Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 199 of 427
Found at i:55380662 original size:11 final size:11
Alignment explanation
Indices: 55380646--55380672 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
55380636 TTATTATTCA
55380646 ATATTAAACCT
1 ATATTAAACCT
55380657 ATATTAAACCT
1 ATATTAAACCT
55380668 ATATT
1 ATATT
55380673 TCTATTCTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (11 bp):
ATATTAAACCT
Found at i:55387583 original size:37 final size:37
Alignment explanation
Indices: 55387436--55387585 Score: 255
Period size: 37 Copynumber: 4.1 Consensus size: 37
55387426 CTTTAGCTCA
* * *
55387436 GACAAAATCTCCACACGAAGTTATCGGGTCTTACCCA
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
55387473 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
*
55387510 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
*
55387547 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
55387584 GA
1 GA
55387586 ATATATTTCC
Statistics
Matches: 109, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 109 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (37 bp):
GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
Found at i:55387786 original size:48 final size:48
Alignment explanation
Indices: 55387732--55387866 Score: 207
Period size: 48 Copynumber: 2.8 Consensus size: 48
55387722 GCACATCGCC
55387732 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATACCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATACCTCA
* * * *
55387780 TACATATTTCGCACTAGCCATTCGACTTTACCACATATACATATCTGA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATACCTCA
* * *
55387828 TACATATTTCACATTAGCCATTCGGCCTTATCACATATA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATA
55387867 TGCATGTTCA
Statistics
Matches: 78, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 78 1.00
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.33
Consensus pattern (48 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATACCTCA
Found at i:55387899 original size:47 final size:47
Alignment explanation
Indices: 55387836--55388123 Score: 434
Period size: 47 Copynumber: 6.1 Consensus size: 47
55387826 GATACATATT
* * * *
55387836 TCACATTAGCCATTCGGCCTTATCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
*
55387883 TCATATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
* * *
55387930 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
* * *
55387977 TCATATTGGTCATTCGGCCTTATCACACATATACATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
*
55388024 TCACATTGGCCATTCGGCCTAATCACACATATGCATGCTCACATT-A
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
* *
55388070 TTCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 -TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
55388118 TCACAT
1 TCACAT
55388124 AAAATCCTAA
Statistics
Matches: 217, Mismatches: 22, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
46 1 0.00
47 215 0.99
48 1 0.00
ACGTcount: A:0.27, C:0.28, G:0.12, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
Found at i:55392751 original size:11 final size:11
Alignment explanation
Indices: 55392735--55392761 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
55392725 TTATTATTCA
55392735 ATATTAAACCT
1 ATATTAAACCT
55392746 ATATTAAACCT
1 ATATTAAACCT
55392757 ATATT
1 ATATT
55392762 TCTATTCTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (11 bp):
ATATTAAACCT
Found at i:55398445 original size:24 final size:24
Alignment explanation
Indices: 55398406--55398472 Score: 107
Period size: 24 Copynumber: 2.8 Consensus size: 24
55398396 AGCTTACTGA
*
55398406 TTCAGCTCGATAGAGCTTACCGTT
1 TTCAGCTCAATAGAGCTTACCGTT
* *
55398430 TTCATCTCAATTGAGCTTACCGTT
1 TTCAGCTCAATAGAGCTTACCGTT
55398454 TTCAGCTCAATAGAGCTTA
1 TTCAGCTCAATAGAGCTTA
55398473 TTATTTATCA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (24 bp):
TTCAGCTCAATAGAGCTTACCGTT
Found at i:55398446 original size:47 final size:48
Alignment explanation
Indices: 55398382--55398472 Score: 123
Period size: 48 Copynumber: 1.9 Consensus size: 48
55398372 GAGCGTACTA
* *
55398382 TTTCAACTCATTGGAGCTTACTG-ATTCAGCTCGATAGAGCTTACCGT
1 TTTCAACTCATTGGAGCTTACCGTATTCAGCTCAATAGAGCTTACCGT
* *
55398429 TTTCATCTCAATT-GAGCTTACCGTTTTCAGCTCAATAGAGCTTA
1 TTTCAACTC-ATTGGAGCTTACCGTATTCAGCTCAATAGAGCTTA
55398473 TTATTTATCA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
47 17 0.45
48 21 0.55
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.36
Consensus pattern (48 bp):
TTTCAACTCATTGGAGCTTACCGTATTCAGCTCAATAGAGCTTACCGT
Found at i:55410697 original size:28 final size:29
Alignment explanation
Indices: 55410599--55410697 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
55410589 TCACAAATTG
* *
55410599 GCACTAAGTGTGCGGGTTCAAAT-TGTATA
1 GCACTAAGTGTGCGAGTTCGAATAT-TATA
* * *
55410628 GCACTAAGTGTGCAAGTTTGATTA-TATA
1 GCACTAAGTGTGCGAGTTCGAATATTATA
*
55410656 GCACTAAGTGTGCGAGTTCGACTATTA-A
1 GCACTAAGTGTGCGAGTTCGAATATTATA
55410684 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
55410698 GGCTTATTAC
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 40 0.67
29 20 0.33
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.30
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGTTCGAATATTATA
Found at i:55412221 original size:49 final size:49
Alignment explanation
Indices: 55412162--55412412 Score: 370
Period size: 47 Copynumber: 5.2 Consensus size: 49
55412152 GTTACAATAA
*
55412162 ATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
55412211 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
55412260 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAG-GTGTAT
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* *
55412307 ATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG--TAT
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* * * * * *
55412354 ATATGTGATAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
55412402 A-ATGTGATAAG
1 ATATGTGATAAG
55412413 TCCCGAAGTG
Statistics
Matches: 189, Mismatches: 9, Indels: 10
0.91 0.04 0.05
Matches are distributed among these distances:
47 93 0.49
48 7 0.04
49 89 0.47
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.28
Consensus pattern (49 bp):
ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
Found at i:55416669 original size:27 final size:26
Alignment explanation
Indices: 55416602--55416711 Score: 148
Period size: 27 Copynumber: 4.1 Consensus size: 26
55416592 GGAAGCGTTT
55416602 TGGTGGCTATGCCACAACTATCTGTTTC
1 TGGTGGCTATGCCACAA-TATCTG-TTC
55416630 TGGTGGCTATGCCACAAATATCTGTTC
1 TGGTGGCTATGCCAC-AATATCTGTTC
*
55416657 TGGTGGCTCTGCCACAATATCTGTATC
1 TGGTGGCTATGCCACAATATCTGT-TC
* * *
55416684 TGGTGACTTTGTCACAATATCTGTTC
1 TGGTGGCTATGCCACAATATCTGTTC
55416710 TG
1 TG
55416712 ACAGCCATGC
Statistics
Matches: 76, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
26 13 0.17
27 40 0.53
28 21 0.28
29 2 0.03
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (26 bp):
TGGTGGCTATGCCACAATATCTGTTC
Found at i:55434170 original size:40 final size:40
Alignment explanation
Indices: 55434043--55434172 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
55434033 ATGCTGGAAA
* *
55434043 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
55434083 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
55434123 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
55434163 TTATATCCGG
1 TTATATCCGG
55434173 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:55435676 original size:27 final size:26
Alignment explanation
Indices: 55435638--55435724 Score: 111
Period size: 27 Copynumber: 3.3 Consensus size: 26
55435628 ATGGAGGAAG
55435638 TGTTCTGGTGGCTATGCCACAAATATC
1 TGTTCTGGTGGCTATGCCAC-AATATC
* *
55435665 TGTTCTAGTGGCTCTGCCACAATATC
1 TGTTCTGGTGGCTATGCCACAATATC
* * *
55435691 TGTATCTGGTGACTTTGTCACAATATC
1 TGT-TCTGGTGGCTATGCCACAATATC
55435718 TGTTCTG
1 TGTTCTG
55435725 ATAGCCATGC
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
26 13 0.25
27 40 0.75
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.38
Consensus pattern (26 bp):
TGTTCTGGTGGCTATGCCACAATATC
Found at i:55440213 original size:25 final size:25
Alignment explanation
Indices: 55440185--55440232 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
55440175 CACTGTACTC
55440185 TTTTTGTTTACTACTCACTATCACA
1 TTTTTGTTTACTACTCACTATCACA
55440210 TTTTTGTTTACTACTCACTATCA
1 TTTTTGTTTACTACTCACTATCA
55440233 ATACTAGCAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.23, C:0.23, G:0.04, T:0.50
Consensus pattern (25 bp):
TTTTTGTTTACTACTCACTATCACA
Found at i:55444511 original size:58 final size:58
Alignment explanation
Indices: 55444421--55444537 Score: 225
Period size: 58 Copynumber: 2.0 Consensus size: 58
55444411 AACTCAAAGA
55444421 CATACTCACCAATGGCTTATCTCATTGGGATCATCAACGAATACTTCACCAAATTACC
1 CATACTCACCAATGGCTTATCTCATTGGGATCATCAACGAATACTTCACCAAATTACC
*
55444479 CATACTCACCAATGGCTTATCTCATTGGGATCATCAACGAATACTTCGCCAAATTACC
1 CATACTCACCAATGGCTTATCTCATTGGGATCATCAACGAATACTTCACCAAATTACC
55444537 C
1 C
55444538 GTTGAACACT
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.32, C:0.30, G:0.11, T:0.27
Consensus pattern (58 bp):
CATACTCACCAATGGCTTATCTCATTGGGATCATCAACGAATACTTCACCAAATTACC
Found at i:55445630 original size:332 final size:332
Alignment explanation
Indices: 55445020--55446355 Score: 2555
Period size: 332 Copynumber: 4.0 Consensus size: 332
55445010 ACATTAAATT
55445020 ACTTAAAATAACAATTATGTTACCACATTTCCACATGAACTTACATCTCATTTAATATCAAGGCA
1 ACTTAAAATAACAATTATGTTACCACATTTCCACATGAACTTACATCTCATTTAATATCAAGGCA
55445085 ATAACATTAAATTACACATTGCATTATTAAAAAATCATATGAACTTACCTCGTATGCAAAAATGT
66 ATAACATTAAATTACACATTGCATTATTAAAAAATCATATGAACTTACCTCGTATGCAAAAATGT
55445150 CCATTTTTACCATTTTGTCCACAACTTGATATTTTTCGATTTTAGCCTAAATTTCGATTTTTCCT
131 CCATTTTTACCATTTTGTCCACAACTTGATATTTTTCGATTTTAGCCTAAATTTCGATTTTTCCT
55445215 TGCTAATCGAGCTTGGGAGTTTGAACAAACCTTAACCATGGTTGCTGCTGGTAGAAACAGTTGAA
196 TGCTAATCGAGCTTGGGAGTTTGAACAAACCTTAACCATGGTTGCTGCTGGTAGAAACAGTTGAA
*
55445280 TGAAGATGATAACTAATTTGGCTTATTTCCCTTTTTAATTCTTTTAATTATTAGTTTACCAAAAT
261 TGAAGATGATAGCTAATTTGGCTTATTTCCCTTTTTAATTCTTTTAATTATTAGTTTACCAAAAT
55445345 ACCCCTA
326 ACCCCTA
*
55445352 ACTTAAAATAACAATTATGTTACCACATTTCCACATGAACTTACATCTCATTTAAAATCAAGGCA
1 ACTTAAAATAACAATTATGTTACCACATTTCCACATGAACTTACATCTCATTTAATATCAAGGCA
*
55445417 ATAACATTAAATTACATATTGCATTATTAAAAAATCATATGAACTTACCTCGTATGCAAAAATGT
66 ATAACATTAAATTACACATTGCATTATTAAAAAATCATATGAACTTACCTCGTATGCAAAAATGT
*
55445482 CCATTTTTACCATTTTGTCCACAACTTGATATTTTTCGATTTTAGCCTGAATTTCGATTTTTCCT
131 CCATTTTTACCATTTTGTCCACAACTTGATATTTTTCGATTTTAGCCTAAATTTCGATTTTTCCT
*
55445547 TGCTAATCGAGCTTGGGAGTTTGAACAAACCTTAACCATGGTTGCTGCTGGTAGAAACGGTTGAA
196 TGCTAATCGAGCTTGGGAGTTTGAACAAACCTTAACCATGGTTGCTGCTGGTAGAAACAGTTGAA
55445612 TGAAGATGATAGCTAATTTGGCTTATTTCCCTTTTTAATTCTTTTAATTATTAGTTTACCAAAAT
261 TGAAGATGATAGCTAATTTGGCTTATTTCCCTTTTTAATTCTTTTAATTATTAGTTTACCAAAAT
55445677 ACCCCTA
326 ACCCCTA
*
55445684 ACTTAAAATAACAATTATGTTACCACATTTCCACATGAACTTACATCTCATTTAATATCAAGGTA
1 ACTTAAAATAACAATTATGTTACCACATTTCCACATGAACTTACATCTCATTTAATATCAAGGCA
55445749 ATAACATTAAATTACACATTGCATTATTAAAAAATCATATGAACTTACCTCGTATGCAAAAATGT
66 ATAACATTAAATTACACATTGCATTATTAAAAAATCATATGAACTTACCTCGTATGCAAAAATGT
* * *
55445814 CCATTTTTACCATTTTGTCCACAACTTGATATTTTTTGATTTTAGCCTGAATTTTGATTTTTCCT
131 CCATTTTTACCATTTTGTCCACAACTTGATATTTTTCGATTTTAGCCTAAATTTCGATTTTTCCT
*
55445879 TGCTAATCGAGCTTGGGAGTTTGAACAAACCTTAACCATGGTTGCTGCTGGTAGAAACGGTTGAA
196 TGCTAATCGAGCTTGGGAGTTTGAACAAACCTTAACCATGGTTGCTGCTGGTAGAAACAGTTGAA
55445944 TGAAGATGATAGCTAATTTGGCTTATTTCCCTTTTTAATTCTTTTAATTATTAGTTTACCAAAAT
261 TGAAGATGATAGCTAATTTGGCTTATTTCCCTTTTTAATTCTTTTAATTATTAGTTTACCAAAAT
55446009 ACCCCTA
326 ACCCCTA
*
55446016 ACTTAAAATAACAATTATGTTACCACATTTCCACATGAACTTACATCTCATTTAATATCAAGGTA
1 ACTTAAAATAACAATTATGTTACCACATTTCCACATGAACTTACATCTCATTTAATATCAAGGCA
*
55446081 ATAACATTAAATTACACATTGCATTATTAAAAAATCATATGAACTTACCTCGTATGGAAAAATGT
66 ATAACATTAAATTACACATTGCATTATTAAAAAATCATATGAACTTACCTCGTATGCAAAAATGT
55446146 CCATTTTTACCATTTTGTCCACAACTTGATATTTTTCGATTTTAGCCTAAATTTCGATTTTTCCT
131 CCATTTTTACCATTTTGTCCACAACTTGATATTTTTCGATTTTAGCCTAAATTTCGATTTTTCCT
*
55446211 TGCTAATCAAGCTTGGGAGTTTGAACAAACCTTAACCATGGTTGCTGCTGGTAGAAACAGTTGAA
196 TGCTAATCGAGCTTGGGAGTTTGAACAAACCTTAACCATGGTTGCTGCTGGTAGAAACAGTTGAA
55446276 TGAAGATGATAGCTAATTTGGCTTATTTCCCTTTTTAATTCTTTTAATTATTAGTTTACCAAAAT
261 TGAAGATGATAGCTAATTTGGCTTATTTCCCTTTTTAATTCTTTTAATTATTAGTTTACCAAAAT
55446341 ACCCCTA
326 ACCCCTA
55446348 ACTTAAAA
1 ACTTAAAA
55446356 ATATTTTATT
Statistics
Matches: 988, Mismatches: 16, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
332 988 1.00
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.38
Consensus pattern (332 bp):
ACTTAAAATAACAATTATGTTACCACATTTCCACATGAACTTACATCTCATTTAATATCAAGGCA
ATAACATTAAATTACACATTGCATTATTAAAAAATCATATGAACTTACCTCGTATGCAAAAATGT
CCATTTTTACCATTTTGTCCACAACTTGATATTTTTCGATTTTAGCCTAAATTTCGATTTTTCCT
TGCTAATCGAGCTTGGGAGTTTGAACAAACCTTAACCATGGTTGCTGCTGGTAGAAACAGTTGAA
TGAAGATGATAGCTAATTTGGCTTATTTCCCTTTTTAATTCTTTTAATTATTAGTTTACCAAAAT
ACCCCTA
Found at i:55449457 original size:28 final size:28
Alignment explanation
Indices: 55449396--55449493 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
55449386 TCACAAATTG
** * *
55449396 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
55449425 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
55449453 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
55449481 GCACTAAGTGTGC
1 GCACTAAGTGTGC
55449494 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:55456424 original size:40 final size:40
Alignment explanation
Indices: 55456358--55456524 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
55456348 AAATTGAATG
* * *
55456358 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
55456397 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
55456437 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
55456477 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
55456517 ATATCCGG
1 ATATCCGG
55456525 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:55460353 original size:28 final size:28
Alignment explanation
Indices: 55460292--55460390 Score: 119
Period size: 28 Copynumber: 3.5 Consensus size: 28
55460282 TCACAAATTG
* * *
55460292 GCACTAAGTGTGCGGGTTTAAATTATACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
*
55460321 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
* *
55460349 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCGAGTTTGATTATAT-A
55460377 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
55460391 GGCTTATTGC
Statistics
Matches: 62, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
27 1 0.02
28 44 0.71
29 17 0.27
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:55470882 original size:16 final size:16
Alignment explanation
Indices: 55470861--55470893 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
55470851 GTGTAACACC
55470861 CCAAAAATCTCGAAAT
1 CCAAAAATCTCGAAAT
*
55470877 CCAAAAATCTTGAAAT
1 CCAAAAATCTCGAAAT
55470893 C
1 C
55470894 TCGAACTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.48, C:0.24, G:0.06, T:0.21
Consensus pattern (16 bp):
CCAAAAATCTCGAAAT
Found at i:55472410 original size:29 final size:28
Alignment explanation
Indices: 55472362--55472465 Score: 100
Period size: 29 Copynumber: 3.6 Consensus size: 28
55472352 GTGAGCATGA
* * *
55472362 ATATGAATGTGACTGGGCCTAACGGGCC
1 ATATAAATGTGATTGGGCCTAATGGGCC
* *
55472390 ACATAAATGTGATTTGGGCCTAATAGGCC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
* * *
55472419 ATATACAGGTGATTTGTGCCTAATGGGCC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
* *
55472448 ATATGAATATGATTGGGC
1 ATATAAATGTGATTGGGC
55472466 TTAGTCGGCC
Statistics
Matches: 60, Mismatches: 15, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
28 15 0.25
29 45 0.75
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (28 bp):
ATATAAATGTGATTGGGCCTAATGGGCC
Found at i:55476718 original size:40 final size:40
Alignment explanation
Indices: 55476633--55476783 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 40
55476623 AATTGAATGA
* * * *
55476633 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
55476673 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
55476714 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
55476753 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
55476784 ACGTGGTTAT
Statistics
Matches: 92, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 80 0.87
41 3 0.03
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.22
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:55476797 original size:40 final size:40
Alignment explanation
Indices: 55476670--55476799 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
55476660 ATGCTGGAAA
* * *
55476670 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * ***
55476710 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGACA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
55476750 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
55476790 TTATATCCGG
1 TTATATCCGG
55476800 TTATATTCCG
Statistics
Matches: 72, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:55476798 original size:80 final size:80
Alignment explanation
Indices: 55476632--55476799 Score: 207
Period size: 80 Copynumber: 2.1 Consensus size: 80
55476622 AAATTGAATG
* *
55476632 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
55476697 ATTGTGCTAGTGGCT
66 ATTGTGCTAGTGGCT
* * * * *
55476712 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAAGG
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGG
* *
55476775 CATTTGTGC-ACGTGGTT
64 CAATTGTGCTA-GTGGCT
55476792 ATATCCGG
1 ATATCCGG
55476800 TTATATTCCG
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
79 5 0.07
80 70 0.93
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAGTGGCT
Found at i:55485773 original size:40 final size:40
Alignment explanation
Indices: 55485728--55485895 Score: 178
Period size: 40 Copynumber: 4.2 Consensus size: 40
55485718 CGGAATATAA
55485728 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
55485768 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
55485808 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
55485848 CCGGATATAAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATAT-AATCACTAGCACAAATGCCTTCGGGTCTTAGC
55485888 CCGGATAT
1 CCGGATAT
55485896 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
39 1 0.01
40 88 0.82
41 18 0.17
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:55488237 original size:12 final size:12
Alignment explanation
Indices: 55488222--55488254 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
55488212 GATGCCACAC
55488222 GGCCATGTGGTA
1 GGCCATGTGGTA
55488234 GGCCATGTGGTA
1 GGCCATGTGGTA
*
55488246 GGCCGTGTG
1 GGCCATGTG
55488255 TGACGACACG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.12, C:0.18, G:0.45, T:0.24
Consensus pattern (12 bp):
GGCCATGTGGTA
Found at i:55490199 original size:94 final size:92
Alignment explanation
Indices: 55490042--55490351 Score: 291
Period size: 94 Copynumber: 3.3 Consensus size: 92
55490032 TATGTGTGCT
* * *
55490042 AGTGTAAGACACGTCTGGGACATGCATCAGCGACATT--ACGGGAGCCAGTGTAAGGCATGTCTA
1 AGTGTAAGACATGTCTGGGACATGCATC-G-G-CATTAGACGAGAGCCAGTGTAAGACATGTCTA
55490105 GGACATGCATCGGCCTCAAGATATACAAGCC
63 GGACATGCATCGGCCTCAAGATATA-AAGCC
* * *
55490136 AGTGTAAGACATGTCTGGGACATCCATCGGCATTGAGACGAGAGCTAGTGTAAGACATATCTAGG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCATT-AGACGAGAGCCAGTGTAAGACATGTCTAGG
*** * *
55490201 ACATGCATCATTCTCGAGATATAAAAGCT
65 ACATGCATCGGCCTCAAGATAT-AAAGCC
* * * * * *
55490230 AGTGTAAGACCTGTTTGGGACATGGCATCGACACCTATAGATGAGAGCCAGTGTAAGACTTGCCT
1 AGTGTAAGACATGTCTGGGACAT-GCATCGGCA--T-TAGACGAGAGCCAGTGTAAGACATGTCT
* * *
55490295 GGGACATGGCATCGGCCTCAATATATGAAAGTC
62 AGGACAT-GCATCGGCCTCAAGATAT-AAAGCC
* * *
55490328 ATTGTAAGACCTGTTTGGGACATG
1 AGTGTAAGACATGTCTGGGACATG
55490352 GGATCGACTT
Statistics
Matches: 177, Mismatches: 30, Indels: 15
0.80 0.14 0.07
Matches are distributed among these distances:
91 4 0.02
92 1 0.01
93 1 0.01
94 93 0.53
95 8 0.05
97 30 0.17
98 40 0.23
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (92 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCATTAGACGAGAGCCAGTGTAAGACATGTCTAGGA
CATGCATCGGCCTCAAGATATAAAGCC
Found at i:55490287 original size:49 final size:49
Alignment explanation
Indices: 55490224--55490359 Score: 157
Period size: 49 Copynumber: 2.8 Consensus size: 49
55490214 TCGAGATATA
* *
55490224 AAAGCTAGTGTAAGACCTGTTTGGGACATGGCATCGACAC-CTATAGATG
1 AAAGCCAGTGTAAGACCTGTTTGGGACATGGCATCGAC-CTCAATAGATG
* * ** * *
55490273 AGAGCCAGTGTAAGACTTGCCTGGGACATGGCATCGGCCTCAATATATG
1 AAAGCCAGTGTAAGACCTGTTTGGGACATGGCATCGACCTCAATAGATG
* * *
55490322 AAAGTCATTGTAAGACCTGTTTGGGACATGGGATCGAC
1 AAAGCCAGTGTAAGACCTGTTTGGGACATGGCATCGAC
55490360 TTTGATGTGC
Statistics
Matches: 70, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
48 1 0.01
49 69 0.99
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (49 bp):
AAAGCCAGTGTAAGACCTGTTTGGGACATGGCATCGACCTCAATAGATG
Found at i:55493648 original size:13 final size:13
Alignment explanation
Indices: 55493630--55493655 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
55493620 TTCTTCTGAG
55493630 TAGTACTCTATTT
1 TAGTACTCTATTT
55493643 TAGTACTCTATTT
1 TAGTACTCTATTT
55493656 CGGTACATAT
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:0.23, C:0.15, G:0.08, T:0.54
Consensus pattern (13 bp):
TAGTACTCTATTT
Found at i:55498041 original size:21 final size:24
Alignment explanation
Indices: 55498017--55498065 Score: 70
Period size: 21 Copynumber: 2.2 Consensus size: 24
55498007 ATATAACATG
55498017 TGTTTTTCA-TGCATTTATA-AT-
1 TGTTTTTCATTGCATTTATATATA
55498038 TG-TTTTCATTGCATTTATATATA
1 TGTTTTTCATTGCATTTATATATA
55498061 TGTTT
1 TGTTT
55498066 CCTTTTTCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
20 6 0.25
21 12 0.50
22 2 0.08
23 2 0.08
24 2 0.08
ACGTcount: A:0.22, C:0.08, G:0.10, T:0.59
Consensus pattern (24 bp):
TGTTTTTCATTGCATTTATATATA
Found at i:55509722 original size:19 final size:19
Alignment explanation
Indices: 55509698--55509736 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
55509688 CATGAAGTTT
55509698 TTTGAAAACATTTTTCTAA
1 TTTGAAAACATTTTTCTAA
55509717 TTTGAAAACATTTTTCTAA
1 TTTGAAAACATTTTTCTAA
55509736 T
1 T
55509737 GGTCTAAGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.36, C:0.10, G:0.05, T:0.49
Consensus pattern (19 bp):
TTTGAAAACATTTTTCTAA
Found at i:55513647 original size:40 final size:40
Alignment explanation
Indices: 55513610--55513702 Score: 127
Period size: 40 Copynumber: 2.4 Consensus size: 40
55513600 GCTACTCGTT
* *
55513610 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATT-TAATAACTCGCA
*
55513650 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
*
55513690 C-CATGCCTTCGGG
1 CAAATGCCTTCGGG
55513703 CTTAGCCCAG
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
39 11 0.23
40 35 0.73
41 2 0.04
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
Found at i:55521775 original size:40 final size:40
Alignment explanation
Indices: 55521738--55521830 Score: 127
Period size: 40 Copynumber: 2.4 Consensus size: 40
55521728 GCTACTCGTT
* *
55521738 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATT-TAATAACTCGCA
*
55521778 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
*
55521818 C-CATGCCTTCGGG
1 CAAATGCCTTCGGG
55521831 CTTAGCCCAG
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
39 11 0.23
40 35 0.73
41 2 0.04
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
Found at i:55527463 original size:64 final size:64
Alignment explanation
Indices: 55527362--55527481 Score: 222
Period size: 64 Copynumber: 1.9 Consensus size: 64
55527352 AGCTTCTTCG
55527362 AAAATTTAATAAAAATATGGGAGTAAGGGGATTCAAACTAAAGACCTCCTTGAAAAAGTGTGCA
1 AAAATTTAATAAAAATATGGGAGTAAGGGGATTCAAACTAAAGACCTCCTTGAAAAAGTGTGCA
* *
55527426 AAAATTTAATAAAAATATTGGAGTAAGGGGATTCAAACTAAAGGCCTCCTTGAAAA
1 AAAATTTAATAAAAATATGGGAGTAAGGGGATTCAAACTAAAGACCTCCTTGAAAA
55527482 TTTAGGAGCT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
64 54 1.00
ACGTcount: A:0.46, C:0.11, G:0.19, T:0.24
Consensus pattern (64 bp):
AAAATTTAATAAAAATATGGGAGTAAGGGGATTCAAACTAAAGACCTCCTTGAAAAAGTGTGCA
Found at i:55529448 original size:28 final size:27
Alignment explanation
Indices: 55529378--55529448 Score: 88
Period size: 27 Copynumber: 2.6 Consensus size: 27
55529368 GCCACCTTCA
*
55529378 TTGTGAGCTGGAGTTCGCCAGTTGGTT
1 TTGTGAGCTGGGGTTCGCCAGTTGGTT
* **
55529405 TGGTGAGCTAAGGTTCGCCAGTTGGTTT
1 TTGTGAGCTGGGGTTCGCCAGTTGG-TT
*
55529433 TTGTGAACTGGGGTTC
1 TTGTGAGCTGGGGTTC
55529449 TCTAAACTTA
Statistics
Matches: 35, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
27 21 0.60
28 14 0.40
ACGTcount: A:0.13, C:0.14, G:0.37, T:0.37
Consensus pattern (27 bp):
TTGTGAGCTGGGGTTCGCCAGTTGGTT
Found at i:55533849 original size:19 final size:19
Alignment explanation
Indices: 55533825--55533865 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
55533815 CTTTTAATAA
55533825 AATTCACATTATTGGTAGG
1 AATTCACATTATTGGTAGG
55533844 AATTCACATTATTGGTAGG
1 AATTCACATTATTGGTAGG
55533863 AAT
1 AAT
55533866 ATTGATATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.34, C:0.10, G:0.20, T:0.37
Consensus pattern (19 bp):
AATTCACATTATTGGTAGG
Found at i:55535959 original size:2 final size:2
Alignment explanation
Indices: 55535952--55535996 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
55535942 ATGCTAGCTT
55535952 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
55535994 TA T
1 TA T
55535997 TAAGTGGTTG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:55536528 original size:18 final size:17
Alignment explanation
Indices: 55536505--55536541 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
55536495 TGCCGTACAT
*
55536505 GAGAGAAACAAAAACAAA
1 GAGAGAAA-AAAAAAAAA
55536523 GAGAGAAAAAAAAAAAA
1 GAGAGAAAAAAAAAAAA
55536540 GA
1 GA
55536542 AAGGAAGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.76, C:0.05, G:0.19, T:0.00
Consensus pattern (17 bp):
GAGAGAAAAAAAAAAAA
Found at i:55537843 original size:40 final size:40
Alignment explanation
Indices: 55537784--55537890 Score: 124
Period size: 40 Copynumber: 2.7 Consensus size: 40
55537774 CAATTGAATG
* * * *
55537784 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGAAACT
* * * **
55537824 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGAAACT
*
55537864 ACATCCGGGCTAAGACCCGAAGGCATT
1 ATATCCGGGCTAAGACCCGAAGGCATT
55537891 CGTGCAAGTC
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 55 1.00
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGAAACT
Found at i:55537910 original size:40 final size:39
Alignment explanation
Indices: 55537825--55537951 Score: 141
Period size: 40 Copynumber: 3.2 Consensus size: 39
55537815 CTGGAAATTA
* * *
55537825 TATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTG-AC
1 TATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTGTTC
55537863 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTTC
* * *
55537905 TATCCGGGCTAAGACCCGAGGGCATTCGTGCATGTGGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTTC
55537945 TATCCGG
1 TATCCGG
55537952 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
38 1 0.01
39 3 0.04
40 70 0.91
41 1 0.01
42 2 0.03
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (39 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGTTC
Found at i:55544569 original size:21 final size:22
Alignment explanation
Indices: 55544536--55544580 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
55544526 TGCCGTACAT
* *
55544536 GAGAGAAACAAAAACAAA-GAA
1 GAGAAAAAAAAAAACAAAGGAA
*
55544557 GAGAAAAAAAAAAAGAAAGGAA
1 GAGAAAAAAAAAAACAAAGGAA
55544579 GA
1 GA
55544581 AAAGTGTTCA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.73, C:0.04, G:0.22, T:0.00
Consensus pattern (22 bp):
GAGAAAAAAAAAAACAAAGGAA
Found at i:55544571 original size:17 final size:19
Alignment explanation
Indices: 55544537--55544573 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
55544527 GCCGTACATG
55544537 AGAGAAACAAAAACAAAGA
1 AGAGAAACAAAAACAAAGA
55544556 AGAGAAA-AAAAA-AAAGA
1 AGAGAAACAAAAACAAAGA
55544573 A
1 A
55544574 AGGAAGAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.33
18 5 0.28
19 7 0.39
ACGTcount: A:0.78, C:0.05, G:0.16, T:0.00
Consensus pattern (19 bp):
AGAGAAACAAAAACAAAGA
Found at i:55545887 original size:38 final size:38
Alignment explanation
Indices: 55545793--55545931 Score: 120
Period size: 38 Copynumber: 3.6 Consensus size: 38
55545783 ATTGAATGAT
* * * * * * *
55545793 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGAATTAT
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG-ACTAC
*
55545832 ATCCGGGTTAAGA-CCGAAGGCAATTGTGCTAGACTAC
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGACTAC
* * *
55545869 ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTCGTTC
1 ATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGAC-TAC
*
55545908 TATCCGGGCTAAGACCCGAGGGCA
1 -ATCCGGGCTAAGACCCGAAGGCA
55545932 TTCGTGCATG
Statistics
Matches: 82, Mismatches: 13, Indels: 8
0.80 0.13 0.08
Matches are distributed among these distances:
37 18 0.22
38 30 0.37
39 13 0.16
40 21 0.26
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (38 bp):
ATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGACTAC
Found at i:55545917 original size:40 final size:40
Alignment explanation
Indices: 55545831--55545954 Score: 139
Period size: 40 Copynumber: 3.2 Consensus size: 40
55545821 GCTGGAATTA
* * * *
55545831 TATCCGGGTTAAGA-CCGAAGGCAATT-GTGCTAGAC-TAC
1 TATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTCGTTC
55545869 -ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTC
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTC
* * * *
55545908 TATCCGGGCTAAGACCCGAGGGCATTCGTGCATGTGGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTC
55545948 TATCCGG
1 TATCCGG
55545955 TTGTATTCCG
Statistics
Matches: 74, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
37 15 0.20
38 15 0.20
39 2 0.03
40 42 0.57
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTC
Found at i:55547182 original size:17 final size:17
Alignment explanation
Indices: 55547156--55547190 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
55547146 CGTACATGAG
* *
55547156 AGAAACAAAAACAAAGA
1 AGAAAAAAAAAAAAAGA
55547173 AGAAAAAAAAAAAAAGA
1 AGAAAAAAAAAAAAAGA
55547190 A
1 A
55547191 AGGAAGAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.83, C:0.06, G:0.11, T:0.00
Consensus pattern (17 bp):
AGAAAAAAAAAAAAAGA
Found at i:55548490 original size:40 final size:40
Alignment explanation
Indices: 55548431--55548537 Score: 124
Period size: 40 Copynumber: 2.7 Consensus size: 40
55548421 CAATTGAATG
* * * *
55548431 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGAAACT
* * * **
55548471 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGAAACT
*
55548511 ACATCCGGGCTAAGACCCGAAGGCATT
1 ATATCCGGGCTAAGACCCGAAGGCATT
55548538 CGTGCAAGTC
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 55 1.00
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGAAACT
Found at i:55548557 original size:40 final size:39
Alignment explanation
Indices: 55548472--55548598 Score: 141
Period size: 40 Copynumber: 3.2 Consensus size: 39
55548462 CTGGAAATTA
* * *
55548472 TATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTG-AC
1 TATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTGTTC
55548510 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTTC
* * *
55548552 TATCCGGGCTAAGACCCGAGGGCATTCGTGCATGTGGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTTC
55548592 TATCCGG
1 TATCCGG
55548599 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
38 1 0.01
39 3 0.04
40 70 0.91
41 1 0.01
42 2 0.03
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (39 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGTTC
Found at i:55555231 original size:16 final size:18
Alignment explanation
Indices: 55555200--55555235 Score: 58
Period size: 16 Copynumber: 2.1 Consensus size: 18
55555190 CGTACATGAG
55555200 AGAAACAAAAACAAAGAA
1 AGAAACAAAAACAAAGAA
55555218 AGAAA-AAAAA-AAAGAA
1 AGAAACAAAAACAAAGAA
55555234 AG
1 AG
55555236 GAAGAAAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.44
17 5 0.28
18 5 0.28
ACGTcount: A:0.81, C:0.06, G:0.14, T:0.00
Consensus pattern (18 bp):
AGAAACAAAAACAAAGAA
Found at i:55555235 original size:20 final size:20
Alignment explanation
Indices: 55555206--55555243 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
55555196 TGAGAGAAAC
55555206 AAAAACAAAGAAAGAAAAAA
1 AAAAACAAAGAAAGAAAAAA
* *
55555226 AAAAAGAAAGGAAGAAAA
1 AAAAACAAAGAAAGAAAA
55555244 GTGTTCATCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.82, C:0.03, G:0.16, T:0.00
Consensus pattern (20 bp):
AAAAACAAAGAAAGAAAAAA
Found at i:55556521 original size:40 final size:40
Alignment explanation
Indices: 55556474--55556580 Score: 124
Period size: 40 Copynumber: 2.7 Consensus size: 40
55556464 CAATTGAATG
* * * *
55556474 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTTGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGAAACT
* * * **
55556514 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGAAACT
*
55556554 ACATCCGGGCTAAGACCCGAAGGCATT
1 ATATCCGGGCTAAGACCCGAAGGCATT
55556581 CGTGCAAGTC
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 55 1.00
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGAAACT
Found at i:55556600 original size:40 final size:39
Alignment explanation
Indices: 55556515--55556641 Score: 141
Period size: 40 Copynumber: 3.2 Consensus size: 39
55556505 CTTGAAATTA
* * *
55556515 TATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTG-AC
1 TATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTGTTC
55556553 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTTC
* * *
55556595 TATCCGGGCTAAGACCCGAGGGCATTCGTGCATGTGGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTTC
55556635 TATCCGG
1 TATCCGG
55556642 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
38 1 0.01
39 3 0.04
40 70 0.91
41 1 0.01
42 2 0.03
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (39 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGTTC
Found at i:55569199 original size:3 final size:3
Alignment explanation
Indices: 55569191--55569264 Score: 114
Period size: 3 Copynumber: 24.7 Consensus size: 3
55569181 CATTATTGGT
*
55569191 ATC ATC ATC ATC ATC ATC CTC ATC ATC ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
*
55569239 ACC ATC A-C AATC ATC ATC ATC ATC AT
1 ATC ATC ATC -ATC ATC ATC ATC ATC AT
55569265 ATGATCCACT
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
2 1 0.02
3 63 0.97
4 1 0.02
ACGTcount: A:0.34, C:0.35, G:0.00, T:0.31
Consensus pattern (3 bp):
ATC
Found at i:55571381 original size:43 final size:44
Alignment explanation
Indices: 55571320--55571412 Score: 163
Period size: 43 Copynumber: 2.2 Consensus size: 44
55571310 TCCTAATTAG
55571320 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA-A
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
*
55571363 GAAAATAGTTCCCTTATTCTAGTAAACTACTAAAACATAAAATA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
55571407 -AAAATA
1 GAAAATA
55571413 TTTCTAGAAT
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
43 47 0.98
44 1 0.02
ACGTcount: A:0.52, C:0.15, G:0.05, T:0.28
Consensus pattern (44 bp):
GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
Found at i:55571456 original size:19 final size:18
Alignment explanation
Indices: 55571434--55571473 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
55571424 TGAATAAAAC
55571434 TTATCTACCTAAATAAGAT
1 TTATCTACCTAAATAA-AT
*
55571453 TTATCTACTTAAATAAAT
1 TTATCTACCTAAATAAAT
55571471 TTA
1 TTA
55571474 AAATATATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.42, C:0.12, G:0.03, T:0.42
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:55576095 original size:43 final size:44
Alignment explanation
Indices: 55576034--55576126 Score: 154
Period size: 43 Copynumber: 2.2 Consensus size: 44
55576024 TCCTAATTAG
55576034 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA-A
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
* *
55576077 GAAAATAGTTCCCTTATTCTAGTAAACTACTAAAAGATAAAATA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
55576121 -AAAATA
1 GAAAATA
55576127 TTTCTAGAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
43 46 0.98
44 1 0.02
ACGTcount: A:0.52, C:0.14, G:0.06, T:0.28
Consensus pattern (44 bp):
GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
Found at i:55576173 original size:19 final size:18
Alignment explanation
Indices: 55576151--55576187 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
55576141 ATAAAACTTT
55576151 TCTACCCAAATAAGATTTA
1 TCTACCCAAATAA-ATTTA
*
55576170 TCTACCTAAATAAATTTA
1 TCTACCCAAATAAATTTA
55576188 AAATATATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.43, C:0.19, G:0.03, T:0.35
Consensus pattern (18 bp):
TCTACCCAAATAAATTTA
Found at i:55580878 original size:19 final size:20
Alignment explanation
Indices: 55580845--55580882 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
55580835 TTATAATATC
*
55580845 ATAAATAATATGAATAAAAA
1 ATAAATAATAGGAATAAAAA
55580865 ATAAA-AATAGGAATAAAA
1 ATAAATAATAGGAATAAAA
55580883 GAAGAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.71, C:0.00, G:0.08, T:0.21
Consensus pattern (20 bp):
ATAAATAATAGGAATAAAAA
Found at i:55581961 original size:24 final size:24
Alignment explanation
Indices: 55581934--55582019 Score: 84
Period size: 24 Copynumber: 3.5 Consensus size: 24
55581924 AGAAATTTCA
* *
55581934 GCACTATGTGTGCAAGGTTATGCG
1 GCACTATGTGTGCAAGATTAAGCG
* * *
55581958 GCACTATGTGTACAAAAACTAAGCG
1 GCACTATGTGTGC-AAGATTAAGCG
* *
55581983 GCACTATGTGTGCGAGATTACA-TG
1 GCACTATGTGTGCAAGATTA-AGCG
55582007 GCACTATGTGTGC
1 GCACTATGTGTGC
55582020 GAGAAAATGT
Statistics
Matches: 50, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
24 30 0.60
25 20 0.40
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.27
Consensus pattern (24 bp):
GCACTATGTGTGCAAGATTAAGCG
Found at i:55582032 original size:24 final size:24
Alignment explanation
Indices: 55581982--55582045 Score: 83
Period size: 24 Copynumber: 2.7 Consensus size: 24
55581972 AAAACTAAGC
**
55581982 GGCACTATGTGTGCGAGATTACAT
1 GGCACTATGTGTGCGAGAAAACAT
**
55582006 GGCACTATGTGTGCGAGAAAATGT
1 GGCACTATGTGTGCGAGAAAACAT
*
55582030 GGCACTATGTATGCGA
1 GGCACTATGTGTGCGA
55582046 ATAAGTAAGA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.27
Consensus pattern (24 bp):
GGCACTATGTGTGCGAGAAAACAT
Found at i:55587341 original size:8 final size:8
Alignment explanation
Indices: 55587328--55587352 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
55587318 GATACTCGAA
55587328 GATATGTT
1 GATATGTT
55587336 GATATGTT
1 GATATGTT
55587344 GATATGTT
1 GATATGTT
55587352 G
1 G
55587353 CATTCTCGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.28, T:0.48
Consensus pattern (8 bp):
GATATGTT
Found at i:55588487 original size:20 final size:21
Alignment explanation
Indices: 55588453--55588491 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
55588443 TTATAATATC
*
55588453 ATAAATAATATGAATAAAAAA
1 ATAAATAATAGGAATAAAAAA
55588474 ATAAA-AATAGGAATAAAA
1 ATAAATAATAGGAATAAAA
55588492 GAAGAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.72, C:0.00, G:0.08, T:0.21
Consensus pattern (21 bp):
ATAAATAATAGGAATAAAAAA
Found at i:55589600 original size:25 final size:26
Alignment explanation
Indices: 55589566--55589676 Score: 94
Period size: 24 Copynumber: 4.5 Consensus size: 26
55589556 AAGGTTATGC
55589566 GGCACTATGTGTGC-AAAAACTAAGT
1 GGCACTATGTGTGCGAAAAACTAAGT
**
55589591 GGCACTATGTGTGCGAGATTACT---T
1 GGCACTATGTGTGCGA-AAAACTAAGT
*
55589615 GGTACTATGTGTGCGAGAAAAC---GT
1 GGCACTATGTGTGCGA-AAAACTAAGT
* *
55589639 GGCACTATGTGTGCGAATAAGTAAG-
1 GGCACTATGTGTGCGAAAAACTAAGT
*
55589664 AGCACTATGTGTG
1 GGCACTATGTGTG
55589677 TGGACTTTCA
Statistics
Matches: 71, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
23 3 0.04
24 36 0.51
25 26 0.37
26 2 0.03
27 4 0.06
ACGTcount: A:0.29, C:0.14, G:0.30, T:0.27
Consensus pattern (26 bp):
GGCACTATGTGTGCGAAAAACTAAGT
Found at i:55589622 original size:49 final size:48
Alignment explanation
Indices: 55589543--55589654 Score: 131
Period size: 49 Copynumber: 2.3 Consensus size: 48
55589533 AGAAATTTTA
* *
55589543 GCACTATGTGTGCAAGGTTATGCGGCACTATGTGTGC-A-AAAACTAAGTG
1 GCACTATGTGTGCGAGATTATGCGGCACTATGTGTGCGAGAAAAC---GTG
* *
55589592 GCACTATGTGTGCGAGATTACT-TGGTACTATGTGTGCGAGAAAACGTG
1 GCACTATGTGTGCGAGATTA-TGCGGCACTATGTGTGCGAGAAAACGTG
55589640 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
55589655 ATAAGTAAGA
Statistics
Matches: 56, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
48 18 0.32
49 31 0.55
50 2 0.04
51 5 0.09
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.28
Consensus pattern (48 bp):
GCACTATGTGTGCGAGATTATGCGGCACTATGTGTGCGAGAAAACGTG
Found at i:55589626 original size:24 final size:24
Alignment explanation
Indices: 55589566--55589654 Score: 101
Period size: 24 Copynumber: 3.7 Consensus size: 24
55589556 AAGGTTATGC
55589566 GGCACTATGTGTGC-A-AAAACTAAGT
1 GGCACTATGTGTGCGAGAAAAC---GT
** *
55589591 GGCACTATGTGTGCGAGATTACTT
1 GGCACTATGTGTGCGAGAAAACGT
*
55589615 GGTACTATGTGTGCGAGAAAACGT
1 GGCACTATGTGTGCGAGAAAACGT
55589639 GGCACTATGTGTGCGA
1 GGCACTATGTGTGCGA
55589655 ATAAGTAAGA
Statistics
Matches: 54, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
24 36 0.67
25 14 0.26
26 1 0.02
27 3 0.06
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.27
Consensus pattern (24 bp):
GGCACTATGTGTGCGAGAAAACGT
Found at i:55592112 original size:17 final size:19
Alignment explanation
Indices: 55592070--55592113 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
55592060 ATGAAATTTT
*
55592070 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
55592089 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
55592107 AA-TATTA
1 AATTATTA
55592114 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:55593938 original size:28 final size:28
Alignment explanation
Indices: 55593906--55593974 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
55593896 GCGTAGATCA
55593906 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
55593934 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
55593962 CGATA-TACCCCTA
1 CGAAATTACCCCTA
55593975 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:55601856 original size:46 final size:46
Alignment explanation
Indices: 55601804--55601913 Score: 184
Period size: 46 Copynumber: 2.4 Consensus size: 46
55601794 TTGGGCATCT
** *
55601804 GAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGCCC
1 GAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCC
55601850 GAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCC
1 GAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCC
*
55601896 GAGCTCGTTGAGTTGAGT
1 GAACTCGTTGAGTTGAGT
55601914 TCGAGTTTGC
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 60 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCC
Found at i:55601927 original size:46 final size:46
Alignment explanation
Indices: 55601804--55601929 Score: 182
Period size: 46 Copynumber: 2.7 Consensus size: 46
55601794 TTGGGCATCT
*
55601804 GAACTCGTTGAGTTGAG-TCTGAGTTCACTTATGGATGCGAATGCCC
1 GAACTCGTTGAGTTGAGTTC-GAGTTCACTTATGGATGCGAACGCCC
* *
55601850 GAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCC
1 GAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACGCCC
* **
55601896 GAGCTCGTTGAGTTGAGTTCGAGTTTGCTTATGG
1 GAACTCGTTGAGTTGAGTTCGAGTTCACTTATGG
55601930 GCGGGTTACA
Statistics
Matches: 71, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
46 70 0.99
47 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACGCCC
Found at i:55609202 original size:15 final size:15
Alignment explanation
Indices: 55609168--55609201 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
55609158 GGCTAGTTTA
55609168 TTTTTGAAAAATGGT
1 TTTTTGAAAAATGGT
*
55609183 TTTTTGAAAAGT-GT
1 TTTTTGAAAAATGGT
55609197 TTTTT
1 TTTTT
55609202 TTTAACCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.26, C:0.00, G:0.18, T:0.56
Consensus pattern (15 bp):
TTTTTGAAAAATGGT
Found at i:55611281 original size:21 final size:21
Alignment explanation
Indices: 55611251--55611296 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
55611241 GAATAGGAAA
55611251 TAAAGAGAAAAAAAAGAAAAGT
1 TAAAGAGAAAAAAAA-AAAAGT
* *
55611273 TAAA-AGAAAATAAAAAAATT
1 TAAAGAGAAAAAAAAAAAAGT
55611293 TAAA
1 TAAA
55611297 TTGCTCAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 9 0.41
21 9 0.41
22 4 0.18
ACGTcount: A:0.74, C:0.00, G:0.11, T:0.15
Consensus pattern (21 bp):
TAAAGAGAAAAAAAAAAAAGT
Found at i:55613568 original size:52 final size:52
Alignment explanation
Indices: 55613510--55613613 Score: 199
Period size: 52 Copynumber: 2.0 Consensus size: 52
55613500 TTTAAAATTG
55613510 TGTGTGCCTGTATATTTGATATGATCCCCCACATGTGATCCGTAAATGTTTT
1 TGTGTGCCTGTATATTTGATATGATCCCCCACATGTGATCCGTAAATGTTTT
*
55613562 TGTGTGCCTGTATATTTGATATGATCCCCCGCATGTGATCCGTAAATGTTTT
1 TGTGTGCCTGTATATTTGATATGATCCCCCACATGTGATCCGTAAATGTTTT
55613614 ACATTATGCG
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.40
Consensus pattern (52 bp):
TGTGTGCCTGTATATTTGATATGATCCCCCACATGTGATCCGTAAATGTTTT
Found at i:55614383 original size:76 final size:75
Alignment explanation
Indices: 55614204--55614389 Score: 194
Period size: 76 Copynumber: 2.5 Consensus size: 75
55614194 GAGGTCATAG
* * * *
55614204 GTCATCATTGCCGGGCAACCCGGGATGACATATTTGATTCAATAAACCATCATTGTCGAGCAATT
1 GTCATCATTGCCGGGCAACCCAGGATGACAGATTTGATTCAATAAACCATCATTATCGAGAAATT
55614269 CGAGGTGGTA
66 CGAGGTGGTA
* ** * * * * *
55614279 GGCTATCATTTTCGGGCAAGCCAAGATGAAAGATTTGATTCGATAAACCATCGTTATC-AGGAAA
1 GTC-ATCATTGCCGGGCAACCCAGGATGACAGATTTGATTCAATAAACCATCATTATCGA-GAAA
*
55614343 TTCGGGGTGGTA
64 TTCGAGGTGGTA
* * *
55614355 GATCATCATTGCCAGGTAATCCAGGATGACAGATT
1 G-TCATCATTGCCGGGCAACCCAGGATGACAGATT
55614390 GAAATATATG
Statistics
Matches: 87, Mismatches: 21, Indels: 5
0.77 0.19 0.04
Matches are distributed among these distances:
75 3 0.03
76 83 0.95
77 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.27
Consensus pattern (75 bp):
GTCATCATTGCCGGGCAACCCAGGATGACAGATTTGATTCAATAAACCATCATTATCGAGAAATT
CGAGGTGGTA
Found at i:55625186 original size:19 final size:19
Alignment explanation
Indices: 55625158--55625209 Score: 50
Period size: 21 Copynumber: 2.6 Consensus size: 19
55625148 CGACCATGCC
* *
55625158 AAAAATTTTCACATTCATG
1 AAAAACTTTCACATTCATA
*
55625177 AAAAACTTTCTTGCATTCATA
1 AAAAACTTTC--ACATTCATA
55625198 AAACAACTTTCA
1 AAA-AACTTTCA
55625210 TATTAGCCAT
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
19 9 0.35
21 10 0.38
22 7 0.27
ACGTcount: A:0.42, C:0.19, G:0.04, T:0.35
Consensus pattern (19 bp):
AAAAACTTTCACATTCATA
Found at i:55625832 original size:48 final size:49
Alignment explanation
Indices: 55625777--55625907 Score: 162
Period size: 48 Copynumber: 2.7 Consensus size: 49
55625767 GCACATTAAA
* *
55625777 GTCGATGCTATGTCCCAAACAGGTCTTACACT-ACTTTCATATATCGAG-
1 GTCGATGCCATGTCCCAAACAGGTCTTACACTGACTCTCATATATCG-GT
*
55625825 G-CTGATGCCATGTCCC-AACAGGTCTTACACTGACTCTCATCTATCGGT
1 GTC-GATGCCATGTCCCAAACAGGTCTTACACTGACTCTCATATATCGGT
* * *
55625873 GTCGATGCCATGTCCTAGACAAGTCTTACACTGAC
1 GTCGATGCCATGTCCCAAACAGGTCTTACACTGAC
55625908 ACACAACAAG
Statistics
Matches: 72, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
47 17 0.24
48 38 0.53
49 17 0.24
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.29
Consensus pattern (49 bp):
GTCGATGCCATGTCCCAAACAGGTCTTACACTGACTCTCATATATCGGT
Found at i:55633237 original size:40 final size:40
Alignment explanation
Indices: 55633178--55633319 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
55633168 AAATTGAATG
* * *
55633178 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
55633218 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
55633258 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
55633298 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
55633320 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:55633320 original size:40 final size:39
Alignment explanation
Indices: 55633217--55633345 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
55633207 TGCTGGAAAT
* * *
55633217 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
55633257 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
55633297 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
55633337 TATATCCGG
1 TATATCCGG
55633346 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:55642770 original size:49 final size:49
Alignment explanation
Indices: 55642714--55642943 Score: 381
Period size: 49 Copynumber: 4.7 Consensus size: 49
55642704 TACATATATG
* * * *
55642714 TGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
55642763 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGT-ATGTATA
*
55642813 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
55642862 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
55642911 TGTGAT-AGGCCTAATGGCCGATGTGGTGAATGT
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGT
55642944 AAATATATGT
Statistics
Matches: 175, Mismatches: 5, Indels: 3
0.96 0.03 0.02
Matches are distributed among these distances:
48 27 0.15
49 101 0.58
50 47 0.27
ACGTcount: A:0.28, C:0.09, G:0.33, T:0.30
Consensus pattern (49 bp):
TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
Found at i:55642885 original size:99 final size:97
Alignment explanation
Indices: 55642714--55642943 Score: 379
Period size: 99 Copynumber: 2.3 Consensus size: 97
55642704 TACATATATG
* * * *
55642714 TGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAAT
1 TGTGAT-AGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAAT
55642779 GGCCGATGTGATGAATGTGAAAGTGTGATGTATA
65 GGCCGATGTGATGAATGTGAAAGTGT-ATGTATA
*
55642813 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATGAGGCCTAAT
1 TGTGAT-AGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAAT
*
55642878 GGCCGATGTGGTGAATGTGAAAGTGTATGTATA
65 GGCCGATGTGATGAATGTGAAAGTGTATGTATA
55642911 TGTGATAGGCCTAATGGCCGATGTGGTGAATGT
1 TGTGATAGGCCTAATGGCCGATGTGGTGAATGT
55642944 AAATATATGT
Statistics
Matches: 124, Mismatches: 7, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
97 27 0.22
98 13 0.10
99 84 0.68
ACGTcount: A:0.28, C:0.09, G:0.33, T:0.30
Consensus pattern (97 bp):
TGTGATAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATG
GCCGATGTGATGAATGTGAAAGTGTATGTATA
Found at i:55643088 original size:37 final size:37
Alignment explanation
Indices: 55643038--55643158 Score: 217
Period size: 37 Copynumber: 3.3 Consensus size: 37
55643028 GGAATATGTT
*
55643038 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
55643075 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
55643112 CCGGGTAAGACCCGATGACTACGT-TGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
55643148 CCGGGTAAGAC
1 CCGGGTAAGAC
55643159 TTCTTTTATA
Statistics
Matches: 82, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
36 22 0.27
37 60 0.73
ACGTcount: A:0.26, C:0.20, G:0.33, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:55649318 original size:49 final size:49
Alignment explanation
Indices: 55648967--55649313 Score: 550
Period size: 49 Copynumber: 7.1 Consensus size: 49
55648957 CAAGATTCGT
* * * *
55648967 GAAAATGTATATATATGTGATGAGGCCTAATGGTCGATGTGATGAATGT
1 GAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGC
*
55649016 GAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGC
* * * *
55649065 GAAAATGTATATATATGTGATGAGGCCTAATGGTCGATGCGATGAATGC
1 GAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGC
55649114 GAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGC
1 GAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGC
* * *
55649163 GAAAATGTATATATATGTGATGAGGCCTAATGGCCGATGCGATGAATGC
1 GAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGC
*
55649212 GAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGC
1 GAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGC
* * *
55649261 GAAAGTATATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGC
1 GAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGC
55649310 GAAA
1 GAAA
55649314 GTATAATTAG
Statistics
Matches: 277, Mismatches: 21, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 277 1.00
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.29
Consensus pattern (49 bp):
GAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGC
Found at i:55649358 original size:178 final size:178
Alignment explanation
Indices: 55649145--55649493 Score: 590
Period size: 178 Copynumber: 2.0 Consensus size: 178
55649135 AAGGCCTAAT
* *
55649145 GGCCGATGTGATGAATGCGAAAATGTATATATATGTGATGAGGCCTAATGGCCGATGCGATGAAT
1 GGCCGATGTGATGAATGCGAAAATATATATATATGTGATAAGGCCTAATGGCCGATGCGATGAAT
*
55649210 GCGAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGCGAAAGTATATGTAT
66 GCGAAAATATATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGCGAAAGTATATGTAT
55649275 ATGTGATAAGGCCTAATGGCCGATGTGGTGAATGCGAAAGTATAATTA
131 ATGTGATAAGGCCTAATGGCCGATGTGGTGAATGCGAAAGTATAATTA
* * * * *
55649323 GGCCGATGTGGTGAATGCGAAAGTATATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAAT
1 GGCCGATGTGATGAATGCGAAAATATATATATATGTGATAAGGCCTAATGGCCGATGCGATGAAT
* *
55649388 GCGAAAGTATATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGAATGCGAAAGTATATGTAT
66 GCGAAAATATATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGCGAAAGTATATGTAT
* *
55649453 ATGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGT
131 ATGTGATAAGGCCTAATGGCCGATGTGGTGAATGCGAAAGT
55649494 GTATGTATAT
Statistics
Matches: 159, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
178 159 1.00
ACGTcount: A:0.30, C:0.10, G:0.32, T:0.28
Consensus pattern (178 bp):
GGCCGATGTGATGAATGCGAAAATATATATATATGTGATAAGGCCTAATGGCCGATGCGATGAAT
GCGAAAATATATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGCGAAAGTATATGTAT
ATGTGATAAGGCCTAATGGCCGATGTGGTGAATGCGAAAGTATAATTA
Found at i:55649376 original size:80 final size:80
Alignment explanation
Indices: 55649243--55649398 Score: 312
Period size: 80 Copynumber: 1.9 Consensus size: 80
55649233 AAGGCCTAAT
55649243 GGCCGATGTGGTGAATGCGAAAGTATATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAAT
1 GGCCGATGTGGTGAATGCGAAAGTATATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAAT
55649308 GCGAAAGTATAATTA
66 GCGAAAGTATAATTA
55649323 GGCCGATGTGGTGAATGCGAAAGTATATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAAT
1 GGCCGATGTGGTGAATGCGAAAGTATATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAAT
55649388 GCGAAAGTATA
66 GCGAAAGTATA
55649399 TGTATATGTG
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
80 76 1.00
ACGTcount: A:0.31, C:0.10, G:0.32, T:0.27
Consensus pattern (80 bp):
GGCCGATGTGGTGAATGCGAAAGTATATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAAT
GCGAAAGTATAATTA
Found at i:55649380 original size:49 final size:49
Alignment explanation
Indices: 55649323--55649572 Score: 392
Period size: 49 Copynumber: 5.1 Consensus size: 49
55649313 AGTATAATTA
55649323 GGCCGATGTGGTGAATGCGAAAGTATATGTATATGTGATAAGGCCTAAT
1 GGCCGATGTGGTGAATGCGAAAGTATATGTATATGTGATAAGGCCTAAT
*
55649372 GGCCGATGTGGTGAATGCGAAAGTATATGTATATGTGATGAGGCCTAAT
1 GGCCGATGTGGTGAATGCGAAAGTATATGTATATGTGATAAGGCCTAAT
*
55649421 GGCCGATGTGGTGAATGCGAAAGTATATGTATATGTGATGAGGCCTAAT
1 GGCCGATGTGGTGAATGCGAAAGTATATGTATATGTGATAAGGCCTAAT
* *
55649470 GGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAAT
1 GGCCGATGTGGTGAATGCGAAAGTATATGTATATGTGATAAGGCCTAAT
* * * * * *
55649519 GGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGGTAAAGCCGAAT
1 GGCCGATGTGGTGAATGCGAAA--GTATATGTATATGTGATAAGGCCTAAT
55649570 GGC
1 GGC
55649573 TAATGTGAAT
Statistics
Matches: 189, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
49 164 0.87
51 25 0.13
ACGTcount: A:0.30, C:0.10, G:0.32, T:0.29
Consensus pattern (49 bp):
GGCCGATGTGGTGAATGCGAAAGTATATGTATATGTGATAAGGCCTAAT
Found at i:55649424 original size:129 final size:129
Alignment explanation
Indices: 55649194--55649447 Score: 463
Period size: 129 Copynumber: 2.0 Consensus size: 129
55649184 GAGGCCTAAT
*
55649194 GGCCGATGCGATGAATGCGAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAAT
1 GGCCGATGCGATGAATGCGAAAATATATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAAT
55649259 GCGAAAGTATATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGCGAAAGTATAATTA
66 GCGAAAGTATATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGCGAAAGTATAATTA
* * *
55649323 GGCCGATGTGGTGAATGCGAAAGTATATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAAT
1 GGCCGATGCGATGAATGCGAAAATATATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAAT
*
55649388 GCGAAAGTATATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGAATGCGAAAGTATA
66 GCGAAAGTATATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGCGAAAGTATA
55649448 TGTATATGTG
Statistics
Matches: 120, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
129 120 1.00
ACGTcount: A:0.31, C:0.11, G:0.31, T:0.27
Consensus pattern (129 bp):
GGCCGATGCGATGAATGCGAAAATATATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAAT
GCGAAAGTATATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGCGAAAGTATAATTA
Found at i:55649502 original size:227 final size:227
Alignment explanation
Indices: 55649107--55649542 Score: 737
Period size: 227 Copynumber: 1.9 Consensus size: 227
55649097 GTCGATGCGA
* *
55649107 TGAATGCGAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGCGAAAATGTA
1 TGAATGCGAAAATATATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGCGAAAATATA
*
55649172 TATATATGTGATGAGGCCTAATGGCCGATGCGATGAATGCGAAAATGTATGTATATGTGATAAGG
66 TATATATGTGATGAGGCCTAATGGCCGATGCGATGAATGCGAAAATATATGTATATGTGATAAGG
55649237 CCTAATGGCCGATGTGGTGAATGCGAAAGTATATGTATATGTGATAAGGCCTAATGGCCGATGTG
131 CCTAATGGCCGATGTGGTGAATGCGAAAGTATATGTATATGTGATAAGGCCTAATGGCCGATGTG
*
55649302 GTGAATGCGAAAGTATAATTAGGCCGATGTGG
196 ATGAATGCGAAAGTATAATTAGGCCGATGTGG
* * *
55649334 TGAATGCGAAAGTATATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGCGAAAGTATA
1 TGAATGCGAAAATATATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGCGAAAATATA
* * * * *
55649399 TGTATATGTGATGAGGCCTAATGGCCGATGTGGTGAATGCGAAAGTATATGTATATGTGATGAGG
66 TATATATGTGATGAGGCCTAATGGCCGATGCGATGAATGCGAAAATATATGTATATGTGATAAGG
* *
55649464 CCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTG
131 CCTAATGGCCGATGTGGTGAATGCGAAAGTATATGTATATGTGATAAGGCCTAATGGCCGATGTG
*
55649529 ATGAATGTGAAAGT
196 ATGAATGCGAAAGT
55649543 GTATATATAT
Statistics
Matches: 194, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
227 194 1.00
ACGTcount: A:0.31, C:0.10, G:0.31, T:0.28
Consensus pattern (227 bp):
TGAATGCGAAAATATATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGCGAAAATATA
TATATATGTGATGAGGCCTAATGGCCGATGCGATGAATGCGAAAATATATGTATATGTGATAAGG
CCTAATGGCCGATGTGGTGAATGCGAAAGTATATGTATATGTGATAAGGCCTAATGGCCGATGTG
ATGAATGCGAAAGTATAATTAGGCCGATGTGG
Found at i:55649676 original size:37 final size:36
Alignment explanation
Indices: 55649621--55649707 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
55649611 AACTTGGAAA
55649621 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGT-AGACCCGATGACTACGTGTGGAGAT
55649659 TATGTCCGGGTACGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTA-GACCCGATGACTACGTGTGGAGAT
55649696 TATGTCCGGGTA
1 TATGTCCGGGTA
55649708 AGACTTCGTA
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 43 0.90
38 4 0.08
ACGTcount: A:0.21, C:0.20, G:0.33, T:0.26
Consensus pattern (36 bp):
TATGTCCGGGTAGACCCGATGACTACGTGTGGAGAT
Found at i:55651616 original size:40 final size:40
Alignment explanation
Indices: 55651570--55651869 Score: 270
Period size: 40 Copynumber: 7.5 Consensus size: 40
55651560 TGAATGATAC
* *
55651570 CCGGGCTAAGTCCCGAAG-GCATTTATGCTAGTGAATATAT
1 CCGGGCTAAGTCCCGAAGAGCATTTGTGCTAGTG-ATGTAT
* * * * *
55651610 CCGGGCTAAGACCCGAAG-GTATTTGTG-TGAGTTGTTATAC
1 CCGGGCTAAGTCCCGAAGAGCATTTGTGCT-AG-TGATGTAT
* * * * * *
55651650 CCGGGTTAAGACCCGAAG-GCAATTGTGCTTGTGGTTTTAT
1 CCGGGCTAAGTCCCGAAGAGCATTTGTGCTAGT-GATGTAT
* **
55651690 CC-GGCTAAGTTCCGAAGAGCATCCGTGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTTGTGCTAGTGATGTAT
* * *
55651729 CCGGACTAAGTTCCGAAGAGCA-TTCTGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTTGTGCTAGTGATGTAT
* * * *
55651768 CCGGACTAAGTTCCGAGGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTTGTGCTAGTGATGTAT
* * * *
55651808 CCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGCAT
1 CCGGGCTAAGTCCCGAAGAGCATTTGTGCTAGTGATGTAT
*
55651848 CCGGGCTAGGTCCCGAAGAGCA
1 CCGGGCTAAGTCCCGAAGAGCA
55651870 ATCATGCTGG
Statistics
Matches: 221, Mismatches: 32, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
39 56 0.25
40 162 0.73
41 3 0.01
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGAGCATTTGTGCTAGTGATGTAT
Found at i:55651745 original size:79 final size:79
Alignment explanation
Indices: 55651687--55651869 Score: 296
Period size: 79 Copynumber: 2.3 Consensus size: 79
55651677 CTTGTGGTTT
55651687 TATCCGG-CTAAGTTCCGAAGAGCATCCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCA
1 TATCCGGACTAAGTTCCGAAGAGCATCCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCA
55651751 TTCTGCTAGTGATG
66 TTCTGCTAGTGATG
* *
55651765 TATCCGGACTAAGTTCCGAGGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCA
1 TATCCGGACTAAGTTCCGAAGAGCATCCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCA
55651830 TTCGTGCTAGTGATG
66 TTC-TGCTAGTGATG
* * * *
55651845 CATCCGGGCTAGGTCCCGAAGAGCA
1 TATCCGGACTAAGTTCCGAAGAGCA
55651870 ATCATGCTGG
Statistics
Matches: 96, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
78 7 0.07
79 58 0.60
80 31 0.32
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
TATCCGGACTAAGTTCCGAAGAGCATCCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCA
TTCTGCTAGTGATG
Found at i:55656061 original size:49 final size:49
Alignment explanation
Indices: 55655710--55656056 Score: 550
Period size: 49 Copynumber: 7.1 Consensus size: 49
55655700 CAAGATTCGT
* * * *
55655710 GAAAATGTATATATATGTGATGAGGCCTAATGGTCGATGTGATGAATGT
1 GAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGC
*
55655759 GAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGC
* * * *
55655808 GAAAATGTATATATATGTGATGAGGCCTAATGGTCGATGCGATGAATGC
1 GAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGC
55655857 GAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGC
1 GAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGC
* * *
55655906 GAAAATGTATATATATGTGATGAGGCCTAATGGCCGATGCGATGAATGC
1 GAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGC
*
55655955 GAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGC
1 GAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGC
* * *
55656004 GAAAGTATATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGC
1 GAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGC
55656053 GAAA
1 GAAA
55656057 GTATAATTAG
Statistics
Matches: 277, Mismatches: 21, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 277 1.00
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.29
Consensus pattern (49 bp):
GAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGC
Found at i:55656101 original size:178 final size:178
Alignment explanation
Indices: 55655888--55656236 Score: 590
Period size: 178 Copynumber: 2.0 Consensus size: 178
55655878 AAGGCCTAAT
* *
55655888 GGCCGATGTGATGAATGCGAAAATGTATATATATGTGATGAGGCCTAATGGCCGATGCGATGAAT
1 GGCCGATGTGATGAATGCGAAAATATATATATATGTGATAAGGCCTAATGGCCGATGCGATGAAT
*
55655953 GCGAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGCGAAAGTATATGTAT
66 GCGAAAATATATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGCGAAAGTATATGTAT
55656018 ATGTGATAAGGCCTAATGGCCGATGTGGTGAATGCGAAAGTATAATTA
131 ATGTGATAAGGCCTAATGGCCGATGTGGTGAATGCGAAAGTATAATTA
* * * * *
55656066 GGCCGATGTGGTGAATGCGAAAGTATATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAAT
1 GGCCGATGTGATGAATGCGAAAATATATATATATGTGATAAGGCCTAATGGCCGATGCGATGAAT
* *
55656131 GCGAAAGTATATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGAATGCGAAAGTATATGTAT
66 GCGAAAATATATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGCGAAAGTATATGTAT
* *
55656196 ATGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGT
131 ATGTGATAAGGCCTAATGGCCGATGTGGTGAATGCGAAAGT
55656237 GTATGTATAT
Statistics
Matches: 159, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
178 159 1.00
ACGTcount: A:0.30, C:0.10, G:0.32, T:0.28
Consensus pattern (178 bp):
GGCCGATGTGATGAATGCGAAAATATATATATATGTGATAAGGCCTAATGGCCGATGCGATGAAT
GCGAAAATATATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGCGAAAGTATATGTAT
ATGTGATAAGGCCTAATGGCCGATGTGGTGAATGCGAAAGTATAATTA
Found at i:55656119 original size:80 final size:80
Alignment explanation
Indices: 55655986--55656141 Score: 312
Period size: 80 Copynumber: 1.9 Consensus size: 80
55655976 AAGGCCTAAT
55655986 GGCCGATGTGGTGAATGCGAAAGTATATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAAT
1 GGCCGATGTGGTGAATGCGAAAGTATATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAAT
55656051 GCGAAAGTATAATTA
66 GCGAAAGTATAATTA
55656066 GGCCGATGTGGTGAATGCGAAAGTATATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAAT
1 GGCCGATGTGGTGAATGCGAAAGTATATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAAT
55656131 GCGAAAGTATA
66 GCGAAAGTATA
55656142 TGTATATGTG
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
80 76 1.00
ACGTcount: A:0.31, C:0.10, G:0.32, T:0.27
Consensus pattern (80 bp):
GGCCGATGTGGTGAATGCGAAAGTATATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAAT
GCGAAAGTATAATTA
Found at i:55656123 original size:49 final size:49
Alignment explanation
Indices: 55656066--55656315 Score: 392
Period size: 49 Copynumber: 5.1 Consensus size: 49
55656056 AGTATAATTA
55656066 GGCCGATGTGGTGAATGCGAAAGTATATGTATATGTGATAAGGCCTAAT
1 GGCCGATGTGGTGAATGCGAAAGTATATGTATATGTGATAAGGCCTAAT
*
55656115 GGCCGATGTGGTGAATGCGAAAGTATATGTATATGTGATGAGGCCTAAT
1 GGCCGATGTGGTGAATGCGAAAGTATATGTATATGTGATAAGGCCTAAT
*
55656164 GGCCGATGTGGTGAATGCGAAAGTATATGTATATGTGATGAGGCCTAAT
1 GGCCGATGTGGTGAATGCGAAAGTATATGTATATGTGATAAGGCCTAAT
* *
55656213 GGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAAT
1 GGCCGATGTGGTGAATGCGAAAGTATATGTATATGTGATAAGGCCTAAT
* * * * * *
55656262 GGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGGTAAAGCCGAAT
1 GGCCGATGTGGTGAATGCGAAA--GTATATGTATATGTGATAAGGCCTAAT
55656313 GGC
1 GGC
55656316 TAATGTGAAT
Statistics
Matches: 189, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
49 164 0.87
51 25 0.13
ACGTcount: A:0.30, C:0.10, G:0.32, T:0.29
Consensus pattern (49 bp):
GGCCGATGTGGTGAATGCGAAAGTATATGTATATGTGATAAGGCCTAAT
Found at i:55656167 original size:129 final size:129
Alignment explanation
Indices: 55655937--55656190 Score: 463
Period size: 129 Copynumber: 2.0 Consensus size: 129
55655927 GAGGCCTAAT
*
55655937 GGCCGATGCGATGAATGCGAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAAT
1 GGCCGATGCGATGAATGCGAAAATATATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAAT
55656002 GCGAAAGTATATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGCGAAAGTATAATTA
66 GCGAAAGTATATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGCGAAAGTATAATTA
* * *
55656066 GGCCGATGTGGTGAATGCGAAAGTATATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAAT
1 GGCCGATGCGATGAATGCGAAAATATATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAAT
*
55656131 GCGAAAGTATATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGAATGCGAAAGTATA
66 GCGAAAGTATATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGCGAAAGTATA
55656191 TGTATATGTG
Statistics
Matches: 120, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
129 120 1.00
ACGTcount: A:0.31, C:0.11, G:0.31, T:0.27
Consensus pattern (129 bp):
GGCCGATGCGATGAATGCGAAAATATATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAAT
GCGAAAGTATATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGCGAAAGTATAATTA
Found at i:55656245 original size:227 final size:227
Alignment explanation
Indices: 55655850--55656285 Score: 737
Period size: 227 Copynumber: 1.9 Consensus size: 227
55655840 GTCGATGCGA
* *
55655850 TGAATGCGAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGCGAAAATGTA
1 TGAATGCGAAAATATATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGCGAAAATATA
*
55655915 TATATATGTGATGAGGCCTAATGGCCGATGCGATGAATGCGAAAATGTATGTATATGTGATAAGG
66 TATATATGTGATGAGGCCTAATGGCCGATGCGATGAATGCGAAAATATATGTATATGTGATAAGG
55655980 CCTAATGGCCGATGTGGTGAATGCGAAAGTATATGTATATGTGATAAGGCCTAATGGCCGATGTG
131 CCTAATGGCCGATGTGGTGAATGCGAAAGTATATGTATATGTGATAAGGCCTAATGGCCGATGTG
*
55656045 GTGAATGCGAAAGTATAATTAGGCCGATGTGG
196 ATGAATGCGAAAGTATAATTAGGCCGATGTGG
* * *
55656077 TGAATGCGAAAGTATATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGCGAAAGTATA
1 TGAATGCGAAAATATATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGCGAAAATATA
* * * * *
55656142 TGTATATGTGATGAGGCCTAATGGCCGATGTGGTGAATGCGAAAGTATATGTATATGTGATGAGG
66 TATATATGTGATGAGGCCTAATGGCCGATGCGATGAATGCGAAAATATATGTATATGTGATAAGG
* *
55656207 CCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTG
131 CCTAATGGCCGATGTGGTGAATGCGAAAGTATATGTATATGTGATAAGGCCTAATGGCCGATGTG
*
55656272 ATGAATGTGAAAGT
196 ATGAATGCGAAAGT
55656286 GTATATATAT
Statistics
Matches: 194, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
227 194 1.00
ACGTcount: A:0.31, C:0.10, G:0.31, T:0.28
Consensus pattern (227 bp):
TGAATGCGAAAATATATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGCGAAAATATA
TATATATGTGATGAGGCCTAATGGCCGATGCGATGAATGCGAAAATATATGTATATGTGATAAGG
CCTAATGGCCGATGTGGTGAATGCGAAAGTATATGTATATGTGATAAGGCCTAATGGCCGATGTG
ATGAATGCGAAAGTATAATTAGGCCGATGTGG
Found at i:55656419 original size:37 final size:36
Alignment explanation
Indices: 55656364--55656450 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
55656354 AACTTGGAAA
55656364 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGT-AGACCCGATGACTACGTGTGGAGAT
55656402 TATGTCCGGGTACGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTA-GACCCGATGACTACGTGTGGAGAT
55656439 TATGTCCGGGTA
1 TATGTCCGGGTA
55656451 AGACTTCGTA
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 43 0.90
38 4 0.08
ACGTcount: A:0.21, C:0.20, G:0.33, T:0.26
Consensus pattern (36 bp):
TATGTCCGGGTAGACCCGATGACTACGTGTGGAGAT
Found at i:55660729 original size:26 final size:26
Alignment explanation
Indices: 55660700--55660754 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
55660690 AGGGATCTTC
55660700 AATAATCCTATAGGTTTAGTTTAAGT
1 AATAATCCTATAGGTTTAGTTTAAGT
55660726 AATAATCCTATAGGTTTAGTTTAAGT
1 AATAATCCTATAGGTTTAGTTTAAGT
55660752 AAT
1 AAT
55660755 TGCAAGGATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.36, C:0.07, G:0.15, T:0.42
Consensus pattern (26 bp):
AATAATCCTATAGGTTTAGTTTAAGT
Found at i:55665144 original size:42 final size:43
Alignment explanation
Indices: 55665032--55665187 Score: 115
Period size: 42 Copynumber: 3.6 Consensus size: 43
55665022 AGCTCGTACA
* * * * *
55665032 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCT-AATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATATCAA-ATCG
* * *
55665075 ACG-CAACTATCCCATACA-GGTTCTTACAC-AAA-ATCAAATACG
1 ATGCCAA-TGTCCCAGACATGG-TCTTACACGAAATATCAAAT-CG
* * * *
55665117 ATGCCGATGTCTCAGACATGGTCTTACACGTAAATCTCAAATTG
1 ATGCCAATGTCCCAGACATGGTCTTACACG-AAATATCAAATCG
*
55665161 ATGCCAATGTCCCAGACGTGGTCTTAC
1 ATGCCAATGTCCCAGACATGGTCTTAC
55665188 GGGAAATCAC
Statistics
Matches: 86, Mismatches: 18, Indels: 17
0.71 0.15 0.14
Matches are distributed among these distances:
41 3 0.03
42 29 0.34
43 20 0.23
44 28 0.33
45 6 0.07
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAAATATCAAATCG
Found at i:55676077 original size:45 final size:45
Alignment explanation
Indices: 55676011--55676142 Score: 192
Period size: 45 Copynumber: 2.9 Consensus size: 45
55676001 GAATCAAATA
* * * *
55676011 CAATGCCAATGTTCCAGACATGGTCTTACACGTAACCACATAGAT
1 CAATGCCAACGTCCCAGACATGGTCTTACACGAAAACACATAGAT
* * *
55676056 CAATGCCAACGTCCCAAACATGGTCTTACACAAAAACACATATAT
1 CAATGCCAACGTCCCAGACATGGTCTTACACGAAAACACATAGAT
*
55676101 CAATGCCAACGTCCTAGACATGGTCTTACACGAAAACACATA
1 CAATGCCAACGTCCCAGACATGGTCTTACACGAAAACACATA
55676143 TTAGAATCCT
Statistics
Matches: 77, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 77 1.00
ACGTcount: A:0.38, C:0.28, G:0.13, T:0.21
Consensus pattern (45 bp):
CAATGCCAACGTCCCAGACATGGTCTTACACGAAAACACATAGAT
Found at i:55691173 original size:47 final size:47
Alignment explanation
Indices: 55691115--55691236 Score: 190
Period size: 47 Copynumber: 2.6 Consensus size: 47
55691105 GCATTGGTAC
* *
55691115 TAAGACAAGGATACCATGTACGACCATGTTTGGAATATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
*
55691162 TAAGACAAGGATACCATGTAAGACCATGTTTTGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
* * *
55691209 TCAGATAAGGATATCATGTAAGACCATG
1 TAAGACAAGGATACCATGTAAGACCATG
55691237 CCAAGGCATG
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 69 1.00
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
Found at i:55691344 original size:55 final size:54
Alignment explanation
Indices: 55691215--55691411 Score: 213
Period size: 54 Copynumber: 3.6 Consensus size: 54
55691205 TTGGTCAGAT
* * * *
55691215 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGATCTCCTGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
** * * *
55691269 AAGGAAATCATGTAAGACCATGTCAAGACATGGAATTGATGAGTTACTATAAGGC
1 AAGGATCTCCTGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGGC
* * *
55691324 AAAGG-TCTCCTGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAAGC
1 -AAGGATCTCCTGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
*
55691377 AAGGATAC-CAC-GTAAGACCATGTCAAGACATGGCA
1 AAGGAT-CTC-CTGTAAGACCATGCCAAGACATGGCA
55691412 ATGGTAAGTT
Statistics
Matches: 123, Mismatches: 15, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
52 4 0.03
53 30 0.24
54 43 0.35
55 42 0.34
56 4 0.03
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (54 bp):
AAGGATCTCCTGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
Found at i:55695429 original size:40 final size:40
Alignment explanation
Indices: 55695368--55695571 Score: 236
Period size: 40 Copynumber: 5.1 Consensus size: 40
55695358 CGAAATTTAG
* * *
55695368 CCGGATATAACCAC-AAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCA-CACAAATGCCTTCGGGTCTTAAC
* * *
55695408 CCGGGTATAGCAACTCACACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCACACAAATGCCTTCGGGTCTTAAC
*
55695448 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCACACAAATGCCTTCGGGTCTTAAC
*
55695488 CCGGATATAACAACT-AGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCA-CACAAATGCCTTCGGGTCTTAAC
* * * *
55695528 CCAGATATAATC-ACT-AGCATAAATGCCTTCGGGGCTTAGC
1 CCGGATATAA-CAACTCA-CACAAATGCCTTCGGGTCTTAAC
55695568 CCGG
1 CCGG
55695572 GTATCATTCA
Statistics
Matches: 145, Mismatches: 16, Indels: 6
0.87 0.10 0.04
Matches are distributed among these distances:
40 143 0.99
41 2 0.01
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (40 bp):
CCGGATATAACAACTCACACAAATGCCTTCGGGTCTTAAC
Found at i:55695468 original size:80 final size:79
Alignment explanation
Indices: 55695364--55695575 Score: 293
Period size: 80 Copynumber: 2.7 Consensus size: 79
55695354 TCTTCGAAAT
* * *
55695364 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCA-CA
1 TTAGCCCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTATAACAACT-AGCA
55695427 CAAATGCCTTCGGGTC
64 CAAATGCCTTCGGGTC
* *
55695443 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAACCCGGATATAACAACTAGCAC
1 TTAGCCCGGATATAAC-ACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTATAACAACTAGCAC
55695508 AAATGCCTTCGGGTC
65 AAATGCCTTCGGGTC
* * * *
55695523 TTAGCCCAGATATAATCACTAGCATAAATGCCTTCGGGGCTTAGCCCGGGTAT
1 TTAGCCCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTAT
55695576 CATTCAAATG
Statistics
Matches: 118, Mismatches: 11, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
79 6 0.05
80 111 0.94
81 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (79 bp):
TTAGCCCGGATATAACACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTATAACAACTAGCACA
AATGCCTTCGGGTC
Found at i:55703778 original size:42 final size:42
Alignment explanation
Indices: 55703674--55703785 Score: 104
Period size: 42 Copynumber: 2.7 Consensus size: 42
55703664 TACCGTATTA
* * * *
55703674 ATGCCATACCCCAGATATGGTCTTACATGAAATATCATATCG
1 ATGCCATATCCTAGATATGGTCTTATACGAAATATCATATCG
* * *
55703716 ACGCCATGTCCCTA-ACATGGTCTTATACGAAATCA-CATA-CTG
1 ATGCCATAT-CCTAGATATGGTCTTATACGAAAT-ATCATATC-G
*
55703758 ATGCCATATCCTAGATATGGTCATATAC
1 ATGCCATATCCTAGATATGGTCTTATAC
55703786 AGAATCTCGG
Statistics
Matches: 55, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
41 5 0.09
42 46 0.84
43 4 0.07
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (42 bp):
ATGCCATATCCTAGATATGGTCTTATACGAAATATCATATCG
Found at i:55705151 original size:43 final size:43
Alignment explanation
Indices: 55705007--55705155 Score: 144
Period size: 43 Copynumber: 3.5 Consensus size: 43
55704997 GGCTACCAAG
* *
55705007 ATGTGATTACATGTAAGACCCTGTGTGGGATAGTCGCATTGTA
1 ATGTGATTACATGTAAGACCCTGTGTGGGACAGTCGCATCGTA
* * *
55705050 TTGTGATTACGTGTAAGACCATGTGTGGGACA-TCGGCATCGTTA
1 ATGTGATTACATGTAAGACCCTGTGTGGGACAGTC-GCATCG-TA
** * *
55705094 AT-CAACTT-CGTGTAAGACCCTGTGTGGGACAGT-GACATCGAA
1 ATGTGA-TTACATGTAAGACCCTGTGTGGGACAGTCG-CATCGTA
*
55705136 ATGTGATAACATGTAAGACC
1 ATGTGATTACATGTAAGACC
55705156 ATATCTAGGA
Statistics
Matches: 85, Mismatches: 14, Indels: 14
0.75 0.12 0.12
Matches are distributed among these distances:
42 7 0.08
43 72 0.85
44 6 0.07
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.29
Consensus pattern (43 bp):
ATGTGATTACATGTAAGACCCTGTGTGGGACAGTCGCATCGTA
Found at i:55705563 original size:41 final size:41
Alignment explanation
Indices: 55705486--55705564 Score: 106
Period size: 41 Copynumber: 1.9 Consensus size: 41
55705476 TAATAGTGAT
**
55705486 TTCGGGCTTTAAGCCTAGCAAGCATTATGCTGGTGAATGTA
1 TTCGGGCTTTAAGCCTAGCAAGCATTATGCCAGTGAATGTA
* *
55705527 TTCGGGCTTTATGCCTAGCAGGC-TTATTGCCAGTGAAT
1 TTCGGGCTTTAAGCCTAGCAAGCATTA-TGCCAGTGAAT
55705565 ATAAAATCAG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 3 0.09
41 30 0.91
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.33
Consensus pattern (41 bp):
TTCGGGCTTTAAGCCTAGCAAGCATTATGCCAGTGAATGTA
Found at i:55708661 original size:40 final size:40
Alignment explanation
Indices: 55708606--55708855 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
55708596 AACATTGGAA
55708606 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
55708646 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
55708686 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
55708726 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
55708766 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
55708805 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
55708846 CTATATCCGG
1 ATATATCCGG
55708856 TTAAATCCCG
Statistics
Matches: 191, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 2 0.01
40 189 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:55716834 original size:40 final size:40
Alignment explanation
Indices: 55716779--55717028 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
55716769 AACATTGGAA
55716779 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
55716819 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
55716859 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
55716899 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
55716939 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
55716978 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
55717019 CTATATCCGG
1 ATATATCCGG
55717029 TTAAATCCCG
Statistics
Matches: 191, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 2 0.01
40 189 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:55719266 original size:26 final size:26
Alignment explanation
Indices: 55719218--55719269 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
55719208 TAACTCATAA
**
55719218 ATTTCACATTTCACTAATTAGTCCCT
1 ATTTCACATTTCACTAAAAAGTCCCT
55719244 ATTTCACATTTTCA-TAAAAAGTCCCT
1 ATTTCACA-TTTCACTAAAAAGTCCCT
55719270 TAATAAAAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 18 0.78
27 5 0.22
ACGTcount: A:0.31, C:0.25, G:0.04, T:0.40
Consensus pattern (26 bp):
ATTTCACATTTCACTAAAAAGTCCCT
Found at i:55720908 original size:27 final size:27
Alignment explanation
Indices: 55720889--55721061 Score: 258
Period size: 27 Copynumber: 6.4 Consensus size: 27
55720879 ATTACCAAAG
* *
55720889 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCATTT
*
55720916 CACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACCATTT
* *
55720943 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCATTT
* **
55720970 TACCCTCGATTTACAACATTACTGTTT
1 TACCCTCGATTTACAAAATTACCATTT
55720997 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACCATTT
55721024 TACCCTC-AGTTTACAAAATTACCATTT
1 TACCCTCGA-TTTACAAAATTACCATTT
55721051 TACCCTCGATT
1 TACCCTCGATT
55721062 ATGAAATTAC
Statistics
Matches: 130, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
26 1 0.01
27 128 0.98
28 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.06, T:0.38
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCATTT
Found at i:55721122 original size:27 final size:26
Alignment explanation
Indices: 55720875--55721269 Score: 150
Period size: 27 Copynumber: 14.7 Consensus size: 26
55720865 CCTCAATTTG
*
55720875 TAAAATTACCAAAGTACCCTCGATTTA
1 TAAAATTACCAAA-TACCCTCGGTTTA
* * *** *
55720902 CAGAATTACCGTTTCACCCTCGATTTA
1 TAAAATTACCAAAT-ACCCTCGGTTTA
* ** *
55720929 CAAAATTACCATTTTACCCTCGATTTA
1 TAAAATTACCA-AATACCCTCGGTTTA
* ** *
55720956 TAGAATTACCATTTTACCCTCGATTTA
1 TAAAATTACCA-AATACCCTCGGTTTA
* * **** *
55720983 CAACATTACTGTTTTACCCTCGATTTA
1 TAAAATTAC-CAAATACCCTCGGTTTA
* ** *
55721010 CAAAATTACCATTTTACCCTCAGTTTA
1 TAAAATTACCA-AATACCCTCGGTTTA
* ** *
55721037 CAAAATTACCATTTTACCCTC-GATTA
1 TAAAATTACCA-AATACCCTCGGTTTA
* * * *
55721063 TGAAATTACTGAAATACTCC-CAG-TTG
1 TAAAATTAC-CAAATAC-CCTCGGTTTA
*
55721089 TAAAATTACCAAAGTACCCCCGGTTTA
1 TAAAATTACCAAA-TACCCTCGGTTTA
* * *
55721116 TAAAATTACCCAAATATCCTCGATTTG
1 TAAAATTA-CCAAATACCCTCGGTTTA
* *
55721143 TAAAATTACCGAAATACCCTCAGTTTG
1 TAAAATTACC-AAATACCCTCGGTTTA
* * * **
55721170 CAAAATTACTGAAATACCCTCGATCAA
1 TAAAATTAC-CAAATACCCTCGGTTTA
* *
55721197 TAAAATTACCAAAATACCC-CTAGTTTG
1 TAAAATTACC-AAATACCCTC-GGTTTA
* *
55721224 TAAAATTACCAAAATGCCCTTGGTTTA
1 TAAAATTACC-AAATACCCTCGGTTTA
* *
55721251 CAAAATTACCGGAATACCC
1 TAAAATTACC-AAATACCC
55721270 CTATAGGGTA
Statistics
Matches: 293, Mismatches: 59, Indels: 32
0.76 0.15 0.08
Matches are distributed among these distances:
25 5 0.02
26 34 0.12
27 246 0.84
28 8 0.03
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.32
Consensus pattern (26 bp):
TAAAATTACCAAATACCCTCGGTTTA
Found at i:55721151 original size:54 final size:53
Alignment explanation
Indices: 55721086--55721270 Score: 172
Period size: 54 Copynumber: 3.4 Consensus size: 53
55721076 ATACTCCCAG
* * * *
55721086 TTGTAAAATTACCAAAGTACCCCCGGTTTATAAAATTACCCAAATATCCTCGAT
1 TTGTAAAATTACCAAA-TACCCCCAGTTTGTAAAATTACCAAAATACCCTCGAT
* * **
55721140 TTGTAAAATTACCGAAATACCCTCAGTTTGCAAAATTACTGAAATACCCTCGAT
1 TTGTAAAATTACC-AAATACCCCCAGTTTGTAAAATTACCAAAATACCCTCGAT
*** * * * *
55721194 CAATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATGCCCTTGGT
1 TTGTAAAATTACC-AAATACCCCCAGTTTGTAAAATTACCAAAATACCCTCGAT
** *
55721248 TTACAAAATTACCGGAATACCCC
1 TTGTAAAATTACC-AAATACCCC
55721271 TATAGGGTAG
Statistics
Matches: 106, Mismatches: 24, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
54 103 0.97
55 3 0.03
ACGTcount: A:0.38, C:0.24, G:0.10, T:0.28
Consensus pattern (53 bp):
TTGTAAAATTACCAAATACCCCCAGTTTGTAAAATTACCAAAATACCCTCGAT
Found at i:55721284 original size:27 final size:27
Alignment explanation
Indices: 55721254--55721871 Score: 788
Period size: 27 Copynumber: 23.2 Consensus size: 27
55721244 TGGTTTACAA
* *
55721254 AATTACCGGAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
55721281 AATTACCGGAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
55721308 AATTACCGGAATACCCCTGTAGGTTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
55721335 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
55721362 AATAACCGAAAAACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
55721389 AATTACCGAAATACCTCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
55721416 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * ** *
55721443 AATTATCGTAATACCTTTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
55721470 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
55721497 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
55721524 AA-T-------TACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
55721543 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
55721570 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
55721597 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
55721624 AATTACCGAAATACCTCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
55721651 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
55721678 AATTACCGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
55721705 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
55721732 AATTATCGCAATACCTCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
55721759 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** * *
55721786 AATTACTAAAATACCCCTATAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* ** *
55721813 AGTTACTAAAATACCCCTGTAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
55721840 AATTACC-AAGATA-CCTTGTGGGGTAA
1 AATTACCGAA-ATACCCCTGTAGGGTAG
55721866 AATTAC
1 AATTAC
55721872 GATTTTGCCC
Statistics
Matches: 521, Mismatches: 61, Indels: 19
0.87 0.10 0.03
Matches are distributed among these distances:
19 17 0.03
20 1 0.00
26 18 0.03
27 485 0.93
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:55721299 original size:81 final size:81
Alignment explanation
Indices: 55721115--55721269 Score: 204
Period size: 81 Copynumber: 1.9 Consensus size: 81
55721105 CCCCCGGTTT
* * * * *
55721115 ATAAAATTACCCAAATA-TCCTCGATTTGTAAAATTACCGAAATACCCTCAGTTTGCAAAATTAC
1 ATAAAATTACCAAAATACCCCTAG-TTTGTAAAATTACCAAAATACCCTCAGTTTACAAAATTAC
*
55721179 TGAAATACCCTCGATCA
65 CGAAATACCCTCGATCA
* **
55721196 ATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATGCCCTTGGTTTACAAAATTACC
1 ATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTCAGTTTACAAAATTACC
*
55721261 GGAATACCC
66 GAAATACCC
55721270 CTATAGGGTA
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
81 59 0.94
82 4 0.06
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.28
Consensus pattern (81 bp):
ATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTCAGTTTACAAAATTACC
GAAATACCCTCGATCA
Found at i:55721536 original size:19 final size:19
Alignment explanation
Indices: 55721508--55721547 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
55721498 ATTATCGAAA
*
55721508 TACCCTTGTAGGGTAGAAT
1 TACCCCTGTAGGGTAGAAT
55721527 TACCCCTGTAGGGTAGAAT
1 TACCCCTGTAGGGTAGAAT
55721546 TA
1 TA
55721548 TCGCAATACC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (19 bp):
TACCCCTGTAGGGTAGAAT
Found at i:55722350 original size:22 final size:21
Alignment explanation
Indices: 55722301--55722362 Score: 70
Period size: 22 Copynumber: 2.9 Consensus size: 21
55722291 AAGCCTTCTA
* *
55722301 ATTATGGCTTTGTGTCAACCT
1 ATTATGGCTCTGTGCCAACCT
*
55722322 ACATATGGCTCTGTGCCAACCT
1 A-TTATGGCTCTGTGCCAACCT
*
55722344 GATTATGGCTGTGTGCCAA
1 -ATTATGGCTCTGTGCCAA
55722363 ACGTATTTGC
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
21 1 0.03
22 32 0.94
23 1 0.03
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.34
Consensus pattern (21 bp):
ATTATGGCTCTGTGCCAACCT
Found at i:55722550 original size:27 final size:27
Alignment explanation
Indices: 55722520--55722621 Score: 116
Period size: 27 Copynumber: 3.8 Consensus size: 27
55722510 ATTCTGTTAA
* *
55722520 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
55722547 GTGGCTATGCCACAAATATCTG-TTCTG
1 GTGGCTATGCCAC-AATATCTGTTTCTG
* *
55722574 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
* * **
55722601 GTGACTCTATCACAATATCTG
1 GTGGCTATGCCACAATATCTG
55722622 ATAACTGAGC
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
26 8 0.12
27 51 0.77
28 7 0.11
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.36
Consensus pattern (27 bp):
GTGGCTATGCCACAATATCTGTTTCTG
Found at i:55722615 original size:54 final size:53
Alignment explanation
Indices: 55722520--55722621 Score: 132
Period size: 54 Copynumber: 1.9 Consensus size: 53
55722510 ATTCTGTTAA
* * * * *
55722520 GTGGCTTTGCCACATTATCTGTTTCTGGTGGCTATGCCACAAATATCTGTTCTG
1 GTGGCTCTGCCACAATATCTGTATCTGGTGACTATACCAC-AATATCTGTTCTG
* *
55722574 GTGGCTCTGCCACAATATCTGTATCTGGTGACTCTATCACAATATCTG
1 GTGGCTCTGCCACAATATCTGTATCTGGTGACTATACCACAATATCTG
55722622 ATAACTGAGC
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
53 8 0.20
54 33 0.80
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.36
Consensus pattern (53 bp):
GTGGCTCTGCCACAATATCTGTATCTGGTGACTATACCACAATATCTGTTCTG
Found at i:55722791 original size:31 final size:31
Alignment explanation
Indices: 55722753--55722831 Score: 122
Period size: 31 Copynumber: 2.5 Consensus size: 31
55722743 TTGTATTCAC
**
55722753 ATTCTGATTTTGATTCTGTTACCTGATACCG
1 ATTCTGATTTTGATTCTGTTACCTGATACAA
55722784 ATTCTGATTTTGATTCTGTTACCTGATACAA
1 ATTCTGATTTTGATTCTGTTACCTGATACAA
* *
55722815 ATTCTTATTCTGATTCT
1 ATTCTGATTTTGATTCT
55722832 AATTCTAGTT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.22, C:0.18, G:0.13, T:0.48
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACAA
Found at i:55735969 original size:26 final size:26
Alignment explanation
Indices: 55735910--55735962 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
55735900 AAGACGAAAG
*
55735910 CCAAGGAATTAGGTATTCCATTCGGT
1 CCAATGAATTAGGTATTCCATTCGGT
55735936 CCAATGAATTAGGTATTCCATTCGGT
1 CCAATGAATTAGGTATTCCATTCGGT
55735962 C
1 C
55735963 ACTTGAAATC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (26 bp):
CCAATGAATTAGGTATTCCATTCGGT
Found at i:55747310 original size:43 final size:43
Alignment explanation
Indices: 55747247--55747332 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 43
55747237 GAGATATGTG
* * * *
55747247 GCATCTGAGCTCGTTGAGTGGTCTGAGTTCATTATGGATGCGA
1 GCATCCGAGCTCGTTAAGTGGTCCGAGTTCATTATAGATGCGA
*
55747290 GCATCCGAGCTCGTTAAGTGGTCCGAGTTTATTATAGATGCGA
1 GCATCCGAGCTCGTTAAGTGGTCCGAGTTCATTATAGATGCGA
55747333 TGCCTGTAAC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.21, C:0.17, G:0.30, T:0.31
Consensus pattern (43 bp):
GCATCCGAGCTCGTTAAGTGGTCCGAGTTCATTATAGATGCGA
Found at i:55748669 original size:12 final size:13
Alignment explanation
Indices: 55748644--55748672 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
55748634 GTCCCTATAC
55748644 ATGTTGGCTCAAA
1 ATGTTGGCTCAAA
55748657 ATGTTGG-TCAAA
1 ATGTTGGCTCAAA
55748669 ATGT
1 ATGT
55748673 GTTCTTATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.31, C:0.10, G:0.24, T:0.34
Consensus pattern (13 bp):
ATGTTGGCTCAAA
Done.