Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 115 of 427
Found at i:30436554 original size:22 final size:22
Alignment explanation
Indices: 30436519--30436569 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
30436509 TAACTGTATT
* *
30436519 GCAACACGAGGATGTTAGAATC
1 GCAACACGAAGATGTCAGAATC
*
30436541 GCAACTCGAAGATGTCAGAATC
1 GCAACACGAAGATGTCAGAATC
*
30436563 ACAACAC
1 GCAACAC
30436570 ATCTAGCAGG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.16
Consensus pattern (22 bp):
GCAACACGAAGATGTCAGAATC
Found at i:30440444 original size:46 final size:46
Alignment explanation
Indices: 30440401--30440575 Score: 142
Period size: 46 Copynumber: 3.8 Consensus size: 46
30440391 ACATCTCGTA
*
30440401 GCCGATGCATATCCCAGACATGTCTTACACTAGCTTATGTCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTTATGTCTCGAG
* * * * * * * *
30440447 GCCGAAGCATGTTCTAGACATGTCTTACATTAGCGCT-CGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGC-TTATGTCTCGAG
* * **
30440493 GCCGATACCATGTCCCAGACATAGTCTTACACCAGCTCTTAT-AAT--ATG
1 GCCGAT-GCATGTCCCAGACAT-GTCTTACACTAG--CTTATGTCTCGA-G
*
30440541 GCCGATGCATGTCCCAGACATGTGTTACACTAGCT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCT
30440576 CACAGTAGCT
Statistics
Matches: 99, Mismatches: 23, Indels: 16
0.72 0.17 0.12
Matches are distributed among these distances:
44 2 0.02
46 50 0.51
47 28 0.28
48 16 0.16
49 2 0.02
50 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTTATGTCTCGAG
Found at i:30442754 original size:25 final size:25
Alignment explanation
Indices: 30442719--30442775 Score: 96
Period size: 25 Copynumber: 2.3 Consensus size: 25
30442709 GTAGCCTCAC
* *
30442719 AATCTCATAAACGTACAAGTTAGCT
1 AATCTCTTAAACATACAAGTTAGCT
30442744 AATCTCTTAAACATACAAGTTAGCT
1 AATCTCTTAAACATACAAGTTAGCT
30442769 AATCTCT
1 AATCTCT
30442776 CAAGGGAGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.32
Consensus pattern (25 bp):
AATCTCTTAAACATACAAGTTAGCT
Found at i:30446695 original size:30 final size:30
Alignment explanation
Indices: 30446659--30446721 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
30446649 CGATTAAGTT
30446659 TGTATGTAAATAATATTTCAATTCTTTTTA
1 TGTATGTAAATAATATTTCAATTCTTTTTA
**
30446689 TGTATGTAAATAATATTTTGATTCTTTTTA
1 TGTATGTAAATAATATTTCAATTCTTTTTA
30446719 TGT
1 TGT
30446722 TATTATCTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.30, C:0.05, G:0.10, T:0.56
Consensus pattern (30 bp):
TGTATGTAAATAATATTTCAATTCTTTTTA
Found at i:30446966 original size:50 final size:50
Alignment explanation
Indices: 30446885--30447268 Score: 349
Period size: 50 Copynumber: 7.6 Consensus size: 50
30446875 TTCGTTATGA
* *
30446885 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTAATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
* * ** ** * *
30446935 GTCGCATGTGTAGTACTAAGTGCAAGCTACTATATGTA-CTTATTAACTTCG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA--TAG
* * * * * * * *
30446986 ATCACGTGTGTAGTACTAAATGTAGGCTACTACGTGTATCAGATGGTTAA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
**
30447036 GTCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
* ** * * *
30447086 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCG-TTAACTTCG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA--TAG
* * * * * *
30447137 ATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
** * ** *
30447187 GTCATGTGTATAGTACTAAGTGCAATCTACTACGTGTATCAGATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
** *
30447237 GTCGTATTTGTAGTACTAAGTGCAGGCTACTA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTA
30447269 TGCATACCAG
Statistics
Matches: 263, Mismatches: 65, Indels: 12
0.77 0.19 0.04
Matches are distributed among these distances:
49 9 0.03
50 181 0.69
51 69 0.26
52 4 0.02
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.32
Consensus pattern (50 bp):
GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
Found at i:30447065 original size:101 final size:101
Alignment explanation
Indices: 30446886--30447067 Score: 265
Period size: 101 Copynumber: 1.8 Consensus size: 101
30446876 TCGTTATGAG
* * * *
30446886 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTAATAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAATGCAGGCTACTACGTGTACCAGATGAATAAGTCACATGTGTAGTAC
30446951 TAAGTGCAAGCTACTATATGTACTTATTAACTTCGA
66 TAAGTGCAAGCTACTATATGTACTTATTAACTTCGA
* * ** **
30446987 TCACGTGTGTAGTACTAAATGTAGGCTACTACGTGTATCAGATGGTTAAGTCATGTGTGTAGTAC
1 TCACGTGTGTAGTACTAAATGCAGGCTACTACGTGTACCAGATGAATAAGTCACATGTGTAGTAC
*
30447052 TAAGTGCAGGCTACTA
66 TAAGTGCAAGCTACTA
30447068 CGTGTACCAG
Statistics
Matches: 70, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
101 70 1.00
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (101 bp):
TCACGTGTGTAGTACTAAATGCAGGCTACTACGTGTACCAGATGAATAAGTCACATGTGTAGTAC
TAAGTGCAAGCTACTATATGTACTTATTAACTTCGA
Found at i:30447074 original size:101 final size:101
Alignment explanation
Indices: 30446886--30447117 Score: 261
Period size: 101 Copynumber: 2.3 Consensus size: 101
30446876 TCGTTATGAG
* * * *
30446886 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTAATAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAATGCAGGCTACTACGTGTACCAGATGAATAAGTCACATGTGTAGTAC
*
30446951 TAAGTGCAAGCTACTATATGTACTTATTAACTTCGA
66 TAAGTGCAAGCTACTACATGTACTTATTAACTTCGA
* * ** **
30446987 TCACGTGTGTAGTACTAAATGTAGGCTACTACGTGTATCAGATGGTTAAGTCATGTGTGTAGTAC
1 TCACGTGTGTAGTACTAAATGCAGGCTACTACGTGTACCAGATGAATAAGTCACATGTGTAGTAC
* * ** * * *
30447052 TAAGTGCAGGCTACTACGTGTACCAGATTGA--TAGG
66 TAAGTGCAAGCTACTACATGTA-CTTATTAACTTCGA
* *
30447087 TCACATGTGTAGTACTAAGTGCAGGCTACTA
1 TCACGTGTGTAGTACTAAATGCAGGCTACTA
30447118 TGCATACCCG
Statistics
Matches: 109, Mismatches: 21, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
100 30 0.28
101 74 0.68
102 5 0.05
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (101 bp):
TCACGTGTGTAGTACTAAATGCAGGCTACTACGTGTACCAGATGAATAAGTCACATGTGTAGTAC
TAAGTGCAAGCTACTACATGTACTTATTAACTTCGA
Found at i:30447164 original size:151 final size:151
Alignment explanation
Indices: 30446884--30447276 Score: 624
Period size: 151 Copynumber: 2.6 Consensus size: 151
30446874 ATTCGTTATG
* *
30446884 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTAATAGGTCGCATGTGTAGT
1 AGTCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
* *** ** *
30446949 ACTAAGTGCAAGCTACTATATGTACTTATTAACTTCGATCACGTGTGTAGTACTAAATGTAGGCT
66 ACTAAGTGCAGGCTACTATGCATACCCATTAACTTCGATCACGTGTGTAGTACTAAATGCAGGCT
30447014 ACTACGTGTATCAGATGGTTA
131 ACTACGTGTATCAGATGGTTA
*
30447035 AGTCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACATGTGTAGT
1 AGTCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
* *
30447100 ACTAAGTGCAGGCTACTATGCATACCCGTTAACTTCGATCACGTGTGTAGTACTAAGTGCAGGCT
66 ACTAAGTGCAGGCTACTATGCATACCCATTAACTTCGATCACGTGTGTAGTACTAAATGCAGGCT
30447165 ACTACGTGTATCAGATGGTTA
131 ACTACGTGTATCAGATGGTTA
* ** * * *
30447186 AGTCATGTGTATAGTACTAAGTGCAATCTACTACGTGTATCAGATTGATAGGTCGTATTTGTAGT
1 AGTCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
30447251 ACTAAGTGCAGGCTACTATGCATACC
66 ACTAAGTGCAGGCTACTATGCATACC
30447277 AGAGAGCTTC
Statistics
Matches: 223, Mismatches: 19, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
151 223 1.00
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (151 bp):
AGTCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
ACTAAGTGCAGGCTACTATGCATACCCATTAACTTCGATCACGTGTGTAGTACTAAATGCAGGCT
ACTACGTGTATCAGATGGTTA
Found at i:30448164 original size:23 final size:23
Alignment explanation
Indices: 30448132--30448177 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
30448122 TTTCATATGG
*
30448132 ACTTAGTAAGCTTTAAGCTTACT
1 ACTTACTAAGCTTTAAGCTTACT
30448155 ACTTACTAAGCTTTAAGCTTACT
1 ACTTACTAAGCTTTAAGCTTACT
30448178 CCATCCTCTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.39
Consensus pattern (23 bp):
ACTTACTAAGCTTTAAGCTTACT
Found at i:30463664 original size:26 final size:26
Alignment explanation
Indices: 30463628--30463681 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
30463618 ATGAGAGTAT
30463628 GAAAATTTTGGTGAATTGATTTTAGC
1 GAAAATTTTGGTGAATTGATTTTAGC
30463654 GAAAATTTTGGTGAATTGATTTTAGC
1 GAAAATTTTGGTGAATTGATTTTAGC
30463680 GA
1 GA
30463682 TTTCATGCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.31, C:0.04, G:0.24, T:0.41
Consensus pattern (26 bp):
GAAAATTTTGGTGAATTGATTTTAGC
Found at i:30466132 original size:21 final size:21
Alignment explanation
Indices: 30466102--30466162 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 21
30466092 GTTATAATGA
*
30466102 CCACACGGGCGTGTTGCCCTT
1 CCACAAGGGCGTGTTGCCCTT
* * *
30466123 CTACATGGGCGTGTTGTCCTT
1 CCACAAGGGCGTGTTGCCCTT
*
30466144 CCACAAGGGTGTG-TGCCCT
1 CCACAAGGGCGTGTTGCCCT
30466163 GTTTCAAGAG
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
20 5 0.15
21 28 0.85
ACGTcount: A:0.11, C:0.31, G:0.30, T:0.28
Consensus pattern (21 bp):
CCACAAGGGCGTGTTGCCCTT
Found at i:30472576 original size:46 final size:47
Alignment explanation
Indices: 30472406--30472677 Score: 186
Period size: 46 Copynumber: 5.8 Consensus size: 47
30472396 TTATTTGTGT
* * * * *
30472406 GCCAGTGTAAGA-CATGTTTGGGACATGCATTGGTCAC-ATTATG-AGA
1 GCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGA-GATGTA-A
* * * * ***
30472452 GCCAGTGTAAGACCATGTCTGGGACATGGTATTGGCATTGAGACAAAA
1 GCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGCCTCGAGATGTAA
* *
30472500 GCTAGTGTAAGA-CATGTTTGGGACATGCATCGGCCTCGAGATGTAA
1 GCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGAGATGTAA
* *
30472546 GCCAGTGTAAGA-CATGTCTGGGACATGCATC-GACTATGAGATGT--
1 GCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCT-CGAGATGTAA
* * * *
30472590 GTCAGTGTAAGACCATGTCTAGGACAGGGCATCGG--TACGGATATGTGAGA
1 GCCAGTGTAAGACCATGTCTGGGACA-TGCATCGGCCT-C-GAGATGT-A-A
* *
30472640 GCTAGTGTAAGACCATGTCTGGGACATGGAGTCGGCCT
1 GCCAGTGTAAGACCATGTCTGGGACATGCA-TCGGCCT
30472678 TTATTTCAAT
Statistics
Matches: 178, Mismatches: 32, Indels: 26
0.75 0.14 0.11
Matches are distributed among these distances:
44 11 0.06
45 17 0.10
46 72 0.40
47 27 0.15
48 19 0.11
49 4 0.02
50 27 0.15
52 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (47 bp):
GCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGAGATGTAA
Found at i:30473961 original size:20 final size:21
Alignment explanation
Indices: 30473922--30473961 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
30473912 GTTATAATGA
30473922 CCACACGGGCGTGTTGCCCTT
1 CCACACGGGCGTGTTGCCCTT
*
30473943 CCACACGGGTGTG-TGCCCT
1 CCACACGGGCGTGTTGCCCT
30473962 GTTTCAAGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.10, C:0.38, G:0.30, T:0.23
Consensus pattern (21 bp):
CCACACGGGCGTGTTGCCCTT
Found at i:30474630 original size:7 final size:6
Alignment explanation
Indices: 30474612--30474641 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
30474602 TTAACTATTC
30474612 ATAAAA ATAAAA ATAAAA ATAAAA ACTAAA
1 ATAAAA ATAAAA ATAAAA ATAAAA A-TAAA
30474642 GTTTGCATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 19 0.83
7 4 0.17
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (6 bp):
ATAAAA
Found at i:30474756 original size:18 final size:18
Alignment explanation
Indices: 30474733--30474768 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
30474723 TTTTAGTTAG
30474733 ATATTAAAATTTTAATTT
1 ATATTAAAATTTTAATTT
* *
30474751 ATATTACAATTTTTATTT
1 ATATTAAAATTTTAATTT
30474769 GATTAGAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (18 bp):
ATATTAAAATTTTAATTT
Found at i:30475846 original size:10 final size:10
Alignment explanation
Indices: 30475831--30475962 Score: 51
Period size: 10 Copynumber: 13.3 Consensus size: 10
30475821 TTACTAATAT
*
30475831 AAATTTTTAA
1 AAATTATTAA
*
30475841 AAATT-TTCAG
1 AAATTATT-AA
30475851 AAATTATTAA
1 AAATTATTAA
30475861 AAATTATT-A
1 AAATTATTAA
* *
30475870 ACA-TAATAA
1 AAATTATTAA
*
30475879 AAA-TATATAT
1 AAATTAT-TAA
*
30475889 AAA-TATTTA
1 AAATTATTAA
*
30475898 AAATAACTATAA
1 AAATTA-T-TAA
*
30475910 AAATTATGAA
1 AAATTATTAA
* *
30475920 AAATTGTTTA
1 AAATTATTAA
* **
30475930 AAATAAAAAA
1 AAATTATTAA
*
30475940 AAATTAATTCA
1 AAATT-ATTAA
30475951 AAA-TATTAA
1 AAATTATTAA
30475960 AAA
1 AAA
30475963 ATACAGAAAG
Statistics
Matches: 88, Mismatches: 26, Indels: 17
0.67 0.20 0.13
Matches are distributed among these distances:
8 3 0.03
9 21 0.24
10 48 0.55
11 9 0.10
12 7 0.08
ACGTcount: A:0.60, C:0.03, G:0.02, T:0.35
Consensus pattern (10 bp):
AAATTATTAA
Found at i:30485842 original size:22 final size:22
Alignment explanation
Indices: 30485817--30485860 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
30485807 AGGTCGTGCC
30485817 CACGACTCCAAATAGACCTGCT
1 CACGACTCCAAATAGACCTGCT
30485839 CACGACTCCAAATAGACCTGCT
1 CACGACTCCAAATAGACCTGCT
30485861 GAAAAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.36, G:0.14, T:0.18
Consensus pattern (22 bp):
CACGACTCCAAATAGACCTGCT
Found at i:30486409 original size:21 final size:21
Alignment explanation
Indices: 30486371--30486419 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
30486361 ATATAAAATT
*
30486371 ATATTTAATAAATCATTTTAA
1 ATATTTAATAAATCATTTAAA
* * *
30486392 ATATTTCATTAATGATTTAAA
1 ATATTTAATAAATCATTTAAA
30486413 ATGATTT
1 AT-ATTT
30486420 GGGTTGTAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (21 bp):
ATATTTAATAAATCATTTAAA
Found at i:30496735 original size:93 final size:93
Alignment explanation
Indices: 30496624--30496834 Score: 388
Period size: 93 Copynumber: 2.3 Consensus size: 93
30496614 GAGGCCGATG
30496624 CCATGTCAC-AGACAGGTCTTACACTGGCTCTCATCTATCGGTGTCGATGCCATGTCCCAGACAG
1 CCATGTC-CTAGACAGGTCTTACACTGGCTCTCATCTATCGGTGTCGATGCCATGTCCCAGACAG
*
30496688 GTCTTACATTGACACACAACAAGCTGATA
65 GTCTTACACTGACACACAACAAGCTGATA
*
30496717 CCATGTCCTAGACAGGTCTTACACTGGCTCTCATCTATCGGTGTCGATGCCATGTCCCAGATAGG
1 CCATGTCCTAGACAGGTCTTACACTGGCTCTCATCTATCGGTGTCGATGCCATGTCCCAGACAGG
30496782 TCTTACACTGACACACAACAAGCTGATA
66 TCTTACACTGACACACAACAAGCTGATA
30496810 CCATGTCCTAGACAGGTCTTACACT
1 CCATGTCCTAGACAGGTCTTACACT
30496835 AGCTTGTATA
Statistics
Matches: 115, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
92 1 0.01
93 114 0.99
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (93 bp):
CCATGTCCTAGACAGGTCTTACACTGGCTCTCATCTATCGGTGTCGATGCCATGTCCCAGACAGG
TCTTACACTGACACACAACAAGCTGATA
Found at i:30496736 original size:44 final size:44
Alignment explanation
Indices: 30496673--30496834 Score: 180
Period size: 44 Copynumber: 3.6 Consensus size: 44
30496663 GGTGTCGATG
*
30496673 CCATGTCCCAGACAGGTCTTACATTGACACACAACAAGCTGATA
1 CCATGTCCCAGACAGGTCTTACACTGACACACAACAAGCTGATA
* * * * * * * *
30496717 CCATGTCCTAGACAGGTCTTACACTGGCTCTCATCTATCGGTGTCGATG
1 CCATGTCCCAGACAGGTCTTACACTGACACACAAC-A--AG-CT-GATA
*
30496766 CCATGTCCCAGATAGGTCTTACACTGACACACAACAAGCTGATA
1 CCATGTCCCAGACAGGTCTTACACTGACACACAACAAGCTGATA
*
30496810 CCATGTCCTAGACAGGTCTTACACT
1 CCATGTCCCAGACAGGTCTTACACT
30496835 AGCTTGTATA
Statistics
Matches: 93, Mismatches: 20, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
44 55 0.59
45 2 0.02
46 1 0.01
47 1 0.01
48 2 0.02
49 32 0.34
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.25
Consensus pattern (44 bp):
CCATGTCCCAGACAGGTCTTACACTGACACACAACAAGCTGATA
Found at i:30496791 original size:49 final size:48
Alignment explanation
Indices: 30496588--30496793 Score: 213
Period size: 49 Copynumber: 4.3 Consensus size: 48
30496578 TTTCTTAGAT
* * * * *
30496588 AGGTCTTACACTAACTTTCATATATCGAGGCCGATGCCATGTCACAGAC
1 AGGTCTTACACTGACTCTCATCTATCG-GGTCGATGCCATGTCCCAGAC
*
30496637 AGGTCTTACACTGGCTCTCATCTATCGGTGTCGATGCCATGTCCCAGAC
1 AGGTCTTACACTGACTCTCATCTATCGG-GTCGATGCCATGTCCCAGAC
* * * * * * * *
30496686 AGGTCTTACATTGACACACAAC-A--AGCT-GATACCATGTCCTAGAC
1 AGGTCTTACACTGACTCTCATCTATCGGGTCGATGCCATGTCCCAGAC
* *
30496730 AGGTCTTACACTGGCTCTCATCTATCGGTGTCGATGCCATGTCCCAGAT
1 AGGTCTTACACTGACTCTCATCTATCGG-GTCGATGCCATGTCCCAGAC
30496779 AGGTCTTACACTGAC
1 AGGTCTTACACTGAC
30496794 ACACAACAAG
Statistics
Matches: 125, Mismatches: 26, Indels: 12
0.77 0.16 0.07
Matches are distributed among these distances:
44 32 0.26
45 2 0.02
46 1 0.01
47 1 0.01
48 3 0.02
49 86 0.69
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (48 bp):
AGGTCTTACACTGACTCTCATCTATCGGGTCGATGCCATGTCCCAGAC
Found at i:30498709 original size:21 final size:20
Alignment explanation
Indices: 30498672--30498711 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
30498662 CTCTTGAAAC
**
30498672 AGGGCACACGCTTGTGTGGA
1 AGGGCACACGCCCGTGTGGA
30498692 AGGGCAACACGCCCGTGTGG
1 AGGGC-ACACGCCCGTGTGG
30498712 TCATTATAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.20, C:0.25, G:0.40, T:0.15
Consensus pattern (20 bp):
AGGGCACACGCCCGTGTGGA
Found at i:30500142 original size:92 final size:93
Alignment explanation
Indices: 30500037--30500211 Score: 264
Period size: 94 Copynumber: 1.9 Consensus size: 93
30500027 CCTCTATACG
* * *
30500037 TGCCGATGCCATGTCTCAGACATGGTCTTACACTGA-CACAT-TTCATAGCCGATGCATGTCCCA
1 TGCCGATACCATGTATCAGACATGGTCTTACACTGACCACATAAT-ATAGCCGATGCATGTCCCA
30500100 AACATGTCTTACACTAGCTTTCGTCTCAA
65 AACATGTCTTACACTAGCTTTCGTCTCAA
* * *
30500129 TGCCGATACCATGTATCAGACATGGTCTTACACTGACTCTCATAATGTGGCCGATGCATGTCCCA
1 TGCCGATACCATGTATCAGACATGGTCTTACACTGAC-CACATAATATAGCCGATGCATGTCCCA
30500194 AACATGTCTTACACTAGC
65 AACATGTCTTACACTAGC
30500212 ACACAAATGA
Statistics
Matches: 74, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
92 34 0.46
94 39 0.53
95 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.29
Consensus pattern (93 bp):
TGCCGATACCATGTATCAGACATGGTCTTACACTGACCACATAATATAGCCGATGCATGTCCCAA
ACATGTCTTACACTAGCTTTCGTCTCAA
Found at i:30507035 original size:48 final size:47
Alignment explanation
Indices: 30506923--30507133 Score: 179
Period size: 48 Copynumber: 4.5 Consensus size: 47
30506913 TGGTCGACGC
* * *
30506923 CATGTCCCAGACATGGTCTTACACT-AGCTC-TCACATATCTGTGTCGATG
1 CATGTCCCAGACATGGTCTTACATTGA-CACATCTCATA---GTGTCGATG
*
30506972 TCATGTCCCAGACATGGTCTTACATTGACACCTCT-ATACGTGTCGATG
1 -CATGTCCCAGACATGGTCTTACATTGACACATCTCATA-GTGTCGATG
* *
30507020 ACATGTCCCAAACATGGTCTTACATTGACACATCTCATAG-CT-GATG
1 -CATGTCCCAGACATGGTCTTACATTGACACATCTCATAGTGTCGATG
* * * *
30507066 CATGTCCCAGACAT-GTCTTACACTGGCTTACATCTC-GAG-GCCGATG
1 CATGTCCCAGACATGGTCTTACATTGAC--ACATCTCATAGTGTCGATG
*
30507112 CATGTCCCAAACAT-GTCTTACA
1 CATGTCCCAGACATGGTCTTACA
30507134 CTAGCTCTCG
Statistics
Matches: 140, Mismatches: 15, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
44 11 0.08
45 15 0.11
46 36 0.26
47 1 0.01
48 42 0.30
49 3 0.02
50 29 0.21
51 3 0.02
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (47 bp):
CATGTCCCAGACATGGTCTTACATTGACACATCTCATAGTGTCGATG
Found at i:30507114 original size:46 final size:48
Alignment explanation
Indices: 30506923--30507225 Score: 195
Period size: 46 Copynumber: 6.4 Consensus size: 48
30506913 TGGTCGACGC
* * * * *
30506923 CATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCTG-TGTCGATG
1 CATGTCCCAAACATGGTCTTACACTGGCTCT-ACATCTC-GAGGCCGATG
* * * * * * *
30506972 TCATGTCCCAGACATGGTCTTACATTGACACCT-CTAT-ACG-TGTCGATG
1 -CATGTCCCAAACATGGTCTTACACTGGC-TCTAC-ATCTCGAGGCCGATG
* * * *
30507020 ACATGTCCCAAACATGGTCTTACA-TTG-AC-ACATCTC-ATAGCTGATG
1 -CATGTCCCAAACATGGTCTTACACTGGCTCTACATCTCGA-GGCCGATG
*
30507066 CATGTCCCAGACAT-GTCTTACACTGGCT-TACATCTCGAGGCCGATG
1 CATGTCCCAAACATGGTCTTACACTGGCTCTACATCTCGAGGCCGATG
* * * * *
30507112 CATGTCCCAAACAT-GTCTTACACTAGCTCT-CGTCTCAATGCCGATAC
1 CATGTCCCAAACATGGTCTTACACTGGCTCTACATCTCGAGGCCGAT-G
* *
30507159 CATGTCCCAAACATGGTCTTACACTGGCTCT-CATAAT-GCGGCCGATG
1 CATGTCCCAAACATGGTCTTACACTGGCTCTACAT-CTCGAGGCCGATG
*
30507206 CATGTCACAAACAT-GTCTTA
1 CATGTCCCAAACATGGTCTTA
30507226 TACTAGCACA
Statistics
Matches: 206, Mismatches: 33, Indels: 32
0.76 0.12 0.12
Matches are distributed among these distances:
44 10 0.05
45 18 0.09
46 62 0.30
47 30 0.15
48 54 0.26
49 3 0.01
50 27 0.13
51 2 0.01
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.28
Consensus pattern (48 bp):
CATGTCCCAAACATGGTCTTACACTGGCTCTACATCTCGAGGCCGATG
Found at i:30509684 original size:28 final size:28
Alignment explanation
Indices: 30509652--30509721 Score: 108
Period size: 28 Copynumber: 2.5 Consensus size: 28
30509642 ACAGTAAGTC
30509652 CGCACACTTAGTGCT-TA-ATATTGAAACT
1 CGCACACTTAGTGCTATACA-ATT-AAACT
30509680 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAATTAAACT
30509708 CGCACACTTAGTGC
1 CGCACACTTAGTGC
30509722 CAATCTCATT
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
28 34 0.85
29 5 0.12
30 1 0.03
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATTAAACT
Found at i:30513843 original size:25 final size:25
Alignment explanation
Indices: 30513813--30513861 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
30513803 TGATATGATT
*
30513813 TGATATGCTATGCTATGTTACGATA
1 TGATATGCTATGATATGTTACGATA
* *
30513838 TGATATGTTGTGATATGTTACGAT
1 TGATATGCTATGATATGTTACGAT
30513862 TCGTTATGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.27, C:0.08, G:0.22, T:0.43
Consensus pattern (25 bp):
TGATATGCTATGATATGTTACGATA
Found at i:30523888 original size:18 final size:16
Alignment explanation
Indices: 30523871--30523903 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
30523861 TATTGAAAAT
30523871 AATAA-AAAAGTTATA
1 AATAATAAAAGTTATA
*
30523886 AATCATAAAAGTTATA
1 AATAATAAAAGTTATA
30523902 AA
1 AA
30523904 AAATTGTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.64, C:0.03, G:0.06, T:0.27
Consensus pattern (16 bp):
AATAATAAAAGTTATA
Found at i:30524006 original size:8 final size:8
Alignment explanation
Indices: 30523993--30524026 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
30523983 AACGTACAAA
30523993 AAAAATAT
1 AAAAATAT
*
30524001 AAAAATCT
1 AAAAATAT
30524009 AGAAAATAT
1 A-AAAATAT
30524018 AAAAATAT
1 AAAAATAT
30524026 A
1 A
30524027 TATAAAAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
8 16 0.70
9 7 0.30
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.24
Consensus pattern (8 bp):
AAAAATAT
Found at i:30524631 original size:13 final size:13
Alignment explanation
Indices: 30524613--30524637 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30524603 TACTTAATAT
30524613 AATAAAACAAAAA
1 AATAAAACAAAAA
30524626 AATAAAACAAAA
1 AATAAAACAAAA
30524638 TCTCAAACTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.84, C:0.08, G:0.00, T:0.08
Consensus pattern (13 bp):
AATAAAACAAAAA
Found at i:30531117 original size:90 final size:90
Alignment explanation
Indices: 30530910--30531147 Score: 255
Period size: 90 Copynumber: 2.6 Consensus size: 90
30530900 ACATCGGGTT
* * * * * * * * * *
30530910 GTGGATGAACCATCAAATGTTGCAGGTTAATACGTTGCTAGACGATTTTGAATACACAATAAATT
1 GTGGACGAACCACCAAAGGTTGCAGGTTAATACGCTACCAGATGGTTGTGAATACACAACAAATT
30530975 GCAGAAAAAAACTGCCAGATAATGA
66 GCAGAAAAAAACTGCCAGATAATGA
* * * * *
30531000 GTGGATGAGCCACCAAATGTTGCAGGTTAATATGCTACTAG-TCGGTTGTGAATACACAACATAA
1 GTGGACGAACCACCAAAGGTTGCAGGTTAATACGCTACCAGAT-GGTTGTGAATACACAACA-AA
* * * *
30531064 TTGTAGATAAAAACTGCTAGATAATGG
64 TTGCAGAAAAAAACTGCCAGATAATGA
* *
30531091 GTGGGCGAACCACC-AAGGTTGTAGGTTAATACGCTACCAGATGGTTGTGAATACACA
1 GTGGACGAACCACCAAAGGTTGCAGGTTAATACGCTACCAGATGGTTGTGAATACACA
30531148 GCATGCAAAT
Statistics
Matches: 125, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
90 88 0.70
91 37 0.30
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.26
Consensus pattern (90 bp):
GTGGACGAACCACCAAAGGTTGCAGGTTAATACGCTACCAGATGGTTGTGAATACACAACAAATT
GCAGAAAAAAACTGCCAGATAATGA
Found at i:30536754 original size:20 final size:20
Alignment explanation
Indices: 30536729--30536767 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
30536719 CTTTTGAAAC
30536729 AGGGC-ACACGCCCGTGTGGA
1 AGGGCAACAC-CCCGTGTGGA
*
30536749 AGGGCAACACCCCTTGTGG
1 AGGGCAACACCCCGTGTGG
30536768 CCACTATGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.21, C:0.31, G:0.36, T:0.13
Consensus pattern (20 bp):
AGGGCAACACCCCGTGTGGA
Found at i:30539019 original size:66 final size:68
Alignment explanation
Indices: 30538941--30539127 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
30538931 TAGTACCACT
*
30538941 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
30539003 CACG
65 CACG
30539007 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
30539072 ATCACG
63 ATCACG
30539078 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
30539128 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:30539052 original size:71 final size:71
Alignment explanation
Indices: 30538964--30539127 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
30538954 CGATTTGTCT
30538964 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
30539029 CTTTCA
66 CTTTCA
30539035 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
30539100 CTTTCA
66 CTTTCA
30539106 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
30539128 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:30539165 original size:71 final size:70
Alignment explanation
Indices: 30538964--30539161 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
30538954 CGATTTGTCT
* * * *
30538964 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
30539029 CTTTCA
65 CTTTCA
* * * *
30539035 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
30539100 CTTTCA
65 CTTTCA
* *
30539106 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
30539162 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:30546555 original size:66 final size:68
Alignment explanation
Indices: 30546477--30546663 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
30546467 TAGTACCACT
*
30546477 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
30546539 CACG
65 CACG
30546543 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
30546608 ATCACG
63 ATCACG
30546614 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
30546664 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:30546588 original size:71 final size:71
Alignment explanation
Indices: 30546500--30546663 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
30546490 CGATTTGTCT
30546500 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
30546565 CTTTCA
66 CTTTCA
30546571 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
30546636 CTTTCA
66 CTTTCA
30546642 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
30546664 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:30546701 original size:71 final size:70
Alignment explanation
Indices: 30546500--30546697 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
30546490 CGATTTGTCT
* * * *
30546500 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
30546565 CTTTCA
65 CTTTCA
* * * *
30546571 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
30546636 CTTTCA
65 CTTTCA
* *
30546642 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
30546698 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:30548359 original size:49 final size:49
Alignment explanation
Indices: 30548300--30548469 Score: 185
Period size: 49 Copynumber: 3.6 Consensus size: 49
30548290 CATTGAAGTC
*
30548300 GATGCCATGTCCCAGACAGGTCTTACATTGACTTTCATATATCGAGGCT
1 GATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGCT
* * *
30548349 GATGCCATGTCCCAAACAGGTCTTACACTGAC--ACACA-AT-GA-GCT
1 GATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGCT
* *
30548393 GATGCCATGTCCCAGACAGGTCTTACACT-AGCTTGT-ATATCTCGAGGCC
1 GATGCCATGTCCCAGACAGGTCTTACACTGA-CTT-TCATATATCGAGGCT
** *
30548442 GATG-CATGTCTTAGACATGTCTTACACT
1 GATGCCATGTCCCAGACAGGTCTTACACT
30548470 AGCTCTTGTC
Statistics
Matches: 102, Mismatches: 12, Indels: 15
0.79 0.09 0.12
Matches are distributed among these distances:
43 1 0.01
44 32 0.31
45 2 0.02
46 4 0.04
47 4 0.04
48 23 0.23
49 36 0.35
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (49 bp):
GATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGCT
Found at i:30548412 original size:44 final size:48
Alignment explanation
Indices: 30548300--30548421 Score: 171
Period size: 44 Copynumber: 2.6 Consensus size: 48
30548290 CATTGAAGTC
* * *
30548300 GATGCCATGTCCCAGACAGGTCTTACATTGACTTTCATATATCGAGGCT
1 GATGCCATGTCCCAGACAGGTCTTACACTGAC-TACACATATCGAGGCT
*
30548349 GATGCCATGTCCCAAACAGGTCTTACACTGAC-ACACA-AT-GA-GCT
1 GATGCCATGTCCCAGACAGGTCTTACACTGACTACACATATCGAGGCT
30548393 GATGCCATGTCCCAGACAGGTCTTACACT
1 GATGCCATGTCCCAGACAGGTCTTACACT
30548422 AGCTTGTATA
Statistics
Matches: 68, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
44 31 0.46
45 2 0.03
46 2 0.03
47 3 0.04
49 30 0.44
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (48 bp):
GATGCCATGTCCCAGACAGGTCTTACACTGACTACACATATCGAGGCT
Found at i:30548504 original size:46 final size:46
Alignment explanation
Indices: 30548393--30548605 Score: 207
Period size: 46 Copynumber: 4.6 Consensus size: 46
30548383 ACAATGAGCT
* * * * *
30548393 GATGCCATGTCCCAGACAGGTCTTACACTAGCTTGTATATCTCGAGGCC
1 GATG-CATGTCCCAGACATGTCTTACACTAGC-TCT-TGTCTCAATGCC
**
30548442 GATGCATGTCTTAGACATGTCTTACACTAGCTCTTGTCTCAATGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCTTGTCTCAATGCC
* * *
30548488 GATGCATGTCCTAGACATGTCTTACACTAGATCTCGTCTCAATGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCTTGTCTCAATGCC
* * * * * *
30548534 GATGCATATCCCAAACATGTCTTACACTGGCACTCATGATGT---GGCC
1 GATGCATGTCCCAGACATGTCTTACACTAG--CTCTTG-TCTCAATGCC
30548580 GATGCATGTCCCAGACATGTCTTACA
1 GATGCATGTCCCAGACATGTCTTACA
30548606 TTGCCTCACA
Statistics
Matches: 140, Mismatches: 21, Indels: 9
0.82 0.12 0.05
Matches are distributed among these distances:
46 105 0.75
47 2 0.01
48 27 0.19
49 6 0.04
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTCTTGTCTCAATGCC
Found at i:30557340 original size:135 final size:135
Alignment explanation
Indices: 30557097--30557345 Score: 365
Period size: 135 Copynumber: 1.8 Consensus size: 135
30557087 TGCTTCCACA
* *
30557097 GTTCATATATTTTGTTCTTATTAATTTTCAATGAATTTGTTTATTATATTAACTGAATTCTAAAT
1 GTTCATATATTTTGTTCTTATTAATTTCCAATGAATTTGTTTACTATATTAACTGAATTCTAAAT
* * * **
30557162 TTTGTATTAGTGTCATTCATGTTGATTGGTTATTACTAATTTATTAATTATTATCATTCATGTTG
66 CTTGTAATAGTGCCATTCATGTTGATTCCTTATTACTAATTTATTAATTATTATCATTCATGTTG
30557227 AATTT
131 AATTT
* * *
30557232 GTTCATATATTTTGTTCTTATTAATTTCCATTGAATTTGTTTGCTATATTAATTGAATTCTAAAT
1 GTTCATATATTTTGTTCTTATTAATTTCCAATGAATTTGTTTACTATATTAACTGAATTCTAAAT
* **
30557297 CTTGTAATAGTGCCATTCATGTTGGATTCCTT-TTATTGTTTTATTAATT
66 CTTGTAATAGTGCCATTCATGTT-GATTCCTTATTACTAATTTATTAATT
30557346 TTTTGTTTGT
Statistics
Matches: 100, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
135 94 0.94
136 6 0.06
ACGTcount: A:0.27, C:0.09, G:0.11, T:0.54
Consensus pattern (135 bp):
GTTCATATATTTTGTTCTTATTAATTTCCAATGAATTTGTTTACTATATTAACTGAATTCTAAAT
CTTGTAATAGTGCCATTCATGTTGATTCCTTATTACTAATTTATTAATTATTATCATTCATGTTG
AATTT
Found at i:30557536 original size:16 final size:16
Alignment explanation
Indices: 30557515--30557547 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
30557505 GTCATTCATC
30557515 TTAAATTTGTTGATAA
1 TTAAATTTGTTGATAA
30557531 TTAAATTTGTTGATAA
1 TTAAATTTGTTGATAA
30557547 T
1 T
30557548 CAAGATGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (16 bp):
TTAAATTTGTTGATAA
Found at i:30557843 original size:172 final size:164
Alignment explanation
Indices: 30557563--30557870 Score: 454
Period size: 172 Copynumber: 1.8 Consensus size: 164
30557553 TGTTATGGAC
*
30557563 CTCATTGAAAAGGTCTGTTGGATCGTACAGACTATTGTTTGTTTGCTCTAGTTTAGTTAAATTTC
1 CTCATTGAAAAGGTCTGTTGGATCGTACAGACTATTGTTTGTTTGCTCTAGTTTAGTTAAATCTC
* * *
30557628 AATCTTGTTCTTATTAATTTCTATTGAATTTGTTTGCTATATTAAATGAGTTCTATATCTTGTAT
66 AATCTTGTTCTTATTAATTTCCATTAAATTTGTTTGCTATATTAAATGAGTTCTAAATCTTGTAT
30557693 TAGTGTCAATCATGTTGGTTAGGATGTTCTAGAT
131 TAGTGTCAATCATGTTGGTTAGGATGTTCTAGAT
* * * *
30557727 CTCATTGAAAAGGTTTGTTGGATCTTACCGACTGTTATTTGTTTGTTTGTTAATTCTAGTTTAGT
1 CTCATTGAAAAGGTCTGTTGGATCGTACAGAC---TA-TTGTTTGTTTG----CTCTAGTTTAGT
* *
30557792 TAAATCTCAATCTTGTTCTTATTAATTTCCATTAAATTTGTTTGTTATATTAATTGAGTTCTAAA
58 TAAATCTCAATCTTGTTCTTATTAATTTCCATTAAATTTGTTTGCTATATTAAATGAGTTCTAAA
30557857 TCTTGTATTAGTGT
123 TCTTGTATTAGTGT
30557871 AATTTATGTT
Statistics
Matches: 126, Mismatches: 10, Indels: 8
0.88 0.07 0.06
Matches are distributed among these distances:
164 29 0.23
167 2 0.02
168 11 0.09
172 84 0.67
ACGTcount: A:0.24, C:0.11, G:0.16, T:0.49
Consensus pattern (164 bp):
CTCATTGAAAAGGTCTGTTGGATCGTACAGACTATTGTTTGTTTGCTCTAGTTTAGTTAAATCTC
AATCTTGTTCTTATTAATTTCCATTAAATTTGTTTGCTATATTAAATGAGTTCTAAATCTTGTAT
TAGTGTCAATCATGTTGGTTAGGATGTTCTAGAT
Found at i:30557978 original size:12 final size:12
Alignment explanation
Indices: 30557961--30557991 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
30557951 ATGCACCATC
30557961 CTTCCACTACTG
1 CTTCCACTACTG
30557973 CTTCCACTACTG
1 CTTCCACTACTG
30557985 CTTCCAC
1 CTTCCAC
30557992 AGTCATTGCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.16, C:0.45, G:0.06, T:0.32
Consensus pattern (12 bp):
CTTCCACTACTG
Found at i:30558570 original size:16 final size:16
Alignment explanation
Indices: 30558549--30558580 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
30558539 TTTGTTTGTT
30558549 CCAATTTAGTTAAATC
1 CCAATTTAGTTAAATC
30558565 CCAATTTAGTTAAATC
1 CCAATTTAGTTAAATC
30558581 TTAATCTTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.38
Consensus pattern (16 bp):
CCAATTTAGTTAAATC
Found at i:30558699 original size:15 final size:15
Alignment explanation
Indices: 30558679--30558707 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
30558669 GATCTTACTA
30558679 ATTTATTAATTATTG
1 ATTTATTAATTATTG
30558694 ATTTATTAATTATT
1 ATTTATTAATTATT
30558708 TTCATTCATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (15 bp):
ATTTATTAATTATTG
Found at i:30562247 original size:174 final size:168
Alignment explanation
Indices: 30561987--30562482 Score: 490
Period size: 175 Copynumber: 2.9 Consensus size: 168
30561977 GGTTGTTCTG
* * * *
30561987 GACCTTATTGAAAAGGTCTGTTGGATCTTATAGATTGTTATTTGTTTGTTTGTTAGTTCTAGTTT
1 GACCTTATTGAAAAGGTTTGTTGGATC-T-TACACTATTATTTGTTTGTTTGTTAGTTCTAGTTT
* * ** **
30562052 AGTTAAATCCCAATTTTTTTTTATTAATTTCCATTGATTTTTTTACTATAATAATTGAATTCTAA
64 AGTTAAATCTCAATCTTTTTTTATTAATTTCCATTGATTTGGTTACTATAATAACAGAATTCTAA
30562117 ATCTTGTATAAGTGTCATT-AGTGTTGGTAAGGATGCTCTA
129 ATCTTGTATAAGTGTCATTCA-TGTTGGTAAGGATGCTCTA
* *
30562157 GACGTTATTGAAAATGTTTGTTGGATCTTACAAACTATTATTTGTTTGTTTGTTTGTTAGTTCTA
1 GACCTTATTGAAAAGGTTTGTTGGATCTTAC--ACTATTA----TTTGTTTGTTTGTTAGTTCTA
* *** * *
30562222 GTTTAGTTAAATCTGAATCTTTTTTTATTAATTTCCAACAAATTTGGTTGCTATATTAACAGAAT
60 GTTTAGTTAAATCTCAATCTTTTTTTATTAATTTCC-ATTGATTTGGTTACTATAATAACAGAAT
* * ** * * *
30562287 TCTAAATCTTTTATTAGTGTCATTCATGTTGGTCTGGATGTTTTG
124 TCTAAATCTTGTATAAGTGTCATTCATGTTGGTAAGGATGCTCTA
* * * * *
30562332 GACCTTATTGAAAAGGTTTGTTGGATCTTACAGTGTTATTTGTTTGTTTATAAGTTCCAGTTTAG
1 GACCTTATTGAAAAGGTTTGTTGGATCTTACACTATTATTTGTTTGTTTGTTAGTTCTAGTTTAG
* * * * ** * * * * *
30562397 TTAAATCTCAATCTTGTTCTTATCAATTTTCATTGAATTTGTTTGTTGTATTAACTGAGTTATAA
66 TTAAATCTCAATCTT-TTTTTATTAATTTCCATTG-ATTTGGTTACTATAATAACAGAATTCTAA
* *
30562462 ATCTTGTATTAGTTTCATTCA
129 ATCTTGTATAAGTGTCATTCA
30562483 AGTTAGATTG
Statistics
Matches: 269, Mismatches: 47, Indels: 20
0.80 0.14 0.06
Matches are distributed among these distances:
168 2 0.01
169 40 0.15
170 83 0.31
173 5 0.02
174 54 0.20
175 84 0.31
176 1 0.00
ACGTcount: A:0.25, C:0.10, G:0.16, T:0.49
Consensus pattern (168 bp):
GACCTTATTGAAAAGGTTTGTTGGATCTTACACTATTATTTGTTTGTTTGTTAGTTCTAGTTTAG
TTAAATCTCAATCTTTTTTTATTAATTTCCATTGATTTGGTTACTATAATAACAGAATTCTAAAT
CTTGTATAAGTGTCATTCATGTTGGTAAGGATGCTCTA
Found at i:30562353 original size:175 final size:172
Alignment explanation
Indices: 30561980--30562482 Score: 550
Period size: 170 Copynumber: 2.9 Consensus size: 172
30561970 ATAATCAGGT
* * * *
30561980 TGTTCTGGACCTTATTGAAAAGGTCTGTTGGATCTTA-TAGATTGTTATTTGTTTGTTTGTTAGT
1 TGTTCTGGACCTTATTGAAAAGGTTTGTTGGATCTTACAATATTATT-TTTGTTTGTTTGTTAGT
* * ** * * * *
30562044 TCTAGTTTAGTTAAATCCCAATTTTTTTTTATTAATTTCC-ATTGATTTTTTTACTATAATAATT
65 TCTAGTTTAGTTAAATCTCAATCTTTTTTTATTAATTTCCAATAAATTTGTTTGCTATATTAACT
*
30562108 GAATTCTAAATCTTGTATAAGTGTCATT-AGTGTTGGTAAGGA
130 GAATTCTAAATCTTGTATTAGTGTCATTCAGTGTTGGTAAGGA
* * * *
30562150 TGCTCTAGACGTTATTGAAAATGTTTGTTGGATCTTACAAACTATTATTTGTTTGTTTGTTTGTT
1 TGTTCTGGACCTTATTGAAAAGGTTTGTTGGATCTTAC-AA-TATTA-TT-TTTGTTTGTTTGTT
* * *
30562215 AGTTCTAGTTTAGTTAAATCTGAATCTTTTTTTATTAATTTCCAACAAATTTGGTTGCTATATTA
62 AGTTCTAGTTTAGTTAAATCTCAATCTTTTTTTATTAATTTCCAATAAATTTGTTTGCTATATTA
* * **
30562280 ACAGAATTCTAAATCTTTTATTAGTGTCATTCA-TGTTGGTCTGGA
127 ACTGAATTCTAAATCTTGTATTAGTGTCATTCAGTGTTGGTAAGGA
* * * * *
30562325 TGTTTTGGACCTTATTGAAAAGGTTTGTTGGATCTTACAGTGTTA--TTTGTTTGTTTATAAGTT
1 TGTTCTGGACCTTATTGAAAAGGTTTGTTGGATCTTACAATATTATTTTTGTTTGTTTGTTAGTT
* * * * * * * *
30562388 CCAGTTTAGTTAAATCTCAATCTTGTTCTTATCAATTTTCATTGAATTTGTTTGTTGTATTAACT
66 CTAGTTTAGTTAAATCTCAATCTT-TTTTTATTAATTTCCAATAAATTTGTTTGCTATATTAACT
* * *
30562453 GAGTTATAAATCTTGTATTAGTTTCATTCA
130 GAATTCTAAATCTTGTATTAGTGTCATTCA
30562483 AGTTAGATTG
Statistics
Matches: 276, Mismatches: 50, Indels: 14
0.81 0.15 0.04
Matches are distributed among these distances:
169 38 0.14
170 88 0.32
172 1 0.00
173 7 0.03
174 57 0.21
175 84 0.30
176 1 0.00
ACGTcount: A:0.25, C:0.10, G:0.16, T:0.49
Consensus pattern (172 bp):
TGTTCTGGACCTTATTGAAAAGGTTTGTTGGATCTTACAATATTATTTTTGTTTGTTTGTTAGTT
CTAGTTTAGTTAAATCTCAATCTTTTTTTATTAATTTCCAATAAATTTGTTTGCTATATTAACTG
AATTCTAAATCTTGTATTAGTGTCATTCAGTGTTGGTAAGGA
Found at i:30562860 original size:15 final size:15
Alignment explanation
Indices: 30562840--30562868 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
30562830 GTTCTTACTT
30562840 ATTTATTAATTATTG
1 ATTTATTAATTATTG
30562855 ATTTATTAATTATT
1 ATTTATTAATTATT
30562869 TTTATTCATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (15 bp):
ATTTATTAATTATTG
Found at i:30563874 original size:188 final size:187
Alignment explanation
Indices: 30563552--30563904 Score: 462
Period size: 188 Copynumber: 1.9 Consensus size: 187
30563542 TAGTCATTCC
*
30563552 ACTAGTTTGCTCGATATATATGCACCATAAATCTCCTGCTACTTCCACAGTTCATATATTTTGTT
1 ACTAGTTTGCTCGATATATATGCACCATAAATCTCCTGCTACTTCCACAATTCATATATTTTGTT
* *
30563617 CTTATTAGTTTCCATTGAATTTGTTTACTATATTAATTGAATTCGAAATCTTGTATTAATGCCAT
66 CTTATTAATTTCCATTGAATTTGTTTACTATATTAATTG-ATTCGAAATCTTGCATTAATGCCAT
*
30563682 TCATGTTTGATTGCTATTA-CTGATTTATTAATTATTGTCATTCATGTTGAATTTCTTG
130 TCATGTTGGATTGCTATTACCT-ATTTATTAATTATTGTCATTCATGTTGAATTTCTTG
* * ** *
30563740 ACTAGTTTGCTCGGTATATATGCATCAT-GCT-TCCATTGCTGCTTCCACAATTCATATATTTTG
1 ACTAGTTTGCTCGATATATATGCACCATAAATCTCC--TGCTACTTCCACAATTCATATATTTTG
* ** * *
30563803 TTCTTATTAATTTCCATTGAATTTGTTTGCTATATTAACTATG-TTTTAAATCTTGCATTAGTGT
64 TTCTTATTAATTTCCATTGAATTTGTTTACTATATTAA-T-TGATTCGAAATCTTGCATTAATGC
* * * *
30563867 TATTCATGTTGGATTGTTCTTACCTATTTATTAGTTAT
127 CATTCATGTTGGATTGCTATTACCTATTTATTAATTAT
30563905 CGTTATTTGT
Statistics
Matches: 142, Mismatches: 18, Indels: 10
0.84 0.11 0.06
Matches are distributed among these distances:
186 3 0.02
187 1 0.01
188 133 0.94
189 3 0.02
190 2 0.01
ACGTcount: A:0.25, C:0.15, G:0.12, T:0.48
Consensus pattern (187 bp):
ACTAGTTTGCTCGATATATATGCACCATAAATCTCCTGCTACTTCCACAATTCATATATTTTGTT
CTTATTAATTTCCATTGAATTTGTTTACTATATTAATTGATTCGAAATCTTGCATTAATGCCATT
CATGTTGGATTGCTATTACCTATTTATTAATTATTGTCATTCATGTTGAATTTCTTG
Found at i:30564032 original size:38 final size:41
Alignment explanation
Indices: 30563989--30564075 Score: 94
Period size: 41 Copynumber: 2.2 Consensus size: 41
30563979 TTGTTATATT
30563989 AATTGTGTTCTA-AACTTA-T-ATTATTGTCATTCATGTTG
1 AATTGTGTTCTACAACTTATTAATTATTGTCATTCATGTTG
* * * *
30564027 GATTGT-TTTTACTAATTTATTAATTATTGTTATTCATGTTG
1 AATTGTGTTCTAC-AACTTATTAATTATTGTCATTCATGTTG
30564068 AATT-TGTT
1 AATTGTGTT
30564076 AACTGGTTTG
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
37 4 0.10
38 5 0.13
39 5 0.13
40 2 0.05
41 23 0.59
ACGTcount: A:0.25, C:0.07, G:0.13, T:0.55
Consensus pattern (41 bp):
AATTGTGTTCTACAACTTATTAATTATTGTCATTCATGTTG
Found at i:30566211 original size:12 final size:12
Alignment explanation
Indices: 30566196--30566228 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
30566186 GACGCCACAC
30566196 GGCCGTGTGGTA
1 GGCCGTGTGGTA
*
30566208 GGCCATGTGGTA
1 GGCCGTGTGGTA
30566220 GGCCGTGTG
1 GGCCGTGTG
30566229 TAACGACACG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.09, C:0.18, G:0.48, T:0.24
Consensus pattern (12 bp):
GGCCGTGTGGTA
Found at i:30568101 original size:46 final size:46
Alignment explanation
Indices: 30568012--30568179 Score: 207
Period size: 46 Copynumber: 3.6 Consensus size: 46
30568002 CATTATGAGA
*
30568012 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGACGAGT
1 GCTAGTGTAAGACCATGTCTGGGACAT-GCATCGGCTTCGAGACGA-T
* *
30568060 GCTAGTGTAAGA-CATGTCTGGGACATACATCGGCTTCGAGACGTAA
1 GCTAGTGTAAGACCATGTCTGGGACATGCATCGGCTTCGAGACG-AT
* * * *
30568106 GCCATTGTAAGA-CATGTCTGGGACATGCATCGGCTACGAGATGAT
1 GCTAGTGTAAGACCATGTCTGGGACATGCATCGGCTTCGAGACGAT
30568151 AG-TCAGTGTAAGACCATGTCTGGGACATG
1 -GCT-AGTGTAAGACCATGTCTGGGACATG
30568180 GCGTCGACTT
Statistics
Matches: 105, Mismatches: 11, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
45 1 0.01
46 62 0.59
47 30 0.29
48 12 0.11
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (46 bp):
GCTAGTGTAAGACCATGTCTGGGACATGCATCGGCTTCGAGACGAT
Found at i:30568194 original size:47 final size:46
Alignment explanation
Indices: 30568015--30568214 Score: 201
Period size: 46 Copynumber: 4.3 Consensus size: 46
30568005 TATGAGAGCT
* *
30568015 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGACG-AGTGCT
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGC-TCGAGACGTA-AGCC
*
30568063 AGTGTAAGA-CATGTCTGGGACATACATCGGCTTCGAGACGTAAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGC-TCGAGACGTAAGCC
* * *
30568109 ATTGTAAGA-CATGTCTGGGACATGCATCGGCTACGAGATG-ATAGTC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCT-CGAGACGTA-AGCC
* * * ** *
30568155 AGTGTAAGACCATGTCTGGGACATGGCGTCGACTTGAGATATGAGCC
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGCTCGAGACGTAAGCC
30568202 AGTGTAAGACCAT
1 AGTGTAAGACCAT
30568215 ACACCTTACC
Statistics
Matches: 131, Mismatches: 15, Indels: 13
0.82 0.09 0.08
Matches are distributed among these distances:
45 2 0.02
46 63 0.48
47 50 0.38
48 16 0.12
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACCATGTCTGGGACATGCATCGGCTCGAGACGTAAGCC
Found at i:30568202 original size:93 final size:93
Alignment explanation
Indices: 30568015--30568211 Score: 233
Period size: 93 Copynumber: 2.1 Consensus size: 93
30568005 TATGAGAGCT
30568015 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGACGAGTGCTAGTGTAAGACATGTCTG
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGCATCGAGACGAGTGCTAGTGTAAGACATGTCTG
* *
30568080 GGACATACATCGGCTTCGAGACGTAAGCC
65 GGACATACATCGACTTCGAGACATAAGCC
* *
30568109 ATTGTAAGACATGTCTGGGACAT-GCATCGGC-TACGAGATGA-TAG-TCAGTGTAAGACCATGT
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCAT-CGAGACGAGT-GCT-AGTGTAAGA-CATGT
* * * *
30568170 CTGGGACATGGCGTCGACTT-GAGATATGAGCC
62 CTGGGACAT-ACATCGACTTCGAGACATAAGCC
30568202 AGTGTAAGAC
1 AGTGTAAGAC
30568212 CATACACCTT
Statistics
Matches: 89, Mismatches: 9, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
91 3 0.03
92 25 0.28
93 46 0.52
94 15 0.17
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.23
Consensus pattern (93 bp):
AGTGTAAGACATGTCTGGGACATGGCATCGGCATCGAGACGAGTGCTAGTGTAAGACATGTCTGG
GACATACATCGACTTCGAGACATAAGCC
Found at i:30573943 original size:23 final size:21
Alignment explanation
Indices: 30573910--30573953 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 21
30573900 TAATTTAACA
*
30573910 TAAAATCAATACAAAATCAAAAT
1 TAAAATAAATA-AAAAT-AAAAT
30573933 TAAAATAAATAAAAATAAAAT
1 TAAAATAAATAAAAATAAAAT
30573954 AAGGTTTTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 5 0.25
22 5 0.25
23 10 0.50
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (21 bp):
TAAAATAAATAAAAATAAAAT
Found at i:30573951 original size:15 final size:16
Alignment explanation
Indices: 30573923--30573955 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
30573913 AATCAATACA
*
30573923 AAATCAAAATTAAAAT
1 AAATCAAAAATAAAAT
30573939 AAAT-AAAAATAAAAT
1 AAATCAAAAATAAAAT
30573954 AA
1 AA
30573956 GGTTTTCTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (16 bp):
AAATCAAAAATAAAAT
Found at i:30576073 original size:43 final size:43
Alignment explanation
Indices: 30576025--30576110 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
30576015 GAATGCCTAA
30576025 GAGCCCTCAAAAGTGGCCTTTTCTGAATAGGACTATACTTGGG
1 GAGCCCTCAAAAGTGGCCTTTTCTGAATAGGACTATACTTGGG
30576068 GAGCCCTCAAAAGTGGCCTTTTCTGAATAGGACTATACTTGGG
1 GAGCCCTCAAAAGTGGCCTTTTCTGAATAGGACTATACTTGGG
30576111 CTCAACAAAG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.28
Consensus pattern (43 bp):
GAGCCCTCAAAAGTGGCCTTTTCTGAATAGGACTATACTTGGG
Found at i:30581491 original size:40 final size:40
Alignment explanation
Indices: 30581379--30581531 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
30581369 GGATATAGCG
* * * * ***
30581379 ACTCGCTCAAAAGCCTTCGGGACATAGCCCGGTTATAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
* * *
30581419 GCTCGCACAAATGCCTTCGGGACTTAACCCGGATTTGGGA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
* **
30581459 ACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATGGTC
1 ACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGATATGGGA
*
30581499 ACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
30581532 CATCATTCGA
Statistics
Matches: 92, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
39 3 0.03
40 78 0.85
41 11 0.12
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
Found at i:30589496 original size:40 final size:40
Alignment explanation
Indices: 30589384--30589536 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
30589374 GGATATAGCG
* * * * ***
30589384 ACTCGCTCAAAAGCCTTCGGGACATAGCCCGGTTATAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
* * *
30589424 GCTCGCACAAATGCCTTCGGGACTTAACCCGGATTTGGGA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
* **
30589464 ACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATGGTC
1 ACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGATATGGGA
*
30589504 ACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
30589537 CATCATTCGA
Statistics
Matches: 92, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
39 3 0.03
40 78 0.85
41 11 0.12
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
Found at i:30597490 original size:40 final size:41
Alignment explanation
Indices: 30597402--30597548 Score: 202
Period size: 38 Copynumber: 3.8 Consensus size: 41
30597392 ATATAACCCA
* * *
30597402 GCACAATTGCCTTCGGGA-C-TAACCCGG-TTATAGAACTC
1 GCACAAATGCCTTCGGGATCTTAGCCCGGATTATACAACTC
30597440 GCACAAATGCCTTCGGGAT-TTA-CCCGGATTAGTACAACTC
1 GCACAAATGCCTTCGGGATCTTAGCCCGGATTA-TACAACTC
30597480 GCACAAATGCCTTCGGGATCTTAGCCCGGATTA-AC-A-TC
1 GCACAAATGCCTTCGGGATCTTAGCCCGGATTATACAACTC
30597518 GCACAAATGCCTTCGGGATCTTAGCCCGGAT
1 GCACAAATGCCTTCGGGATCTTAGCCCGGAT
30597549 ATAGTCACTT
Statistics
Matches: 101, Mismatches: 2, Indels: 12
0.88 0.02 0.10
Matches are distributed among these distances:
38 55 0.54
39 6 0.06
40 28 0.28
41 3 0.03
42 9 0.09
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGGATCTTAGCCCGGATTATACAACTC
Found at i:30597520 original size:78 final size:77
Alignment explanation
Indices: 30597438--30597587 Score: 209
Period size: 78 Copynumber: 1.9 Consensus size: 77
30597428 GTTATAGAAC
*
30597438 TCGCACAAATGCCTTCGGGAT-TTA-CCCGGAT-TAGTACAAC-TCGCACAAATGCCTTCGGGAT
1 TCGCACAAATGCCTTCGGGATCTTAGCCCGGATATAGT-C-ACTTAGCA-AAA-GCCTTCGGGA-
30597499 CTTAGCCCGGATTAACA
61 CTTAGCCCGGATTAACA
*
30597516 TCGCACAAATGCCTTCGGGATCTTAGCCCGGATATAGTCACTTAGCAAAAGCCTTGGGGACTTAG
1 TCGCACAAATGCCTTCGGGATCTTAGCCCGGATATAGTCACTTAGCAAAAGCCTTCGGGACTTAG
30597581 CCCGGAT
66 CCCGGAT
30597588 CATTCAAAAT
Statistics
Matches: 66, Mismatches: 2, Indels: 9
0.86 0.03 0.12
Matches are distributed among these distances:
77 12 0.18
78 30 0.45
79 8 0.12
80 12 0.18
81 4 0.06
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (77 bp):
TCGCACAAATGCCTTCGGGATCTTAGCCCGGATATAGTCACTTAGCAAAAGCCTTCGGGACTTAG
CCCGGATTAACA
Found at i:30597536 original size:38 final size:41
Alignment explanation
Indices: 30597402--30597587 Score: 198
Period size: 38 Copynumber: 4.8 Consensus size: 41
30597392 ATATAACCCA
* * * *
30597402 GCACAATTGCCTTCGGGA-C-TAACCCGG-TTATAGAACTC
1 GCACAAATGCCTTCGGGATCTTAGCCCGGATTAGACAACTC
30597440 GCACAAATGCCTTCGGGAT-TTA-CCCGGATTAGTACAACTC
1 GCACAAATGCCTTCGGGATCTTAGCCCGGATTAG-ACAACTC
30597480 GCACAAATGCCTTCGGGATCTTAGCCCGGATTA-AC-A-TC
1 GCACAAATGCCTTCGGGATCTTAGCCCGGATTAGACAACTC
* *
30597518 GCACAAATGCCTTCGGGATCTTAGCCCGGATATAGTC-ACTTA
1 GCACAAATGCCTTCGGGATCTTAGCCCGGAT-TAGACAAC-TC
*
30597560 GCA-AAA-GCCTTGGGGA-CTTAGCCCGGAT
1 GCACAAATGCCTTCGGGATCTTAGCCCGGAT
30597588 CATTCAAAAT
Statistics
Matches: 132, Mismatches: 6, Indels: 19
0.84 0.04 0.12
Matches are distributed among these distances:
38 55 0.42
39 20 0.15
40 38 0.29
41 6 0.05
42 13 0.10
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGGATCTTAGCCCGGATTAGACAACTC
Found at i:30599600 original size:30 final size:30
Alignment explanation
Indices: 30599564--30599694 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
30599554 GACAAGATTG
* * * * *
30599564 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
30599594 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
30599622 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
30599652 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
30599681 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
30599695 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:30599655 original size:58 final size:58
Alignment explanation
Indices: 30599564--30599694 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
30599554 GACAAGATTG
* * * * * *
30599564 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
30599622 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
30599681 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
30599695 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:30607551 original size:30 final size:30
Alignment explanation
Indices: 30607515--30607645 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
30607505 GACAAGATTG
* * * * *
30607515 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
30607545 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
30607573 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
30607603 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
30607632 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
30607646 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:30607606 original size:58 final size:58
Alignment explanation
Indices: 30607515--30607645 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
30607505 GACAAGATTG
* * * * * *
30607515 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
30607573 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
30607632 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
30607646 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:30614841 original size:29 final size:29
Alignment explanation
Indices: 30614808--30614881 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
30614798 CCTTCGAGCT
30614808 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
30614837 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
30614866 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
30614882 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:30614842 original size:58 final size:58
Alignment explanation
Indices: 30614749--30614881 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
30614739 ATACTCGATT
* * * * *
30614749 TCGCACACTTAGTGCCATGCGATTTAAGCCCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
* * * ** * *
30614807 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGC
1 TCGCACACTTAGTGCCATGAGATTT-AAGCACGCACACACAGTGCCATACACTTCCAGC
*
30614865 ACGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
30614882 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (58 bp):
TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
Found at i:30619591 original size:74 final size:75
Alignment explanation
Indices: 30619470--30619642 Score: 197
Period size: 74 Copynumber: 2.3 Consensus size: 75
30619460 AAAGATTGTG
* * *
30619470 CCCAGTACTAGTCGAATTAACCGACAATAATAAATGTGAGCCCAGCTCTAGTTGGATAGACTAAC
1 CCCAGTACTAGTCGGATTAACCGACAATAATAAATATGAGCCCAGCTCTAGTTGGATAGACCAAC
30619535 -AAATTTGCA
66 GAAATTTGCA
* * * * *
30619544 CCCAGTGCTAGTCGGATTAACCGACGATAACT-ATTATGATCCCAGCTCTAGTTGGATGGACCAA
1 CCCAGTACTAGTCGGATTAACCGACAATAA-TAAATATGAGCCCAGCTCTAGTTGGATAGACCAA
*** *
30619608 CGGTGTTTGCG
65 CGAAATTTGCA
**
30619619 CCCAGCCCTAGTCGGATTAACCGA
1 CCCAGTACTAGTCGGATTAACCGA
30619643 TGGTTGTATG
Statistics
Matches: 83, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
74 55 0.66
75 28 0.34
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.24
Consensus pattern (75 bp):
CCCAGTACTAGTCGGATTAACCGACAATAATAAATATGAGCCCAGCTCTAGTTGGATAGACCAAC
GAAATTTGCA
Found at i:30622465 original size:49 final size:49
Alignment explanation
Indices: 30622392--30622501 Score: 170
Period size: 49 Copynumber: 2.2 Consensus size: 49
30622382 TATGGTTTTA
*
30622392 CACATATTCACATAATGATGCCATAGCCCAGCTATGGTCTTACACATAAT
1 CACATATTCACATAATGATGCCATAGCCCAGCTATGGTCTTACAC-GAAT
30622442 CACATATT-ACAT-ATCGATGCCATAGCCCAGCTATGGTCTTACACGAAT
1 CACATATTCACATAAT-GATGCCATAGCCCAGCTATGGTCTTACACGAAT
30622490 CACATATCTCAC
1 CACATAT-TCAC
30622502 TGATATGATA
Statistics
Matches: 56, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
48 12 0.21
49 34 0.61
50 10 0.18
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.27
Consensus pattern (49 bp):
CACATATTCACATAATGATGCCATAGCCCAGCTATGGTCTTACACGAAT
Found at i:30622632 original size:31 final size:31
Alignment explanation
Indices: 30622597--30622745 Score: 210
Period size: 31 Copynumber: 4.8 Consensus size: 31
30622587 CTTGTCACTT
* *
30622597 GTAGCCGAAGGTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
30622628 GTAGCCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
30622659 GTAGCC-AGAGCAACCACTTTTCACTGATCAG
1 GTAGCCGA-AGCTACCACTTTTCACTGATCAG
*
30622690 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
30622721 GTAGCCGAAGCTGCCATTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
30622746 TGTCATTTGT
Statistics
Matches: 104, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
31 103 0.99
32 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:30622818 original size:50 final size:50
Alignment explanation
Indices: 30622721--30622897 Score: 246
Period size: 50 Copynumber: 3.5 Consensus size: 50
30622711 CACTGATCAG
** * * *
30622721 GTAGCCGAAGCTGCCATTTTTCACTTGTCATTTGTCCTTGATCAGATAACT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCCTTGATCAGATAAGT
* *
30622772 ATAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
** *
30622822 GTAGCTAAAGCTATTACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
*
30622872 GTAGCTGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
30622898 GTTGCCATGG
Statistics
Matches: 112, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
50 91 0.81
51 21 0.19
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:30626498 original size:46 final size:46
Alignment explanation
Indices: 30626431--30626604 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
30626421 TGTAACCCGC
*
30626431 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
30626477 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * * *
30626527 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGAC-ATCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
30626569 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
30626605 ATGCCCAAAT
Statistics
Matches: 110, Mismatches: 9, Indels: 19
0.80 0.07 0.14
Matches are distributed among these distances:
41 1 0.01
42 3 0.03
43 1 0.01
44 3 0.03
45 28 0.25
46 35 0.32
47 28 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:30626597 original size:92 final size:93
Alignment explanation
Indices: 30626439--30626609 Score: 308
Period size: 92 Copynumber: 1.8 Consensus size: 93
30626429 GCCCATAAGT
* *
30626439 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGATCGCATCCATAAGTGAACTCGGACTCAACTCAA
30626504 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
30626532 GAACTCGGACTCAACTCAACGAGTTCGGAC-ATCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGATCGCATCCATAAGTGAACTCGGACTCAACTCAA
30626596 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
30626610 CAAATATCCC
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 47 0.63
93 28 0.37
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGATCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:30629032 original size:30 final size:30
Alignment explanation
Indices: 30628988--30629076 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
30628978 CAAAGATAAC
30628988 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
30629017 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
30629047 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
30629077 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:30629036 original size:15 final size:15
Alignment explanation
Indices: 30628988--30629067 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
30628978 CAAAGATAAC
*
30628988 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
30629002 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
30629017 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
30629032 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
30629047 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
30629062 AAGAAA
1 AAGAAA
30629068 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:30629076 original size:15 final size:15
Alignment explanation
Indices: 30628999--30629076 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
30628989 AGAAAACCGA
30628999 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
30629014 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
30629028 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
30629043 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
30629059 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
30629074 ATA
1 ATA
30629077 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:30632132 original size:93 final size:93
Alignment explanation
Indices: 30632020--30632191 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
30632010 GCCCATAAGT
* *
30632020 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
30632085 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
30632113 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
30632178 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
30632192 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:30632187 original size:46 final size:46
Alignment explanation
Indices: 30632012--30632187 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
30632002 TGTAACCCGC
* * *
30632012 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
30632058 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
30632108 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
30632151 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
30632188 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 64 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:30636942 original size:47 final size:46
Alignment explanation
Indices: 30636824--30636997 Score: 189
Period size: 45 Copynumber: 3.8 Consensus size: 46
30636814 GGGATATTTG
*
30636824 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCGA
* * *
30636871 TG--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATGTAACTA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATG---CGA
*
30636916 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCG-A
* *
30636964 CGC--CCGAGCTCGTTGAGTTGAGTCCGAGTTCACT
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT
30636998 TATGGGCGGG
Statistics
Matches: 108, Mismatches: 10, Indels: 19
0.79 0.07 0.14
Matches are distributed among these distances:
42 4 0.04
44 2 0.02
45 32 0.30
46 30 0.28
47 31 0.29
48 5 0.05
50 4 0.04
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (46 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCGA
Found at i:30636993 original size:46 final size:46
Alignment explanation
Indices: 30636829--30637002 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
30636819 ATTTGGGCAT
* *
30636829 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-ATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * *
30636874 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
30636919 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
30636967 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
30637003 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 9, Indels: 19
0.80 0.07 0.14
Matches are distributed among these distances:
42 5 0.05
44 2 0.02
45 29 0.26
46 35 0.32
47 28 0.25
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:30639975 original size:15 final size:15
Alignment explanation
Indices: 30639955--30640023 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
30639945 GTATCTTGGG
30639955 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
30639970 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
30639985 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
30640000 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
30640015 TTTCTTTAT
1 TTTCTTTAT
30640024 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:30640024 original size:30 final size:30
Alignment explanation
Indices: 30639946--30640033 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
30639936 CATAGTATCG
* * * *
30639946 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
30639976 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
30640006 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
30640034 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:30642469 original size:46 final size:46
Alignment explanation
Indices: 30642416--30642591 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
30642406 TATTTGGGCA
30642416 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
30642462 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
30642509 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
30642555 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
30642592 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:30642571 original size:93 final size:93
Alignment explanation
Indices: 30642412--30642583 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
30642402 GGGATATTTG
* *
30642412 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
30642477 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
30642505 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
30642570 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
30642584 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:30649943 original size:13 final size:13
Alignment explanation
Indices: 30649925--30649952 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
30649915 ACATATTATA
30649925 AATATTTTGTGTT
1 AATATTTTGTGTT
30649938 AATATTTTGTGTT
1 AATATTTTGTGTT
30649951 AA
1 AA
30649953 AAATAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.14, T:0.57
Consensus pattern (13 bp):
AATATTTTGTGTT
Found at i:30650547 original size:40 final size:40
Alignment explanation
Indices: 30650499--30650704 Score: 337
Period size: 40 Copynumber: 5.2 Consensus size: 40
30650489 GGACTAAGAT
30650499 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
30650539 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
30650579 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
30650619 CCGAAGGCATTTGTGCGAGTTG-CTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTC
* *
30650659 CCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTC
30650698 CCGAAGG
1 CCGAAGG
30650705 TACTTGGGTT
Statistics
Matches: 161, Mismatches: 4, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
39 15 0.09
40 144 0.89
41 2 0.01
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
Found at i:30654119 original size:81 final size:81
Alignment explanation
Indices: 30654007--30654362 Score: 502
Period size: 81 Copynumber: 4.4 Consensus size: 81
30653997 CGATTTGTAA
* * * *
30654007 AATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTA-CCCTTAGTTTACAGAATTA-CTAT
1 AATTACCGTTTTACCCCCGATTTACATAATTACCGTTTTACCCCTGA-TTTACATAATTATC-AT
* *
30654070 TTTACCCCCGATTTACAG
64 TTTACCCTCGACTTACAG
* *
30654088 AATTACCATTTTACCCCCGATTTACATAATTACCGTTTTACCCCTGATTTACATAATTATCGTTT
1 AATTACCGTTTTACCCCCGATTTACATAATTACCGTTTTACCCCTGATTTACATAATTATCATTT
30654153 TACCCTCGACTTACAG
66 TACCCTCGACTTACAG
** *
30654169 AATTACCGTTTTACCCCTAATTTACATAATTACCGTTTTACCCCTGATTTACATAATTATCGTTT
1 AATTACCGTTTTACCCCCGATTTACATAATTACCGTTTTACCCCTGATTTACATAATTATCATTT
30654234 TACCCTCGACTTACAG
66 TACCCTCGACTTACAG
** *
30654250 AATTACCGTTTTACCCCTAATTTACATAATTACTGTTTTACCCCTGATTTACATAATTATCATTT
1 AATTACCGTTTTACCCCCGATTTACATAATTACCGTTTTACCCCTGATTTACATAATTATCATTT
* *
30654315 TA-CCTTGATTTACAG
66 TACCCTCGACTTACAG
* * *
30654330 AATTACTGTTTTACCCTCGATTTACAAAATTAC
1 AATTACCGTTTTACCCCCGATTTACATAATTAC
30654363 TAAAATACCC
Statistics
Matches: 253, Mismatches: 20, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
80 39 0.15
81 208 0.82
82 6 0.02
ACGTcount: A:0.28, C:0.24, G:0.08, T:0.40
Consensus pattern (81 bp):
AATTACCGTTTTACCCCCGATTTACATAATTACCGTTTTACCCCTGATTTACATAATTATCATTT
TACCCTCGACTTACAG
Found at i:30654363 original size:27 final size:27
Alignment explanation
Indices: 30653993--30654362 Score: 394
Period size: 27 Copynumber: 13.7 Consensus size: 27
30653983 TACTGAAATG
** *
30653993 CCCTCGATTTGTAAAATTACCGTTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
30654020 CCCTCGATTTACAGAATTACCGTTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
* **
30654047 CCCT-TAGTTTACAGAATTACTATTTTA
1 CCCTCGA-TTTACAGAATTACCGTTTTA
* *
30654074 CCCCCGATTTACAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
* *
30654101 CCCCCGATTTACATAATTACCGTTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
* *
30654128 CCC-CTGATTTACATAATTATCGTTTTA
1 CCCTC-GATTTACAGAATTACCGTTTTA
*
30654155 CCCTCGACTTACAGAATTACCGTTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
* *
30654182 CCC-CTAATTTACATAATTACCGTTTTA
1 CCCTC-GATTTACAGAATTACCGTTTTA
* *
30654209 CCC-CTGATTTACATAATTATCGTTTTA
1 CCCTC-GATTTACAGAATTACCGTTTTA
*
30654236 CCCTCGACTTACAGAATTACCGTTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
* * *
30654263 CCC-CTAATTTACATAATTACTGTTTTA
1 CCCTC-GATTTACAGAATTACCGTTTTA
* * *
30654290 CCC-CTGATTTACATAATTATCATTTTA
1 CCCTC-GATTTACAGAATTACCGTTTTA
* *
30654317 -CCTTGATTTACAGAATTACTGTTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
*
30654343 CCCTCGATTTACAAAATTAC
1 CCCTCGATTTACAGAATTAC
30654363 TAAAATACCC
Statistics
Matches: 296, Mismatches: 38, Indels: 18
0.84 0.11 0.05
Matches are distributed among these distances:
26 24 0.08
27 269 0.91
28 3 0.01
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.40
Consensus pattern (27 bp):
CCCTCGATTTACAGAATTACCGTTTTA
Found at i:30654371 original size:27 final size:27
Alignment explanation
Indices: 30654341--30654593 Score: 149
Period size: 27 Copynumber: 9.3 Consensus size: 27
30654331 ATTACTGTTT
* * *
30654341 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGATTTGCAAAATTACCAAAA
*
30654368 TACCCTT-AGTTTGTAAAATTACCAAAA
1 TACCCTTGA-TTTGCAAAATTACCAAAA
* *
30654395 TACCCCT-AGTTTGTAAAATTACCAAAA
1 TACCCTTGA-TTTGCAAAATTACCAAAA
* ** *
30654422 TACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTTGATTTGCAAAATTACCAAAA
* * *
30654449 TACCTTTAATTTGTAAAATTACCAAAA
1 TACCCTTGATTTGCAAAATTACCAAAA
* * * *
30654476 TACCCCTAATTTACAAAGTTA-CAGAAA
1 TACCCTTGATTTGCAAAATTACCA-AAA
*
30654503 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTTGA-TTTGC--AAAATTACCA-AAA
* * * **
30654532 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGATTTGCAAAATTACCAAAA
* * *
30654559 TACCCTT-AGTTTGTAGATTTACCAAAA
1 TACCCTTGA-TTTGCAAAATTACCAAAA
*
30654586 CACCCTTG
1 TACCCTTG
30654594 TAGGATGAAA
Statistics
Matches: 181, Mismatches: 35, Indels: 19
0.77 0.15 0.08
Matches are distributed among these distances:
26 3 0.02
27 152 0.84
28 7 0.04
29 19 0.10
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (27 bp):
TACCCTTGATTTGCAAAATTACCAAAA
Found at i:30654413 original size:54 final size:54
Alignment explanation
Indices: 30654355--30654592 Score: 210
Period size: 54 Copynumber: 4.4 Consensus size: 54
30654345 CTCGATTTAC
* ** *
30654355 AAAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCTTAGTTTACAAAATTACCAAAATACCCTTAGTTTGT
* *** * * *
30654409 AAAATTACCAAAATACCCTTGGTTTGTGAAATTACCGAAATACCTTTAATTTGT
1 AAAATTACCAAAATACCCTTAGTTTACAAAATTACCAAAATACCCTTAGTTTGT
* * * * *
30654463 AAAATTACCAAAATACCCCTAATTTACAAAGTTA-CAGAAATACCCTTGACTTTCT
1 AAAATTACCAAAATACCCTTAGTTTACAAAATTACCA-AAATACCCTT-AGTTTGT
* * * **
30654518 AAAAATTA-TAGAAATACCATTGGTTTACAAAATTACTGAAATACCCTTAGTTTGT
1 -AAAATTACCA-AAATACCCTTAGTTTACAAAATTACCAAAATACCCTTAGTTTGT
* * *
30654573 AGATTTACCAAAACACCCTT
1 AAAATTACCAAAATACCCTT
30654593 GTAGGATGAA
Statistics
Matches: 145, Mismatches: 33, Indels: 12
0.76 0.17 0.06
Matches are distributed among these distances:
53 1 0.01
54 96 0.66
55 12 0.08
56 36 0.25
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.32
Consensus pattern (54 bp):
AAAATTACCAAAATACCCTTAGTTTACAAAATTACCAAAATACCCTTAGTTTGT
Found at i:30654441 original size:81 final size:81
Alignment explanation
Indices: 30654356--30654617 Score: 242
Period size: 81 Copynumber: 3.2 Consensus size: 81
30654346 TCGATTTACA
30654356 AAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAA
1 AAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAA
30654421 ATACCCTTGGTTTGTG
66 ATACCCTTGGTTTGTG
** * * * ** *
30654437 AAATTACCGAAATACCTTTAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAGTTA-CAGA
1 AAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCA-A
* * *
30654501 AATACCCTTGACTTTCTAA
65 AATACCCTTG-GTTTGT-G
* * ** ** * * *
30654520 AAATTA-TAGAAATACCATTGGTTTACAAAATTACTGAAATACCCTTAGTTTGTAGATTTACCAA
1 AAATTACTA-AAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAA
* **
30654584 AACACCCTT-GTAGGATG
65 AATACCCTTGGTTTG-TG
*
30654601 AAATGACTAAAATACCC
1 AAATTACTAAAATACCC
30654618 CTATTAGGTA
Statistics
Matches: 140, Mismatches: 34, Indels: 14
0.74 0.18 0.07
Matches are distributed among these distances:
80 2 0.01
81 76 0.54
82 7 0.05
83 53 0.38
84 2 0.01
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (81 bp):
AAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAA
ATACCCTTGGTTTGTG
Found at i:30654672 original size:27 final size:27
Alignment explanation
Indices: 30654624--30654688 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
30654614 ACCCCTATTA
30654624 GGTAAAGTGACCGTAAAGCCCCTGTAG
1 GGTAAAGTGACCGTAAAGCCCCTGTAG
* *
30654651 GGTAAAGTGACCGTGATA-CCCCTGTAT
1 GGTAAAGTGACCGT-AAAGCCCCTGTAG
*
30654678 GGTAAAATGAC
1 GGTAAAGTGAC
30654689 GAATATGCCC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
27 32 0.94
28 2 0.06
ACGTcount: A:0.31, C:0.20, G:0.28, T:0.22
Consensus pattern (27 bp):
GGTAAAGTGACCGTAAAGCCCCTGTAG
Found at i:30655878 original size:25 final size:25
Alignment explanation
Indices: 30655850--30655897 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
30655840 TTATACCATG
* * *
30655850 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
30655875 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
30655898 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:30656000 original size:20 final size:20
Alignment explanation
Indices: 30655940--30656000 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
30655930 ATAAATATGG
*
30655940 TATGTATGAGATGCACATGA
1 TATGTATGATATGCACATGA
*
30655960 CATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
30655980 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
30656000 T
1 T
30656001 GTAATCATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.33
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:30656081 original size:23 final size:23
Alignment explanation
Indices: 30656051--30656240 Score: 272
Period size: 23 Copynumber: 8.1 Consensus size: 23
30656041 AGGAAGTGCA
*
30656051 AAAGGGCTTATGCCCTAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
30656074 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
30656097 AAAGGGCTTATGCCCCAGCTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
30656121 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
30656145 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
30656168 AAAGGGCTTATGCCCCAGTGATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
30656192 AAAGGGCTTACGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
30656215 AAAGGGTTTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
30656238 AAA
1 AAA
30656241 AGAGGCAAGG
Statistics
Matches: 152, Mismatches: 13, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
23 87 0.57
24 65 0.43
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.28
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:30656135 original size:47 final size:47
Alignment explanation
Indices: 30656049--30656242 Score: 291
Period size: 47 Copynumber: 4.1 Consensus size: 47
30656039 GGAGGAAGTG
*
30656049 CAAAAGGGCTTATGCCCTAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
* * *
30656096 -TAAAGGGCTTATGCCCCAGCTATCAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
*
30656143 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTGAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
* * *
30656190 CAAAAGGGCTTACGCCCCAGTTATTAAAGGGTTTTTGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
*
30656237 TAAAAG
1 CAAAAG
30656243 AGGCAAGGCC
Statistics
Matches: 132, Mismatches: 13, Indels: 4
0.89 0.09 0.03
Matches are distributed among these distances:
46 20 0.15
47 91 0.69
48 21 0.16
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (47 bp):
CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
Found at i:30656445 original size:42 final size:42
Alignment explanation
Indices: 30656382--30656473 Score: 123
Period size: 42 Copynumber: 2.2 Consensus size: 42
30656372 TAGTCTCCCC
* **
30656382 AAATGGGTTTGCATACATTCATTGGTATT-TCATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTAT-ATGTGATATTG
* *
30656424 AAATGGGCTTGCATTCTTTCATTGACATTATATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTATATGTGATATTG
30656466 AAATGGGC
1 AAATGGGC
30656474 CTATGGGCCA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
42 43 0.98
43 1 0.02
ACGTcount: A:0.27, C:0.11, G:0.22, T:0.40
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGACATTATATGTGATATTG
Found at i:30656542 original size:31 final size:31
Alignment explanation
Indices: 30656497--30656563 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
30656487 CGTTTACAGT
30656497 AAAGGCTTCAGCCCAGTAATATGAAATATGA
1 AAAGGCTTCAGCCCAGTAATATGAAATATGA
* * ** *
30656528 AAAGGTTTCGGCCCAGTGTTATGAATTATGA
1 AAAGGCTTCAGCCCAGTAATATGAAATATGA
30656559 AAAGG
1 AAAGG
30656564 GCTATGGTCC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.37, C:0.13, G:0.24, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAGTAATATGAAATATGA
Found at i:30666682 original size:48 final size:48
Alignment explanation
Indices: 30666611--30666849 Score: 352
Period size: 48 Copynumber: 4.9 Consensus size: 48
30666601 ATGACAGTGC
*
30666611 ATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCTAT
1 ATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAT
* * *
30666659 ATGTGATCCCATGTAAGACCATGTCTAGGACATGGTATTAGCATCGAT
1 ATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAT
* *
30666707 ATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAAT
1 ATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAT
*
30666755 ATGTGATCATCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCGAT
1 ATGTG---ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAT
* * * *
30666806 ATGTGATCCCATATAAGACCATATCTGGGATATGGCATCGGCAT
1 ATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
30666850 GTGATTTCGT
Statistics
Matches: 171, Mismatches: 17, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
48 125 0.73
51 46 0.27
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (48 bp):
ATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAT
Found at i:30666823 original size:99 final size:96
Alignment explanation
Indices: 30666611--30666849 Score: 361
Period size: 99 Copynumber: 2.5 Consensus size: 96
30666601 ATGACAGTGC
*
30666611 ATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCTATATGTGATCCCATGTAAG
1 ATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAATATGTGATCCCATGTAAG
*
30666676 ACCATGTCTAGGACATGGTATTAGCATCGAT
66 ACCATGTCTAGGACATGGCATTAGCATCGAT
*
30666707 ATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAATATGTGATCATCCCATGT
1 ATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAATATGTG---ATCCCATGT
* * *
30666772 AAGACCATGTTTGGGACATGGCATTGGCATCGAT
63 AAGACCATGTCTAGGACATGGCATTAGCATCGAT
* * * *
30666806 ATGTGATCCCATATAAGACCATATCTGGGATATGGCATCGGCAT
1 ATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
30666850 GTGATTTCGT
Statistics
Matches: 129, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
96 51 0.40
99 78 0.60
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (96 bp):
ATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAATATGTGATCCCATGTAAG
ACCATGTCTAGGACATGGCATTAGCATCGAT
Found at i:30674005 original size:48 final size:48
Alignment explanation
Indices: 30673944--30674223 Score: 366
Period size: 48 Copynumber: 5.8 Consensus size: 48
30673934 CAGTACATGT
30673944 GATCCCATGTAAGACCATGTCTGCGG-CATGGCATTGGCATCGATATGA
1 GATCCCATGTAAGACCATGTCTG-GGACATGGCATTGGCATCGATATGA
* *
30673992 GATCCCATATAAGACCATGTTTGGGACATGGCATTGGCATCGATATGTA
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATG-A
* * *
30674041 -ATCTCATGTAGGACCATGTCTGGGACATGGCATTGGCATCGATATGT
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGA
** * * *
30674088 GATCTTATGTAAGACTATGCCTGGGACATGGCATTTGCATCGATATGA
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGA
* *
30674136 GATCCCATGTAAGACCATGTCTGAGACATGGCATTGGCATCGATATGT
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGA
* * * * * *
30674184 GATCCCGTATAAAACCATATCTGGGATATGGCATCGGCAT
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
30674224 GTGATTTCGT
Statistics
Matches: 202, Mismatches: 27, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
47 2 0.01
48 199 0.99
49 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (48 bp):
GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGA
Found at i:30674243 original size:42 final size:42
Alignment explanation
Indices: 30674170--30674261 Score: 103
Period size: 42 Copynumber: 2.2 Consensus size: 42
30674160 GACATGGCAT
* *
30674170 TGGCATCGATATGTGATCCCGTATAAAACCATATCTGGGATA
1 TGGCATCGACATGTGATCCCGTATAAAACCATAGCTGGGATA
* ** * * *
30674212 TGGCATCGGCATGTGATTTCGTGTAAGACCATAGCTGGGCTA
1 TGGCATCGACATGTGATCCCGTATAAAACCATAGCTGGGATA
*
30674254 TTGCATCG
1 TGGCATCG
30674262 TAACGACATG
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (42 bp):
TGGCATCGACATGTGATCCCGTATAAAACCATAGCTGGGATA
Found at i:30678403 original size:108 final size:108
Alignment explanation
Indices: 30678254--30678619 Score: 533
Period size: 108 Copynumber: 3.4 Consensus size: 108
30678244 AAAGTACTCC
* * *
30678254 CGATTTACAGAATTATCGTTTTACCCTC-AGTT-TACAGAATTACCGTTTTACCCTCGATTTACA
1 CGATTTACAGAATTACCGTTTTACCCTCGATTTGTA-A-AATTACCGTTTTACCCTCGATTTATA
*
30678317 GAATTACCGTTTTACCCTCAGTTTACAAAATTACTATTTTACCCT
64 GAATTACCGTTTTACCCTCAGTTTACAAAATTACTGTTTTACCCT
* * *
30678362 CGATTTATAGAATTACCGTTTTACCCTCGATTTGTAAAATTATCGTTTTACCCTCGATTTATAAA
1 CGATTTACAGAATTACCGTTTTACCCTCGATTTGTAAAATTACCGTTTTACCCTCGATTTATAGA
* *
30678427 ATTATCGTTTTACCCTCAGTTTACAGAATTACTGTTTTACCCT
66 ATTACCGTTTTACCCTCAGTTTACAAAATTACTGTTTTACCCT
* *
30678470 CGATTTACAGAATTACCGTTTTACCCTTGATTTGTAAAATTACCGTTTTACCCTTGATTTATAGA
1 CGATTTACAGAATTACCGTTTTACCCTCGATTTGTAAAATTACCGTTTTACCCTCGATTTATAGA
* * *
30678535 ATTACTGGTTTACCCTCAATTTACAAAATTA-TCGTTTTACCCT
66 ATTACCGTTTTACCCTCAGTTTACAAAATTACT-GTTTTACCCT
* *
30678578 CGATTTACAGAATTACCGTTTTACCCTTGA-TTGTGAAATTAC
1 CGATTTACAGAATTACCGTTTTACCCTCGATTTGTAAAATTAC
30678620 TGAAATACCC
Statistics
Matches: 235, Mismatches: 20, Indels: 7
0.90 0.08 0.03
Matches are distributed among these distances:
107 12 0.05
108 217 0.92
109 4 0.02
110 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.10, T:0.41
Consensus pattern (108 bp):
CGATTTACAGAATTACCGTTTTACCCTCGATTTGTAAAATTACCGTTTTACCCTCGATTTATAGA
ATTACCGTTTTACCCTCAGTTTACAAAATTACTGTTTTACCCT
Found at i:30678609 original size:27 final size:27
Alignment explanation
Indices: 30678254--30678609 Score: 439
Period size: 27 Copynumber: 13.2 Consensus size: 27
30678244 AAAGTACTCC
*
30678254 CGATTTACAGAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
30678281 C-AGTTTACAGAATTACCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
30678308 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* **
30678335 C-AGTTTACAAAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
30678362 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * *
30678389 CGATTTGTAAAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
30678416 CGATTTATAAAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
30678443 C-AGTTTACAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
30678470 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* ** *
30678497 TGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * * *
30678524 TGATTTATAGAATTACTGGTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
30678551 CAATTTACAAAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
30678578 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
30678605 TGATT
1 CGATT
30678610 GTGAAATTAC
Statistics
Matches: 287, Mismatches: 36, Indels: 12
0.86 0.11 0.04
Matches are distributed among these distances:
26 3 0.01
27 281 0.98
28 3 0.01
ACGTcount: A:0.27, C:0.22, G:0.10, T:0.41
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:30678651 original size:27 final size:27
Alignment explanation
Indices: 30678614--30678782 Score: 214
Period size: 27 Copynumber: 6.3 Consensus size: 27
30678604 TTGATTGTGA
*
30678614 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
30678641 AATTTCCGAAATA-CCTCTATAGGGTAG
1 AATTACCGAAATACCCT-TGTAGGGTAG
* * *
30678668 AATTACTGAAATACCCTTATAAGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
30678695 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
30678722 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
30678749 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
30678776 AATTACC
1 AATTACC
30678783 ATTTTGCCCC
Statistics
Matches: 122, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
26 3 0.02
27 116 0.95
28 3 0.02
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:30679019 original size:27 final size:26
Alignment explanation
Indices: 30678981--30679063 Score: 94
Period size: 27 Copynumber: 3.1 Consensus size: 26
30678971 TGGAGGAAGC
30678981 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTATGCCAC-AATATCT
*
30679008 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTATGCCACAATATCT
* * * * *
30679034 ATATTTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTATGCCACAATATCT
30679061 GTT
1 GTT
30679064 GACCGATCAA
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
26 9 0.18
27 40 0.82
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTATGCCACAATATCT
Found at i:30679183 original size:22 final size:22
Alignment explanation
Indices: 30679151--30679209 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
30679141 CCCGTTATTA
*
30679151 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
30679173 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
30679195 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
30679210 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:30679396 original size:27 final size:27
Alignment explanation
Indices: 30679374--30679447 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
30679364 TAGGTGGGTT
*
30679374 TGCCACATTATCTG-ATTCTGGTGGCTC
1 TGCCACAATATCTGTA-TCTGGTGGCTC
*
30679401 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGGCTC
* *
30679428 TGTCACGATATCTGT-TCTGG
1 TGCCACAATATCTGTATCTGG
30679448 CAGCCATGCT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 5 0.12
27 36 0.86
28 1 0.02
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGGCTC
Found at i:30679574 original size:6 final size:6
Alignment explanation
Indices: 30679565--30679751 Score: 172
Period size: 6 Copynumber: 30.8 Consensus size: 6
30679555 TTGCATTCAC
* *
30679565 ATTCTG ATTCTG ATTCTG -TCACATA ATTCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
30679614 -TTACTA ATACTG ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG CTTCTG
1 ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG
* * *
30679662 ATTCTG -TCACCTA ATTCTG ATTCTG ATTCTG ATTCTG -TTACTA ATAT-TG
1 ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG AT-TCTG
30679711 ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCT
30679752 CATTTTAGTT
Statistics
Matches: 149, Mismatches: 16, Indels: 32
0.76 0.08 0.16
Matches are distributed among these distances:
5 11 0.07
6 125 0.84
7 10 0.07
8 3 0.02
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:30679664 original size:85 final size:85
Alignment explanation
Indices: 30679565--30679751 Score: 347
Period size: 85 Copynumber: 2.2 Consensus size: 85
30679555 TTGCATTCAC
30679565 ATTCTGATTCTGATTCTGTCACATAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
1 ATTCTGATTCTGATTCTGTCACATAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
30679630 TGATTCTGATTCTGTTACTG
66 TGATTCTGATTCTGTTACTG
* * *
30679650 ATTCTGCTTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATATTGATTC
1 ATTCTGATTCTGATTCTGTCACATAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
30679715 TGATTCTGATTCTGTTACTG
66 TGATTCTGATTCTGTTACTG
30679735 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
30679752 CATTTTAGTT
Statistics
Matches: 98, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
85 98 1.00
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (85 bp):
ATTCTGATTCTGATTCTGTCACATAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
TGATTCTGATTCTGTTACTG
Found at i:30679772 original size:30 final size:30
Alignment explanation
Indices: 30679565--30679751 Score: 253
Period size: 30 Copynumber: 6.4 Consensus size: 30
30679555 TTGCATTCAC
*
30679565 ATTCTGATTCTGATTCTGTCACATAATTCTG
1 ATTCTGATTCTGATTCTGTTAC-TAATTCTG
*
30679596 ATTCTGATTCTGATTCTGTTACTAATACTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
30679626 ATTCTGATTCTGATTCTG-T--T-A--CTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
* *
30679650 ATTCTGCTTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTA-CTAATTCTG
30679681 ATTCTGATTCTGATTCTGTTACTAATAT-TG
1 ATTCTGATTCTGATTCTGTTACTAAT-TCTG
*
30679711 ATTCTGATTCTGATTCTGTTACTGATTCTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
30679741 ATTCTGATTCT
1 ATTCTGATTCT
30679752 CATTTTAGTT
Statistics
Matches: 140, Mismatches: 7, Indels: 19
0.84 0.04 0.11
Matches are distributed among these distances:
24 20 0.14
26 1 0.01
27 1 0.01
28 1 0.01
29 3 0.02
30 70 0.50
31 44 0.31
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTTACTAATTCTG
Found at i:30681254 original size:24 final size:24
Alignment explanation
Indices: 30681227--30681313 Score: 111
Period size: 24 Copynumber: 3.6 Consensus size: 24
30681217 AGAAAATACA
* ** *
30681227 GCACTATGTGTGCAAGGCTATGTG
1 GCACTATGTGTGCGAGAATACGTG
* *
30681251 GCACTATGTGTGCGAGATTACATG
1 GCACTATGTGTGCGAGAATACGTG
*
30681275 GCACTATGTGTGCGAGAAAACGTG
1 GCACTATGTGTGCGAGAATACGTG
30681299 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
30681314 ATAAGTAAGA
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 55 1.00
ACGTcount: A:0.24, C:0.17, G:0.32, T:0.26
Consensus pattern (24 bp):
GCACTATGTGTGCGAGAATACGTG
Found at i:30688374 original size:27 final size:27
Alignment explanation
Indices: 30688335--30688596 Score: 250
Period size: 27 Copynumber: 9.9 Consensus size: 27
30688325 CAAAATTGAT
* *
30688335 AAATGACTATTTTTCCCTTATGTGGTA
1 AAATGACTGTTTTGCCCTTATGTGGTA
* * *
30688362 AAATGATTGTTTTTCCCTTATATGGTA
1 AAATGACTGTTTTGCCCTTATGTGGTA
30688389 AAATGACTGTTTTGCCCTTATGTGGTA
1 AAATGACTGTTTTGCCCTTATGTGGTA
* *
30688416 AAATGACTGTTTTGCCCTAAT-TGATA
1 AAATGACTGTTTTGCCCTTATGTGGTA
* * **
30688442 AAATGACTGTTTTTCCCCTAAT-TTATA
1 AAATGACTG-TTTTGCCCTTATGTGGTA
* * * ** *
30688469 AAATGATTATTTTTCCCCAAAT-TGAT-
1 AAATGACT-GTTTTGCCCTTATGTGGTA
* * *
30688495 AAATGA-T-TTTTCCCCTAAT-TGATA
1 AAATGACTGTTTTGCCCTTATGTGGTA
*
30688519 AAATGACTATTTTGCCCTTATGTGGTA
1 AAATGACTGTTTTGCCCTTATGTGGTA
30688546 AAATGACTGTTTTGCCCTTATGTGGTA
1 AAATGACTGTTTTGCCCTTATGTGGTA
* *
30688573 AAATGATTGTTTTGCCCCTATGTG
1 AAATGACTGTTTTGCCCTTATGTG
30688597 ATATATGGTT
Statistics
Matches: 208, Mismatches: 21, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
23 15 0.07
24 6 0.03
25 2 0.01
26 29 0.14
27 156 0.75
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.42
Consensus pattern (27 bp):
AAATGACTGTTTTGCCCTTATGTGGTA
Found at i:30688507 original size:23 final size:23
Alignment explanation
Indices: 30688477--30688520 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
30688467 TAAAATGATT
30688477 ATTTTTCCCCAAATTGATAAATG
1 ATTTTTCCCCAAATTGATAAATG
*
30688500 ATTTTTCCCCTAATTGATAAA
1 ATTTTTCCCCAAATTGATAAA
30688521 ATGACTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.34, C:0.18, G:0.07, T:0.41
Consensus pattern (23 bp):
ATTTTTCCCCAAATTGATAAATG
Found at i:30691216 original size:42 final size:42
Alignment explanation
Indices: 30691110--30691216 Score: 117
Period size: 42 Copynumber: 2.5 Consensus size: 42
30691100 AGATTCTATA
* * *
30691110 TAAGACCATATCCGGGATATGGCCTCGGTATGTGATTTCGTG
1 TAAGACCATATCAGGGATATGGCCTCGATATGTGATTTCATG
* * * * *
30691152 TAAGACTATGTCAAGGACATGGCGTCGATATGAT-ATTTCATG
1 TAAGACCATATCAGGGATATGGCCTCGATATG-TGATTTCATG
*
30691194 TAAGACCATAACAGGGATATGGC
1 TAAGACCATATCAGGGATATGGC
30691217 ATTGATACAG
Statistics
Matches: 51, Mismatches: 13, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
42 50 0.98
43 1 0.02
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (42 bp):
TAAGACCATATCAGGGATATGGCCTCGATATGTGATTTCATG
Found at i:30691889 original size:28 final size:28
Alignment explanation
Indices: 30691858--30691911 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
30691848 AAATGAGCAA
30691858 GTGGTAATAATGAGATTTAATGCAATAT
1 GTGGTAATAATGAGATTTAATGCAATAT
30691886 GTGGTAATAATGAGATTTAATGCAAT
1 GTGGTAATAATGAGATTTAATGCAAT
30691912 TTGTATTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.39, C:0.04, G:0.22, T:0.35
Consensus pattern (28 bp):
GTGGTAATAATGAGATTTAATGCAATAT
Found at i:30691921 original size:28 final size:28
Alignment explanation
Indices: 30691861--30691923 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
30691851 TGAGCAAGTG
*
30691861 GTAATAATGAGATTTAATGCAATATGTG
1 GTAATAATGAGATTTAATGCAATATGTA
*
30691889 GTAATAATGAGATTTAATGCAATTTGTA
1 GTAATAATGAGATTTAATGCAATATGTA
*
30691917 TTAATAA
1 GTAATAA
30691924 CATTTTTATG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.41, C:0.03, G:0.17, T:0.38
Consensus pattern (28 bp):
GTAATAATGAGATTTAATGCAATATGTA
Done.