24
Consensus pattern (18 bp):
GTTAGGCCCGAATCTAGC
Found at i:73439683 original size:43 final size:42
Alignment explanation
Indices: 73439588--73439692 Score: 131
Period size: 43 Copynumber: 2.5 Consensus size: 42
73439578 AGGGTTACTA
* * * * *
73439588 AGATTACGTGTAAGACCATATCTGGGATATGGCATTGATATG
1 AGATTACATGTAAGACCATAGCTAGGATATGGCATCGATACG
*
73439630 AGACTT-CATGTAAGACCATAGCTAGGCTATTGGCATCGATACG
1 AGA-TTACATGTAAGACCATAGCTAGGATA-TGGCATCGATACG
73439673 AGATTACATGTAAGACCATA
1 AGATTACATGTAAGACCATA
73439693 TCCCATTGGT
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
42 24 0.44
43 30 0.56
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (42 bp):
AGATTACATGTAAGACCATAGCTAGGATATGGCATCGATACG
Found at i:73448775 original size:21 final size:21
Alignment explanation
Indices: 73448750--73448811 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
73448740 TGCAATGAAA
73448750 AATAAAAATGATAAAAATAAT
1 AATAAAAATGATAAAAATAAT
* * *
73448771 CATAACAA-GAATAAACATAAT
1 AATAAAAATG-ATAAAAATAAT
*
73448792 AATAAAAATAATAAAAATAA
1 AATAAAAATGATAAAAATAA
73448812 AACTAGTAAC
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
20 1 0.03
21 31 0.97
ACGTcount: A:0.71, C:0.05, G:0.03, T:0.21
Consensus pattern (21 bp):
AATAAAAATGATAAAAATAAT
Found at i:73448801 original size:9 final size:9
Alignment explanation
Indices: 73448750--73448811 Score: 52
Period size: 9 Copynumber: 6.2 Consensus size: 9
73448740 TGCAATGAAA
73448750 AATAAAAAT
1 AATAAAAAT
*
73448759 GATAAAAAT
1 AATAAAAAT
*
73448768 AATCATAACAAG
1 AAT-A-AA-AAT
73448780 AATAAACATAAT
1 AAT-AA-A-AAT
73448792 AATAAAAAT
1 AATAAAAAT
73448801 AATAAAAAT
1 AATAAAAAT
73448810 AA
1 AA
73448812 AACTAGTAAC
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
9 24 0.56
10 2 0.05
11 5 0.12
12 12 0.28
ACGTcount: A:0.71, C:0.05, G:0.03, T:0.21
Consensus pattern (9 bp):
AATAAAAAT
Found at i:73448805 original size:15 final size:15
Alignment explanation
Indices: 73448747--73448813 Score: 53
Period size: 15 Copynumber: 4.3 Consensus size: 15
73448737 TAGTGCAATG
* *
73448747 AAAAATAAAAATGAT
1 AAAAATAATAATAAT
* *
73448762 AAAAATAATCATAAC
1 AAAAATAATAATAAT
*
73448777 AAGAATAAACATAATAAT
1 AA-AA-ATA-ATAATAAT
*
73448795 AAAAATAATAAAAAT
1 AAAAATAATAATAAT
73448810 AAAA
1 AAAA
73448814 CTAGTAACCA
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
15 24 0.60
16 4 0.10
17 4 0.10
18 8 0.20
ACGTcount: A:0.73, C:0.04, G:0.03, T:0.19
Consensus pattern (15 bp):
AAAAATAATAATAAT
Found at i:73451169 original size:16 final size:17
Alignment explanation
Indices: 73451142--73451176 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
73451132 AGGGTAAGTT
73451142 AATGTGTAAATTTTTTA
1 AATGTGTAAATTTTTTA
*
73451159 AATGTGTAATTTTTTTA
1 AATGTGTAAATTTTTTA
73451176 A
1 A
73451177 GAGCTTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.54
Consensus pattern (17 bp):
AATGTGTAAATTTTTTA
Found at i:73454361 original size:46 final size:46
Alignment explanation
Indices: 73454308--73454444 Score: 184
Period size: 46 Copynumber: 3.0 Consensus size: 46
73454298 TATATATACA
* * *
73454308 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCACATTAGCCATTCGGCTTTACCACATATC
* ** *
73454354 CATCTCATACACGTTTCGTATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCACATTAGCCATTCGGCTTTACCACATATC
* * *
73454400 TATCTCATACACATTTCTCATTAGCCATTCGGCCTTACCACATAT
1 CATCTCATACACATTTCACATTAGCCATTCGGCTTTACCACATAT
73454445 ATACATGTTC
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 78 1.00
ACGTcount: A:0.26, C:0.31, G:0.08, T:0.36
Consensus pattern (46 bp):
CATCTCATACACATTTCACATTAGCCATTCGGCTTTACCACATATC
Found at i:73454479 original size:47 final size:47
Alignment explanation
Indices: 73454418--73454612 Score: 264
Period size: 47 Copynumber: 4.1 Consensus size: 47
73454408 ACACATTTCT
*
73454418 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCA
* * *
73454465 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCA
*
73454512 CATTGGCCATTCGGCCTTATCACACATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTA-C-CAC--ATATATACATGTTCACATTCATCA
* * * **
73454563 CATTTGCCATTCGGCCTTATCTCATATATACACATTCACATTCATCA
1 CATTGGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCA
73454610 CAT
1 CAT
73454613 AAAATCCTAA
Statistics
Matches: 131, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
47 87 0.66
49 4 0.03
51 40 0.31
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.34
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCA
Found at i:73454558 original size:98 final size:94
Alignment explanation
Indices: 73454377--73454612 Score: 305
Period size: 98 Copynumber: 2.5 Consensus size: 94
73454367 TTTCGTATTA
* * * * * *
73454377 GCCATTCGGCTTTACCTCATATCTATCTCATACACATT--TCTCATTAGCCATTCGGCCTTACCA
1 GCCATTCGGCCTTATCTCATATATA-CACATTCACATTCATCACATTAGCCATTCGGCCTTACCA
*
73454440 CATATATACATGTTCACATTCATCACATTG
65 CATATATACAGGTTCACATTCATCACATTG
* ** *
73454470 GCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCAC
1 GCCATTCGGCCTTATCTCATATATACACATTCACATTCATCACATTAGCCATTCGGCCTTA-C-C
*
73454535 ACATATATATACAGGTTCACATTCATCACATTT
64 AC--ATATATACAGGTTCACATTCATCACATTG
73454568 GCCATTCGGCCTTATCTCATATATACACATTCACATTCATCACAT
1 GCCATTCGGCCTTATCTCATATATACACATTCACATTCATCACAT
73454613 AAAATCCTAA
Statistics
Matches: 122, Mismatches: 15, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
92 8 0.07
93 21 0.17
94 20 0.16
95 1 0.01
96 3 0.02
98 69 0.57
ACGTcount: A:0.27, C:0.29, G:0.09, T:0.35
Consensus pattern (94 bp):
GCCATTCGGCCTTATCTCATATATACACATTCACATTCATCACATTAGCCATTCGGCCTTACCAC
ATATATACAGGTTCACATTCATCACATTG
Found at i:73463048 original size:29 final size:29
Alignment explanation
Indices: 73463007--73463084 Score: 102
Period size: 30 Copynumber: 2.7 Consensus size: 29
73462997 TGTTAAATGA
* * *
73463007 AGCCTTTGTGGCTATCTTTGCTAAAGGAT
1 AGCCTTTGTGGCTATCTCTACTAAAGGAC
*
73463036 AGCCTTTGCGGCTAATCTCTACTAAAGGAC
1 AGCCTTTGTGGCT-ATCTCTACTAAAGGAC
*
73463066 AACCTTTGTGGCTATCTCT
1 AGCCTTTGTGGCTATCTCT
73463085 GTCAAGAAAC
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
29 18 0.43
30 24 0.57
ACGTcount: A:0.22, C:0.23, G:0.21, T:0.35
Consensus pattern (29 bp):
AGCCTTTGTGGCTATCTCTACTAAAGGAC
Found at i:73463063 original size:30 final size:29
Alignment explanation
Indices: 73462862--73463084 Score: 115
Period size: 29 Copynumber: 7.7 Consensus size: 29
73462852 TGTATAAGTG
*
73462862 AGCCTTTGTGGCTATCTCTATTATAAGGA-
1 AGCCTTTGTGGCTATCTCTACTA-AAGGAC
* ** *
73462891 AGTCTTTGTGGCTATCTCTGTTAAAAGA-
1 AGCCTTTGTGGCTATCTCTACTAAAGGAC
* *
73462919 ACGCCTTCGTGGCTATCTCT--GAAAGGA-
1 A-GCCTTTGTGGCTATCTCTACTAAAGGAC
* * *
73462946 ATGCCTTTTTGGCAATACTCTA--AAAGGAA
1 A-GCCTTTGTGGCTAT-CTCTACTAAAGGAC
* * *
73462975 AGCCTTTGTGG-TGAGTAT-TGAATGTTAAATGA-
1 AGCCTTTGTGGCT-A-TCTCT--A--CTAAAGGAC
* * *
73463007 AGCCTTTGTGGCTATCTTTGCTAAAGGAT
1 AGCCTTTGTGGCTATCTCTACTAAAGGAC
*
73463036 AGCCTTTGCGGCTAATCTCTACTAAAGGAC
1 AGCCTTTGTGGCT-ATCTCTACTAAAGGAC
*
73463066 AACCTTTGTGGCTATCTCT
1 AGCCTTTGTGGCTATCTCT
73463085 GTCAAGAAAC
Statistics
Matches: 153, Mismatches: 25, Indels: 32
0.73 0.12 0.15
Matches are distributed among these distances:
27 18 0.12
28 32 0.21
29 58 0.38
30 24 0.16
31 2 0.01
32 13 0.08
33 6 0.04
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (29 bp):
AGCCTTTGTGGCTATCTCTACTAAAGGAC
Found at i:73467383 original size:40 final size:40
Alignment explanation
Indices: 73467337--73467561 Score: 290
Period size: 40 Copynumber: 5.6 Consensus size: 40
73467327 CTTGCGCAAG
* * *
73467337 GCCTTCGGGTCTTAGCCCGGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
*
73467377 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * * *
73467417 ACCTTCGGGTTTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
73467457 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
73467497 GCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
*
73467538 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
73467562 CATTCGAATA
Statistics
Matches: 157, Mismatches: 25, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
39 1 0.01
40 127 0.81
41 29 0.18
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:73470878 original size:34 final size:34
Alignment explanation
Indices: 73470830--73470924 Score: 136
Period size: 34 Copynumber: 2.8 Consensus size: 34
73470820 GCGAATACAT
* * *
73470830 TCTGGACCTAAGCCCATATCAGTAACAGTAGCAG
1 TCTGGGCCTTAGCCCATTTCAGTAACAGTAGCAG
*
73470864 TCTGGGCCTTAGCCCATTTCAGTAACAGTAGCGG
1 TCTGGGCCTTAGCCCATTTCAGTAACAGTAGCAG
* *
73470898 TTTGGGCTTTAGCCCATTTCAGTAACA
1 TCTGGGCCTTAGCCCATTTCAGTAACA
73470925 TTAATCAGTG
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 55 1.00
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.27
Consensus pattern (34 bp):
TCTGGGCCTTAGCCCATTTCAGTAACAGTAGCAG
Found at i:73470986 original size:18 final size:18
Alignment explanation
Indices: 73470938--73470988 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
73470928 ATCAGTGCAA
*
73470938 TAACAGTAATCAGTGTTG
1 TAACAGTAATCAATGTTG
*
73470956 TAACCA-TGATCAAT-TTAG
1 TAA-CAGTAATCAATGTT-G
73470974 TAACAGTAATCAATG
1 TAACAGTAATCAATG
73470989 CAATATGCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 7
0.72 0.08 0.19
Matches are distributed among these distances:
17 4 0.15
18 20 0.77
19 2 0.08
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (18 bp):
TAACAGTAATCAATGTTG
Found at i:73471284 original size:23 final size:23
Alignment explanation
Indices: 73471257--73471302 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
73471247 CATGCAATGT
73471257 AACATA-ATATCATACATGG-ATGC
1 AACATATATAT-A-ACATGGCATGC
73471280 AACATATATATAACATGGCATGC
1 AACATATATATAACATGGCATGC
73471303 TCAAATACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 6 0.29
23 11 0.52
24 4 0.19
ACGTcount: A:0.43, C:0.17, G:0.13, T:0.26
Consensus pattern (23 bp):
AACATATATATAACATGGCATGC
Found at i:73471295 original size:22 final size:24
Alignment explanation
Indices: 73471257--73471302 Score: 62
Period size: 22 Copynumber: 2.0 Consensus size: 24
73471247 CATGCAATGT
73471257 AACATAATATCATACATGG-ATGC
1 AACATAATATCATACATGGCATGC
73471280 AACAT-ATAT-ATAACATGGCATGC
1 AACATAATATCAT-ACATGGCATGC
73471303 TCAAATACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 2 0.10
22 10 0.48
23 9 0.43
ACGTcount: A:0.43, C:0.17, G:0.13, T:0.26
Consensus pattern (24 bp):
AACATAATATCATACATGGCATGC
Found at i:73471367 original size:27 final size:27
Alignment explanation
Indices: 73471337--73471480 Score: 168
Period size: 27 Copynumber: 5.3 Consensus size: 27
73471327 GAACAAATCT
* *
73471337 GTCATTTTACCTTACAGGGGTATTACA
1 GTCATTTTACCTTATAGGGGTATTTCA
* *
73471364 GTCATTTTACCCTATAGGGGTATTGT-G
1 GTCATTTTACCTTATAGGGGTATT-TCA
* *
73471391 GTCATTCTATCC-TATAGGGGTATTTCG
1 GTCATTTTA-CCTTATAGGGGTATTTCA
73471418 GTCATTTTACCTTAT-GAGGGTATTTCA
1 GTCATTTTACCTTATAG-GGGTATTTCA
* *
73471445 GTCATTTTACCATATGGGGGTATTTCA
1 GTCATTTTACCTTATAGGGGTATTTCA
73471472 GTCATTTTA
1 GTCATTTTA
73471481 TCACATAAGG
Statistics
Matches: 103, Mismatches: 8, Indels: 12
0.84 0.07 0.10
Matches are distributed among these distances:
26 4 0.04
27 96 0.93
28 3 0.03
ACGTcount: A:0.22, C:0.16, G:0.21, T:0.42
Consensus pattern (27 bp):
GTCATTTTACCTTATAGGGGTATTTCA
Found at i:73475109 original size:25 final size:25
Alignment explanation
Indices: 73475075--73475150 Score: 98
Period size: 25 Copynumber: 3.0 Consensus size: 25
73475065 AACCAAACCA
** *
73475075 AGCCTTTGTGGTGAATCATCTGAAG
1 AGCCTTTGTGGCAAATCATCTAAAG
*
73475100 AGCCTTTGTGGCAAATTATCTAAAG
1 AGCCTTTGTGGCAAATCATCTAAAG
* *
73475125 AGCCTTTGTGGCAGATTATCTAAAG
1 AGCCTTTGTGGCAAATCATCTAAAG
73475150 A
1 A
73475151 TTCTTAATGG
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 46 1.00
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.32
Consensus pattern (25 bp):
AGCCTTTGTGGCAAATCATCTAAAG
Found at i:73475161 original size:25 final size:25
Alignment explanation
Indices: 73475108--73475178 Score: 79
Period size: 25 Copynumber: 2.8 Consensus size: 25
73475098 AGAGCCTTTG
* ** **
73475108 TGGCAAATTATCTAAAGAGCCTTTG
1 TGGCAGATTATCTAAAGATTCTTAA
73475133 TGGCAGATTATCTAAAGATTCTTAA
1 TGGCAGATTATCTAAAGATTCTTAA
* *
73475158 TGGCAGATGATCTAAAAATTC
1 TGGCAGATTATCTAAAGATTC
73475179 CTTGTGGCGT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.32
Consensus pattern (25 bp):
TGGCAGATTATCTAAAGATTCTTAA
Found at i:73475186 original size:25 final size:24
Alignment explanation
Indices: 73475130--73475186 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 24
73475120 TAAAGAGCCT
* *
73475130 TTGTGGCAGATTATCTAAAGATTC
1 TTGTGGCAGATGATCTAAAAATTC
*
73475154 TTAATGGCAGATGATCTAAAAATTCC
1 TT-GTGGCAGATGATCTAAAAATT-C
73475180 TTGTGGC
1 TTGTGGC
73475187 GTATTAATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 2 0.07
25 22 0.81
26 3 0.11
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (24 bp):
TTGTGGCAGATGATCTAAAAATTC
Found at i:73477692 original size:14 final size:15
Alignment explanation
Indices: 73477670--73477699 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
73477660 GAATATCAAA
73477670 ACAAGAATTAAGAAC
1 ACAAGAATTAAGAAC
73477685 ACAA-AATTAAGAAC
1 ACAAGAATTAAGAAC
73477699 A
1 A
73477700 AGTGAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.63, C:0.13, G:0.10, T:0.13
Consensus pattern (15 bp):
ACAAGAATTAAGAAC
Found at i:73485952 original size:14 final size:13
Alignment explanation
Indices: 73485929--73485960 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
73485919 GGAATATCAA
73485929 AACAATAATTAAG
1 AACAATAATTAAG
73485942 AACACATAATTAAG
1 AACA-ATAATTAAG
73485956 AACAA
1 AACAA
73485961 GTCAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.62, C:0.12, G:0.06, T:0.19
Consensus pattern (13 bp):
AACAATAATTAAG
Found at i:73489830 original size:79 final size:81
Alignment explanation
Indices: 73489694--73489878 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
73489684 TTGAATGATG
*
73489694 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
73489758 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
73489773 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
73489835 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
73489853 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
73489879 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:73489892 original size:40 final size:40
Alignment explanation
Indices: 73489695--73489878 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
73489685 TGAATGATGT
* * * *
73489695 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
73489735 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
73489775 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
73489813 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
73489854 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
73489879 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:73489900 original size:79 final size:79
Alignment explanation
Indices: 73489747--73489911 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
73489737 GGACTAAGAT
* **
73489747 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
73489812 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
73489826 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
73489889 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
73489905 CCGAAGG
1 CCGAAGG
73489912 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:73497741 original size:79 final size:81
Alignment explanation
Indices: 73497605--73497789 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
73497595 TTGAATGATG
*
73497605 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
73497669 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
73497684 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
73497746 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
73497764 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
73497790 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:73497803 original size:40 final size:40
Alignment explanation
Indices: 73497606--73497789 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
73497596 TGAATGATGT
* * * *
73497606 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
73497646 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
73497686 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
73497724 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
73497765 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
73497790 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:73497811 original size:79 final size:79
Alignment explanation
Indices: 73497658--73497822 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
73497648 GGACTAAGAT
* **
73497658 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
73497723 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
73497737 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
73497800 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
73497816 CCGAAGG
1 CCGAAGG
73497823 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:73505928 original size:40 final size:39
Alignment explanation
Indices: 73505875--73505974 Score: 121
Period size: 40 Copynumber: 2.5 Consensus size: 39
73505865 CTCAGTCTCA
73505875 CACACTAAGTGCCATATATAGCCGAAGTCATTTC-GAATCG
1 CACACTAAGTGCCATATATAGCCGAAGT--TTTCTGAATCG
* * * **
73505915 CACACTAAGTGCCAAATATAGCTGAAGTTTTCTTGACTTT
1 CACACTAAGTGCCATATATAGCCGAAGTTTTC-TGAATCG
73505955 CACACTAAGTGCCATATATA
1 CACACTAAGTGCCATATATA
73505975 TTAGAATTGT
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
38 4 0.08
40 48 0.92
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (39 bp):
CACACTAAGTGCCATATATAGCCGAAGTTTTCTGAATCG
Found at i:73506419 original size:21 final size:21
Alignment explanation
Indices: 73506367--73506419 Score: 51
Period size: 21 Copynumber: 2.7 Consensus size: 21
73506357 GCAGCCCATA
73506367 TTTT-CAATTT-A-TTTACAC
1 TTTTACAATTTAATTTTACAC
* *
73506385 TTTTACCATATAATTTTACA-
1 TTTTACAATTTAATTTTACAC
73506405 TTTTCACAATTTAAT
1 TTTT-ACAATTTAAT
73506420 CCCTTTTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
18 4 0.15
19 4 0.15
20 5 0.19
21 14 0.52
ACGTcount: A:0.32, C:0.15, G:0.00, T:0.53
Consensus pattern (21 bp):
TTTTACAATTTAATTTTACAC
Found at i:73516349 original size:46 final size:46
Alignment explanation
Indices: 73516299--73516392 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
73516289 CCACAAAGTG
73516299 AATGTATGGTTTATAATTCATTATAATGCTCTGTTACTATTAATAA
1 AATGTATGGTTTATAATTCATTATAATGCTCTGTTACTATTAATAA
73516345 AATGTATGGTTTATAATTCATTATAATGCTCTGTTACTATTAATAA
1 AATGTATGGTTTATAATTCATTATAATGCTCTGTTACTATTAATAA
73516391 AA
1 AA
73516393 AAATGCATAA
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:0.09, G:0.11, T:0.45
Consensus pattern (46 bp):
AATGTATGGTTTATAATTCATTATAATGCTCTGTTACTATTAATAA
Found at i:73523854 original size:80 final size:79
Alignment explanation
Indices: 73523709--73523880 Score: 188
Period size: 80 Copynumber: 2.2 Consensus size: 79
73523699 ATGTCTGGGC
* **
73523709 TAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTGTGCGAG
1 TAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTTGAACGAG
73523774 TTA-CTAAATCCGGGT
66 -TAGCTAAATCC-GGT
* * * * *
73523789 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCATTTGAACG
1 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCATTTGAACG
*
73523852 AGTAGCTATATCCGGT
64 AGTAGCTAAATCCGGT
* *
73523868 TAAATTCCGAAGG
1 TAAGTCCCGAAGG
73523881 TATGTGATTT
Statistics
Matches: 78, Mismatches: 11, Indels: 7
0.81 0.11 0.07
Matches are distributed among these distances:
79 17 0.22
80 54 0.69
81 7 0.09
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (79 bp):
TAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTTGAACGAG
TAGCTAAATCCGGT
Found at i:73523861 original size:40 final size:40
Alignment explanation
Indices: 73523705--73523847 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
73523695 AATGATGTCT
* * * *
73523705 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACC
*
73523745 GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-AATCC
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAA-CC
*
73523785 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACC
*
73523825 GGGCTATGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
73523848 AACGAGTAGC
Statistics
Matches: 89, Mismatches: 9, Indels: 10
0.82 0.08 0.09
Matches are distributed among these distances:
39 2 0.02
40 77 0.87
41 10 0.11
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACC
Found at i:73524141 original size:47 final size:47
Alignment explanation
Indices: 73524072--73524527 Score: 768
Period size: 47 Copynumber: 9.6 Consensus size: 47
73524062 AAGGGTTGGT
73524072 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
73524119 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
73524166 AATGTGAAAGTGTATATATATGTGATAAGGTCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
73524215 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
73524262 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
73524309 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
73524358 AATGTGAAAGTGTATATATGTGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATA--TGTGATAAGGCCTAATGGCCGATGTGATG
*
73524407 AATGTGAAAGTGTATATATGCGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
73524454 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
73524501 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
73524528 TCCCGAAGGG
Statistics
Matches: 389, Mismatches: 14, Indels: 12
0.94 0.03 0.03
Matches are distributed among these distances:
47 249 0.64
49 140 0.36
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:73524234 original size:96 final size:94
Alignment explanation
Indices: 73524072--73524527 Score: 768
Period size: 96 Copynumber: 4.8 Consensus size: 94
73524062 AAGGGTTGGT
73524072 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
73524137 TGTGATAAGGCCTAATGGCCGATGTGATG
66 TGTGATAAGGCCTAATGGCCGATGTGATG
*
73524166 AATGTGAAAGTGTATATATATGTGATAAGGTCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
73524231 TATGTGATAAGGCCTAATGGCCGATGTGATG
64 TATGTGATAAGGCCTAATGGCCGATGTGATG
73524262 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATA
73524327 TATGTGATAAGGCCTAATGGCCGATGTGATG
64 TATGTGATAAGGCCTAATGGCCGATGTGATG
73524358 AATGTGAAAGTGTATATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATA--TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
73524423 TATGCGATAAGGCCTAATGGCCGATGTGATG
64 TATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * * * *
73524454 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
73524519 TGTGATAAG
66 TGTGATAAG
73524528 TCCCGAAGGG
Statistics
Matches: 344, Mismatches: 12, Indels: 12
0.93 0.03 0.03
Matches are distributed among these distances:
94 105 0.31
96 198 0.58
98 41 0.12
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (94 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:73524330 original size:143 final size:143
Alignment explanation
Indices: 73524072--73524527 Score: 790
Period size: 143 Copynumber: 3.2 Consensus size: 143
73524062 AAGGGTTGGT
73524072 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
73524137 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGTCTAAT
66 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
73524202 GGCCGATGTGATG
131 GGCCGATGTGATG
73524215 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
73524280 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
66 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
73524345 GGCCGATGTGATG
131 GGCCGATGTGATG
73524358 AATGTGAAAGTGTATATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATA--TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* * * *
73524423 TATGCGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGACAGGGCCGA
64 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTA
* * *
73524486 GTGGCCAACGTGATG
129 ATGGCCGATGTGATG
* *
73524501 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
73524528 TCCCGAAGGG
Statistics
Matches: 301, Mismatches: 10, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
141 9 0.03
143 205 0.68
145 87 0.29
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (143 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
GGCCGATGTGATG
Found at i:73525640 original size:18 final size:18
Alignment explanation
Indices: 73525617--73525654 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
73525607 ACCTCATCAA
73525617 ATTCATGATGTTTTCCAT
1 ATTCATGATGTTTTCCAT
73525635 ATTCATGATGTTTTCCAT
1 ATTCATGATGTTTTCCAT
73525653 AT
1 AT
73525655 GTCTATGCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.24, C:0.16, G:0.11, T:0.50
Consensus pattern (18 bp):
ATTCATGATGTTTTCCAT
Found at i:73527702 original size:10 final size:10
Alignment explanation
Indices: 73527680--73527725 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
73527670 CTATGACTAA
*
73527680 ATGTGATTGT
1 ATGTGATTAT
*
73527690 ATGTAATTAT
1 ATGTGATTAT
*
73527700 ATGTGCTTAT
1 ATGTGATTAT
73527710 ATGTGATTGAT
1 ATGTGATT-AT
73527721 ATGTG
1 ATGTG
73527726 TCGGACTATA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
10 23 0.77
11 7 0.23
ACGTcount: A:0.26, C:0.02, G:0.24, T:0.48
Consensus pattern (10 bp):
ATGTGATTAT
Found at i:73533780 original size:28 final size:28
Alignment explanation
Indices: 73533748--73533817 Score: 90
Period size: 28 Copynumber: 2.5 Consensus size: 28
73533738 ATAGTAAGTC
73533748 CGCACACTTAGTGCT-TA-ATAGTCAAACT
1 CGCACACTTAGTGCTATACA-A-TCAAACT
*
73533776 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
*
73533804 TGCACACTTAGTGC
1 CGCACACTTAGTGC
73533818 CAATCTCATT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
28 34 0.89
29 3 0.08
30 1 0.03
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:73540948 original size:15 final size:15
Alignment explanation
Indices: 73540930--73540963 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
73540920 AATTTTTTTC
73540930 ATTCGATTCAATTCA
1 ATTCGATTCAATTCA
* *
73540945 ATTCGATTCGATTTA
1 ATTCGATTCAATTCA
73540960 ATTC
1 ATTC
73540964 AATTGAACAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.29, C:0.18, G:0.09, T:0.44
Consensus pattern (15 bp):
ATTCGATTCAATTCA
Found at i:73551174 original size:40 final size:40
Alignment explanation
Indices: 73551130--73551209 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
73551120 CTGCTAACTG
73551130 GAGCTAGGTACCCTAACTGCATTTCTCAAATACAGGGAAA
1 GAGCTAGGTACCCTAACTGCATTTCTCAAATACAGGGAAA
*
73551170 GAGCTAGGTACCCTAACTGTATTTCTCAAATACAGGGAAA
1 GAGCTAGGTACCCTAACTGCATTTCTCAAATACAGGGAAA
73551210 TAGAAACCCC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.24
Consensus pattern (40 bp):
GAGCTAGGTACCCTAACTGCATTTCTCAAATACAGGGAAA
Found at i:73551818 original size:39 final size:39
Alignment explanation
Indices: 73551764--73551842 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
73551754 TTCCTCTTCA
73551764 GCATCCAAGAAGTAACAAAAAAAAAAAAAAAAGAAAAAG
1 GCATCCAAGAAGTAACAAAAAAAAAAAAAAAAGAAAAAG
*
73551803 GCATCCAAGAAGTAACAAAAAAAAAAAAAAAAGGAAAAG
1 GCATCCAAGAAGTAACAAAAAAAAAAAAAAAAGAAAAAG
73551842 G
1 G
73551843 AAAAAAAACC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.70, C:0.10, G:0.15, T:0.05
Consensus pattern (39 bp):
GCATCCAAGAAGTAACAAAAAAAAAAAAAAAAGAAAAAG
Found at i:73555667 original size:3 final size:3
Alignment explanation
Indices: 73555659--73555686 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
73555649 ACAGATGCCA
73555659 CAG CAG CAG CAG CAG CAG CAG CAG CAG C
1 CAG CAG CAG CAG CAG CAG CAG CAG CAG C
73555687 TCCCACAGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.36, G:0.32, T:0.00
Consensus pattern (3 bp):
CAG
Found at i:73555695 original size:27 final size:27
Alignment explanation
Indices: 73555677--73555815 Score: 121
Period size: 27 Copynumber: 5.4 Consensus size: 27
73555667 GCAGCAGCAG
73555677 CAGCAGCAGCTCCCACAGCTGCAACAA
1 CAGCAGCAGCTCCCACAGCTGCAACAA
*
73555704 CAGCAGCAGCTTCCACAGCTGCAACAA
1 CAGCAGCAGCTCCCACAGCTGCAACAA
* * *
73555731 CAGCAGCAG---CAACAGCCT-CAGCAG
1 CAGCAGCAGCTCCCACAG-CTGCAACAA
* * **
73555755 CAACAGCCGCTCCCACATTTG---CAA
1 CAGCAGCAGCTCCCACAGCTGCAACAA
* * *
73555779 CAGCAACAACTCCCTCAGCTGCAACAA
1 CAGCAGCAGCTCCCACAGCTGCAACAA
73555806 CAGCAGCAGC
1 CAGCAGCAGC
73555816 AGCAGCAGCA
Statistics
Matches: 85, Mismatches: 19, Indels: 16
0.71 0.16 0.13
Matches are distributed among these distances:
24 32 0.38
25 2 0.02
26 1 0.01
27 50 0.59
ACGTcount: A:0.33, C:0.40, G:0.18, T:0.09
Consensus pattern (27 bp):
CAGCAGCAGCTCCCACAGCTGCAACAA
Found at i:73555752 original size:15 final size:15
Alignment explanation
Indices: 73555734--73555762 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
73555724 GCAACAACAG
73555734 CAGCAGCAACAGCCT
1 CAGCAGCAACAGCCT
73555749 CAGCAGCAACAGCC
1 CAGCAGCAACAGCC
73555763 GCTCCCACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.41, G:0.21, T:0.03
Consensus pattern (15 bp):
CAGCAGCAACAGCCT
Found at i:73555872 original size:24 final size:24
Alignment explanation
Indices: 73555814--73555872 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 24
73555804 AACAGCAGCA
73555814 GCAGCAGCAGCAACTCTCCCAGAT
1 GCAGCAGCAGCAACTCTCCCAGAT
* * *
73555838 GCAACAACAGCAGA-TGC-CCCAGTT
1 GCAGCAGCAGCA-ACT-CTCCCAGAT
73555862 GCAGCAGCAGC
1 GCAGCAGCAGC
73555873 CACAGCTTGC
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
24 26 0.93
25 2 0.07
ACGTcount: A:0.31, C:0.36, G:0.24, T:0.10
Consensus pattern (24 bp):
GCAGCAGCAGCAACTCTCCCAGAT
Found at i:73558793 original size:27 final size:27
Alignment explanation
Indices: 73558741--73558793 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
73558731 ATGATCGTAC
* **
73558741 TAAACTTGTATTTTTTTATATATAAAA
1 TAAACATGTATTTTAATATATATAAAA
73558768 TAAACATGTATTTTAATACTAT-TAAA
1 TAAACATGTATTTTAATA-TATATAAA
73558794 CACATGTTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 19 0.86
28 3 0.14
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.47
Consensus pattern (27 bp):
TAAACATGTATTTTAATATATATAAAA
Found at i:73560204 original size:3 final size:3
Alignment explanation
Indices: 73560198--73560375 Score: 116
Period size: 3 Copynumber: 61.0 Consensus size: 3
73560188 TATCACCCTT
* * * *
73560198 TTA TTA TTA TTA CTA TT- GTA TTA -AA TTA CTA TTA TTA TTA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
73560243 TT- TTT TTA TTA CTA TTA CTA -TA TTA TT- TTA TTT TTA TTT TCTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
* * * * * *
73560286 TTA TTA TTA TCA TTA TTA TTA ATA CTA ATA TTA ATA TTC TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * *
73560334 CTC TTA TTA TTA TCA TTA GTA TTA TTA TCA ATA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
73560376 CTATCGTTTT
Statistics
Matches: 130, Mismatches: 38, Indels: 14
0.71 0.21 0.08
Matches are distributed among these distances:
2 10 0.08
3 118 0.91
4 2 0.02
ACGTcount: A:0.33, C:0.07, G:0.01, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:73560252 original size:22 final size:22
Alignment explanation
Indices: 73560227--73560306 Score: 81
Period size: 22 Copynumber: 3.6 Consensus size: 22
73560217 ATTAAATTAC
73560227 TATTATTATTATTATATTTTTT
1 TATTATTATTATTATATTTTTT
* * *
73560249 TATTACTATTACTATATTATTT
1 TATTATTATTATTATATTTTTT
* * *
73560271 TATTTTTATT-TTCTATTATTAT
1 TATTATTATTATTATATT-TTTT
*
73560293 TATCATTATTATTA
1 TATTATTATTATTA
73560307 ATACTAATAT
Statistics
Matches: 44, Mismatches: 12, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
21 5 0.11
22 37 0.84
23 2 0.05
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (22 bp):
TATTATTATTATTATATTTTTT
Found at i:73564422 original size:15 final size:15
Alignment explanation
Indices: 73564402--73564433 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
73564392 GACTGTTTTG
*
73564402 ATCATCATCATGATC
1 ATCATCATCAGGATC
73564417 ATCATCATCAGGATC
1 ATCATCATCAGGATC
73564432 AT
1 AT
73564434 GGAAATCAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.34, C:0.25, G:0.09, T:0.31
Consensus pattern (15 bp):
ATCATCATCAGGATC
Found at i:73564433 original size:12 final size:12
Alignment explanation
Indices: 73564400--73564424 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
73564390 GGGACTGTTT
73564400 TGATCATCATCA
1 TGATCATCATCA
73564412 TGATCATCATCA
1 TGATCATCATCA
73564424 T
1 T
73564425 CAGGATCATG
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:0.32, C:0.24, G:0.08, T:0.36
Consensus pattern (12 bp):
TGATCATCATCA
Found at i:73565156 original size:6 final size:6
Alignment explanation
Indices: 73565145--73565172 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
73565135 CAATAAAACT
73565145 GAAAAA GAAAAA GAAAAA GAAAAA GAAA
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAA
73565173 TGATGGAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (6 bp):
GAAAAA
Found at i:73566185 original size:5 final size:5
Alignment explanation
Indices: 73566175--73566205 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
73566165 ATGCTATATC
73566175 AAATA AAATA AAATA AAATA AAATA AAATA A
1 AAATA AAATA AAATA AAATA AAATA AAATA A
73566206 TTAAAAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:73566786 original size:15 final size:16
Alignment explanation
Indices: 73566766--73566799 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
73566756 TTAGAGAAGA
73566766 AGAAGAAGAAAAAT-G
1 AGAAGAAGAAAAATAG
*
73566781 AGAAGAGGAAAAATAG
1 AGAAGAAGAAAAATAG
73566797 AGA
1 AGA
73566800 TGCCTAAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.65, C:0.00, G:0.29, T:0.06
Consensus pattern (16 bp):
AGAAGAAGAAAAATAG
Found at i:73567202 original size:36 final size:36
Alignment explanation
Indices: 73567155--73567232 Score: 129
Period size: 36 Copynumber: 2.2 Consensus size: 36
73567145 ATTGTTGCTA
*
73567155 GTATATTGTTGTTTACGTTGTTATACATGGCTGTTG
1 GTATATTGTTGTTTACATTGTTATACATGGCTGTTG
* *
73567191 GTATGTTGTTGTTTATATTGTTATACATGGCTGTTG
1 GTATATTGTTGTTTACATTGTTATACATGGCTGTTG
73567227 GTATAT
1 GTATAT
73567233 ATGGCTAACC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.18, C:0.06, G:0.24, T:0.51
Consensus pattern (36 bp):
GTATATTGTTGTTTACATTGTTATACATGGCTGTTG
Found at i:73567936 original size:24 final size:24
Alignment explanation
Indices: 73567909--73567962 Score: 69
Period size: 21 Copynumber: 2.4 Consensus size: 24
73567899 AGCTTTTCTC
* *
73567909 TTGGGGCAGCAGCTTTTTGGTGAG
1 TTGGGGCAGCAGCTTGTTGATGAG
73567933 TT-GGG--GCAGCTTGTTGATGAG
1 TTGGGGCAGCAGCTTGTTGATGAG
73567954 TTGGGGCAG
1 TTGGGGCAG
73567963 TTTGTAACTG
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
21 16 0.64
22 3 0.12
23 3 0.12
24 3 0.12
ACGTcount: A:0.13, C:0.11, G:0.44, T:0.31
Consensus pattern (24 bp):
TTGGGGCAGCAGCTTGTTGATGAG
Found at i:73567941 original size:21 final size:21
Alignment explanation
Indices: 73567917--73567980 Score: 76
Period size: 21 Copynumber: 3.0 Consensus size: 21
73567907 TCTTGGGGCA
* *
73567917 GCAGCTTTTTGGTGAGTTGGG
1 GCAGCTTGTTGATGAGTTGGG
73567938 GCAGCTTGTTGATGAGTTGGG
1 GCAGCTTGTTGATGAGTTGGG
* *
73567959 GCAGTTTG-TAACTGAGTTGGG
1 GCAGCTTGTTGA-TGAGTTGGG
73567980 G
1 G
73567981 TAGACTATTG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
20 2 0.05
21 36 0.95
ACGTcount: A:0.14, C:0.09, G:0.42, T:0.34
Consensus pattern (21 bp):
GCAGCTTGTTGATGAGTTGGG
Found at i:73568861 original size:96 final size:96
Alignment explanation
Indices: 73568725--73568950 Score: 316
Period size: 96 Copynumber: 2.4 Consensus size: 96
73568715 CCAAAAAAAG
* *
73568725 TCACTACATGCATATTATTAAAAAAATACTCATTACATGCATATTAA-AAGATAGTCAACAACAT
1 TCACTGCATGCATATTATT-AAAAAATACTCACTACATGCATATTAAGAA-ATAGTCAACAACAT
* *
73568789 GTATATTAAAAAAACAGTCATATAAATCAACAA
64 GTATATTAAAAAAACAGTCATACAAACCAACAA
* *
73568822 TCACTGTATGCATATTATTAAAAAATACTCACTGCATGCATATTAAGAAATAGTCAACAACATGT
1 TCACTGCATGCATATTATTAAAAAATACTCACTACATGCATATTAAGAAATAGTCAACAACATGT
* * *
73568887 ATGTTAAAAAAATAGTCATACACACCAACAA
66 ATATTAAAAAAACAGTCATACAAACCAACAA
*
73568918 TCACTGCATGCATATTA--AAAAAATAGTCA-TACA
1 TCACTGCATGCATATTATTAAAAAATACTCACTACA
73568951 CACACACACA
Statistics
Matches: 116, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
93 3 0.03
94 11 0.09
96 83 0.72
97 19 0.16
ACGTcount: A:0.48, C:0.17, G:0.08, T:0.27
Consensus pattern (96 bp):
TCACTGCATGCATATTATTAAAAAATACTCACTACATGCATATTAAGAAATAGTCAACAACATGT
ATATTAAAAAAACAGTCATACAAACCAACAA
Found at i:73570719 original size:24 final size:24
Alignment explanation
Indices: 73570692--73570742 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
73570682 CTACCAGACA
*
73570692 CATCACTATCAAACATTTCTTCTT
1 CATCACTACCAAACATTTCTTCTT
*
73570716 CATCACTACCAGACATTTCTTCTT
1 CATCACTACCAAACATTTCTTCTT
73570740 CAT
1 CAT
73570743 TCTCATTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.27, C:0.31, G:0.02, T:0.39
Consensus pattern (24 bp):
CATCACTACCAAACATTTCTTCTT
Found at i:73570937 original size:62 final size:61
Alignment explanation
Indices: 73570837--73570970 Score: 241
Period size: 62 Copynumber: 2.2 Consensus size: 61
73570827 TTTTTGTCAA
73570837 ACAATAACCAATACAAAATAATTTAATACAAACACAACCATTTCTGTCATGCACATGGTAG
1 ACAATAACCAATACAAAATAATTTAATACAAACACAACCATTTCTGTCATGCACATGGTAG
**
73570898 ACGGTAACCAATACAAAAATAATTTAATACAAACACAACCATTTCTGTCATGCACATGGTAG
1 ACAATAACCAATAC-AAAATAATTTAATACAAACACAACCATTTCTGTCATGCACATGGTAG
73570960 ACAATAACCAA
1 ACAATAACCAA
73570971 ACACTTTAAC
Statistics
Matches: 68, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
61 12 0.18
62 56 0.82
ACGTcount: A:0.46, C:0.22, G:0.09, T:0.23
Consensus pattern (61 bp):
ACAATAACCAATACAAAATAATTTAATACAAACACAACCATTTCTGTCATGCACATGGTAG
Found at i:73571228 original size:6 final size:6
Alignment explanation
Indices: 73571210--73571284 Score: 71
Period size: 6 Copynumber: 12.7 Consensus size: 6
73571200 CATTAATAAC
* ** **
73571210 AAAT-A AAACCA AAATCA AAATCA AAATCA AAATTG AAATTG AAATCA
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA
* * *
73571257 AAATCA AAATTA GAATCA AAATGA AAAT
1 AAATCA AAATCA AAATCA AAATCA AAAT
73571285 TGAAATTGAA
Statistics
Matches: 58, Mismatches: 11, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
5 3 0.05
6 55 0.95
ACGTcount: A:0.64, C:0.11, G:0.05, T:0.20
Consensus pattern (6 bp):
AAATCA
Found at i:73571240 original size:18 final size:18
Alignment explanation
Indices: 73571213--73571290 Score: 84
Period size: 18 Copynumber: 4.3 Consensus size: 18
73571203 TAATAACAAA
*
73571213 TAAAACCAAAATCAAAAT
1 TAAAATCAAAATCAAAAT
* **
73571231 CAAAATCAAAATTGAAAT
1 TAAAATCAAAATCAAAAT
*
73571249 TGAAATCAAAATCAAAAT
1 TAAAATCAAAATCAAAAT
* *
73571267 TAGAATCAAAATGAAAAT
1 TAAAATCAAAATCAAAAT
*
73571285 TGAAAT
1 TAAAAT
73571291 TGAAATAACA
Statistics
Matches: 47, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 47 1.00
ACGTcount: A:0.62, C:0.10, G:0.06, T:0.22
Consensus pattern (18 bp):
TAAAATCAAAATCAAAAT
Found at i:73571879 original size:30 final size:31
Alignment explanation
Indices: 73571814--73571879 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
73571804 TGTTAATCAA
* *
73571814 TGACTATTTTGTGACTTTTCTATAACGTTAG
1 TGACTATTTTGTCACTTTTCTATAAAGTTAG
73571845 TGACTATTTTGTCACTTTTC-A-AAAGTTGAG
1 TGACTATTTTGTCACTTTTCTATAAAGTT-AG
73571875 TGACT
1 TGACT
73571880 GATATGAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
29 5 0.16
30 8 0.25
31 19 0.59
ACGTcount: A:0.24, C:0.14, G:0.17, T:0.45
Consensus pattern (31 bp):
TGACTATTTTGTCACTTTTCTATAAAGTTAG
Found at i:73572006 original size:20 final size:20
Alignment explanation
Indices: 73571947--73572007 Score: 54
Period size: 20 Copynumber: 3.0 Consensus size: 20
73571937 GTAATTTACC
*
73571947 ATTATAAAAATCATCAAAATTT
1 ATTA-AAAAATCAT-AAAATTA
*
73571969 ATT--AAAATTATTAGAAATTA
1 ATTAAAAAATCA-TA-AAATTA
73571989 ATTAAAAAATCATAAAATT
1 ATTAAAAAATCATAAAATT
73572008 TTATAGAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 10
0.71 0.07 0.22
Matches are distributed among these distances:
19 7 0.22
20 14 0.44
21 2 0.06
22 9 0.28
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (20 bp):
ATTAAAAAATCATAAAATTA
Found at i:73572115 original size:21 final size:20
Alignment explanation
Indices: 73572074--73572111 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
73572064 ATACTTTATA
73572074 AAAAATATTAAAAATTAATT
1 AAAAATATTAAAAATTAATT
73572094 AAAAATCA-TAAAAATTAA
1 AAAAAT-ATTAAAAATTAA
73572112 ATTATTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 16 0.94
21 1 0.06
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (20 bp):
AAAAATATTAAAAATTAATT
Found at i:73572379 original size:39 final size:39
Alignment explanation
Indices: 73572297--73572390 Score: 95
Period size: 40 Copynumber: 2.4 Consensus size: 39
73572287 ATAATAAATT
* **
73572297 ATTTTTTATATATTTTTATAAAATTATTGATTTTTAATGA
1 ATTTTTAATA-ATTTTTATAAAATTAAAGATTTTTAATGA
*
73572337 ATTTTTAATAATTTTTATAAAATTTAAAG-TTCTTTTAT-A
1 ATTTTTAATAATTTTTATAAAA-TTAAAGATT-TTTAATGA
*
73572376 A-TTTTAATGATTTTT
1 ATTTTTAATAATTTTT
73572391 TTTACATTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
38 13 0.28
39 16 0.34
40 18 0.38
ACGTcount: A:0.35, C:0.01, G:0.04, T:0.60
Consensus pattern (39 bp):
ATTTTTAATAATTTTTATAAAATTAAAGATTTTTAATGA
Found at i:73572390 original size:18 final size:19
Alignment explanation
Indices: 73572308--73572390 Score: 62
Period size: 19 Copynumber: 4.3 Consensus size: 19
73572298 TTTTTTATAT
*
73572308 ATTTTTATAAAA-TTATTG
1 ATTTTTATAAAATTTAATG
** *
73572326 ATTTTTAATGAATTTTTAATA
1 ATTTTT-AT-AAAATTTAATG
*
73572347 ATTTTTATAAAATTTAAAG
1 ATTTTTATAAAATTTAATG
* *
73572366 TTCTTTTAT-AATTTTAATG
1 AT-TTTTATAAAATTTAATG
73572385 ATTTTT
1 ATTTTT
73572391 TTTACATTTT
Statistics
Matches: 49, Mismatches: 12, Indels: 8
0.71 0.17 0.12
Matches are distributed among these distances:
18 10 0.20
19 19 0.39
20 10 0.20
21 10 0.20
ACGTcount: A:0.36, C:0.01, G:0.05, T:0.58
Consensus pattern (19 bp):
ATTTTTATAAAATTTAATG
Found at i:73578443 original size:34 final size:34
Alignment explanation
Indices: 73578400--73578467 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
73578390 GTGTTGTTAT
73578400 AGATCAAGAAAGGCGTGGAATCGACCTCGAACAG
1 AGATCAAGAAAGGCGTGGAATCGACCTCGAACAG
73578434 AGATCAAGAAAGGCGTGGAATCGACCTCGAACAG
1 AGATCAAGAAAGGCGTGGAATCGACCTCGAACAG
73578468 GGGAAGGAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.38, C:0.21, G:0.29, T:0.12
Consensus pattern (34 bp):
AGATCAAGAAAGGCGTGGAATCGACCTCGAACAG
Found at i:73599365 original size:23 final size:24
Alignment explanation
Indices: 73599331--73599375 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 24
73599321 TAGATCTATT
*
73599331 TTTTGTTGTATTC-ATAGATGATA
1 TTTTGTTGTATTCGAGAGATGATA
73599354 TTTTGATT-TATTCGAGAGATGA
1 TTTTG-TTGTATTCGAGAGATGA
73599376 AACTGAGCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.27, C:0.04, G:0.20, T:0.49
Consensus pattern (24 bp):
TTTTGTTGTATTCGAGAGATGATA
Found at i:73602871 original size:43 final size:43
Alignment explanation
Indices: 73602823--73602969 Score: 156
Period size: 43 Copynumber: 3.4 Consensus size: 43
73602813 ACCGAGATAT
* *
73602823 GATTACATGTAAGACCATGTTTGGGACATTTGCATTGTATTGA
1 GATTACATGTAAGACCATGTTTGGGACATTGGCATCGTATTGA
* * *
73602866 GATTACGTGTAAGACCAT-TTCTGGGACATTGGCATCGTTAAT-C
1 GATTACATGTAAGACCATGTT-TGGGACATTGGCATCG-TATTGA
* * * *
73602909 GATTTCATGTAAGACCCTGTTTGGGACAATGGCATCG-ATATGT
1 GATTACATGTAAGACCATGTTTGGGACATTGGCATCGTAT-TGA
*
73602952 GATAACATGTAAGACCAT
1 GATTACATGTAAGACCAT
73602970 ATCTGGGATA
Statistics
Matches: 85, Mismatches: 14, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
41 1 0.01
42 3 0.04
43 76 0.89
44 5 0.06
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.33
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTTTGGGACATTGGCATCGTATTGA
Found at i:73602975 original size:86 final size:85
Alignment explanation
Indices: 73602823--73602985 Score: 211
Period size: 86 Copynumber: 1.9 Consensus size: 85
73602813 ACCGAGATAT
* * * * * *
73602823 GATTACATGTAAGACCATGTTTGGGACATTTGCATTGTATTGAGATTACGTGTAAGACCATTTCT
1 GATTACATGTAAGACCATGTTTGGGACAATGGCATCGTATTGAGATAACATGTAAGACCATATCT
73602888 GGGACATTGGCATCGTTAATC
66 GGGACA-TGGCATCGTTAATC
* * *
73602909 GATTTCATGTAAGACCCTGTTTGGGACAATGGCATCG-ATATGTGATAACATGTAAGACCATATC
1 GATTACATGTAAGACCATGTTTGGGACAATGGCATCGTAT-TGAGATAACATGTAAGACCATATC
*
73602973 TGGGATATGGCAT
65 TGGGACATGGCAT
73602986 TGTATGAGCT
Statistics
Matches: 66, Mismatches: 10, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
85 8 0.12
86 58 0.88
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (85 bp):
GATTACATGTAAGACCATGTTTGGGACAATGGCATCGTATTGAGATAACATGTAAGACCATATCT
GGGACATGGCATCGTTAATC
Found at i:73602977 original size:43 final size:42
Alignment explanation
Indices: 73602822--73602991 Score: 146
Period size: 43 Copynumber: 4.0 Consensus size: 42
73602812 TACCGAGATA
* * * *
73602822 TGATTACATGTAAGACCATGTTTGGGACATTTGCATTGTATTG
1 TGATTACATGTAAGACCATGTCTGGGACAATGGCATCGTA-TG
* * * *
73602865 AGATTACGTGTAAGACCATTTCTGGGACATTGGCATCGTTAAT-
1 TGATTACATGTAAGACCATGTCTGGGACAATGGCATCG-T-ATG
* * * *
73602908 CGATTTCATGTAAGACCCTGTTTGGGACAATGGCATCGATATG
1 TGATTACATGTAAGACCATGTCTGGGACAATGGCATCG-TATG
* * * *
73602951 TGATAACATGTAAGACCATATCTGGGA-TATGGCATTGTATG
1 TGATTACATGTAAGACCATGTCTGGGACAATGGCATCGTATG
73602992 AGCTTATATG
Statistics
Matches: 102, Mismatches: 22, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
41 4 0.04
42 10 0.10
43 85 0.83
44 2 0.02
45 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.34
Consensus pattern (42 bp):
TGATTACATGTAAGACCATGTCTGGGACAATGGCATCGTATG
Found at i:73606896 original size:31 final size:31
Alignment explanation
Indices: 73606861--73606924 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
73606851 TTAACACTTC
73606861 ATGGATTTTCATGCCATCACTATAACCAATT
1 ATGGATTTTCATGCCATCACTATAACCAATT
73606892 ATGGATTTTCATGCCATCACTATAACCAATT
1 ATGGATTTTCATGCCATCACTATAACCAATT
73606923 AT
1 AT
73606925 CATACATTCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.33, C:0.22, G:0.09, T:0.36
Consensus pattern (31 bp):
ATGGATTTTCATGCCATCACTATAACCAATT
Found at i:73614473 original size:40 final size:40
Alignment explanation
Indices: 73614418--73614595 Score: 261
Period size: 40 Copynumber: 4.5 Consensus size: 40
73614408 CGGATGGCAA
* *
73614418 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
73614458 CCGGGCTAAATCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
73614498 TCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
73614538 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
73614578 -CTGACTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
73614596 TACATGGTTT
Statistics
Matches: 127, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 15 0.12
40 111 0.87
41 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Done.