Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold166
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: 2719372
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 17868 characters in sequence are not A, C, G, or T
File 9 of 18
Found at i:1551130 original size:167 final size:166
Alignment explanation
Indices: 1550799--1551332 Score: 596
Period size: 167 Copynumber: 3.2 Consensus size: 166
1550789 AACAACATTA
* ** * ** * *
1550799 GATGAGTTTTAAAAATTCTAAACCAAGAAAAATCCCCTTAAAAAAATTTACAAAGAAGAAAACTC
1 GATGAATTTTAAAAATTGAAAACCAAGAAAAATCCCCTAAAAAAAATTTACGGAGTAGAAAACAC
** ** * * *
1550864 TG--TTTCGTGAAAAAG-GATAATTTCAACAAAAAAATCCAAAACTCATGAAAATAAATTACTTT
66 TGTATTTCGAAAAAAAGTG--AATTTCAAGGAAAAAATCAAAAACTCATGAAAATGAA-TAATTT
* * *
1550926 TTTAAAAATGAACTAATA-CAAATCAAATAATGATGTTT
128 TTTAAAACTGAATTAATATGAAATCAAATAATGATGTTT
* * * *
1550964 GATTAATTTTAAAAATTGAAAACCGAGAAAAATCCCCTCAAAACAATTTACGGAGTAGAAAACAC
1 GATGAATTTTAAAAATTGAAAACCAAGAAAAATCCCCTAAAAAAAATTTACGGAGTAGAAAACAC
* * *
1551029 TGTATTTCGAAAAAAAAGTGAATTTCAAGGAAAAAATAAAAAACTCATAAAAATGAATGATTTTC
66 TGTATTTCG-AAAAAAAGTGAATTTCAAGGAAAAAATCAAAAACTCATGAAAATGAATAATTTT-
*
1551094 TTAAAACTGAATTACTATGAAAT-AAATAATGATGTTT
129 TTAAAACTGAATTAATATGAAATCAAATAATGATGTTT
* * *
1551131 GATGAATTTTAAAAATTGAAAACCAAGAAAACT-CCCTAAAAAAAATTTATGGAGTAGAAAAAAC
1 GATGAATTTTAAAAATTGAAAACCAAGAAAAATCCCCTAAAAAAAATTTACGGAGTAGAAAACAC
** * * * *
1551195 CATATTTCGAAAAAATGGGAGTTTCAAGGGGAAAGAATCAAAAACTCATGAAAATGAATTAATTT
66 TGTATTTCGAAAAAAAGTGAATTTCAA--GGAAAAAATCAAAAACTCATGAAAATGAA-TAA-TT
*
1551260 TTTTAAAACAGAATTAATATG-AATCAAATAATGATGTTT
127 TTTTAAAACTGAATTAATATGAAATCAAATAATGATGTTT
* *
1551299 GATGAATTTTAAAAATTTAAAACCAAAAAAAATC
1 GATGAATTTTAAAAATTGAAAACCAAGAAAAATC
1551333 TTTGTATTTT
Statistics
Matches: 311, Mismatches: 46, Indels: 20
0.82 0.12 0.05
Matches are distributed among these distances:
165 71 0.23
166 39 0.13
167 123 0.40
168 73 0.23
169 5 0.02
ACGTcount: A:0.50, C:0.11, G:0.11, T:0.28
Consensus pattern (166 bp):
GATGAATTTTAAAAATTGAAAACCAAGAAAAATCCCCTAAAAAAAATTTACGGAGTAGAAAACAC
TGTATTTCGAAAAAAAGTGAATTTCAAGGAAAAAATCAAAAACTCATGAAAATGAATAATTTTTT
AAAACTGAATTAATATGAAATCAAATAATGATGTTT
Found at i:1551562 original size:18 final size:19
Alignment explanation
Indices: 1551541--1551580 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
1551531 AAAATTCAAA
1551541 AATTTATGAAAA-TGAATT
1 AATTTATGAAAACTGAATT
*
1551559 AATTTTTGAAAACTGAATT
1 AATTTATGAAAACTGAATT
1551578 AAT
1 AAT
1551581 ATGAAATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.47, C:0.03, G:0.10, T:0.40
Consensus pattern (19 bp):
AATTTATGAAAACTGAATT
Found at i:1556919 original size:212 final size:210
Alignment explanation
Indices: 1556631--1557089 Score: 550
Period size: 212 Copynumber: 2.2 Consensus size: 210
1556621 GATAAAATTA
* * *
1556631 TGAAAATATTTAGGAACAAA-A-AAAACTTGAGTTTTTGATGAAGGATGGGGTTAGAGTATCCTC
1 TGAAAATATTTAGGAACAAAGAGAAAATTTGA-TTTTTTATGAAGGATGGGGTTAGAATATCCTC
* * *
1556694 TTAGGGCAGTGGGGTTGGAATGTCCCCAAAGTGAAGAATTATGAAAATATTTAGGAACAAAAAGA
65 TTAGGGCAGTGGGGTTAGAATGTCCCCAAAGTCAAGAATTATGAAAATATTTAAGAACAAAAAGA
* * * *
1556759 AAATTTAATTTTTTTATGAAGAACGAGGTTGAAGTATCCC-CTAGGAATAATAGGGTTATAG-TT
130 AAATTTAATTTTTTTATAAAGAACAAGGTTGAAGTATCCCTC-A-GAATAAT-GGGGTAGAGTTT
1556822 TCCCTAAAGTCAAAGATCTT
192 TCCC-AAAGTCAAAGATCTT
* * *
1556842 TGAAAATATTTAGGAACAAAGAGAAAATTTGCTTTTTTATGAAGAGCT-GGTTTAGAATATCCTC
1 TGAAAATATTTAGGAACAAAGAGAAAATTTGATTTTTTATGAAG-GATGGGGTTAGAATATCCTC
* * * * * * *
1556906 TTAGGGTAGTGGGGTTAGAGTTTTCTCGAAGTCAAGAATTATGAAAATATTTAAGAACAAAGAGA
65 TTAGGGCAGTGGGGTTAGAATGTCCCCAAAGTCAAGAATTATGAAAATATTTAAGAACAAAAAGA
* * * * *
1556971 AAATTTGATTTTTTTATAAAGAACAAGGTTGGAGTATCCCTCAGAGTAGTGGGGTGGAGTTTTCC
130 AAATTTAATTTTTTTATAAAGAACAAGGTTGAAGTATCCCTCAGAATAATGGGGTAGAGTTTTCC
* * *
1557036 CAAAGTTAAGGATTTT
195 CAAAGTCAAAGATCTT
* * *
1557052 TGAAAATATTTAGAAATAAAGTGAAAATTTGATTTTTT
1 TGAAAATATTTAGGAACAAAGAGAAAATTTGATTTTTT
1557090 TTTTTACAAA
Statistics
Matches: 211, Mismatches: 32, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
210 52 0.25
211 31 0.15
212 118 0.56
213 10 0.05
ACGTcount: A:0.37, C:0.08, G:0.22, T:0.32
Consensus pattern (210 bp):
TGAAAATATTTAGGAACAAAGAGAAAATTTGATTTTTTATGAAGGATGGGGTTAGAATATCCTCT
TAGGGCAGTGGGGTTAGAATGTCCCCAAAGTCAAGAATTATGAAAATATTTAAGAACAAAAAGAA
AATTTAATTTTTTTATAAAGAACAAGGTTGAAGTATCCCTCAGAATAATGGGGTAGAGTTTTCCC
AAAGTCAAAGATCTT
Found at i:1556984 original size:105 final size:105
Alignment explanation
Indices: 1556626--1557090 Score: 426
Period size: 106 Copynumber: 4.4 Consensus size: 105
1556616 CTAAAGATAA
* * * * *
1556626 AATTATGAAAATATTTAGGAACAAA-A-AAAACTTGAGTTTTTGATGAAGGA-TGGGGTTAGAGT
1 AATTATGAAAATATTTAGGAACAAAGAGAAAATTTGATTTTTTTATGAAGAACT-GGGTTAGAAT
* * * * * *
1556688 ATCCTCTTAGGGCAGTGGGGTTGGAATGTCCCCAAAGTGAAG
65 ATCC-CTTAGGGTAGTGGGGTTAGAGTTTTCCCAAAGTCAAG
* *
1556730 AATTATGAAAATATTTAGGAACAAAAAGAAAATTTAATTTTTTTATGAAGAAC-GAGGTT-GAAG
1 AATTATGAAAATATTTAGGAACAAAGAGAAAATTTGATTTTTTTATGAAGAACTG-GGTTAGAA-
* * * * *
1556793 TATCCCCTAGGAATAATAGGGTTATAG-TTTCCCTAAAGTCAA-
64 TATCCCTTAGG-GTAGTGGGGTTAGAGTTTTCCC-AAAGTCAAG
* * * *
1556835 AGATCTTTGAAAATATTTAGGAACAAAGAGAAAATTTG-CTTTTTTATGAAGAGCTGGTTTAGAA
1 A-AT-TATGAAAATATTTAGGAACAAAGAGAAAATTTGATTTTTTTATGAAGAACTGGGTTAGAA
* *
1556899 TATCCTCTTAGGGTAGTGGGGTTAGAGTTTTCTCGAAGTCAAG
64 TATCC-CTTAGGGTAGTGGGGTTAGAGTTTTCCCAAAGTCAAG
* * ** * *
1556942 AATTATGAAAATATTTAAGAACAAAGAGAAAATTTGATTTTTTTATAAAGAACAAGGTTGGAGTA
1 AATTATGAAAATATTTAGGAACAAAGAGAAAATTTGATTTTTTTATGAAGAACTGGGTTAGAATA
* * * *
1557007 TCCCTCAGAGTAGTGGGG-TGGAGTTTTCCCAAAGTTAAGG
66 TCCCTTAGGGTAGTGGGGTTAGAGTTTTCCCAAAGTCAA-G
* * * * *
1557047 ATTTTTGAAAATATTTAGAAATAAAGTGAAAATTTGATTTTTTT
1 AATTATGAAAATATTTAGGAACAAAGAGAAAATTTGATTTTTTT
1557091 TTTTACAAAA
Statistics
Matches: 293, Mismatches: 52, Indels: 31
0.78 0.14 0.08
Matches are distributed among these distances:
104 41 0.14
105 97 0.33
106 110 0.38
107 45 0.15
ACGTcount: A:0.37, C:0.08, G:0.22, T:0.33
Consensus pattern (105 bp):
AATTATGAAAATATTTAGGAACAAAGAGAAAATTTGATTTTTTTATGAAGAACTGGGTTAGAATA
TCCCTTAGGGTAGTGGGGTTAGAGTTTTCCCAAAGTCAAG
Found at i:1557130 original size:109 final size:105
Alignment explanation
Indices: 1556579--1557152 Score: 402
Period size: 106 Copynumber: 5.4 Consensus size: 105
1556569 AAAAACAGGC
* * ** *
1556579 TGGAGTATCCCCTGAGAG-AGGTGGGGTTGAAG-CATCCCTAAAGATAA-AATTATGAAAATATT
1 TGGAGTAT-CCCTTAGAGTA-GTGGGGTTGGAGTTTTCCC-AAAGTTAAGAATTATGAAAATATT
* * * * * * ***
1556641 TAGGAACAAA-A-AAAACTTGAGTTTTTGATGAAGGATGGGGT
63 TAAGAACAAAGAGAAAATTTGATTTTTTTATAAAGAACAAGGT
* * * * * * *
1556682 TAGAGTATCCTCTTAGGGCAGTGGGGTTGGAATGTCCCCAAAGTGAAGAATTATGAAAATATTTA
1 TGGAGTATCC-CTTAGAGTAGTGGGGTTGGAGTTTTCCCAAAGTTAAGAATTATGAAAATATTTA
* * * * *
1556747 GGAACAAAAAGAAAATTTAATTTTTTTATGAAGAACGAGGT
65 AGAACAAAGAGAAAATTTGATTTTTTTATAAAGAACAAGGT
* * * * * ** * *
1556788 TGAAGTATCCCCTAGGAATAATAGGGTTATAG-TTTCCCTAAAGTCAA-AGATCTTTGAAAATAT
1 TGGAGTATCCCTTA-GAGTAGTGGGGTTGGAGTTTTCCC-AAAGTTAAGA-AT-TATGAAAATAT
* * * * *
1556851 TTAGGAACAAAGAGAAAATTTG-CTTTTTTATGAAGAGC-TGGTT
62 TTAAGAACAAAGAGAAAATTTGATTTTTTTATAAAGAACAAGG-T
* * * * * * *
1556894 TAGAATATCCTCTTAGGGTAGTGGGGTTAGAGTTTTCTCGAAGTCAAGAATTATGAAAATATTTA
1 TGGAGTATCC-CTTAGAGTAGTGGGGTTGGAGTTTTCCCAAAGTTAAGAATTATGAAAATATTTA
1556959 AGAACAAAGAGAAAATTTGATTTTTTTATAAAGAACAAGGT
65 AGAACAAAGAGAAAATTTGATTTTTTTATAAAGAACAAGGT
* * *
1557000 TGGAGTATCCCTCAGAGTAGTGGGG-TGGAGTTTTCCCAAAGTTAAGGATTTTTGAAAATATTT-
1 TGGAGTATCCCTTAGAGTAGTGGGGTTGGAGTTTTCCCAAAGTTAA-GAATTATGAAAATATTTA
* * *
1557063 AGAAATAAAGTGAAAATTTGATTTTTTTTTTTACAA-AA-AATGGGAT
65 AG-AACAAAGAGAAAATTTGA--TTTTTTTATA-AAGAACAA--GG-T
1557109 TGGAGTATCCCTTAGAGTAGTGGGGTTGGAG-TTTCCCTAAAGTT
1 TGGAGTATCCCTTAGAGTAGTGGGGTTGGAGTTTTCCC-AAAGTT
1557153 GTGAATTTTT
Statistics
Matches: 377, Mismatches: 68, Indels: 45
0.77 0.14 0.09
Matches are distributed among these distances:
102 2 0.01
103 28 0.07
104 47 0.12
105 86 0.23
106 116 0.31
107 52 0.14
108 4 0.01
109 31 0.08
110 11 0.03
ACGTcount: A:0.35, C:0.09, G:0.23, T:0.32
Consensus pattern (105 bp):
TGGAGTATCCCTTAGAGTAGTGGGGTTGGAGTTTTCCCAAAGTTAAGAATTATGAAAATATTTAA
GAACAAAGAGAAAATTTGATTTTTTTATAAAGAACAAGGT
Found at i:1561374 original size:13 final size:13
Alignment explanation
Indices: 1561356--1561383 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1561346 ATTTTAGAAA
1561356 TGTATCGATACAT
1 TGTATCGATACAT
1561369 TGTATCGATACAT
1 TGTATCGATACAT
1561382 TG
1 TG
1561384 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1572510 original size:86 final size:83
Alignment explanation
Indices: 1572405--1572571 Score: 262
Period size: 84 Copynumber: 2.0 Consensus size: 83
1572395 ATTCCTCACC
*
1572405 TTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTTAAAAGCCCACAAGTCAGTGGCAACCTTTAGA
1 TTTTCAAAGCCCACAAGTCAGTGGCA-CC-TTTTAAAAGCCCACAAGTCAGTGGCAACCTTCA-A
*
1572470 AGCCCACAAGTCAGTGGCACT
63 AGCCCACAAGACAGTGGCACT
* *
1572491 TTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTTAGTGGCAACCTTCAAAGC
1 TTTTCAAAGCCCACAAGTCAGTGGCACCTTTTAAAAGCCCACAAGTCAGTGGCAACCTTCAAAGC
*
1572556 CCATAAGACAGTGGCA
66 CCACAAGACAGTGGCA
1572572 ACCTTCAAAA
Statistics
Matches: 76, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
83 18 0.24
84 30 0.39
85 2 0.03
86 26 0.34
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.22
Consensus pattern (83 bp):
TTTTCAAAGCCCACAAGTCAGTGGCACCTTTTAAAAGCCCACAAGTCAGTGGCAACCTTCAAAGC
CCACAAGACAGTGGCACT
Found at i:1572558 original size:55 final size:56
Alignment explanation
Indices: 1572406--1572617 Score: 229
Period size: 56 Copynumber: 3.8 Consensus size: 56
1572396 TTCCTCACCT
* *
1572406 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTTTAAAAGCCCACAAGTCAGTGGCAACC
1 TTTCAAAGCCCACAAGTCAGTGGCAACC--TTTCAAAGCCCACAAGTCAGTGGCAACC
*
1572464 TTT-AGAAGCCCACAAGTCAGTGGC-ACTTTTTCAAAGCCCACAAGTCAGTGGC-ACC
1 TTTCA-AAGCCCACAAGTCAGTGGCAAC-CTTTCAAAGCCCACAAGTCAGTGGCAACC
* * *
1572519 TTTTCAAAGCCCACAAGTTAGTGGCAACC-TTCAAAGCCCATAAGACAGTGGCAACC
1 -TTTCAAAGCCCACAAGTCAGTGGCAACCTTTCAAAGCCCACAAGTCAGTGGCAACC
* **
1572575 -TTCAAAAGCACACAAGTTGGT-GCAACCCTTTCAAAAGCCCACA
1 TTTC-AAAGCCCACAAGTCAGTGGCAA-CCTTTC-AAAGCCCACA
1572618 CAAGTTGGTG
Statistics
Matches: 134, Mismatches: 10, Indels: 21
0.81 0.06 0.13
Matches are distributed among these distances:
54 7 0.05
55 41 0.31
56 50 0.37
57 14 0.10
58 22 0.16
ACGTcount: A:0.33, C:0.30, G:0.17, T:0.20
Consensus pattern (56 bp):
TTTCAAAGCCCACAAGTCAGTGGCAACCTTTCAAAGCCCACAAGTCAGTGGCAACC
Found at i:1572568 original size:27 final size:27
Alignment explanation
Indices: 1572407--1572617 Score: 203
Period size: 28 Copynumber: 7.5 Consensus size: 27
1572397 TCCTCACCTT
*
1572407 TTCAAAGCCCACAAGTCAGTGGCACCC
1 TTCAAAGCCCACAAGTCAGTGGCAACC
*
1572434 TTTTTAAAAGCCCACAAGTCAGTGGCAACC
1 ---TTCAAAGCCCACAAGTCAGTGGCAACC
* *
1572464 TTTAGAAGCCCACAAGTCAGTGGC-ACTTT
1 TTCA-AAGCCCACAAGTCAGTGGCAAC--C
1572493 TTCAAAGCCCACAAGTCAGTGGC-ACC
1 TTCAAAGCCCACAAGTCAGTGGCAACC
*
1572519 TTTTCAAAGCCCACAAGTTAGTGGCAACC
1 --TTCAAAGCCCACAAGTCAGTGGCAACC
* *
1572548 TTCAAAGCCCATAAGACAGTGGCAACC
1 TTCAAAGCCCACAAGTCAGTGGCAACC
* **
1572575 TTCAAAAGCACACAAGTTGGT-GCAACCC
1 TTC-AAAGCCCACAAGTCAGTGGCAA-CC
1572603 TTTCAAAAGCCCACA
1 -TTC-AAAGCCCACA
1572618 CAAGTTGGTG
Statistics
Matches: 156, Mismatches: 16, Indels: 19
0.82 0.08 0.10
Matches are distributed among these distances:
27 36 0.23
28 76 0.49
29 19 0.12
30 25 0.16
ACGTcount: A:0.33, C:0.30, G:0.18, T:0.20
Consensus pattern (27 bp):
TTCAAAGCCCACAAGTCAGTGGCAACC
Found at i:1572871 original size:49 final size:49
Alignment explanation
Indices: 1572626--1572951 Score: 274
Period size: 49 Copynumber: 6.6 Consensus size: 49
1572616 CACAAGTTGG
*
1572626 TGGCATCTTC-T-TCTAAGTCCAATATCGCTGGCCTTGAATCAGCATAT
1 TGGCATCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATAT
* * * * * *
1572673 CGGCA----C--CTTTAAGTCCAATGTTGTTGGCCTTGAATCAACACAT
1 TGGCATCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATAT
* *
1572716 TGGCACCTTCATCTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATAT
1 TGGCATCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATAT
* ** * *
1572765 TGGCACCTTCGTCATCTTTAAAACCAATGTCGCTGGCCTTGAATCAGCACAT
1 TGGCA---TCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATAT
* *
1572817 TGGCATCTTCATCTTTAAGTCCGATATCGTTGGCCTTGAATCAGCATAT
1 TGGCATCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATAT
* * * * * *
1572866 TGGCATCTTTAACATTCCTAAG-CCTAATGTCGTTGGCCATGAATCAGCACAT
1 TGGCATCTTCATC-TT--TAAGTCC-AATATCGCTGGCCTTGAATCAGCATAT
* * *
1572918 TGTCATTCTTCACATCTTTGAGCCCAATATCGCT
1 TGGCA-TCTT--CATCTTTAAGTCCAATATCGCT
1572952 AGCCGCATAT
Statistics
Matches: 223, Mismatches: 38, Indels: 31
0.76 0.13 0.11
Matches are distributed among these distances:
43 35 0.16
47 5 0.02
49 86 0.39
50 2 0.01
51 2 0.01
52 83 0.37
53 6 0.03
54 2 0.01
55 2 0.01
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.33
Consensus pattern (49 bp):
TGGCATCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATAT
Found at i:1572895 original size:101 final size:101
Alignment explanation
Indices: 1572687--1572951 Score: 309
Period size: 101 Copynumber: 2.6 Consensus size: 101
1572677 ACCTTTAAGT
* * * * *
1572687 CCAATGTTGTTGGCCTTGAATCAACACATTGGCACCTTCATCTTTAAGTCCAATATTGCTGGCCT
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCAATATCGCTGGCCT
** *
1572752 TGAATCAGCATATTGGCACCTTCGTCATCTTTAAAA
66 TGAATCAGCATATTGGCACCTTCAACATCTCTAAAA
* *
1572788 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCGATATCGTTGGCCT
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCAATATCGCTGGCCT
* * *
1572853 TGAATCAGCATATTGGCATCTTTAACAT-TCCT-AAG
66 TGAATCAGCATATTGGCACCTTCAACATCT-CTAAAA
* * * * *
1572888 CCTAATGTCGTTGGCCATGAATCAGCACATTGTCATTCTTCACATCTTTGAGCCCAATATCGCT
1 CC-AATGTCGCTGGCCTTGAATCAGCACATTGGCA-TCTT--CATCTTTAAGTCCAATATCGCT
1572952 AGCCGCATAT
Statistics
Matches: 139, Mismatches: 20, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
100 5 0.04
101 112 0.81
102 4 0.03
104 18 0.13
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.33
Consensus pattern (101 bp):
CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCAATATCGCTGGCCT
TGAATCAGCATATTGGCACCTTCAACATCTCTAAAA
Found at i:1576692 original size:13 final size:13
Alignment explanation
Indices: 1576674--1576698 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1576664 CATTATGCTT
1576674 TGTATCGATACAA
1 TGTATCGATACAA
1576687 TGTATCGATACA
1 TGTATCGATACA
1576699 TGTTCCTTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1576730 original size:20 final size:20
Alignment explanation
Indices: 1576683--1576739 Score: 73
Period size: 19 Copynumber: 3.0 Consensus size: 20
1576673 TTGTATCGAT
*
1576683 ACAA-TGTATCGATACATGT
1 ACAATTGTATCGATACATGG
* *
1576702 TC-CTTGTATCGATACATGG
1 ACAATTGTATCGATACATGG
1576721 ACAATTGTATCGATACATG
1 ACAATTGTATCGATACATG
1576740 AAACTGGCAG
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Consensus pattern (20 bp):
ACAATTGTATCGATACATGG
Found at i:1576814 original size:20 final size:20
Alignment explanation
Indices: 1576772--1576819 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
1576762 CATTGTTTGA
* *
1576772 ATCGATACATGGTACATTGT
1 ATCGATACATGATACATTAT
1576792 ATCGATACATGATGA-ATTAT
1 ATCGATACATGAT-ACATTAT
1576812 ATCGATAC
1 ATCGATAC
1576820 CTTACTTCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 24 0.96
21 1 0.04
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (20 bp):
ATCGATACATGATACATTAT
Found at i:1583003 original size:13 final size:13
Alignment explanation
Indices: 1582985--1583011 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1582975 ACAATATTCT
1582985 TTGTATCGATACA
1 TTGTATCGATACA
1582998 TTGTATCGATACA
1 TTGTATCGATACA
1583011 T
1 T
1583012 GGGTTACTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1585459 original size:19 final size:19
Alignment explanation
Indices: 1585416--1585488 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 19
1585406 CACATCCAGA
*
1585416 TGTATCGATACAT-TATGCTT
1 TGTATCGATACATGT-T-CAT
1585436 TGTATCGATACATGTTCAT
1 TGTATCGATACATGTTCAT
**
1585455 TGTATCGATACATGGACAAT
1 TGTATCGATACATGTTC-AT
1585475 TGTATCGATACATG
1 TGTATCGATACATG
1585489 AAACTGGTAC
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
19 17 0.35
20 30 0.62
21 1 0.02
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (19 bp):
TGTATCGATACATGTTCAT
Found at i:1586221 original size:20 final size:17
Alignment explanation
Indices: 1586183--1586215 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
1586173 CTATAAATCT
1586183 TTGTGTTGAACATTTCC
1 TTGTGTTGAACATTTCC
1586200 TTGTGTTGAACATTTC
1 TTGTGTTGAACATTTC
1586216 TTCCTTAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.15, G:0.18, T:0.48
Consensus pattern (17 bp):
TTGTGTTGAACATTTCC
Found at i:1588646 original size:50 final size:50
Alignment explanation
Indices: 1588585--1588698 Score: 160
Period size: 50 Copynumber: 2.3 Consensus size: 50
1588575 AATTAACTAG
* * *
1588585 ATGTATCGATACATT-GAAAATGTATCGATATATCTGGGTAAAAAA-ACTGA
1 ATGTATCGATACATTAAAAAATGTATCGATACATCTAGGTAAAAAATA--GA
*
1588635 ATGTATTGATACATTAAAAAATGTATCGATACATCTAGGTAAAAAATAGA
1 ATGTATCGATACATTAAAAAATGTATCGATACATCTAGGTAAAAAATAGA
1588685 ATGTATCGATACAT
1 ATGTATCGATACAT
1588699 GTATTGTTCA
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
50 29 0.51
51 27 0.47
52 1 0.02
ACGTcount: A:0.44, C:0.10, G:0.16, T:0.31
Consensus pattern (50 bp):
ATGTATCGATACATTAAAAAATGTATCGATACATCTAGGTAAAAAATAGA
Found at i:1589114 original size:55 final size:55
Alignment explanation
Indices: 1589026--1589130 Score: 138
Period size: 55 Copynumber: 1.9 Consensus size: 55
1589016 AAGTTGTTGC
* * * * * *
1589026 ACCACTACTCTGTATTGAAGAACCAATACGAATGAGAGTAGTTAAGCATAGTGTT
1 ACCACTACTCAGCATGGAAGAACCAATACGAATGAAAGCAGCTAAGCATAGTGTT
* *
1589081 ACCACTACTCAGCATGGCAGAACCAATAGGAATGAAAGCAGCTAAGCATA
1 ACCACTACTCAGCATGGAAGAACCAATACGAATGAAAGCAGCTAAGCATA
1589131 ATACCTAAAG
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
55 42 1.00
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.21
Consensus pattern (55 bp):
ACCACTACTCAGCATGGAAGAACCAATACGAATGAAAGCAGCTAAGCATAGTGTT
Found at i:1590975 original size:159 final size:155
Alignment explanation
Indices: 1590632--1591148 Score: 449
Period size: 159 Copynumber: 3.3 Consensus size: 155
1590622 GAAGATAGTA
* * * * * *
1590632 GGGTTAGAGTATCCCTG-TGATGAAAAATTTAATATTTTAAAAGTAAAAACGGGGTTGGAGTATC
1 GGGTTAGAGTATCCCCGATGGTGAAAAATTTGATATTTTAGAAGTAAAAATGGGGTTAGAGTATC
* * * * *
1590696 CCTTAGGAAATATGGGGTTAAAGTATCCCTGATGGCGAAAAATCAATATTTTGGAAAAAAAT-AG
66 CCTCA-AAAATATGGGGTTAAAGTATCCCCGATGGTGAAAATTCAATATTTTGGAAAAAAATCA-
*
1590760 GGGTT-AA-AGTGTCCTCTTGAAAATGATG
129 GGGTTGAATA-T-TCCT-TCGAAAATGATG
* * * * *
1590788 GAGTTGGAGTATCCTCGATGGTGAAAAA-TTGAGATTTTAGAAGTACAAATGGGGTTAGAGTATC
1 GGGTTAGAGTATCCCCGATGGTGAAAAATTTGATATTTTAGAAGTAAAAATGGGGTTAGAGTAT-
* * *
1590852 CCCTCAAAAATAATGGGGCTACAGTATCCCCGATGGTGAAAATTTCAATATTTTGGAACCAAAAT
65 CCCTCAAAAAT-ATGGGGTTAAAGTATCCCCGATGGTGAAAA-TTCAATATTTTGGAA-AAAAAT
* *
1590917 CAAGGTTGGAATATTCCTTCGGAAATGATG
127 CAGGGTT-GAATATTCCTTCGAAAATGATG
* * * *
1590947 GGGTTAGAGTATCCCCGATGGTGAAAAATTTGATATTTTGGAAATAAAAAT-GGGTTAGAGCATA
1 GGGTTAGAGTATCCCCGATGGTGAAAAATTTGATATTTTAGAAGTAAAAATGGGGTTAGAGTATC
* ** * *
1591011 TCTCAAAAATGATGGGGTTGGAGTATCCCCTGACT-ATGAAAAATTCATTATTTTGGAAGTAAAA
66 CCTCAAAAAT-ATGGGGTTAAAGTATCCCC-GA-TGGTG-AAAATTCAATATTTTGGAA--AAAA
* * * * **
1591075 A-CAGGGTTAGAGTATCCCCTCAAAAATGAAAA
125 ATCAGGGTT-GAATATTCCTTCGAAAATG-ATG
* * *
1591107 GGGTTAGAGTATCACTGATGGT-AAAAAATTGATATTTTAGAA
1 GGGTTAGAGTATCCCCGATGGTGAAAAATTTGATATTTTAGAA
1591149 AAAGAAATTT
Statistics
Matches: 293, Mismatches: 53, Indels: 27
0.79 0.14 0.07
Matches are distributed among these distances:
156 46 0.16
157 40 0.14
158 39 0.13
159 111 0.38
160 53 0.18
161 3 0.01
162 1 0.00
ACGTcount: A:0.36, C:0.11, G:0.24, T:0.29
Consensus pattern (155 bp):
GGGTTAGAGTATCCCCGATGGTGAAAAATTTGATATTTTAGAAGTAAAAATGGGGTTAGAGTATC
CCTCAAAAATATGGGGTTAAAGTATCCCCGATGGTGAAAATTCAATATTTTGGAAAAAAATCAGG
GTTGAATATTCCTTCGAAAATGATG
Found at i:1591143 original size:80 final size:79
Alignment explanation
Indices: 1590632--1591144 Score: 387
Period size: 80 Copynumber: 6.5 Consensus size: 79
1590622 GAAGATAGTA
* ** * *
1590632 GGGTTAGAGTATCCCTG-TGATGAAAAATTTAATATTTTAAAAGTAAAAACGGGGTTGGAGTAT-
1 GGGTTAGAGTATCCCTGATGGTGAAAAA-TTAATATTTTGGAAGTAAAAACAGGGTTAGAGTATC
* *
1590695 CCCTTAGGAAAT-ATG
65 CCCTCA-AAAATGATG
* * * * * *
1590710 GGGTTAAAGTATCCCTGATGGCGAAAAATCAATATTTTGGAA--AAAAATAGGGGTTAAAGTGTC
1 GGGTTAGAGTATCCCTGATGGTGAAAAATTAATATTTTGGAAGTAAAAACA-GGGTTAGAGTATC
* **
1590773 CTCTTGAAAATGATG
65 CCCTCAAAAATGATG
* * * * * * **
1590788 GAGTTGGAGTAT-CCTCGATGGTGAAAAATTGAGATTTTAGAAGTACAAATGGGGTTAGAGTATC
1 GGGTTAGAGTATCCCT-GATGGTGAAAAATTAATATTTTGGAAGTAAAAACAGGGTTAGAGTATC
*
1590852 CCCTCAAAAATAATG
65 CCCTCAAAAATGATG
* * * * ** * * * * *
1590867 GGGCTACAGTATCCCCGATGGTGAAAATTTCAATATTTTGGAACCAAAATCAAGGTTGGAATATT
1 GGGTTAGAGTATCCCTGATGGTGAAAAATT-AATATTTTGGAAGTAAAAACAGGGTTAGAGTATC
* **
1590932 CCTTCGGAAATGATG
65 CCCTCAAAAATGATG
* * * * *
1590947 GGGTTAGAGTATCCCCGATGGTGAAAAATTTGATATTTTGGAAATAAAAA-TGGGTTAGAGCAT-
1 GGGTTAGAGTATCCCTGATGGTGAAAAA-TTAATATTTTGGAAGTAAAAACAGGGTTAGAGTATC
**
1591010 ATCTCAAAAATGATG
65 CCCTCAAAAATGATG
* * *
1591025 GGGTTGGAGTATCCCCTGACT-ATGAAAAATTCATTATTTTGGAAGTAAAAACAGGGTTAGAGTA
1 GGGTTAGAGTAT-CCCTGA-TGGTGAAAAATT-AATATTTTGGAAGTAAAAACAGGGTTAGAGTA
**
1591089 TCCCCTCAAAAATGAAAA
63 TCCCCTCAAAAATG-ATG
* * *
1591107 GGGTTAGAGTATCACTGATGGTAAAAAATTGATATTTT
1 GGGTTAGAGTATCCCTGATGGTGAAAAATTAATATTTT
1591145 AGAAAAAGAA
Statistics
Matches: 330, Mismatches: 88, Indels: 32
0.73 0.20 0.07
Matches are distributed among these distances:
76 5 0.02
77 16 0.05
78 87 0.26
79 87 0.26
80 98 0.30
81 25 0.08
82 12 0.04
ACGTcount: A:0.36, C:0.11, G:0.24, T:0.29
Consensus pattern (79 bp):
GGGTTAGAGTATCCCTGATGGTGAAAAATTAATATTTTGGAAGTAAAAACAGGGTTAGAGTATCC
CCTCAAAAATGATG
Found at i:1593562 original size:51 final size:52
Alignment explanation
Indices: 1593443--1593582 Score: 210
Period size: 51 Copynumber: 2.7 Consensus size: 52
1593433 AAGTATCAAT
*
1593443 AATGTATCGATACAATGAAGAATGTATCGATACATTTGGGTCAAAAACCCAC
1 AATGTATCGATACAATGAAAAATGTATCGATACATTTGGGTCAAAAACCCAC
* * *
1593495 AATATATCGATACAATGAATAATGTATCGATACATTTGGGTC-AAAACCCAG
1 AATGTATCGATACAATGAAAAATGTATCGATACATTTGGGTCAAAAACCCAC
* * *
1593546 AATGTATCGATACAATGAAAAATTTATCAATATATTT
1 AATGTATCGATACAATGAAAAATGTATCGATACATTT
1593583 TCTTTCTAGA
Statistics
Matches: 80, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
51 40 0.50
52 40 0.50
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.29
Consensus pattern (52 bp):
AATGTATCGATACAATGAAAAATGTATCGATACATTTGGGTCAAAAACCCAC
Found at i:1593664 original size:20 final size:20
Alignment explanation
Indices: 1593619--1593680 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 20
1593609 GACATGGTCC
***
1593619 TGTATCGATACATTTCAGACA
1 TGTATCGATACATTT-ACTTA
1593640 TGTATCGATACATTTACTTA
1 TGTATCGATACATTTACTTA
* *
1593660 TGTATTGATACATTCACTTA
1 TGTATCGATACATTTACTTA
1593680 T
1 T
1593681 TGAATAATAC
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
20 21 0.58
21 15 0.42
ACGTcount: A:0.31, C:0.16, G:0.11, T:0.42
Consensus pattern (20 bp):
TGTATCGATACATTTACTTA
Found at i:1596272 original size:20 final size:20
Alignment explanation
Indices: 1596246--1596300 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 20
1596236 TTGCCTGTTT
*
1596246 CATGTATCGAGACAATTGAG
1 CATGTATCGATACAATTGAG
*
1596266 TATGTATCGATACAA-TGAG
1 CATGTATCGATACAATTGAG
*
1596285 CATATATCGATACAAT
1 CATGTATCGATACAAT
1596301 GTATCAATGC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 17 0.57
20 13 0.43
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.29
Consensus pattern (20 bp):
CATGTATCGATACAATTGAG
Found at i:1602013 original size:14 final size:13
Alignment explanation
Indices: 1601986--1602056 Score: 56
Period size: 14 Copynumber: 5.5 Consensus size: 13
1601976 TCAAGTTATT
1601986 AAAAAATAAAATA
1 AAAAAATAAAATA
*
1601999 AAAAAATAATCATA
1 AAAAAATAA-AATA
*
1602013 ATAAAAT-AAA-A
1 AAAAAATAAAATA
* * *
1602024 AATATATATAATA
1 AAAAAATAAAATA
*
1602037 AAAAAATTAAATTA
1 AAAAAA-TAAAATA
1602051 AAAAAA
1 AAAAAA
1602057 GATAAAAAAG
Statistics
Matches: 43, Mismatches: 11, Indels: 7
0.70 0.18 0.11
Matches are distributed among these distances:
11 5 0.12
12 3 0.07
13 15 0.35
14 20 0.47
ACGTcount: A:0.76, C:0.01, G:0.00, T:0.23
Consensus pattern (13 bp):
AAAAAATAAAATA
Found at i:1602016 original size:22 final size:21
Alignment explanation
Indices: 1601990--1602039 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 21
1601980 GTTATTAAAA
1601990 AATAAAATAAAAAA-ATAATCAT
1 AATAAAATAAAAAATAT-AT-AT
1602012 AATAAAATAAAAAATATATAT
1 AATAAAATAAAAAATATATAT
1602033 AATAAAA
1 AATAAAA
1602040 AAATTAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
21 9 0.33
22 16 0.59
23 2 0.07
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (21 bp):
AATAAAATAAAAAATATATAT
Found at i:1602017 original size:17 final size:16
Alignment explanation
Indices: 1601986--1602056 Score: 63
Period size: 17 Copynumber: 4.2 Consensus size: 16
1601976 TCAAGTTATT
*
1601986 AAAAAATAAAATAAAA
1 AAAAAATATAATAAAA
*
1602002 AAATAATCATAATAAAA
1 AAAAAAT-ATAATAAAA
*
1602019 TAAAAAATATATATAATA
1 -AAAAAATATA-ATAAAA
1602037 AAAAAAT-TAAATTAAAA
1 AAAAAATAT-AA-TAAAA
1602054 AAA
1 AAA
1602057 GATAAAAAAG
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
16 8 0.18
17 26 0.58
18 11 0.24
ACGTcount: A:0.76, C:0.01, G:0.00, T:0.23
Consensus pattern (16 bp):
AAAAAATATAATAAAA
Found at i:1602040 original size:22 final size:22
Alignment explanation
Indices: 1601990--1602039 Score: 77
Period size: 21 Copynumber: 2.3 Consensus size: 22
1601980 GTTATTAAAA
1601990 AATAAAATAAAAAAATAATCAT
1 AATAAAATAAAAAAATAATCAT
1602012 AATAAAAT-AAAAAATATAT-AT
1 AATAAAATAAAAAAATA-ATCAT
1602033 AATAAAA
1 AATAAAA
1602040 AAATTAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.63
22 10 0.37
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (22 bp):
AATAAAATAAAAAAATAATCAT
Found at i:1602508 original size:48 final size:48
Alignment explanation
Indices: 1602456--1602609 Score: 118
Period size: 48 Copynumber: 3.1 Consensus size: 48
1602446 AGGAATTAAA
1602456 AACAAGCACAAAAAGAATCATGTATGAAAACAATTAAGATACTATAGC
1 AACAAGCACAAAAAGAATCATGTATGAAAACAATTAAGATACTATAGC
* * *** ** **
1602504 AACAAGAAACTACAAAAGACATACA-GCAACCATGCAAATTAAAGGA-A-T-TAAA
1 AACAAG-CAC-A-AAAAGA-AT-CATGTATGAAAAC-AATT-AA-GATACTATAGC
*
1602556 AACAAGCACAAAAAGAATCATGTATGAAAACAATTAAGCTACTATAGC
1 AACAAGCACAAAAAGAATCATGTATGAAAACAATTAAGATACTATAGC
1602604 AACAAG
1 AACAAG
1602610 AAACTGCAAA
Statistics
Matches: 75, Mismatches: 19, Indels: 24
0.64 0.16 0.20
Matches are distributed among these distances:
45 1 0.01
46 3 0.04
47 7 0.09
48 20 0.27
49 8 0.11
50 2 0.03
51 8 0.11
52 14 0.19
53 7 0.09
54 3 0.04
55 2 0.03
ACGTcount: A:0.55, C:0.16, G:0.12, T:0.16
Consensus pattern (48 bp):
AACAAGCACAAAAAGAATCATGTATGAAAACAATTAAGATACTATAGC
Found at i:1602520 original size:52 final size:52
Alignment explanation
Indices: 1602463--1602620 Score: 118
Period size: 52 Copynumber: 3.1 Consensus size: 52
1602453 AAAAACAAGC
1602463 ACAAAAAGAATCATGTATGAAAACAATTAAGATACTATAGCAACAAGAAACT
1 ACAAAAAGAATCATGTATGAAAACAATTAAGATACTATAGCAACAAGAAACT
* *** ** * *
1602515 AC-AAAAGACATACA-GCAACCATGCAAATTAAAGGA-A-T-TA--AA-AACAAGC-
1 ACAAAAAGA-AT-CATGTATGAAAAC-AATT-AA-GATACTATAGCAACAAGAAACT
*
1602563 ACAAAAAGAATCATGTATGAAAACAATTAAGCTACTATAGCAACAAGAAACT
1 ACAAAAAGAATCATGTATGAAAACAATTAAGATACTATAGCAACAAGAAACT
*
1602615 GCAAAA
1 ACAAAA
1602621 GAAGCAAACA
Statistics
Matches: 74, Mismatches: 18, Indels: 28
0.62 0.15 0.23
Matches are distributed among these distances:
45 1 0.01
46 3 0.04
47 7 0.09
48 10 0.14
49 11 0.15
50 4 0.05
51 11 0.15
52 15 0.20
53 7 0.09
54 3 0.04
55 2 0.03
ACGTcount: A:0.56, C:0.16, G:0.12, T:0.16
Consensus pattern (52 bp):
ACAAAAAGAATCATGTATGAAAACAATTAAGATACTATAGCAACAAGAAACT
Found at i:1602589 original size:100 final size:100
Alignment explanation
Indices: 1602416--1602622 Score: 387
Period size: 100 Copynumber: 2.1 Consensus size: 100
1602406 GTATCAGCAG
*
1602416 CAAAAGACATACAGTAACCATGCAAATTAAAGGAATTAAAAACAAGCACAAAAAGAATCATGTAT
1 CAAAAGACATACAGCAACCATGCAAATTAAAGGAATTAAAAACAAGCACAAAAAGAATCATGTAT
1602481 GAAAACAATTAAGATACTATAGCAACAAGAAACTA
66 GAAAACAATTAAGATACTATAGCAACAAGAAACTA
1602516 CAAAAGACATACAGCAACCATGCAAATTAAAGGAATTAAAAACAAGCACAAAAAGAATCATGTAT
1 CAAAAGACATACAGCAACCATGCAAATTAAAGGAATTAAAAACAAGCACAAAAAGAATCATGTAT
* *
1602581 GAAAACAATTAAGCTACTATAGCAACAAGAAACTG
66 GAAAACAATTAAGATACTATAGCAACAAGAAACTA
1602616 CAAAAGA
1 CAAAAGA
1602623 AGCAAACAAT
Statistics
Matches: 104, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
100 104 1.00
ACGTcount: A:0.56, C:0.16, G:0.13, T:0.16
Consensus pattern (100 bp):
CAAAAGACATACAGCAACCATGCAAATTAAAGGAATTAAAAACAAGCACAAAAAGAATCATGTAT
GAAAACAATTAAGATACTATAGCAACAAGAAACTA
Found at i:1603489 original size:25 final size:24
Alignment explanation
Indices: 1603460--1603512 Score: 61
Period size: 25 Copynumber: 2.2 Consensus size: 24
1603450 GGCGACAAAC
*
1603460 AAAAAGGGAAAGCAAAGAAAGAAAA
1 AAAAAGAGAAAGCAAA-AAAGAAAA
* * *
1603485 AAAAATAGCAAGCAAATAAGAAAA
1 AAAAAGAGAAAGCAAAAAAGAAAA
1603509 AAAA
1 AAAA
1603513 GGTTCATGAG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 11 0.46
25 13 0.54
ACGTcount: A:0.74, C:0.06, G:0.17, T:0.04
Consensus pattern (24 bp):
AAAAAGAGAAAGCAAAAAAGAAAA
Found at i:1606507 original size:89 final size:89
Alignment explanation
Indices: 1606343--1606547 Score: 268
Period size: 89 Copynumber: 2.3 Consensus size: 89
1606333 CTAAAAGAGA
* * *
1606343 GGGATATGATTGGGAATGAATGGTTGGGATATCCTTACTCCAAGGAAAATCAGGTTTTGTGATGC
1 GGGATATGATTGGGAATG--T-G-TGGGATATCCTTACTCCAAGGAAAATCAGGCTTGGTAATGC
*
1606408 ATCAATACCATTTAGTGGTTGGATCAAG
62 ATCAATACCATCTAGTGGTTGGATCAAG
* * * *
1606436 GGGATATGATTAGGAATGTGTGGGCTATACCTTGCTCCAAGG-AAATTAGGCTTGGTAATGCATC
1 GGGATATGATTGGGAATGTGTGGGATAT-CCTTACTCCAAGGAAAATCAGGCTTGGTAATGCATC
*
1606500 AATACCATCTAGTGGTTGGATGAAG
65 AATACCATCTAGTGGTTGGATCAAG
*
1606525 GGGATATGATTGGGAATATGTGG
1 GGGATATGATTGGGAATGTGTGG
1606548 TTTCCATGAT
Statistics
Matches: 100, Mismatches: 11, Indels: 6
0.85 0.09 0.05
Matches are distributed among these distances:
89 69 0.69
90 13 0.13
91 1 0.01
93 17 0.17
ACGTcount: A:0.28, C:0.11, G:0.30, T:0.30
Consensus pattern (89 bp):
GGGATATGATTGGGAATGTGTGGGATATCCTTACTCCAAGGAAAATCAGGCTTGGTAATGCATCA
ATACCATCTAGTGGTTGGATCAAG
Found at i:1607101 original size:88 final size:86
Alignment explanation
Indices: 1606799--1607124 Score: 306
Period size: 88 Copynumber: 3.8 Consensus size: 86
1606789 GTAGATGTGT
* * *
1606799 GTGAAATAATGCAAATGCAAGCATCAATA-AAAGGCAAATGCATATGGAATGATGCAAATACTAA
1 GTGAAACAATGCAAATGCAAGCATCAATAGAATGGCAAATGCATATGAAATGATGCAAATACTAA
* * *
1606863 TGTCGTGTGAAATGCAAGTATGTA
66 TGTCATCT-AAAAGCAA--ATGTA
* * *
1606887 -TGAAACAATGCAAATACAAGAATC-A-AG--TGGCAAATGCATATGAAATGATGCAAATGCTAA
1 GTGAAACAATGCAAATGCAAGCATCAATAGAATGGCAAATGCATATGAAATGATGCAAATACTAA
* *
1606947 TGTTATCTGAATA-CAAATGTA
66 TGTCATCT-AAAAGCAAATGTA
** * * * * * * * *
1606968 TGTGAAATGATACAAATGCAAGCATCAACAAAAGGGCAAACGCATATGCAATGATGCACATACCA
1 -GTGAAACAATGCAAATGCAAGCATCAATAGAATGGCAAATGCATATGAAATGATGCAAATACTA
1607033 ATGTCATCTAAAACGCAAATGTA
65 ATGTCATCTAAAA-GCAAATGTA
* * * * *
1607056 GGTGAGACAATGTAAATGCAAGCATCAATAGAATGACAAATGCATATGAAAAGATGCAAATGCTA
1 -GTGAAACAATGCAAATGCAAGCATCAATAGAATGGCAAATGCATATGAAATGATGCAAATACTA
1607121 ATGT
65 ATGT
1607125 AGTCTAATTC
Statistics
Matches: 188, Mismatches: 41, Indels: 18
0.76 0.17 0.07
Matches are distributed among these distances:
81 5 0.03
83 22 0.12
84 39 0.21
85 2 0.01
86 4 0.02
87 55 0.29
88 61 0.32
ACGTcount: A:0.44, C:0.14, G:0.19, T:0.22
Consensus pattern (86 bp):
GTGAAACAATGCAAATGCAAGCATCAATAGAATGGCAAATGCATATGAAATGATGCAAATACTAA
TGTCATCTAAAAGCAAATGTA
Found at i:1607236 original size:10 final size:10
Alignment explanation
Indices: 1607223--1607249 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
1607213 TTTTGTTGGT
1607223 TTTTTTTTTG
1 TTTTTTTTTG
1607233 TTTTTTTTTG
1 TTTTTTTTTG
1607243 TTTTTTT
1 TTTTTTT
1607250 AAGCCTTTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.00, C:0.00, G:0.07, T:0.93
Consensus pattern (10 bp):
TTTTTTTTTG
Found at i:1609584 original size:22 final size:23
Alignment explanation
Indices: 1609554--1609600 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
1609544 ATGTCAAACA
*
1609554 AATATATACAAA-AGATATATTAC
1 AATATATACAAACAAATATA-TAC
1609577 AATA-ATACAAACAAATATATAC
1 AATATATACAAACAAATATATAC
1609599 AA
1 AA
1609601 AAAAGCTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 12 0.55
23 10 0.45
ACGTcount: A:0.62, C:0.11, G:0.02, T:0.26
Consensus pattern (23 bp):
AATATATACAAACAAATATATAC
Found at i:1612402 original size:281 final size:281
Alignment explanation
Indices: 1611899--1612465 Score: 1116
Period size: 281 Copynumber: 2.0 Consensus size: 281
1611889 AAAAATAAGG
1611899 AAATAATATTAAATATTTAGATTTTGAAATTTTCATTTCGATACCGATGGAGAATCGAAAGGATA
1 AAATAATATTAAATATTTAGATTTTGAAATTTTCATTTCGATACCGATGGAGAATCGAAAGGATA
1611964 CAAAAGGTTTTGGATATTTCTATATCTCATAACGTGGCCTAGGTACGAACCCCAACCAAGCCTAA
66 CAAAAGGTTTTGGATATTTCTATATCTCATAACGTGGCCTAGGTACGAACCCCAACCAAGCCTAA
1612029 ATTAAAATGGCCCTTGATTTAAGTATAGAAACGTCGATAAGTGAAAAAGTATAATTATGTTGACT
131 ATTAAAATGGCCCTTGATTTAAGTATAGAAACGTCGATAAGTGAAAAAGTATAATTATGTTGACT
* *
1612094 CCTTTTTTTTCGGCCATAATGATCTAAACCTTTCATATTTTTCAAGACTCGAGTTAGTGAGATAA
196 CCTTTTTTTTCGGCCATAACGATCTAAACCTTTCATATTTTTCAAGACTCGAGTTAGCGAGATAA
1612159 GTGGCTCACTCGACTAACCCT
261 GTGGCTCACTCGACTAACCCT
1612180 AAATAATATTAAATATTTAGATTTTGAAATTTTCATTTCGATACCGATGGAGAATCGAAAGGATA
1 AAATAATATTAAATATTTAGATTTTGAAATTTTCATTTCGATACCGATGGAGAATCGAAAGGATA
1612245 CAAAAGGTTTTGGATATTTCTATATCTCATAACGTGGCCTAGGTACGAACCCCAACCAAGCCTAA
66 CAAAAGGTTTTGGATATTTCTATATCTCATAACGTGGCCTAGGTACGAACCCCAACCAAGCCTAA
1612310 ATTAAAATGGCCCTTGATTTAAGTATAGAAACGTCGATAAGTGAAAAAGTATAATTATGTTGACT
131 ATTAAAATGGCCCTTGATTTAAGTATAGAAACGTCGATAAGTGAAAAAGTATAATTATGTTGACT
1612375 CCTTTTTTTTCGGCCATAACGATCTAAACCTTTCATATTTTTCAAGACTCGAGTTAGCGAGATAA
196 CCTTTTTTTTCGGCCATAACGATCTAAACCTTTCATATTTTTCAAGACTCGAGTTAGCGAGATAA
1612440 GTGGCTCACTCGACTAACCCT
261 GTGGCTCACTCGACTAACCCT
1612461 AAATA
1 AAATA
1612466 GTCATTACGA
Statistics
Matches: 284, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
281 284 1.00
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.32
Consensus pattern (281 bp):
AAATAATATTAAATATTTAGATTTTGAAATTTTCATTTCGATACCGATGGAGAATCGAAAGGATA
CAAAAGGTTTTGGATATTTCTATATCTCATAACGTGGCCTAGGTACGAACCCCAACCAAGCCTAA
ATTAAAATGGCCCTTGATTTAAGTATAGAAACGTCGATAAGTGAAAAAGTATAATTATGTTGACT
CCTTTTTTTTCGGCCATAACGATCTAAACCTTTCATATTTTTCAAGACTCGAGTTAGCGAGATAA
GTGGCTCACTCGACTAACCCT
Found at i:1613724 original size:19 final size:19
Alignment explanation
Indices: 1613691--1613740 Score: 75
Period size: 19 Copynumber: 2.7 Consensus size: 19
1613681 AAAACCTTGC
*
1613691 TCAAA-ATGATTTTCAAAA
1 TCAAAGATGTTTTTCAAAA
*
1613709 TCAAAGGTGTTTTTCAAAA
1 TCAAAGATGTTTTTCAAAA
1613728 TCAAAGATGTTTT
1 TCAAAGATGTTTT
1613741 AGAGTTAAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
18 5 0.18
19 23 0.82
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (19 bp):
TCAAAGATGTTTTTCAAAA
Found at i:1614020 original size:13 final size:13
Alignment explanation
Indices: 1614002--1614031 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
1613992 GCTAAAACTC
*
1614002 ACATTGTATCGAT
1 ACATTGTATCAAT
1614015 ACATTGTATCAAT
1 ACATTGTATCAAT
1614028 ACAT
1 ACAT
1614032 GAAGGATTGC
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:0.37, C:0.17, G:0.10, T:0.37
Consensus pattern (13 bp):
ACATTGTATCAAT
Found at i:1615671 original size:3 final size:3
Alignment explanation
Indices: 1615656--1615687 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
1615646 AACCATTAAA
*
1615656 GAT GAT GAA GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
1615688 CGAGGAAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.34, T:0.28
Consensus pattern (3 bp):
GAT
Found at i:1622014 original size:34 final size:34
Alignment explanation
Indices: 1621970--1622037 Score: 102
Period size: 34 Copynumber: 2.0 Consensus size: 34
1621960 TTGCTACAAC
*
1621970 AAAAAGGGGGAGAAATA-TTTTGAAAATAAATTTG
1 AAAAAAGGGGAGAAATATTTTTG-AAATAAATTTG
*
1622004 AAAAAAGGGGAGAGATATTTTTGAAATAAATTTG
1 AAAAAAGGGGAGAAATATTTTTGAAATAAATTTG
1622038 TTTTGCAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
34 26 0.84
35 5 0.16
ACGTcount: A:0.49, C:0.00, G:0.24, T:0.28
Consensus pattern (34 bp):
AAAAAAGGGGAGAAATATTTTTGAAATAAATTTG
Found at i:1625862 original size:10 final size:10
Alignment explanation
Indices: 1625847--1625887 Score: 61
Period size: 10 Copynumber: 4.4 Consensus size: 10
1625837 TTAATTTTGA
1625847 TTTTTTGATT
1 TTTTTTGATT
1625857 TTTTTTGA--
1 TTTTTTGATT
1625865 TTTTTTGATT
1 TTTTTTGATT
1625875 TTTTTT-ATT
1 TTTTTTGATT
1625884 TTTT
1 TTTT
1625888 ATTACTATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
8 8 0.28
9 7 0.24
10 14 0.48
ACGTcount: A:0.10, C:0.00, G:0.07, T:0.83
Consensus pattern (10 bp):
TTTTTTGATT
Found at i:1625864 original size:18 final size:18
Alignment explanation
Indices: 1625841--1625887 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
1625831 GAATTTTTAA
1625841 TTTTGATTTTTTGATTTT
1 TTTTGATTTTTTGATTTT
1625859 TTTTGATTTTTTGATTTT
1 TTTTGATTTTTTGATTTT
1625877 TTTT-ATTTTTT
1 TTTTGATTTTTT
1625888 ATTACTATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
17 7 0.24
18 22 0.76
ACGTcount: A:0.11, C:0.00, G:0.09, T:0.81
Consensus pattern (18 bp):
TTTTGATTTTTTGATTTT
Found at i:1625887 original size:8 final size:8
Alignment explanation
Indices: 1625841--1625878 Score: 58
Period size: 8 Copynumber: 4.5 Consensus size: 8
1625831 GAATTTTTAA
1625841 TTTTGATT
1 TTTTGATT
1625849 TTTTGATTTT
1 TTTTGA--TT
1625859 TTTTGATT
1 TTTTGATT
1625867 TTTTGATT
1 TTTTGATT
1625875 TTTT
1 TTTT
1625879 TTATTTTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
8 20 0.71
10 8 0.29
ACGTcount: A:0.11, C:0.00, G:0.11, T:0.79
Consensus pattern (8 bp):
TTTTGATT
Found at i:1626561 original size:42 final size:40
Alignment explanation
Indices: 1626488--1627075 Score: 113
Period size: 42 Copynumber: 13.8 Consensus size: 40
1626478 AGGCTGACCA
* * * *
1626488 GGGACAAAGCCGATAGGTCACCAAGGAGTAAGAAGTTTCTCG
1 GGGACAAAGCCGACAAGTAACTAAGG-GTAAGAAGTTTC-CG
* * ***
1626530 GGGACATAGCCGATAAGTAAACTAAGGGTAAGAAAGGCTGAACG
1 GGGACAAAGCCGACAAGT-AACTAAGGGTAAG-AA-G-TTTCCG
*
1626574 GGGACAAAGCCGACAAGTCACTAAGGGTAAGAAGTTTACCG
1 GGGACAAAGCCGACAAGTAACTAAGGGTAAGAAGTTT-CCG
** * * * * ** *
1626615 AAGACATAGCCCACAAGTAAATAAAGGGTAAAAAGGCTGACTG
1 GGGACAAAGCCGACAAGTAACT-AAGGGTAAGAA-G-TTTCCG
* * * * * * *
1626658 AGGACAAAGCCGACAGGTTACCAAAAGGTAAAAAATTTACCG
1 GGGACAAAGCCGACAAG-TAACTAAGGGTAAGAAGTTT-CCG
* * * ** **
1626700 AGGACATAGCCGACAGGTAAAAAAAGGGTAAGAAAGGCTGACCG
1 GGGACAAAGCCGACAAGT-AACTAAGGGTAAG-AA-G-TTTCCG
* * * * *
1626744 GGGACAAAGCCCACAGGTCACCAAGGAGTAAGAAGTTTACCA
1 GGGACAAAGCCGACAAGTAACTAAGG-GTAAGAAGTTT-CCG
* * * ** * **
1626786 GGGACATAGTCGACAGGTAAAAAAAGGGTAATAAAGGCTGACCG
1 GGGACAAAGCCGACAAGT-AACTAAGGGTAA-GAA-G-TTTCCG
** * * * *
1626830 AAGACAAAGCCCATAAGTCACCAAGGAGTAAGAAGTTTACCG
1 GGGACAAAGCCGACAAGTAACTAAGG-GTAAGAAGTTT-CCG
* * * * * * * * *
1626872 GAGACATAGTCGATAAGTAAACAAAGGGCAATAATGGTTGACCA
1 GGGACAAAGCCGACAAGT-AACTAAGGGTAAGAA--GTT-TCCG
* *
1626916 GGGACAAAGCCGACAGGT--CGTCAAGGGCAAGAAGTTTACCG
1 GGGACAAAGCCGACAAGTAAC-T-AAGGGTAAGAAGTTT-CCG
* * * **
1626957 GGGACATAGCCGACATGTAAACAAAGGGTAAGAAATGCTAACCG
1 GGGACAAAGCCGACAAGT-AACTAAGGGTAAG-AA-G-TTTCCG
* * * *
1627001 GGGACAAAGCCG-TAGGTTA-TGAAGGAGTAAAAAGTTTACCG
1 GGGACAAAGCCGACAAGTAACT-AAGG-GTAAGAAGTTT-CCG
* * * *
1627042 GGGACATAGTCGACAGGTAAACAAAGGGTAAGAA
1 GGGACAAAGCCGACAAGT-AACTAAGGGTAAGAA
1627076 TGGTTGACAG
Statistics
Matches: 391, Mismatches: 114, Indels: 82
0.67 0.19 0.14
Matches are distributed among these distances:
40 2 0.01
41 59 0.15
42 130 0.33
43 99 0.25
44 97 0.25
45 4 0.01
ACGTcount: A:0.40, C:0.17, G:0.28, T:0.14
Consensus pattern (40 bp):
GGGACAAAGCCGACAAGTAACTAAGGGTAAGAAGTTTCCG
Found at i:1627185 original size:43 final size:43
Alignment explanation
Indices: 1627137--1627437 Score: 161
Period size: 43 Copynumber: 7.1 Consensus size: 43
1627127 AACATAGCTA
* *
1627137 ACAGGTAAACAAAGGGAGGAATGGTTGACCGAGGATAAAGTCG
1 ACAGGTAAACAAAGGGAGGAATGGTTGACCGAGGACAAAGCCG
* ** * * * **
1627180 ACAGGT-CACCTA-GGAGTAA-GAAGTTTACCGAGTACAAAGTTG
1 ACAGGTAAACAAAGGGAGGAATG--GTTGACCGAGGACAAAGCCG
* * * * *
1627222 ACAGGTAAACAAAGAGAAGAATGCTTGACC-AGGGATAAAGCTG
1 ACAGGTAAACAAAGGGAGGAATGGTTGACCGA-GGACAAAGCCG
* * * * * *
1627265 ACAGGTCACCTAAGAGCAAGAA--GTTTACCGAGGACAAAGCCG
1 ACAGGTAAACAAAG-GGAGGAATGGTTGACCGAGGACAAAGCCG
* * * * *
1627307 ATAGGTAAACAAAGAGAGGAATGCTTGACCAAGGATAAAGCCG
1 ACAGGTAAACAAAGGGAGGAATGGTTGACCGAGGACAAAGCCG
* * * * * * *
1627350 ACAGGT-CACTTAAGAGTAAGAA--GTTTACCGAGGACAAAGTCA
1 ACAGGTAAAC-AAAG-GGAGGAATGGTTGACCGAGGACAAAGCCG
* * *
1627392 ACAGGTAGACAAAGAGAGGAATGGTTGACCGGGGACAAAGCCG
1 ACAGGTAAACAAAGGGAGGAATGGTTGACCGAGGACAAAGCCG
1627435 ACA
1 ACA
1627438 TGTCATTTAG
Statistics
Matches: 183, Mismatches: 60, Indels: 30
0.67 0.22 0.11
Matches are distributed among these distances:
40 1 0.01
41 14 0.08
42 75 0.41
43 79 0.43
44 13 0.07
45 1 0.01
ACGTcount: A:0.40, C:0.16, G:0.29, T:0.15
Consensus pattern (43 bp):
ACAGGTAAACAAAGGGAGGAATGGTTGACCGAGGACAAAGCCG
Found at i:1627211 original size:42 final size:41
Alignment explanation
Indices: 1627164--1627397 Score: 184
Period size: 42 Copynumber: 5.5 Consensus size: 41
1627154 GGAATGGTTG
* *
1627164 ACCGAGGATAAAGTCGACAGGTCACCTAGGAGTAAGAAGTTT
1 ACCGAGGACAAAGTCGACAGGTCACCTAAGAG-AAGAAGTTT
* * * * * *
1627206 ACCGAGTACAAAGTTGACAGGTAAACAAAGAGAAGAATGCTTG
1 ACCGAGGACAAAGTCGACAGGTCACCTAAGAGAAGAA-G-TTT
*
1627249 ACC-AGGGATAAAG-CTGACAGGTCACCTAAGAGCAAGAAGTTT
1 ACCGA-GGACAAAGTC-GACAGGTCACCTAAGAG-AAGAAGTTT
* * * * * * *
1627291 ACCGAGGACAAAGCCGATAGGTAAACAAAGAGAGGAATGCTTG
1 ACCGAGGACAAAGTCGACAGGTCACCTAAGAGAAGAA-G-TTT
* * * *
1627334 ACCAAGGATAAAGCCGACAGGTCACTTAAGAGTAAGAAGTTT
1 ACCGAGGACAAAGTCGACAGGTCACCTAAGAG-AAGAAGTTT
*
1627376 ACCGAGGACAAAGTCAACAGGT
1 ACCGAGGACAAAGTCGACAGGT
1627398 AGACAAAGAG
Statistics
Matches: 147, Mismatches: 35, Indels: 20
0.73 0.17 0.10
Matches are distributed among these distances:
41 9 0.06
42 73 0.50
43 56 0.38
44 9 0.06
ACGTcount: A:0.40, C:0.17, G:0.27, T:0.16
Consensus pattern (41 bp):
ACCGAGGACAAAGTCGACAGGTCACCTAAGAGAAGAAGTTT
Found at i:1627250 original size:85 final size:86
Alignment explanation
Indices: 1626458--1627461 Score: 838
Period size: 85 Copynumber: 11.8 Consensus size: 86
1626448 CAAAACAAAT
* *
1626458 AGGTAAACAAAGGGTAAGAAAGGC-TGACC-AGGGACAAAGCCGATAGGTCACCAAGGAGTAAGA
1 AGGTAAACAAAGGGTAAG-AATGCTTGACCGA-GGACAAAGCCGACAGGTCACCAAGGAGTAAGA
* * *
1626521 AGTTT-CTCGGGGACATAGCCGAT
64 AGTTTAC-CGAGGACATAGTCGAC
* * * * * * *
1626544 AAGTAAACTAAGGGTAAGAAAGGC-TGAACGGGGACAAAGCCGACAAGTCACTAAGG-GTAAGAA
1 AGGTAAACAAAGGGTAAG-AATGCTTGACCGAGGACAAAGCCGACAGGTCACCAAGGAGTAAGAA
* * *
1626607 GTTTACCGAAGACATAGCCCAC
65 GTTTACCGAGGACATAGTCGAC
* * * * * * * *
1626629 AAGTAAATAAAGGGTAAAAAGGC-TGACTGAGGACAAAGCCGACAGGTTACCAA-AAGGTAAAAA
1 AGGTAAACAAAGGGTAAGAATGCTTGACCGAGGACAAAGCCGACAGGTCACCAAGGA-GTAAGAA
* *
1626692 ATTTACCGAGGACATAGCCGAC
65 GTTTACCGAGGACATAGTCGAC
* * * *
1626714 AGGTAAAAAAAGGGTAAGAAAGGC-TGACCGGGGACAAAGCCCACAGGTCACCAAGGAGTAAGAA
1 AGGTAAACAAAGGGTAAG-AATGCTTGACCGAGGACAAAGCCGACAGGTCACCAAGGAGTAAGAA
1626778 GTTTACC-AGGGACATAGTCGAC
65 GTTTACCGA-GGACATAGTCGAC
* * * * * * *
1626800 AGGTAAAAAAAGGGTAATAAAGGC-TGACCGAAGACAAAGCCCATAAGTCACCAAGGAGTAAGAA
1 AGGTAAACAAAGGGTAA-GAATGCTTGACCGAGGACAAAGCCGACAGGTCACCAAGGAGTAAGAA
*
1626864 GTTTACCG-GAGACATAGTCGAT
65 GTTTACCGAG-GACATAGTCGAC
* * * * ** *
1626886 AAGTAAACAAAGGGCAATAATGGTTGACC-AGGGACAAAGCCGACAGGTCGTCAAGG-GCAAGAA
1 AGGTAAACAAAGGGTAAGAATGCTTGACCGA-GGACAAAGCCGACAGGTCACCAAGGAGTAAGAA
* *
1626949 GTTTACCGGGGACATAGCCGAC
65 GTTTACCGAGGACATAGTCGAC
* * * * * ** *
1626971 ATGTAAACAAAGGGTAAGAAATGC-TAACCGGGGACAAAGCCG-TAGGTTATGAAGGAGTAAAAA
1 AGGTAAACAAAGGGTAAG-AATGCTTGACCGAGGACAAAGCCGACAGGTCACCAAGGAGTAAGAA
*
1627034 GTTTACCGGGGACATAGTCGAC
65 GTTTACCGAGGACATAGTCGAC
* * * * * *
1627056 AGGTAAACAAAGGGTAAGAATGGTTGACAGGGGACAAAACTGACGGGTCACCAAGG-GATAAGAA
1 AGGTAAACAAAGGGTAAGAATGCTTGACCGAGGACAAAGCCGACAGGTCACCAAGGAG-TAAGAA
*
1627120 GTTTACC-A--ACATAG-CTAAC
65 GTTTACCGAGGACATAGTC-GAC
* * * * *
1627139 AGGTAAACAAAGGG-AGGAATGGTTGACCGAGGATAAAGTCGACAGGTCACCTAGGAGTAAGAAG
1 AGGTAAACAAAGGGTAAGAATGCTTGACCGAGGACAAAGCCGACAGGTCACCAAGGAGTAAGAAG
* * *
1627203 TTTACCGAGTACAAAGTTGAC
66 TTTACCGAGGACATAGTCGAC
* * * *
1627224 AGGTAAACAAAGAG-AAGAATGCTTGACC-AGGGATAAAGCTGACAGGTCACCTAA-GAGCAAGA
1 AGGTAAACAAAGGGTAAGAATGCTTGACCGA-GGACAAAGCCGACAGGTCACC-AAGGAGTAAGA
* * *
1627286 AGTTTACCGAGGACAAAGCCGAT
64 AGTTTACCGAGGACATAGTCGAC
* * * * *
1627309 AGGTAAACAAAGAG-AGGAATGCTTGACCAAGGATAAAGCCGACAGGTCACTTAA-GAGTAAGAA
1 AGGTAAACAAAGGGTAAGAATGCTTGACCGAGGACAAAGCCGACAGGTCAC-CAAGGAGTAAGAA
* *
1627372 GTTTACCGAGGACAAAGTCAAC
65 GTTTACCGAGGACATAGTCGAC
* * * * * * ***
1627394 AGGTAGACAAAGAG-AGGAATGGTTGACCGGGGACAAAGCCGACATGTCATTTAGGAGTAAGAAG
1 AGGTAAACAAAGGGTAAGAATGCTTGACCGAGGACAAAGCCGACAGGTCACCAAGGAGTAAGAAG
1627458 TTTA
66 TTTA
1627462 AAAGGGACAA
Statistics
Matches: 766, Mismatches: 122, Indels: 61
0.81 0.13 0.06
Matches are distributed among these distances:
82 46 0.06
83 24 0.03
84 45 0.06
85 405 0.53
86 245 0.32
87 1 0.00
ACGTcount: A:0.40, C:0.17, G:0.28, T:0.15
Consensus pattern (86 bp):
AGGTAAACAAAGGGTAAGAATGCTTGACCGAGGACAAAGCCGACAGGTCACCAAGGAGTAAGAAG
TTTACCGAGGACATAGTCGAC
Found at i:1627458 original size:170 final size:169
Alignment explanation
Indices: 1626458--1627556 Score: 939
Period size: 170 Copynumber: 6.4 Consensus size: 169
1626448 CAAAACAAAT
* *
1626458 AGGTAAACAAAGGGTAAGAAAGGCTGACC-AGGGACAAAGCCGATAGGTCACCAAGGAGTAAGAA
1 AGGTAAACAAAGGGT-AGAAATGCTGACCGA-GGACAAAGCCGACAGGTCACCAA-GAGTAAGAA
* * * * * * * *
1626522 GTTT-CTCGGGGACATAGCCGATAAGTAAACTAAGGGTAAGAAAGGCTGAACGGGGACAAAGCCG
63 GTTTAC-CGAGGACATAGTCGACAGGTAAACAAAGGGTAAGAATGGTTGACCGGGGACAAAGCCG
* * * *
1626586 ACAAGTCACTAAGGGTAAGAAGTTTACCGAAGACATAGCCCAC
127 ACAGGTCACCAAGGGTAAGAAGTTTACCGAGGACATAGCCGAC
* * * * * * * * *
1626629 AAGTAAATAAAGGGTAAAAAGGCTGACTGAGGACAAAGCCGACAGGTTACCAAAAGGTAAAAAAT
1 AGGTAAACAAAGGGTAGAAATGCTGACCGAGGACAAAGCCGACAGGTCACCAAGA-GTAAGAAGT
* * * * *
1626694 TTACCGAGGACATAGCCGACAGGTAAAAAAAGGGTAAGAAAGGCTGACCGGGGACAAAGCCCACA
65 TTACCGAGGACATAGTCGACAGGTAAACAAAGGGTAAGAATGGTTGACCGGGGACAAAGCCGACA
*
1626759 GGTCACCAAGGAGTAAGAAGTTTACC-AGGGACATAGTCGAC
130 GGTCACCAAGG-GTAAGAAGTTTACCGA-GGACATAGCCGAC
* * * * * * *
1626800 AGGTAAAAAAAGGGTAATAAAGGCTGACCGAAGACAAAGCCCATAAGTCACCAAGGAGTAAGAAG
1 AGGTAAACAAAGGGT-AGAAATGCTGACCGAGGACAAAGCCGACAGGTCACCAA-GAGTAAGAAG
* * * * *
1626865 TTTACCG-GAGACATAGTCGATAAGTAAACAAAGGGCAATAATGGTTGACCAGGGACAAAGCCGA
64 TTTACCGAG-GACATAGTCGACAGGTAAACAAAGGGTAAGAATGGTTGACCGGGGACAAAGCCGA
** * *
1626929 CAGGTCGTCAAGGGCAAGAAGTTTACCGGGGACATAGCCGAC
128 CAGGTCACCAAGGGTAAGAAGTTTACCGAGGACATAGCCGAC
* * * * * ** *
1626971 ATGTAAACAAAGGGTAAGAAATGCTAACCGGGGACAAAGCCG-TAGGTTATGAAGGAGTAAAAAG
1 AGGTAAACAAAGGGT-AGAAATGCTGACCGAGGACAAAGCCGACAGGTCACCAA-GAGTAAGAAG
* * * *
1627035 TTTACCGGGGACATAGTCGACAGGTAAACAAAGGGTAAGAATGGTTGACAGGGGACAAAACTGAC
64 TTTACCGAGGACATAGTCGACAGGTAAACAAAGGGTAAGAATGGTTGACCGGGGACAAAGCCGAC
* **
1627100 GGGTCACCAAGGGATAAGAAGTTTACC-A--ACATAGCTAAC
129 AGGTCACCAAGGG-TAAGAAGTTTACCGAGGACATAGCCGAC
* * * * *
1627139 AGGTAAACAAAGGG-AGGAATGGTTGACCGAGGATAAAGTCGACAGGTCACCTAGGAGTAAGAAG
1 AGGTAAACAAAGGGTAGAAAT-GCTGACCGAGGACAAAGCCGACAGGTCACC-AAGAGTAAGAAG
* * * * * * * *
1627203 TTTACCGAGTACAAAGTTGACAGGTAAACAAAGAG-AAGAATGCTTGACCAGGGATAAAGCTGAC
64 TTTACCGAGGACATAGTCGACAGGTAAACAAAGGGTAAGAATGGTTGACCGGGGACAAAGCCGAC
* * * *
1627267 AGGTCACCTAAGAGCAAGAAGTTTACCGAGGACAAAGCCGAT
129 AGGTCACC-AAGGGTAAGAAGTTTACCGAGGACATAGCCGAC
* * * * *
1627309 AGGTAAACAAAGAG-AGGAATGCTTGACCAAGGATAAAGCCGACAGGTCACTTAAGAGTAAGAAG
1 AGGTAAACAAAGGGTAGAAATGC-TGACCGAGGACAAAGCCGACAGGTCAC-CAAGAGTAAGAAG
* * * * *
1627373 TTTACCGAGGACAAAGTCAACAGGTAGACAAAGAG-AGGAATGGTTGACCGGGGACAAAGCCGAC
64 TTTACCGAGGACATAGTCGACAGGTAAACAAAGGGTAAGAATGGTTGACCGGGGACAAAGCCGAC
* *** ** * *
1627437 ATGTCATTTAGGAGTAAGAAGTTTA-AAAGGGACAAAGCCGAT
129 AGGTCACCAAGG-GTAAGAAGTTTACCGA-GGACATAGCCGAC
* * * * * * * * *
1627479 AAGTAATA-AAAAGGTAAGAAAGGCTAATCGGGGACAAAGCTGATAAGTCACCAAGGAGTAAGAA
1 AGGTAA-ACAAAGGGT-AGAAATGCTGACCGAGGACAAAGCCGACAGGTCACCAA-GAGTAAGAA
* *
1627543 GTTCATCGAGGACA
63 GTTTACCGAGGACA
1627557 AAGCTGATAG
Statistics
Matches: 757, Mismatches: 145, Indels: 52
0.79 0.15 0.05
Matches are distributed among these distances:
166 5 0.01
167 58 0.08
168 71 0.09
169 6 0.01
170 344 0.45
171 166 0.22
172 106 0.14
173 1 0.00
ACGTcount: A:0.40, C:0.16, G:0.28, T:0.15
Consensus pattern (169 bp):
AGGTAAACAAAGGGTAGAAATGCTGACCGAGGACAAAGCCGACAGGTCACCAAGAGTAAGAAGTT
TACCGAGGACATAGTCGACAGGTAAACAAAGGGTAAGAATGGTTGACCGGGGACAAAGCCGACAG
GTCACCAAGGGTAAGAAGTTTACCGAGGACATAGCCGAC
Found at i:1627799 original size:47 final size:46
Alignment explanation
Indices: 1627711--1628760 Score: 632
Period size: 47 Copynumber: 22.7 Consensus size: 46
1627701 ACAAGAAATA
* ** * *
1627711 TTTGACCAAGTCCTAATGTTAAGACAGTCAAAT-GAGAATGAGAAGAG
1 TTTGACCAGGTCCTAATGCCAATACAGTCAAATAG-GGATGAGAA-AG
** * *
1627758 TTTGATTAGGTCCTAACGCCAATACAG-CTAAATAGGGATGAGAAAT
1 TTTGACCAGGTCCTAATGCCAATACAGTC-AAATAGGGATGAGAAAG
** * *
1627804 TTTGACCAGGTCCTAACACCAATAAAGTCAAAT-GAGGATAAGAAAAG
1 TTTGACCAGGTCCTAATGCCAATACAGTCAAATAG-GGATGAG-AAAG
* * * * *
1627851 TTTGGCTAGGTCCTAATGCCAATACAGTAAAACGAGGG-TAAGAAGAG
1 TTTGACCAGGTCCTAATGCCAATACAGTCAAA-TAGGGATGAGAA-AG
* *
1627898 TTTGACCAGGTCCTAATGCCAATACAGTTAAACAGGGATGAGAAAG
1 TTTGACCAGGTCCTAATGCCAATACAGTCAAATAGGGATGAGAAAG
* *
1627944 TTTGACCAGGTCCTAATGCCAATACAGTCAAAT-GAAGATAAGAAAAG
1 TTTGACCAGGTCCTAATGCCAATACAGTCAAATAG-GGATGAG-AAAG
* * * *
1627991 TTTGACCTGGCCCTAATGCCAATACAGTCAAATGATGG-TGCGAAGAG
1 TTTGACCAGGTCCTAATGCCAATACAGTCAAAT-AGGGATGAGAA-AG
* * *
1628038 TTTGACCAAGTCCTAATGCTAATAAAGTCAAATAGGGATGAGAAAG
1 TTTGACCAGGTCCTAATGCCAATACAGTCAAATAGGGATGAGAAAG
* * * * * * * *
1628084 TTTAACGAGGTCCTAACGCTAATACAATAAAAT-GAGGATAAGAAAAT
1 TTTGACCAGGTCCTAATGCCAATACAGTCAAATAG-GGATGAG-AAAG
* * * * ** *
1628131 TTTGACCAAGTCCTAATGCTAATACAGTTAAA-CGAGTTTGAAAAGAAG
1 TTTGACCAGGTCCTAATGCCAATACAGTCAAATAG-GGATG-AGA-AAG
* * * ** * * * *
1628179 TTTGACCTGGTCTTCACACCAATACAATCAAACAAAGGTGA-AAAAGAAG
1 TTTGACCAGGTCCTAATGCCAATACAGTC-AA-ATAGG-GATGAGA-AAG
* * *
1628228 TTTGACTC-GGTCTTAATGCCAATACAGTCAAACAGGGATAAGAAAAG
1 TTTGAC-CAGGTCCTAATGCCAATACAGTCAAATAGGGATGAG-AAAG
* ** * *
1628275 TTTGACCAAGTCCTAACACCAATACAGTCAAA-CGAGGATAAGAAAAG
1 TTTGACCAGGTCCTAATGCCAATACAGTCAAATAG-GGATGAG-AAAG
* * * * *
1628322 TTTCACCAAGTCCTAATGCCAATATAGTCGAA-CGAGGATGAGAAGAG
1 TTTGACCAGGTCCTAATGCCAATACAGTCAAATAG-GGATGAGAA-AG
* * * * * *
1628369 TTTGACCAGTTCCTAACGCCTATAGAGTTAAACAGGGATGAG--A-
1 TTTGACCAGGTCCTAATGCCAATACAGTCAAATAGGGATGAGAAAG
* * *
1628412 TTTGACCAGGTCCTAATGCCAATATAGTCAAAT-GATGATAAGAAAAG
1 TTTGACCAGGTCCTAATGCCAATACAGTCAAATAG-GGATGAG-AAAG
* * * *
1628459 TTTAACCAGGTCTTAATGCCAATACAGTCAAACGAGGG-TAAGAAGAG
1 TTTGACCAGGTCCTAATGCCAATACAGTCAAA-TAGGGATGAGAA-AG
* * *
1628506 TTT-A--A----C---T-CCAACACAGTCAAAAAAGGATGAGAAAG
1 TTTGACCAGGTCCTAATGCCAATACAGTCAAATAGGGATGAGAAAG
* *
1628541 TTTGACCAGGTCCTAATGCCAATATAGTCAAAT-GAGGATAAGAAAAG
1 TTTGACCAGGTCCTAATGCCAATACAGTCAAATAG-GGATGAG-AAAG
** * *
1628588 TTTGACCATATCCTAATGCCAATATAGTCAAACGAGGG-TGAGAAGAG
1 TTTGACCAGGTCCTAATGCCAATACAGTCAAA-TAGGGATGAGAA-AG
* * * *
1628635 TTTGACCAAGTCCTAACGCTAATACAGTCAAAT-GAGGATAAGAAAAG
1 TTTGACCAGGTCCTAATGCCAATACAGTCAAATAG-GGATGAG-AAAG
* ** * * *
1628682 TTTGACCAGGTCTTAACACCAATACAGCCAAACAGGGATAAGAAAAG
1 TTTGACCAGGTCCTAATGCCAATACAGTCAAATAGGGATGAG-AAAG
* ** *
1628729 TTTAACCAGGTCCTAGCGCTAATACAGTCAAA
1 TTTGACCAGGTCCTAATGCCAATACAGTCAAA
1628761 CATGAATAAA
Statistics
Matches: 794, Mismatches: 149, Indels: 120
0.75 0.14 0.11
Matches are distributed among these distances:
35 8 0.01
36 19 0.02
37 1 0.00
38 1 0.00
42 2 0.00
43 32 0.04
44 2 0.00
45 5 0.01
46 150 0.19
47 498 0.63
48 37 0.05
49 35 0.04
50 3 0.00
51 1 0.00
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.22
Consensus pattern (46 bp):
TTTGACCAGGTCCTAATGCCAATACAGTCAAATAGGGATGAGAAAG
Found at i:1627942 original size:94 final size:95
Alignment explanation
Indices: 1627703--1628762 Score: 805
Period size: 94 Copynumber: 11.4 Consensus size: 95
1627693 ATAAAAAAAC
* * ** * * * * * **
1627703 AAGAAATA-TTTGACCAAGTCCTAATGTTAAGACAGTCAAA-TGAGAATGAGAAGAGTTTGATTA
1 AAGAAA-AGTTTGACCAGGTCCTAACGCCAATACAGTCAAACAGAGGATAAGAAAAGTTTGACCA
* *
1627766 GGTCCTAACGCCAATACAG-CTAAA-TAGGGAT
65 GGTCCTAATGCCAATACAGTC-AAACGA-GGAT
* * * * * * *
1627797 GAG-AAATTTTGACCAGGTCCTAACACCAATAAAGTCAAA-TGAGGATAAGAAAAGTTTGGCTAG
1 AAGAAAAGTTTGACCAGGTCCTAACGCCAATACAGTCAAACAGAGGATAAGAAAAGTTTGACCAG
* *
1627860 GTCCTAATGCCAATACAGTAAAACGAGGGT
66 GTCCTAATGCCAATACAGTCAAACGAGGAT
* * * *
1627890 AAGAAGAGTTTGACCAGGTCCTAATGCCAATACAGTTAAACAG-GGATGAG-AAAGTTTGACCAG
1 AAGAAAAGTTTGACCAGGTCCTAACGCCAATACAGTCAAACAGAGGATAAGAAAAGTTTGACCAG
* *
1627953 GTCCTAATGCCAATACAGTCAAATGAAGAT
66 GTCCTAATGCCAATACAGTCAAACGAGGAT
* * * * ** *
1627983 AAGAAAAGTTTGACCTGGCCCTAATGCCAATACAGTCAAA-TGATGG-TGCGAAGAGTTTGACCA
1 AAGAAAAGTTTGACCAGGTCCTAACGCCAATACAGTCAAACAGA-GGATAAGAAAAGTTTGACCA
* * * *
1628046 AGTCCTAATGCTAATAAAGTCAAA-TAGGGAT
65 GGTCCTAATGCCAATACAGTCAAACGA-GGAT
* * * * * *
1628077 GAG-AAAGTTTAACGAGGTCCTAACGCTAATACAAT-AAA-ATGAGGATAAGAAAATTTTGACCA
1 AAGAAAAGTTTGACCAGGTCCTAACGCCAATACAGTCAAACA-GAGGATAAGAAAAGTTTGACCA
* * * **
1628139 AGTCCTAATGCTAATACAGTTAAACGAGTTT
65 GGTCCTAATGCCAATACAGTCAAACGAGGAT
* * * * * * *
1628170 GAA-AAGAAGTTTGACCTGGTCTTCACACCAATACAATCAAACAAAGG-TGAAAAAGAAGTTTGA
1 -AAGAA-AAGTTTGACCAGGTCCTAACGCCAATACAGTCAAACAGAGGAT-AAGAA-AAGTTTGA
*
1628233 CTC-GGTCTTAATGCCAATACAGTCAAAC-AGGGAT
62 C-CAGGTCCTAATGCCAATACAGTCAAACGA-GGAT
* * * *
1628267 AAGAAAAGTTTGACCAAGTCCTAACACCAATACAGTCAAAC-GAGGATAAGAAAAGTTTCACCAA
1 AAGAAAAGTTTGACCAGGTCCTAACGCCAATACAGTCAAACAGAGGATAAGAAAAGTTTGACCAG
* *
1628331 GTCCTAATGCCAATATAGTCGAACGAGGAT
66 GTCCTAATGCCAATACAGTCAAACGAGGAT
* * * * * * *
1628361 GAGAAGAGTTTGACCAGTTCCTAACGCCTATAGAGTTAAACAG-GGAT--G-AGA-TTTGACCAG
1 AAGAAAAGTTTGACCAGGTCCTAACGCCAATACAGTCAAACAGAGGATAAGAAAAGTTTGACCAG
* * *
1628421 GTCCTAATGCCAATATAGTCAAATGATGAT
66 GTCCTAATGCCAATACAGTCAAACGAGGAT
* * * * *
1628451 AAGAAAAGTTTAACCAGGTCTTAATGCCAATACAGTCAAAC-GAGGGTAAGAAGAGTTT-A--A-
1 AAGAAAAGTTTGACCAGGTCCTAACGCCAATACAGTCAAACAGAGGATAAGAAAAGTTTGACCAG
* **
1628511 ---C---T-CCAACACAGTCAAAAAAGGAT
66 GTCCTAATGCCAATACAGTCAAACGAGGAT
* * * * *
1628534 GAG-AAAGTTTGACCAGGTCCTAATGCCAATATAGTCAAA-TGAGGATAAGAAAAGTTTGACCAT
1 AAGAAAAGTTTGACCAGGTCCTAACGCCAATACAGTCAAACAGAGGATAAGAAAAGTTTGACCAG
* * *
1628597 ATCCTAATGCCAATATAGTCAAACGAGGGT
66 GTCCTAATGCCAATACAGTCAAACGAGGAT
* * * * *
1628627 GAGAAGAGTTTGACCAAGTCCTAACGCTAATACAGTCAAA-TGAGGATAAGAAAAGTTTGACCAG
1 AAGAAAAGTTTGACCAGGTCCTAACGCCAATACAGTCAAACAGAGGATAAGAAAAGTTTGACCAG
* ** *
1628691 GTCTTAACACCAATACAGCCAAAC-AGGGAT
66 GTCCTAATGCCAATACAGTCAAACGA-GGAT
* * *
1628721 AAGAAAAGTTTAACCAGGTCCTAGCGCTAATACAGTCAAACA
1 AAGAAAAGTTTGACCAGGTCCTAACGCCAATACAGTCAAACA
1628763 TGAATAAAAA
Statistics
Matches: 770, Mismatches: 150, Indels: 91
0.76 0.15 0.09
Matches are distributed among these distances:
82 48 0.06
83 19 0.02
84 1 0.00
85 1 0.00
87 1 0.00
89 2 0.00
90 69 0.09
91 3 0.00
92 10 0.01
93 237 0.31
94 264 0.34
95 35 0.05
96 45 0.06
97 34 0.04
98 1 0.00
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.22
Consensus pattern (95 bp):
AAGAAAAGTTTGACCAGGTCCTAACGCCAATACAGTCAAACAGAGGATAAGAAAAGTTTGACCAG
GTCCTAATGCCAATACAGTCAAACGAGGAT
Found at i:1627955 original size:140 final size:140
Alignment explanation
Indices: 1627703--1628762 Score: 916
Period size: 140 Copynumber: 7.6 Consensus size: 140
1627693 ATAAAAAAAC
* ** * * * * * **
1627703 AAGAAATA-TTTGACCAAGTCCTAATGTTAAGACAGTCAAATGAGAATGAGAAGAGTTTGATTAG
1 AAGAAA-AGTTTGACCAGGTCCTAATGCCAATACAGTCAAACGAGGATAAGAAAAGTTTGACCAG
* * * * *
1627767 GTCCTAACGCCAATACAG-CTAAATAGGGATGAGAAATTTTGACCAGGTCCTAACACCAATAAAG
65 GTCCTAATGCCAATACAGTC-AAACAGGGATGAGAAAGTTTGACCAGGTCCTAACGCCAATACAG
1627831 TCAAATGAGGAT
129 TCAAATGAGGAT
* * * * *
1627843 AAGAAAAGTTTGGCTAGGTCCTAATGCCAATACAGTAAAACGAGGGTAAGAAGAGTTTGACCAGG
1 AAGAAAAGTTTGACCAGGTCCTAATGCCAATACAGTCAAACGAGGATAAGAAAAGTTTGACCAGG
* *
1627908 TCCTAATGCCAATACAGTTAAACAGGGATGAGAAAGTTTGACCAGGTCCTAATGCCAATACAGTC
66 TCCTAATGCCAATACAGTCAAACAGGGATGAGAAAGTTTGACCAGGTCCTAACGCCAATACAGTC
*
1627973 AAATGAAGAT
131 AAATGAGGAT
* * * ** * *
1627983 AAGAAAAGTTTGACCTGGCCCTAATGCCAATACAGTCAAATGATGG-TGCGAAGAGTTTGACCAA
1 AAGAAAAGTTTGACCAGGTCCTAATGCCAATACAGTCAAACGA-GGATAAGAAAAGTTTGACCAG
* * * * * * *
1628047 GTCCTAATGCTAATAAAGTCAAATAGGGATGAGAAAGTTTAACGAGGTCCTAACGCTAATACAAT
65 GTCCTAATGCCAATACAGTCAAACAGGGATGAGAAAGTTTGACCAGGTCCTAACGCCAATACAGT
*
1628112 AAAATGAGGAT
130 CAAATGAGGAT
* * * * ** *
1628123 AAGAAAATTTTGACCAAGTCCTAATGCTAATACAGTTAAACGAGTTTGAA-AAGAAGTTTGACCT
1 AAGAAAAGTTTGACCAGGTCCTAATGCCAATACAGTCAAACGAGGAT-AAGAA-AAGTTTGACCA
* * ** * * * * *
1628187 GGTCTTCACACCAATACAATCAAACAAAGGTGA-AAAAGAAGTTTGACTC-GGTCTTAATGCCAA
64 GGTCCTAATGCCAATACAGTCAAAC--AGG-GATGAGA-AAGTTTGAC-CAGGTCCTAACGCCAA
*
1628250 TACAGTCAAA-CAGGGAT
124 TACAGTCAAATGA-GGAT
* ** * *
1628267 AAGAAAAGTTTGACCAAGTCCTAACACCAATACAGTCAAACGAGGATAAGAAAAGTTTCACCAAG
1 AAGAAAAGTTTGACCAGGTCCTAATGCCAATACAGTCAAACGAGGATAAGAAAAGTTTGACCAGG
* * * * *
1628332 TCCTAATGCCAATATAGTCGAAC-GAGGATGAGAAGAGTTTGACCAGTTCCTAACGCCTATAGAG
66 TCCTAATGCCAATACAGTCAAACAG-GGATGAGAA-AGTTTGACCAGGTCCTAACGCCAATACAG
* *
1628396 TTAAA-CAGGGAT
129 TCAAATGA-GGAT
* * * * *
1628408 --G-AGA-TTTGACCAGGTCCTAATGCCAATATAGTCAAATGATGATAAGAAAAGTTTAACCAGG
1 AAGAAAAGTTTGACCAGGTCCTAATGCCAATACAGTCAAACGAGGATAAGAAAAGTTTGACCAGG
* * *
1628469 TCTTAATGCCAATACAGTCAAACGAGGG-TAAGAAGAGTTT-A--A----CT----CCAACACAG
66 TCCTAATGCCAATACAGTCAAAC-AGGGATGAGAA-AGTTTGACCAGGTCCTAACGCCAATACAG
**
1628522 TCAAAAAAGGAT
129 TCAAATGAGGAT
* * * **
1628534 GAG-AAAGTTTGACCAGGTCCTAATGCCAATATAGTCAAATGAGGATAAGAAAAGTTTGACCATA
1 AAGAAAAGTTTGACCAGGTCCTAATGCCAATACAGTCAAACGAGGATAAGAAAAGTTTGACCAGG
* * *
1628598 TCCTAATGCCAATATAGTCAAACGAGGG-TGAGAAGAGTTTGACCAAGTCCTAACGCTAATACAG
66 TCCTAATGCCAATACAGTCAAAC-AGGGATGAGAA-AGTTTGACCAGGTCCTAACGCCAATACAG
1628662 TCAAATGAGGAT
129 TCAAATGAGGAT
* ** * *
1628674 AAGAAAAGTTTGACCAGGTCTTAACACCAATACAGCCAAAC-AGGGATAAGAAAAGTTTAACCAG
1 AAGAAAAGTTTGACCAGGTCCTAATGCCAATACAGTCAAACGA-GGATAAGAAAAGTTTGACCAG
** *
1628738 GTCCTAGCGCTAATACAGTCAAACA
65 GTCCTAATGCCAATACAGTCAAACA
1628763 TGAATAAAAA
Statistics
Matches: 743, Mismatches: 141, Indels: 72
0.78 0.15 0.08
Matches are distributed among these distances:
126 14 0.02
127 1 0.00
128 3 0.00
129 90 0.12
130 3 0.00
132 1 0.00
134 1 0.00
136 3 0.00
137 80 0.11
138 4 0.01
139 4 0.01
140 298 0.40
141 132 0.18
143 34 0.05
144 75 0.10
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.22
Consensus pattern (140 bp):
AAGAAAAGTTTGACCAGGTCCTAATGCCAATACAGTCAAACGAGGATAAGAAAAGTTTGACCAGG
TCCTAATGCCAATACAGTCAAACAGGGATGAGAAAGTTTGACCAGGTCCTAACGCCAATACAGTC
AAATGAGGAT
Found at i:1628876 original size:44 final size:43
Alignment explanation
Indices: 1628769--1629151 Score: 304
Period size: 44 Copynumber: 8.8 Consensus size: 43
1628759 AACATGAATA
* * *
1628769 AAAAGAACTTGACTAGGGTGGTAACCATACGTCAACCAAGATG
1 AAAAGAATTTGACTAGGGTGGTAACCATACATCAACCAAAATG
* *
1628812 AAAAGAATCTGACCAGGGTGGTAACCATACAAT-AGACCAAAATG
1 AAAAGAATTTGACTAGGGTGGTAACCATAC-ATCA-ACCAAAATG
* * ** * *
1628856 AGAAGAGTTTGACTAGGGTGGTAACCATATGTTAAACATAAATG
1 AAAAGAATTTGACTAGGGTGGTAACCATACATCAACCA-AAATG
* * **
1628900 AAAAGAACTTAACTAGGGTGGTAACCATACGCCAGACCAAAATG
1 AAAAGAATTTGACTAGGGTGGTAACCATACATCA-ACCAAAATG
* * * * * *
1628944 AGAAGAGTTTGACCAGGGTGGCAACCATACATCAAACATGAATG
1 AAAAGAATTTGACTAGGGTGGTAACCATACATCAACCA-AAATG
* * * * ** ** **
1628988 ACAAGAACTTGACCAAGGTGGTAACCATATGTCAAGTAGGATG
1 AAAAGAATTTGACTAGGGTGGTAACCATACATCAACCAAAATG
* * *
1629031 AAAAGAATCTGACTAGGGTGGTAACCATAC-GCAGACCGAAATG
1 AAAAGAATTTGACTAGGGTGGTAACCATACATCA-ACCAAAATG
* * * *
1629074 AGAAA-AGTTTGACCAGGGTGGTAACCATACATCAAATCAAAATA
1 A-AAAGAATTTGACTAGGGTGGTAACCATACATC-AACCAAAATG
* * *
1629118 AAAAGAATCTAACTAGGGTGGTAACCGTACATCA
1 AAAAGAATTTGACTAGGGTGGTAACCATACATCA
1629152 GATCGGAAAG
Statistics
Matches: 265, Mismatches: 64, Indels: 22
0.75 0.18 0.06
Matches are distributed among these distances:
42 2 0.01
43 94 0.35
44 165 0.62
45 4 0.02
ACGTcount: A:0.41, C:0.17, G:0.23, T:0.19
Consensus pattern (43 bp):
AAAAGAATTTGACTAGGGTGGTAACCATACATCAACCAAAATG
Found at i:1628919 original size:88 final size:88
Alignment explanation
Indices: 1628777--1629143 Score: 339
Period size: 88 Copynumber: 4.2 Consensus size: 88
1628767 TAAAAAGAAC
* *
1628777 TTGACTAGGGTGGTAACCATACGTCAACCA-AGATGAAAAGAA-TCTGACCAGGGTGGTAACCAT
1 TTGACTAGGGTGGTAACCATACGTCAAACATAAATGAAAAGAACT-TGACCAGGGTGGTAACCAT
*
1628840 ACAATAGACCAAAATGAGAAGAGT
65 ACAACAGACCAAAATGAGAAGAGT
* * * *
1628864 TTGACTAGGGTGGTAACCATATGTTAAACATAAATGAAAAGAACTTAACTAGGGTGGTAACCATA
1 TTGACTAGGGTGGTAACCATACGTCAAACATAAATGAAAAGAACTTGACCAGGGTGGTAACCATA
**
1628929 CGCCAGACCAAAATGAGAAGAGT
66 CAACAGACCAAAATGAGAAGAGT
* * * * * *
1628952 TTGACCAGGGTGGCAACCATACATCAAACATGAATGACAAGAACTTGACCAAGGTGGTAACCATA
1 TTGACTAGGGTGGTAACCATACGTCAAACATAAATGAAAAGAACTTGACCAGGGTGGTAACCATA
*** ** ** * *
1629017 TGTCA-AGTAGGATGAAAAGAAT
66 CAACAGACCAAAATGAGAAGAGT
* * ** **
1629039 CTGACTAGGGTGGTAACCATACG-CAGACCGAAATGAGAAA-AGTTTGACCAGGGTGGTAACCAT
1 TTGACTAGGGTGGTAACCATACGTCAAACATAAATGA-AAAGAACTTGACCAGGGTGGTAACCAT
* * * * * *
1629102 ACATCAAATCAAAATAAAAAGAAT
65 ACAACAGACCAAAATGAGAAGAGT
* *
1629126 CTAACTAGGGTGGTAACC
1 TTGACTAGGGTGGTAACC
1629144 GTACATCAGA
Statistics
Matches: 229, Mismatches: 47, Indels: 8
0.81 0.17 0.03
Matches are distributed among these distances:
86 33 0.14
87 88 0.38
88 107 0.47
89 1 0.00
ACGTcount: A:0.40, C:0.17, G:0.23, T:0.20
Consensus pattern (88 bp):
TTGACTAGGGTGGTAACCATACGTCAAACATAAATGAAAAGAACTTGACCAGGGTGGTAACCATA
CAACAGACCAAAATGAGAAGAGT
Found at i:1629833 original size:18 final size:18
Alignment explanation
Indices: 1629813--1629846 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1629803 TTTCTCTTTT
1629813 TTTTC-TCTCTTTTTTCA
1 TTTTCATCTCTTTTTTCA
*
1629830 TTTTCATCTTTTTTTTC
1 TTTTCATCTCTTTTTTC
1629847 TCAATAGCCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.06, C:0.21, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTCATCTCTTTTTTCA
Found at i:1629839 original size:29 final size:29
Alignment explanation
Indices: 1629793--1629848 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
1629783 TTTCCAAAAT
*
1629793 TTTTTTCTGTTTTCTCTTTTTTTTCTCTC
1 TTTTTTCTATTTTCTCTTTTTTTTCTCTC
1629822 TTTTTTC-ATTTTCATCTTTTTTTTCTC
1 TTTTTTCTATTTTC-TCTTTTTTTTCTC
1629849 AATAGCCAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 5 0.20
29 20 0.80
ACGTcount: A:0.04, C:0.20, G:0.02, T:0.75
Consensus pattern (29 bp):
TTTTTTCTATTTTCTCTTTTTTTTCTCTC
Found at i:1633206 original size:12 final size:12
Alignment explanation
Indices: 1633185--1633215 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
1633175 GGATACAAAA
1633185 ATTT-AAATATT
1 ATTTGAAATATT
1633196 ATTTGAAATATT
1 ATTTGAAATATT
1633208 ATTTGAAA
1 ATTTGAAA
1633216 AGGGTGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 4 0.21
12 15 0.79
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (12 bp):
ATTTGAAATATT
Found at i:1634855 original size:24 final size:24
Alignment explanation
Indices: 1634827--1634878 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
1634817 TATTTTATTA
*
1634827 TTTTGAAGAATTTTTA-ATTTTGAT
1 TTTTG-AGAATTTTGATATTTTGAT
* *
1634851 TTTTGATAATTTTGATTTTTTGAT
1 TTTTGAGAATTTTGATATTTTGAT
1634875 TTTT
1 TTTT
1634879 TTGATTTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 8 0.33
24 16 0.67
ACGTcount: A:0.23, C:0.00, G:0.12, T:0.65
Consensus pattern (24 bp):
TTTTGAGAATTTTGATATTTTGAT
Found at i:1634873 original size:8 final size:8
Alignment explanation
Indices: 1634844--1634894 Score: 68
Period size: 8 Copynumber: 6.2 Consensus size: 8
1634834 GAATTTTTAA
1634844 TTTTGA-T
1 TTTTGATT
*
1634851 TTTTGATAA
1 TTTTGAT-T
1634860 TTTTGATT
1 TTTTGATT
1634868 TTTTGATTT
1 TTTTGA-TT
1634877 TTTTGATT
1 TTTTGATT
1634885 TTTTGATT
1 TTTTGATT
1634893 TT
1 TT
1634895 CTTTATTACT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
7 6 0.15
8 18 0.46
9 15 0.38
ACGTcount: A:0.16, C:0.00, G:0.12, T:0.73
Consensus pattern (8 bp):
TTTTGATT
Found at i:1634878 original size:9 final size:9
Alignment explanation
Indices: 1634850--1634894 Score: 58
Period size: 9 Copynumber: 5.2 Consensus size: 9
1634840 TTAATTTTGA
*
1634850 TTTTTGATA
1 TTTTTGATT
*
1634859 ATTTTGA-T
1 TTTTTGATT
1634867 TTTTTGATT
1 TTTTTGATT
1634876 TTTTTGA-T
1 TTTTTGATT
1634884 TTTTTGATT
1 TTTTTGATT
1634893 TT
1 TT
1634895 CTTTATTACT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
8 14 0.45
9 17 0.55
ACGTcount: A:0.16, C:0.00, G:0.11, T:0.73
Consensus pattern (9 bp):
TTTTTGATT
Found at i:1634892 original size:17 final size:17
Alignment explanation
Indices: 1634844--1634894 Score: 77
Period size: 17 Copynumber: 3.1 Consensus size: 17
1634834 GAATTTTTAA
**
1634844 TTTTGA-TTTTTGATAA
1 TTTTGATTTTTTGATTT
1634860 TTTTGATTTTTTGATTT
1 TTTTGATTTTTTGATTT
1634877 TTTTGATTTTTTGATTT
1 TTTTGATTTTTTGATTT
1634894 T
1 T
1634895 CTTTATTACT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 6 0.19
17 26 0.81
ACGTcount: A:0.16, C:0.00, G:0.12, T:0.73
Consensus pattern (17 bp):
TTTTGATTTTTTGATTT
Found at i:1635060 original size:67 final size:67
Alignment explanation
Indices: 1634952--1635086 Score: 270
Period size: 67 Copynumber: 2.0 Consensus size: 67
1634942 GAGAATTAAG
1634952 CCGATTGATTACGACTACTCTGAGCCTTCGAGAAATGCTTAAAAAACGCTGAACGATATAATTTA
1 CCGATTGATTACGACTACTCTGAGCCTTCGAGAAATGCTTAAAAAACGCTGAACGATATAATTTA
1635017 CT
66 CT
1635019 CCGATTGATTACGACTACTCTGAGCCTTCGAGAAATGCTTAAAAAACGCTGAACGATATAATTTA
1 CCGATTGATTACGACTACTCTGAGCCTTCGAGAAATGCTTAAAAAACGCTGAACGATATAATTTA
1635084 CT
66 CT
1635086 C
1 C
1635087 TTGTCCAAGA
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 68 1.00
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.28
Consensus pattern (67 bp):
CCGATTGATTACGACTACTCTGAGCCTTCGAGAAATGCTTAAAAAACGCTGAACGATATAATTTA
CT
Found at i:1635680 original size:164 final size:158
Alignment explanation
Indices: 1635353--1635789 Score: 466
Period size: 164 Copynumber: 2.7 Consensus size: 158
1635343 TACAAAAATT
* *** * *
1635353 CATTTCGTACCTTAATGGAATTTCAAAAAGATACGAAAAGTTTTTAAAATCTTTTATACCCTTAC
1 CATTTCGTACCTTAATGAAAGCCCAAAAAGATAC-AAAAATTTTTAAAATCTTTTATACCCCTAC
* ** *
1635418 -GAACCCCATAAGAATATAAAAGATTTAAGAAGAAAGATTTAAAATTTATCTTGGTTATGAATGT
65 AG-ACCCCATAAGAATATAAAAGA-TTAA-AA-AAAGA-TTAATATTTATCTTAATTATGAAAGT
* *
1635482 GTTGATTTAATTTAATTTTATTTGTTATAAAATAC
125 GTTAATTTAATTT-ATTTTATTTATTATAAAATAC
* * * *
1635517 CATTTTGTACCTTAATTAAAGCCCAAAAATATACAAAAATTTTTTGAAATCTTTTATACCCCTAC
1 CATTTCGTACCTTAATGAAAGCCCAAAAAGATACAAAAA-TTTTTAAAATCTTTTATACCCCTAC
* *
1635582 AGACCCCATAAGAATATAAAAGACTAAAAAATGATTAATATTTAT-TTCAATTATGAAAGTGTTA
65 AGACCCCATAAGAATATAAAAGATTAAAAAAAGATTAATATTTATCTT-AATTATGAAAGTGTTA
1635646 ATTTAATTT-TTTTATTTATTCATTTTCGAAAATAC
129 ATTTAATTTATTTTATTTATT-A---T--AAAATAC
* *** * *
1635681 CATTTCGTACCTTAATGGAAGCTTGAAAAGATACGAAAAATTTTTAAAATCTTTTATATCCCTAT
1 CATTTCGTACCTTAATGAAAGCCCAAAAAGATAC-AAAAATTTTTAAAATCTTTTATACCCCTAC
* * *
1635746 AGACCCTATAAGAATATAAAAGATTGAAAAACGATTAATATTTA
65 AGACCCCATAAGAATATAAAAGATTAAAAAAAGATTAATATTTA
1635790 ATTACCACTA
Statistics
Matches: 231, Mismatches: 32, Indels: 20
0.82 0.11 0.07
Matches are distributed among these distances:
158 10 0.04
159 3 0.01
160 31 0.13
161 4 0.02
162 3 0.01
163 7 0.03
164 167 0.72
165 6 0.03
ACGTcount: A:0.41, C:0.12, G:0.10, T:0.37
Consensus pattern (158 bp):
CATTTCGTACCTTAATGAAAGCCCAAAAAGATACAAAAATTTTTAAAATCTTTTATACCCCTACA
GACCCCATAAGAATATAAAAGATTAAAAAAAGATTAATATTTATCTTAATTATGAAAGTGTTAAT
TTAATTTATTTTATTTATTATAAAATAC
Found at i:1637260 original size:164 final size:166
Alignment explanation
Indices: 1637057--1637481 Score: 512
Period size: 164 Copynumber: 2.6 Consensus size: 166
1637047 AAAAATGGGC
* * *
1637057 AATTTCAA-GAAAAAA-TAAAAAATTCATGAAAATGAATTAATTTTTGAAAAATAATTTAATATG
1 AATTTCAAGGAAAAAATTCAAAAACTCATGAAAATGAATTAATTTTTGAAAAATGATTTAATATG
* * ** **
1637120 AAAAAAATAATGATATTTGATGAATTTTTAAAATTAAAAACCAAAAAAAATCC-CTCTGAAAAAT
66 AAATAAATAATAATATTTGATGAATTTAAAAAATTAAAAACCAAAAAAAATCCTC-CCAAAAAAT
1637184 ATACGAAGTA-AAAGACAACATATTCT-AGAAAAA-AAA-
130 ATACGAAGTATAAA-ACAACAT-TTCTCA-AAAAATAAAG
* *
1637220 AA-TTCAAGGAAAAAATTCAATAACTCATGAAAATGAATTAATTTTT-AAAAACTGATTTATTAT
1 AATTTCAAGGAAAAAATTCAAAAACTCATGAAAATGAATTAATTTTTGAAAAA-TGATTTAATAT
* * * *
1637283 GATATAAAGAATAATATTTGATGAATTTAAAAAATTAAAAACTAAGAAAAATCCTCCCAAAAAAT
65 GAAATAAATAATAATATTTGATGAATTTAAAAAATTAAAAACCAAAAAAAATCCTCCCAAAAAAT
* ** *
1637348 TTACGAAGTATAAAACTCCATTTTTCAAAAAATAAAGG
130 ATACGAAGTATAAAACAACATTTCTCAAAAAATAAA-G
* *
1637386 AATTTCAAGGAAAAAATTTAAAAACTCATGAAAATGAATGAA-TTTTGAAAAATGATTTAATAT-
1 AATTTCAAGGAAAAAATTCAAAAACTCATGAAAATGAATTAATTTTTGAAAAATGATTTAATATG
*
1637449 AAATTAAATAATAATATTTGATAAATTTAAAAA
66 AAA-TAAATAATAATATTTGATGAATTTAAAAA
1637482 TTTTAAACCC
Statistics
Matches: 224, Mismatches: 26, Indels: 21
0.83 0.10 0.08
Matches are distributed among these distances:
162 5 0.02
163 22 0.10
164 107 0.48
165 6 0.03
166 43 0.19
167 41 0.18
ACGTcount: A:0.55, C:0.07, G:0.08, T:0.30
Consensus pattern (166 bp):
AATTTCAAGGAAAAAATTCAAAAACTCATGAAAATGAATTAATTTTTGAAAAATGATTTAATATG
AAATAAATAATAATATTTGATGAATTTAAAAAATTAAAAACCAAAAAAAATCCTCCCAAAAAATA
TACGAAGTATAAAACAACATTTCTCAAAAAATAAAG
Found at i:1637519 original size:167 final size:164
Alignment explanation
Indices: 1637040--1637529 Score: 477
Period size: 164 Copynumber: 3.0 Consensus size: 164
1637030 GAAAACTTAG
* *
1637040 TTTTTCAAAAAAT--GGGCAATTTCAA-GAAAAAA-TAAAAAATTCATGAAAATGAATTAATTTT
1 TTTTTCAAAAAATAAAGG-AATTTCAAGGAAAAAATTAAAAAACTCATGAAAATGAATTAA-TTT
* * * * * *
1637101 TGAAAAATAATTTAATATGAAA-AAAATAATGATATTTGATGAATTTTTAAAATTAAAAACCAAA
64 TGAAAAATGATTTAATAT-AAATTAAATAATAATATTTGAT-AAATTTAAAAATTAAAAACCAAG
* *
1637165 AAAAATCC-CTCTGAAAAATATACGAAGTAAAAGACAACA
127 AAAAATCCTC-CTCAAAAATTTACGAAGTAAAA-ACAACA
* * *
1637204 -TATTCTAGAAAAA-AAA--AA-TTCAAGGAAAAAATTCAATAACTCATGAAAATGAATTAATTT
1 TTTTTC-A-AAAAATAAAGGAATTTCAAGGAAAAAATTAAAAAACTCATGAAAATGAATTAATTT
* * * * * *
1637264 TTAAAAACTGATTTATTAT-GATATAAAGAATAATATTTGATGAATTTAAAAAATTAAAAACTAA
64 TGAAAAA-TGATTTAATATAAAT-TAAATAATAATATTTGATAAATTT-AAAAATTAAAAACCAA
**
1637328 GAAAAATCCTCC-CAAAAAATTTACGAAGTATAAAACTCCA
126 GAAAAATCCTCCTC-AAAAATTTACGAAGTA-AAAACAACA
* *
1637368 TTTTTCAAAAAATAAAGGAATTTCAAGGAAAAAATTTAAAAACTCATGAAAATGAATGAATTTTG
1 TTTTTCAAAAAATAAAGGAATTTCAAGGAAAAAATTAAAAAACTCATGAAAATGAATTAATTTTG
* * **
1637433 AAAAATGATTTAATATAAATTAAATAATAATATTTGATAAATTTAAAAATTTTAAACCCGTGAAA
66 AAAAATGATTTAATATAAATTAAATAATAATATTTGATAAATTTAAAAA-TTAAAAACCAAGAAA
*
1637498 AA-CCTCCTCAAAAGTATTTACGGAGTAGAAAA
130 AATCCTCCTCAAAA--ATTTACGAAGTA-AAAA
1637530 TTTGATAAAT
Statistics
Matches: 266, Mismatches: 37, Indels: 43
0.77 0.11 0.12
Matches are distributed among these distances:
162 6 0.02
163 31 0.12
164 93 0.35
165 27 0.10
166 47 0.18
167 62 0.23
ACGTcount: A:0.53, C:0.09, G:0.09, T:0.30
Consensus pattern (164 bp):
TTTTTCAAAAAATAAAGGAATTTCAAGGAAAAAATTAAAAAACTCATGAAAATGAATTAATTTTG
AAAAATGATTTAATATAAATTAAATAATAATATTTGATAAATTTAAAAATTAAAAACCAAGAAAA
ATCCTCCTCAAAAATTTACGAAGTAAAAACAACA
Found at i:1642718 original size:13 final size:13
Alignment explanation
Indices: 1642700--1642725 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1642690 CAATTTTTTG
1642700 TGTATCGATACAT
1 TGTATCGATACAT
1642713 TGTATCGATACAT
1 TGTATCGATACAT
1642726 ACTTTGAGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1642742 original size:32 final size:33
Alignment explanation
Indices: 1642680--1642743 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
1642670 TGCAAGCCAA
** *
1642680 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGAGTATCGATACAT
1642713 TGTATCGATAC-ATACTTTGAGTATCGATACA
1 TGTATCGATACAATACTTTGAGTATCGATACA
1642744 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGAGTATCGATACAT
Found at i:1643485 original size:12 final size:12
Alignment explanation
Indices: 1643470--1643495 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1643460 TTATAAGATA
1643470 ATTTACACACAT
1 ATTTACACACAT
1643482 ATTTACACACAT
1 ATTTACACACAT
1643494 AT
1 AT
1643496 CAAAAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.23, G:0.00, T:0.35
Consensus pattern (12 bp):
ATTTACACACAT
Found at i:1644850 original size:21 final size:20
Alignment explanation
Indices: 1644821--1644863 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
1644811 GACTAGTGTG
* *
1644821 GGGACTGCCCGGTTGTGACCT
1 GGGACTG-CCGGTCGCGACCT
*
1644842 GGGAGTGCCGGTCGCGACCT
1 GGGACTGCCGGTCGCGACCT
1644862 GG
1 GG
1644864 TGGTGCTGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.09, C:0.28, G:0.44, T:0.19
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCT
Found at i:1645322 original size:13 final size:13
Alignment explanation
Indices: 1645304--1645342 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1645294 ATAATCCCCC
1645304 TGTATCGATACAA
1 TGTATCGATACAA
*
1645317 TGTATCGATACAT
1 TGTATCGATACAA
1645330 TGTATCGATACAA
1 TGTATCGATACAA
1645343 AGGAAAATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1651531 original size:13 final size:13
Alignment explanation
Indices: 1651513--1651538 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1651503 CAATTTTTTG
1651513 TGTATCGATACAT
1 TGTATCGATACAT
1651526 TGTATCGATACAT
1 TGTATCGATACAT
1651539 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1651550 original size:32 final size:33
Alignment explanation
Indices: 1651493--1651556 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
1651483 TGCAAGCCAA
**
1651493 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
1651526 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
1651557 AGTTTGGTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:1657689 original size:88 final size:89
Alignment explanation
Indices: 1657475--1657697 Score: 224
Period size: 88 Copynumber: 2.5 Consensus size: 89
1657465 AAAAGAAATA
* * * * * *
1657475 GGGTTGGAGTATCCCTTTAGAACAGTGGGGATGGAGTTTTCCTAATGATAAAATTGTACGAAAAA
1 GGGTTGGAGTAT-CCTTCAGAAAAGTGAGGATGGAGTTTCCCCAAGGATAAAATTGTACGAAAAA
*
1657540 ATAATTTGAATTTTTTTGAAGAGCG
65 ATAATTTGAATTTTTTTGAAGAGAG
* * * *
1657565 AGGTTAGAGT-GCCTCCTC-GAAGAAGTAAGGATGGAGTTTCCCCAAGGATAAAA-TGATAC-AA
1 GGGTTGGAGTATCCT--TCAGAA-AAGTGAGGATGGAGTTTCCCCAAGGATAAAATTG-TACGAA
*
1657626 AGGAA-AATTTG-ATTTTTTTGAAGAGAG
62 A-AAATAATTTGAATTTTTTTGAAGAGAG
*
1657653 GGGTTGGAGTATCCTATCAGAATAGTGAGGATGGAGTTTCCCCAA
1 GGGTTGGAGTATCCT-TCAGAAAAGTGAGGATGGAGTTTCCCCAA
1657698 AATCAAAAAT
Statistics
Matches: 108, Mismatches: 18, Indels: 16
0.76 0.13 0.11
Matches are distributed among these distances:
88 49 0.45
89 20 0.19
90 39 0.36
ACGTcount: A:0.33, C:0.11, G:0.27, T:0.29
Consensus pattern (89 bp):
GGGTTGGAGTATCCTTCAGAAAAGTGAGGATGGAGTTTCCCCAAGGATAAAATTGTACGAAAAAA
TAATTTGAATTTTTTTGAAGAGAG
Found at i:1661981 original size:20 final size:20
Alignment explanation
Indices: 1661956--1662043 Score: 74
Period size: 20 Copynumber: 4.5 Consensus size: 20
1661946 ATTTGCCTGC
*
1661956 ATGTATTGAGAAATTGAATA
1 ATGTATCGAGAAATTGAATA
* *
1661976 ATGTATCGATACATTGAATA
1 ATGTATCGAGAAATTGAATA
* *
1661996 ATGTATCGATACAA---AACTT
1 ATGTATCGAGA-AATTGAA-TA
* *
1662015 ATGTATCGATACATTGAATA
1 ATGTATCGAGAAATTGAATA
1662035 ATGTATCGA
1 ATGTATCGA
1662044 TACATAAGTT
Statistics
Matches: 56, Mismatches: 7, Indels: 10
0.77 0.10 0.14
Matches are distributed among these distances:
18 3 0.05
19 12 0.21
20 38 0.68
21 3 0.05
ACGTcount: A:0.41, C:0.09, G:0.16, T:0.34
Consensus pattern (20 bp):
ATGTATCGAGAAATTGAATA
Found at i:1662020 original size:39 final size:39
Alignment explanation
Indices: 1661976--1662065 Score: 155
Period size: 39 Copynumber: 2.3 Consensus size: 39
1661966 AAATTGAATA
1661976 ATGTATCGATACATTGAATAATGTATCGATACAAAACTT
1 ATGTATCGATACATTGAATAATGTATCGATACAAAACTT
* *
1662015 ATGTATCGATACATTGAATAATGTATCGATACATAAGTT
1 ATGTATCGATACATTGAATAATGTATCGATACAAAACTT
1662054 -TGTATCGATACA
1 ATGTATCGATACA
1662066 AATTGTAGAA
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
38 12 0.24
39 37 0.76
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.34
Consensus pattern (39 bp):
ATGTATCGATACATTGAATAATGTATCGATACAAAACTT
Found at i:1662044 original size:20 final size:20
Alignment explanation
Indices: 1661968--1662048 Score: 121
Period size: 20 Copynumber: 4.1 Consensus size: 20
1661958 GTATTGAGAA
1661968 ATTGAATAATGTATCGATAC
1 ATTGAATAATGTATCGATAC
1661988 ATTGAATAATGTATCGATAC
1 ATTGAATAATGTATCGATAC
* *
1662008 A--AAACTTATGTATCGATAC
1 ATTGAA-TAATGTATCGATAC
1662027 ATTGAATAATGTATCGATAC
1 ATTGAATAATGTATCGATAC
1662047 AT
1 AT
1662049 AAGTTTGTAT
Statistics
Matches: 54, Mismatches: 4, Indels: 6
0.84 0.06 0.09
Matches are distributed among these distances:
18 2 0.04
19 14 0.26
20 36 0.67
21 2 0.04
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.35
Consensus pattern (20 bp):
ATTGAATAATGTATCGATAC
Found at i:1662974 original size:8 final size:8
Alignment explanation
Indices: 1662950--1663017 Score: 73
Period size: 9 Copynumber: 7.9 Consensus size: 8
1662940 ATATAAATTC
1662950 AAAAAATAA
1 AAAAAAT-A
1662959 AGAAAAATA
1 A-AAAAATA
1662968 AAAAAATCA
1 AAAAAAT-A
1662977 AAAAAATCA
1 AAAAAAT-A
*
1662986 AAACAATA
1 AAAAAATA
*
1662994 AAATAATA
1 AAAAAATA
1663002 AAAGAAATA
1 AAA-AAATA
1663011 AAAAAAT
1 AAAAAAT
1663018 GATGATGATG
Statistics
Matches: 53, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
8 21 0.40
9 26 0.49
10 6 0.11
ACGTcount: A:0.79, C:0.04, G:0.03, T:0.13
Consensus pattern (8 bp):
AAAAAATA
Found at i:1662978 original size:26 final size:25
Alignment explanation
Indices: 1662948--1663016 Score: 75
Period size: 26 Copynumber: 2.6 Consensus size: 25
1662938 CAATATAAAT
1662948 TCAAAAAATAAAGAAAAATAAAAAAA
1 TCAAAAAATAAA-AAAAATAAAAAAA
* * *
1662974 TCAAAAAAATCAAAACAATAAAATAA
1 TC-AAAAAATAAAAAAAATAAAAAAA
*
1663000 TAAAAGAAATAAAAAAA
1 TCAAA-AAATAAAAAAA
1663017 TGATGATGAT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
25 3 0.09
26 23 0.66
27 9 0.26
ACGTcount: A:0.78, C:0.06, G:0.03, T:0.13
Consensus pattern (25 bp):
TCAAAAAATAAAAAAAATAAAAAAA
Found at i:1663107 original size:63 final size:63
Alignment explanation
Indices: 1663010--1663136 Score: 218
Period size: 63 Copynumber: 2.0 Consensus size: 63
1663000 TAAAAGAAAT
1663010 AAAAAAATGATGATGATGGCCAAATTAATGGAGGTTCCACTAATTAAGCCACCTACACCATTA
1 AAAAAAATGATGATGATGGCCAAATTAATGGAGGTTCCACTAATTAAGCCACCTACACCATTA
** * *
1663073 AAAAAAATGATGATGATGGCGGAATTAGTGGAGGTTCCACTAATTAAGCCACCTATACCATTA
1 AAAAAAATGATGATGATGGCCAAATTAATGGAGGTTCCACTAATTAAGCCACCTACACCATTA
1663136 A
1 A
1663137 GGTGGCAAAA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
63 60 1.00
ACGTcount: A:0.40, C:0.17, G:0.18, T:0.24
Consensus pattern (63 bp):
AAAAAAATGATGATGATGGCCAAATTAATGGAGGTTCCACTAATTAAGCCACCTACACCATTA
Found at i:1667888 original size:13 final size:13
Alignment explanation
Indices: 1667870--1667907 Score: 76
Period size: 13 Copynumber: 2.9 Consensus size: 13
1667860 CATTGCTCAT
1667870 TGTATCGATACAA
1 TGTATCGATACAA
1667883 TGTATCGATACAA
1 TGTATCGATACAA
1667896 TGTATCGATACA
1 TGTATCGATACA
1667908 TTCAGGCATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1670251 original size:51 final size:51
Alignment explanation
Indices: 1670189--1670352 Score: 197
Period size: 51 Copynumber: 3.2 Consensus size: 51
1670179 TTTCATCTCA
* **
1670189 GGGATACTCCAA-TCCCGATTTCATTTCCAAAACATCAATTTTTCTTAATCG
1 GGGATACTCCAACT-CCGATTTAATTTCCAAAACATCAATTTTTCACAATCG
* * * **
1670240 GGGATACTCCAACTCCGATTTTATTTCTAAAGCATCAATTTACCACAATCG
1 GGGATACTCCAACTCCGATTTAATTTCCAAAACATCAATTTTTCACAATCG
* * *
1670291 GGGATACTCCAACTCTGATTTTAATTT-CAAAACACCAATTTTTCACAATTG
1 GGGATACTCCAACTCCGA-TTTAATTTCCAAAACATCAATTTTTCACAATCG
1670342 GGGATACTCCA
1 GGGATACTCCA
1670353 CCCCCGTTAT
Statistics
Matches: 96, Mismatches: 15, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
51 88 0.92
52 8 0.08
ACGTcount: A:0.31, C:0.24, G:0.12, T:0.33
Consensus pattern (51 bp):
GGGATACTCCAACTCCGATTTAATTTCCAAAACATCAATTTTTCACAATCG
Found at i:1670373 original size:28 final size:27
Alignment explanation
Indices: 1670341--1670414 Score: 105
Period size: 28 Copynumber: 2.7 Consensus size: 27
1670331 TTTCACAATT
*
1670341 GGGGATACTCCACCCCCGTTATTTCTTC-
1 GGGGATACTCCAACCCCGTTA-TT-TTCA
1670369 GGGGATACTCCAACCCCGTTATTTTCGA
1 GGGGATACTCCAACCCCGTTATTTTC-A
1670397 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
1670415 GCTTTATATC
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
26 3 0.07
27 2 0.05
28 38 0.88
ACGTcount: A:0.19, C:0.34, G:0.22, T:0.26
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTATTTTCA
Found at i:1670510 original size:111 final size:109
Alignment explanation
Indices: 1670331--1670582 Score: 355
Period size: 110 Copynumber: 2.3 Consensus size: 109
1670321 AACACCAATT
* * *
1670331 TTTCACAATTGGGGATACTCCACCCCCGTTATTTCTTCGGGGATACTCCAACCCCGTTATTTTCG
1 TTTCACAATTGGGGATACTCCAACCCCGTTATTTCATCGGGGATACTCCAACCCCGTTATTTCCG
*
1670396 AGGGGATACTCCAACCCCGGCTTTATATCTAAAAATATTAATTTC
66 AGGGGATACTCCAACCCCGACTTTATATCT-AAAATATTAATTTC
* * * * *
1670441 TTTCATAATTGGGGATACTCCAACCCCGTTCTTTCATCGGCTGATACTCCAATCCTGTTATTTCC
1 TTTCACAATTGGGGATACTCCAACCCCGTTATTTCATCGG-GGATACTCCAACCCCGTTATTTCC
* *
1670506 GAGGGGATACTCCAACCCCGACTTTATTTCTAAAATATTGATTTC
65 GAGGGGATACTCCAACCCCGACTTTATATCTAAAATATTAATTTC
* *
1670551 --TCACAATCGGGGATACTCCAACCCCATTATTT
1 TTTCACAATTGGGGATACTCCAACCCCGTTATTT
1670583 TCGCAGGGAT
Statistics
Matches: 126, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
108 28 0.22
110 49 0.39
111 49 0.39
ACGTcount: A:0.25, C:0.27, G:0.15, T:0.33
Consensus pattern (109 bp):
TTTCACAATTGGGGATACTCCAACCCCGTTATTTCATCGGGGATACTCCAACCCCGTTATTTCCG
AGGGGATACTCCAACCCCGACTTTATATCTAAAATATTAATTTC
Found at i:1670620 original size:79 final size:79
Alignment explanation
Indices: 1670483--1670688 Score: 247
Period size: 79 Copynumber: 2.6 Consensus size: 79
1670473 TTCATCGGCT
* * * * **
1670483 GATACTCCAATCCTGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATTTCTAAAATATTGA-
1 GATACTCCAACCCTATTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCTAAAATACCGAT
*
1670547 TTTCTCACAATCGGG
66 TTTCT-ACAATCAGG
* * *
1670562 GATACTCCAACCCCATTATTTTCGCA-GGGATACTCTAACCTCGATTTTATTT-TCAAAATACCG
1 GATACTCCAACCCTATTATTTTCG-AGGGGATACTCCAACCCCGATTTTATTTCT-AAAATACCG
*
1670625 ATTTTCTATAATCAGG
64 ATTTTCTACAATCAGG
**
1670641 GATACTCCAACCCTATTATTTTCGATAGGATACTCCAACCCCGATTTT
1 GATACTCCAACCCTATTATTTTCGAGGGGATACTCCAACCCCGATTTT
1670689 CCATAATCGA
Statistics
Matches: 108, Mismatches: 15, Indels: 8
0.82 0.11 0.06
Matches are distributed among these distances:
78 2 0.02
79 100 0.93
80 6 0.06
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.34
Consensus pattern (79 bp):
GATACTCCAACCCTATTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCTAAAATACCGAT
TTTCTACAATCAGG
Found at i:1683081 original size:1 final size:1
Alignment explanation
Indices: 1683077--1683146 Score: 77
Period size: 1 Copynumber: 70.0 Consensus size: 1
1683067 TCCCACTTTT
* * * * * *
1683077 AAAAAAAAAATAAAAAAACAAAAAAAACAAAAAAAAACAAAAAAAACAAAAAAACAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
1683142 CAAAA
1 AAAAA
1683147 CAAAGAAAAG
Statistics
Matches: 55, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 55 1.00
ACGTcount: A:0.90, C:0.09, G:0.00, T:0.01
Consensus pattern (1 bp):
A
Found at i:1683099 original size:19 final size:19
Alignment explanation
Indices: 1683077--1683146 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
1683067 TCCCACTTTT
*
1683077 AAAAAAAAAATAAAAAAAC
1 AAAAAAAAAACAAAAAAAC
1683096 --AAAAAAAACAAAAAAA-
1 AAAAAAAAAACAAAAAAAC
1683112 AACAAAAAAAACAAAAAAAC
1 AA-AAAAAAAACAAAAAAAC
1683132 AAAAAAAAAACAAAA
1 AAAAAAAAAACAAAA
1683147 CAAAGAAAAG
Statistics
Matches: 46, Mismatches: 1, Indels: 8
0.84 0.02 0.15
Matches are distributed among these distances:
17 15 0.33
19 29 0.63
20 2 0.04
ACGTcount: A:0.90, C:0.09, G:0.00, T:0.01
Consensus pattern (19 bp):
AAAAAAAAAACAAAAAAAC
Found at i:1683108 original size:28 final size:27
Alignment explanation
Indices: 1683077--1683155 Score: 106
Period size: 27 Copynumber: 2.8 Consensus size: 27
1683067 TCCCACTTTT
1683077 AAAAAAAAAATAAAAAAACAAAAAAAAC
1 AAAAAAAAAA-AAAAAAACAAAAAAAAC
1683105 AAAAAAAAACAAAAAAAAC-AAAAAAAC
1 AAAAAAAAA-AAAAAAAACAAAAAAAAC
*
1683132 AAAAAAAAAACAAAACAAAGAAAA
1 AAAAAAAAAA-AAAA-AAACAAAA
1683156 GAGAGAGAAA
Statistics
Matches: 46, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
26 1 0.02
27 21 0.46
28 20 0.43
29 4 0.09
ACGTcount: A:0.89, C:0.09, G:0.01, T:0.01
Consensus pattern (27 bp):
AAAAAAAAAAAAAAAAACAAAAAAAAC
Found at i:1683155 original size:9 final size:9
Alignment explanation
Indices: 1683077--1683146 Score: 95
Period size: 9 Copynumber: 7.4 Consensus size: 9
1683067 TCCCACTTTT
*
1683077 AAAAAAAAA
1 AAAAAAAAC
1683086 ATAAAAAAAC
1 A-AAAAAAAC
1683096 AAAAAAAAC
1 AAAAAAAAC
1683105 AAAAAAAAAC
1 -AAAAAAAAC
1683115 AAAAAAAAC
1 AAAAAAAAC
*
1683124 AAAAAAACAA
1 AAAAAAA-AC
1683134 AAAAAAAAC
1 AAAAAAAAC
1683143 AAAA
1 AAAA
1683147 CAAAGAAAAG
Statistics
Matches: 55, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
9 30 0.55
10 25 0.45
ACGTcount: A:0.90, C:0.09, G:0.00, T:0.01
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:1684414 original size:55 final size:57
Alignment explanation
Indices: 1684247--1684554 Score: 367
Period size: 57 Copynumber: 5.4 Consensus size: 57
1684237 TTTCGCCCTT
* * * *
1684247 TAGTCCTTAAAGAGAAGGACGCCTTTT-AAAGCCCACACAAGTTGGTGGCACTTTTC
1 TAGTCCTCAAAAAGCAGGACGCCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTTC
1684303 TAGTCCTCAAAAAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTC
1 TAGTCCTCAAAAAGCAGGACGCC---T--TTTCAAAGCCCACACAAGTTGGTGGCATTTTTC
* * * *
1684364 TAGTCCTTAAAGAGCAGGAC-ACTTTTCAAAGCCCACACAAGTTGGTGGCATTTTTT
1 TAGTCCTCAAAAAGCAGGACGCCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTTC
* * *
1684420 TCAGTCCTCAAAGAGCAGGATGCC-TTTCAAAGCCCACACAAGTTGGTGGCATTTTTTT
1 T-AGTCCTCAAAAAGCAGGACGCCTTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTTC
* **
1684478 TAGTCCTCAAAAAGCAGGACGCCTTTT-AAAGCCCACACAAGTTGGTGGCA-CTACC
1 TAGTCCTCAAAAAGCAGGACGCCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTTC
* *
1684533 CAGTCCTTAAAAAGCAGGACGC
1 TAGTCCTCAAAAAGCAGGACGC
1684555 TTTCTCATTT
Statistics
Matches: 223, Mismatches: 18, Indels: 23
0.84 0.07 0.09
Matches are distributed among these distances:
55 48 0.22
56 25 0.11
57 88 0.39
58 11 0.05
59 1 0.00
60 1 0.00
61 26 0.12
62 23 0.10
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (57 bp):
TAGTCCTCAAAAAGCAGGACGCCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTTC
Found at i:1684707 original size:62 final size:61
Alignment explanation
Indices: 1684595--1684843 Score: 333
Period size: 61 Copynumber: 4.0 Consensus size: 61
1684585 GAAGGACGCC
*
1684595 TTTT-AAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGATGCCTTTTT
1 TTTTCAAAGCCCACACAAGTTGGTGGCACTTTTC-AGTCCTCAAAGAGCAGGATGCCTTTCT
*
1684656 TTTTCCAAAGCCCACACAAGTTAGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGATG-CTTTCT
1 TTTT-CAAAGCCCACACAAGTTGGTGGCACTTTT-CAGTCCTCAAAGAGCAGGATGCCTTTCT
* * * * *
1684717 CTTTGCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGTAGGACGCCTTTCA
1 -TTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATGCCTTTCT
* * * *
1684779 TTTTCAAAGCCCACACGAGTTGGTGGCACTTTTTAGTTCTCAAAGAGCAGGATGCACTTTAT
1 TTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATGC-CTTTCT
1684841 TTT
1 TTT
1684844 CCTCTTTCCT
Statistics
Matches: 164, Mismatches: 17, Indels: 13
0.85 0.09 0.07
Matches are distributed among these distances:
61 99 0.60
62 42 0.26
63 23 0.14
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (61 bp):
TTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATGCCTTTCT
Found at i:1684960 original size:42 final size:43
Alignment explanation
Indices: 1684808--1685004 Score: 165
Period size: 42 Copynumber: 4.6 Consensus size: 43
1684798 TTGGTGGCAC
* *
1684808 TTTTTAGTTCTCAAAGAGCAGGATGCACTTT-ATTTTCCTCTTT
1 TTTTTA-TCCTCAAAGAGCAGGACGCACTTTCATTTTCCTCTTT
** * * *
1684851 CCTTTATCCTCAAAGAGCAGGACACA-TTTCA-TTCCCTTTTTTT
1 TTTTTATCCTCAAAGAGCAGGACGCACTTTCATTTTCC--TCTTT
* * *
1684894 CTCTTTTGTCCTCAAAGAGTAGGACGAACTTT-ATTTTCCTCTTT
1 -T-TTTTATCCTCAAAGAGCAGGACGCACTTTCATTTTCCTCTTT
*
1684938 TTTTTATCCTCAAAGAGCAGGACGCA-TTTCGTTTTCCT-TTT
1 TTTTTATCCTCAAAGAGCAGGACGCACTTTCATTTTCCTCTTT
*
1684979 TTCCTTTATCCTCGAAA-AGCAAGACG
1 TT--TTTATCCTC-AAAGAGCAGGACG
1685005 TACTCTTTTT
Statistics
Matches: 123, Mismatches: 20, Indels: 22
0.75 0.12 0.13
Matches are distributed among these distances:
41 15 0.12
42 47 0.38
43 26 0.21
44 7 0.06
45 21 0.17
46 7 0.06
ACGTcount: A:0.22, C:0.23, G:0.13, T:0.41
Consensus pattern (43 bp):
TTTTTATCCTCAAAGAGCAGGACGCACTTTCATTTTCCTCTTT
Found at i:1684979 original size:87 final size:86
Alignment explanation
Indices: 1684817--1684985 Score: 241
Period size: 87 Copynumber: 2.0 Consensus size: 86
1684807 CTTTTTAGTT
* *
1684817 CTCAAAGAGCAGGATGCACTTTATTTTCCTCTTTCCTTTATCCTCAAAGAGCAGGACACATTTCA
1 CTCAAAGAGCAGGACGAACTTTATTTTCCTCTTTCCTTTATCCTCAAAGAGCAGGACACATTTCA
1684882 TTCCCTTTTTTTCTCTTTTGTC
66 TTCCCTTTTTTTC-CTTTTGTC
* ** *
1684904 CTCAAAGAGTAGGACGAACTTTATTTTCCTCTTTTTTTTATCCTCAAAGAGCAGGACGCATTTCG
1 CTCAAAGAGCAGGACGAACTTTATTTTCCTCTTTCCTTTATCCTCAAAGAGCAGGACACATTTC-
* *
1684969 TTTTCC-TTTTTTCCTTT
65 ATTCCCTTTTTTTCCTTT
1684986 ATCCTCGAAA
Statistics
Matches: 73, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
86 4 0.05
87 65 0.89
88 4 0.05
ACGTcount: A:0.21, C:0.24, G:0.12, T:0.43
Consensus pattern (86 bp):
CTCAAAGAGCAGGACGAACTTTATTTTCCTCTTTCCTTTATCCTCAAAGAGCAGGACACATTTCA
TTCCCTTTTTTTCCTTTTGTC
Found at i:1685053 original size:41 final size:40
Alignment explanation
Indices: 1685007--1685109 Score: 120
Period size: 41 Copynumber: 2.5 Consensus size: 40
1684997 GCAAGACGTA
* *
1685007 CTCTTTTTCACTTTGTCCTCAAGAAGCAGGA-TACTTTCCTT
1 CTCTTTTTC-CTTTGTCCTCAAGAAGCAAGACTA-TTTCATT
* *
1685048 TTCTTTTTTCCTTTGTCCTCAAGGAGCAAGACCTATTTCATT
1 CTC-TTTTTCCTTTGTCCTCAAGAAGCAAGA-CTATTTCATT
1685090 CTC-TTTTCCTTTGTCCTCAA
1 CTCTTTTTCCTTTGTCCTCAA
1685110 AAAGTGGGAC
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
40 17 0.31
41 21 0.39
42 14 0.26
43 2 0.04
ACGTcount: A:0.17, C:0.27, G:0.11, T:0.45
Consensus pattern (40 bp):
CTCTTTTTCCTTTGTCCTCAAGAAGCAAGACTATTTCATT
Found at i:1685726 original size:20 final size:20
Alignment explanation
Indices: 1685701--1685877 Score: 120
Period size: 20 Copynumber: 8.8 Consensus size: 20
1685691 TTTTCACAAT
1685701 TTGTATCGATACATTGTTCA
1 TTGTATCGATACATTGTTCA
1685721 TTGTATCGATACATTCTGGGTTTACCCA
1 TTGTATCGATACA-T-T--G-TT---CA
* *
1685749 GATGCATCGATACATT-TTGCA
1 -TTGTATCGATACATTGTT-CA
* *
1685770 TTGTATTGATACATTGCTCA
1 TTGTATCGATACATTGTTCA
*
1685790 TTGTATCGATACATTGCTCA
1 TTGTATCGATACATTGTTCA
1685810 TTGTATCGATACA---TT-A
1 TTGTATCGATACATTGTTCA
* *
1685826 ---TATCAATACATTGCTCA
1 TTGTATCGATACATTGTTCA
1685843 TTGTATCGATACATT-TTACA
1 TTGTATCGATACATTGTT-CA
*
1685863 ATGTATCGATACATT
1 TTGTATCGATACATT
1685878 CAAGCATTTT
Statistics
Matches: 125, Mismatches: 14, Indels: 36
0.71 0.08 0.21
Matches are distributed among these distances:
13 9 0.07
16 2 0.02
17 2 0.02
19 1 0.01
20 86 0.69
21 4 0.03
22 1 0.01
23 2 0.02
24 1 0.01
25 2 0.02
27 1 0.01
28 3 0.02
29 11 0.09
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.41
Consensus pattern (20 bp):
TTGTATCGATACATTGTTCA
Found at i:1685835 original size:33 final size:33
Alignment explanation
Indices: 1685788--1685857 Score: 122
Period size: 33 Copynumber: 2.1 Consensus size: 33
1685778 ATACATTGCT
* *
1685788 CATTGTATCGATACATTGCTCATTGTATCGATA
1 CATTATATCAATACATTGCTCATTGTATCGATA
1685821 CATTATATCAATACATTGCTCATTGTATCGATA
1 CATTATATCAATACATTGCTCATTGTATCGATA
1685854 CATT
1 CATT
1685858 TTACAATGTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.40
Consensus pattern (33 bp):
CATTATATCAATACATTGCTCATTGTATCGATA
Found at i:1688230 original size:51 final size:50
Alignment explanation
Indices: 1688174--1688342 Score: 176
Period size: 51 Copynumber: 3.3 Consensus size: 50
1688164 AATTTTCATC
* * **
1688174 TCGGGGATACTCCAATCTCGGTTTCATTTCCAAAACATCAATTTTTCTTAA
1 TCGGGGATACTCCAA-CTCGATTTTATTTCCAAAACATCAATTTTTCACAA
* * * * ** *
1688225 TCGGGGATATTCCAACTCCGATTTTATTTCTAAAGCATCGATTTACCGCAA
1 TCGGGGATACTCCAACT-CGATTTTATTTCCAAAACATCAATTTTTCACAA
* *
1688276 TCGGGGATACTCCAACTTCGATTTTATTTTCAAAATATCAATTTTTCACAA
1 TCGGGGATACTCCAAC-TCGATTTTATTTCCAAAACATCAATTTTTCACAA
* *
1688327 TTGAGGATACTCCAAC
1 TCGGGGATACTCCAAC
1688343 CCCGTTATTT
Statistics
Matches: 95, Mismatches: 21, Indels: 4
0.79 0.17 0.03
Matches are distributed among these distances:
50 2 0.02
51 92 0.97
52 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.36
Consensus pattern (50 bp):
TCGGGGATACTCCAACTCGATTTTATTTCCAAAACATCAATTTTTCACAA
Found at i:1688363 original size:28 final size:28
Alignment explanation
Indices: 1688331--1688402 Score: 110
Period size: 28 Copynumber: 2.6 Consensus size: 28
1688321 TCACAATTGA
**
1688331 GGATACTCCAACCCCGTTATTTCATTA-G
1 GGATACTCCAACCCCGTTATTTC-CGAGG
1688359 GGATACTCCAACCCCGTTATTTCCGAGG
1 GGATACTCCAACCCCGTTATTTCCGAGG
1688387 GGATACTCCAACCCCG
1 GGATACTCCAACCCCG
1688403 GCTTTATATT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
27 1 0.02
28 40 0.98
ACGTcount: A:0.24, C:0.33, G:0.18, T:0.25
Consensus pattern (28 bp):
GGATACTCCAACCCCGTTATTTCCGAGG
Found at i:1688464 original size:31 final size:28
Alignment explanation
Indices: 1688436--1688510 Score: 100
Period size: 28 Copynumber: 2.7 Consensus size: 28
1688426 TTCTTTCATA
*
1688436 ATCGGGGATACTCCAACCCCTTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATTTC
*
1688464 ATCGGGGATACTCCAATCCCGTTATTT-
1 ATCGGGGATACTCCAACCCCGTTATTTC
1688491 -TCGAGAGGATACTCCAACCC
1 ATCG-G-GGATACTCCAACCC
1688511 TGACTTTATT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
26 3 0.07
27 1 0.02
28 38 0.90
ACGTcount: A:0.24, C:0.31, G:0.17, T:0.28
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTATTTC
Found at i:1688600 original size:79 final size:79
Alignment explanation
Indices: 1688464--1688675 Score: 245
Period size: 79 Copynumber: 2.7 Consensus size: 79
1688454 CCTTTATTTC
* * * * *
1688464 ATCGGGGATACTCCAATCCCGTTATTTTCGAGAGGATACTCCAACCCTGACTTTA-TTTCTAAAA
1 ATCGAGGATACTCCAAACCCATTATTTTCGAGAGGATACTCCAACCCCGATTTTATTTTC-AAAA
**
1688528 TATTGA-TTTCTCACA
65 TACCGATTTTCT-ACA
* **
1688543 ATCGAGGATACTCCAAACCCATTATTTTC-ACGGGGATACTTGAACCCCGATTTTATTTTCAAAA
1 ATCGAGGATACTCCAAACCCATTATTTTCGA-GAGGATACTCCAACCCCGATTTTATTTTCAAAA
*
1688607 TACCGATTTTCTATA
65 TACCGATTTTCTACA
1688622 ATC-AGGGATACTCC-AACCCTATTATTTTCGAGAGGATACTCCAACCCCGATTTT
1 ATCGA-GGATACTCCAAACCC-ATTATTTTCGAGAGGATACTCCAACCCCGATTTT
1688676 TTTATTTCTA
Statistics
Matches: 113, Mismatches: 14, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
78 7 0.06
79 96 0.85
80 10 0.09
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.33
Consensus pattern (79 bp):
ATCGAGGATACTCCAAACCCATTATTTTCGAGAGGATACTCCAACCCCGATTTTATTTTCAAAAT
ACCGATTTTCTACA
Found at i:1688602 original size:110 final size:107
Alignment explanation
Indices: 1688280--1688591 Score: 360
Period size: 110 Copynumber: 2.9 Consensus size: 107
1688270 CCGCAATCGG
* * * ** * *
1688280 GGATACTCCAA-CTTCGATTTTATTTTCAAAATATCAATTTTTCACAATTGAGGATACTCCAACC
1 GGATACTCCAACCCT-GACTTTATTTTAAAAATATTGATTTCTCACAATCGAGGATACTCCAACC
* ** * *
1688344 CCGTTATTTCATTAGGGATACTCCAACCCCGTTATTTCCGAGG
65 CCATTATTTCATCGGGGATACTCCAACCCCGTTATTTTCGAGA
* * * *
1688387 GGATACTCCAACCCCGGCTTTATATTTAAAAATATTGATTTCTTTCATAATCGGGGATACTCCAA
1 GGATACTCCAACCCTGACTTTAT-TTTAAAAATATTGATTTC--TCACAATCGAGGATACTCCAA
* *
1688452 CCCCTTTATTTCATCGGGGATACTCCAATCCCGTTATTTTCGAGA
63 CCCCATTATTTCATCGGGGATACTCCAACCCCGTTATTTTCGAGA
*
1688497 GGATACTCCAACCCTGACTTTATTTCT-AAAATATTGATTTCTCACAATCGAGGATACTCCAAAC
1 GGATACTCCAACCCTGACTTTATTT-TAAAAATATTGATTTCTCACAATCGAGGATACTCCAACC
**
1688561 CCATTATTTTCA-CGGGGATACTTGAACCCCG
65 CCATTA-TTTCATCGGGGATACTCCAACCCCG
1688592 ATTTTATTTT
Statistics
Matches: 173, Mismatches: 26, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
107 58 0.34
108 20 0.12
109 16 0.09
110 79 0.46
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (107 bp):
GGATACTCCAACCCTGACTTTATTTTAAAAATATTGATTTCTCACAATCGAGGATACTCCAACCC
CATTATTTCATCGGGGATACTCCAACCCCGTTATTTTCGAGA
Found at i:1690227 original size:12 final size:11
Alignment explanation
Indices: 1690210--1690245 Score: 56
Period size: 12 Copynumber: 3.3 Consensus size: 11
1690200 TCCTTTTAGC
1690210 AAAAAAAGCAA
1 AAAAAAAGCAA
1690221 AAAAAAAGCCAA
1 AAAAAAAG-CAA
1690233 AAAAAAAG-AA
1 AAAAAAAGCAA
1690243 AAA
1 AAA
1690246 TCCTTTTCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 5 0.21
11 8 0.33
12 11 0.46
ACGTcount: A:0.83, C:0.08, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAAAGCAA
Found at i:1691278 original size:28 final size:28
Alignment explanation
Indices: 1691195--1691461 Score: 175
Period size: 28 Copynumber: 9.5 Consensus size: 28
1691185 ATCTTTTTCC
** *
1691195 TCCTTTCAAAGCCCATGAGTCAGTGGCA
1 TCCTTTCAAAGCCCACAAGTTAGTGGCA
* * * *
1691223 TCTTTTCCAAGCCAACAAGTT-GACGGCA
1 TCCTTTCAAAGCCCACAAGTTAG-TGGCA
*
1691251 TCCTTTCAAAGTCCACAAGTTAGTGGCA
1 TCCTTTCAAAGCCCACAAGTTAGTGGCA
* * * *
1691279 TCATTCCAAAACCCACAA-TTCAGTAGCA
1 TCCTTTCAAAGCCCACAAGTT-AGTGGCA
* ** * *
1691307 TCTTTTCAAAGCCTTCGAGTCAGTGGCA
1 TCCTTTCAAAGCCCACAAGTTAGTGGCA
1691335 -CCTTTTCAAAGCCCACAAGTCT-GTGGCA
1 TCC-TTTCAAAGCCCACAAGT-TAGTGGCA
* * *
1691363 CCCTTTTAAAACCCACAAGTTAGTGGCA
1 TCCTTTCAAAGCCCACAAGTTAGTGGCA
* * *** *
1691391 CCCTTTTAAAGCCCGTGAGTTAGTGGTA
1 TCCTTTCAAAGCCCACAAGTTAGTGGCA
** * *
1691419 -CCTTTTCAAAGCCCATGAGTCAATGGCA
1 TCC-TTTCAAAGCCCACAAGTTAGTGGCA
*
1691447 TCCTTCCAAAGCCCA
1 TCCTTTCAAAGCCCA
1691462 GAGCTGGTGG
Statistics
Matches: 186, Mismatches: 43, Indels: 20
0.75 0.17 0.08
Matches are distributed among these distances:
27 7 0.04
28 173 0.93
29 6 0.03
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (28 bp):
TCCTTTCAAAGCCCACAAGTTAGTGGCA
Found at i:1691361 original size:84 final size:84
Alignment explanation
Indices: 1691254--1691461 Score: 217
Period size: 84 Copynumber: 2.5 Consensus size: 84
1691244 GACGGCATCC
* * *
1691254 TTTCAAAGTCCACAAGT-TAGTGGCATCATTCCAAAACCCACAA-TTCAGTAGCA-TCTTTTCAA
1 TTTCAAAGCCCACAAGTCT-GTGGCATCCTTCCAAAACCCACAAGTT-AGTAGCACCCTTTT-AA
*
1691316 AG-CCTTCGAGTCAGTGGCACCT
63 AGCCCGT-GAGTCAGTGGCACCT
* ** *
1691338 TTTCAAAGCCCACAAGTCTGTGGCACCCTTTTAAAACCCACAAGTTAGTGGCACCCTTTTAAAGC
1 TTTCAAAGCCCACAAGTCTGTGGCATCCTTCCAAAACCCACAAGTTAGTAGCACCCTTTTAAAGC
* *
1691403 CCGTGAGTTAGTGGTACCT
66 CCGTGAGTCAGTGGCACCT
** ** *
1691422 TTTCAAAGCCCATGAGTCAATGGCATCCTTCCAAAGCCCA
1 TTTCAAAGCCCACAAGTCTGTGGCATCCTTCCAAAACCCA
1691462 GAGCTGGTGG
Statistics
Matches: 102, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
84 91 0.89
85 11 0.11
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (84 bp):
TTTCAAAGCCCACAAGTCTGTGGCATCCTTCCAAAACCCACAAGTTAGTAGCACCCTTTTAAAGC
CCGTGAGTCAGTGGCACCT
Found at i:1691648 original size:32 final size:32
Alignment explanation
Indices: 1691595--1691784 Score: 203
Period size: 32 Copynumber: 6.0 Consensus size: 32
1691585 AGCAAATTGG
*
1691595 TGGCAAACC-TCTCAAAAGCCCACACAAGTCGA
1 TGGCAACCCTTCTC-AAAGCCCACACAAGTCGA
* * * *
1691627 TGGTATCCCTTTTCAAAGCCCACACAAG-CTGG
1 TGGCAACCCTTCTCAAAGCCCACACAAGTC-GA
*
1691659 TGGCAACCATTCTCAAAGCCCACACAAGTC-A
1 TGGCAACCCTTCTCAAAGCCCACACAAGTCGA
*
1691690 GTGGCAATCCTTCTCAAAGCCCACACAAGTC-A
1 -TGGCAACCCTTCTCAAAGCCCACACAAGTCGA
* *
1691722 GTGGCAACCCTTCT-AAAGCCCACATAAGTCGG
1 -TGGCAACCCTTCTCAAAGCCCACACAAGTCGA
*
1691754 TGGCAA-CCTTCTTTAAAGCCCACACAAGTCG
1 TGGCAACCCTTC-TCAAAGCCCACACAAGTCG
1691785 GTGGTAGCCT
Statistics
Matches: 135, Mismatches: 16, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
30 5 0.04
31 23 0.17
32 103 0.76
33 4 0.03
ACGTcount: A:0.31, C:0.33, G:0.17, T:0.19
Consensus pattern (32 bp):
TGGCAACCCTTCTCAAAGCCCACACAAGTCGA
Found at i:1691772 original size:63 final size:63
Alignment explanation
Indices: 1691543--1691805 Score: 241
Period size: 64 Copynumber: 4.1 Consensus size: 63
1691533 GCACCCTAGT
** ** * * *
1691543 TAAAGCCCACACAAGTCGGTGATAAACCTT-TTCTAAAGTTCA-AGCAAATTGGTGGCAAACCTC
1 TAAAGCCCACACAAGTCGGTG-GCAACCTTCTTC-AAAGCCCACA-CAAGTCGGTGGCAACCCT-
1691606 TC
62 TC
* * * * *
1691608 AAAAGCCCACACAAGTCGATGGTATCCCTT-TTCAAAGCCCACACAAG-CTGGTGGCAACCATTC
1 TAAAGCCCACACAAGTCGGTGGCA-ACCTTCTTCAAAGCCCACACAAGTC-GGTGGCAACCCTTC
* *
1691671 TCAAAGCCCACACAAGTCAGTGGCAATCCTTC-TCAAAGCCCACACAAGTCAGTGGCAACCCTTC
1 T-AAAGCCCACACAAGTCGGTGGCAA-CCTTCTTCAAAGCCCACACAAGTCGGTGGCAACCCTTC
* * * * *
1691735 TAAAGCCCACATAAGTCGGTGGCAACCTTCTTTAAAGCCCACACAAGTCGGTGGTAGCCTTTC
1 TAAAGCCCACACAAGTCGGTGGCAACCTTCTTCAAAGCCCACACAAGTCGGTGGCAACCCTTC
1691798 T-AAGCCCA
1 TAAAGCCCA
1691806 ATGTCATTGG
Statistics
Matches: 165, Mismatches: 25, Indels: 19
0.79 0.12 0.09
Matches are distributed among these distances:
62 12 0.07
63 52 0.32
64 73 0.44
65 28 0.17
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.21
Consensus pattern (63 bp):
TAAAGCCCACACAAGTCGGTGGCAACCTTCTTCAAAGCCCACACAAGTCGGTGGCAACCCTTC
Found at i:1691775 original size:95 final size:96
Alignment explanation
Indices: 1691594--1691788 Score: 256
Period size: 95 Copynumber: 2.0 Consensus size: 96
1691584 AAGCAAATTG
* * *
1691594 GTGGCAAACCTCTCAAAAGCCCACACAAGTCGATGGTATCCCTTTTCAAAGCCCACACAAGCTGG
1 GTGGCAAACCTCTCAAAAGCCCACACAAGTCGATGGCAACCCTTCTCAAAGCCCACACAAGCTGG
1691659 TGGCAACCATTCTCAAAGCCCACACAAGTCA
66 TGGCAACCATTCTCAAAGCCCACACAAGTCA
* *
1691690 GTGGCAATCCTTCTC-AAAGCCCACACAAGTC-AGTGGCAACCCTTCT-AAAGCCCACATAAG-T
1 GTGGCAAACC-TCTCAAAAGCCCACACAAGTCGA-TGGCAACCCTTCTCAAAGCCCACACAAGCT
* *
1691751 CGGTGGCAACC-TTCTTTAAAGCCCACACAAGTCG
64 -GGTGGCAACCATTC-TCAAAGCCCACACAAGTCA
1691785 GTGG
1 GTGG
1691789 TAGCCTTTCT
Statistics
Matches: 88, Mismatches: 7, Indels: 9
0.85 0.07 0.09
Matches are distributed among these distances:
94 4 0.05
95 45 0.51
96 35 0.40
97 4 0.05
ACGTcount: A:0.30, C:0.32, G:0.18, T:0.19
Consensus pattern (96 bp):
GTGGCAAACCTCTCAAAAGCCCACACAAGTCGATGGCAACCCTTCTCAAAGCCCACACAAGCTGG
TGGCAACCATTCTCAAAGCCCACACAAGTCA
Found at i:1691785 original size:32 final size:32
Alignment explanation
Indices: 1691542--1691788 Score: 197
Period size: 32 Copynumber: 7.7 Consensus size: 32
1691532 GGCACCCTAG
**
1691542 TTAAAGCCCACACAAGTCGGTGATAAACCTT-T
1 TTAAAGCCCACACAAGTCGGTG-GCAACCTTCT
** * *
1691574 TCTAAAGTTCA-AGCAAATTGGTGGCAAACC-TCT
1 T-TAAAGCCCACA-CAAGTCGGTGGC-AACCTTCT
** * * *
1691607 CAAAAGCCCACACAAGTCGATGGTATCCCTT-T
1 TTAAAGCCCACACAAGTCGGTGGCA-ACCTTCT
*
1691639 TCAAAGCCCACACAAG-CTGGTGGCAACCATTC-
1 TTAAAGCCCACACAAGTC-GGTGGCAACC-TTCT
* *
1691671 TCAAAGCCCACACAAGTCAGTGGCAATCCTTC-
1 TTAAAGCCCACACAAGTCGGTGGCAA-CCTTCT
* *
1691703 TCAAAGCCCACACAAGTCAGTGGCAACC--CT
1 TTAAAGCCCACACAAGTCGGTGGCAACCTTCT
*
1691733 TCTAAAGCCCACATAAGTCGGTGGCAACCTTCT
1 T-TAAAGCCCACACAAGTCGGTGGCAACCTTCT
1691766 TTAAAGCCCACACAAGTCGGTGG
1 TTAAAGCCCACACAAGTCGGTGG
1691789 TAGCCTTTCT
Statistics
Matches: 174, Mismatches: 25, Indels: 32
0.75 0.11 0.14
Matches are distributed among these distances:
29 1 0.01
30 1 0.01
31 30 0.17
32 114 0.66
33 28 0.16
ACGTcount: A:0.32, C:0.30, G:0.18, T:0.21
Consensus pattern (32 bp):
TTAAAGCCCACACAAGTCGGTGGCAACCTTCT
Found at i:1691891 original size:60 final size:58
Alignment explanation
Indices: 1691815--1692045 Score: 149
Period size: 60 Copynumber: 4.0 Consensus size: 58
1691805 AATGTCATTG
* *
1691815 GCCTTGGATCAACATATTGGCACTCATTAAATTTTCTTTCTTTTAAGCCTAATATCGCTG
1 GCCTTGAATCAACATATTGGCACTC-TTAAATTTTCTTTC-TTTAAGCCTAATATCGCTA
* * * * * *
1691875 GCCTTGAATCAGCATATT---ATTCCT---TTAT-TATCTTTAAGTCC-AATATTGCTA
1 GCCTTGAATCAACATATTGGCACTCTTAAATTTTCTTTCTTTAAG-CCTAATATCGCTA
* * * * * * *
1691926 GCTTTGAATCAGCATATTGGCAC-CTTTATCATTTTTCTTGTCTTCAAGCCTGATGTCGTTA
1 GCCTTGAATCAACATATTGGCACTC-TTA--AATTTTCTT-TCTTTAAGCCTAATATCGCTA
* *
1691987 GCCTTGAATCAACACATTGGCACT-TGTCAAATCTTCTTTCTTTTAAGCCTAATATCGCT
1 GCCTTGAATCAACATATTGGCACTCT-T-AAATTTTCTTTC-TTTAAGCCTAATATCGCT
1692046 TGAATCAGCA
Statistics
Matches: 127, Mismatches: 27, Indels: 34
0.68 0.14 0.18
Matches are distributed among these distances:
51 31 0.24
52 5 0.04
53 4 0.03
54 2 0.02
56 1 0.01
57 3 0.02
59 5 0.04
60 41 0.32
61 34 0.27
62 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.13, T:0.41
Consensus pattern (58 bp):
GCCTTGAATCAACATATTGGCACTCTTAAATTTTCTTTCTTTAAGCCTAATATCGCTA
Found at i:1692123 original size:168 final size:170
Alignment explanation
Indices: 1691806--1692246 Score: 530
Period size: 168 Copynumber: 2.6 Consensus size: 170
1691796 TCTAAGCCCA
* * * ** * *
1691806 ATGTCATTGGCCTTGGATCAACATATTGGCACTCATTAAATTTTCTTTCTTTTAAGCCTAATATC
1 ATGTCGTTGGCCTTGAATCAACACATTGGCACTTGTCAAATCTTCTTTCTTTTAAGCCTAATAT-
** * * *
1691871 GCTGGCCTTGAATCAGCATATT-ATTCCTTTATTATCTTTAAGTCCAATATTGCTAGCTTTGAAT
65 -CT-GCCTTGAATCAGCATATTGACACCTTTATCATCTTTAAGTCCAATATCGCTAGCCTTGAAT
* * ** *
1691935 CAGCATATTGGCACCTTTATCATTTTTCTTGTCTTCAAGCCTG
128 CAACATATTGGCACCTTTATCAGTTTTCTCATCTTCAAGCCAG
*
1691978 ATGTCGTTAGCCTTGAATCAACACATTGGCACTTGTCAAATCTTCTTTCTTTTAAGCCTAATATC
1 ATGTCGTTGGCCTTGAATCAACACATTGGCACTTGTCAAATCTTCTTTCTTTTAAGCCTAATATC
* *
1692043 -G-CTTGAATCAGCATATTGCCACCTTTATCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAA
66 TGCCTTGAATCAGCATATTGACACCTTTATCATCTTTAAGTCCAATATCGCTAGCCTTGAATCAA
* *
1692106 CATCTTGTCACCTTTATCAGTTTTCTCATCTTCAAGCCAG
131 CATATTGGCACCTTTATCAGTTTTCTCATCTTCAAGCCAG
* * * * *
1692146 ATGTCGTTGGCCTTAAATCAACACATTAGCACTTGTCAAATCTTTTTTCTTTCAAG-GTCAATAT
1 ATGTCGTTGGCCTTGAATCAACACATTGGCACTTGTCAAATCTTCTTTCTTTTAAGCCT-AATAT
* *
1692210 CTTTGGCCTTAAATCAGCATATTGGCACCTTTATCAT
65 C--T-GCCTTGAATCAGCATATTGACACCTTTATCAT
1692247 TCTTCCCATC
Statistics
Matches: 232, Mismatches: 30, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
167 17 0.07
168 129 0.56
170 1 0.00
172 57 0.25
173 28 0.12
ACGTcount: A:0.25, C:0.23, G:0.13, T:0.39
Consensus pattern (170 bp):
ATGTCGTTGGCCTTGAATCAACACATTGGCACTTGTCAAATCTTCTTTCTTTTAAGCCTAATATC
TGCCTTGAATCAGCATATTGACACCTTTATCATCTTTAAGTCCAATATCGCTAGCCTTGAATCAA
CATATTGGCACCTTTATCAGTTTTCTCATCTTCAAGCCAG
Found at i:1692278 original size:62 final size:62
Alignment explanation
Indices: 1692070--1692321 Score: 194
Period size: 62 Copynumber: 4.1 Consensus size: 62
1692060 GCCACCTTTA
* * * * * *
1692070 TCATCTTT-AAGTCCAATATCGCTGGCCTTGAATCAACATCTTGTCACCTTTATCAGTT-TTC
1 TCATCTTTCAAGCCCGATATCGTTGGCCTTAAATCAACATATTGGCACCTTTATCA-TTCTTC
* * * * * *
1692131 TCATC-TTCAAGCCAGATGTCGTTGGCCTTAAATCAACACATTAGCA-C-TTGTCAAATCTT-
1 TCATCTTTCAAGCCCGATATCGTTGGCCTTAAATCAACATATTGGCACCTTTATC-ATTCTTC
** ** * * *
1692190 TTTTCTTTCAAGGTCAATATCTTTGGCCTTAAATCAGCATATTGGCACCTTTATCATTCTTC
1 TCATCTTTCAAGCCCGATATCGTTGGCCTTAAATCAACATATTGGCACCTTTATCATTCTTC
* * * * * * *
1692252 CCATCTTTCGAGCCCGATATCGTTGGCCGTGAATCAGCATATCGACACCTTTATCATTCTT-
1 TCATCTTTCAAGCCCGATATCGTTGGCCTTAAATCAACATATTGGCACCTTTATCATTCTTC
1692313 TGCATCTTT
1 T-CATCTTT
1692322 AAGTCTAATG
Statistics
Matches: 145, Mismatches: 38, Indels: 15
0.73 0.19 0.08
Matches are distributed among these distances:
59 8 0.06
60 38 0.26
61 39 0.27
62 60 0.41
ACGTcount: A:0.23, C:0.26, G:0.13, T:0.38
Consensus pattern (62 bp):
TCATCTTTCAAGCCCGATATCGTTGGCCTTAAATCAACATATTGGCACCTTTATCATTCTTC
Found at i:1693185 original size:25 final size:24
Alignment explanation
Indices: 1693157--1693219 Score: 74
Period size: 28 Copynumber: 2.5 Consensus size: 24
1693147 TAAATTCAAG
1693157 AAATCAAAAAAAAAATAATAATAAA
1 AAATCAAAAAAAAAATAATAA-AAA
*
1693182 AAATCAAAATCAATAAAATAATAAAAG
1 AAATCAAAA--AA-AAAATAATAAAAA
1693209 AAAT-AAAAAAA
1 AAATCAAAAAAA
1693220 TGATGATGAT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
23 1 0.03
24 2 0.06
25 9 0.26
26 4 0.12
27 8 0.24
28 10 0.29
ACGTcount: A:0.78, C:0.05, G:0.02, T:0.16
Consensus pattern (24 bp):
AAATCAAAAAAAAAATAATAAAAA
Found at i:1693196 original size:17 final size:16
Alignment explanation
Indices: 1693157--1693218 Score: 58
Period size: 17 Copynumber: 3.9 Consensus size: 16
1693147 TAAATTCAAG
1693157 AAATCAA-AAAAAA-A
1 AAATCAATAAAAAATA
1693171 ATAAT-AATAAAAAATCA
1 A-AATCAATAAAAAAT-A
1693188 AAATCAATAAAATAATA
1 AAATCAATAAAA-AATA
**
1693205 AAAGAAATAAAAAA
1 AAATCAATAAAAAA
1693219 ATGATGATGA
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
14 3 0.08
15 9 0.22
16 5 0.12
17 20 0.50
18 3 0.08
ACGTcount: A:0.77, C:0.05, G:0.02, T:0.16
Consensus pattern (16 bp):
AAATCAATAAAAAATA
Found at i:1699682 original size:20 final size:20
Alignment explanation
Indices: 1699659--1699759 Score: 96
Period size: 20 Copynumber: 5.5 Consensus size: 20
1699649 AAGTACCTAG
1699659 ATGTATCGATATATTTTTCA
1 ATGTATCGATATATTTTTCA
1699679 ATGTATCG--ATA-----C-
1 ATGTATCGATATATTTTTCA
* *
1699691 ATGTAT-GA-ATGTATTTCA
1 ATGTATCGATATATTTTTCA
*
1699709 ATGTATCGATACATTTTTCA
1 ATGTATCGATATATTTTTCA
*
1699729 ATGTATCGATACATTTTTCA
1 ATGTATCGATATATTTTTCA
1699749 ATGTATCGATA
1 ATGTATCGATA
1699760 CATTCTGTCT
Statistics
Matches: 68, Mismatches: 4, Indels: 18
0.76 0.04 0.20
Matches are distributed among these distances:
11 1 0.01
12 8 0.12
13 1 0.01
17 1 0.01
18 9 0.13
19 2 0.03
20 46 0.68
ACGTcount: A:0.32, C:0.12, G:0.13, T:0.44
Consensus pattern (20 bp):
ATGTATCGATATATTTTTCA
Found at i:1699732 original size:30 final size:30
Alignment explanation
Indices: 1699674--1699734 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
1699664 TCGATATATT
*
1699674 TTTCAATGTATCGATACATGTATGAATGTA
1 TTTCAATGTATCGATACATGTATCAATGTA
* *
1699704 TTTCAATGTATCGATACATTTTTCAATGTA
1 TTTCAATGTATCGATACATGTATCAATGTA
1699734 T
1 T
1699735 CGATACATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.31, C:0.11, G:0.13, T:0.44
Consensus pattern (30 bp):
TTTCAATGTATCGATACATGTATCAATGTA
Found at i:1699752 original size:50 final size:50
Alignment explanation
Indices: 1699659--1699754 Score: 156
Period size: 50 Copynumber: 1.9 Consensus size: 50
1699649 AAGTACCTAG
* *
1699659 ATGTATCGATATATTTTTCAATGTATCGATACATGTATGAATGTATTTCA
1 ATGTATCGATACATTTTTCAATGTATCGATACATGTATCAATGTATTTCA
* *
1699709 ATGTATCGATACATTTTTCAATGTATCGATACATTTTTCAATGTAT
1 ATGTATCGATACATTTTTCAATGTATCGATACATGTATCAATGTAT
1699755 CGATACATTC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 42 1.00
ACGTcount: A:0.31, C:0.11, G:0.12, T:0.45
Consensus pattern (50 bp):
ATGTATCGATACATTTTTCAATGTATCGATACATGTATCAATGTATTTCA
Found at i:1699760 original size:20 final size:20
Alignment explanation
Indices: 1699704--1699763 Score: 120
Period size: 20 Copynumber: 3.0 Consensus size: 20
1699694 TATGAATGTA
1699704 TTTCAATGTATCGATACATT
1 TTTCAATGTATCGATACATT
1699724 TTTCAATGTATCGATACATT
1 TTTCAATGTATCGATACATT
1699744 TTTCAATGTATCGATACATT
1 TTTCAATGTATCGATACATT
1699764 CTGTCTTTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.30, C:0.15, G:0.10, T:0.45
Consensus pattern (20 bp):
TTTCAATGTATCGATACATT
Found at i:1699809 original size:71 final size:69
Alignment explanation
Indices: 1699659--1699813 Score: 206
Period size: 70 Copynumber: 2.2 Consensus size: 69
1699649 AAGTACCTAG
* *
1699659 ATGTATCGATATATTTTTCAATGTATCGATACATGTATGAATGTATTTCAATGTATCGATACATT
1 ATGTATCGATACATTTTTCAATGTATCGATACATGTATG-ATCTATTTCAATGTATCGATACATT
1699724 TTTCA
65 TTTCA
* *
1699729 ATGTATCGATACATTTTTCAATGTATCGATACAT-TCTG-TCTTTTTACCCAGATGTATCGATAC
1 ATGTATCGATACATTTTTCAATGTATCGATACATGTATGATCTATTT---CA-ATGTATCGATAC
*
1699792 ATTTTTTA
62 ATTTTTCA
1699800 ATGTATCGATACAT
1 ATGTATCGATACAT
1699814 CTAGTTAAAA
Statistics
Matches: 76, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
67 5 0.07
69 3 0.04
70 35 0.46
71 33 0.43
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.44
Consensus pattern (69 bp):
ATGTATCGATACATTTTTCAATGTATCGATACATGTATGATCTATTTCAATGTATCGATACATTT
TTCA
Found at i:1709836 original size:13 final size:13
Alignment explanation
Indices: 1709818--1709843 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1709808 AATTTTTTTG
1709818 TGTATCGATACAT
1 TGTATCGATACAT
1709831 TGTATCGATACAT
1 TGTATCGATACAT
1709844 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1712427 original size:13 final size:13
Alignment explanation
Indices: 1712409--1712446 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
1712399 ATAATCCCCC
1712409 TGTATCGATACAG
1 TGTATCGATACAG
*
1712422 TGTATCGATACAT
1 TGTATCGATACAG
1712435 TGTATCGATACA
1 TGTATCGATACA
1712447 AAGAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:1714547 original size:15 final size:15
Alignment explanation
Indices: 1714527--1714557 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1714517 ATTTCGTTTG
*
1714527 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1714542 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1714557 G
1 G
1714558 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Done.