Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009581.1 Hibiscus syriacus cultivar Beakdansim tig00116958_pilon, whole genome shotgun sequence
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: 2551150
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 13
Found at i:843246 original size:15 final size:15
Alignment explanation
Indices: 843204--843246 Score: 61
Period size: 14 Copynumber: 2.9 Consensus size: 15
843194 TTCCAGAAAT
843204 GTAATTCATTTTCCA
1 GTAATTCATTTTCCA
**
843219 G-AATTCAAATTCCA
1 GTAATTCATTTTCCA
843233 GTAATTCATTTTCC
1 GTAATTCATTTTCC
843247 GAAAAATCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.30, C:0.21, G:0.07, T:0.42
Consensus pattern (15 bp):
GTAATTCATTTTCCA
Found at i:845170 original size:23 final size:23
Alignment explanation
Indices: 845094--845171 Score: 84
Period size: 23 Copynumber: 3.3 Consensus size: 23
845084 CCTTATGGAC
*
845094 ATTATTATATGGCACTACGGTGCA
1 ATTA-TATGTGGCACTACGGTGCA
* * * * *
845118 ATTCTACGCGGCACTCCAGTGCA
1 ATTATATGTGGCACTACGGTGCA
*
845141 ATTATATGTGGCACTTCGGTGCA
1 ATTATATGTGGCACTACGGTGCA
845164 ATTATATG
1 ATTATATG
845172 AGCTATGGTG
Statistics
Matches: 43, Mismatches: 11, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
23 40 0.93
24 3 0.07
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.32
Consensus pattern (23 bp):
ATTATATGTGGCACTACGGTGCA
Found at i:848353 original size:16 final size:16
Alignment explanation
Indices: 848332--848382 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
848322 AAGTGCTTTC
848332 AGTTTGGGTTATTTTT
1 AGTTTGGGTTATTTTT
* *
848348 AGTTTGAGTTGCTTTTT
1 AGTTTGGGTT-ATTTTT
*
848365 A-TTT-GGTTATTTTC
1 AGTTTGGGTTATTTTT
848379 AGTT
1 AGTT
848383 CAGTTCTCTA
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
14 5 0.18
15 5 0.18
16 12 0.43
17 6 0.21
ACGTcount: A:0.14, C:0.04, G:0.22, T:0.61
Consensus pattern (16 bp):
AGTTTGGGTTATTTTT
Found at i:850695 original size:42 final size:42
Alignment explanation
Indices: 850636--850804 Score: 250
Period size: 42 Copynumber: 4.0 Consensus size: 42
850626 GAAAGGTGAA
* *
850636 TAAAGTAGAATGGAAGGAGGCATCACATTTTCGATTCTCGTC
1 TAAAGTAGAACGGAAGGAGGCATCACACTTTCGATTCTCGTC
* *
850678 TAAAGTAGAACGTAAGGAGGCATCGCACTTTCGATTCTCGTC
1 TAAAGTAGAACGGAAGGAGGCATCACACTTTCGATTCTCGTC
*
850720 TAAAGTAGAACGGAAGGAGGCAT-AGCACTTTCGATTCTCATC
1 TAAAGTAGAACGGAAGGAGGCATCA-CACTTTCGATTCTCGTC
* * *
850762 TAAAGTAGAACGAAAGGAGGCATAACACTTTTGATTCTCGTC
1 TAAAGTAGAACGGAAGGAGGCATCACACTTTCGATTCTCGTC
850804 T
1 T
850805 TATTAACGCA
Statistics
Matches: 115, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
42 114 0.99
43 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (42 bp):
TAAAGTAGAACGGAAGGAGGCATCACACTTTCGATTCTCGTC
Found at i:851100 original size:9 final size:9
Alignment explanation
Indices: 851086--851119 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
851076 TATATTAACT
851086 TAATAAAAA
1 TAATAAAAA
*
851095 TAATAATAA
1 TAATAAAAA
851104 TAAT-AAAA
1 TAATAAAAA
851112 TAATAAAA
1 TAATAAAA
851120 TTGAAAATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (9 bp):
TAATAAAAA
Found at i:854370 original size:78 final size:79
Alignment explanation
Indices: 854266--854430 Score: 305
Period size: 78 Copynumber: 2.1 Consensus size: 79
854256 TCCTTAATTA
854266 TAGTAAATGAAAAAAAAATCTAGATTGTGAGTTAAATGTTGTAAGATATTCAAAATTAGATTAAT
1 TAGTAAATGAAAAAAAAATCTAGATTGTGAGTTAAATGTTGTAAGATATTCAAAATTAGATTAAT
854331 TACTTTTTATAAGC
66 TACTTTTTATAAGC
*
854345 TAGTAAATG-AAAAAAAATCTAGATTGTGAGTTAAATGTTGTAAGATATTCAGAATTAGATTAAT
1 TAGTAAATGAAAAAAAAATCTAGATTGTGAGTTAAATGTTGTAAGATATTCAAAATTAGATTAAT
854409 TACTTTTTATAAGC
66 TACTTTTTATAAGC
*
854423 TACTAAAT
1 TAGTAAAT
854431 AATTAATTTG
Statistics
Matches: 84, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
78 75 0.89
79 9 0.11
ACGTcount: A:0.44, C:0.05, G:0.14, T:0.37
Consensus pattern (79 bp):
TAGTAAATGAAAAAAAAATCTAGATTGTGAGTTAAATGTTGTAAGATATTCAAAATTAGATTAAT
TACTTTTTATAAGC
Found at i:854745 original size:47 final size:46
Alignment explanation
Indices: 854677--854852 Score: 117
Period size: 47 Copynumber: 3.8 Consensus size: 46
854667 TGGATGTCTG
* * *
854677 GTGTATGTTCATGATTG-TATGTGACCCTAGGCCTCACTTGATGTCAA
1 GTGTACGTTCATGA-TGCTATGTGACCCTAGGCCTCACTCGATATC-A
* * *
854724 GTGTACGTTCCTGATGCTATGT-AACCTCAAGCCTCACTCGATATCA
1 GTGTACGTTCATGATGCTATGTGACCCT-AGGCCTCACTCGATATCA
* * * * *
854770 GATGTACGTTCTTGATACTACGTGATCCC-AGGCCTCA-TCCGAAATGA
1 G-TGTACGTTCATGATGCTATGTGA-CCCTAGGCCTCACT-CGATATCA
* * * * * *
854817 ATGTACCTTCCTGATACTATGTGACCCCATGCCTCA
1 GTGTACGTTCATGATGCTATGTGACCCTAGGCCTCA
854853 TATCAATGAT
Statistics
Matches: 104, Mismatches: 18, Indels: 15
0.76 0.13 0.11
Matches are distributed among these distances:
45 3 0.03
46 36 0.35
47 62 0.60
48 1 0.01
49 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.31
Consensus pattern (46 bp):
GTGTACGTTCATGATGCTATGTGACCCTAGGCCTCACTCGATATCA
Found at i:857274 original size:45 final size:45
Alignment explanation
Indices: 857203--857290 Score: 131
Period size: 45 Copynumber: 2.0 Consensus size: 45
857193 CGGTTATAAT
** * * *
857203 TATAATAAATACTATTGTGGTGATTGCGAGTACCGCAGTTGTGGA
1 TATAATAAATACTATTACGGTAATTGCAAGTACCGCAATTGTGGA
857248 TATAATAAATACTATTACGGTAATTGCAAGTACCGCAATTGTG
1 TATAATAAATACTATTACGGTAATTGCAAGTACCGCAATTGTG
857291 ATTTTTTTTA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.33
Consensus pattern (45 bp):
TATAATAAATACTATTACGGTAATTGCAAGTACCGCAATTGTGGA
Found at i:857313 original size:16 final size:18
Alignment explanation
Indices: 857292--857337 Score: 60
Period size: 16 Copynumber: 2.7 Consensus size: 18
857282 GCAATTGTGA
857292 TTTTTTTTAAAAGAG-T-
1 TTTTTTTTAAAAGAGCTG
*
857308 TTTTTTTTAAATGAGCTG
1 TTTTTTTTAAAAGAGCTG
*
857326 ATTTTTTTAAAA
1 TTTTTTTTAAAA
857338 ATAAAATAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 14 0.56
17 1 0.04
18 10 0.40
ACGTcount: A:0.30, C:0.02, G:0.11, T:0.57
Consensus pattern (18 bp):
TTTTTTTTAAAAGAGCTG
Found at i:863185 original size:18 final size:18
Alignment explanation
Indices: 863158--863194 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
863148 AATATTTTAC
*
863158 GTATAGTTTTATATTAAA
1 GTATAATTTTATATTAAA
863176 GTATAATTTTATATTAAA
1 GTATAATTTTATATTAAA
863194 G
1 G
863195 GACAAAAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.49
Consensus pattern (18 bp):
GTATAATTTTATATTAAA
Found at i:873200 original size:2 final size:2
Alignment explanation
Indices: 873193--873222 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
873183 GTAAGAAGTG
873193 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
873223 GTTATAACCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:877799 original size:19 final size:19
Alignment explanation
Indices: 877777--877844 Score: 57
Period size: 19 Copynumber: 3.4 Consensus size: 19
877767 TAAATTGATT
877777 ATATAAATACTTATCAATA
1 ATATAAATACTTATCAATA
* * *
877796 ATATAAA-ATTTTTGAAATTGA
1 ATATAAATACTTAT-CAA-T-A
877817 TTATATAAATACTTATCAATA
1 --ATATAAATACTTATCAATA
877838 ATATAAA
1 ATATAAA
877845 ATTTTTGAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 12
0.67 0.11 0.22
Matches are distributed among these distances:
18 4 0.11
19 16 0.43
20 1 0.03
21 2 0.05
22 1 0.03
23 9 0.24
24 4 0.11
ACGTcount: A:0.51, C:0.06, G:0.03, T:0.40
Consensus pattern (19 bp):
ATATAAATACTTATCAATA
Found at i:877820 original size:42 final size:42
Alignment explanation
Indices: 877768--877854 Score: 174
Period size: 42 Copynumber: 2.1 Consensus size: 42
877758 TTTATAATAT
877768 AAATTGATTATATAAATACTTATCAATAATATAAAATTTTTG
1 AAATTGATTATATAAATACTTATCAATAATATAAAATTTTTG
877810 AAATTGATTATATAAATACTTATCAATAATATAAAATTTTTG
1 AAATTGATTATATAAATACTTATCAATAATATAAAATTTTTG
877852 AAA
1 AAA
877855 AAAATCAAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (42 bp):
AAATTGATTATATAAATACTTATCAATAATATAAAATTTTTG
Found at i:878577 original size:21 final size:20
Alignment explanation
Indices: 878550--878647 Score: 88
Period size: 20 Copynumber: 4.8 Consensus size: 20
878540 AATCAGTGTC
878550 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * **
878571 GAAAATCGCAATGCGATAGT
1 CAAAATCGCAACGCGATTTT
* **
878591 CAAATTCGCATTGCGATTTTT
1 CAAAATCGCAACGCGA-TTTT
* *
878612 CAAAATCGCAACGCGAATAT
1 CAAAATCGCAACGCGATTTT
*
878632 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
878648 ACACATAAAT
Statistics
Matches: 61, Mismatches: 15, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
20 31 0.51
21 30 0.49
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.22
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:878600 original size:41 final size:41
Alignment explanation
Indices: 878491--878647 Score: 133
Period size: 41 Copynumber: 3.9 Consensus size: 41
878481 AAATGACCAA
* **
878491 CAAAATCGCAACGCGAA-ATAAAAATCGCAACGCGA-TCCC
1 CAAAATCGCAACGCGAATATCAAAATCGCAACGCGATTCTT
* ** * *
878530 CAGAATCGCAAATC-AGTGTCCAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGAATAT-CAAAATCGCAACGCGATTCTT
* * * ** *
878571 GAAAATCGCAATGCG-ATAGTCAAATTCGCATTGCGATTTTT
1 CAAAATCGCAACGCGAATA-TCAAAATCGCAACGCGATTCTT
*
878612 CAAAATCGCAACGCGAATATGAAAATCGCAACGCGA
1 CAAAATCGCAACGCGAATATCAAAATCGCAACGCGA
878648 ACACATAAAT
Statistics
Matches: 88, Mismatches: 24, Indels: 10
0.72 0.20 0.08
Matches are distributed among these distances:
38 1 0.01
39 12 0.14
40 15 0.17
41 56 0.64
42 4 0.05
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.19
Consensus pattern (41 bp):
CAAAATCGCAACGCGAATATCAAAATCGCAACGCGATTCTT
Found at i:878657 original size:20 final size:20
Alignment explanation
Indices: 878634--878804 Score: 107
Period size: 20 Copynumber: 8.6 Consensus size: 20
878624 GCGAATATGA
878634 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTAAC-CAT
* * *
878654 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTAACCAT
* * *
878674 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTAACCAT
** *
878694 AAATCGCAACGCGTTTCCGT
1 AAATCGCAACGCGTAACCAT
* * *
878714 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTAACCAT
* *
878734 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGTAA-CCAT
* **
878754 AAATCGCAACGAG-AATCTGT
1 AAATCGCAACGCGTAA-CCAT
* *
878774 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGTAA-CCAT
878794 AAATCGCAACG
1 AAATCGCAACG
878805 AGAATCTGTA
Statistics
Matches: 131, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
19 2 0.02
20 127 0.97
21 2 0.02
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTAACCAT
Found at i:878661 original size:61 final size:61
Alignment explanation
Indices: 878491--878666 Score: 171
Period size: 61 Copynumber: 2.9 Consensus size: 61
878481 AAATGACCAA
* * * *
878491 CAAAATCGCAACGCGAA-ATAAAAATCGCAACGCGATCCCCAGAATCGCAAAT-C-AGTGTC
1 CAAAATCGCAACGCGAATATGAAAATCGCAACGCGATACACAAAATCGC-AATGCGAGTGTC
* * * ** * * * * *
878550 CAAAATCGCAACGCGATTCTTGAAAATCGCAATGCGATAGTCAAATTCGCATTGCGATTTTT
1 CAAAATCGCAACGCGAAT-ATGAAAATCGCAACGCGATACACAAAATCGCAATGCGAGTGTC
878612 CAAAATCGCAACGCGAATATGAAAATCGCAACGCGA-ACACATAAATCGCAATGCG
1 CAAAATCGCAACGCGAATATGAAAATCGCAACGCGATACACA-AAATCGCAATGCG
878667 TATCCGTAAA
Statistics
Matches: 92, Mismatches: 20, Indels: 8
0.77 0.17 0.07
Matches are distributed among these distances:
59 16 0.17
60 5 0.05
61 51 0.55
62 20 0.22
ACGTcount: A:0.39, C:0.25, G:0.18, T:0.19
Consensus pattern (61 bp):
CAAAATCGCAACGCGAATATGAAAATCGCAACGCGATACACAAAATCGCAATGCGAGTGTC
Found at i:878699 original size:60 final size:58
Alignment explanation
Indices: 878614--878823 Score: 208
Period size: 60 Copynumber: 3.5 Consensus size: 58
878604 CGATTTTTCA
* ** * *
878614 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAATGCGTATCCGT
1 AAATCGCAACGTGAATCCGTAAATCGCAACGCGAAC-CGTAAATCGCAA-GCGTATCCGT
* ** *
878674 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTTTCCGTATATCGCAACGCGTATCCGT
1 AAATCGCAACGTGAATCCGTAAATCGCAACGCG-AACCGTAAATCGCAA-GCGTATCCGT
* *
878734 AAATCGCAACGAT-AATCCGTAAATCGCAACGAGAATCTGTAAATCGCAA-CGATAATCCGT
1 AAATCGCAACG-TGAATCCGTAAATCGCAACGCGAA-CCGTAAATCGCAAGCG-T-ATCCGT
* * *
878794 AAATCGCAACGAGAATCTGTAAATCACAAC
1 AAATCGCAACGTGAATCCGTAAATCGCAAC
878824 ACTGAAATTT
Statistics
Matches: 125, Mismatches: 19, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
58 2 0.02
59 1 0.01
60 120 0.96
61 2 0.02
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (58 bp):
AAATCGCAACGTGAATCCGTAAATCGCAACGCGAACCGTAAATCGCAAGCGTATCCGT
Found at i:878805 original size:20 final size:20
Alignment explanation
Indices: 878668--878823 Score: 174
Period size: 20 Copynumber: 7.8 Consensus size: 20
878658 CGCAATGCGT
*
878668 ATCCGTAAATCGCAACG-TGT
1 ATCCGTAAATCGCAACGAT-A
*
878688 ATCCGTAAATCGCAACGCGT-
1 ATCCGTAAATCGCAACG-ATA
* * *
878708 TTCCGTATATCGCAACGCGT-
1 ATCCGTAAATCGCAACG-ATA
878728 ATCCGTAAATCGCAACGATA
1 ATCCGTAAATCGCAACGATA
*
878748 ATCCGTAAATCGCAACGAGA
1 ATCCGTAAATCGCAACGATA
*
878768 ATCTGTAAATCGCAACGATA
1 ATCCGTAAATCGCAACGATA
*
878788 ATCCGTAAATCGCAACGAGA
1 ATCCGTAAATCGCAACGATA
* *
878808 ATCTGTAAATCACAAC
1 ATCCGTAAATCGCAAC
878824 ACTGAAATTT
Statistics
Matches: 121, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
19 1 0.01
20 119 0.98
22 1 0.01
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.22
Consensus pattern (20 bp):
ATCCGTAAATCGCAACGATA
Found at i:878805 original size:40 final size:40
Alignment explanation
Indices: 878634--878823 Score: 208
Period size: 40 Copynumber: 4.8 Consensus size: 40
878624 GCGAATATGA
* *
878634 AAATCGCAACGCGAA-CACATAAATCGCAATGCG-T-ATCCGT
1 AAATCGCAACGAGAATC-CGTAAATCGCAA--CGATAATCCGT
* * * *
878674 AAATCGCAACGTGTATCCGTAAATCGCAACGCGT-TTCCGT
1 AAATCGCAACGAGAATCCGTAAATCGCAACG-ATAATCCGT
* * *
878714 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCGT
*
878754 AAATCGCAACGAGAATCTGTAAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCGT
* *
878794 AAATCGCAACGAGAATCTGTAAATCACAAC
1 AAATCGCAACGAGAATCCGTAAATCGCAAC
878824 ACTGAAATTT
Statistics
Matches: 133, Mismatches: 13, Indels: 8
0.86 0.08 0.05
Matches are distributed among these distances:
38 2 0.02
39 1 0.01
40 129 0.97
41 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.17, T:0.21
Consensus pattern (40 bp):
AAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCGT
Found at i:879545 original size:24 final size:24
Alignment explanation
Indices: 879506--879552 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
879496 AAATTTGGTC
879506 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
879530 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
879553 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:879744 original size:12 final size:12
Alignment explanation
Indices: 879727--879751 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
879717 ATATAATCCT
879727 GAAGAAGAAAAA
1 GAAGAAGAAAAA
879739 GAAGAAGAAAAA
1 GAAGAAGAAAAA
879751 G
1 G
879752 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:882055 original size:19 final size:19
Alignment explanation
Indices: 882033--882377 Score: 452
Period size: 19 Copynumber: 19.4 Consensus size: 19
882023 CGGAAATTAC
*
882033 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
882052 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
882066 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
882086 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
882100 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
882119 AATCGCAATGAGAAATGAA
1 AATCGCAATGCGAAATGAA
*
882138 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
882152 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
882171 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
882190 AATCGCAA--CGACA-G--
1 AATCGCAATGCGAAATGAA
882204 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
882223 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
882242 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
882261 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
882280 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
882299 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
882318 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
882337 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
882351 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
882370 AATCGCAA
1 AATCGCAA
882378 CGAGAGAATC
Statistics
Matches: 290, Mismatches: 10, Indels: 52
0.82 0.03 0.15
Matches are distributed among these distances:
14 48 0.17
15 2 0.01
16 16 0.06
17 14 0.05
18 3 0.01
19 194 0.67
20 13 0.04
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:882120 original size:33 final size:34
Alignment explanation
Indices: 882033--882399 Score: 387
Period size: 33 Copynumber: 10.5 Consensus size: 34
882023 CGGAAATTAC
* *
882033 AATCGCAACGCGAAATGAAAATCCCAAC-ATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAA
*
882066 AATCGCAATGCGGAAATGAAAATCGCAACGA-GAG
1 AATCGCAATGC-GAAATGAAAATCGCAACGATGAA
*
882100 AATCGCAATGCGAAATGAAAATCGCAATGAGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
*
882138 AATCGCAA--CG--A-GAGAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
* *
882171 AATCGCAATGCGAAATGAAAATCGCAACGA-CAG
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAA
882204 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
882242 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
882280 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
882318 AATCGCAATGCGAAATGAAAATCGCAACGA--AA
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAA
*
882350 GAATCGCAATGCGAAATGAAAATCGCAACGA-GAG
1 -AATCGCAATGCGAAATGAAAATCGCAACGATGAA
882384 AATCGCAATGCGAAAT
1 AATCGCAATGCGAAAT
882400 TATAAACGCA
Statistics
Matches: 302, Mismatches: 13, Indels: 38
0.86 0.04 0.11
Matches are distributed among these distances:
32 2 0.01
33 128 0.42
34 33 0.11
35 6 0.02
36 6 0.02
37 3 0.01
38 124 0.41
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.14
Consensus pattern (34 bp):
AATCGCAATGCGAAATGAAAATCGCAACGATGAA
Found at i:882148 original size:52 final size:52
Alignment explanation
Indices: 882061--882344 Score: 433
Period size: 52 Copynumber: 5.2 Consensus size: 52
882051 AAATCCCAAC
882061 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
*
882114 ATGAAAATCGCAATGAGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
*
882166 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGACAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
*
882218 ATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAGAATCGCAATGCGAA
*
882275 ATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAGAATCGCAATGCGAA
882332 ATGAAAATCGCAA
1 ATGAAAATCGCAA
882345 CGAAAGAATC
Statistics
Matches: 221, Mismatches: 5, Indels: 6
0.95 0.02 0.03
Matches are distributed among these distances:
52 118 0.53
53 15 0.07
54 2 0.01
56 1 0.00
57 85 0.38
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.14
Consensus pattern (52 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
Found at i:882356 original size:14 final size:14
Alignment explanation
Indices: 882337--882391 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
882327 GCGAAATGAA
882337 AATCGCAACGAAAG
1 AATCGCAACGAAAG
882351 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
*
882368 AAAATCGCAACGAGAG
1 --AATCGCAACGAAAG
882384 AATCGCAA
1 AATCGCAA
882392 TGCGAAATTA
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
14 16 0.46
16 6 0.17
17 5 0.14
19 8 0.23
ACGTcount: A:0.47, C:0.20, G:0.22, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:882377 original size:52 final size:55
Alignment explanation
Indices: 882033--882377 Score: 376
Period size: 52 Copynumber: 6.5 Consensus size: 55
882023 CGGAAATTAC
* *
882033 AATCGCAACGCGAAATGAAAATCCCAA--C---ATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-GC-GAAATG-A
* *
882086 AATCGCAA--CG--A-GAGAATCGCAATGCGAAATGAAAATCGCAATGAGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCGAAATG-A
*
882138 AATCGCAA--CG--A-GAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCGAAATG-A
*
882190 AATCGCAA--CGACA-G--AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCGAAATG-A
882242 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCGAAATG-A
882299 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-CGAAA-G-
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAAATGA
882351 AATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAA
882378 CGAGAGAATC
Statistics
Matches: 275, Mismatches: 5, Indels: 25
0.90 0.02 0.08
Matches are distributed among these distances:
48 9 0.03
49 1 0.00
50 1 0.00
51 2 0.01
52 142 0.52
53 23 0.08
54 7 0.03
55 6 0.02
57 84 0.31
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (55 bp):
AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAAATGA
Found at i:882515 original size:19 final size:19
Alignment explanation
Indices: 882406--882507 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
882396 AAATTATAAA
882406 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
882425 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
882445 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
882461 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
882478 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
882497 CGCATTGCGAT
1 CGCATTGCGAT
882508 AGTCATTTTT
Statistics
Matches: 75, Mismatches: 2, Indels: 11
0.85 0.02 0.12
Matches are distributed among these distances:
14 6 0.08
16 7 0.09
17 7 0.09
19 36 0.48
20 19 0.25
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.44
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:882633 original size:14 final size:14
Alignment explanation
Indices: 882614--882650 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
882604 CATCAATTAC
882614 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
882628 ACAAATCATCTTTT
1 ACAAATCAACTTTT
882642 ACAAATCAA
1 ACAAATCAA
882651 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:884645 original size:14 final size:14
Alignment explanation
Indices: 884626--884682 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
884616 GCGAAATGAA
*
884626 AATCGCAACGACAG
1 AATCGCAACGAAAG
884640 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
884657 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
884673 AATCGCAACG
1 AATCGCAACG
884683 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:884653 original size:33 final size:33
Alignment explanation
Indices: 884607--884699 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
884597 GCGAAACCAA
*
884607 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
884640 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
884673 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
884700 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:884664 original size:19 final size:19
Alignment explanation
Indices: 884570--884704 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
884560 TAGTTTACTT
* *
884570 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
884590 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
884609 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
884628 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
884642 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
884661 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
884675 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
884694 TCGCAATGCGA
1 TCGCAACGCGA
884705 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:884722 original size:19 final size:19
Alignment explanation
Indices: 884700--884828 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
884690 AAAATCGCAA
884700 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
884719 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
884733 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
884752 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
884766 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
884785 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
884804 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
884824 TGCGA
1 TGCGA
884829 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:884742 original size:33 final size:33
Alignment explanation
Indices: 884700--884791 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
884690 AAAATCGCAA
884700 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
884733 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
884766 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
884792 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:884992 original size:93 final size:93
Alignment explanation
Indices: 884876--885158 Score: 550
Period size: 93 Copynumber: 3.1 Consensus size: 93
884866 ATGGATTGCA
884876 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
884940 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
884968 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
885033 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
885061 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
885126 TAGCAGAATTGGCAGCAACCGAATAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
885154 TTACT
1 TTACT
885159 AAGCAATCTA
Statistics
Matches: 189, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
92 4 0.02
93 185 0.98
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:886882 original size:14 final size:14
Alignment explanation
Indices: 886863--886952 Score: 72
Period size: 14 Copynumber: 5.7 Consensus size: 14
886853 TTGAAATGAA
886863 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
886877 AATCGCAACGCGAAATGAC
1 AATCGCAA--CG--A-GAG
886896 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
886910 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
886929 AATCGCAACGAGAG
1 AATCGCAACGAGAG
886943 AATCGCAACG
1 AATCGCAACG
886953 CGAAATAAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
14 30 0.48
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 20 0.32
ACGTcount: A:0.43, C:0.23, G:0.24, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:886900 original size:33 final size:33
Alignment explanation
Indices: 886855--886969 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
886845 TCTTTTGGTT
886855 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
886888 GAAATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
886921 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
886954 GAAATAAAAATCGCAA
1 GAAATGAAAATCGCAA
886970 TGCGATTTTG
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 79 1.00
ACGTcount: A:0.47, C:0.21, G:0.23, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:886901 original size:19 final size:19
Alignment explanation
Indices: 886877--886974 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
886867 GCAACGAGAG
*
886877 AATCGCAACGCGAAATGAC
1 AATCGCAACGCGAAATGAA
*
886896 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
886910 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
886929 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
*
886943 AATCGCAACGCGAAATAAA
1 AATCGCAACGCGAAATGAA
*
886962 AATCGCAATGCGA
1 AATCGCAACGCGA
886975 TTTTGGTTTC
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
14 20 0.32
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 31 0.49
ACGTcount: A:0.45, C:0.22, G:0.22, T:0.10
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:887005 original size:14 final size:14
Alignment explanation
Indices: 886986--887042 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
886976 TTTGGTTTCC
886986 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
887000 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
887019 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
887033 CGTTGCGATT
1 CGTTGCGATT
887043 GTCATTTCGC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:887024 original size:19 final size:19
Alignment explanation
Indices: 887000--887088 Score: 80
Period size: 19 Copynumber: 4.9 Consensus size: 19
886990 GCGATTCTCT
887000 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
887019 CGTTGCGA--TTC---TCT
1 CGTTGCGATTTTCATTTCG
*
887033 CGTTGCGATTGTCATTTCG
1 CGTTGCGATTTTCATTTCG
*** *
887052 CGTTGCGACAGTCATTCTCT
1 CGTTGCGATTTTCATT-TCG
887072 CGTTGCGATTTTCATTT
1 CGTTGCGATTTTCATTT
887089 ATCTCGTTGC
Statistics
Matches: 55, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
14 10 0.18
16 2 0.04
17 3 0.05
19 25 0.45
20 15 0.27
ACGTcount: A:0.11, C:0.24, G:0.21, T:0.44
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:887080 original size:39 final size:33
Alignment explanation
Indices: 886970--887088 Score: 148
Period size: 33 Copynumber: 3.4 Consensus size: 33
886960 AAAATCGCAA
** *
886970 TGCGATTTTGGTTTCCCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
887003 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
*
887036 TGCGATTGTCATTTCGCGTTGCGACAGTCATTCTCTCGT
1 TGCGATTTTCATTTCGCGTT--G-C-G--ATTCTCTCGT
887075 TGCGATTTTCATTT
1 TGCGATTTTCATTT
887089 ATCTCGTTGC
Statistics
Matches: 75, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
33 49 0.65
35 1 0.01
36 1 0.01
37 1 0.01
39 23 0.31
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.45
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:887450 original size:22 final size:22
Alignment explanation
Indices: 887398--887452 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
887388 TGGTTGTGAG
**
887398 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
887420 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
887442 GGATTTCTTCG
1 GGATTTCTTCG
887453 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:887625 original size:20 final size:20
Alignment explanation
Indices: 887600--887793 Score: 203
Period size: 20 Copynumber: 9.7 Consensus size: 20
887590 CTTTAAATAT
887600 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
887620 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
* *
887642 -TCGTTGCGATTTACCGATA
1 CGCGTTGCGATTTACGGATA
*
887661 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
887681 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
887701 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
887721 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* * *
887741 CGCATTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
887761 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
887781 CGCGTTGCGATTT
1 CGCGTTGCGATTT
887794 TGGAAAATCG
Statistics
Matches: 143, Mismatches: 26, Indels: 10
0.80 0.15 0.06
Matches are distributed among these distances:
19 2 0.01
20 124 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:887765 original size:60 final size:60
Alignment explanation
Indices: 887602--887773 Score: 236
Period size: 60 Copynumber: 2.9 Consensus size: 60
887592 TTAAATATCG
* ** *
887602 CGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACCGATACG
1 CGTTGCGATTTACGGATACGCATTGCGA-TTTATGTATTCGCGTTGCGATTTACCGATACA
* *** * *
887663 CGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATACA
1 CGTTGCGATTTACGGATACGCATTGCGATTTATGTATTCGCGTTGCGATTTACCGATACA
*
887723 CGTTGCGATTTACGGATACGCATTGCGATTTATGTGTTCGCGTTGCGATTT
1 CGTTGCGATTTACGGATACGCATTGCGATTTATGTATTCGCGTTGCGATTT
887774 TCATATTCGC
Statistics
Matches: 95, Mismatches: 16, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
60 69 0.73
61 26 0.27
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.35
Consensus pattern (60 bp):
CGTTGCGATTTACGGATACGCATTGCGATTTATGTATTCGCGTTGCGATTTACCGATACA
Found at i:887787 original size:60 final size:60
Alignment explanation
Indices: 887599--887914 Score: 232
Period size: 60 Copynumber: 5.2 Consensus size: 60
887589 GCTTTAAATA
* ** * *
887599 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACCGAT
1 TCGCGTTGCGATTTACGGATACGCATTGCGA-TTTATGTATTCGCGTTGCGATTTTCAGAT
* * *** * * *
887660 ACGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGAT
1 TCGCGTTGCGATTTACGGATACGCATTGCGATTTATGTATTCGCGTTGCGATTTTCAGAT
* * * *
887720 ACACGTTGCGATTTACGGATACGCATTGCGATTTATGTGTTCGCGTTGCGATTTTCATAT
1 TCGCGTTGCGATTTACGGATACGCATTGCGATTTATGTATTCGCGTTGCGATTTTCAGAT
* * * * * *
887780 TCGCGTTGCGATTT-TGGAAAATCGCAATGCGAATT-TG-ACTATCGCATTGCGATTTTCAAGAA
1 TCGCGTTGCGATTTACGG-ATA-CGCATTGCGATTTATGTA-T-TCGCGTTGCGATTTTC-AGAT
* * ** * * *
887842 TCGCGTTGCGATTT-TGGAAACTG-ATTTGCGATTCTGGGGA-TCGCGTTGCGATTTTTA-TT
1 TCGCGTTGCGATTTACGGATAC-GCA-TTGCGATT-TATGTATTCGCGTTGCGATTTTCAGAT
887901 TCGCGTTGCGATTT
1 TCGCGTTGCGATTT
887915 TGTTGGTCAT
Statistics
Matches: 208, Mismatches: 37, Indels: 22
0.78 0.14 0.08
Matches are distributed among these distances:
59 16 0.08
60 92 0.44
61 78 0.38
62 20 0.10
63 1 0.00
64 1 0.00
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.36
Consensus pattern (60 bp):
TCGCGTTGCGATTTACGGATACGCATTGCGATTTATGTATTCGCGTTGCGATTTTCAGAT
Found at i:887810 original size:21 final size:20
Alignment explanation
Indices: 887760--887857 Score: 79
Period size: 20 Copynumber: 4.8 Consensus size: 20
887750 ATTTATGTGT
* * * *
887760 TCGCGTTGCGATTTTCATAT
1 TCGCATTGCGATTTTGAAAA
*
887780 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTT-GAAAA
* * **
887801 TCGCAATGCGAATTTGACTA
1 TCGCATTGCGATTTTGAAAA
*
887821 TCGCATTGCGATTTTCAAGAA
1 TCGCATTGCGATTTTGAA-AA
*
887842 TCGCGTTGCGATTTTG
1 TCGCATTGCGATTTTG
887858 GAAACTGATT
Statistics
Matches: 61, Mismatches: 15, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
20 32 0.52
21 29 0.48
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (20 bp):
TCGCATTGCGATTTTGAAAA
Found at i:887833 original size:61 final size:60
Alignment explanation
Indices: 887760--887916 Score: 176
Period size: 61 Copynumber: 2.6 Consensus size: 60
887750 ATTTATGTGT
*
887760 TCGCGTTGCGATTTTCATATTCGCGTTGCGATTTTGGAAAATCGCA-ATGCGAATT-TGACTA
1 TCGCGTTGCGATTTTCATATTCGCGTTGCGATTTTGGAAAAT-G-ATATGCG-ATTCTGACGA
* * * * * **
887821 TCGCATTGCGATTTTCAAGAATCGCGTTGCGATTTTGGAAACTGATTTGCGATTCTGGGGA
1 TCGCGTTGCGATTTTC-ATATTCGCGTTGCGATTTTGGAAAATGATATGCGATTCTGACGA
*
887882 TCGCGTTGCGATTTTTAT-TTCGCGTTGCGATTTTG
1 TCGCGTTGCGATTTTCATATTCGCGTTGCGATTTTG
887917 TTGGTCATTT
Statistics
Matches: 81, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
59 16 0.20
60 5 0.06
61 37 0.46
62 23 0.28
ACGTcount: A:0.19, C:0.17, G:0.25, T:0.38
Consensus pattern (60 bp):
TCGCGTTGCGATTTTCATATTCGCGTTGCGATTTTGGAAAATGATATGCGATTCTGACGA
Found at i:887852 original size:41 final size:41
Alignment explanation
Indices: 887760--887916 Score: 110
Period size: 41 Copynumber: 3.9 Consensus size: 41
887750 ATTTATGTGT
* * *
887760 TCGCGTTGCGATTTTCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGATTTTGATATTCGCATTGCGATTTTGCAAAA
** *
887801 TCGCAATGCGAATTTGACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGATTTTGA-TATTCGCATTGCGATTTTGCAA-AA
* * * ***
887842 TCGCGTTGCGATTTTGGAAACT-G-ATTTGCGATTCTG-GGGA
1 TCGCGTTGCGATTTT-GATATTCGCA-TTGCGATTTTGCAAAA
* *
887882 TCGCGTTGCGATTTTTAT-TTCGCGTTGCGATTTTG
1 TCGCGTTGCGATTTTGATATTCGCATTGCGATTTTG
887917 TTGGTCATTT
Statistics
Matches: 89, Mismatches: 19, Indels: 18
0.71 0.15 0.14
Matches are distributed among these distances:
38 1 0.01
39 12 0.13
40 19 0.21
41 52 0.58
42 5 0.06
ACGTcount: A:0.19, C:0.17, G:0.25, T:0.38
Consensus pattern (41 bp):
TCGCGTTGCGATTTTGATATTCGCATTGCGATTTTGCAAAA
Found at i:890884 original size:53 final size:53
Alignment explanation
Indices: 890800--890903 Score: 199
Period size: 53 Copynumber: 2.0 Consensus size: 53
890790 AAGCACCATA
890800 TAAAAGAGGAATTTATATATGTTTTGATTTAAAAGAGGAATCCAGCATTAAAT
1 TAAAAGAGGAATTTATATATGTTTTGATTTAAAAGAGGAATCCAGCATTAAAT
*
890853 TAAAAGAGGAATTTATATATGTTTTGGTTTAAAAGAGGAATCCAGCATTAA
1 TAAAAGAGGAATTTATATATGTTTTGATTTAAAAGAGGAATCCAGCATTAA
890904 CAAGTGACTA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.42, C:0.06, G:0.18, T:0.34
Consensus pattern (53 bp):
TAAAAGAGGAATTTATATATGTTTTGATTTAAAAGAGGAATCCAGCATTAAAT
Found at i:897828 original size:21 final size:20
Alignment explanation
Indices: 897801--897898 Score: 88
Period size: 20 Copynumber: 4.8 Consensus size: 20
897791 AATCAGTGTC
897801 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * **
897822 GAAAATCGCAATGCGATAGT
1 CAAAATCGCAACGCGATTTT
* **
897842 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
897862 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
897883 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
897899 ACACATAAAT
Statistics
Matches: 61, Mismatches: 15, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
20 31 0.51
21 30 0.49
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.21
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:897851 original size:41 final size:41
Alignment explanation
Indices: 897742--897898 Score: 126
Period size: 41 Copynumber: 3.9 Consensus size: 41
897732 AAATGACCAA
* **
897742 CAAAATCGCAACGCGAA-ATAAAAATCGCAACGCGA-TCCC
1 CAAAATCGCAACGCGAATATCAAAATCGCAACGCGATTTTC
* ** * *
897781 CAGAATCGCAAATC-AGTGTCCAAAATCGCAACGCGATTCTT-
1 CAAAATCGCAACGCGAATAT-CAAAATCGCAACGCGATT-TTC
* * * **
897822 GAAAATCGCAATGCG-ATAGTCAAATTCGCATTGCGATTTTC
1 CAAAATCGCAACGCGAATA-TCAAAATCGCAACGCGATTTTC
*
897863 CAAAATCGCAACGCGAATATGAAAATCGCAACGCGA
1 CAAAATCGCAACGCGAATATCAAAATCGCAACGCGA
897899 ACACATAAAT
Statistics
Matches: 87, Mismatches: 23, Indels: 14
0.70 0.19 0.11
Matches are distributed among these distances:
38 1 0.01
39 12 0.14
40 17 0.20
41 53 0.61
42 4 0.05
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.18
Consensus pattern (41 bp):
CAAAATCGCAACGCGAATATCAAAATCGCAACGCGATTTTC
Found at i:897908 original size:20 final size:20
Alignment explanation
Indices: 897885--898058 Score: 118
Period size: 20 Copynumber: 8.7 Consensus size: 20
897875 GCGAATATGA
897885 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTAAC-CAT
* * *
897905 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTAACCAT
* * *
897925 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTAACCAT
****
897945 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTAACCAT
* * *
897965 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTAACCAT
* * **
897985 ATATCGCAACGCGTATCGGT
1 AAATCGCAACGCGTAACCAT
* *
898005 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGTAA-CCAT
* *
898025 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTAACCAT
898046 AAATCGCAACGCG
1 AAATCGCAACGCG
898059 ATATTTAAAG
Statistics
Matches: 126, Mismatches: 24, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
19 2 0.02
20 107 0.85
21 15 0.12
22 2 0.02
ACGTcount: A:0.34, C:0.25, G:0.20, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTAACCAT
Found at i:897929 original size:40 final size:39
Alignment explanation
Indices: 897865--898059 Score: 183
Period size: 40 Copynumber: 4.9 Consensus size: 39
897855 CGATTTTCCA
* ** *
897865 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAAC-CAT
* * * *
897905 AAATCGCAATGCGTATCCGTAAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCG-AACCAT
** * * *
897945 AAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCG-AACCAT
* * ** *
897985 ATATCGCAACGCGTATCGGTAAATCGCAACGATAATACAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAA-CCAT
898025 AAAATCGCAACGCGTATCCGTAAATCGCAACGCGA
1 -AAATCGCAACGCGTATCCGTAAATCGCAACGCGA
898060 TATTTAAAGC
Statistics
Matches: 127, Mismatches: 25, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
39 1 0.01
40 94 0.74
41 32 0.25
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.19
Consensus pattern (39 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAACCAT
Found at i:897950 original size:60 final size:60
Alignment explanation
Indices: 897865--898058 Score: 244
Period size: 60 Copynumber: 3.2 Consensus size: 60
897855 CGATTTTCCA
* ** * *
897865 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAATGCGTATCCGT
* * ***
897925 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAATGCGTATCCGT
* * ** *
897985 ATATCGCAACGCGTATCGGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAATGCGTATCCGT
898046 AAATCGCAACGCG
1 AAATCGCAACGCG
898059 ATATTTAAAG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 81 0.72
61 31 0.28
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.20
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAATGCGTATCCGT
Found at i:898483 original size:33 final size:33
Alignment explanation
Indices: 898441--898511 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
898431 TTCACTTAGA
898441 TTTCATTTCGCGTTACGATTATCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTATCTCGTTGCGAT
* * *
898474 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTATCTCGTTGCGAT
898507 TTTCA
1 TTTCA
898512 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.13, C:0.23, G:0.17, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTATCTCGTTGCGAT
Found at i:898635 original size:20 final size:20
Alignment explanation
Indices: 898591--898698 Score: 97
Period size: 19 Copynumber: 5.8 Consensus size: 20
898581 TGCAGAAGAG
*
898591 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-GAATGAAAA
***
898612 TCGCAACGAGAGAATGACTG
1 TCGCAACGAGAGAATGAAAA
*
898632 TCGCAACGTGA-AATGAAAA
1 TCGCAACGAGAGAATGAAAA
898651 TCGCAAC--GAG-A-G--AA
1 TCGCAACGAGAGAATGAAAA
*
898665 TCGCAACGCGA-AATGAAAA
1 TCGCAACGAGAGAATGAAAA
898684 TCGCAACGAGAGAAT
1 TCGCAACGAGAGAAT
898699 CGCAACGCGA
Statistics
Matches: 70, Mismatches: 9, Indels: 17
0.73 0.09 0.18
Matches are distributed among these distances:
14 9 0.13
16 4 0.06
17 4 0.06
19 24 0.34
20 18 0.26
21 11 0.16
ACGTcount: A:0.44, C:0.19, G:0.24, T:0.13
Consensus pattern (20 bp):
TCGCAACGAGAGAATGAAAA
Found at i:898668 original size:14 final size:14
Alignment explanation
Indices: 898649--898705 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
898639 GTGAAATGAA
898649 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
898663 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
898682 AATCGCAACGAGAG
1 AATCGCAACGAGAG
898696 AATCGCAACG
1 AATCGCAACG
898706 CGAAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:898669 original size:33 final size:33
Alignment explanation
Indices: 898603--898721 Score: 157
Period size: 33 Copynumber: 3.4 Consensus size: 33
898593 GCAACGAGAT
*
898603 AAATGAAAATCGCAACGAGAGAATGACTGTCGCAACGTG
1 AAATGAAAATCGCAACGAGAG-A--A---TCGCAACGCG
898642 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
1 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
898675 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
1 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
**
898708 AAACCAAAATCGCA
1 AAATGAAAATCGCA
898722 TTGCGATTTT
Statistics
Matches: 77, Mismatches: 3, Indels: 6
0.90 0.03 0.07
Matches are distributed among these distances:
33 54 0.70
36 1 0.01
38 1 0.01
39 21 0.27
ACGTcount: A:0.45, C:0.21, G:0.23, T:0.11
Consensus pattern (33 bp):
AAATGAAAATCGCAACGAGAGAATCGCAACGCG
Found at i:898758 original size:14 final size:14
Alignment explanation
Indices: 898739--898842 Score: 100
Period size: 14 Copynumber: 6.7 Consensus size: 14
898729 TTTTATTTCG
898739 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
898753 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
898767 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
898786 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
898800 CGTTGCGATTGTCATTTCA
1 CGTTGCGA-T-TC---TCT
898819 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
898833 CGTTGCGATT
1 CGTTGCGATT
898843 TTCATTTCAA
Statistics
Matches: 76, Mismatches: 4, Indels: 20
0.76 0.04 0.20
Matches are distributed among these distances:
14 44 0.58
15 1 0.01
16 5 0.07
17 5 0.07
18 1 0.01
19 20 0.26
ACGTcount: A:0.10, C:0.25, G:0.22, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:898790 original size:33 final size:33
Alignment explanation
Indices: 898753--898851 Score: 180
Period size: 33 Copynumber: 3.0 Consensus size: 33
898743 GCGATTCTCT
*
898753 CGTTGCGATTCTCTCGTTGCGATTTTCATTTCG
1 CGTTGCGATTCTCTCGTTGCGATTTTCATTTCA
*
898786 CGTTGCGATTCTCTCGTTGCGATTGTCATTTCA
1 CGTTGCGATTCTCTCGTTGCGATTTTCATTTCA
898819 CGTTGCGATTCTCTCGTTGCGATTTTCATTTCA
1 CGTTGCGATTCTCTCGTTGCGATTTTCATTTCA
898852 ACCAAAAGAC
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 63 1.00
ACGTcount: A:0.11, C:0.24, G:0.20, T:0.44
Consensus pattern (33 bp):
CGTTGCGATTCTCTCGTTGCGATTTTCATTTCA
Found at i:898791 original size:19 final size:19
Alignment explanation
Indices: 898767--898851 Score: 64
Period size: 14 Copynumber: 5.0 Consensus size: 19
898757 GCGATTCTCT
*
898767 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCA
*
898786 CGTTGCGA--TTC---TCT
1 CGTTGCGATTTTCATTTCA
*
898800 CGTTGCGATTGTCATTTCA
1 CGTTGCGATTTTCATTTCA
*
898819 CGTTGCGA--TTC---TCT
1 CGTTGCGATTTTCATTTCA
898833 CGTTGCGATTTTCATTTCA
1 CGTTGCGATTTTCATTTCA
898852 ACCAAAAGAC
Statistics
Matches: 50, Mismatches: 6, Indels: 20
0.66 0.08 0.26
Matches are distributed among these distances:
14 20 0.40
16 5 0.10
17 5 0.10
19 20 0.40
ACGTcount: A:0.12, C:0.24, G:0.20, T:0.45
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCA
Found at i:900707 original size:93 final size:93
Alignment explanation
Indices: 900548--901016 Score: 904
Period size: 93 Copynumber: 5.1 Consensus size: 93
900538 TAGATTGCTT
*
900548 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
900613 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
900641 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
900706 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
900734 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
900799 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
900827 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATGGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
900892 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
900920 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTTTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
900985 TTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
901012 AGTAA
1 AGTAA
901017 TGCAATCCAT
Statistics
Matches: 372, Mismatches: 4, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
92 6 0.02
93 366 0.98
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:901104 original size:19 final size:19
Alignment explanation
Indices: 901064--901192 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
901054 TAGTTTACTT
* *
901064 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
901084 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
901103 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
901122 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
901136 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
901155 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
901169 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
901188 TCGCA
1 TCGCA
901193 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:901143 original size:33 final size:32
Alignment explanation
Indices: 901100--901192 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
901090 CGCGAAACCA
**
901100 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
901132 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
901165 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
901193 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:901190 original size:52 final size:52
Alignment explanation
Indices: 901064--901192 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
901054 TAGTTTACTT
**
901064 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
901116 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
901169 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
901193 TTGCGATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:901210 original size:19 final size:19
Alignment explanation
Indices: 901188--901322 Score: 119
Period size: 19 Copynumber: 7.6 Consensus size: 19
901178 GAAACCAAAA
*
901188 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
901207 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
901223 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
901240 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
901256 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* **
901273 TCGCGTTGCAATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
901292 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
901312 TCGTGTTGCGA
1 TCGCGTTGCGA
901323 AAGTAAACTA
Statistics
Matches: 93, Mismatches: 12, Indels: 21
0.74 0.10 0.17
Matches are distributed among these distances:
14 15 0.16
16 11 0.12
17 11 0.12
19 44 0.47
20 12 0.13
ACGTcount: A:0.12, C:0.19, G:0.23, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:901229 original size:14 final size:14
Alignment explanation
Indices: 901210--901266 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
901200 TTTCATTTCG
901210 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
901224 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
901241 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
901257 CGTTGCGATT
1 CGTTGCGATT
901267 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:901235 original size:33 final size:33
Alignment explanation
Indices: 901193--901281 Score: 160
Period size: 33 Copynumber: 2.7 Consensus size: 33
901183 CAAAATCGCA
*
901193 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
901226 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
901259 TTGCGATTTTCATTTCGCGTTGC
1 TTGCGATTTTCATTTCGCGTTGC
901282 AATTTTGGTT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 53 1.00
ACGTcount: A:0.10, C:0.21, G:0.21, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:903263 original size:14 final size:14
Alignment explanation
Indices: 903244--903279 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
903234 ATTGTTTAAT
903244 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
903258 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
903272 TGATTTGT
1 TGATTTGT
903280 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:903401 original size:19 final size:20
Alignment explanation
Indices: 903385--903434 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
903375 CAAAATGACT
903385 ATCGCAATGCG-AAATGAAA
1 ATCGCAATGCGAAAATGAAA
903404 ATCGCAATGCGAAAATGAAA
1 ATCGCAATGCGAAAATGAAA
903424 ATCGCAATGCG
1 ATCGCAATGCG
903435 TTTATAATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 11 0.37
20 19 0.63
ACGTcount: A:0.44, C:0.18, G:0.22, T:0.16
Consensus pattern (20 bp):
ATCGCAATGCGAAAATGAAA
Found at i:903487 original size:19 final size:19
Alignment explanation
Indices: 903463--903840 Score: 474
Period size: 19 Copynumber: 21.4 Consensus size: 19
903453 GATTCTCTCG
903463 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
903482 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
903501 TTGCGA--TTC-TGTCG--
1 TTGCGATTTTCATTTCGCA
903515 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
903534 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
903553 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
903572 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
903591 TTGCGA--TTC-TGTCG--
1 TTGCGATTTTCATTTCGCA
903605 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
903624 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
903643 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
903662 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
903681 TTGCGA--TTC-TGT--CA
1 TTGCGATTTTCATTTCGCA
903695 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
903714 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
903733 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
903747 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
903766 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
903780 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
903800 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
* *
903814 TTGGGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
903833 TTGCGATT
1 TTGCGATT
903841 GTAATTTCCG
Statistics
Matches: 316, Mismatches: 12, Indels: 62
0.81 0.03 0.16
Matches are distributed among these distances:
14 43 0.14
16 35 0.11
17 32 0.10
18 3 0.01
19 191 0.60
20 12 0.04
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:903498 original size:52 final size:52
Alignment explanation
Indices: 903441--903812 Score: 395
Period size: 52 Copynumber: 7.0 Consensus size: 52
903431 TGCGTTTATA
903441 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
903493 ATTTCGCATTGCGATTCTGTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
903545 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTGTC
1 ATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCGCATTGCGATT-T-TC
* * * * *
903604 GTTGCG-ATTTTC-ATT-TCGCATTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCA-TTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
* * *
903654 ATTTCGCATTGCGATT-T-TCATTTCGCA-TTGCGA-TTCTGTCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCG-ATTTTC-ATTTC-G-CATTGCGATTTTC
* * * * *
903706 ATTTCGCATTGCGATT-T-TCATTTCGCA-TTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCG-ATTTTC-ATT-TCGCATTGCGATTTTC
903758 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTC
903811 AT
1 AT
903813 GTTGGGATTT
Statistics
Matches: 279, Mismatches: 21, Indels: 39
0.82 0.06 0.12
Matches are distributed among these distances:
50 21 0.08
51 9 0.03
52 167 0.60
53 21 0.08
54 16 0.06
55 4 0.01
56 2 0.01
57 27 0.10
58 3 0.01
59 9 0.03
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.46
Consensus pattern (52 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
Found at i:903572 original size:90 final size:90
Alignment explanation
Indices: 903441--903840 Score: 632
Period size: 90 Copynumber: 4.6 Consensus size: 90
903431 TGCGTTTATA
*
903441 ATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCA
1 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCA
903501 TTGCGATTCTGTCGTTGCGATTTTC
66 TTGCGATTCTGTCGTTGCGATTTTC
903526 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCA
1 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCA
903591 TTGCGATTCTGTCGTTGCGATTTTC
66 TTGCGATTCTGTCGTTGCGATTTTC
903616 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCA
1 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCA
*
903681 TTGCGATTCTGTCATTGCGATTTTC
66 TTGCGATTCTGTCGTTGCGATTTTC
*
903706 ATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCGCA
1 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCA
*
903766 TTGCGATTCTCTCGTTGCGATTTTC
66 TTGCGATTCTGTCGTTGCGATTTTC
* *
903791 ATTTCCGCATTGCGATTTTCA--T-G--TTGGGATTTTCATTTCGCGTTGCGATT
1 ATTT-CGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATT
903841 GTAATTTCCG
Statistics
Matches: 297, Mismatches: 7, Indels: 21
0.91 0.02 0.06
Matches are distributed among these distances:
81 5 0.02
83 4 0.01
84 5 0.02
85 60 0.20
86 24 0.08
87 7 0.02
88 7 0.02
90 185 0.62
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.46
Consensus pattern (90 bp):
ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCA
TTGCGATTCTGTCGTTGCGATTTTC
Found at i:903752 original size:14 final size:14
Alignment explanation
Indices: 903733--903787 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
903723 TCATTTCGCA
903733 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
*
903747 TTGCGATTTTCATTTCG
1 TTGCGA--TTC-TCTCG
903764 CATTGCGATTCTCTCG
1 --TTGCGATTCTCTCG
903780 TTGCGATT
1 TTGCGATT
903788 TTCATTTCCG
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 14 0.41
16 7 0.21
17 7 0.21
19 6 0.18
ACGTcount: A:0.11, C:0.24, G:0.20, T:0.45
Consensus pattern (14 bp):
TTGCGATTCTCTCG
Found at i:906140 original size:12 final size:12
Alignment explanation
Indices: 906123--906147 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
906113 TCTTCGGGGA
906123 CTTTTTCTTCTT
1 CTTTTTCTTCTT
906135 CTTTTTCTTCTT
1 CTTTTTCTTCTT
906147 C
1 C
906148 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:906355 original size:24 final size:24
Alignment explanation
Indices: 906321--906367 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
906311 CTGAAACATC
906321 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
906345 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
906368 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:907078 original size:20 final size:20
Alignment explanation
Indices: 907050--907259 Score: 215
Period size: 20 Copynumber: 10.5 Consensus size: 20
907040 AAATTTCAGT
* * *
907050 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
907070 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
907090 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
907110 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
*
907130 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* **
907150 GTTGCGATATACGGAAACGC
1 GTTGCGATTTACGGATTCGC
* *
907170 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATTCGC
*
907190 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
907210 ATTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
907230 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
907250 GTTGCGATTT
1 GTTGCGATTT
907260 TGGAAAATCG
Statistics
Matches: 164, Mismatches: 24, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
20 163 0.99
21 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:907276 original size:21 final size:20
Alignment explanation
Indices: 907226--907323 Score: 79
Period size: 20 Copynumber: 4.8 Consensus size: 20
907216 ATTTATGTGT
* * * *
907226 TCGCGTTGCGATTTTCATAT
1 TCGCATTGCGATTTTGAAAA
*
907246 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTT-GAAAA
* * **
907267 TCGCAATGCGAATTTGACTA
1 TCGCATTGCGATTTTGAAAA
*
907287 TCGCATTGCGATTTTCAAGAA
1 TCGCATTGCGATTTTGAA-AA
*
907308 TCGCGTTGCGATTTTG
1 TCGCATTGCGATTTTG
907324 GACACTGATT
Statistics
Matches: 61, Mismatches: 15, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
20 32 0.52
21 29 0.48
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (20 bp):
TCGCATTGCGATTTTGAAAA
Found at i:907318 original size:41 final size:41
Alignment explanation
Indices: 907226--907382 Score: 110
Period size: 41 Copynumber: 3.9 Consensus size: 41
907216 ATTTATGTGT
* * *
907226 TCGCGTTGCGATTTTCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGATTTTGATATTCGCATTGCGATTTTGCAAAA
** *
907267 TCGCAATGCGAATTTGACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGATTTTGA-TATTCGCATTGCGATTTTGCAA-AA
* * * ***
907308 TCGCGTTGCGATTTTGGACACT-G-ATTTGCGATTCTG-GGGA
1 TCGCGTTGCGATTTT-GATATTCGCA-TTGCGATTTTGCAAAA
* *
907348 TCGCGTTGCGATTTTTAT-TTCGCGTTGCGATTTTG
1 TCGCGTTGCGATTTTGATATTCGCATTGCGATTTTG
907383 TTGGTCATTT
Statistics
Matches: 89, Mismatches: 19, Indels: 18
0.71 0.15 0.14
Matches are distributed among these distances:
38 1 0.01
39 12 0.13
40 19 0.21
41 52 0.58
42 5 0.06
ACGTcount: A:0.18, C:0.18, G:0.25, T:0.38
Consensus pattern (41 bp):
TCGCGTTGCGATTTTGATATTCGCATTGCGATTTTGCAAAA
Found at i:908266 original size:2 final size:2
Alignment explanation
Indices: 908259--908292 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
908249 CTAAGAAATC
908259 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
908293 TACTTTGTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:909077 original size:26 final size:26
Alignment explanation
Indices: 909057--909139 Score: 104
Period size: 26 Copynumber: 3.4 Consensus size: 26
909047 AAAATTTTAT
*
909057 AAATTTTAAAGATAGATAAATGTATA
1 AAATTTTAAAGATAGACAAATGTATA
* *
909083 AAA---T--CGATAGACAAATTTATA
1 AAATTTTAAAGATAGACAAATGTATA
909104 AAATTTTAAAGATAGACAAATGTATA
1 AAATTTTAAAGATAGACAAATGTATA
909130 AAATTTTAAA
1 AAATTTTAAA
909140 CAATCAAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
21 17 0.36
23 1 0.02
24 1 0.02
26 28 0.60
ACGTcount: A:0.54, C:0.04, G:0.10, T:0.33
Consensus pattern (26 bp):
AAATTTTAAAGATAGACAAATGTATA
Found at i:909091 original size:21 final size:21
Alignment explanation
Indices: 909067--909107 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
909057 AAATTTTAAA
*
909067 GATAGATAAATGTATAAAATC
1 GATAGACAAATGTATAAAATC
*
909088 GATAGACAAATTTATAAAAT
1 GATAGACAAATGTATAAAAT
909108 TTTAAAGATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.54, C:0.05, G:0.12, T:0.29
Consensus pattern (21 bp):
GATAGACAAATGTATAAAATC
Found at i:913658 original size:42 final size:42
Alignment explanation
Indices: 913562--913658 Score: 101
Period size: 42 Copynumber: 2.4 Consensus size: 42
913552 GAAAGCCAAA
* * *
913562 TTCGCAACAC-AA-TTTTCGAATTCGCAACAAGAATTTACAT
1 TTCGCAACTCGAATTTTTCAAATTCGCAACAAGAATTCACAT
* ** *
913602 TTCGCAA-TATGAATTTTTCAAATTCGCAACTCGAATTCAGAT
1 TTCGCAACT-CGAATTTTTCAAATTCGCAACAAGAATTCACAT
913644 TTCGCAACTCGAATT
1 TTCGCAACTCGAATT
913659 CGCCAATTTC
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
40 7 0.16
41 2 0.04
42 35 0.78
43 1 0.02
ACGTcount: A:0.34, C:0.22, G:0.11, T:0.33
Consensus pattern (42 bp):
TTCGCAACTCGAATTTTTCAAATTCGCAACAAGAATTCACAT
Found at i:913946 original size:20 final size:20
Alignment explanation
Indices: 913896--913948 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
913886 GTAAACGTGG
913896 TAAAATTGAGTTGCGAAATC
1 TAAAATTGAGTTGCGAAATC
* ** *
913916 T-GAATTCGAGTTGCGAGTTT
1 TAAAATT-GAGTTGCGAAATC
913936 TAAAATTGAGTTG
1 TAAAATTGAGTTG
913949 TGAATTTAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
19 4 0.15
20 18 0.69
21 4 0.15
ACGTcount: A:0.32, C:0.08, G:0.25, T:0.36
Consensus pattern (20 bp):
TAAAATTGAGTTGCGAAATC
Found at i:914077 original size:22 final size:22
Alignment explanation
Indices: 914042--914096 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
914032 CGGTAAATTT
*
914042 AGTTGCGTAA-TTGGCGAATTCG
1 AGTTGCG-AATTTGGCAAATTCG
* *
914064 AGTTGCGAATTTGGTAAATTCT
1 AGTTGCGAATTTGGCAAATTCG
*
914086 TGTTGCGAATT
1 AGTTGCGAATT
914097 CAAAAAATGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 2 0.07
22 26 0.93
ACGTcount: A:0.24, C:0.11, G:0.27, T:0.38
Consensus pattern (22 bp):
AGTTGCGAATTTGGCAAATTCG
Found at i:914140 original size:140 final size:139
Alignment explanation
Indices: 913863--914141 Score: 309
Period size: 140 Copynumber: 2.0 Consensus size: 139
913853 CATTATTTTG
*
913863 ACCGGTTATAATTACCTATATAGGTAAACGTGGTAAAATTGAGTTGCGAAATCTGAATTCGAGTT
1 ACCGGTTATAATTACCTATATAGGTAAACGCGGTAAAATTGAGTTGCGAAATCTGAATTCGAGTT
* * * * * *
913928 GCGAGTTTTAAAATTGAGTTGTGAATTTAATAAATTTGTGTTGCGAAATGTAAATTCTTGTTGTG
66 GCGAATTTTAAAATTGAGTTGCGAATTCAATAAATATGTGTTGCGAAATGTAAATTCGTGTTGCG
913993 AATTCGAAA
131 AATTCGAAA
* *
914002 ACCGGTTATAATTACCTATATAGGTAAACGCGGT-AAATTTAGTTGCGTAAT-TGGCGAATTCGA
1 ACCGGTTATAATTACCTATATAGGTAAACGCGGTAAAATTGAGTTGCGAAATCT---GAATTCGA
** * * ***
914065 GTTGCGAATTTGGT-AAATTCTTGTTGCGAATTCAA-AAA-ATGTGTTG-TAAATTTGGCTTTCG
63 GTTGCGAATTT--TAAAATT-GAGTTGCGAATTCAATAAATATGTGTTGCGAAATGT-AAATTCG
914126 TGTTGCGAATTCGAAA
124 TGTTGCGAATTCGAAA
914142 TTGAGTTGCG
Statistics
Matches: 117, Mismatches: 16, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
137 1 0.01
138 15 0.13
139 38 0.32
140 43 0.37
141 8 0.07
142 12 0.10
ACGTcount: A:0.31, C:0.10, G:0.22, T:0.36
Consensus pattern (139 bp):
ACCGGTTATAATTACCTATATAGGTAAACGCGGTAAAATTGAGTTGCGAAATCTGAATTCGAGTT
GCGAATTTTAAAATTGAGTTGCGAATTCAATAAATATGTGTTGCGAAATGTAAATTCGTGTTGCG
AATTCGAAA
Found at i:923370 original size:45 final size:45
Alignment explanation
Indices: 923318--923423 Score: 135
Period size: 45 Copynumber: 2.4 Consensus size: 45
923308 GATGCATTGG
** *
923318 TAGTGCATCGATGCA-CTCTTTTAA-AATAAATACATCGAATGCAAT
1 TAGTGCATCGATGCATC-CCATTAATAAGAAA-ACATCGAATGCAAT
* *
923363 TCGTGCATCGATGCATCCCATTAATAAGGAAACATCGAATGCAAT
1 TAGTGCATCGATGCATCCCATTAATAAGAAAACATCGAATGCAAT
923408 TAGTGCATCGATGCAT
1 TAGTGCATCGATGCAT
923424 AAGGCATGCA
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
45 48 0.91
46 5 0.09
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (45 bp):
TAGTGCATCGATGCATCCCATTAATAAGAAAACATCGAATGCAAT
Found at i:923485 original size:64 final size:64
Alignment explanation
Indices: 923365--923506 Score: 173
Period size: 64 Copynumber: 2.2 Consensus size: 64
923355 AATGCAATTC
* **
923365 GTGCATCGATGCATCCCATTAATAAGGAAACATCGAATGCAATTAGTGCATCGATGCATAAGGCA
1 GTGCATCGATGCATCCCAGTAATAAACAAACATCGAATGCAATTAGTGCATCGATGCATAA-GCA
* * * *
923430 -TGCATCGATGCATCCCAGTAATAAACAAATATCGAATGCATTTTA-TGCA-CTGATGCATCAGT
1 GTGCATCGATGCATCCCAGTAATAAACAAACATCGAATGCA-ATTAGTGCATC-GATGCATAAGC
923492 A
64 A
923493 GTGCATCGATGCAT
1 GTGCATCGATGCAT
923507 ACCTTCATTA
Statistics
Matches: 67, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
63 3 0.04
64 61 0.91
65 3 0.04
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (64 bp):
GTGCATCGATGCATCCCAGTAATAAACAAACATCGAATGCAATTAGTGCATCGATGCATAAGCA
Found at i:924537 original size:29 final size:30
Alignment explanation
Indices: 924455--924543 Score: 144
Period size: 30 Copynumber: 3.0 Consensus size: 30
924445 TATAGACAGT
*
924455 TTACCGAGGATCTTTATGACCTCTGGACAG
1 TTACCGAGGATCTTTATGACCTCTGGATAG
924485 TTACCGAGGATCTTTATGACCTCTGGATAG
1 TTACCGAGGATCTTTATGACCTCTGGATAG
* *
924515 TTACCG-GGGTCTTTGTGACCTCTGGATAG
1 TTACCGAGGATCTTTATGACCTCTGGATAG
924544 GTTCTTCGGG
Statistics
Matches: 56, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
29 21 0.38
30 35 0.62
ACGTcount: A:0.20, C:0.21, G:0.26, T:0.33
Consensus pattern (30 bp):
TTACCGAGGATCTTTATGACCTCTGGATAG
Found at i:927831 original size:45 final size:45
Alignment explanation
Indices: 927779--927884 Score: 135
Period size: 45 Copynumber: 2.4 Consensus size: 45
927769 GATGCATTGG
** *
927779 TAGTGCATCGATGCA-CTCTTTTAA-AATAAATACATCGAATGCAAT
1 TAGTGCATCGATGCATC-CCATTAATAAGAAA-ACATCGAATGCAAT
* *
927824 TCGTGCATCGATGCATCCCATTAATAAGGAAACATCGAATGCAAT
1 TAGTGCATCGATGCATCCCATTAATAAGAAAACATCGAATGCAAT
927869 TAGTGCATCGATGCAT
1 TAGTGCATCGATGCAT
927885 AAGGCATGCA
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
45 48 0.91
46 5 0.09
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (45 bp):
TAGTGCATCGATGCATCCCATTAATAAGAAAACATCGAATGCAAT
Found at i:927946 original size:64 final size:64
Alignment explanation
Indices: 927826--927967 Score: 173
Period size: 64 Copynumber: 2.2 Consensus size: 64
927816 AATGCAATTC
* **
927826 GTGCATCGATGCATCCCATTAATAAGGAAACATCGAATGCAATTAGTGCATCGATGCATAAGGCA
1 GTGCATCGATGCATCCCAGTAATAAACAAACATCGAATGCAATTAGTGCATCGATGCATAA-GCA
* * * *
927891 -TGCATCGATGCATCCCAGTAATAAACAAATATCGAATGCATTTTA-TGCA-CTGATGCATCAGT
1 GTGCATCGATGCATCCCAGTAATAAACAAACATCGAATGCA-ATTAGTGCATC-GATGCATAAGC
927953 A
64 A
927954 GTGCATCGATGCAT
1 GTGCATCGATGCAT
927968 ACCTTCATTA
Statistics
Matches: 67, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
63 3 0.04
64 61 0.91
65 3 0.04
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (64 bp):
GTGCATCGATGCATCCCAGTAATAAACAAACATCGAATGCAATTAGTGCATCGATGCATAAGCA
Found at i:928591 original size:2 final size:2
Alignment explanation
Indices: 928584--928668 Score: 170
Period size: 2 Copynumber: 42.5 Consensus size: 2
928574 GAAAGTGAAC
928584 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
928626 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
928668 T
1 T
928669 GAGTATGAGA
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 83 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:928986 original size:30 final size:30
Alignment explanation
Indices: 928942--929035 Score: 136
Period size: 30 Copynumber: 3.1 Consensus size: 30
928932 AAGGAACATA
928942 TGGACAGTTTACCGAGGATCTTTATGACCTC
1 TGGACAG-TTACCGAGGATCTTTATGACCTC
* *
928973 TGGACAGTTACCGAAGATCTTTATGATCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
* *
929003 TGGATAGTTACCGAGG-TCTTTGTGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
929032 TGGA
1 TGGA
929036 TAGGTCTTTC
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
29 15 0.26
30 35 0.61
31 7 0.12
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.33
Consensus pattern (30 bp):
TGGACAGTTACCGAGGATCTTTATGACCTC
Found at i:932556 original size:2 final size:2
Alignment explanation
Indices: 932549--932579 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
932539 AGCGAAAATG
932549 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
932580 GTTTAACCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:937256 original size:201 final size:201
Alignment explanation
Indices: 936895--937313 Score: 702
Period size: 201 Copynumber: 2.1 Consensus size: 201
936885 AGCTCTCCTG
* *
936895 CAAT-GTTGCA-AAATACAACATGGGCTAGAATTGGATAGTATATTTAGAAAGGCATAAATATCA
1 CAATAGTTGCAGAAGTACAACATGGGCTAAAATTGGATAGTATATTTAGAAAGGCATAAATATCA
936958 ACCTTACGATTCTTTTCTAATTCCACATATTCTGCCTCTGCCTCCTTAATTTGAGGAAGAACCTT
66 ACCTTACGATTCTTTTCTAATTCCACATATTCTGCCTCTGCCTCCTTAATTTGAGGAAGAACCTT
937023 TTCTTTCATAACATTTTCATACTGGACCCTATTCTG-AACAAAAACTTCAATTTCTGAATTCAAG
131 TTCTTTCATAACATTTTCATACTGGACCCTATTCTGAAACAAAAACTTCAATTTCTGAATTCAAG
*
937087 TTCTATA
196 TT-TACA
* *
937094 CAATAGTTGCAGAAGTATAACATGGGCTAAAATTGGTTAGTATATCTT-GAAAGGCATAAATATC
1 CAATAGTTGCAGAAGTACAACATGGGCTAAAATTGGATAGTATAT-TTAGAAAGGCATAAATATC
*
937158 AACCTTACGATTCTTTTCTAGTTCCACATATTCTGCCTCTGCCTCCTTAATTTGAGGAAGAACCT
65 AACCTTACGATTCTTTTCTAATTCCACATATTCTGCCTCTGCCTCCTTAATTTGAGGAAGAACCT
*
937223 TTTCTTTCATAACATTTTCGTACTGGACCCTATTCTGAAACAAAAACTTCAATTTCTGAATTCAA
130 TTTCTTTCATAACATTTTCATACTGGACCCTATTCTGAAACAAAAACTTCAATTTCTGAATTCAA
*
937288 GTTTCCA
195 GTTTACA
937295 CAAGATAGTTGCAGAAGTA
1 C-A-ATAGTTGCAGAAGTA
937314 AATGAATAAG
Statistics
Matches: 206, Mismatches: 8, Indels: 8
0.93 0.04 0.04
Matches are distributed among these distances:
199 4 0.02
200 6 0.03
201 148 0.72
202 33 0.16
203 15 0.07
ACGTcount: A:0.32, C:0.20, G:0.13, T:0.35
Consensus pattern (201 bp):
CAATAGTTGCAGAAGTACAACATGGGCTAAAATTGGATAGTATATTTAGAAAGGCATAAATATCA
ACCTTACGATTCTTTTCTAATTCCACATATTCTGCCTCTGCCTCCTTAATTTGAGGAAGAACCTT
TTCTTTCATAACATTTTCATACTGGACCCTATTCTGAAACAAAAACTTCAATTTCTGAATTCAAG
TTTACA
Found at i:940047 original size:13 final size:13
Alignment explanation
Indices: 940029--940054 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
940019 TTTACCAGAC
940029 TAGTTAACAAAAG
1 TAGTTAACAAAAG
940042 TAGTTAACAAAAG
1 TAGTTAACAAAAG
940055 ATGAAAAGAT
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:0.54, C:0.08, G:0.15, T:0.23
Consensus pattern (13 bp):
TAGTTAACAAAAG
Found at i:940354 original size:16 final size:15
Alignment explanation
Indices: 940329--940370 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 15
940319 GTCATATCAT
940329 AAAGATAAAAGGGGCA
1 AAAGATAAAAGGGG-A
940345 GAAA-ATAAAAGGGGA
1 -AAAGATAAAAGGGGA
940360 AAAGATAAAAG
1 AAAGATAAAAG
940371 AAAACAACCA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 3 0.12
15 8 0.33
16 10 0.42
17 3 0.12
ACGTcount: A:0.62, C:0.02, G:0.29, T:0.07
Consensus pattern (15 bp):
AAAGATAAAAGGGGA
Found at i:940619 original size:294 final size:293
Alignment explanation
Indices: 940087--940627 Score: 820
Period size: 294 Copynumber: 1.8 Consensus size: 293
940077 AGAATATGCA
* * *
940087 AATTCAACCAAAGTGTACAGGATGATTTTTTGGGTAACTACATCTTGGAGGAAAATATTACACAT
1 AATTCAACCAAAGTGTACAGGATAATTTTTTGGCTAACTACATCCTGGAGGAAAATATTACACAT
* *** * *
940152 AACATAACTGCTCAGTCCACGAGTTATTGCTATGAGCAATGGCATTTGCCTTAATCCCAAGGGAT
66 AACATAACTGCTCAGTCCACAAGTTACCCCTATGAGCAATAGCATTTACCTTAATCCCAAGGGAT
*
940217 GTGATGCTAATGACTAAAACCCCAAGTCCCCAACCAAAAAACGAAACAAAATCACCCACAATGAA
131 GTGATGCTAATAACTAAAACCCCAAGTCCCCAACCAAAAAACGAAACAAAATCACCCACAATGAA
* *
940282 AACGTCAAACTCATCCATAGCTCGAAATGGGGCTTCGGTCATATCATAAAGATAAAAGGGGCAGA
196 AACGTCAAACTCACCCATAGCTCGAAATGGGGCTTCAGTCATATCATAAAGATAAAAGGGGCAGA
940347 AAATAAAAGGGGAAAAGATAAAAGAAAACAACC
261 AAATAAAAGGGGAAAAGATAAAAGAAAACAACC
* * * *
940380 AATTCAACTAAGGTGTTCAGGCTAATTTTTTGGCTAAC-AGCATCCTGGAGGAAAATATTACACA
1 AATTCAACCAAAGTGTACAGGATAATTTTTTGGCTAACTA-CATCCTGGAGGAAAATATTACACA
* *
940444 TATCATAACTGCTCAGTCCACAAG-T-CCCCTTTGACGGACAATAGCATTTACCTTAATCCCAAG
65 TAACATAACTGCTCAGTCCACAAGTTACCCCTATGA--G-CAATAGCATTTACCTTAATCCCAAG
*
940507 GGATGTGATGCTAATAACTACAACCCCAAGTCCCCAACCCAAAAAA-GAAACAAAATCACCCACA
127 GGATGTGATGCTAATAACTAAAACCCCAAGTCCCCAA-CCAAAAAACGAAACAAAATCACCCACA
* *
940571 ATGAAAACGTCAAACTCACCCATAGCTCGAAATGTGGCTTCAGTCATATCATGAAGA
191 ATGAAAACGTCAAACTCACCCATAGCTCGAAATGGGGCTTCAGTCATATCATAAAGA
940628 GCCAACACAA
Statistics
Matches: 222, Mismatches: 21, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
291 5 0.02
292 2 0.01
293 78 0.35
294 129 0.58
295 8 0.04
ACGTcount: A:0.39, C:0.23, G:0.17, T:0.22
Consensus pattern (293 bp):
AATTCAACCAAAGTGTACAGGATAATTTTTTGGCTAACTACATCCTGGAGGAAAATATTACACAT
AACATAACTGCTCAGTCCACAAGTTACCCCTATGAGCAATAGCATTTACCTTAATCCCAAGGGAT
GTGATGCTAATAACTAAAACCCCAAGTCCCCAACCAAAAAACGAAACAAAATCACCCACAATGAA
AACGTCAAACTCACCCATAGCTCGAAATGGGGCTTCAGTCATATCATAAAGATAAAAGGGGCAGA
AAATAAAAGGGGAAAAGATAAAAGAAAACAACC
Found at i:947484 original size:11 final size:10
Alignment explanation
Indices: 947460--947495 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
947450 ACAACATTAA
947460 AAAAAGCCTT
1 AAAAAGCCTT
947470 AAAAAGCCTT
1 AAAAAGCCTT
*
947480 GAAAAAGCTTT
1 -AAAAAGCCTT
947491 AAAAA
1 AAAAA
947496 AACCTTCTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 15 0.62
11 9 0.38
ACGTcount: A:0.56, C:0.14, G:0.11, T:0.19
Consensus pattern (10 bp):
AAAAAGCCTT
Found at i:947496 original size:11 final size:11
Alignment explanation
Indices: 947459--947501 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
947449 AACAACATTA
947459 AAAAAAGCCTT
1 AAAAAAGCCTT
947470 -AAAAAGCCTT
1 AAAAAAGCCTT
* *
947480 GAAAAAGCTTT
1 AAAAAAGCCTT
*
947491 AAAAAAACCTT
1 AAAAAAGCCTT
947502 CTAGCAACCT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
10 10 0.37
11 17 0.63
ACGTcount: A:0.53, C:0.16, G:0.09, T:0.21
Consensus pattern (11 bp):
AAAAAAGCCTT
Found at i:949450 original size:195 final size:195
Alignment explanation
Indices: 949112--949499 Score: 688
Period size: 195 Copynumber: 2.0 Consensus size: 195
949102 GACAATAATG
*
949112 AACATACCAAGTAACTTTTTAAGAAAGGATGAGACATGAAACAACATATGAAATTAGTTATCGAC
1 AACATACCAAGTAACTTTTTAAGAAAGGATGAGACATGAAACAACATATGAAATTAGTTATCAAC
* * *
949177 TTACATTTTAAATCCATCTAAGGTGAAAACCTCCAACACGTTCTGTATTCTTTAATCAAACGCAA
66 TTACATTTTAAATCCATCTAAGGTGAAAACCTCCAACACATTATGTATTCTTCAATCAAACGCAA
*
949242 CAGCCCTTCCCCTGTTGTAATCTTCGACAAGAACTTGCCTCTCAGCTCTGACCTGAGAATACATA
131 CAGCCCATCCCCTGTTGTAATCTTCGACAAGAACTTGCCTCTCAGCTCTGACCTGAGAATACATA
949307 AACATACCAAGTAACTTTTTTAA-AAAGGATGAGACATGAAACAACATATGAAATTAGTTATCAA
1 AACATACCAAGTAAC-TTTTTAAGAAAGGATGAGACATGAAACAACATATGAAATTAGTTATCAA
* *
949371 CTTACATTTTAAATCCATCTAAGGTGAAAACCTCCAACACATTATGTATTCTTCGATCAAATGCA
65 CTTACATTTTAAATCCATCTAAGGTGAAAACCTCCAACACATTATGTATTCTTCAATCAAACGCA
*
949436 ACAGCCCATCCCCTGTTGTAATCTTTGACAAGAACTTGCCTCTCAGCTCTGACCTGAGAATACA
130 ACAGCCCATCCCCTGTTGTAATCTTCGACAAGAACTTGCCTCTCAGCTCTGACCTGAGAATACA
949500 AAAAATGTTA
Statistics
Matches: 184, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
195 177 0.96
196 7 0.04
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.28
Consensus pattern (195 bp):
AACATACCAAGTAACTTTTTAAGAAAGGATGAGACATGAAACAACATATGAAATTAGTTATCAAC
TTACATTTTAAATCCATCTAAGGTGAAAACCTCCAACACATTATGTATTCTTCAATCAAACGCAA
CAGCCCATCCCCTGTTGTAATCTTCGACAAGAACTTGCCTCTCAGCTCTGACCTGAGAATACATA
Found at i:954991 original size:31 final size:31
Alignment explanation
Indices: 954953--955108 Score: 242
Period size: 31 Copynumber: 5.0 Consensus size: 31
954943 CCCGAAGGAC
* *
954953 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TTCCGAAGAACATAGGTAAA
* *
954984 CAGTCCATATGTCCCGAAGGACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
*
955015 CAGTCCATATGTTCCGAAGAACACAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
*
955046 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
955077 CAGTCCATATGTTCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
955108 C
1 C
955109 CCTCGACCCT
Statistics
Matches: 114, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
31 113 0.99
32 1 0.01
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.21
Consensus pattern (31 bp):
CAGTCCATATGTTCCGAAGAACATAGGTAAA
Found at i:955312 original size:23 final size:24
Alignment explanation
Indices: 955286--955332 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
955276 ATATACTTGT
*
955286 TTTCACATATATA-TTTCATATCA
1 TTTCACATATACACTTTCATATCA
955309 TTTCACATATACACTTTCATATCA
1 TTTCACATATACACTTTCATATCA
955333 CAGGCCATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.34, C:0.21, G:0.00, T:0.45
Consensus pattern (24 bp):
TTTCACATATACACTTTCATATCA
Found at i:955873 original size:21 final size:21
Alignment explanation
Indices: 955843--955886 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
955833 ATTCTGTCGT
* *
955843 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
955864 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
955885 TT
1 TT
955887 ACCCAGAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.16, C:0.25, G:0.27, T:0.32
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:958903 original size:31 final size:31
Alignment explanation
Indices: 958865--959020 Score: 242
Period size: 31 Copynumber: 5.0 Consensus size: 31
958855 CCCGAAGGAC
* *
958865 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TTCCGAAGAACATAGGTAAA
* *
958896 CAGTCCATATGTCCCGAAGGACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
*
958927 CAGTCCATATGTTCCGAAGAACACAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
*
958958 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
958989 CAGTCCATATGTTCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
959020 C
1 C
959021 CCTCGACCCT
Statistics
Matches: 114, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
31 113 0.99
32 1 0.01
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.21
Consensus pattern (31 bp):
CAGTCCATATGTTCCGAAGAACATAGGTAAA
Found at i:959223 original size:23 final size:24
Alignment explanation
Indices: 959197--959243 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
959187 ATATACTTGT
*
959197 TTTCACATATATA-TTTCATATCA
1 TTTCACATATACACTTTCATATCA
959220 TTTCACATATACACTTTCATATCA
1 TTTCACATATACACTTTCATATCA
959244 CAGGCCATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.34, C:0.21, G:0.00, T:0.45
Consensus pattern (24 bp):
TTTCACATATACACTTTCATATCA
Found at i:959785 original size:21 final size:21
Alignment explanation
Indices: 959755--959798 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
959745 ATTCTGTCGT
* *
959755 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
959776 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
959797 TT
1 TT
959799 ACCCAGAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.16, C:0.25, G:0.27, T:0.32
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:960636 original size:17 final size:17
Alignment explanation
Indices: 960611--960649 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
960601 GACCCACATA
*
960611 AAAATCTCAGAAAATGT
1 AAAACCTCAGAAAATGT
960628 AAAACCTCAGAAAATGT
1 AAAACCTCAGAAAATGT
960645 AAAAC
1 AAAAC
960650 TTTTATTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.56, C:0.15, G:0.10, T:0.18
Consensus pattern (17 bp):
AAAACCTCAGAAAATGT
Found at i:961292 original size:39 final size:39
Alignment explanation
Indices: 961249--961369 Score: 127
Period size: 39 Copynumber: 3.1 Consensus size: 39
961239 TGTACACCCG
* * * * *
961249 GTAAGGGCTTACCCTGTACACAAAGCAGAGGAGCATGCA
1 GTAAGGTCTTATCATGTGCACAAAGCAGAAGAGCATGCA
* * * **
961288 GTAAGGTCTTATCTTGTGCATAAAG-AAAATGAGCATGTG
1 GTAAGGTCTTATCATGTGCACAAAGCAGAA-GAGCATGCA
*
961327 GTAAGGTCTTATCATGTGCACAAAGCAGAAGAGCCTGCA
1 GTAAGGTCTTATCATGTGCACAAAGCAGAAGAGCATGCA
961366 GTAA
1 GTAA
961370 CGGTAAGGAC
Statistics
Matches: 65, Mismatches: 15, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
38 2 0.03
39 60 0.92
40 3 0.05
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.22
Consensus pattern (39 bp):
GTAAGGTCTTATCATGTGCACAAAGCAGAAGAGCATGCA
Found at i:961398 original size:44 final size:44
Alignment explanation
Indices: 961343--961559 Score: 344
Period size: 44 Copynumber: 4.9 Consensus size: 44
961333 TCTTATCATG
* * *
961343 TGCACAAAGCAGAAGAGCCTGCAGTAACGGTAAGGACTTACCCT
1 TGCACATAGCAGAGGAGCCTGCGGTAACGGTAAGGACTTACCCT
961387 TGCACATAGCAGAGGAGCCTGCGGTAACGGTAAGGACTTACCCT
1 TGCACATAGCAGAGGAGCCTGCGGTAACGGTAAGGACTTACCCT
* *
961431 TGCACATAGCAGAGGAGCCTACGGTAATGGTAAGGACTTACCCT
1 TGCACATAGCAGAGGAGCCTGCGGTAACGGTAAGGACTTACCCT
961475 TGCACATAGCAGAGGAGCCTGCGGTAACGGTAAGGACTTACCCT
1 TGCACATAGCAGAGGAGCCTGCGGTAACGGTAAGGACTTACCCT
* * * * *
961519 TGCATATAACAGAGGAGCTTGCAGTAATGGTAAGGACTTAC
1 TGCACATAGCAGAGGAGCCTGCGGTAACGGTAAGGACTTAC
961560 AAGTCATAGT
Statistics
Matches: 161, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 161 1.00
ACGTcount: A:0.30, C:0.23, G:0.28, T:0.19
Consensus pattern (44 bp):
TGCACATAGCAGAGGAGCCTGCGGTAACGGTAAGGACTTACCCT
Found at i:967156 original size:31 final size:30
Alignment explanation
Indices: 966972--967142 Score: 254
Period size: 31 Copynumber: 5.5 Consensus size: 30
966962 GAGTCGAGGG
966972 TTACCTATGTTCTTCGAGACATATGGATTGT
1 TTACCTATGTTCTTCG-GACATATGGATTGT
967003 TTACCTATGTTCTTCGGGACATATGGATTGT
1 TTACCTATGTTCTTC-GGACATATGGATTGT
*
967034 TTACCTATGTTATTCCGGACATATGGATTGT
1 TTACCTATGTTCTT-CGGACATATGGATTGT
967065 TTACCTATGTTCTTCGGAACATATGGATTGT
1 TTACCTATGTTCTTCGG-ACATATGGATTGT
* *
967096 TTACCTATGTTCTTCGGGACATATGGACTGA
1 TTACCTATGTTCTTC-GGACATATGGATTGT
967127 TTACCTA-GATTCTTCG
1 TTACCTATG-TTCTTCG
967143 AGATCTATGG
Statistics
Matches: 131, Mismatches: 4, Indels: 11
0.90 0.03 0.08
Matches are distributed among these distances:
30 5 0.04
31 122 0.93
32 4 0.03
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.41
Consensus pattern (30 bp):
TTACCTATGTTCTTCGGACATATGGATTGT
Found at i:967670 original size:18 final size:18
Alignment explanation
Indices: 967647--967706 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 18
967637 ACAAAATCAT
967647 GATAATGATATTGAAATG
1 GATAATGATATTGAAATG
*
967665 GATAAT-A-ATAGATATCAT-
1 GATAATGATATTGA-A--ATG
*
967683 GATAATGATATTGATATG
1 GATAATGATATTGAAATG
967701 GATAAT
1 GATAAT
967707 AATGGATATC
Statistics
Matches: 33, Mismatches: 3, Indels: 12
0.69 0.06 0.25
Matches are distributed among these distances:
16 4 0.12
17 4 0.12
18 18 0.55
19 3 0.09
20 4 0.12
ACGTcount: A:0.45, C:0.02, G:0.18, T:0.35
Consensus pattern (18 bp):
GATAATGATATTGAAATG
Found at i:967733 original size:36 final size:36
Alignment explanation
Indices: 967642--967752 Score: 150
Period size: 36 Copynumber: 3.1 Consensus size: 36
967632 TAATTACAAA
* *
967642 ATCATGATAATGATATTGAAATGGATAATAATAGAT
1 ATCATGATAATGATATTGATATGGATAATAATGGAT
967678 ATCATGATAATGATATTGATATGGATAATAATGGAT
1 ATCATGATAATGATATTGATATGGATAATAATGGAT
* * * * *
967714 ATCATGATTATGATGTTGATGTTGATAATGATGGTAT
1 ATCATGATAATGATATTGATATGGATAATAATGG-AT
967751 AT
1 AT
967753 GTGCATGTAA
Statistics
Matches: 67, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
36 63 0.94
37 4 0.06
ACGTcount: A:0.40, C:0.03, G:0.20, T:0.38
Consensus pattern (36 bp):
ATCATGATAATGATATTGATATGGATAATAATGGAT
Found at i:969137 original size:14 final size:14
Alignment explanation
Indices: 969118--969146 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
969108 TATTATTTCA
969118 TTTATATACTAATC
1 TTTATATACTAATC
969132 TTTATATACTAATC
1 TTTATATACTAATC
969146 T
1 T
969147 AATCTATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.14, G:0.00, T:0.52
Consensus pattern (14 bp):
TTTATATACTAATC
Found at i:972688 original size:21 final size:21
Alignment explanation
Indices: 972662--972701 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
972652 CATAACCCCA
*
972662 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
972683 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
972702 TCAAATGGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:979661 original size:24 final size:20
Alignment explanation
Indices: 979604--979666 Score: 63
Period size: 20 Copynumber: 2.9 Consensus size: 20
979594 TTTCCCTTGA
*
979604 AGTGCATCGATGCATTCTAC
1 AGTGCATCGATGCATCCTAC
*
979624 AGTGTATCGATGCATCCCTTAAC
1 AGTGCATCGATGCAT-CC-T-AC
979647 ATGTGCATCGATGCACTCCT
1 A-GTGCATCGATGCA-TCCT
979667 TATGCATCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
20 14 0.40
21 1 0.03
22 1 0.03
23 4 0.11
24 14 0.40
25 1 0.03
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (20 bp):
AGTGCATCGATGCATCCTAC
Found at i:979667 original size:24 final size:22
Alignment explanation
Indices: 979604--979668 Score: 71
Period size: 24 Copynumber: 2.9 Consensus size: 22
979594 TTTCCCTTGA
*
979604 AGTGCATCGATGCATTC-T-AC
1 AGTGCATCGATGCATCCTTAAC
*
979624 AGTGTATCGATGCATCCCTTAAC
1 AGTGCATCGATGCAT-CCTTAAC
979647 ATGTGCATCGATGCACTCCTTA
1 A-GTGCATCGATGCA-TCCTTA
979669 TGCATCAATG
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
20 14 0.38
21 1 0.03
22 1 0.03
23 3 0.08
24 17 0.46
25 1 0.03
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (22 bp):
AGTGCATCGATGCATCCTTAAC
Found at i:985180 original size:15 final size:15
Alignment explanation
Indices: 985131--985181 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
985121 AAGTTTAAAA
*
985131 AATAAATAAAAATGG
1 AATAAATAAAAATTG
* * *
985146 AACAAGTAAAAAAATG
1 AATAAAT-AAAAATTG
985162 -ATAAATAAAAATTG
1 AATAAATAAAAATTG
985176 AATAAA
1 AATAAA
985182 AAATAAATTT
Statistics
Matches: 27, Mismatches: 7, Indels: 4
0.71 0.18 0.11
Matches are distributed among these distances:
14 7 0.26
15 14 0.52
16 6 0.22
ACGTcount: A:0.69, C:0.02, G:0.10, T:0.20
Consensus pattern (15 bp):
AATAAATAAAAATTG
Found at i:986409 original size:3 final size:3
Alignment explanation
Indices: 986383--986436 Score: 65
Period size: 3 Copynumber: 17.7 Consensus size: 3
986373 GGAAAAACAA
* *
986383 AAT AA- AAT AAGT AAT AAA AAT AAT AAT AAT AAAT AAT GAT AAT AAT
1 AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT
986429 AAT AAT AA
1 AAT AAT AA
986437 ATAAATAAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
2 2 0.05
3 36 0.82
4 6 0.14
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:986413 original size:22 final size:22
Alignment explanation
Indices: 986383--986445 Score: 83
Period size: 22 Copynumber: 2.9 Consensus size: 22
986373 GGAAAAACAA
*
986383 AATAA-AATAAGTAATAAAAAT
1 AATAATAATAAATAATAAAAAT
* *
986404 AATAATAATAAATAATGATAAT
1 AATAATAATAAATAATAAAAAT
986426 AATAATAATAAATAAATAAA
1 AATAATAATAAAT-AATAAA
986446 TAAATAAAAC
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
21 5 0.14
22 26 0.74
23 4 0.11
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (22 bp):
AATAATAATAAATAATAAAAAT
Done.