Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr6
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: 56482370
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1659275 characters in sequence are not A, C, G, or T
File 171 of 172
Found at i:56062491 original size:62 final size:62
Alignment explanation
Indices: 56062387--56062570 Score: 323
Period size: 62 Copynumber: 3.0 Consensus size: 62
56062377 CTAAACTCGA
* * *
56062387 CGTACTTTTGGATTTTAGGAAATTTATTGTATGCAATGAAATGTAATGTTGATGCATGAACG
1 CGTATTTTTGGATTTTAGGAAATTTATTGTATGTAATGAAATGTAATGTTAATGCATGAACG
*
56062449 CGTATTTTTGGATTTTAGGAAATTTATTGTATGTAATAAAATGTAATGTTAATGCATGAACG
1 CGTATTTTTGGATTTTAGGAAATTTATTGTATGTAATGAAATGTAATGTTAATGCATGAACG
*
56062511 CGTATTTTTGGATTTTAGGAAATTTATTGTATGTAATGAAATGTAATGTTAATGAATGAA
1 CGTATTTTTGGATTTTAGGAAATTTATTGTATGTAATGAAATGTAATGTTAATGCATGAA
56062571 GAGATACGTG
Statistics
Matches: 116, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 116 1.00
ACGTcount: A:0.33, C:0.05, G:0.21, T:0.41
Consensus pattern (62 bp):
CGTATTTTTGGATTTTAGGAAATTTATTGTATGTAATGAAATGTAATGTTAATGCATGAACG
Found at i:56063162 original size:266 final size:266
Alignment explanation
Indices: 56062688--56063219 Score: 1028
Period size: 266 Copynumber: 2.0 Consensus size: 266
56062678 GCGGATACAT
*
56062688 ATACGGCTTTGCCCTCATATGCGGAGACATTCGATCATTTTCTTCGTTCGAGCGTTAAGATAAGT
1 ATACGGCTTTGCCCTCATATGCGGAGACATTCGATCATTTTCTTCATTCGAGCGTTAAGATAAGT
56062753 CTCACGAACTCTTCAAAAGGGACGTATCTTATATCTCCTTTTTACTCAATCCGGGCCGTGACTCG
66 CTCACGAACTCTTCAAAAGGGACGTATCTTATATCTCCTTTTTACTCAATCCGGGCCGTGACTCG
56062818 TTGCTCACTAAACCTCATGGTGCTCGTTGGCTTCTCTTTTAAGAAAGTTCAGCGGCCCTCGAATA
131 TTGCTCACTAAACCTCATGGTGCTCGTTGGCTTCTCTTTTAAGAAAGTTCAGCGGCCCTCGAATA
*
56062883 ATCCTTGTCACATTAAATTCTCGGGCCACGGAGCAATGGTTGTGTGGTCCTCCATTAAACTATCA
196 ATCCTTGTCACATTAAATTCTCAGGCCACGGAGCAATGGTTGTGTGGTCCTCCATTAAACTATCA
56062948 TCCTTC
261 TCCTTC
56062954 ATACGGCTTTGCCCTCATATGCGGAGACATTCGATCATTTTCTTCATTCGAGCGTTAAGATAAGT
1 ATACGGCTTTGCCCTCATATGCGGAGACATTCGATCATTTTCTTCATTCGAGCGTTAAGATAAGT
*
56063019 CTCACGAACTCTTTAAAAGGGACGTATCTTATATCTCCTTTTTACTCAATCCGGGCCGTGACTCG
66 CTCACGAACTCTTCAAAAGGGACGTATCTTATATCTCCTTTTTACTCAATCCGGGCCGTGACTCG
*
56063084 TTGCTCACTAAACCTCATGGTGCTCGTTGGCTTCTCTTTTAAGAAAGTTCAGCGGCTCTCGAATA
131 TTGCTCACTAAACCTCATGGTGCTCGTTGGCTTCTCTTTTAAGAAAGTTCAGCGGCCCTCGAATA
56063149 ATCCTTGTCACATTAAATTCTCAGGCCACGGAGCAATGGTTGTGTGGTCCTCCATTAAACTATCA
196 ATCCTTGTCACATTAAATTCTCAGGCCACGGAGCAATGGTTGTGTGGTCCTCCATTAAACTATCA
56063214 TCCTTC
261 TCCTTC
56063220 TCTTATCACG
Statistics
Matches: 262, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
266 262 1.00
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.33
Consensus pattern (266 bp):
ATACGGCTTTGCCCTCATATGCGGAGACATTCGATCATTTTCTTCATTCGAGCGTTAAGATAAGT
CTCACGAACTCTTCAAAAGGGACGTATCTTATATCTCCTTTTTACTCAATCCGGGCCGTGACTCG
TTGCTCACTAAACCTCATGGTGCTCGTTGGCTTCTCTTTTAAGAAAGTTCAGCGGCCCTCGAATA
ATCCTTGTCACATTAAATTCTCAGGCCACGGAGCAATGGTTGTGTGGTCCTCCATTAAACTATCA
TCCTTC
Found at i:56064788 original size:15 final size:15
Alignment explanation
Indices: 56064764--56064797 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
56064754 AACAATTACG
*
56064764 ATAATGCGAGCAAAA
1 ATAATACGAGCAAAA
56064779 ATAATACGAGCAAAA
1 ATAATACGAGCAAAA
56064794 ATAA
1 ATAA
56064798 CAAAAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.59, C:0.12, G:0.15, T:0.15
Consensus pattern (15 bp):
ATAATACGAGCAAAA
Found at i:56065824 original size:10 final size:10
Alignment explanation
Indices: 56065809--56065844 Score: 63
Period size: 10 Copynumber: 3.5 Consensus size: 10
56065799 TATAAACAAC
56065809 AAAAAAAACAA
1 AAAAAAAAC-A
56065820 AAAAAAAACA
1 AAAAAAAACA
56065830 AAAAAAAACA
1 AAAAAAAACA
56065840 AAAAA
1 AAAAA
56065845 GTCCTCTCCT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 16 0.64
11 9 0.36
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAAAACA
Found at i:56065825 original size:11 final size:11
Alignment explanation
Indices: 56065802--56065844 Score: 70
Period size: 11 Copynumber: 3.9 Consensus size: 11
56065792 TAGCTTCTAT
56065802 AAACAACAAAAA
1 AAACAA-AAAAA
56065814 AAACAAAAAAA
1 AAACAAAAAAA
56065825 AAAC-AAAAAA
1 AAACAAAAAAA
56065835 AAACAAAAAA
1 AAACAAAAAA
56065845 GTCCTCTCCT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.33
11 14 0.47
12 6 0.20
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (11 bp):
AAACAAAAAAA
Found at i:56071363 original size:70 final size:70
Alignment explanation
Indices: 56071250--56071390 Score: 282
Period size: 70 Copynumber: 2.0 Consensus size: 70
56071240 TACCCTGGAT
56071250 TTGGTGAACTCGTTGTAAGTGTTTATCATTTCACATAGATACATGTATTTTCTTTAAATAATAAT
1 TTGGTGAACTCGTTGTAAGTGTTTATCATTTCACATAGATACATGTATTTTCTTTAAATAATAAT
56071315 AATGA
66 AATGA
56071320 TTGGTGAACTCGTTGTAAGTGTTTATCATTTCACATAGATACATGTATTTTCTTTAAATAATAAT
1 TTGGTGAACTCGTTGTAAGTGTTTATCATTTCACATAGATACATGTATTTTCTTTAAATAATAAT
56071385 AATGA
66 AATGA
56071390 T
1 T
56071391 GATGGTTGAA
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 71 1.00
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (70 bp):
TTGGTGAACTCGTTGTAAGTGTTTATCATTTCACATAGATACATGTATTTTCTTTAAATAATAAT
AATGA
Found at i:56077361 original size:27 final size:27
Alignment explanation
Indices: 56077326--56077377 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
56077316 AAAAGAGAAT
*
56077326 GTCAGATGACAAGTCTGAATTAGGAAG
1 GTCAAATGACAAGTCTGAATTAGGAAG
*
56077353 GTCAAATGACAAGTTTGAATTAGGA
1 GTCAAATGACAAGTCTGAATTAGGA
56077378 CCTCGACACA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.38, C:0.10, G:0.27, T:0.25
Consensus pattern (27 bp):
GTCAAATGACAAGTCTGAATTAGGAAG
Found at i:56088719 original size:43 final size:43
Alignment explanation
Indices: 56088661--56088772 Score: 161
Period size: 43 Copynumber: 2.6 Consensus size: 43
56088651 GCATCTAAAG
* * *
56088661 AGAAGATGACCTTTAGTGATGCTTTTATCGCAATCGCCGATAA
1 AGAACATGACCTTTAGTGACGCTTTTATCACAATCGCCGATAA
* * *
56088704 AGAACATGACATTTAGTGACGCTTTTATCACAATCTCCGCTAA
1 AGAACATGACCTTTAGTGACGCTTTTATCACAATCGCCGATAA
*
56088747 AGAACATGACCTTTAGCGACGCTTTT
1 AGAACATGACCTTTAGTGACGCTTTT
56088773 TTTTACAAAT
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 61 1.00
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.30
Consensus pattern (43 bp):
AGAACATGACCTTTAGTGACGCTTTTATCACAATCGCCGATAA
Found at i:56092935 original size:9 final size:9
Alignment explanation
Indices: 56092921--56093046 Score: 107
Period size: 9 Copynumber: 14.0 Consensus size: 9
56092911 CAAGTATAAT
56092921 TAAGTTATG
1 TAAGTTATG
56092930 TAAGTTATG
1 TAAGTTATG
* * *
56092939 ATATGATATA
1 -TAAGTTATG
*
56092949 T-ATTTATG
1 TAAGTTATG
56092957 T-A-TTATG
1 TAAGTTATG
*
56092964 TAGGTTATG
1 TAAGTTATG
56092973 TAAGTTATG
1 TAAGTTATG
*
56092982 TGAGTTATG
1 TAAGTTATG
56092991 TAAGTTATG
1 TAAGTTATG
* *
56093000 ATATGATATATA
1 -TAAG-T-TATG
56093012 TAAGTTAT-
1 TAAGTTATG
56093020 TAAGTTATG
1 TAAGTTATG
56093029 TAAGTTATG
1 TAAGTTATG
*
56093038 TAAATTATG
1 TAAGTTATG
56093047 ATATGATATA
Statistics
Matches: 95, Mismatches: 15, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
7 6 0.06
8 13 0.14
9 59 0.62
10 10 0.11
11 4 0.04
12 3 0.03
ACGTcount: A:0.35, C:0.00, G:0.19, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:56093027 original size:47 final size:48
Alignment explanation
Indices: 56092967--56093061 Score: 165
Period size: 47 Copynumber: 2.0 Consensus size: 48
56092957 TATTATGTAG
* *
56092967 GTTATGTAAGTTATGTGAGTTATGTAAGTTATGATATGATATATATAA
1 GTTATGTAAGTTATGTAAGTTATGTAAATTATGATATGATATATATAA
56093015 GTTAT-TAAGTTATGTAAGTTATGTAAATTATGATATGATATATATAA
1 GTTATGTAAGTTATGTAAGTTATGTAAATTATGATATGATATATATAA
56093062 TTTTACTGAA
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
47 40 0.89
48 5 0.11
ACGTcount: A:0.38, C:0.00, G:0.18, T:0.44
Consensus pattern (48 bp):
GTTATGTAAGTTATGTAAGTTATGTAAATTATGATATGATATATATAA
Found at i:56093031 original size:56 final size:59
Alignment explanation
Indices: 56092923--56093038 Score: 175
Period size: 61 Copynumber: 2.0 Consensus size: 59
56092913 AGTATAATTA
* *
56092923 AGTTATGTAAGTTATGATATGATATATATTTATGTATTATGTAGGTTATGTAAGTTATGTG
1 AGTTATGTAAGTTATGATATGATATATA-TTAAG-ATTATGTAAGTTATGTAAGTTATGTG
56092984 AGTTATGTAAGTTATGATATGATATATA-TAAG-TTAT-TAAGTTATGTAAGTTATGT
1 AGTTATGTAAGTTATGATATGATATATATTAAGATTATGTAAGTTATGTAAGTTATGT
56093039 AAATTATGAT
Statistics
Matches: 53, Mismatches: 2, Indels: 5
0.88 0.03 0.08
Matches are distributed among these distances:
56 18 0.34
57 4 0.08
59 3 0.06
61 28 0.53
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.47
Consensus pattern (59 bp):
AGTTATGTAAGTTATGATATGATATATATTAAGATTATGTAAGTTATGTAAGTTATGTG
Found at i:56096071 original size:43 final size:43
Alignment explanation
Indices: 56096005--56096124 Score: 186
Period size: 43 Copynumber: 2.8 Consensus size: 43
56095995 AAAACAGGCT
* * *
56096005 TTTAGCGGCGCTTTTCCTACAAACGCCGCTAAAGATTAGGACC
1 TTTAGCGGCGCTTTTCCCACAAACGCCACTAAAGACTAGGACC
*
56096048 TTTAACGGCGCTTTTCCCACAAACGCCACTAAAGACTAGGACC
1 TTTAGCGGCGCTTTTCCCACAAACGCCACTAAAGACTAGGACC
* *
56096091 TTTAGCGGCGCTTTCCCCAAAAACGCCACTAAAG
1 TTTAGCGGCGCTTTTCCCACAAACGCCACTAAAG
56096125 GTCACAAAAA
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 70 1.00
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (43 bp):
TTTAGCGGCGCTTTTCCCACAAACGCCACTAAAGACTAGGACC
Found at i:56096776 original size:23 final size:22
Alignment explanation
Indices: 56096741--56097395 Score: 323
Period size: 23 Copynumber: 28.6 Consensus size: 22
56096731 CAAGTTAAAT
*
56096741 TTAAACAGTTCAATTTGCAGCAC
1 TTAAACA-TTCAATTTACAGCAC
* * * *
56096764 TTTAACATATCAATTAACAACAT
1 TTAAACAT-TCAATTTACAGCAC
56096787 TTATACACA-TCAA-TTACAGCGA-
1 TTA-A-ACATTCAATTTACAGC-AC
* **
56096809 TAAAACATCTCAATTTTTAGCAAC
1 TTAAACAT-TCAATTTACAGC-AC
*
56096833 -TAAACACTTCAATTTGCAGCAC
1 TTAAACA-TTCAATTTACAGCAC
*
56096855 TTAAACACTTCAATTTACAGCAT
1 TTAAACA-TTCAATTTACAGCAC
* *
56096878 TTAAACACTTAAATTTGCAGCAC
1 TTAAACA-TTCAATTTACAGCAC
* * *
56096901 TTAAACATATCAATTAACAACAT
1 TTAAACAT-TCAATTTACAGCAC
* *
56096924 TTATACACCTCAA-TTACAGCGA-
1 TTAAACA-TTCAATTTACAGC-AC
* *
56096946 -TAAAGTACTTCAATTTCCAGCAAC
1 TTAAA-CA-TTCAATTTACAGC-AC
* * *
56096970 -TAAATACTTAAATTTGCAGCAC
1 TTAAACA-TTCAATTTACAGCAC
* **
56096992 TTAAACACTTAAATTTGTAGCAC
1 TTAAACA-TTCAATTTACAGCAC
* * *
56097015 TTAAACACTTCAATTTATAACAT
1 TTAAACA-TTCAATTTACAGCAC
* * *
56097038 TTAAACACTTAAATTTGCAACAC
1 TTAAACA-TTCAATTTACAGCAC
* * *
56097061 TTAAACATATCAATTAACAACAT
1 TTAAACAT-TCAATTTACAGCAC
* *
56097084 TTATACACCTCAA-TTACAGCGA-
1 TTAAACA-TTCAATTTACAGC-AC
* *
56097106 TAAAACATCTCAATTTCCAGCAAC
1 TTAAACAT-TCAATTTACAGC-AC
* *
56097130 -TAAGCACTTCAATTTGCAGCAC
1 TTAAACA-TTCAATTTACAGCAC
*
56097152 TTAAACACTTCAATTTGCAGCAC
1 TTAAACA-TTCAATTTACAGCAC
*
56097175 TTAAACACTTCAATTTACAGCAT
1 TTAAACA-TTCAATTTACAGCAC
* *
56097198 TTAAACACTTAAATTTGCAGCAC
1 TTAAACA-TTCAATTTACAGCAC
* * * *
56097221 TTAAAGATATCAATTAACAACAT
1 TTAAACAT-TCAATTTACAGCAC
* *
56097244 TTATACACCTCAA-TTACAGCGA-
1 TTAAACA-TTCAATTTACAGC-AC
*
56097266 TAAAACATCTCAATTT-CTAGCAAC
1 TTAAACAT-TCAATTTAC-AGC-AC
* *
56097290 -TAAGCACTTCAATTTGCAGCAC
1 TTAAACA-TTCAATTTACAGCAC
* *
56097312 TCAAACACTTCAATTTGCAGCAC
1 TTAAACA-TTCAATTTACAGCAC
*
56097335 TTAAACACTTCAATTTACAGCAT
1 TTAAACA-TTCAATTTACAGCAC
* *
56097358 TTAAACACTTAAATTTGCAGCAC
1 TTAAACA-TTCAATTTACAGCAC
56097381 TTAAACATATCAATT
1 TTAAACAT-TCAATT
56097396 AACAACATTC
Statistics
Matches: 502, Mismatches: 94, Indels: 72
0.75 0.14 0.11
Matches are distributed among these distances:
20 3 0.01
21 4 0.01
22 64 0.13
23 419 0.83
24 9 0.02
25 3 0.01
ACGTcount: A:0.40, C:0.22, G:0.07, T:0.31
Consensus pattern (22 bp):
TTAAACATTCAATTTACAGCAC
Found at i:56096939 original size:160 final size:160
Alignment explanation
Indices: 56096833--56097404 Score: 1004
Period size: 160 Copynumber: 3.6 Consensus size: 160
56096823 TTTTAGCAAC
56096833 TAAACACTTCAATTTGCAGCACTTAAACACTTCAATTTACAGCATTTAAACACTTAAATTTGCAG
1 TAAACACTTCAATTTGCAGCACTTAAACACTTCAATTTACAGCATTTAAACACTTAAATTTGCAG
56096898 CACTTAAACATATCAATTAACAACATTTATACACCTCAATTACAGCGATAAAGTAC-T-TCAATT
66 CACTTAAACATATCAATTAACAACATTTATACACCTCAATTACAGCGATAAA--ACATCTCAATT
* *
56096961 TCCAGCAACTAAATACTTAAATTTGCAGCACT
129 TCCAGCAACTAAACACTTCAATTTGCAGCACT
* * * * *
56096993 TAAACACTTAAATTTGTAGCACTTAAACACTTCAATTTATAACATTTAAACACTTAAATTTGCAA
1 TAAACACTTCAATTTGCAGCACTTAAACACTTCAATTTACAGCATTTAAACACTTAAATTTGCAG
56097058 CACTTAAACATATCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATTTC
66 CACTTAAACATATCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATTTC
*
56097123 CAGCAACTAAGCACTTCAATTTGCAGCACT
131 CAGCAACTAAACACTTCAATTTGCAGCACT
56097153 TAAACACTTCAATTTGCAGCACTTAAACACTTCAATTTACAGCATTTAAACACTTAAATTTGCAG
1 TAAACACTTCAATTTGCAGCACTTAAACACTTCAATTTACAGCATTTAAACACTTAAATTTGCAG
*
56097218 CACTTAAAGATATCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATTTC
66 CACTTAAACATATCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATTTC
* *
56097283 TAGCAACTAAGCACTTCAATTTGCAGCACT
131 CAGCAACTAAACACTTCAATTTGCAGCACT
*
56097313 CAAACACTTCAATTTGCAGCACTTAAACACTTCAATTTACAGCATTTAAACACTTAAATTTGCAG
1 TAAACACTTCAATTTGCAGCACTTAAACACTTCAATTTACAGCATTTAAACACTTAAATTTGCAG
56097378 CACTTAAACATATCAATTAACAACATT
66 CACTTAAACATATCAATTAACAACATT
56097405 CGATGCTGCC
Statistics
Matches: 393, Mismatches: 17, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
158 2 0.01
159 1 0.00
160 390 0.99
ACGTcount: A:0.40, C:0.23, G:0.06, T:0.30
Consensus pattern (160 bp):
TAAACACTTCAATTTGCAGCACTTAAACACTTCAATTTACAGCATTTAAACACTTAAATTTGCAG
CACTTAAACATATCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATTTC
CAGCAACTAAACACTTCAATTTGCAGCACT
Found at i:56096985 original size:137 final size:137
Alignment explanation
Indices: 56096739--56097205 Score: 457
Period size: 137 Copynumber: 3.4 Consensus size: 137
56096729 AACAAGTTAA
* *
56096739 ATTTAAACAGTTCAATTTGCAGCACTTTAACATATCAATTAACAACATTTATACACATCAATTAC
1 ATTTAAACACTTCAATTTGCAGCACTTAAACATATCAATTAACAACATTTATACACATCAATTAC
** * *
56096804 AGCGATAAAACATCTCAATTTTTAGCAACTAAACACTTCAATTTGCAGCACTTAAACACTTCAAT
66 AGCGATAAAACATCTCAATTTCCAGCAACTAAACACTTAAATTTGCAGCACTTAAACACTTAAAT
56096869 TTACAGC
131 TTACAGC
* *
56096876 ATTTAAACACTTAAATTTGCAGCACTTAAACATATCAATTAACAACATTTATACACCTCAATTAC
1 ATTTAAACACTTCAATTTGCAGCACTTAAACATATCAATTAACAACATTTATACACATCAATTAC
*
56096941 AGCGATAAAGTAC-T-TCAATTTCCAGCAACTAAATACTTAAATTTGCAGCACTTAAACACTTAA
66 AGCGATAAA--ACATCTCAATTTCCAGCAACTAAACACTTAAATTTGCAGCACTTAAACACTTAA
**
56097004 ATTTGTAGC
129 ATTTACAGC
* ** * * * ** * * *
56097013 ACTTAAACACTTCAATTTATAACATTTAAACACT-TAAATTTGCAACACTTAAACATATCAATTA
1 ATTTAAACACTTCAATTTGCAGCACTTAAACA-TATCAATTAACAACATTTATACACATCAATT-
* * * * * * * * *
56097077 ACAAC-ATTTATACACCTCAA-TTACAGCGA-TAAA-ACATCTCAATTTCCAGCAAC-TAAGCAC
64 ACAGCGA-TAAAACATCTCAATTTCCAGCAACTAAACAC-T-TAAATTTGCAGC-ACTTAAACAC
* *
56097137 TTCAATTTGCAGC
125 TTAAATTTACAGC
* * * *
56097150 ACTTAAACACTTCAATTTGCAGCACTTAAACACT-TCAATTTACAGCATTTAAACAC
1 ATTTAAACACTTCAATTTGCAGCACTTAAACA-TATCAATTAACAACATTTATACAC
56097206 TTAAATTTGC
Statistics
Matches: 276, Mismatches: 44, Indels: 20
0.81 0.13 0.06
Matches are distributed among these distances:
135 2 0.01
136 7 0.03
137 251 0.91
138 14 0.05
139 2 0.01
ACGTcount: A:0.41, C:0.22, G:0.06, T:0.31
Consensus pattern (137 bp):
ATTTAAACACTTCAATTTGCAGCACTTAAACATATCAATTAACAACATTTATACACATCAATTAC
AGCGATAAAACATCTCAATTTCCAGCAACTAAACACTTAAATTTGCAGCACTTAAACACTTAAAT
TTACAGC
Found at i:56097028 original size:91 final size:91
Alignment explanation
Indices: 56096861--56097029 Score: 214
Period size: 91 Copynumber: 1.9 Consensus size: 91
56096851 GCACTTAAAC
** * *
56096861 ACTTCAATTTACAGCATTTAAACACTTAAATTTGCAGCACTTAAACATATCAATTAACAACATTT
1 ACTTCAATTTACAGCAACTAAACACTTAAATTTGCAGCACTTAAACATATAAATTAACAACACTT
*
56096926 ATACACCTCAATTACAGCGATAAAGT
66 AAACACCTCAATTACAGCGATAAAGT
* * *** *
56096952 ACTTCAATTTCCAGCAACTAAATACTTAAATTTGCAGCACTTAAACACT-TAAATTTGTAGCACT
1 ACTTCAATTTACAGCAACTAAACACTTAAATTTGCAGCACTTAAACA-TATAAATTAACAACACT
*
56097016 TAAACACTTCAATT
65 TAAACACCTCAATT
56097030 TATAACATTT
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
91 64 0.98
92 1 0.02
ACGTcount: A:0.40, C:0.21, G:0.07, T:0.32
Consensus pattern (91 bp):
ACTTCAATTTACAGCAACTAAACACTTAAATTTGCAGCACTTAAACATATAAATTAACAACACTT
AAACACCTCAATTACAGCGATAAAGT
Found at i:56097234 original size:137 final size:137
Alignment explanation
Indices: 56096741--56097362 Score: 456
Period size: 137 Copynumber: 4.5 Consensus size: 137
56096731 CAAGTTAAAT
* * * * * *
56096741 TTAAACAGTTCAATTTGCAGCACTTTAACA-TATCAATTAACAACATTTATACACATCAA-TTAC
1 TTAAACACTTCAATTTGCAGCACTTAAACACT-TCAATTTACAACACTTAAACACTTCAATTTAC
* * * **
56096804 AGCGA-TAAAACATCTCAATTTTTAGCAACT-AAACA-CTTCAATTTGCAGCACTTAAACACTTC
65 AGC-ATTTAAAGATATCAA-TTACAGC-ACTAAAACATC-TCAATTTGCAGCACTTAAACACTTC
* *
56096866 AATTTACAGCAT
126 AATTTGCAGCAC
* * * * *
56096878 TTAAACACTTAAATTTGCAGCACTTAAACA-TATCAATTAACAACATTTATACACCTCAA-TTAC
1 TTAAACACTTCAATTTGCAGCACTTAAACACT-TCAATTTACAACACTTAAACACTTCAATTTAC
* *
56096941 AGCGA--TAAAG-TACTTCAATTTCCAGCAACTAAATAC-T-TAAATTTGCAGCACTTAAACACT
65 AGC-ATTTAAAGATA--TCAA-TTACAGC-ACTAAA-ACATCTCAATTTGCAGCACTTAAACACT
* *
56097001 TAAATTTGTAGCAC
124 TCAATTTGCAGCAC
** * * * * *
56097015 TTAAACACTTCAATTTATAACATTTAAACACTTAAATTTGCAACACTTAAACA-TATCAATTAAC
1 TTAAACACTTCAATTTGCAGCACTTAAACACTTCAATTTACAACACTTAAACACT-TCAATTTAC
* * * ** * *
56097079 AACATTTATACACCTCAATTACAGCGA-TAAAACATCTCAATTTCCAGCAAC-TAAGCACTTCAA
65 AGCATTTAAAGATATCAATTACAGC-ACTAAAACATCTCAATTTGCAGC-ACTTAAACACTTCAA
56097142 TTTGCAGCAC
128 TTTGCAGCAC
* * * *
56097152 TTAAACACTTCAATTTGCAGCACTTAAACACTTCAATTTACAGCATTTAAACACTTAAATTTGCA
1 TTAAACACTTCAATTTGCAGCACTTAAACACTTCAATTTACAACACTTAAACACTTCAATTTACA
* * * * * * * *
56097217 GCACTTAAAGATATCAATTAACAACATTTATACACCTCAA-TTACAGCGA-TAAAACA-TCTCAA
66 GCATTTAAAGATATCAATT-ACAGCACTAAAACATCTCAATTTGCAGC-ACTTAAACACT-TCAA
56097279 TTT-CTAGCAAC
128 TTTGC-AGC-AC
* * * *
56097290 -TAAGCACTTCAATTTGCAGCACTCAAACACTTCAATTTGCAGCACTTAAACACTTCAATTTACA
1 TTAAACACTTCAATTTGCAGCACTTAAACACTTCAATTTACAACACTTAAACACTTCAATTTACA
56097354 GCATTTAAA
66 GCATTTAAA
56097363 CACTTAAATT
Statistics
Matches: 394, Mismatches: 70, Indels: 42
0.78 0.14 0.08
Matches are distributed among these distances:
135 3 0.01
136 10 0.03
137 345 0.88
138 31 0.08
139 5 0.01
ACGTcount: A:0.40, C:0.23, G:0.07, T:0.31
Consensus pattern (137 bp):
TTAAACACTTCAATTTGCAGCACTTAAACACTTCAATTTACAACACTTAAACACTTCAATTTACA
GCATTTAAAGATATCAATTACAGCACTAAAACATCTCAATTTGCAGCACTTAAACACTTCAATTT
GCAGCAC
Found at i:56097365 original size:46 final size:46
Alignment explanation
Indices: 56096741--56097395 Score: 445
Period size: 46 Copynumber: 14.3 Consensus size: 46
56096731 CAAGTTAAAT
* * * * * *
56096741 TTAAACAGTTCAATTTGCAGCACTTTAACA-TATCAATTAACAACAT
1 TTAAACACTTCAATTTACAGCACTTAAACACT-TCAATTTACAGCAC
* * * **
56096787 TTATACACATCAA-TTACAGCGA-TAAAACA-TCTCAATTTTTAGCAAC
1 TTAAACACTTCAATTTACAGC-ACTTAAACACT-TCAATTTACAGC-AC
* *
56096833 -TAAACACTTCAATTTGCAGCACTTAAACACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTACAGCACTTAAACACTTCAATTTACAGCAC
* * * * *
56096878 TTAAACACTTAAATTTGCAGCACTTAAACA-TATCAATTAACAACAT
1 TTAAACACTTCAATTTACAGCACTTAAACACT-TCAATTTACAGCAC
* * * *
56096924 TTATACACCTCAA-TTACAGCGA--TAAAGTACTTCAATTTCCAGCAAC
1 TTAAACACTTCAATTTACAGC-ACTTAAA-CACTTCAATTTACAGC-AC
* * * * **
56096970 -TAAATACTTAAATTTGCAGCACTTAAACACTTAAATTTGTAGCAC
1 TTAAACACTTCAATTTACAGCACTTAAACACTTCAATTTACAGCAC
* * * * * *
56097015 TTAAACACTTCAATTTATAACATTTAAACACTTAAATTTGCAACAC
1 TTAAACACTTCAATTTACAGCACTTAAACACTTCAATTTACAGCAC
* * * * *
56097061 TTAAACA-TATCAATTAACAACATTTATACACCTCAA-TTACAGCGA-
1 TTAAACACT-TCAATTTACAGCACTTAAACACTTCAATTTACAGC-AC
* * * *
56097106 TAAAACA-TCTCAATTTCCAGCAAC-TAAGCACTTCAATTTGCAGCAC
1 TTAAACACT-TCAATTTACAGC-ACTTAAACACTTCAATTTACAGCAC
* *
56097152 TTAAACACTTCAATTTGCAGCACTTAAACACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTACAGCACTTAAACACTTCAATTTACAGCAC
* * * * * *
56097198 TTAAACACTTAAATTTGCAGCACTTAAAGA-TATCAATTAACAACAT
1 TTAAACACTTCAATTTACAGCACTTAAACACT-TCAATTTACAGCAC
* * *
56097244 TTATACACCTCAA-TTACAGCGA-TAAAACA-TCTCAATTT-CTAGCAAC
1 TTAAACACTTCAATTTACAGC-ACTTAAACACT-TCAATTTAC-AGC-AC
* * * *
56097290 -TAAGCACTTCAATTTGCAGCACTCAAACACTTCAATTTGCAGCAC
1 TTAAACACTTCAATTTACAGCACTTAAACACTTCAATTTACAGCAC
* * *
56097335 TTAAACACTTCAATTTACAGCATTTAAACACTTAAATTTGCAGCAC
1 TTAAACACTTCAATTTACAGCACTTAAACACTTCAATTTACAGCAC
56097381 TTAAACA-TATCAATT
1 TTAAACACT-TCAATT
56097396 AACAACATTC
Statistics
Matches: 483, Mismatches: 94, Indels: 64
0.75 0.15 0.10
Matches are distributed among these distances:
44 5 0.01
45 128 0.27
46 342 0.71
47 8 0.02
ACGTcount: A:0.40, C:0.22, G:0.07, T:0.31
Consensus pattern (46 bp):
TTAAACACTTCAATTTACAGCACTTAAACACTTCAATTTACAGCAC
Found at i:56105719 original size:44 final size:44
Alignment explanation
Indices: 56105669--56105758 Score: 110
Period size: 44 Copynumber: 2.0 Consensus size: 44
56105659 GTTCCTTGAA
* *
56105669 GAACAGACTGAAGAAA-TCAGTCATATCTCTCTGAAGTTGCAGTG
1 GAACAGACTGAAGAAACT-AATCATATCTCCCTGAAGTTGCAGTG
* ** *
56105713 GAACAGATTGAAGTTACTAATCCTATCTCCCTGAAGTTGCAGTG
1 GAACAGACTGAAGAAACTAATCATATCTCCCTGAAGTTGCAGTG
56105757 GA
1 GA
56105759 GCGGGTCAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
44 38 0.97
45 1 0.03
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (44 bp):
GAACAGACTGAAGAAACTAATCATATCTCCCTGAAGTTGCAGTG
Found at i:56105967 original size:148 final size:148
Alignment explanation
Indices: 56105687--56106009 Score: 452
Period size: 148 Copynumber: 2.2 Consensus size: 148
56105677 TGAAGAAATC
* * * *
56105687 AGTCATATCTCTCTGAAGTTGCAGTGGAACAGATTGAAGTTACTAATCCTATCTCCCTGAAGTTG
1 AGTCCTATCTCCCTGAAGTTGCAGTAGAACAAATTGAAGTTACTAATCCTATCTCCCTGAAGTTG
* * * * *
56105752 CAGTGGAGCGGGTCAAAATGATAGATCTTATCTCTCTGAAGTTGCAGTAGAACAGATCACATTAG
66 CAGTGGAGCGGGTCAAAATGATAGATCTTATCTCTCTAAAATTGCAATAAAACAGATCACATCAG
* *
56105817 ACTTTATTGAAATTTAC-A
131 ACTTTACTGAAA-CTACTA
* * * *
56105835 AGTCCTATCTCCCTGAAGTTGCAGTATAGCAAATTGAAGTTACTAGTCCTATCTTCCTGAAGTTG
1 AGTCCTATCTCCCTGAAGTTGCAGTAGAACAAATTGAAGTTACTAATCCTATCTCCCTGAAGTTG
* * *
56105900 CAGTGGAGCGGGTCAAAATGATGGATTTTATCTCTCTAAAATTGCAATAAAACAGATCGCATCAG
66 CAGTGGAGCGGGTCAAAATGATAGATCTTATCTCTCTAAAATTGCAATAAAACAGATCACATCAG
*
56105965 ACTTTACTGTAACTACTA
131 ACTTTACTGAAACTACTA
56105983 A-TCCTATCTCCCTGAAGTTGCAGTAGA
1 AGTCCTATCTCCCTGAAGTTGCAGTAGA
56106010 GCGGATTAAA
Statistics
Matches: 154, Mismatches: 20, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
147 28 0.18
148 126 0.82
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (148 bp):
AGTCCTATCTCCCTGAAGTTGCAGTAGAACAAATTGAAGTTACTAATCCTATCTCCCTGAAGTTG
CAGTGGAGCGGGTCAAAATGATAGATCTTATCTCTCTAAAATTGCAATAAAACAGATCACATCAG
ACTTTACTGAAACTACTA
Found at i:56107720 original size:18 final size:18
Alignment explanation
Indices: 56107692--56107738 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
56107682 AAATTTATCT
*
56107692 TTATTATTATTATCATTG
1 TTATCATTATTATCATTG
* *
56107710 TTGTCATTATTATTATTG
1 TTATCATTATTATCATTG
56107728 TTATCATTATT
1 TTATCATTATT
56107739 TGCTTATTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.26, C:0.06, G:0.06, T:0.62
Consensus pattern (18 bp):
TTATCATTATTATCATTG
Found at i:56107816 original size:23 final size:22
Alignment explanation
Indices: 56107768--56107814 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 22
56107758 AAATTTTAGA
56107768 TTTAATTATATATATACATATC
1 TTTAATTATATATATACATATC
*
56107790 TTTAATTTATATATATGCATA-C
1 TTTAA-TTATATATATACATATC
56107812 TTT
1 TTT
56107815 TATACCTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 9 0.39
23 14 0.61
ACGTcount: A:0.36, C:0.09, G:0.02, T:0.53
Consensus pattern (22 bp):
TTTAATTATATATATACATATC
Found at i:56108593 original size:112 final size:111
Alignment explanation
Indices: 56108324--56108750 Score: 587
Period size: 110 Copynumber: 3.9 Consensus size: 111
56108314 TTTTTAAACG
* * *
56108324 AGGTAATATTTTGCGTTTGTAAATTCGAGAGAACGTGCCCTAATGTGCTGGGTTTCGATTTTTCT
1 AGGTAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTCT
* * * *
56108389 CGTTCGACCGAATCGTCAAATAT-CTTTTTAAAAAATTTCAAAATA
66 CGTTCGACCAAATAGCCAAATATCCTTTTAAAAAAATTTCAAAATA
*
56108434 AGGTAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTCT
1 AGGTAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTCT
56108499 CGTTCGACCAAATAGCCAAATATCCTTTTAAAGAAAATTTCAAAATA
66 CGTTCGACCAAATAGCCAAATATCCTTTTAAA-AAAATTTCAAAATA
*
56108546 AGGTGATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTTC
1 AGGTAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGA-TTTTTC
* * * * * *
56108611 TCATTTGACCAAATAGTCAAACATTCTTTT-TAAAAATTTCAAAATA
65 TCGTTCGACCAAATAGCCAAATATCCTTTTAAAAAAATTTCAAAATA
* * * * *
56108657 AGGCAATGTTCTACGTTTGGAAATTCGAG-AAACGCGCCCTAATGTGCTGGGTTTCGA--CTTCT
1 AGGTAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTCT
* *
56108719 CGTTTGACCAAAT-GACCAAATATCCTCTTAAA
66 CGTTCGACCAAATAG-CCAAATATCCTTTTAAA
56108751 TCTTAATCCA
Statistics
Matches: 286, Mismatches: 26, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
106 1 0.00
107 26 0.09
108 1 0.00
110 110 0.38
111 46 0.16
112 71 0.25
113 31 0.11
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.35
Consensus pattern (111 bp):
AGGTAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTCT
CGTTCGACCAAATAGCCAAATATCCTTTTAAAAAAATTTCAAAATA
Found at i:56113886 original size:112 final size:112
Alignment explanation
Indices: 56113687--56113934 Score: 268
Period size: 112 Copynumber: 2.2 Consensus size: 112
56113677 TTGTCTTGAG
* * * * *
56113687 GTATATTAGAATTAGTGGCGCTTATGATAAAACGCCGCTAAAGGAAGTATTAGCGGCGCATTGTC
1 GTATATTAGAATTAGCGGCGCTTACGATAAAACGCCACTAAAGCAAGTATTAGCGGCGCATTGAC
* *
56113752 GAAAGCACCGCAACAATCTTAACGAAAACGCATCGTTTTGTCTCGCT
66 AAAAGCACCGCAACAATCTTAACCAAAACGCATCGTTTTGTCTCGCT
* *
56113799 GTATATTAGCATTAGCGGCGCTTACGA-AAACCCGCCACTAAAGCAAGTATTAGCGGCGC-TT-A
1 GTATATTAGAATTAGCGGCGCTTACGATAAA-ACGCCACTAAAGCAAGTATTAGCGGCGCATTGA
* * * ** * * **
56113861 CAAAAAGCGCCGCAATATATGTTAACCAAAACGCAGAGTTTGGTCTAGAG
65 C-AAAAGCACCGCAACA-ATCTTAACCAAAACGCATCGTTTTGTCTCGCT
* *
56113911 GTATATTAGAATTTGTGGCGCTTA
1 GTATATTAGAATTAGCGGCGCTTA
56113935 TGGGTAAACG
Statistics
Matches: 112, Mismatches: 21, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
110 1 0.01
111 17 0.15
112 94 0.84
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (112 bp):
GTATATTAGAATTAGCGGCGCTTACGATAAAACGCCACTAAAGCAAGTATTAGCGGCGCATTGAC
AAAAGCACCGCAACAATCTTAACCAAAACGCATCGTTTTGTCTCGCT
Found at i:56114142 original size:510 final size:510
Alignment explanation
Indices: 56113178--56114422 Score: 2082
Period size: 510 Copynumber: 2.4 Consensus size: 510
56113168 AATCTCAAGA
*
56113178 TATACTAGAATTAGTGGCGCTTATGATAAAACGCCGCTAAAGGAAGTATTAGCGGCGCATTGTCG
1 TATATTAGAATTAGTGGCGCTTATGATAAAACGCCGCTAAAGGAAGTATTAGCGGCGCATTGTCG
56113243 AAAGCACCGCAACAATCTTAACGAAAACGCATCGTTTTGTCTCGCTGTATATTAGCATTAGCGGC
66 AAAGCACCGCAACAATCTTAACGAAAACGCATCGTTTTGTCTCGCTGTATATTAGCATTAGCGGC
*
56113308 GCTTACAAAAACCCGCCACTAAAGCAAGTATTAGCGGCGCTTACAAAAAGCGCCGCAATATATGT
131 GCTTACGAAAACCCGCCACTAAAGCAAGTATTAGCGGCGCTTACAAAAAGCGCCGCAATATATGT
*
56113373 TAACCAAAACGCAGAGTTCGGTCTAGAGGTATATTAGAATTTGTGGCGCTTATGGGTAAACGCCG
196 TAACCAAAACGCAGAGTTTGGTCTAGAGGTATATTAGAATTTGTGGCGCTTATGGGTAAACGCCG
*
56113438 CAAAATATCCTAACCAAAGCGCACCATTTTGGTCTTGGTGTATGTTACAGTTAGTGGCGCTTAAG
261 CAAAATATCCTAACCAAAGCGCACCATTTTGGTCTTGGTGTATGTTACAGTTAATGGCGCTTAAG
56113503 GGAAAACGCCGCTAAAGCATAATATTAACGGCGTTTTGTGAGAAGCGCCGCAAAATTTCGTAACC
326 GGAAAACGCCGCTAAAGCATAATATTAACGGCGTTTTGTGAGAAGCGCCGCAAAATTTCGTAACC
56113568 AAAACGCAACGTTTTTGTCTTGATGTATACAGTAATTAGTGGCGCATACTGGAAAACGCCGCTAA
391 AAAACGCAACGTTTTTGTCTTGATGTATACAGTAATTAGTGGCGCATACTGGAAAACGCCGCTAA
56113633 AGCATAGTAAGCGCTGCAAAATATGCACACCAAAATGCAGAGTTTTGTCTTGAGG
456 AGCATAGTAAGCGCTGCAAAATATGCACACCAAAATGCAGAGTTTTGTCTTGAGG
56113688 TATATTAGAATTAGTGGCGCTTATGATAAAACGCCGCTAAAGGAAGTATTAGCGGCGCATTGTCG
1 TATATTAGAATTAGTGGCGCTTATGATAAAACGCCGCTAAAGGAAGTATTAGCGGCGCATTGTCG
56113753 AAAGCACCGCAACAATCTTAACGAAAACGCATCGTTTTGTCTCGCTGTATATTAGCATTAGCGGC
66 AAAGCACCGCAACAATCTTAACGAAAACGCATCGTTTTGTCTCGCTGTATATTAGCATTAGCGGC
56113818 GCTTACGAAAACCCGCCACTAAAGCAAGTATTAGCGGCGCTTACAAAAAGCGCCGCAATATATGT
131 GCTTACGAAAACCCGCCACTAAAGCAAGTATTAGCGGCGCTTACAAAAAGCGCCGCAATATATGT
56113883 TAACCAAAACGCAGAGTTTGGTCTAGAGGTATATTAGAATTTGTGGCGCTTATGGGTAAACGCCG
196 TAACCAAAACGCAGAGTTTGGTCTAGAGGTATATTAGAATTTGTGGCGCTTATGGGTAAACGCCG
56113948 CAAAATATCCTAACCAAAGCGCACCATTTTGGTCTTGGTGTATGTTACAGTTAATGGCGCTTAAG
261 CAAAATATCCTAACCAAAGCGCACCATTTTGGTCTTGGTGTATGTTACAGTTAATGGCGCTTAAG
56114013 GGAAAACGCCGCTAAAGCATAATATTAACGGCGTTTTGTGAGAAGCGCCGCAAAATTTCGTAACC
326 GGAAAACGCCGCTAAAGCATAATATTAACGGCGTTTTGTGAGAAGCGCCGCAAAATTTCGTAACC
56114078 AAAACGCAACGTTTTTGTCTTGATGTATACAGTAATTAGTGGCGCATACTGGAAAACGCCGCTAA
391 AAAACGCAACGTTTTTGTCTTGATGTATACAGTAATTAGTGGCGCATACTGGAAAACGCCGCTAA
56114143 AGCATAGTAAGCGCTGCAAAATATGCACACCAAAATGCAGAGTTTTGTCTTGAGG
456 AGCATAGTAAGCGCTGCAAAATATGCACACCAAAATGCAGAGTTTTGTCTTGAGG
* ** * * * * *
56114198 TATATTAGAATTAGTGACGCTTATGGGAGAACGCCGCTAAAGCATACTATTAGCGGCGCGTT-TT
1 TATATTAGAATTAGTGGCGCTTATGATAAAACGCCGCTAAAGGA-AGTATTAGCGGCGCATTGTC
* * * * * * * * * *
56114262 GAGAAGCGCCGCAAAATATATTAACCAAAACGCAGCGTTTAAGTCTTGATGTATACTAGAATTAG
65 GA-AAGCACCGCAACA-ATCTTAACGAAAACGCATCGTTT-TGTCTCGCTGTATATTAGCATTAG
* * * * * *** * *
56114327 TGGCG-TCCACGAGAAA-TCGCCGCTAAAGCATAGTATTAGCGGCACTTTTTGAGAAGCGCCGGA
127 CGGCGCT-TACGA-AAACCCGCCACTAAAGCA-AGTATTAGCGGCGC-TTACAAAAAGCGCCGCA
* *
56114390 AAATATCTTAACCAAAACGCAGAGTTTTGGTCT
188 ATATATGTTAACCAAAACGCAGAG-TTTGGTCT
56114423 TAACCATGCA
Statistics
Matches: 692, Mismatches: 34, Indels: 12
0.94 0.05 0.02
Matches are distributed among these distances:
510 548 0.79
511 26 0.04
512 21 0.03
513 39 0.06
514 16 0.02
515 34 0.05
516 8 0.01
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (510 bp):
TATATTAGAATTAGTGGCGCTTATGATAAAACGCCGCTAAAGGAAGTATTAGCGGCGCATTGTCG
AAAGCACCGCAACAATCTTAACGAAAACGCATCGTTTTGTCTCGCTGTATATTAGCATTAGCGGC
GCTTACGAAAACCCGCCACTAAAGCAAGTATTAGCGGCGCTTACAAAAAGCGCCGCAATATATGT
TAACCAAAACGCAGAGTTTGGTCTAGAGGTATATTAGAATTTGTGGCGCTTATGGGTAAACGCCG
CAAAATATCCTAACCAAAGCGCACCATTTTGGTCTTGGTGTATGTTACAGTTAATGGCGCTTAAG
GGAAAACGCCGCTAAAGCATAATATTAACGGCGTTTTGTGAGAAGCGCCGCAAAATTTCGTAACC
AAAACGCAACGTTTTTGTCTTGATGTATACAGTAATTAGTGGCGCATACTGGAAAACGCCGCTAA
AGCATAGTAAGCGCTGCAAAATATGCACACCAAAATGCAGAGTTTTGTCTTGAGG
Found at i:56114423 original size:115 final size:114
Alignment explanation
Indices: 56114171--56114423 Score: 330
Period size: 115 Copynumber: 2.2 Consensus size: 114
56114161 AAATATGCAC
* * * * *
56114171 ACCAAAATGCAGAGTTTTGTCTTGAGGTATATTAGAATTAGTGACGCTTATGGGAGAACGCCGCT
1 ACCAAAACGCAGAGTTTTGTCTTGAGGTATACTAGAATTAGTGACGCTCACGAGAGAACGCCGCT
*
56114236 AAAGCATACTATTAGCGGCGCGTTTTGAGAAGCGCCGCAAAATATATTA
66 AAAGCATACTATTAGCGGCACGTTTTGAGAAGCGCCGCAAAATATATTA
* * * *
56114285 ACCAAAACGCAGCGTTTAAGTCTTGATGTATACTAGAATTAGTGGCG-TCCACGAGA-AATCGCC
1 ACCAAAACGCAGAGTTT-TGTCTTGAGGTATACTAGAATTAGTGACGCT-CACGAGAGAA-CGCC
* * * *
56114348 GCTAAAGCATAGTATTAGCGGCACTTTTTGAGAAGCGCCGGAAAATATCTTA
63 GCTAAAGCATACTATTAGCGGCACGTTTTGAGAAGCGCCGCAAAATATATTA
56114400 ACCAAAACGCAGAGTTTTGGTCTT
1 ACCAAAACGCAGAGTTTT-GTCTT
56114424 AACCATGCAT
Statistics
Matches: 119, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
114 18 0.15
115 101 0.85
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (114 bp):
ACCAAAACGCAGAGTTTTGTCTTGAGGTATACTAGAATTAGTGACGCTCACGAGAGAACGCCGCT
AAAGCATACTATTAGCGGCACGTTTTGAGAAGCGCCGCAAAATATATTA
Found at i:56115350 original size:14 final size:15
Alignment explanation
Indices: 56115331--56115365 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
56115321 ACACTTGTAT
*
56115331 GGATTTAGGGTTT-G
1 GGATTTAAGGTTTAG
56115345 GGATTTAAGGTTTAG
1 GGATTTAAGGTTTAG
56115360 GGATTT
1 GGATTT
56115366 TGGGGTCAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.20, C:0.00, G:0.37, T:0.43
Consensus pattern (15 bp):
GGATTTAAGGTTTAG
Found at i:56118527 original size:23 final size:24
Alignment explanation
Indices: 56118507--56118637 Score: 73
Period size: 25 Copynumber: 5.4 Consensus size: 24
56118497 TACTTACAGT
56118507 ACTTACATAA-TACATAATACATA
1 ACTTACATAACTACATAATACATA
56118530 ACTTACATAACTTACATAACTTACATA
1 ACTTACATAAC-TACATAA--TACATA
* *
56118557 A--TACATAA-TAGATAACTTACATT
1 ACTTACATAACTACATAA--TACATA
* *
56118580 ACTCACAGT-ACTTACATAGTACATA
1 ACTTACA-TAAC-TACATAATACATA
56118605 A--TACATAACTTACATAACTTACATA
1 ACTTACATAAC-TACATAA--TACATA
56118630 A--TACATAA
1 ACTTACATAA
56118638 AAATATATCA
Statistics
Matches: 88, Mismatches: 8, Indels: 22
0.75 0.07 0.19
Matches are distributed among these distances:
22 1 0.01
23 36 0.41
25 38 0.43
26 1 0.01
27 12 0.14
ACGTcount: A:0.47, C:0.19, G:0.02, T:0.31
Consensus pattern (24 bp):
ACTTACATAACTACATAATACATA
Found at i:56118538 original size:9 final size:9
Alignment explanation
Indices: 56118480--56118630 Score: 118
Period size: 9 Copynumber: 18.1 Consensus size: 9
56118470 TCTAACCATT
56118480 ACTTACAGT-
1 ACTTACA-TA
56118489 ACTTACAGT-
1 ACTTACA-TA
56118498 ACTTACAGT-
1 ACTTACA-TA
56118507 ACTTACATA
1 ACTTACATA
56118516 A--TACATA
1 ACTTACATA
56118523 A--TACATA
1 ACTTACATA
56118530 ACTTACATA
1 ACTTACATA
56118539 ACTTACATA
1 ACTTACATA
56118548 ACTTACATA
1 ACTTACATA
56118557 A--TACATA
1 ACTTACATA
*
56118564 A--TAGATA
1 ACTTACATA
*
56118571 ACTTACATT
1 ACTTACATA
*
56118580 ACTCACAGT-
1 ACTTACA-TA
56118589 ACTTACAT-
1 ACTTACATA
*
56118597 A-GTACATA
1 ACTTACATA
56118605 A--TACATA
1 ACTTACATA
56118612 ACTTACATA
1 ACTTACATA
56118621 ACTTACATA
1 ACTTACATA
56118630 A
1 A
56118631 TACATAAAAA
Statistics
Matches: 127, Mismatches: 6, Indels: 18
0.84 0.04 0.12
Matches are distributed among these distances:
7 39 0.31
8 4 0.03
9 83 0.65
10 1 0.01
ACGTcount: A:0.44, C:0.20, G:0.04, T:0.32
Consensus pattern (9 bp):
ACTTACATA
Found at i:56118543 original size:32 final size:32
Alignment explanation
Indices: 56118507--56118637 Score: 135
Period size: 32 Copynumber: 4.0 Consensus size: 32
56118497 TACTTACAGT
56118507 ACTTACATAA--TACATAATACATAACTTACATA
1 ACTTACATAACTTACATAATACATAA--TACATA
*
56118539 ACTTACATAACTTACATAATACATAATAGATA
1 ACTTACATAACTTACATAATACATAATACATA
* * * *
56118571 ACTTACATTACTCACAGTACTTACATAGTACATA
1 ACTTACATAACTTACA-TA-ATACATAATACATA
56118605 A--TACATAACTTACATAACTTACATAATACATA
1 ACTTACATAACTTACATAA--TACATAATACATA
56118637 A
1 A
56118638 AAATATATCA
Statistics
Matches: 83, Mismatches: 10, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
31 2 0.02
32 53 0.64
33 2 0.02
34 26 0.31
ACGTcount: A:0.47, C:0.19, G:0.02, T:0.31
Consensus pattern (32 bp):
ACTTACATAACTTACATAATACATAATACATA
Found at i:56118552 original size:41 final size:41
Alignment explanation
Indices: 56118489--56118627 Score: 210
Period size: 41 Copynumber: 3.4 Consensus size: 41
56118479 TACTTACAGT
56118489 ACTTACAGT-ACTTACAGTACTTACATAATACATAATACATA
1 ACTTACA-TAACTTACAGTACTTACATAATACATAATACATA
*
56118530 ACTTACATAACTTACA-TAACTTACATAATACATAATAGATA
1 ACTTACATAACTTACAGT-ACTTACATAATACATAATACATA
* * *
56118571 ACTTACATTACTCACAGTACTTACATAGTACATAATACATA
1 ACTTACATAACTTACAGTACTTACATAATACATAATACATA
56118612 ACTTACATAACTTACA
1 ACTTACATAACTTACA
56118628 TAATACATAA
Statistics
Matches: 88, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
40 2 0.02
41 85 0.97
42 1 0.01
ACGTcount: A:0.45, C:0.20, G:0.04, T:0.32
Consensus pattern (41 bp):
ACTTACATAACTTACAGTACTTACATAATACATAATACATA
Found at i:56118626 original size:82 final size:80
Alignment explanation
Indices: 56118489--56118637 Score: 253
Period size: 82 Copynumber: 1.8 Consensus size: 80
56118479 TACTTACAGT
*
56118489 ACTTACAGTACTTACAGTACTTACATAATACATAATACATAACTTACATAACTTACATAACTTAC
1 ACTTACAGTACTCACAGTACTTACATAATACATAATACATAACTTACATAACTTACATAA--TAC
56118554 ATAATACATAATAGATA
64 ATAATACATAATAGATA
* *
56118571 ACTTACATTACTCACAGTACTTACATAGTACATAATACATAACTTACATAACTTACATAATACAT
1 ACTTACAGTACTCACAGTACTTACATAATACATAATACATAACTTACATAACTTACATAATACAT
56118636 AA
66 AA
56118638 AAATATATCA
Statistics
Matches: 64, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
80 7 0.11
82 57 0.89
ACGTcount: A:0.46, C:0.19, G:0.03, T:0.32
Consensus pattern (80 bp):
ACTTACAGTACTCACAGTACTTACATAATACATAATACATAACTTACATAACTTACATAATACAT
AATACATAATAGATA
Found at i:56121995 original size:835 final size:836
Alignment explanation
Indices: 56120335--56122014 Score: 3121
Period size: 835 Copynumber: 2.0 Consensus size: 836
56120325 TCTGATGAAG
* ** *
56120335 AGGA-CGATCCTAATGAGGTGGACTTGAGGAAAAAAAGAAGTATTTTTTTTTGAGTTGCCTTATT
1 AGGATCGATCCTAATAAGGCAGACTTGAGGAAAAAAAGAAGTA-TTTTTTTTCAGTTGCCTTATT
*
56120399 GGGAGCATCACCTTTTACGACACAATCTTGATGTTATGCACATTGAGAAAAATGTCTGCGAGAAC
65 GGGAGCATCACCTTTTACGACACAATCTTGATGTTATGCACATTGAGAAAAATGTATGCGAGAAC
56120464 ATTGTGGGTACAATTTTGAATGCCGACGGAAAATCAAAAGACAATATTCAGAGTCCACTTGATTT
130 ATTGTGGGTACAATTTTGAATGCCGACGGAAAATCAAAAGACAATATTCAGAGTCCACTTGATTT
56120529 AGTCCAAATGGGAATTCGGCCTGATCTTCATCCCAATCCACTTTCGAATGGGAAATATCGGTTGC
195 AGTCCAAATGGGAATTCGGCCTGATCTTCATCCCAATCCACTTTCGAATGGGAAATATCGGTTGC
*
56120594 CGCCTTCTATTTTCTCAATGTCCAAGACGGAGAAAGAACTGTTTTGCATGGTGTTGAAGGATATA
260 CGCCTTCTATTTTCTCAATGTCCAAGACGGAGAAAGAACTGTTTTGCATGGTGCTGAAGGATATA
56120659 AAGGTTCCAGATGCGTATGCATCAAATATATCTCGATGTGTTAGTGTTAAAGATCGAAGATTATA
325 AAGGTTCCAGATGCGTATGCATCAAATATATCTCGATGTGTTAGTGTTAAAGATCGAAGATTATA
56120724 TTCGCTAAAATCACATGACTATCACATCTTGATGCAAGATTTACTGCCAGTTGCTCTACGATGTT
390 TTCGCTAAAATCACATGACTATCACATCTTGATGCAAGATTTACTGCCAGTTGCTCTACGATGTT
56120789 GTATGTCCAAGAAGGTGACGTCTTGTATAATTGAACTATCCAATATAATGAAAGCCATTTGTGGC
455 GTATGTCCAAGAAGGTGACGTCTTGTATAATTGAACTATCCAATATAATGAAAGCCATTTGTGGC
*
56120854 AAAGTTTTGGATGTTCAAGAACTTCAAAAGGTACAGGATCGAGCCGTTTTGACTTTATGCAATAT
520 AAAGTTTTGGATGTTCAAGAACTTCAAAAGGTACAGGATCGAGCCGTTTTGACTTTATGCAACAT
* * *
56120919 GGTGAAAATTTTCCCACCTTCTTTCTTCACCATTATGGTTCACTTGATAATCAATCTCCCGCACG
585 GGAGAAAATTTTCCCACCTTCCTTCTTCACCATTATGGTTCACTTGATAATCAATCTCCCGCACA
56120984 AAGCAATTCTTGGCGGACCCGTTTTCTATCGATGGATGTATCCCATAGAAATGTGTTAATTGAAA
650 AAGCAATTCTTGGCGGACCCGTTTTCTATCGATGGATGTATCCCATAGAAATGTGTTAATTGAAA
56121049 TTTTTAAAATTTTCCTTCATTCACTTCTATGGCTTTAGTAATACACTTTTGATAATATTATATAT
715 TTTTTAAAATTTTCCTTCATTCACTTCTATGGCTTTAGTAATACACTTTTGATAATATTATATAT
*
56121114 CGTGTTTAGATTCCTATCCAAATTAAAGTCTTACTGCTGCAACAAGCGATATCCAGA
780 CGTGTTTAGATTCCTATCCAAATTAAAGTCTTACTGCCGCAACAAGCGATATCCAGA
* * *
56121171 AGGATCGATCCTAATAAGGCAGACTTGTGGAAAAAAATAAGTA-TTTTTTTCAGTTGGCTTATTG
1 AGGATCGATCCTAATAAGGCAGACTTGAGGAAAAAAAGAAGTATTTTTTTTCAGTTGCCTTATTG
56121235 GGAGCATCACCTTTTACGACACAATCTTGATGTTATGCACATTGAGAAAAATGTATGCGAGAACA
66 GGAGCATCACCTTTTACGACACAATCTTGATGTTATGCACATTGAGAAAAATGTATGCGAGAACA
* * *
56121300 TTGTGGGTACAATTTTGAATGCCGACGGAAAATCAAAAGATAATCTTCAGAGTCGACTTGATTTA
131 TTGTGGGTACAATTTTGAATGCCGACGGAAAATCAAAAGACAATATTCAGAGTCCACTTGATTTA
*
56121365 GTCCAAATGGGAATTCGGCCTGATCTTCATCCCAATCCACTTTCGTATGGGAAATATCGGTTGCC
196 GTCCAAATGGGAATTCGGCCTGATCTTCATCCCAATCCACTTTCGAATGGGAAATATCGGTTGCC
56121430 GCCTTCTATTTTCTCAATGTCCAAGACGGAGAAAGAACTGTTTTGCATGGTGCTGAAGGATATAA
261 GCCTTCTATTTTCTCAATGTCCAAGACGGAGAAAGAACTGTTTTGCATGGTGCTGAAGGATATAA
56121495 AGGTTCCAGATGCGTATGCATCAAATATATCTCGATGTGTTAGTGTTAAAGATCGAAGATTATAT
326 AGGTTCCAGATGCGTATGCATCAAATATATCTCGATGTGTTAGTGTTAAAGATCGAAGATTATAT
56121560 TCGCTAAAATCACATGACTATCACATCTTGATGCAAGATTTACTGCCAGTTGCTCTACGATGTTG
391 TCGCTAAAATCACATGACTATCACATCTTGATGCAAGATTTACTGCCAGTTGCTCTACGATGTTG
56121625 TATGTCCAAGAAGGTGACGTCTTGTATAATTGAACTATCCAATATAATGAAAGCCATTTGTGGCA
456 TATGTCCAAGAAGGTGACGTCTTGTATAATTGAACTATCCAATATAATGAAAGCCATTTGTGGCA
* *
56121690 AAGTTTTGGATGTTTAAGAACTTCAGAAGGTACAGGATCGAGCCGTTTTGACTTTATGCAACATG
521 AAGTTTTGGATGTTCAAGAACTTCAAAAGGTACAGGATCGAGCCGTTTTGACTTTATGCAACATG
56121755 GAGAAAATTTTCCCACCTTCCTTCTTCACCATTATGGTTCACTTGATAATCAATCTCCCGCACAA
586 GAGAAAATTTTCCCACCTTCCTTCTTCACCATTATGGTTCACTTGATAATCAATCTCCCGCACAA
*
56121820 AGTAATTCTTGGCGGACCCGTTTTCTATCGATGGATGTATCCCATAGAAATGTGTTAATTGAAAT
651 AGCAATTCTTGGCGGACCCGTTTTCTATCGATGGATGTATCCCATAGAAATGTGTTAATTGAAAT
*
56121885 TTTTAAAATTTTCCTTCATTCACTTTTATGGCTTTAGTAATACACTTTTGATAATATTATATATC
716 TTTTAAAATTTTCCTTCATTCACTTCTATGGCTTTAGTAATACACTTTTGATAATATTATATATC
* *
56121950 GTGTTTAGGTTCCTATCCAAATTAAAGTCTTACTGCCGTAACAAGCGATATCCAGA
781 GTGTTTAGATTCCTATCCAAATTAAAGTCTTACTGCCGCAACAAGCGATATCCAGA
56122006 AGGATCGAT
1 AGGATCGAT
56122015 TGCTGAAGGC
Statistics
Matches: 819, Mismatches: 24, Indels: 3
0.97 0.03 0.00
Matches are distributed among these distances:
835 782 0.95
836 4 0.00
837 33 0.04
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (836 bp):
AGGATCGATCCTAATAAGGCAGACTTGAGGAAAAAAAGAAGTATTTTTTTTCAGTTGCCTTATTG
GGAGCATCACCTTTTACGACACAATCTTGATGTTATGCACATTGAGAAAAATGTATGCGAGAACA
TTGTGGGTACAATTTTGAATGCCGACGGAAAATCAAAAGACAATATTCAGAGTCCACTTGATTTA
GTCCAAATGGGAATTCGGCCTGATCTTCATCCCAATCCACTTTCGAATGGGAAATATCGGTTGCC
GCCTTCTATTTTCTCAATGTCCAAGACGGAGAAAGAACTGTTTTGCATGGTGCTGAAGGATATAA
AGGTTCCAGATGCGTATGCATCAAATATATCTCGATGTGTTAGTGTTAAAGATCGAAGATTATAT
TCGCTAAAATCACATGACTATCACATCTTGATGCAAGATTTACTGCCAGTTGCTCTACGATGTTG
TATGTCCAAGAAGGTGACGTCTTGTATAATTGAACTATCCAATATAATGAAAGCCATTTGTGGCA
AAGTTTTGGATGTTCAAGAACTTCAAAAGGTACAGGATCGAGCCGTTTTGACTTTATGCAACATG
GAGAAAATTTTCCCACCTTCCTTCTTCACCATTATGGTTCACTTGATAATCAATCTCCCGCACAA
AGCAATTCTTGGCGGACCCGTTTTCTATCGATGGATGTATCCCATAGAAATGTGTTAATTGAAAT
TTTTAAAATTTTCCTTCATTCACTTCTATGGCTTTAGTAATACACTTTTGATAATATTATATATC
GTGTTTAGATTCCTATCCAAATTAAAGTCTTACTGCCGCAACAAGCGATATCCAGA
Found at i:56123553 original size:21 final size:20
Alignment explanation
Indices: 56123527--56123578 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
56123517 CTATAACTTA
*
56123527 AAGCAGAGGTGGCAGCAAGGG
1 AAGCAGAGGT-GCAGCAAGAG
**
56123548 AAGCAGAGGCTGCAGTGAGAG
1 AAGCAGAGG-TGCAGCAAGAG
56123569 AAGCAGAGGT
1 AAGCAGAGGT
56123579 TCAAAAGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 1 0.04
21 25 0.93
22 1 0.04
ACGTcount: A:0.35, C:0.13, G:0.44, T:0.08
Consensus pattern (20 bp):
AAGCAGAGGTGCAGCAAGAG
Found at i:56124006 original size:43 final size:43
Alignment explanation
Indices: 56123957--56124122 Score: 156
Period size: 43 Copynumber: 3.9 Consensus size: 43
56123947 GTTTTTGTAC
*
56123957 AAAAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTATAAA
1 AAAAGCGCCACTAAAGAACATGTTCTTTAGCGGCGTTTATAAA
* * ** * * * * *
56124000 AAAAGCGCCGCGAAAGATTATGATCTCTAGCGGCATTTTTATA
1 AAAAGCGCCACTAAAGAACATGTTCTTTAGCGGCGTTTATAAA
* * * * *
56124043 CAAAGCGCCATTAAAGAACATCTTCTTTCGCGGCGCTTA-ATAA
1 AAAAGCGCCACTAAAGAACATGTTCTTTAGCGGCGTTTATA-AA
* *
56124086 AAAA-TGCCACTAAAGAACATGGTCTTTAGCGGCGTTT
1 AAAAGCGCCACTAAAGAACATGTTCTTTAGCGGCGTTT
56124123 TTGTTTGTAA
Statistics
Matches: 93, Mismatches: 29, Indels: 3
0.74 0.23 0.02
Matches are distributed among these distances:
42 28 0.30
43 65 0.70
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (43 bp):
AAAAGCGCCACTAAAGAACATGTTCTTTAGCGGCGTTTATAAA
Found at i:56124624 original size:16 final size:17
Alignment explanation
Indices: 56124605--56124643 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
56124595 AAATAAAATG
56124605 TTAAATTAA-TATTAAA
1 TTAAATTAAGTATTAAA
*
56124621 TTAAATTAAGTTTTAAA
1 TTAAATTAAGTATTAAA
*
56124638 TAAAAT
1 TTAAAT
56124644 ATCATATCGC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (17 bp):
TTAAATTAAGTATTAAA
Found at i:56125320 original size:28 final size:28
Alignment explanation
Indices: 56125284--56125346 Score: 108
Period size: 28 Copynumber: 2.2 Consensus size: 28
56125274 AGAAAAAAGA
*
56125284 AAAAGAAGAAATGAAAATGTCAAAAGCT
1 AAAACAAGAAATGAAAATGTCAAAAGCT
*
56125312 AAAACAAGAAATGAAAATGTCGAAAGCT
1 AAAACAAGAAATGAAAATGTCAAAAGCT
56125340 AAAACAA
1 AAAACAA
56125347 TATTCAGACT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.62, C:0.10, G:0.16, T:0.13
Consensus pattern (28 bp):
AAAACAAGAAATGAAAATGTCAAAAGCT
Found at i:56129439 original size:40 final size:40
Alignment explanation
Indices: 56129408--56129697 Score: 422
Period size: 40 Copynumber: 7.3 Consensus size: 40
56129398 GGACTAAGAT
* * * *
56129408 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGTTATTAAA-TCCGGGTTAAGTC
* * * *
56129448 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
56129488 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
56129528 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
56129568 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* *
56129608 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* * * * *
56129648 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
56129687 CCGAAGGCATT
1 CCGAAGGCATT
56129698 TGAACGAGGA
Statistics
Matches: 235, Mismatches: 14, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
39 34 0.14
40 198 0.84
41 3 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
Found at i:56129492 original size:80 final size:80
Alignment explanation
Indices: 56129355--56129697 Score: 424
Period size: 80 Copynumber: 4.3 Consensus size: 80
56129345 TTGAATGCTG
* * * * * * **
56129355 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
* * *
56129418 TTGTGCGAGATA-CAAA
64 TCGTGCGAGTTATTAAA
* * * * *
56129434 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATT
1 -TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
56129499 CGTGCGAGTTATTAAA
65 CGTGCGAGTTATTAAA
56129515 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
56129580 GTGCGAGTTATTAAA
66 GTGCGAGTTATTAAA
* *
56129595 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATT-
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
56129659 GTGTGAGTTACTAAA
66 GTGCGAGTTATTAAA
* * *
56129674 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
56129698 TGAACGAGGA
Statistics
Matches: 236, Mismatches: 24, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
79 35 0.15
80 191 0.81
81 10 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
GTGCGAGTTATTAAA
Found at i:56129571 original size:120 final size:118
Alignment explanation
Indices: 56129355--56129699 Score: 424
Period size: 120 Copynumber: 2.9 Consensus size: 118
56129345 TTGAATGCTG
* * * * * * **
56129355 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCA-
* * * *
56129418 TTGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
63 TTGTGCGAGTTATAAA-TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
56129475 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT-
* * *
56129540 GTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
65 GTGCGAGTTA-TAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
* *
56129595 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTG
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTG
* * * *
56129660 TGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTG
66 TGCGAGTTA-TAAATCCGGGTTAAGTCCCGAAGGCATTTG
56129700 AACGAGGAGC
Statistics
Matches: 198, Mismatches: 23, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
119 38 0.19
120 151 0.76
121 9 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (118 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTG
TGCGAGTTATAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
Found at i:56138204 original size:40 final size:40
Alignment explanation
Indices: 56138160--56138383 Score: 308
Period size: 40 Copynumber: 5.6 Consensus size: 40
56138150 AAGTGAATAT
* * * * **
56138160 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAA
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTGTTAA
56138200 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
56138240 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
56138280 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
* * **
56138320 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
* * *
56138359 AACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATT
56138384 TGAACGAGGA
Statistics
Matches: 171, Mismatches: 12, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 35 0.20
40 136 0.80
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
Found at i:56138258 original size:80 final size:80
Alignment explanation
Indices: 56138121--56138383 Score: 318
Period size: 80 Copynumber: 3.3 Consensus size: 80
56138111 TTGAATGCTG
* * * * *
56138121 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGAATATATCCGGATTAAGAT-CCGAAGGCC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTG-TTAAATCCGGGTTAAG-TCCCGAAGGCC
*
56138183 TTTGTGCGAGATACTAAA
63 TTTGTGCGAGTTACTAAA
* * *
56138201 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
**
56138266 GTGCGAGTTGTTAAA
66 GTGCGAGTTACTAAA
* * *
56138281 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGG-CATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
*
56138345 GTGTGAGTTACTAAA
66 GTGCGAGTTACTAAA
* *
56138360 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
56138384 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
79 35 0.22
80 116 0.73
81 8 0.05
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
GTGCGAGTTACTAAA
Found at i:56138335 original size:120 final size:120
Alignment explanation
Indices: 56138121--56138383 Score: 318
Period size: 120 Copynumber: 2.2 Consensus size: 120
56138111 TTGAATGCTG
* * *
56138121 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGATTAAGATCCGAAGGCCTT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGATTAAGATCCGAAGGCATT
* **
56138185 TGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
66 CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
* * * *
56138241 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTG-TTAAATCCGGGTTAAG-TCCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAG-TGAATAAATCCGGATTAAGAT-CCGAAGGCA
* ** * *
56138303 TTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
64 TTCGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* *
56138360 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
56138384 TGAACGAGGA
Statistics
Matches: 122, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
119 34 0.28
120 80 0.66
121 8 0.07
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGATTAAGATCCGAAGGCATT
CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:56139875 original size:20 final size:20
Alignment explanation
Indices: 56139850--56139889 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
56139840 AAATGCCTTT
56139850 GACTTTGTATGCAAAAATTA
1 GACTTTGTATGCAAAAATTA
56139870 GACTTTGTATGCAAAAATTA
1 GACTTTGTATGCAAAAATTA
56139890 AGTCCATATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (20 bp):
GACTTTGTATGCAAAAATTA
Found at i:56149221 original size:35 final size:36
Alignment explanation
Indices: 56149168--56149248 Score: 83
Period size: 36 Copynumber: 2.3 Consensus size: 36
56149158 ACATTATAAC
* * * *
56149168 CACTGTCACATAGTATGAA-AACATACCCACATATT
1 CACTATCACATAGCATGAATAACATACCAACAAATT
* * *
56149203 TACTATCACATGGCATGAATAGCATACCAACAAATT
1 CACTATCACATAGCATGAATAACATACCAACAAATT
*
56149239 CACTTTCACA
1 CACTATCACA
56149249 ATAGTCATCT
Statistics
Matches: 36, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
35 15 0.42
36 21 0.58
ACGTcount: A:0.40, C:0.26, G:0.09, T:0.26
Consensus pattern (36 bp):
CACTATCACATAGCATGAATAACATACCAACAAATT
Found at i:56151776 original size:17 final size:17
Alignment explanation
Indices: 56151754--56151787 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
56151744 TCTGCTAAAC
*
56151754 CCTTAAAGTTCGTCAAA
1 CCTTAAAGTTCGCCAAA
56151771 CCTTAAAGTTCGCCAAA
1 CCTTAAAGTTCGCCAAA
56151788 TGAAAATTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.35, C:0.26, G:0.12, T:0.26
Consensus pattern (17 bp):
CCTTAAAGTTCGCCAAA
Found at i:56152476 original size:16 final size:17
Alignment explanation
Indices: 56152439--56152477 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
56152429 TAAAATATAT
*
56152439 TTTTTTATAATTTTATA
1 TTTTTTATAATTTTAAA
*
56152456 CTTTTTA-AATTTTAAA
1 TTTTTTATAATTTTAAA
56152472 TTTTTT
1 TTTTTT
56152478 TTGAAATTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTTTTATAATTTTAAA
Found at i:56154157 original size:24 final size:22
Alignment explanation
Indices: 56154130--56154202 Score: 60
Period size: 24 Copynumber: 3.2 Consensus size: 22
56154120 TTATAATTAT
56154130 TTTTAGATGTGTAATTATCACAAC
1 TTTTA-ATGT-TAATTATCACAAC
* * **
56154154 TTTT-AT-TAAATTATAATTAC
1 TTTTAATGTTAATTATCACAAC
56154174 TTTTAAATGTATAATTATCACAAC
1 TTTT-AATGT-TAATTATCACAAC
56154198 TTTTA
1 TTTTA
56154203 TTTTACTTCA
Statistics
Matches: 37, Mismatches: 8, Indels: 9
0.69 0.15 0.17
Matches are distributed among these distances:
20 13 0.35
21 1 0.03
22 4 0.11
23 2 0.05
24 17 0.46
ACGTcount: A:0.37, C:0.10, G:0.05, T:0.48
Consensus pattern (22 bp):
TTTTAATGTTAATTATCACAAC
Found at i:56154163 original size:44 final size:44
Alignment explanation
Indices: 56154114--56154204 Score: 155
Period size: 44 Copynumber: 2.1 Consensus size: 44
56154104 TTTATTGTAA
* * *
56154114 ATTAAATTATAATTATTTTTAGATGTGTAATTATCACAACTTTT
1 ATTAAATTATAATTACTTTTAAATGTATAATTATCACAACTTTT
56154158 ATTAAATTATAATTACTTTTAAATGTATAATTATCACAACTTTT
1 ATTAAATTATAATTACTTTTAAATGTATAATTATCACAACTTTT
56154202 ATT
1 ATT
56154205 TTACTTCAAC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.38, C:0.08, G:0.04, T:0.49
Consensus pattern (44 bp):
ATTAAATTATAATTACTTTTAAATGTATAATTATCACAACTTTT
Found at i:56154167 original size:20 final size:21
Alignment explanation
Indices: 56154141--56154204 Score: 67
Period size: 20 Copynumber: 3.0 Consensus size: 21
56154131 TTTAGATGTG
56154141 TAATTATCACAACTTTTATTA
1 TAATTATCACAACTTTTATTA
* **
56154162 -AATTATAATTACTTTTAAATGTA
1 TAATTATCACAACTTTT--AT-TA
56154185 TAATTATCACAACTTTTATT
1 TAATTATCACAACTTTTATT
56154205 TTACTTCAAC
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
20 13 0.39
21 1 0.03
22 4 0.12
23 2 0.06
24 13 0.39
ACGTcount: A:0.39, C:0.11, G:0.02, T:0.48
Consensus pattern (21 bp):
TAATTATCACAACTTTTATTA
Found at i:56155125 original size:22 final size:23
Alignment explanation
Indices: 56155090--56155133 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
56155080 AAACTGCTGT
56155090 TGTTTTTCTAATTGTTTTGCTAC
1 TGTTTTTCTAATTGTTTTGCTAC
*
56155113 TGTTTTT-TCATTGTTTTGCTA
1 TGTTTTTCTAATTGTTTTGCTA
56155134 TCATTTTGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.11, C:0.11, G:0.14, T:0.64
Consensus pattern (23 bp):
TGTTTTTCTAATTGTTTTGCTAC
Found at i:56160540 original size:128 final size:128
Alignment explanation
Indices: 56160312--56160565 Score: 400
Period size: 128 Copynumber: 2.0 Consensus size: 128
56160302 GTTCCTTACG
* *
56160312 TGGTCAAACTATGGTTTCAATGATAAGTTCATATAAGAAACACCTAATAGATGTCTCTTCAATGA
1 TGGTCAAACTATGGTTTCAACGATAAGTTCATATAAGAAACACCTAACAGATGTCTCTTCAATGA
* * *
56160377 AGCATGGAGAAATCGTTTCGCATGAGGAGTTGATTTTGCGGAACCAACTATTGCATCAAACGC
66 AGCATGGAGAAATCGTTTCCCATCAGGAATTGATTTTGCGGAACCAACTATTGCATCAAACGC
* * * *
56160440 TGGTCAAACTGTGGTTTCAACGATGAGTTCATATAAGAAACACCTGACAGATGTTTCTTCAATGA
1 TGGTCAAACTATGGTTTCAACGATAAGTTCATATAAGAAACACCTAACAGATGTCTCTTCAATGA
* * *
56160505 AGCATGGAGCAATCTTTTCCCATCAGGAATTGATTTTGTGGAACCAACTATTGCATCAAAC
66 AGCATGGAGAAATCGTTTCCCATCAGGAATTGATTTTGCGGAACCAACTATTGCATCAAAC
56160566 ACTGTCCAAT
Statistics
Matches: 114, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
128 114 1.00
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.30
Consensus pattern (128 bp):
TGGTCAAACTATGGTTTCAACGATAAGTTCATATAAGAAACACCTAACAGATGTCTCTTCAATGA
AGCATGGAGAAATCGTTTCCCATCAGGAATTGATTTTGCGGAACCAACTATTGCATCAAACGC
Found at i:56170869 original size:44 final size:44
Alignment explanation
Indices: 56170806--56170896 Score: 146
Period size: 44 Copynumber: 2.1 Consensus size: 44
56170796 AACTCTATTT
* * *
56170806 TTAGTTTCTCACTTAAACTCTGATTAGTGTAGGTTATTTTAGTA
1 TTAGTTTCTCACTTAAACTCTGATCAATGTAGGTTATTTTAATA
*
56170850 TTAGTTTCTCACTTAAACTCTGGTCAATGTAGGTTATTTTAATA
1 TTAGTTTCTCACTTAAACTCTGATCAATGTAGGTTATTTTAATA
56170894 TTA
1 TTA
56170897 TTTGACCTAC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.26, C:0.12, G:0.14, T:0.47
Consensus pattern (44 bp):
TTAGTTTCTCACTTAAACTCTGATCAATGTAGGTTATTTTAATA
Found at i:56177646 original size:44 final size:43
Alignment explanation
Indices: 56177581--56177666 Score: 127
Period size: 44 Copynumber: 2.0 Consensus size: 43
56177571 TGTTTTAAGT
* * *
56177581 TTTCCACTTAAACTCTTATTAGTGTAGGCTATTTTAATATTAG
1 TTTCCACTTAAAATATGATTAGTGTAGGCTATTTTAATATTAG
*
56177624 TTTCTCACTTAAAATATGATTAGTGTAGGTTATTTTAATATTA
1 TTTC-CACTTAAAATATGATTAGTGTAGGCTATTTTAATATTA
56177667 TTTGACCAAC
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
43 4 0.11
44 34 0.89
ACGTcount: A:0.30, C:0.10, G:0.12, T:0.48
Consensus pattern (43 bp):
TTTCCACTTAAAATATGATTAGTGTAGGCTATTTTAATATTAG
Found at i:56178318 original size:19 final size:19
Alignment explanation
Indices: 56178294--56178387 Score: 134
Period size: 21 Copynumber: 4.7 Consensus size: 19
56178284 AATCTTCGAG
*
56178294 GATATGCAATCTTAGTTAT
1 GATATGCAATCTTAGATAT
56178313 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
56178332 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
56178353 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
*
56178374 GATATGTAATCTTA
1 GATATGCAATCTTA
56178388 AAAAATATGA
Statistics
Matches: 71, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
19 31 0.44
21 40 0.56
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.39
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:56178340 original size:21 final size:21
Alignment explanation
Indices: 56178295--56178378 Score: 145
Period size: 21 Copynumber: 4.1 Consensus size: 21
56178285 ATCTTCGAGG
*
56178295 ATATGCAATCTTAGTTATG--
1 ATATGCAATCTTAGATATGAT
56178314 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
56178335 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
56178356 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
56178377 AT
1 AT
56178379 GTAATCTTAA
Statistics
Matches: 62, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
19 18 0.29
21 44 0.71
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.39
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:56178379 original size:40 final size:38
Alignment explanation
Indices: 56178294--56178387 Score: 134
Period size: 40 Copynumber: 2.4 Consensus size: 38
56178284 AATCTTCGAG
*
56178294 GATATGCAATCTTAGTTATGATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGCAATCTTAGATAT
56178332 GATATATGCAATCTTAGATATGATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATATG--ATATGCAATCTTAGATAT
*
56178374 GATATGTAATCTTA
1 GATATGCAATCTTA
56178388 AAAAATATGA
Statistics
Matches: 50, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
38 1 0.02
40 30 0.60
42 19 0.38
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.39
Consensus pattern (38 bp):
GATATGCAATCTTAGATATGATATGCAATCTTAGATAT
Found at i:56178611 original size:18 final size:21
Alignment explanation
Indices: 56178587--56178625 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
56178577 TGGCTTACTG
*
56178587 TTTTTTTCTT-TTT-CGATTA
1 TTTTTTACTTATTTACGATTA
56178606 TTTTTTACTTATTTACGATT
1 TTTTTTACTTATTTACGATT
56178626 TTAAAAAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.69
Consensus pattern (21 bp):
TTTTTTACTTATTTACGATTA
Found at i:56184092 original size:21 final size:21
Alignment explanation
Indices: 56184055--56184094 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
56184045 TAAAAAAAAA
*
56184055 AGAAAAAAAGAAGGAAAAGTG
1 AGAAAAAAAGAAAGAAAAGTG
56184076 AGAAAAAGAA-AAAGAAAAG
1 AGAAAAA-AAGAAAGAAAAG
56184095 GAAAATGGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.72, C:0.00, G:0.25, T:0.03
Consensus pattern (21 bp):
AGAAAAAAAGAAAGAAAAGTG
Found at i:56185592 original size:132 final size:132
Alignment explanation
Indices: 56185355--56185767 Score: 646
Period size: 132 Copynumber: 3.1 Consensus size: 132
56185345 GTGAAACACT
* * * ** *
56185355 AAGCCTTGTCTCCCTGAGCAACAGCGGAATAGGTTGAGGATCATAGATCTTATCTCCCTAAGTAG
1 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
*
56185420 TAGTGGAGTAGATCGAGGACGAAAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
66 TAGTGGAGAAGATCGAGGACGAAAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
56185485 CC
131 CC
* *
56185487 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATATCCCTAAACAG
1 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
56185552 TAGTGGAGAAGATCGAGGACGAAAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
66 TAGTGGAGAAGATCGAGGACGAAAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
56185617 CC
131 CC
* * *
56185619 AAGTCTTGTCTCCCTGACCAGCAGCAGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
1 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
* * ** * * *
56185684 TAGTGGAGCAGATCGAAGACGGCAAATCATATCTTTCCAAGATAGAGGGAAGCAGATTCAAGCCA
66 TAGTGGAGAAGATCGAGGACGAAAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
56185749 CC
131 CC
*
56185751 AAGCCTTATCTCCCTGA
1 AAGCCTTGTCTCCCTGA
56185768 AGTTGCAGTG
Statistics
Matches: 258, Mismatches: 23, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
132 258 1.00
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.24
Consensus pattern (132 bp):
AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
TAGTGGAGAAGATCGAGGACGAAAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
CC
Found at i:56185895 original size:44 final size:42
Alignment explanation
Indices: 56185750--56186831 Score: 345
Period size: 44 Copynumber: 24.9 Consensus size: 42
56185740 TTCAAGCCAC
* * * *
56185750 CAAGCCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAA-AAC
1 CAAGTCTTATCT-CCTGAAGTTGCAGTGGAGCAGACTAAGAAG
** * * * *
56185792 CTTGGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-T-CGCAT
1 C-AAG-TCTTATCTC-CTGAAGTTGCAGTGGAGCAGACTAAGAAG
* * *
56185834 CTAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAAACTAAGTAAG
1 CAAGTCTTATCT-CCTGAAGTTGCAGTGGAGCAGACTAAG-AAG
* *
56185878 CAAGTCTTATCCTCCTGAAGTTGTAGT-GAGGCAGACTGAAGATGG
1 CAAGTCTTAT-CTCCTGAAGTTGCAGTGGA-GCAGACT-AAGA-AG
* * **
56185923 CAAATCTTATCTCCCT-AAGGTTGCAGTGGAGCAGATTAAAGCCG
1 CAAGTCTTATCT-CCTGAA-GTTGCAGTGGAGCAGACT-AAGAAG
* * * *
56185967 ACAA-TCCTATCTCCTTGAAGTTGTAGTGGAGCAGATTAA-AAT
1 -CAAGTCTTATCTCC-TGAAGTTGCAGTGGAGCAGACTAAGAAG
* * * * * *
56186009 CACAGATCTTATCTTTCTGAAGTTGTAG-AGAGCAGA-T-CGTAT
1 CA-AG-TCTTATC-TCCTGAAGTTGCAGTGGAGCAGACTAAGAAG
* *
56186051 CTAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACTAAGCAAG
1 CAAGTCTTATCT-CCTGAAGTTGCAGTGGAGCAGACTAAG-AAG
* *
56186095 CAAGTCTTATCCTCCTGAAGTTACAGT-GAGGCAGACTGAAGATG
1 CAAGTCTTAT-CTCCTGAAGTTGCAGTGGA-GCAGACT-AAGAAG
* * * * *
56186139 AAAAATCTTATCTCCCTGAAGTTGCAGTGGAACAG-GTTA-AAG
1 -CAAGTCTTATCT-CCTGAAGTTGCAGTGGAGCAGACTAAGAAG
* * * ** *
56186181 CCAATAATCCTATCTTCCTGAAGTTACAGTGGAGTGGATTAA-AA-
1 -C-A-AGTCTTATC-TCCTGAAGTTGCAGTGGAGCAGACTAAGAAG
* * * * * *
56186225 CTTTAGATCTTATCTCTCTGAAGTTACAG-AGAGCAGA-T-CGCAT
1 C--AAG-TCTTATCTC-CTGAAGTTGCAGTGGAGCAGACTAAGAAG
*
56186268 CAAGTCTTATCCTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATG
1 CAAGTCTTAT-CTCCTGAAGTTGCAGTGGA-GCAGACT-AAGAAG
* * *
56186312 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCA-AGTTA-AAG
1 -CAAGTCTTATCT-CCTGAAGTTGCAGTGGAGCAGACTAAGAAG
* * * * * ** * *
56186354 CCGATAATCCTATCTTCCTAAAGTAGTAGTGGAGTGGATTAA-AAC
1 -C-A-AGTCTTATC-TCCTGAAGTTGCAGTGGAGCAGACTAAGAAG
* *
56186399 CTTAGATCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTAAGTAAT
1 C-AAG-TCTTATCTC-CTGAAGTTGCAGTGGAGCAGACTAAG-AAG
* * *
56186445 CAAGTCTTATCCTCCTGGAGTTGCGGT-GAGGCAGACTGAAGATGG
1 CAAGTCTTAT-CTCCTGAAGTTGCAGTGGA-GCAGACT-AAGA-AG
* * * *
56186490 CGAA-TCTTATCTCCCTGAAGTTGCAGTGGGGCATACTAAATAAA
1 C-AAGTCTTATCT-CCTGAAGTTGCAGTGGAGCAGACT-AAGAAG
* * * * * * *
56186534 CAAATCATGTCTCCCTAAAGTTGCAGTGGAGCGGATTAA-AAC
1 CAAGTCTTATCT-CCTGAAGTTGCAGTGGAGCAGACTAAGAAG
* ** * * * *
56186576 CACAGATATTATCTCTCTGAAGTTGCAGTACAGTAGA-TCA-TAT
1 CA-AG-TCTTATCTC-CTGAAGTTGCAGTGGAGCAGACTAAGAAG
* * * * *
56186619 CGAGTCTTATCTCCCTGAAGTTGCAGTGGGGCATACTAAATAAA
1 CAAGTCTTATCT-CCTGAAGTTGCAGTGGAGCAGACT-AAGAAG
* * * * * * *
56186663 CAAATCATGTCTCCCTAAAGTTGCAGTGGAGCGGATTAA-AAC
1 CAAGTCTTATCT-CCTGAAGTTGCAGTGGAGCAGACTAAGAAG
* ** * * * *
56186705 CACAGATATTATCTCTCTGAAGTTGCAGTACAGTAGA-TCA-TAT
1 CA-AG-TCTTATCTC-CTGAAGTTGCAGTGGAGCAGACTAAGAAG
*
56186748 CGAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAG
1 CAAGTCTTATCT-CCTGAAGTTGCAGTGGAGCAGACT-AAG-AAG
* * * * *
56186793 CAAGCCTTATCCCCCTGAAATTGCAGTGGGGCATACTAA
1 CAAGTCTTAT-CTCCTGAAGTTGCAGTGGAGCAGACTAA
56186832 ATAAACAAAT
Statistics
Matches: 775, Mismatches: 180, Indels: 168
0.69 0.16 0.15
Matches are distributed among these distances:
39 1 0.00
40 56 0.07
41 79 0.10
42 35 0.05
43 64 0.08
44 354 0.46
45 173 0.22
46 13 0.02
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.27
Consensus pattern (42 bp):
CAAGTCTTATCTCCTGAAGTTGCAGTGGAGCAGACTAAGAAG
Found at i:56186153 original size:173 final size:176
Alignment explanation
Indices: 56185969--56186825 Score: 734
Period size: 173 Copynumber: 4.9 Consensus size: 176
56185959 TAAAGCCGAC
* * * * * * *
56185969 AATCCTATCTCCTTGAAGTTGTAGTGGAGCAGATTAAAATCACAGATCTTATCTTTCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACAAATCCTATCTTCCTGAAGTTG
* * ** *** * *
56186034 TAG-AGAGCAGA-TCGTATCTAG-TCTTATCTCCCTGAAGTTGCAATGGAGCAGACTAAGCAAGC
66 CAGTGGAGTGGATTAAAATCTAGATCTTATCTCTCTGAAGTTGCAATGGAGCAGACTAAGCAATC
*
56186096 AAGTCTTATCCTCCTGAAGTTACAGTGAGGCAGACTGAAGATGAAA
131 AAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGAAA
* * *
56186142 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGGTTAAAGCCA-ATAATCCTATCTTCCTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACA-AATCCTATCTTCCTGAAGTT
* * * *
56186206 ACAGTGGAGTGGATTAAAACTTTAGATCTTATCTCTCTGAAGTTAC-A-GAGAGCAGA-T-CGC-
65 GCAGTGGAGTGGATTAAAA-TCTAGATCTTATCTCTCTGAAGTTGCAATG-GAGCAGACTAAGCA
*
56186266 ATCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGACA
128 ATCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGAAA
* * *
56186315 AATCTTATCTCCCTGAAGTTGCAGTGGAGCA-AGTTAAAGCCGA-TAATCCTATCTTCCTAAAGT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAAAACC-ACAAATCCTATCTTCCTGAAGT
* * * * *
56186378 AGTAGTGGAGTGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTAAGTA
64 TGCAGTGGAGTGGATTAAAATC-TAGATCTTATCTCTCTGAAGTTGCAATGGAGCAGACTAAGCA
* * ***
56186443 ATCAAGTCTTATCCTCCTGGAGTTGCGGTGAGGCAGACTGAAGATGGCG
128 ATCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGAAA
* * * * * * * *
56186492 AATCTTATCTCCCTGAAGTTGCAGTGGGGCATACTAAATA-AACAAATCATGTCTCCCTAAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA-ACCACAAATCCTATCTTCCTGAAGTT
* * * * * *
56186556 GCAGTGGAGCGGATTAAAACCACAGATATTATCTCTCTGAAGTTGC-A-GTA-CAG--TAGATCA
65 GCAGTGGAGTGGATTAAAATC-TAGATCTTATCTCTCTGAAGTTGCAATGGAGCAGACTA-AGCA
* * * *
56186616 TATCGAGTCTTAT-CTCCCTGAAGTTGCAGTGGGGCATACT-AA-ATAAACA
128 -ATCAAGTCTTATCCT-CCTGAAGTTGCAGTGAGGCAGACTGAAGATGAA-A
* * * * * **
56186665 AATCATGTCTCCCTAAAGTTGCAGTGGAGCGGATTAAAACCACAGATATTATC-TCTCTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACAAATCCTATCTTC-CTGAAGTT
** * * * * * * *
56186729 GCAGTACAGTAGA-TCATATCGAG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAA
65 GCAGTGGAGTGGATTAAAATCTAGATCTTATCTCTCTGAAGTTGCAATGGAGCAGACT-AAGCAA
* * * * *
56186792 GCAAGCCTTATCCCCCTGAAATTGCAGTGGGGCA
129 TCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCA
56186826 TACTAAATAA
Statistics
Matches: 552, Mismatches: 102, Indels: 59
0.77 0.14 0.08
Matches are distributed among these distances:
170 18 0.03
171 2 0.00
172 13 0.02
173 260 0.47
174 77 0.14
175 12 0.02
176 15 0.03
177 154 0.28
178 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (176 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACAAATCCTATCTTCCTGAAGTTG
CAGTGGAGTGGATTAAAATCTAGATCTTATCTCTCTGAAGTTGCAATGGAGCAGACTAAGCAATC
AAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGAAA
Found at i:56186304 original size:217 final size:217
Alignment explanation
Indices: 56185731--56186340 Score: 804
Period size: 217 Copynumber: 2.8 Consensus size: 217
56185721 CAAGATAGAG
* * * * * *
56185731 GGAAGCAGATTCAAGCCACCAAGCCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTG
1 GGAA-CAGATTAAAGCCAACAATCC-TATCTTCCTGAAGTTGCAGTGGAGCGGATTAAAACTTTA
56185796 GATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGT
64 GATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGT
* * **
56185861 -AGAGCAAACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGTAGTGAGGCAGACTGAAGATGGCA
129 GAGAGCAGACTAAG-AAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGAAA
56185925 AATCTTATCTCCCTAAGGTTGCAGT
193 AATCTTATCTCCCTAAGGTTGCAGT
* * * * **
56185950 GGAGCAGATTAAAGCCGACAATCCTATC-TCCTTGAAGTTGTAGTGGAGCAGATTAAAA-TCACA
1 GGAACAGATTAAAGCCAACAATCCTATCTTCC-TGAAGTTGCAGTGGAGCGGATTAAAACT-TTA
* * * *
56186013 GATCTTATCTTTCTGAAGTTGTAGAGAGCAGATCGTATCTAGTCTTATCTCCCTGAAGTTGCAAT
64 GATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGT
*
56186078 G-GAGCAGACTAAGCAAGCAAGTCTTATCCTCCTGAAGTTACAGTGAGGCAGACTGAAGATGAAA
129 GAGAGCAGACTAAG-AAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGAAA
56186142 AATCTTATCTCCCTGAA-GTTGCAGT
193 AATCTTATCTCCCT-AAGGTTGCAGT
* * * *
56186167 GGAACAGGTTAAAGCCAATAATCCTATCTTCCTGAAGTTACAGTGGAGTGGATTAAAACTTTAGA
1 GGAACAGATTAAAGCCAACAATCCTATCTTCCTGAAGTTGCAGTGGAGCGGATTAAAACTTTAGA
* *
56186232 TCTTATCTCTCTGAAGTTACAGAGAGCAGATCGCATCAAGTCTTATC-CTCCTGAAGTTGCAGTG
66 TCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTC-CCTGAAGTTGCAGTG
* *
56186296 AG-GCAGACTGAAGATGACAAATCTTAT-CTCCCTGAAGTTGCAGTG
130 AGAGCAGACT-AAGAAG-CAAGTCTTATCCT-CCTGAAGTTGCAGTG
56186341 GAGCAAGTTA
Statistics
Matches: 339, Mismatches: 41, Indels: 23
0.84 0.10 0.06
Matches are distributed among these distances:
216 3 0.01
217 284 0.84
218 49 0.14
219 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.27
Consensus pattern (217 bp):
GGAACAGATTAAAGCCAACAATCCTATCTTCCTGAAGTTGCAGTGGAGCGGATTAAAACTTTAGA
TCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGA
GAGCAGACTAAGAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGAAAAAT
CTTATCTCCCTAAGGTTGCAGT
Found at i:56186421 original size:217 final size:214
Alignment explanation
Indices: 56185757--56186432 Score: 680
Period size: 217 Copynumber: 3.1 Consensus size: 214
56185747 CACCAAGCCT
* * *
56185757 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTGCAGAG
1 TATCTCTCTGAAGTTGCAGTGGAGCGGATTAAAACTTTAGATCTTATCTCTCTGAAGTTGCAGAG
* *
56185822 AGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGT-AGAGCAAACTAAG-TAAGCAAGTCT
66 AGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGAGAGCAGACTAAGATGA-CAAGTCT
* * * * *
56185885 TATCCTCCTGAAGTTGTAGTGAGGC-AGACTGAAGATGGCAAATCTTATCTCCCTAAGGTTGCAG
130 TATCCTCCTGAAGTTGCAGTGAGGCAAG-TTAAAGA-CG-AAATCTTATCTCCCTAAAGTTGCAG
*
56185949 TGGAGCA-GATTAAAGCCGACAATCC
192 TGGAG-AGGATTAAAGCC--TAATCC
* * ** * *
56185974 TATCTC-CTTGAAGTTGTAGTGGAGCAGATTAAAA-TCACAGATCTTATCTTTCTGAAGTTGTAG
1 TATCTCTC-TGAAGTTGCAGTGGAGCGGATTAAAACT-TTAGATCTTATCTCTCTGAAGTTGCAG
* * *
56186037 AGAGCAGATCGTATCTAGTCTTATCTCCCTGAAGTTGCAATG-GAGCAGACTAAGCAAG-CAAGT
64 AGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGAGAGCAGACTAAG-ATGACAAGT
* * * * *
56186100 CTTATCCTCCTGAAGTTACAGTGAGGCAGACTGAAGATGA-AAAATCTTATCTCCCTGAAGTTGC
128 CTTATCCTCCTGAAGTTGCAGTGAGGCA-AGTTAA-A-GACGAAATCTTATCTCCCTAAAGTTGC
*
56186164 AGTGGAACAGG-TTAAAGCCAATAATCC
190 AGTGG-AGAGGATTAAAGCC--TAATCC
* * *
56186191 TATCT-TCCTGAAGTTACAGTGGAGTGGATTAAAACTTTAGATCTTATCTCTCTGAAGTTACAGA
1 TATCTCT-CTGAAGTTGCAGTGGAGCGGATTAAAACTTTAGATCTTATCTCTCTGAAGTTGCAGA
* *
56186255 GAGCAGATCGCATCAAGTCTTATC-CTCCTGAAGTTGCAGTGAG-GCAGACTGAAGATGACAAAT
65 GAGCAGATCGCATCTAGTCTTATCTC-CCTGAAGTTGCAGTGAGAGCAGACT-AAGATGACAAGT
* * * * *
56186318 CTTAT-CTCCCTGAAGTTGCAGTG-GAGCAAGTTAAAGCCGATAATCCTATCTTCCTAAAGTAGT
128 CTTATCCT-CCTGAAGTTGCAGTGAG-GCAAGTTAAAGACGA-AATCTTATCTCCCTAAAGTTGC
* * *
56186381 AGTGGAGTGGATTAAAACCTTAGATCT
190 AGTGGAGAGGATTAAAGCC-TA-ATCC
56186408 TATCTCTCTGAAGTTGCAGTGGAGC
1 TATCTCTCTGAAGTTGCAGTGGAGC
56186433 AGACTAAGTA
Statistics
Matches: 378, Mismatches: 56, Indels: 50
0.78 0.12 0.10
Matches are distributed among these distances:
215 1 0.00
216 9 0.02
217 328 0.87
218 36 0.10
219 2 0.01
220 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (214 bp):
TATCTCTCTGAAGTTGCAGTGGAGCGGATTAAAACTTTAGATCTTATCTCTCTGAAGTTGCAGAG
AGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGAGAGCAGACTAAGATGACAAGTCTT
ATCCTCCTGAAGTTGCAGTGAGGCAAGTTAAAGACGAAATCTTATCTCCCTAAAGTTGCAGTGGA
GAGGATTAAAGCCTAATCC
Found at i:56186433 original size:350 final size:350
Alignment explanation
Indices: 56186055--56186694 Score: 856
Period size: 350 Copynumber: 1.8 Consensus size: 350
56186045 TCGTATCTAG
56186055 TCTTATCTCCCTGAAGTTGCAATGGAGCAGACTAAGCAAGCAAGTCTTATCCTCCTGAAGTTACA
1 TCTTATCTCCCTGAAGTTGCAATGGAGCAGACTAAGCAAGCAAGTCTTATCCTCCTGAAGTTACA
** *
56186120 GTGAGGCAGACTGAAGATGAAAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGGTTAAAGCCAA
66 GTGAGGCAGACTGAAGATGAAAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGACTAAA-CAAA
* * * * * *** *
56186185 -TAATCCTATCTTCCTGAAGTTACAGTGGAGTGGATTAAAACTTTAGATCTTATCTCTCTGAAGT
130 CAAATCATATCTCCCTAAAGTTACAGTGGAGCGGATTAAAACCACAGATATTATCTCTCTGAAGT
* *
56186249 TACAG-AGAGCAGATCGCATCAAGTCTTATC-CTCCTGAAGTTGCAGTGAGGCAGACTGAAGAT-
195 TACAGTACAGCAGATCACATCAAGTCTTATCTC-CCTGAAGTTGCAGTGAGGCAGACT-AA-ATA
* * *
56186311 GACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGTTAAAGCCGATAATCCTATCTTCCTAAA
257 AACAAATCATATCTCCCTAAAGTTGCAGTGGAGCAAGTTAAAGCCGATAATCCTATCTTCCTAAA
56186376 GTAGTAGTGGAGTGGATTAAAACCTTAGA
322 GTAGTAGTGGAGTGGATTAAAACCTTAGA
* * * * * * *
56186405 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTAAGTAATCAAGTCTTATCCTCCTGGAGTTGCG
1 TCTTATCTCCCTGAAGTTGCAATGGAGCAGACTAAGCAAGCAAGTCTTATCCTCCTGAAGTTACA
*** ** * *
56186470 GTGAGGCAGACTGAAGATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGGGCATACTAAATAAAC
66 GTGAGGCAGACTGAAGATGAAAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGACTAAACAAAC
* *
56186535 AAATCATGTCTCCCTAAAGTTGCAGTGGAGCGGATTAAAACCACAGATATTATCTCTCTGAAGTT
131 AAATCATATCTCCCTAAAGTTACAGTGGAGCGGATTAAAACCACAGATATTATCTCTCTGAAGTT
* * * * * *
56186600 GCAGTACAGTAGATCATATCGAGTCTTATCTCCCTGAAGTTGCAGTGGGGCATACTAAATAAACA
196 ACAGTACAGCAGATCACATCAAGTCTTATCTCCCTGAAGTTGCAGTGAGGCAGACTAAATAAACA
*
56186665 AATCATGTCTCCCTAAAGTTGCAGTGGAGC
261 AATCATATCTCCCTAAAGTTGCAGTGGAGC
56186695 GGATTAAAAC
Statistics
Matches: 246, Mismatches: 40, Indels: 8
0.84 0.14 0.03
Matches are distributed among these distances:
349 4 0.02
350 199 0.81
351 42 0.17
352 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (350 bp):
TCTTATCTCCCTGAAGTTGCAATGGAGCAGACTAAGCAAGCAAGTCTTATCCTCCTGAAGTTACA
GTGAGGCAGACTGAAGATGAAAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGACTAAACAAAC
AAATCATATCTCCCTAAAGTTACAGTGGAGCGGATTAAAACCACAGATATTATCTCTCTGAAGTT
ACAGTACAGCAGATCACATCAAGTCTTATCTCCCTGAAGTTGCAGTGAGGCAGACTAAATAAACA
AATCATATCTCCCTAAAGTTGCAGTGGAGCAAGTTAAAGCCGATAATCCTATCTTCCTAAAGTAG
TAGTGGAGTGGATTAAAACCTTAGA
Found at i:56186652 original size:129 final size:129
Alignment explanation
Indices: 56186494--56186776 Score: 566
Period size: 129 Copynumber: 2.2 Consensus size: 129
56186484 AGATGGCGAA
56186494 TCTTATCTCCCTGAAGTTGCAGTGGGGCATACTAAATAAACAAATCATGTCTCCCTAAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGGGCATACTAAATAAACAAATCATGTCTCCCTAAAGTTGCA
56186559 GTGGAGCGGATTAAAACCACAGATATTATCTCTCTGAAGTTGCAGTACAGTAGATCATATCGAG
66 GTGGAGCGGATTAAAACCACAGATATTATCTCTCTGAAGTTGCAGTACAGTAGATCATATCGAG
56186623 TCTTATCTCCCTGAAGTTGCAGTGGGGCATACTAAATAAACAAATCATGTCTCCCTAAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGGGCATACTAAATAAACAAATCATGTCTCCCTAAAGTTGCA
56186688 GTGGAGCGGATTAAAACCACAGATATTATCTCTCTGAAGTTGCAGTACAGTAGATCATATCGAG
66 GTGGAGCGGATTAAAACCACAGATATTATCTCTCTGAAGTTGCAGTACAGTAGATCATATCGAG
56186752 TCTTATCTCCCTGAAGTTGCAGTGG
1 TCTTATCTCCCTGAAGTTGCAGTGG
56186777 AGCAGACTCA
Statistics
Matches: 154, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
129 154 1.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.29
Consensus pattern (129 bp):
TCTTATCTCCCTGAAGTTGCAGTGGGGCATACTAAATAAACAAATCATGTCTCCCTAAAGTTGCA
GTGGAGCGGATTAAAACCACAGATATTATCTCTCTGAAGTTGCAGTACAGTAGATCATATCGAG
Found at i:56186858 original size:129 final size:129
Alignment explanation
Indices: 56186494--56186841 Score: 412
Period size: 129 Copynumber: 2.7 Consensus size: 129
56186484 AGATGGCGAA
* * * * * *
56186494 TCTTATCTCCCTGAAGTTGCAGTGGGGCATACTAAATAAACAAATCATGTCTCCCTAAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGAAACAAACCATATCCCCCTAAAGTTGCA
* * * * *
56186559 GTGGAGCGGATTAAAACCACAGATATTATCTCTCTGAAGTTGCAGTACAGTAGATCATATCGAG
66 GTGGAGCAGACTAAAACAACAAATACTATCTCTCTGAAGTTGCAGTACAGTAGATCATATCGAG
* * * * * *
56186623 TCTTATCTCCCTGAAGTTGCAGTGGGGCATACTAAATAAACAAATCATGTCTCCCTAAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGAAACAAACCATATCCCCCTAAAGTTGCA
* * * * *
56186688 GTGGAGCGGATTAAAACCACAGATATTATCTCTCTGAAGTTGCAGTACAGTAGATCATATCGAG
66 GTGGAGCAGACTAAAACAACAAATACTATCTCTCTGAAGTTGCAGTACAGTAGATCATATCGAG
* * *
56186752 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAGCCTTATCCCCCTGAAA-TTG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGAAA-CAAACCATATCCCCCT-AAAGTTG
* *
56186816 CAGTGGGGCATACTAAATA-AACAAAT
64 CAGTGGAGCAGACTAAA-ACAACAAAT
56186842 CCTGTCTTCC
Statistics
Matches: 201, Mismatches: 15, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
129 165 0.82
130 32 0.16
131 4 0.02
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (129 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGAAACAAACCATATCCCCCTAAAGTTGCA
GTGGAGCAGACTAAAACAACAAATACTATCTCTCTGAAGTTGCAGTACAGTAGATCATATCGAG
Found at i:56187202 original size:19 final size:19
Alignment explanation
Indices: 56187176--56187229 Score: 90
Period size: 19 Copynumber: 2.8 Consensus size: 19
56187166 AATCTTCGAG
56187176 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
56187195 GGTATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
56187214 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
56187230 AGATATGATT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.35, C:0.09, G:0.19, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:56187236 original size:22 final size:23
Alignment explanation
Indices: 56187208--56187252 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
56187198 ATGCAATCTT
56187208 AGATATGA-TATGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
*
56187230 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
56187253 GATTTAGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.38, C:0.04, G:0.18, T:0.40
Consensus pattern (23 bp):
AGATATGATTATGTAATCTTAGA
Found at i:56188088 original size:19 final size:20
Alignment explanation
Indices: 56188047--56188088 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
56188037 ATTTCTATGC
* *
56188047 CATTGTAATATTTATTATTG
1 CATTGTAATATTTAATATAG
*
56188067 CATTGT-ATATTTAATGTAG
1 CATTGTAATATTTAATATAG
56188086 CAT
1 CAT
56188089 CACATCATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.31, C:0.07, G:0.12, T:0.50
Consensus pattern (20 bp):
CATTGTAATATTTAATATAG
Found at i:56189544 original size:31 final size:29
Alignment explanation
Indices: 56189472--56189565 Score: 88
Period size: 31 Copynumber: 3.2 Consensus size: 29
56189462 GTACAATTTG
*
56189472 ATACATG-AACTTTGATTTGATGTAATCAT-
1 ATACATGAAACTTTGATTTGAT-TCAT-ATC
56189501 ATACAT-ATAACTTTGATTGTGATTCATATGC
1 ATACATGA-AACTTTGATT-TGATTCATAT-C
*
56189532 ATACATGAAACTTTAATTTTGATTCA-ATC
1 ATACATGAAACTTTGA-TTTGATTCATATC
56189561 ATACA
1 ATACA
56189566 CATTTAAAGA
Statistics
Matches: 56, Mismatches: 2, Indels: 14
0.78 0.03 0.19
Matches are distributed among these distances:
29 14 0.25
30 15 0.27
31 24 0.43
32 3 0.05
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (29 bp):
ATACATGAAACTTTGATTTGATTCATATC
Found at i:56190177 original size:26 final size:28
Alignment explanation
Indices: 56190141--56190192 Score: 72
Period size: 26 Copynumber: 1.9 Consensus size: 28
56190131 AAAAAAATAT
*
56190141 TGTTTTCTTGCTTCTTT-TT-TTTTTAC
1 TGTTTTCTTGCTACTTTCTTGTTTTTAC
*
56190167 TGTTTTGTTGCTACTTTCTTGTTTTT
1 TGTTTTCTTGCTACTTTCTTGTTTTT
56190193 TTGCTACCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 15 0.68
27 2 0.09
28 5 0.23
ACGTcount: A:0.04, C:0.13, G:0.12, T:0.71
Consensus pattern (28 bp):
TGTTTTCTTGCTACTTTCTTGTTTTTAC
Found at i:56190207 original size:11 final size:11
Alignment explanation
Indices: 56190191--56190215 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
56190181 TTTCTTGTTT
56190191 TTTTGCTACCA
1 TTTTGCTACCA
56190202 TTTTGCTACCA
1 TTTTGCTACCA
56190213 TTT
1 TTT
56190216 CACTATTATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.24, G:0.08, T:0.52
Consensus pattern (11 bp):
TTTTGCTACCA
Found at i:56196927 original size:42 final size:42
Alignment explanation
Indices: 56196881--56196963 Score: 148
Period size: 42 Copynumber: 2.0 Consensus size: 42
56196871 GTTAATATAA
*
56196881 CATAATTTAATTTTGTAAATGACGTGGAACTTTTTATAAGGT
1 CATAATTTAATTTCGTAAATGACGTGGAACTTTTTATAAGGT
*
56196923 CATAATTTAATTTCGTAAATGATGTGGAACTTTTTATAAGG
1 CATAATTTAATTTCGTAAATGACGTGGAACTTTTTATAAGG
56196964 GAACTTGTGA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.34, C:0.07, G:0.17, T:0.42
Consensus pattern (42 bp):
CATAATTTAATTTCGTAAATGACGTGGAACTTTTTATAAGGT
Found at i:56199630 original size:22 final size:22
Alignment explanation
Indices: 56199605--56199652 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
56199595 GCCTATATTT
56199605 TTTTCACTATTG-TTTATTGCCA
1 TTTTCA-TATTGTTTTATTGCCA
* * *
56199627 TTTTGATGTTGTTTTATTGTCA
1 TTTTCATATTGTTTTATTGCCA
56199649 TTTT
1 TTTT
56199653 GCTATTATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.15, C:0.10, G:0.12, T:0.62
Consensus pattern (22 bp):
TTTTCATATTGTTTTATTGCCA
Found at i:56202362 original size:5 final size:5
Alignment explanation
Indices: 56202352--56202376 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
56202342 GATTCAATCA
56202352 CAATT CAATT CAATT CAATT CAATT
1 CAATT CAATT CAATT CAATT CAATT
56202377 TCACTTTCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (5 bp):
CAATT
Found at i:56203303 original size:16 final size:17
Alignment explanation
Indices: 56203273--56203305 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
56203263 TTGTTTATTA
*
56203273 TTTAATAAATGTAATAT
1 TTTAATAAATATAATAT
56203290 TTTAAT-AATATAATAT
1 TTTAATAAATATAATAT
56203306 AATAATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (17 bp):
TTTAATAAATATAATAT
Found at i:56203452 original size:12 final size:12
Alignment explanation
Indices: 56203435--56203465 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
56203425 CACAATATAC
56203435 TAATAATATTAA
1 TAATAATATTAA
56203447 TAATAATATTAA
1 TAATAATATTAA
*
56203459 TATTAAT
1 TAATAAT
56203466 GTCAAATTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (12 bp):
TAATAATATTAA
Found at i:56207955 original size:22 final size:21
Alignment explanation
Indices: 56207893--56207951 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 21
56207883 CCGGGTTGAG
*
56207893 AAAATAATTTAATTAATAAGTT
1 AAAATAA-TTAATTAATAAATT
** *
56207915 AATTTAGTTAAGTTAATAAATT
1 AAAATAATTAA-TTAATAAATT
56207937 AAAATAATTAATTAA
1 AAAATAATTAATTAA
56207952 ATAATATTTT
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
21 8 0.28
22 21 0.72
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (21 bp):
AAAATAATTAATTAATAAATT
Found at i:56209760 original size:5 final size:5
Alignment explanation
Indices: 56209750--56209781 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
56209740 AATCTGAAAC
56209750 GGAGA GGAGA GGAGA GGAGA GGAGA GGAGA GG
1 GGAGA GGAGA GGAGA GGAGA GGAGA GGAGA GG
56209782 GCAAATCAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.62, T:0.00
Consensus pattern (5 bp):
GGAGA
Found at i:56214960 original size:24 final size:24
Alignment explanation
Indices: 56214933--56215013 Score: 90
Period size: 24 Copynumber: 3.3 Consensus size: 24
56214923 AAGCTCTTTT
56214933 ATGAGCTTCCCAATATTGGCTCGC
1 ATGAGCTTCCCAATATTGGCTCGC
** * *
56214957 ATGAGCTTTTCGATATTGGCTGGC
1 ATGAGCTTCCCAATATTGGCTCGC
* * *
56214981 ATGAGCTTCCCATTACATGGCTCAC
1 ATGAGCTTCCCAATA-TTGGCTCGC
56215006 ATGAGCTT
1 ATGAGCTT
56215014 TCTGTTACAT
Statistics
Matches: 45, Mismatches: 11, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
24 31 0.69
25 14 0.31
ACGTcount: A:0.21, C:0.25, G:0.22, T:0.32
Consensus pattern (24 bp):
ATGAGCTTCCCAATATTGGCTCGC
Found at i:56215008 original size:25 final size:25
Alignment explanation
Indices: 56214980--56215069 Score: 92
Period size: 25 Copynumber: 3.6 Consensus size: 25
56214970 TATTGGCTGG
*
56214980 CATGAGCTTCCCATTACATGGCTCA
1 CATGAGCTTCCCGTTACATGGCTCA
* * *
56215005 CATGAGCTTTCTGTTACATGGTTCA
1 CATGAGCTTCCCGTTACATGGCTCA
* * *
56215030 CATGAGTTTCTCGTTACGTGGCTCGA
1 CATGAGCTTCCCGTTACATGGCTC-A
*
56215056 -AAGAGCTTCCCGTT
1 CATGAGCTTCCCGTT
56215070 TTTATGCTTA
Statistics
Matches: 51, Mismatches: 13, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
25 50 0.98
26 1 0.02
ACGTcount: A:0.20, C:0.26, G:0.21, T:0.33
Consensus pattern (25 bp):
CATGAGCTTCCCGTTACATGGCTCA
Found at i:56215652 original size:6 final size:6
Alignment explanation
Indices: 56215641--56215667 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
56215631 AACATATTTT
56215641 TATATG TATATG TATATG TATATG TAT
1 TATATG TATATG TATATG TATATG TAT
56215668 GTGTGGCTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (6 bp):
TATATG
Found at i:56223146 original size:16 final size:16
Alignment explanation
Indices: 56223125--56223156 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
56223115 AAGAAGAACA
56223125 ATATACTTTTGGAGTT
1 ATATACTTTTGGAGTT
56223141 ATATACTTTTGGAGTT
1 ATATACTTTTGGAGTT
56223157 CTTCTATTGT
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:0.25, C:0.06, G:0.19, T:0.50
Consensus pattern (16 bp):
ATATACTTTTGGAGTT
Found at i:56228780 original size:3 final size:3
Alignment explanation
Indices: 56228772--56228829 Score: 107
Period size: 3 Copynumber: 19.3 Consensus size: 3
56228762 CTTCTTAATT
*
56228772 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATT ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
56228820 ATC ATC ATC A
1 ATC ATC ATC A
56228830 GTATTATTAT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:56229908 original size:15 final size:16
Alignment explanation
Indices: 56229880--56229910 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
56229870 TTGTATAGTA
56229880 AAATATTAAAAAAAAT
1 AAATATTAAAAAAAAT
56229896 AAATATTAAAAAAAA
1 AAATATTAAAAAAAA
56229911 GAGACACGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (16 bp):
AAATATTAAAAAAAAT
Found at i:56237307 original size:2 final size:2
Alignment explanation
Indices: 56237300--56237325 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
56237290 TCCTTTATTC
56237300 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
56237326 TTAAAACATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:56237799 original size:19 final size:19
Alignment explanation
Indices: 56237745--56237801 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
56237735 ATGAAAATAC
*
56237745 AAATAAATAAAT-GAATAAA
1 AAATAAA-AAATAGAATATA
* *
56237764 AAATAAACAA-A-ATTATA
1 AAATAAAAAATAGAATATA
56237781 AAATAAAAAATAGAATATA
1 AAATAAAAAATAGAATATA
56237800 AA
1 AA
56237802 GTGTGTATAT
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
17 13 0.43
18 3 0.10
19 14 0.47
ACGTcount: A:0.74, C:0.02, G:0.04, T:0.21
Consensus pattern (19 bp):
AAATAAAAAATAGAATATA
Found at i:56238288 original size:8 final size:8
Alignment explanation
Indices: 56238264--56238301 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
56238254 ACTGTTTAAT
56238264 TAAAAAAA
1 TAAAAAAA
*
56238272 T-AAATAA
1 TAAAAAAA
56238279 TAAAAAAA
1 TAAAAAAA
56238287 TAAAAAAAA
1 T-AAAAAAA
56238296 TAAAAA
1 TAAAAA
56238302 GGGACTAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
7 6 0.23
8 12 0.46
9 8 0.31
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (8 bp):
TAAAAAAA
Found at i:56262159 original size:41 final size:41
Alignment explanation
Indices: 56261910--56262152 Score: 301
Period size: 41 Copynumber: 6.0 Consensus size: 41
56261900 GTTATATGAC
** * *
56261910 TTTTAGCGGCGTTTTATTAAAAGCACCGCTAATGCTTTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
*
56261951 TTTTAGTGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
*
56261992 TTTTAGCGGCGTTTTACCAAAAGCGCTGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* * *
56262033 TTTTAGCGGTGTTTTACCAAAAGTGCCGCTAATGCT-TTGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
** * * **
56262073 TTTTAGCGGCGTTTTAGTAAAAAACGCCACTGTTGCTCT-GT
1 TTTTAGCGGCGTTTTA-CCAAAAGCGCCGCTAATGCTCTGGT
** *
56262114 TTTTAGCGGCGTTTTACCAAAAATGCCGCTATTGCTCTG
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTG
56262153 TATTTTAAAA
Statistics
Matches: 175, Mismatches: 24, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
40 35 0.20
41 139 0.79
42 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.37
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
Found at i:56265020 original size:3 final size:3
Alignment explanation
Indices: 56265012--56265050 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
56265002 CTCAACATTC
* *
56265012 TCT TCT TCT TCT TCT TCT T-T TTT TCT TCT TTT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
56265051 ATTCATTAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (3 bp):
TCT
Found at i:56270325 original size:20 final size:20
Alignment explanation
Indices: 56270268--56270325 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
56270258 TAAGCTCATG
*
56270268 ATAAGTAAATGGAATGGAAA
1 ATAAGTAAATGGAATGGTAA
56270288 ATAAGTAAATGGAATGGTAA
1 ATAAGTAAATGGAATGGTAA
*
56270308 GTAAGTAAATGGAATGGT
1 ATAAGTAAATGGAATGGT
56270326 TTATCGTCTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.48, C:0.00, G:0.28, T:0.24
Consensus pattern (20 bp):
ATAAGTAAATGGAATGGTAA
Found at i:56285142 original size:339 final size:335
Alignment explanation
Indices: 56284485--56285156 Score: 755
Period size: 341 Copynumber: 2.0 Consensus size: 335
56284475 TCCATATAAC
** *
56284485 TGTTGGATCTGGTGCCCTAAGTGTAGTATTTTCGTCTAAGTACACTTGTAATTTTTCAAATAGAT
1 TGTTGGATCTAATGCCCTAAGTGTAGTATTTTCGTCTAAGTACACTTGTAATTTTTCAAATAAAT
* * *
56284550 TGATTAATAAAACTATTCAGGAATTACATTAATACTTTGTATATTGTTCTCAAATGGTTTTTGCA
66 TGATTAATAAAACAATTCAGGAATTACATTAATACTTTGTATATTGTCCTCAAATAGTTTTTGCA
** * * * *
56284615 TGCAAAGAAAAATAGAAGCAGGTGTTGCTCATTGGTTGTCTATTGCTTAAACTGATACTAAGCGA
131 CACAAAGAAAAATAGAAGCAGATATTGCTCATTGGTTGTCTAATGCTTAAACTAATACTAAGCGA
* * * * * * *
56284680 TATTACGTGGTCGAATCATATTACAGGAAGAAAACTTGTATTAGTAGATGAACCTAAAAATATCC
196 TATTACGTGGTAGAATCATAGTACAGAAAGAAAACTTATATTAGCAAACGAACCT-AAAATATCC
* * * * *
56284745 TTAGTCTAAACAGAAATTACCAAACTAGTTGAAAGACTAATATGTCATCTATCAAGTCCAATAAG
260 TTAGTCTAAACAGAAATGACCAAACCAATTAAAAGACTAATATGTCATCTAACAAGTCCAATAAG
*
56284810 GGAGATGCTTT
325 AGAGATGCTTT
* * * **
56284821 TGTTGGATCTAATGCCGTAAGTGTAGTATTTT-GTCTAATTACACTTGTTATTTTTTTTGAATAA
1 TGTTGGATCTAATGCCCTAAGTGTAGTATTTTCGTCTAAGTACACTTG-TA-ATTTTTCAAATAA
* * *
56284885 ATTGGTTATTAAAACAAATTCATTG-ATTACGATTAATATACTTTGTATTATTGTCCTCAAATAG
64 ATTGATTAATAAAAC-AATTCA-GGAATTAC-ATT-A-ATACTTTGTA-TATTGTCCTCAAATAG
* * * *
56284949 TTTTTGCACACAAAGTAAAATGGAAGCTA-ATATTGCTCATTGGTTTTCTAATG-TTTAACTAAT
123 TTTTTGCACACAAAGAAAAATAGAAGC-AGATATTGCTCATTGGTTGTCTAATGCTTAAACTAAT
* * *
56285012 ACTAAGCGATATTACGTGGTAGAATCGTAGTGC-GAAAAGACAACTTATATTAGCAAACGAACCT
187 ACTAAGCGATATTACGTGGTAGAATCATAGTACAG-AAAGAAAACTTATATTAGCAAACGAACCT
* * * * * **
56285076 -ATATGT-CTATAGTCTAATCAGAAATGAGCAGACCAATTAAAAGACTAATATGTTTTCTAACAA
251 AAAATATCCT-TAGTCTAAACAGAAATGACCAAACCAATTAAAAGACTAATATGTCATCTAACAA
*
56285139 GTCCAATTAGAGAGATGC
315 GTCCAATAAGAGAGATGC
56285157 CTTGTCTTGG
Statistics
Matches: 277, Mismatches: 48, Indels: 19
0.81 0.14 0.06
Matches are distributed among these distances:
335 14 0.05
336 31 0.11
337 22 0.08
338 12 0.04
339 68 0.25
340 2 0.01
341 70 0.25
342 57 0.21
343 1 0.00
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (335 bp):
TGTTGGATCTAATGCCCTAAGTGTAGTATTTTCGTCTAAGTACACTTGTAATTTTTCAAATAAAT
TGATTAATAAAACAATTCAGGAATTACATTAATACTTTGTATATTGTCCTCAAATAGTTTTTGCA
CACAAAGAAAAATAGAAGCAGATATTGCTCATTGGTTGTCTAATGCTTAAACTAATACTAAGCGA
TATTACGTGGTAGAATCATAGTACAGAAAGAAAACTTATATTAGCAAACGAACCTAAAATATCCT
TAGTCTAAACAGAAATGACCAAACCAATTAAAAGACTAATATGTCATCTAACAAGTCCAATAAGA
GAGATGCTTT
Found at i:56286655 original size:27 final size:27
Alignment explanation
Indices: 56286624--56286717 Score: 102
Period size: 27 Copynumber: 3.5 Consensus size: 27
56286614 TTAGTTTACC
** * *
56286624 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTACCCAAATACCCTCAATTTGTA
*
56286651 AAATTA-CCAAAGTACCC-CAATTTATA
1 AAATTACCCAAA-TACCCTCAATTTGTA
*
56286677 AAATTACCCAAATATCCTCAATTTGTA
1 AAATTACCCAAATACCCTCAATTTGTA
*
56286704 AAATTACCGAAATA
1 AAATTACCCAAATA
56286718 AGATAGAATT
Statistics
Matches: 56, Mismatches: 8, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
26 19 0.34
27 37 0.66
ACGTcount: A:0.44, C:0.21, G:0.06, T:0.29
Consensus pattern (27 bp):
AAATTACCCAAATACCCTCAATTTGTA
Found at i:56287658 original size:27 final size:27
Alignment explanation
Indices: 56286722--56287647 Score: 1798
Period size: 27 Copynumber: 34.3 Consensus size: 27
56286712 GAAATAAGAT
*
56286722 AGAATTACCATTTTACTCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
* * *
56286749 AAAATTACCGTTTTATCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
*
56286776 AAAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
56286803 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
56286830 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
56286857 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
56286884 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
56286911 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
56286938 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
56286965 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
56286992 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
56287019 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
56287046 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
56287073 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
56287100 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
56287127 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
56287154 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
56287181 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
56287208 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
56287235 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
56287262 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
56287289 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
56287316 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
56287343 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
56287370 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
56287397 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
56287424 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
56287451 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
56287478 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
56287505 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
56287532 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
56287559 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
56287586 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
56287613 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
*
56287640 AAAATTAC
1 AGAATTAC
56287648 TAAAATACCC
Statistics
Matches: 891, Mismatches: 8, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
27 891 1.00
ACGTcount: A:0.30, C:0.26, G:0.07, T:0.37
Consensus pattern (27 bp):
AGAATTACCATTTTACCCTCGATTTAC
Found at i:56287723 original size:27 final size:27
Alignment explanation
Indices: 56287635--56287729 Score: 93
Period size: 27 Copynumber: 3.5 Consensus size: 27
56287625 TTACCCTCGA
* * *
56287635 TTTACAAAATTACTAAAATACCCTTGG
1 TTTATAAAATTACCAAAATACCCCTGG
* **
56287662 TTTACAAAATTACCAAAATA-CCCTCAA
1 TTTATAAAATTACCAAAATACCCCT-GG
**
56287689 TCAATAAAATTACCAAAATACCCCTGG
1 TTTATAAAATTACCAAAATACCCCTGG
*
56287716 TTTGTAAAATTACC
1 TTTATAAAATTACC
56287730 CCTGTAGGGT
Statistics
Matches: 54, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
26 3 0.06
27 47 0.87
28 4 0.07
ACGTcount: A:0.43, C:0.22, G:0.05, T:0.29
Consensus pattern (27 bp):
TTTATAAAATTACCAAAATACCCCTGG
Found at i:56287764 original size:27 final size:27
Alignment explanation
Indices: 56287726--56287882 Score: 199
Period size: 27 Copynumber: 5.9 Consensus size: 27
56287716 TTTGTAAAAT
*
56287726 TACCCCTGTAGGGTAGAATTACTGAAA
1 TACCCCTGTAGGGTAGAATTACCGAAA
*
56287753 TACCCCTATAGGGTAGAATTACCGAAA
1 TACCCCTGTAGGGTAGAATTACCGAAA
* *
56287780 TA-CCTTGTAGGGTAGAATTACCAAAA
1 TACCCCTGTAGGGTAGAATTACCGAAA
* **
56287806 TACCCTTGTAGGGTAGAATTACTAAAA
1 TACCCCTGTAGGGTAGAATTACCGAAA
* *
56287833 TACCCCTGTAGGGTGGAATTACCGAGA
1 TACCCCTGTAGGGTAGAATTACCGAAA
* * *
56287860 TACCCTTGTGGGGTAAAATTACC
1 TACCCCTGTAGGGTAGAATTACC
56287883 ATTTTGCGCC
Statistics
Matches: 114, Mismatches: 15, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
26 23 0.20
27 91 0.80
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (27 bp):
TACCCCTGTAGGGTAGAATTACCGAAA
Found at i:56287818 original size:53 final size:54
Alignment explanation
Indices: 56287721--56287883 Score: 211
Period size: 53 Copynumber: 3.0 Consensus size: 54
56287711 CCTGGTTTGT
* * *
56287721 AAAATTACCCCTGTAGGGTAGAATTACTGAAATACCCCTATAGGGTAGAATTACC
1 AAAA-TACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTACC
* * * *
56287776 GAAATA-CCTTGTAGGGTAGAATTACCAAAATACCCTTGTAGGGTAGAATTACT
1 AAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTACC
* * * *
56287829 AAAATACCCCTGTAGGGTGGAATTACCGAGATACCCTTGTGGGGTAAAATTACC
1 AAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTACC
56287883 A
1 A
56287884 TTTTGCGCCT
Statistics
Matches: 92, Mismatches: 15, Indels: 3
0.84 0.14 0.03
Matches are distributed among these distances:
53 46 0.50
54 43 0.47
55 3 0.03
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (54 bp):
AAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTACC
Found at i:56287863 original size:80 final size:82
Alignment explanation
Indices: 56287721--56287883 Score: 249
Period size: 80 Copynumber: 2.0 Consensus size: 82
56287711 CCTGGTTTGT
*
56287721 AAAATTACCCCTGTAGGGTAGAATTACTGAAATACCCCTATAGGGTAGAATTACCGAAATA-CCT
1 AAAATTACCCCTGTAGGGTAGAATTACTAAAATACCCCTATAGGGTAGAATTACCGAAATACCCT
*
56287785 TGTAGGGTAGAATTACC
66 TGTAGGGTAAAATTACC
* * * *
56287802 AAAA-TACCCTTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTGGAATTACCGAGATACCCT
1 AAAATTACCCCTGTAGGGTAGAATTACTAAAATACCCCTATAGGGTAGAATTACCGAAATACCCT
*
56287866 TGTGGGGTAAAATTACC
66 TGTAGGGTAAAATTACC
56287883 A
1 A
56287884 TTTTGCGCCT
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
80 51 0.69
81 23 0.31
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (82 bp):
AAAATTACCCCTGTAGGGTAGAATTACTAAAATACCCCTATAGGGTAGAATTACCGAAATACCCT
TGTAGGGTAAAATTACC
Found at i:56288316 original size:6 final size:6
Alignment explanation
Indices: 56288285--56288371 Score: 88
Period size: 6 Copynumber: 14.3 Consensus size: 6
56288275 TTGCATTCCC
* * *
56288285 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG ATTTTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* *
56288334 ATTTTG ATTCTA ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
56288372 AATGTTTCTT
Statistics
Matches: 68, Mismatches: 8, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
5 3 0.04
6 60 0.88
7 4 0.06
8 1 0.01
ACGTcount: A:0.20, C:0.14, G:0.15, T:0.52
Consensus pattern (6 bp):
ATTCTG
Found at i:56299584 original size:85 final size:85
Alignment explanation
Indices: 56299429--56299594 Score: 269
Period size: 85 Copynumber: 2.0 Consensus size: 85
56299419 AGGAAGGCCC
* * *
56299429 TGCATGGGGGTCGCATGTAGTTGAAATTTTAGTAAAATGTCTGTAATGGGGATTATAATGGACAT
1 TGCATGGGGGTCACATGTAGTTAAAATTTTAGTAAAATGTCTGTAATGGGGATTATAATGGAAAT
*
56299494 GTTATGATATTTTAAGTAGT
66 CTTATGATATTTTAAGTAGT
* *
56299514 TGCATGGGGGTCACATGTAGTTAAAATTTTAGTAAAATGTCTGTAATGGGGATTTTAATTGAAAT
1 TGCATGGGGGTCACATGTAGTTAAAATTTTAGTAAAATGTCTGTAATGGGGATTATAATGGAAAT
*
56299579 CTTATGATCTTTTAAG
66 CTTATGATATTTTAAG
56299595 CATTTGCTAC
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
85 74 1.00
ACGTcount: A:0.30, C:0.07, G:0.25, T:0.39
Consensus pattern (85 bp):
TGCATGGGGGTCACATGTAGTTAAAATTTTAGTAAAATGTCTGTAATGGGGATTATAATGGAAAT
CTTATGATATTTTAAGTAGT
Found at i:56300411 original size:25 final size:25
Alignment explanation
Indices: 56300341--56300464 Score: 110
Period size: 25 Copynumber: 5.0 Consensus size: 25
56300331 CCAAGACTGT
* *
56300341 AATTCTCTGGAAAACCTTTATGGCA
1 AATTCTCTGGAAAACCTTTGTGGTA
* *
56300366 AATTCTATGGAAAGCCTTTGTGGTA
1 AATTCTCTGGAAAACCTTTGTGGTA
* *
56300391 AATTCTTTGGAAAACAC-TTGTGGTG
1 AATTCTCTGGAAAAC-CTTTGTGGTA
* * *
56300416 TA-TCATTTGGAAAACCTTTGTGGTG
1 AATTC-TCTGGAAAACCTTTGTGGTA
*
56300441 AATTATCTGG-AAACCTGTTGTGGT
1 AATTCTCTGGAAAACCT-TTGTGGT
56300465 GAGTTGTTAT
Statistics
Matches: 83, Mismatches: 11, Indels: 10
0.80 0.11 0.10
Matches are distributed among these distances:
24 9 0.11
25 72 0.87
26 2 0.02
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (25 bp):
AATTCTCTGGAAAACCTTTGTGGTA
Found at i:56311391 original size:21 final size:21
Alignment explanation
Indices: 56311365--56311411 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
56311355 CTTTGAATAA
56311365 TTACCATTTCATTTCCTTTTC
1 TTACCATTTCATTTCCTTTTC
56311386 TTACCATTTCATTTCCTTTTC
1 TTACCATTTCATTTCCTTTTC
56311407 TTACC
1 TTACC
56311412 TGTTGAACCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.15, C:0.30, G:0.00, T:0.55
Consensus pattern (21 bp):
TTACCATTTCATTTCCTTTTC
Found at i:56315781 original size:49 final size:49
Alignment explanation
Indices: 56315672--56315803 Score: 162
Period size: 49 Copynumber: 2.7 Consensus size: 49
56315662 GGATTAAGAT
* *
56315672 GCTGACGCCATGTCCCAGACATGGTCTTACACTGGCTTTCATATAGTGAG
1 GCTGAAGCCATGTCCCAGACA-GGTCTTACACTGGCTCTCATATAGTGAG
*
56315722 GCTGAAGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATCTA-TCG-G
1 GCTGAAGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATATAGT-GAG
* *
56315770 TG-TCGATGCCATGTCCCAGACAGTTCTTACACTG
1 -GCT-GAAGCCATGTCCCAGACAGGTCTTACACTG
56315804 ACACACAACA
Statistics
Matches: 74, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
48 3 0.04
49 51 0.69
50 20 0.27
ACGTcount: A:0.21, C:0.29, G:0.23, T:0.27
Consensus pattern (49 bp):
GCTGAAGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATATAGTGAG
Found at i:56315870 original size:93 final size:91
Alignment explanation
Indices: 56315722--56315894 Score: 208
Period size: 93 Copynumber: 1.9 Consensus size: 91
56315712 ATATAGTGAG
* * * *
56315722 GCTGAAGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATCTATCGGTGTCGATGCCATGTCCC
1 GCTGAAGCCATGTCCCAGACAGGTCTTACACTAGCTCTCATCTA-CAGTGCCGATG-CATATCCC
56315787 AGACA-GTTCTTACACTGACACACAACAA
64 AGACATG-TCTTACACTGACACACAACAA
* * *
56315815 GCTGACGCCATGTCCTAGACAGGTCTTACACTAGCTTGTCTATCT-CAAG-GCCGATGCATATCC
1 GCTGAAGCCATGTCCCAGACAGGTCTTACACTAGC-TCTC-ATCTAC-AGTGCCGATGCATATCC
56315878 CAGACATGTCTTACACT
63 CAGACATGTCTTACACT
56315895 AGCTCTTGTC
Statistics
Matches: 69, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
92 21 0.30
93 40 0.58
94 4 0.06
95 4 0.06
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (91 bp):
GCTGAAGCCATGTCCCAGACAGGTCTTACACTAGCTCTCATCTACAGTGCCGATGCATATCCCAG
ACATGTCTTACACTGACACACAACAA
Found at i:56315889 original size:48 final size:48
Alignment explanation
Indices: 56315823--56316126 Score: 223
Period size: 46 Copynumber: 6.5 Consensus size: 48
56315813 AAGCTGACGC
* * * * *
56315823 CATGTCCTAGACAGGTCTTACACTAGCTTGTCTATCTCAAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTTATATATCTCAAGGCCGATG
* * * * * * *
56315871 CATATCCCAGACATGTCTTACACTAGC-TCT-TGTCTCAACGTCGGTG
1 CATGTCCCAGACATGTCTTACACTGGCTTATATATCTCAAGGCCGATG
* * * * * *
56315917 CATGTCCCAGACATGTCTTACATTGGTTTAAATATTTCGAGGTCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTTATATATCTCAAGGCCGATG
* * *
56315965 CATGTCCGAAACATGTCTTACACTGGCTCTCATAT-TGT---GGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCT-T-ATATATCTCAAGGCCGATG
** * * * *
56316011 CATGTCCTTGACATGTCTTACATTGGCTTAAATATTTTAAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTTATATATCTCAAGGCCGATG
* * *
56316059 TATGTCCCAGACATGTCTTACACTGGCTCTCATAT-TGT---GGCTGATG
1 CATGTCCCAGACATGTCTTACACTGGCT-T-ATATATCTCAAGGCCGATG
*
56316105 CATGTCCCTGACATGTCTTACA
1 CATGTCCCAGACATGTCTTACA
56316127 TTAGCTCACA
Statistics
Matches: 205, Mismatches: 41, Indels: 22
0.76 0.15 0.08
Matches are distributed among these distances:
44 3 0.01
45 3 0.01
46 93 0.45
47 3 0.01
48 91 0.44
49 6 0.03
50 6 0.03
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.33
Consensus pattern (48 bp):
CATGTCCCAGACATGTCTTACACTGGCTTATATATCTCAAGGCCGATG
Found at i:56315964 original size:94 final size:94
Alignment explanation
Indices: 56315680--56316128 Score: 309
Period size: 94 Copynumber: 4.7 Consensus size: 94
56315670 ATGCTGACGC
* * * * *
56315680 CATGTCCCAGACATGGTCTTACACTGGCTTTCATAT-AGTGAGGCTGAAGCCATGTCCCAGACAG
1 CATGTCCCAGACAT-GTCTTACACTGGCTCTCATATCA---ACGCCGATG-CATGTCCCAGACAT
* * * * * *
56315744 GTCTTACACTGGCTCT-CATCTATC-GGTGTCGATG
61 GTCTTACATTGGCT-TAAATATTTCAAG-GCCGATG
* * * * * * *
56315778 CCATGTCCCAGACA-GTTCTTACACTGACACACA-A-CAA-GCTGACGCCATGTCCTAGACAGGT
1 -CATGTCCCAGACATG-TCTTACACTGGCTCTCATATCAACGCCGATG-CATGTCCCAGACATGT
* * *** *
56315839 CTTACACTAGCTTGTCTATCTCAAGGCCGATG
63 CTTACATTGGCTTAAATATTTCAAGGCCGATG
* * ** * * *
56315871 CATATCCCAGACATGTCTTACACTAGCTCTTGTCTCAACGTCGGTGCATGTCCCAGACATGTCTT
1 CATGTCCCAGACATGTCTTACACTGGCTCTCATATCAACGCCGATGCATGTCCCAGACATGTCTT
* * *
56315936 ACATTGGTTTAAATATTTCGAGGTCGATG
66 ACATTGGCTTAAATATTTCAAGGCCGATG
* * **** **
56315965 CATGTCCGAAACATGTCTTACACTGGCTCTCATATTGTGGCCGATGCATGTCCTTGACATGTCTT
1 CATGTCCCAGACATGTCTTACACTGGCTCTCATATCAACGCCGATGCATGTCCCAGACATGTCTT
*
56316030 ACATTGGCTTAAATATTTTAAGGCCGATG
66 ACATTGGCTTAAATATTTCAAGGCCGATG
* **** * *
56316059 TATGTCCCAGACATGTCTTACACTGGCTCTCATATTGTGGCTGATGCATGTCCCTGACATGTCTT
1 CATGTCCCAGACATGTCTTACACTGGCTCTCATATCAACGCCGATGCATGTCCCAGACATGTCTT
56316124 ACATT
66 ACATT
56316129 AGCTCACATA
Statistics
Matches: 282, Mismatches: 60, Indels: 21
0.78 0.17 0.06
Matches are distributed among these distances:
92 24 0.09
93 44 0.16
94 182 0.65
95 3 0.01
97 3 0.01
98 13 0.05
99 13 0.05
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.31
Consensus pattern (94 bp):
CATGTCCCAGACATGTCTTACACTGGCTCTCATATCAACGCCGATGCATGTCCCAGACATGTCTT
ACATTGGCTTAAATATTTCAAGGCCGATG
Found at i:56316139 original size:46 final size:47
Alignment explanation
Indices: 56315915--56316139 Score: 231
Period size: 46 Copynumber: 4.8 Consensus size: 47
56315905 TCAACGTCGG
* * * *
56315915 TGCATGTCCCAGACATGTCTTACATTGGTTTAAATATT-TCGAGGTCGA
1 TGCATGTCCCAGACATGTCTTACATTGGCTCACATATTGT--AGGCCGA
* * * *
56315963 TGCATGTCCGAAACATGTCTTACACTGGCTCTCATATTGT-GGCCGA
1 TGCATGTCCCAGACATGTCTTACATTGGCTCACATATTGTAGGCCGA
** * * *
56316009 TGCATGTCCTTGACATGTCTTACATTGGCTTAAATATTTTAAGGCCGA
1 TGCATGTCCCAGACATGTCTTACATTGGCTCACATATTGT-AGGCCGA
* * * *
56316057 TGTATGTCCCAGACATGTCTTACACTGGCTCTCATATTGT-GGCTGA
1 TGCATGTCCCAGACATGTCTTACATTGGCTCACATATTGTAGGCCGA
* *
56316103 TGCATGTCCCTGACATGTCTTACATTAGCTCACATAT
1 TGCATGTCCCAGACATGTCTTACATTGGCTCACATAT
56316140 CTCCTAATAT
Statistics
Matches: 144, Mismatches: 30, Indels: 8
0.79 0.16 0.04
Matches are distributed among these distances:
46 74 0.51
48 69 0.48
49 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.35
Consensus pattern (47 bp):
TGCATGTCCCAGACATGTCTTACATTGGCTCACATATTGTAGGCCGA
Found at i:56325924 original size:42 final size:42
Alignment explanation
Indices: 56325865--56325946 Score: 139
Period size: 42 Copynumber: 2.0 Consensus size: 42
56325855 CCATTATGAA
*
56325865 CTCGGATGCCACCTATATCATGAACCC-GAACCACTCAACGAG
1 CTCGGATGCCACCTATATCACGAACCCAG-ACCACTCAACGAG
56325907 CTCGGATGCCACCTATATCACGAACCCAGACCACTCAACG
1 CTCGGATGCCACCTATATCACGAACCCAGACCACTCAACG
56325947 GGTTCAGACT
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
42 37 0.97
43 1 0.03
ACGTcount: A:0.30, C:0.38, G:0.16, T:0.16
Consensus pattern (42 bp):
CTCGGATGCCACCTATATCACGAACCCAGACCACTCAACGAG
Found at i:56342484 original size:52 final size:52
Alignment explanation
Indices: 56342427--56342529 Score: 197
Period size: 52 Copynumber: 2.0 Consensus size: 52
56342417 AAACTTTAAG
*
56342427 AAAAATCTGGTATTGATTGGCCAAACCTAAAATTCTGGAAATTTTATGGATC
1 AAAAATCTGGTATTGATTGGCCAAACCTAAAATTCTGAAAATTTTATGGATC
56342479 AAAAATCTGGTATTGATTGGCCAAACCTAAAATTCTGAAAATTTTATGGAT
1 AAAAATCTGGTATTGATTGGCCAAACCTAAAATTCTGAAAATTTTATGGAT
56342530 GGAAGATATA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.33
Consensus pattern (52 bp):
AAAAATCTGGTATTGATTGGCCAAACCTAAAATTCTGAAAATTTTATGGATC
Found at i:56342511 original size:27 final size:27
Alignment explanation
Indices: 56342428--56342511 Score: 70
Period size: 27 Copynumber: 3.2 Consensus size: 27
56342418 AACTTTAAGA
56342428 AAAATCTGGTATTGATTGGCCAAACCT
1 AAAATCTGGTATTGATTGGCCAAACCT
* * * *
56342455 AAAATTCTGGAAATT-TTATGG----ATCA
1 AAAA-TCTGG-TATTGAT-TGGCCAAACCT
56342480 AAAATCTGGTATTGATTGGCCAAACCT
1 AAAATCTGGTATTGATTGGCCAAACCT
56342507 AAAAT
1 AAAAT
56342512 TCTGAAAATT
Statistics
Matches: 41, Mismatches: 8, Indels: 16
0.63 0.12 0.25
Matches are distributed among these distances:
23 6 0.15
24 6 0.15
25 6 0.15
27 11 0.27
28 6 0.15
29 6 0.15
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (27 bp):
AAAATCTGGTATTGATTGGCCAAACCT
Found at i:56344019 original size:37 final size:37
Alignment explanation
Indices: 56343969--56344047 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
56343959 TTATTACGAA
* * *
56343969 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
56344006 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
56344043 GTCTT
1 GTCTT
56344048 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:56347479 original size:25 final size:25
Alignment explanation
Indices: 56347442--56347493 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
56347432 AAGGAATTCG
56347442 CACACACACAGTGC-CTCTAATCATT
1 CACACACACAGTGCTCT-TAATCATT
* * *
56347467 CACATACATAGTGCTCTTATTCATT
1 CACACACACAGTGCTCTTAATCATT
56347492 CA
1 CA
56347494 TTAATACACA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 21 0.91
26 2 0.09
ACGTcount: A:0.31, C:0.31, G:0.08, T:0.31
Consensus pattern (25 bp):
CACACACACAGTGCTCTTAATCATT
Found at i:56347703 original size:40 final size:40
Alignment explanation
Indices: 56347671--56347891 Score: 259
Period size: 40 Copynumber: 5.5 Consensus size: 40
56347661 AGCATGATTA
* * *
56347671 CTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
** **
56347711 CTCATT-GGGGTTTAGTACGGATATATCACTAGCACGAATG
1 CTC-TTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
* *
56347751 CTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
* *
56347791 CTCCTCGGGACTTAGCCCGGATATATCACTAGCATGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
* * * *
56347831 CTCTTCGGAACTTAGTCCGGATATGGTCACTTAGCAC-AAAG
1 CTCTTCGGGACTTAGCCCGGATAT-ATCAC-TAGCACGAATG
56347872 C-CTTCGGGACTTAGCCCGGA
1 CTCTTCGGGACTTAGCCCGGA
56347892 CATCATTCGA
Statistics
Matches: 152, Mismatches: 25, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
39 2 0.01
40 135 0.89
41 10 0.07
42 5 0.03
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
Found at i:56347877 original size:120 final size:120
Alignment explanation
Indices: 56347675--56347891 Score: 287
Period size: 120 Copynumber: 1.8 Consensus size: 120
56347665 TGATTACTCT
***
56347675 TCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCATTGGGGTTTAGTACGGATATATCAC
1 TCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCATTGGAACTTAGTACGGATATATCAC
*
56347740 TAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCC
66 TAGCACGAAAGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCC
* * * * * *
56347795 TCGGGACTTAGCCCGGATATATCACTAGCATGAATGCTC-TTCGGAACTTAGTCCGGATATGGTC
1 TCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCATT-GGAACTTAGTACGGATAT-ATC
*
56347859 ACTTAGCAC-AAAGC-CTTCGGGACTTAGCCCGGA
64 AC-TAGCACGAAAGCTCTTCGGAACTTAGCCCGGA
56347892 CATCATTCGA
Statistics
Matches: 83, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
119 2 0.02
120 67 0.81
121 8 0.10
122 6 0.07
ACGTcount: A:0.26, C:0.27, G:0.24, T:0.24
Consensus pattern (120 bp):
TCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCATTGGAACTTAGTACGGATATATCAC
TAGCACGAAAGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCC
Found at i:56348236 original size:29 final size:29
Alignment explanation
Indices: 56348197--56348275 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
56348187 CTTAATAATC
*
56348197 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
56348227 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
56348256 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
56348276 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:56348318 original size:43 final size:43
Alignment explanation
Indices: 56348257--56348359 Score: 197
Period size: 43 Copynumber: 2.4 Consensus size: 43
56348247 TGCATTTCAA
56348257 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
*
56348300 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTCTT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
56348343 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
56348360 TGAAAACCAA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 59 1.00
ACGTcount: A:0.25, C:0.37, G:0.16, T:0.22
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:56353172 original size:13 final size:13
Alignment explanation
Indices: 56353156--56353181 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
56353146 TTGAGATAAT
56353156 GCTGTGTAGTGTA
1 GCTGTGTAGTGTA
56353169 GCTGTGTAGTGTA
1 GCTGTGTAGTGTA
56353182 AGTTCACTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.08, G:0.38, T:0.38
Consensus pattern (13 bp):
GCTGTGTAGTGTA
Found at i:56363049 original size:28 final size:28
Alignment explanation
Indices: 56363009--56363072 Score: 119
Period size: 28 Copynumber: 2.2 Consensus size: 28
56362999 AATATACTCC
56363009 TATTTAAGAGTTAAGAAGAACTATCTCT
1 TATTTAAGAGTTAAGAAGAACTATCTCT
56363037 TATTTAAGAGTTAAGAAGAACTATCTCT
1 TATTTAAGAGTTAAGAAGAACTATCTCT
56363065 TATCTTAA
1 TAT-TTAA
56363073 ATAGGAAGTA
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 31 0.89
29 4 0.11
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.38
Consensus pattern (28 bp):
TATTTAAGAGTTAAGAAGAACTATCTCT
Found at i:56364562 original size:66 final size:66
Alignment explanation
Indices: 56364486--56364861 Score: 207
Period size: 66 Copynumber: 5.7 Consensus size: 66
56364476 AGCTGTCACG
* * * *
56364486 TCCTTCGCTTCCTTCGCTTTTTCAGCTGCATAGTCTTTATACTCGGTCGCTTTTTCCATTGTAGT
1 TCCTTTGCTTCCTTAGCTTTCTCAGCTGCATAGTCTTTATACTCGGTCGCTTTTTCCACTGTAGT
56364551 A
66 A
* ** * * * ** * * * * *
56364552 TCTTTTGCTTCCTTAGCTTTCTGTGCTGCGTAGTCTGTAAACTCGGAAGCCTTCTGCGCTGTCGT
1 TCCTTTGCTTCCTTAGCTTTCTCAGCTGCATAGTCTTTATACTCGGTCGCTTTTTCCACTGTAGT
56364617 A
66 A
* * * * * * **
56364618 TCCTTTGCTCCCTTGGCTTTCTCAGCTGCATAGTCCTTATATTCAGTCGC-TTTTCCAATTGCGG
1 TCCTTTGCTTCCTTAGCTTTCTCAGCTGCATAGTCTTTATACTCGGTCGCTTTTTCC-ACTGTAG
*
56364682 CA
65 TA
* ** * * * * ** ***
56364684 TCCTTTGCATCCTTAGCTTTCTGTGCTGCATAATCTGTGTACTCAGAAGCTTTTTGGGCTGTAGT
1 TCCTTTGCTTCCTTAGCTTTCTCAGCTGCATAGTCTTTATACTCGGTCGCTTTTTCCACTGTAGT
56364749 A
66 A
* * * * * * * * * ** *
56364750 TCTCTTT-CCTCCTTGGCTTTCTGAGCTGTATAATCCTTATATTCAGCCGCTTTCCCCATTGTAG
1 TC-CTTTGCTTCCTTAGCTTTCTCAGCTGCATAGTCTTTATACTCGGTCGCTTTTTCCACTGTAG
*
56364814 CA
65 TA
* * ** * *
56364816 TCCTTTGCATCCTTAGTTTTCTGTGCTGCATAGCCTGTATACTCGG
1 TCCTTTGCTTCCTTAGCTTTCTCAGCTGCATAGTCTTTATACTCGG
56364862 AAGCCTTCTG
Statistics
Matches: 222, Mismatches: 84, Indels: 8
0.71 0.27 0.03
Matches are distributed among these distances:
65 8 0.04
66 206 0.93
67 8 0.04
ACGTcount: A:0.14, C:0.27, G:0.18, T:0.41
Consensus pattern (66 bp):
TCCTTTGCTTCCTTAGCTTTCTCAGCTGCATAGTCTTTATACTCGGTCGCTTTTTCCACTGTAGT
A
Done.