Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold278
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: 1156311
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 38162 characters in sequence are not A, C, G, or T
File 2 of 4
Found at i:414562 original size:15 final size:14
Alignment explanation
Indices: 414518--414564 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
414508 CAACAAAAAC
414518 AGAAAAAAA-AGAA
1 AGAAAAAAAGAGAA
*
414531 A-ACAAAAAAGAGGA
1 AGA-AAAAAAGAGAA
414545 AGAAAAAAAGAGACA
1 AGAAAAAAAGAGA-A
414560 AGAAA
1 AGAAA
414565 GATTGATGAC
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
12 1 0.04
13 7 0.25
14 13 0.46
15 7 0.25
ACGTcount: A:0.77, C:0.04, G:0.19, T:0.00
Consensus pattern (14 bp):
AGAAAAAAAGAGAA
Found at i:417275 original size:20 final size:21
Alignment explanation
Indices: 417250--417289 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
417240 CGGTCAATAA
417250 TTAAGT-CTTTGTATATGTGG
1 TTAAGTACTTTGTATATGTGG
*
417270 TTAAGTACTTTGTTTATGTG
1 TTAAGTACTTTGTATATGTG
417290 TATGAGATCG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.20, C:0.05, G:0.23, T:0.53
Consensus pattern (21 bp):
TTAAGTACTTTGTATATGTGG
Found at i:423687 original size:875 final size:875
Alignment explanation
Indices: 421997--423746 Score: 3482
Period size: 875 Copynumber: 2.0 Consensus size: 875
421987 CGAGCTTGAG
*
421997 AACTCAAGTTCTGACCGTTTTAGTGAGGACCAAAATTTATGGATGGGATTATGATAAGAATTACA
1 AACTCAAGTTCTAACCGTTTTAGTGAGGACCAAAATTTATGGATGGGATTATGATAAGAATTACA
422062 AGTTACAAGCTTTTAATTCGAGTTTAAATCATATTGGGTTCGGGTTTTAGGCTTAATTTTTATTA
66 AGTTACAAGCTTTTAATTCGAGTTTAAATCATATTGGGTTCGGGTTTTAGGCTTAATTTTTATTA
422127 TATATGAGCTCAATATTGTATTTATCAGCTATTCTTATTTTATTATTATTTTATTCTAAATTTTT
131 TATATGAGCTCAATATTGTATTTATCAGCTATTCTTATTTTATTATTATTTTATTCTAAATTTTT
422192 TATAATTATTAAGTATTTTAAGTTATTTAGGAGTTTTATGTCAATAGGAAAATTTAGTTTAAAAC
196 TATAATTATTAAGTATTTTAAGTTATTTAGGAGTTTTATGTCAATAGGAAAATTTAGTTTAAAAC
*
422257 TACTTATTATTTTGGTAAATTAGAGTTCTAGTATACTTAAGAGTTTTATTTAAATTTATTTAGCT
261 TACTTATAATTTTGGTAAATTAGAGTTCTAGTATACTTAAGAGTTTTATTTAAATTTATTTAGCT
422322 AGCCTATATAAATTCTTTTACATTTTACAAAAAAAAAACAATTTATCATTATTCAATTTCTCTTT
326 AGCCTATATAAATTCTTTTACATTTTACAAAAAAAAAACAATTTATCATTATTCAATTTCTCTTT
422387 TGAGTTAATAAGTTCTCTTTGAGTTTTTGTTTCAAGAATTTCTCTTGAGTATTCTTTTAGAAGAG
391 TGAGTTAATAAGTTCTCTTTGAGTTTTTGTTTCAAGAATTTCTCTTGAGTATTCTTTTAGAAGAG
422452 TTTTAACAATGTTTTCAATTCATTGGGATCATCTTCAATGTAACAACCTGTTTTCAATAATACCA
456 TTTTAACAATGTTTTCAATTCATTGGGATCATCTTCAATGTAACAACCTGTTTTCAATAATACCA
422517 AAAACAGTGGTTCGAAACGATAATTTCGATGAGTGAGTTATTATTTTATTATTTATTTAGTGTCT
521 AAAACAGTGGTTCGAAACGATAATTTCGATGAGTGAGTTATTATTTTATTATTTATTTAGTGTCT
422582 TTGGGATATTATTAAGGTCGTATTAAGGTTTCGTTAAGAAATTTTGATGTTTGAATGGTTAATTA
586 TTGGGATATTATTAAGGTCGTATTAAGGTTTCGTTAAGAAATTTTGATGTTTGAATGGTTAATTA
422647 GGTAAAAAAGACTAAATTGTAAAAGATGTAAAAGTTGAATTCTATTAGTTAAAGGGGCTAAATGA
651 GGTAAAAAAGACTAAATTGTAAAAGATGTAAAAGTTGAATTCTATTAGTTAAAGGGGCTAAATGA
422712 TTATGGAAAGGAATTGTAACACCCCAAACCCAACCTAGACGTTATGGCCGAATCCGGAGATGTCA
716 TTATGGAAAGGAATTGTAACACCCCAAACCCAACCTAGACGTTATGGCCGAATCCGGAGATGTCA
422777 CAAAGATGGGTTTTGAAAACAGATTCGTTTTGATAAGTCATTTCAGCTTAAAAACTCAAATTCGT
781 CAAAGATGGGTTTTGAAAACAGATTCGTTTTGATAAGTCATTTCAGCTTAAAAACTCAAATTCGT
422842 TTTATACCTGTTGTCGAAAACGTTATTTAA
846 TTTATACCTGTTGTCGAAAACGTTATTTAA
422872 AACTCAAGTTCTAACCGTTTTAGTGAGGACCAAAATTTATGGATGGGATTATGATAAGAATTACA
1 AACTCAAGTTCTAACCGTTTTAGTGAGGACCAAAATTTATGGATGGGATTATGATAAGAATTACA
422937 AGTTACAAGCTTTTAATTCGAGTTTAAATCATATTGGGTTCGGGTTTTAGGCTTAATTTTTATTA
66 AGTTACAAGCTTTTAATTCGAGTTTAAATCATATTGGGTTCGGGTTTTAGGCTTAATTTTTATTA
423002 TATATGAGCTCAATATTGTATTTATCAGCTATTCTTATTTTATTATTATTTTATTCTAAATTTTT
131 TATATGAGCTCAATATTGTATTTATCAGCTATTCTTATTTTATTATTATTTTATTCTAAATTTTT
423067 TATAATTATTAAGTATTTTAAGTTATTTAGGAGTTTTATGTCAATAGGAAAATTTAGTTTAAAAC
196 TATAATTATTAAGTATTTTAAGTTATTTAGGAGTTTTATGTCAATAGGAAAATTTAGTTTAAAAC
423132 TACTTATAATTTTGGTAAATTAGAGTTCTAGTATACTTAAGAGTTTTATTTAAATTTATTTAGCT
261 TACTTATAATTTTGGTAAATTAGAGTTCTAGTATACTTAAGAGTTTTATTTAAATTTATTTAGCT
423197 AGCCTATATAAATTCTTTTACATTTTACAAAAAAAAAACAATTTATCATTATTCAATTTCTCTTT
326 AGCCTATATAAATTCTTTTACATTTTACAAAAAAAAAACAATTTATCATTATTCAATTTCTCTTT
423262 TGAGTTAATAAGTTCTCTTTGAGTTTTTGTTTCAAGAATTTCTCTTGAGTATTCTTTTAGAAGAG
391 TGAGTTAATAAGTTCTCTTTGAGTTTTTGTTTCAAGAATTTCTCTTGAGTATTCTTTTAGAAGAG
423327 TTTTAACAATGTTTTCAATTCATTGGGATCATCTTCAATGTAACAACCTGTTTTCAATAATACCA
456 TTTTAACAATGTTTTCAATTCATTGGGATCATCTTCAATGTAACAACCTGTTTTCAATAATACCA
423392 AAAACAGTGGTTCGAAACGATAATTTCGATGAGTGAGTTATTATTTTATTATTTATTTAGTGTCT
521 AAAACAGTGGTTCGAAACGATAATTTCGATGAGTGAGTTATTATTTTATTATTTATTTAGTGTCT
423457 TTGGGATATTATTAAGGTCGTATTAAGGTTTCGTTAAGAAATTTTGATGTTTGAATGGTTAATTA
586 TTGGGATATTATTAAGGTCGTATTAAGGTTTCGTTAAGAAATTTTGATGTTTGAATGGTTAATTA
423522 GGTAAAAAAGACTAAATTGTAAAAGATGTAAAAGTTGAATTCTATTAGTTAAAGGGGCTAAATGA
651 GGTAAAAAAGACTAAATTGTAAAAGATGTAAAAGTTGAATTCTATTAGTTAAAGGGGCTAAATGA
423587 TTATGGAAAGGAATTGTAACACCCCAAACCCAACCTAGACGTTATGGCCGAATCCGGAGATGTCA
716 TTATGGAAAGGAATTGTAACACCCCAAACCCAACCTAGACGTTATGGCCGAATCCGGAGATGTCA
423652 CAAAGATGGGTTTTGAAAACAGATTCGTTTTGATAAGTCATTTCAGCTTAAAAACTCAAATTCGT
781 CAAAGATGGGTTTTGAAAACAGATTCGTTTTGATAAGTCATTTCAGCTTAAAAACTCAAATTCGT
423717 TTTATACCTGTTGTCGAAAACGTTATTTAA
846 TTTATACCTGTTGTCGAAAACGTTATTTAA
423747 TTGATTTGTT
Statistics
Matches: 873, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
875 873 1.00
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.41
Consensus pattern (875 bp):
AACTCAAGTTCTAACCGTTTTAGTGAGGACCAAAATTTATGGATGGGATTATGATAAGAATTACA
AGTTACAAGCTTTTAATTCGAGTTTAAATCATATTGGGTTCGGGTTTTAGGCTTAATTTTTATTA
TATATGAGCTCAATATTGTATTTATCAGCTATTCTTATTTTATTATTATTTTATTCTAAATTTTT
TATAATTATTAAGTATTTTAAGTTATTTAGGAGTTTTATGTCAATAGGAAAATTTAGTTTAAAAC
TACTTATAATTTTGGTAAATTAGAGTTCTAGTATACTTAAGAGTTTTATTTAAATTTATTTAGCT
AGCCTATATAAATTCTTTTACATTTTACAAAAAAAAAACAATTTATCATTATTCAATTTCTCTTT
TGAGTTAATAAGTTCTCTTTGAGTTTTTGTTTCAAGAATTTCTCTTGAGTATTCTTTTAGAAGAG
TTTTAACAATGTTTTCAATTCATTGGGATCATCTTCAATGTAACAACCTGTTTTCAATAATACCA
AAAACAGTGGTTCGAAACGATAATTTCGATGAGTGAGTTATTATTTTATTATTTATTTAGTGTCT
TTGGGATATTATTAAGGTCGTATTAAGGTTTCGTTAAGAAATTTTGATGTTTGAATGGTTAATTA
GGTAAAAAAGACTAAATTGTAAAAGATGTAAAAGTTGAATTCTATTAGTTAAAGGGGCTAAATGA
TTATGGAAAGGAATTGTAACACCCCAAACCCAACCTAGACGTTATGGCCGAATCCGGAGATGTCA
CAAAGATGGGTTTTGAAAACAGATTCGTTTTGATAAGTCATTTCAGCTTAAAAACTCAAATTCGT
TTTATACCTGTTGTCGAAAACGTTATTTAA
Found at i:428549 original size:40 final size:40
Alignment explanation
Indices: 428492--428631 Score: 190
Period size: 40 Copynumber: 3.5 Consensus size: 40
428482 AATTATTGAA
* *
428492 TGATTGCACATACGTGCCCCTATTTGTACTTTGGTAACCC
1 TGATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
* *
428532 TAATTGCACATACGTGCCCCTATTTGTACTTCAGTACCCC
1 TGATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
* ** *
428572 TGATTGCAGATACGTGCCCCTGCTTGTACTTCGGCACCCC
1 TGATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
* *
428612 TGATTTCACATACGTACCCC
1 TGATTGCACATACGTGCCCC
428632 AGATCGTATA
Statistics
Matches: 87, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 87 1.00
ACGTcount: A:0.20, C:0.32, G:0.16, T:0.31
Consensus pattern (40 bp):
TGATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
Found at i:428552 original size:20 final size:20
Alignment explanation
Indices: 428494--428592 Score: 65
Period size: 20 Copynumber: 5.0 Consensus size: 20
428484 TTATTGAATG
428494 ATTGCACATACGTGCCCCTA
1 ATTGCACATACGTGCCCCTA
* * * ** **
428514 TTTGTACTTTGGTAACCCTA
1 ATTGCACATACGTGCCCCTA
428534 ATTGCACATACGTGCCCCTA
1 ATTGCACATACGTGCCCCTA
* * * * *
428554 TTTGTAC-TTCAGTACCCCTG
1 ATTGCACATAC-GTGCCCCTA
*
428574 ATTGCAGATACGTGCCCCT
1 ATTGCACATACGTGCCCCT
428593 GCTTGTACTT
Statistics
Matches: 53, Mismatches: 24, Indels: 4
0.65 0.30 0.05
Matches are distributed among these distances:
19 2 0.04
20 49 0.92
21 2 0.04
ACGTcount: A:0.21, C:0.30, G:0.16, T:0.32
Consensus pattern (20 bp):
ATTGCACATACGTGCCCCTA
Found at i:428652 original size:80 final size:80
Alignment explanation
Indices: 428492--428653 Score: 175
Period size: 80 Copynumber: 2.0 Consensus size: 80
428482 AATTATTGAA
* * * * * *
428492 TGATTGCACATACGTGCCCCTATTTGTACTTTGGTAACCCTAATTGCACATACGTGCCCCTATTT
1 TGATTGCACATACGTGCCCCTACTTGTACTTCGGCAACCCTAATTGCACATACGTACCCCTAATC
*
428557 GTACTTCAGTACCCC
66 GTACTACAGTACCCC
* * * * *
428572 TGATTGCAGATACGTGCCCCTGCTTGTACTTCGGCACCCCTGATTTCACATACGTACCCC-AGAT
1 TGATTGCACATACGTGCCCCTACTTGTACTTCGGCAACCCTAATTGCACATACGTACCCCTA-AT
*
428636 CGTA-TACACGTGCCCC
65 CGTACTACA-GTACCCC
428652 TG
1 TG
428654 TTTGTACTTC
Statistics
Matches: 67, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
79 4 0.06
80 63 0.94
ACGTcount: A:0.20, C:0.32, G:0.17, T:0.30
Consensus pattern (80 bp):
TGATTGCACATACGTGCCCCTACTTGTACTTCGGCAACCCTAATTGCACATACGTACCCCTAATC
GTACTACAGTACCCC
Found at i:430143 original size:10 final size:10
Alignment explanation
Indices: 430128--430152 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
430118 TAAGAAAACA
430128 TGAAAATTTT
1 TGAAAATTTT
430138 TGAAAATTTT
1 TGAAAATTTT
430148 TGAAA
1 TGAAA
430153 CAGGGGTCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (10 bp):
TGAAAATTTT
Found at i:430662 original size:45 final size:44
Alignment explanation
Indices: 430613--430793 Score: 148
Period size: 45 Copynumber: 4.0 Consensus size: 44
430603 CTTCTAACCC
* *
430613 TGGTCTTATACATTCCTGAACTAGTGCCATAGTATCTTTCAACTA
1 TGGTCTTATACATT-CTGAATTAATGCCATAGTATCTTTCAACTA
** * * *
430658 TGGTCTTATTTGTATT-GGATTTAATGCCATAGTATCTTTCAACCA
1 TGGTCTTA--TACATTCTGAATTAATGCCATAGTATCTTTCAACTA
* * * * *
430703 TGGTCTTATATATTTTCGGATTAGTGCCATCGTATCTTTCAACTA
1 TGGTCTTATACATTCT-GAATTAATGCCATAGTATCTTTCAACTA
* * * * ** *
430748 TAGTCTTATTCACTCCGGTTTAATGCCATAATATCTTTCAACTA
1 TGGTCTTATACATTCTGAATTAATGCCATAGTATCTTTCAACTA
430792 TG
1 TG
430794 ATATTTCTCA
Statistics
Matches: 107, Mismatches: 25, Indels: 9
0.76 0.18 0.06
Matches are distributed among these distances:
43 5 0.05
44 25 0.23
45 73 0.68
47 4 0.04
ACGTcount: A:0.25, C:0.19, G:0.14, T:0.42
Consensus pattern (44 bp):
TGGTCTTATACATTCTGAATTAATGCCATAGTATCTTTCAACTA
Found at i:432536 original size:42 final size:41
Alignment explanation
Indices: 432471--432783 Score: 385
Period size: 42 Copynumber: 7.4 Consensus size: 41
432461 GCATTTACAG
* *
432471 AAAAAAACGCCACTAAAGGTCATGTTCTTTAGCGGCGCTTA
1 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTA
*
432512 ATAAAAAACACCGCTAAAGATCATGTTCTTTAGCGGCGCTTAA
1 A-AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT-A
* *
432555 AAAAAAGACGCCGCTTAAGATCATGTTCTTTAGCGGCACTTA
1 AAAAAA-ACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTA
* *
432597 GAAAAAAATGCCGCTAAAGATTATGTTCTTTAGCGGCGCTTA
1 -AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTA
*
432639 AAAAAAGACGTCGCTAAAGATCATGTTCTTTAGCGGCGCTTA
1 AAAAAA-ACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTA
*
432681 AATAGAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTCA
1 AA-AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGC-TT-A
** * *
432725 TCACAAACGCCGCTAAA-AGTAATGTTCTTTAGCGGCGCTTTTA
1 AAAAAAACGCCGCTAAAGA-TCATGTTCTTTAGCGGCGC--TTA
* *
432768 TAAAAAACGCCACTAA
1 AAAAAAACGCCGCTAA
432784 TTTTGGAATT
Statistics
Matches: 240, Mismatches: 22, Indels: 18
0.86 0.08 0.06
Matches are distributed among these distances:
41 7 0.03
42 139 0.58
43 90 0.38
44 4 0.02
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (41 bp):
AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTA
Found at i:432668 original size:84 final size:84
Alignment explanation
Indices: 432471--432783 Score: 391
Period size: 85 Copynumber: 3.7 Consensus size: 84
432461 GCATTTACAG
* * *
432471 AAAAAA-ACGCCACTAAAGGTCATGTTCTTTAGCGGCGCTTAATAAAAAACACCGCTAAAGATCA
1 AAAAAAGACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAA-AAAAAACGCCGCTAAAGATCA
432535 TGTTCTTTAGCGGCGCTTAA
65 TGTTCTTTAGCGGCGCTTAA
* * * *
432555 AAAAAAGACGCCGCTTAAGATCATGTTCTTTAGCGGCACTTAGAAAAAAATGCCGCTAAAGATTA
1 AAAAAAGACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTA-AAAAAAACGCCGCTAAAGATCA
432620 TGTTCTTTAGCGGCGCTT-A
65 TGTTCTTTAGCGGCGCTTAA
* *
432639 AAAAAAGACGTCGCTAAAGATCATGTTCTTTAGCGGCGCTTAAATAGAAACGCCGCTAAAGATCA
1 AAAAAAGACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAAA-AAAAACGCCGCTAAAGATCA
*
432704 TGTTCTTTAGCGGCGCTTTCA
65 TGTTCTTTAGCGGCGC-TTAA
** * * * *
432725 TCACAA-ACGCCGCTAAA-AGTAATGTTCTTTAGCGGCGCTTTTATAAAAAACGCCACTAA
1 AAAAAAGACGCCGCTAAAGA-TCATGTTCTTTAGCGGCGC--TTAAAAAAAACGCCGCTAA
432784 TTTTGGAATT
Statistics
Matches: 200, Mismatches: 21, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
83 2 0.01
84 80 0.40
85 97 0.49
86 17 0.09
87 4 0.02
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (84 bp):
AAAAAAGACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAAAAAAAACGCCGCTAAAGATCAT
GTTCTTTAGCGGCGCTTAA
Found at i:432737 original size:127 final size:127
Alignment explanation
Indices: 432471--432775 Score: 409
Period size: 127 Copynumber: 2.4 Consensus size: 127
432461 GCATTTACAG
* * *
432471 AAAAAAACGCCACTAAAGGTCATGTTCTTTAGCGGCGCTTAATAAAAAACACCGCTAAAGATCAT
1 AAAAAAACGCCGCTAAAGATAATGTTCTTTAGCGGCGCTTAATAAAAAACACCGCTAAAGATCAT
* *
432536 GTTCTTTAGCGGCGCTTAAAAAAAAGACGCCGCTTAAGATCATGTTCTTTAGCGGCACTTAG
66 GTTCTTTAGCGGCGCTTAAAAAAAAGACGCCGCTAAAGATCATGTTCTTTAGCGGCACTTAC
* * **
432598 AAAAAAATGCCGCTAAAGATTATGTTCTTTAGCGGCGCTTAA-AAAAAGACGTCGCTAAAGATCA
1 AAAAAAACGCCGCTAAAGATAATGTTCTTTAGCGGCGCTTAATAAAAA-ACACCGCTAAAGATCA
* * * *
432662 TGTTCTTTAGCGGCGCTTAAATAGAA-ACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTC
65 TGTTCTTTAGCGGCGCTTAAAAAAAAGACGCCGCTAAAGATCATGTTCTTTAGCGGCACTTAC
* * *
432724 ATCACAAACGCCGCTAAA-AGTAATGTTCTTTAGCGGCGCTTTTATAAAAAAC
1 A-AAAAAACGCCGCTAAAGA-TAATGTTCTTTAGCGGCGC-TTAATAAAAAAC
432776 GCCACTAATT
Statistics
Matches: 156, Mismatches: 17, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
126 39 0.25
127 107 0.69
128 5 0.03
129 5 0.03
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.27
Consensus pattern (127 bp):
AAAAAAACGCCGCTAAAGATAATGTTCTTTAGCGGCGCTTAATAAAAAACACCGCTAAAGATCAT
GTTCTTTAGCGGCGCTTAAAAAAAAGACGCCGCTAAAGATCATGTTCTTTAGCGGCACTTAC
Found at i:433220 original size:21 final size:21
Alignment explanation
Indices: 433167--433235 Score: 86
Period size: 21 Copynumber: 3.3 Consensus size: 21
433157 GCTTCTCTCG
*
433167 CTGCTTCTCGCGCTGCAGCCT
1 CTGCTTCTCTCGCTGCAGCCT
*
433188 TTGCTTCTCTCGCTGCAGCCT
1 CTGCTTCTCTCGCTGCAGCCT
* *
433209 CTGCTTCCCTCGTTGCCA-CCT
1 CTGCTTCTCTCGCTG-CAGCCT
433230 CTGCTT
1 CTGCTT
433236 TAAGTTGTAG
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
21 40 0.95
22 2 0.05
ACGTcount: A:0.04, C:0.42, G:0.19, T:0.35
Consensus pattern (21 bp):
CTGCTTCTCTCGCTGCAGCCT
Found at i:438639 original size:9 final size:9
Alignment explanation
Indices: 438622--438902 Score: 232
Period size: 9 Copynumber: 32.3 Consensus size: 9
438612 TATGTATTAA
*
438622 GTAAATTAT
1 GTAAGTTAT
438631 GTAAGTTAT
1 GTAAGTTAT
*
438640 GTATGTGTAT
1 GTAAGT-TAT
438650 GT-A-TTAT
1 GTAAGTTAT
438657 GTAAGTTAT
1 GTAAGTTAT
*
438666 GT-A-TTAA
1 GTAAGTTAT
*
438673 GTAAGCTAT
1 GTAAGTTAT
*
438682 GTAAGTTGT
1 GTAAGTTAT
438691 GT-A-TTAT
1 GTAAGTTAT
438698 GTAAGTTAT
1 GTAAGTTAT
438707 GT-AGTTAT
1 GTAAGTTAT
** *
438715 CAAAGTAAT
1 GTAAGTTAT
*
438724 GTATGTTAT
1 GTAAGTTAT
438733 GTAAG-T-T
1 GTAAGTTAT
438740 GTAAGTTAT
1 GTAAGTTAT
438749 GTAAGTTAT
1 GTAAGTTAT
438758 GTAAGTTAAAT
1 GTAAGTT--AT
438769 GT-A-TTAT
1 GTAAGTTAT
*
438776 GTAGGTTAT
1 GTAAGTTAT
*
438785 GTAAGTTGT
1 GTAAGTTAT
*
438794 GTAAGATAT
1 GTAAGTTAT
*
438803 TTAAGTTAT
1 GTAAGTTAT
*
438812 GTAAGTTTT
1 GTAAGTTAT
438821 GT-A-TTAT
1 GTAAGTTAT
438828 GTAAGTTAT
1 GTAAGTTAT
*
438837 TTAAGTTAAAT
1 GTAAGTT--AT
438848 GT-A-TTAT
1 GTAAGTTAT
*
438855 GTAGGTTAT
1 GTAAGTTAT
*
438864 GTAAGTTGT
1 GTAAGTTAT
* *
438873 CTAAGATAT
1 GTAAGTTAT
*
438882 TTAAGTTAT
1 GTAAGTTAT
438891 GTAAGTTAT
1 GTAAGTTAT
438900 GTA
1 GTA
438903 TACATAATTA
Statistics
Matches: 214, Mismatches: 38, Indels: 40
0.73 0.13 0.14
Matches are distributed among these distances:
7 34 0.16
8 16 0.07
9 150 0.70
10 7 0.03
11 7 0.03
ACGTcount: A:0.32, C:0.01, G:0.21, T:0.46
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:438677 original size:16 final size:16
Alignment explanation
Indices: 438611--438684 Score: 76
Period size: 16 Copynumber: 4.4 Consensus size: 16
438601 TGATATATAT
*
438611 TTATGTATTAAGTAAA
1 TTATGTATTAAGTAAG
* *
438627 TTATGTAAGTTATGTATG
1 TTATGT-A-TTAAGTAAG
*
438645 TGTATGTATTATGTAAG
1 T-TATGTATTAAGTAAG
438662 TTATGTATTAAGTAAG
1 TTATGTATTAAGTAAG
*
438678 CTATGTA
1 TTATGTA
438685 AGTTGTGTAT
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
16 26 0.53
17 10 0.20
18 8 0.16
19 5 0.10
ACGTcount: A:0.34, C:0.01, G:0.19, T:0.46
Consensus pattern (16 bp):
TTATGTATTAAGTAAG
Found at i:438698 original size:16 final size:17
Alignment explanation
Indices: 438679--438796 Score: 91
Period size: 16 Copynumber: 6.9 Consensus size: 17
438669 TTAAGTAAGC
438679 TATGTAAGTTGTGTA-T
1 TATGTAAGTTGTGTAGT
*
438695 TATGTAAGTTATGTAGT
1 TATGTAAGTTGTGTAGT
** **
438712 TATCAAAGTAATGTATGT
1 TATGTAAGTTGTGTA-GT
*
438730 TATGTAAGTTGT-AAGT
1 TATGTAAGTTGTGTAGT
*
438746 TATGTAAGTTATGTAAGT
1 TATGTAAGTTGTGT-AGT
*
438764 TAAATGT-A-TTATGTAGGT
1 T--ATGTAAGTTGTGTA-GT
438782 TATGTAAGTTGTGTA
1 TATGTAAGTTGTGTA
438797 AGATATTTAA
Statistics
Matches: 81, Mismatches: 12, Indels: 16
0.74 0.11 0.15
Matches are distributed among these distances:
16 31 0.38
17 16 0.20
18 29 0.36
19 1 0.01
20 4 0.05
ACGTcount: A:0.31, C:0.01, G:0.23, T:0.45
Consensus pattern (17 bp):
TATGTAAGTTGTGTAGT
Found at i:438830 original size:79 final size:79
Alignment explanation
Indices: 438653--438903 Score: 334
Period size: 79 Copynumber: 3.2 Consensus size: 79
438643 TGTGTATGTA
* * * * *
438653 TTATGTAAGTTATGTATTAAGTAAGCTATGTAAGTT--GTGTATTATGTAAGTTATGT-AGTTAT
1 TTATGTAAGTTATGTATTATGTAAGTTATGTAAGTTAAATGTATTATGTAGGTTATGTAAGTTGT
* * *
438715 CAAAG-TAATGTATG
66 CTAAGAT-ATTTAAG
438729 TTATGTAAG-T-TGTAAGTTATGTAAGTTATGTAAGTTAAATGTATTATGTAGGTTATGTAAGTT
1 TTATGTAAGTTATGT-A-TTATGTAAGTTATGTAAGTTAAATGTATTATGTAGGTTATGTAAGTT
*
438792 GTGTAAGATATTTAAG
64 GTCTAAGATATTTAAG
* *
438808 TTATGTAAGTTTTGTATTATGTAAGTTATTTAAGTTAAATGTATTATGTAGGTTATGTAAGTTGT
1 TTATGTAAGTTATGTATTATGTAAGTTATGTAAGTTAAATGTATTATGTAGGTTATGTAAGTTGT
438873 CTAAGATATTTAAG
66 CTAAGATATTTAAG
438887 TTATGTAAGTTATGTAT
1 TTATGTAAGTTATGTAT
438904 ACATAATTAA
Statistics
Matches: 155, Mismatches: 12, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
74 3 0.02
75 2 0.01
76 27 0.17
78 18 0.12
79 99 0.64
80 3 0.02
81 3 0.02
ACGTcount: A:0.32, C:0.01, G:0.21, T:0.46
Consensus pattern (79 bp):
TTATGTAAGTTATGTATTATGTAAGTTATGTAAGTTAAATGTATTATGTAGGTTATGTAAGTTGT
CTAAGATATTTAAG
Found at i:441083 original size:103 final size:102
Alignment explanation
Indices: 440931--441138 Score: 344
Period size: 103 Copynumber: 2.0 Consensus size: 102
440921 CCATAATCCT
* * * *
440931 AACCCTAAAATATAAATTTTAAACCCTAACCATATGCTCTCTTAACCCATATACCCTATTCCCGT
1 AACCCTAAAATATAAAATTTAAACCCTAACCATATGCCCTCTTAACCCATATACCCTATGCCCAT
*
440996 ATTAATCCCAAAACTCTAAGCTATTACCTAAACCCTA
66 ATTAATCCCAAAACTCTAAGCTACTACCTAAACCCTA
441033 AACCCTAAAATATAAAATTTAAACCCTAAACCATATGCCCTCTTAACCCATATACCCTATGCCCA
1 AACCCTAAAATATAAAATTTAAACCCT-AACCATATGCCCTCTTAACCCATATACCCTATGCCCA
* *
441098 TATTAATCCCTAAACTCTAAGCTACTAGCTAAACCCTA
65 TATTAATCCCAAAACTCTAAGCTACTACCTAAACCCTA
441136 AAC
1 AAC
441139 AATAAACAAT
Statistics
Matches: 98, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
102 26 0.27
103 72 0.73
ACGTcount: A:0.38, C:0.31, G:0.03, T:0.27
Consensus pattern (102 bp):
AACCCTAAAATATAAAATTTAAACCCTAACCATATGCCCTCTTAACCCATATACCCTATGCCCAT
ATTAATCCCAAAACTCTAAGCTACTACCTAAACCCTA
Found at i:441167 original size:103 final size:102
Alignment explanation
Indices: 440936--441167 Score: 304
Period size: 103 Copynumber: 2.3 Consensus size: 102
440926 ATCCTAACCC
*** * * * *
440936 TAAAATATAAATTTTAAACCCTAACCATATGCTCTCTTAACCCATATACCCTATTCCCGTATTAA
1 TAAAATATAAAAACTAAACCCAAACCATATGCCCTCTTAACCCATATACCCTATGCCCATATTAA
* **
441001 TCCCAAAACTCTAAGCTATTACCTAAACCCTAAACCC
66 TCCCAAAACTCTAAGCTACTACCTAAACCCTAAACAA
**
441038 TAAAATATAAAATTTAAACCCTAAACCATATGCCCTCTTAACCCATATACCCTATGCCCATATTA
1 TAAAATATAAAAACTAAACCC-AAACCATATGCCCTCTTAACCCATATACCCTATGCCCATATTA
* *
441103 ATCCCTAAACTCTAAGCTACTAGCTAAACCCTAAACAA
65 ATCCCAAAACTCTAAGCTACTACCTAAACCCTAAACAA
441141 TAAACA-ATAAAAACTAAACCACAAACC
1 TAAA-ATATAAAAACTAAACC-CAAACC
441168 CACAGCCTAC
Statistics
Matches: 115, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
102 20 0.17
103 93 0.81
104 2 0.02
ACGTcount: A:0.42, C:0.29, G:0.03, T:0.26
Consensus pattern (102 bp):
TAAAATATAAAAACTAAACCCAAACCATATGCCCTCTTAACCCATATACCCTATGCCCATATTAA
TCCCAAAACTCTAAGCTACTACCTAAACCCTAAACAA
Found at i:441204 original size:14 final size:14
Alignment explanation
Indices: 441126--441341 Score: 68
Period size: 14 Copynumber: 15.5 Consensus size: 14
441116 AAGCTACTAG
*
441126 CTAAACCCTAAACA
1 CTAAACCATAAACA
* * *
441140 ATAAACAATAAAAA
1 CTAAACCATAAACA
*
441154 CTAAACCACAAAC-
1 CTAAACCATAAACA
* * * *
441167 CCACAGCC-TACACG
1 CTA-AACCATAAACA
441181 CTAAACCATAAACA
1 CTAAACCATAAACA
* *
441195 CTAAATCATAAACT
1 CTAAACCATAAACA
* * **
441209 GTATACTTTAAAC-
1 CTAAACCATAAACA
* *
441222 CATAAACC-TACACC
1 C-TAAACCATAAACA
441236 CTAAACCATAAACA
1 CTAAACCATAAACA
* *
441250 CTAAATCGTAAACCA
1 CTAAACCATAAA-CA
* * * * *
441265 ATAACCCTTAGACC
1 CTAAACCATAAACA
*
441279 CTAAGCCGAT-AAC-
1 CTAAACC-ATAAACA
* *
441292 CTAAACCCCTAAACC
1 CTAAA-CCATAAACA
*
441307 CTAAACCATAAACC
1 CTAAACCATAAACA
*
441321 CTAAACCTTAAA-A
1 CTAAACCATAAACA
441334 CTTAAACC
1 C-TAAACC
441342 TCTAAAGCAT
Statistics
Matches: 144, Mismatches: 46, Indels: 24
0.67 0.21 0.11
Matches are distributed among these distances:
13 24 0.17
14 105 0.73
15 15 0.10
ACGTcount: A:0.48, C:0.31, G:0.03, T:0.18
Consensus pattern (14 bp):
CTAAACCATAAACA
Found at i:441229 original size:7 final size:7
Alignment explanation
Indices: 441217--441356 Score: 54
Period size: 7 Copynumber: 19.9 Consensus size: 7
441207 CTGTATACTT
441217 TAAACCA
1 TAAACCA
441224 TAAACC-
1 TAAACCA
* *
441230 TACACCC
1 TAAACCA
441237 TAAACCA
1 TAAACCA
441244 TAAA-CA
1 TAAACCA
* *
441250 CTAAATCG
1 -TAAACCA
441258 TAAACCAA
1 TAAACC-A
* *
441266 TAACCCT
1 TAAACCA
* *
441273 TAGACCC
1 TAAACCA
*
441280 TAAGCCGA
1 TAAACC-A
441288 T-AACC-
1 TAAACCA
*
441293 TAAACCCC
1 TAAA-CCA
*
441301 TAAACCC
1 TAAACCA
441308 TAAACCA
1 TAAACCA
*
441315 TAAACCC
1 TAAACCA
*
441322 TAAACCT
1 TAAACCA
* *
441329 TAAAACT
1 TAAACCA
*
441336 TAAACCTC
1 TAAACC-A
*
441344 TAAAGCA
1 TAAACCA
441351 TAAACC
1 TAAACC
441357 CCTAAACCCC
Statistics
Matches: 100, Mismatches: 24, Indels: 18
0.70 0.17 0.13
Matches are distributed among these distances:
5 1 0.01
6 9 0.09
7 74 0.74
8 16 0.16
ACGTcount: A:0.46, C:0.33, G:0.04, T:0.18
Consensus pattern (7 bp):
TAAACCA
Found at i:441304 original size:8 final size:7
Alignment explanation
Indices: 441291--441454 Score: 91
Period size: 7 Copynumber: 22.7 Consensus size: 7
441281 AAGCCGATAA
441291 CCTAAACC
1 CCTAAA-C
441299 CCTAAAC
1 CCTAAAC
441306 CCTAAAC
1 CCTAAAC
*
441313 CATAAAC
1 CCTAAAC
441320 CCTAAAC
1 CCTAAAC
* *
441327 CTTAAAA
1 CCTAAAC
*
441334 CTTAAAC
1 CCTAAAC
*
441341 CTCTAAAG
1 C-CTAAAC
*
441349 CATAAACC
1 CCTAAA-C
441357 CCTAAACC
1 CCTAAA-C
441365 CCTAAACC
1 CCTAAA-C
*
441373 CCTAAAT
1 CCTAAAC
*
441380 CATAAAC
1 CCTAAAC
* *
441387 TCTTAA-
1 CCTAAAC
*
441393 -TTAAAC
1 CCTAAAC
441399 CCTAAAC
1 CCTAAAC
* *
441406 CATAAGC
1 CCTAAAC
441413 CACT-AAC
1 C-CTAAAC
*
441420 CCATAGAC
1 CC-TAAAC
*
441428 CCTAAGC
1 CCTAAAC
*
441435 CCATAACC
1 CC-TAAAC
441443 CCTAAAC
1 CCTAAAC
441450 CCTAA
1 CCTAA
441455 GCTCCTAACC
Statistics
Matches: 120, Mismatches: 28, Indels: 17
0.73 0.17 0.10
Matches are distributed among these distances:
5 3 0.03
6 1 0.01
7 73 0.61
8 43 0.36
ACGTcount: A:0.43, C:0.37, G:0.02, T:0.18
Consensus pattern (7 bp):
CCTAAAC
Found at i:441434 original size:22 final size:21
Alignment explanation
Indices: 441396--441464 Score: 77
Period size: 22 Copynumber: 3.2 Consensus size: 21
441386 CTCTTAATTA
*
441396 AACCC-TAAACCATAAGCCACT
1 AACCCATAAACCCTAAGCC-CT
*
441417 AACCCATAGACCCTAAGCCCAT
1 AACCCATAAACCCTAAGCCC-T
*
441439 AACCCCTAAACCCTAAGCTCCT
1 AACCCATAAACCCTAAGC-CCT
441461 AACC
1 AACC
441465 TTTACACACT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
21 6 0.15
22 33 0.80
23 2 0.05
ACGTcount: A:0.38, C:0.42, G:0.06, T:0.14
Consensus pattern (21 bp):
AACCCATAAACCCTAAGCCCT
Found at i:441929 original size:114 final size:115
Alignment explanation
Indices: 441671--442137 Score: 672
Period size: 114 Copynumber: 4.1 Consensus size: 115
441661 TATAACTATT
* *
441671 TGAGCATTAGCGGCGCTTTCATAAAAACACCGCTAAATCCCCAAAAGCTCA-AAAACCGGCGTCG
1 TGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCC-AAAGCTCAGAAAA-CGGCGTCG
* * * * *
441735 TTGGGCTTAGGTTTTTTTTGCGGCGCTTTCTCAAAAATGTCGCTAAAAAGCCT
64 TCGGGCTTAGG-TTTTTTTGCGGCGCTTTCACAAAAACGCCGCTAAAAAGCCC
* * ** * *
441788 TGAGCATTAGAGGCGTTTTCTTAAAAACGTGGCTAAATCACCAAAGCTCAGAAAACGGCGTCGTT
1 TGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAGCTCAGAAAACGGCGTCGTC
* *
441853 GGACTTAAGG-TTTTTTGCGGCGCTTTCACAAAAACGTCGCT-AAAAGCCC
66 GGGCTT-AGGTTTTTTTGCGGCGCTTTCACAAAAACGCCGCTAAAAAGCCC
* * *
441902 TGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAGCTCAAAAAATGGCATCGTC
1 TGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAGCTCAGAAAACGGCGTCGTC
*
441967 GGGCTTAGGTTTTTTTGCGGCGCTTTCATAAAAACGCCGCT-AAAAGCCC
66 GGGCTTAGGTTTTTTTGCGGCGCTTTCACAAAAACGCCGCTAAAAAGCCC
*
442016 TGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAGCTCAGAAAACTGCGTCGTC
1 TGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAGCTCAGAAAACGGCGTCGTC
* *
442081 GGGCTTAGGTTTTTTTGCGGCGCTTTCTCAAAAATGCCGCTAAAAAGCCC
66 GGGCTTAGGTTTTTTTGCGGCGCTTTCACAAAAACGCCGCTAAAAAGCCC
442131 TGAGCAT
1 TGAGCAT
442138 AGCTCAGAAA
Statistics
Matches: 316, Mismatches: 30, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
113 3 0.01
114 204 0.65
115 44 0.14
116 23 0.07
117 42 0.13
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (115 bp):
TGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAGCTCAGAAAACGGCGTCGTC
GGGCTTAGGTTTTTTTGCGGCGCTTTCACAAAAACGCCGCTAAAAAGCCC
Found at i:442256 original size:192 final size:186
Alignment explanation
Indices: 441911--442371 Score: 615
Period size: 192 Copynumber: 2.5 Consensus size: 186
441901 CTGAGCATTA
* * * * * * *
441911 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCC-CAAAGCTCAAAAAATGGCATCGTCGGGCTTAG
1 GCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAG
*
441975 GTTTTTTTGCGGCGCTTTCATAAAAACGCCGCTAAAAGCCCTGAGCATTAGCGGCGCTTTCTTAA
66 GTTTTTTTGCGGCGCTTTC-TAAAAACGCCGCTAAAAGCCCTGAGCATTAGCGGCGCTCTCTTAA
*
442040 AAACGCCGCTAAATCCCCAAAGCTCAGAAAACTGCGTCGTCGGGCTTAGGTTTTTTT
130 AAACGCCGCTAAATCCCCAAAGCTCAGAAAACAGCGTCGTCGGGCTTAGGTTTTTTT
*
442097 GCGGCGCTTTCTCAAAAATGCCGCTAAAAAGCCCTGAGCATAGCTCAGAAAACGGCGTCGTTGGG
1 GCGGCGCTTTCTCAAAAACGCCGCT--AAAGCCCTGA--A-AGCTCAGAAAACGGCGTCGTTGGG
* * *
442162 CCTAGGTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCT-AAAGCCTTGAGCATTAGTGGCGCTCT
61 CTTAGGTTTTTTTGCGGCGCTTTCT-AAAAACGCCGCTAAAAGCCCTGAGCATTAGCGGCGCTCT
* * *
442226 CTTAAAAATGCCTCTAAATCCCCGAAAGCTCAGAAAACAGCGTCGTTGGGCTTAGGTTTTTTT
125 CTTAAAAACGCCGCTAAATCCCC-AAAGCTCAGAAAACAGCGTCGTCGGGCTTAGGTTTTTTT
* * * * * **
442289 GTGGCGCTTTCTTAAAAACGCCGCTAAATCTCTGAAAGCTCTGAAAACGGCGTAATTGGGCTTAG
1 GCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAG
442354 G--TTTTTGCGGCGCTTTCT
66 GTTTTTTTGCGGCGCTTTCT
442372 GGAAAACATC
Statistics
Matches: 242, Mismatches: 25, Indels: 17
0.85 0.09 0.06
Matches are distributed among these distances:
185 17 0.07
186 23 0.10
187 26 0.11
188 7 0.03
189 1 0.00
190 8 0.03
191 46 0.19
192 114 0.47
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (186 bp):
GCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAG
GTTTTTTTGCGGCGCTTTCTAAAAACGCCGCTAAAAGCCCTGAGCATTAGCGGCGCTCTCTTAAA
AACGCCGCTAAATCCCCAAAGCTCAGAAAACAGCGTCGTCGGGCTTAGGTTTTTTT
Found at i:442335 original size:73 final size:71
Alignment explanation
Indices: 442216--442371 Score: 204
Period size: 73 Copynumber: 2.2 Consensus size: 71
442206 TTGAGCATTA
* * * **
442216 GTGGCGCTCTCTTAAAAATGCCTCTAAATCCCCGAAAGCTCAGAAAACAGCGTCGTTGGGCTTAG
1 GTGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACAGCGTAATTGGGCTTAG
442281 GTTTTTTT
66 G--TTTTT
* * * *
442289 GTGGCGCTTTCTTAAAAACGCCGCTAAATCTCTGAAAGCTCTGAAAACGGCGTAATTGGGCTTAG
1 GTGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACAGCGTAATTGGGCTTAG
442354 GTTTTT
66 GTTTTT
*
442360 GCGGCGCTTTCT
1 GTGGCGCTTTCT
442372 GGAAAACATC
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
71 16 0.22
73 57 0.78
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.31
Consensus pattern (71 bp):
GTGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACAGCGTAATTGGGCTTAG
GTTTTT
Found at i:447059 original size:45 final size:45
Alignment explanation
Indices: 446987--447188 Score: 251
Period size: 45 Copynumber: 4.5 Consensus size: 45
446977 ACTGGTGACA
* * *
446987 TCGATCTACTTTGCTGCCAGTACAGGAAGACAAGTTCTACTATCT
1 TCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTACTATCT
* ** * ** *
447032 TTGATCTACTTCGCTGTTAATATAGGAAGACAAGATCCGCTAACT
1 TCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTACTATCT
* * *
447077 TCGATCTACTTTGTTGCCAATACAGGAAGACAAGATCTGCTATCT
1 TCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTACTATCT
* *
447122 TCGATCTACTTCGCTGCCAATACAGGAAGACAGGATTTACTATCT
1 TCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTACTATCT
* *
447167 TTGATCTACTTCACTGCCAATA
1 TCGATCTACTTCGCTGCCAATA
447189 TACAAGATCT
Statistics
Matches: 132, Mismatches: 25, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 132 1.00
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (45 bp):
TCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTACTATCT
Found at i:455485 original size:19 final size:20
Alignment explanation
Indices: 455461--455505 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
455451 TGTGAAAGTC
*
455461 TAATGCATATG-ATGCAATG
1 TAATGCAGATGCATGCAATG
*
455480 TAATGCAGATGCATGGAATG
1 TAATGCAGATGCATGCAATG
455500 -AATGCA
1 TAATGCA
455506 AAAAGAAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.38, C:0.11, G:0.24, T:0.27
Consensus pattern (20 bp):
TAATGCAGATGCATGCAATG
Found at i:458038 original size:23 final size:22
Alignment explanation
Indices: 457995--458052 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
457985 AAAGGGTATC
* *
457995 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
458016 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
458039 TGCATATCATATCT
1 TACAAATCATATCT
458053 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:459708 original size:49 final size:50
Alignment explanation
Indices: 459611--459709 Score: 157
Period size: 50 Copynumber: 2.0 Consensus size: 50
459601 TCTATTGCTT
* *
459611 TCATATTTTCTTTGTTTTTTATTCTCTCCATCTTTCTTTATTTTATAATA
1 TCATATTTTCTTAGTTCTTTATTCTCTCCATCTTTCTTTATTTTATAATA
459661 TCATATTTTCTTAGTTCTTTATTCT-TCCATCTCTT-TTTATTTTATAATA
1 TCATATTTTCTTAGTTCTTTATTCTCTCCATCT-TTCTTTATTTTATAATA
459710 CGTTATCAGC
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
49 21 0.46
50 25 0.54
ACGTcount: A:0.19, C:0.16, G:0.02, T:0.63
Consensus pattern (50 bp):
TCATATTTTCTTAGTTCTTTATTCTCTCCATCTTTCTTTATTTTATAATA
Found at i:463171 original size:3 final size:3
Alignment explanation
Indices: 463157--463296 Score: 59
Period size: 3 Copynumber: 47.0 Consensus size: 3
463147 TATTTAGTCC
* * ** * * *
463157 TAT TAT TGT TAT TAT TAT TAT TAT TAA GCT AAT TAG T-T TAT TA- TAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * ** *
463203 GAT TAT TAT TAG AAG TAT TAT TAA TAT TAT CAT TAT TAT TAT CCT TAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * *
463251 TAT TAT TAG TAG TAT TAT TGT TAA TAT TAT TGT TAAT TAT CAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT
463297 ATTTCCATTT
Statistics
Matches: 96, Mismatches: 38, Indels: 6
0.69 0.27 0.04
Matches are distributed among these distances:
2 3 0.03
3 91 0.95
4 2 0.02
ACGTcount: A:0.34, C:0.05, G:0.07, T:0.54
Consensus pattern (3 bp):
TAT
Found at i:463617 original size:19 final size:19
Alignment explanation
Indices: 463583--463623 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
463573 ATTTTATCTG
463583 TTTTCTTTATTGTCA-TTA
1 TTTTCTTTATTGTCATTTA
463601 TTTTACTTTA-TGTTCATTTA
1 TTTT-CTTTATTG-TCATTTA
463621 TTT
1 TTT
463624 ATTTATTCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
18 6 0.30
19 8 0.40
20 6 0.30
ACGTcount: A:0.17, C:0.10, G:0.05, T:0.68
Consensus pattern (19 bp):
TTTTCTTTATTGTCATTTA
Found at i:463763 original size:21 final size:20
Alignment explanation
Indices: 463732--463776 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
463722 TTGCTCATAT
*
463732 TATTTTTATTCATATTAT-CA
1 TATTTTTATTC-CATTATGCA
463752 TATTTATTATTCCATTATGCA
1 TATTT-TTATTCCATTATGCA
463773 TATT
1 TATT
463777 AACACCATGC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.29, C:0.11, G:0.02, T:0.58
Consensus pattern (20 bp):
TATTTTTATTCCATTATGCA
Found at i:464051 original size:108 final size:106
Alignment explanation
Indices: 463817--464221 Score: 530
Period size: 108 Copynumber: 3.8 Consensus size: 106
463807 AAACGAAGTC
* * *
463817 AATATTTTGCGTTTGGAAATTTGAGAAAATGTGCCCTAATGTGTTGGGTTTCGATTTTTTTTTCG
1 AATATTTTGCGTTTGGAAATTTGAGAAAACGTGCCCTAATGTGCTGGGTTTCAATTTTTTTTTCG
* * * * *
463882 TCCAAATAGCAAAATATCCTATTAAAATTCCAAAGTAAGGC
66 ACCAAATAGCTAAATATCCTTTTAAAATTTCAAAGTAAGGT
*
463923 AATGTTTTGCGTTTGGAAATTTGAGAAAACGTGCCCTAATGTGCTGGGTTTCAATTTTTTTCATT
1 AATATTTTGCGTTTGGAAATTTGAGAAAACGTGCCCTAATGTGCTGGGTTTCAATTTTTTT--TT
*
463988 CGACCAAATAGCTAAATATCCTTTTAAATTTTCAAAGTAAGGT
64 CGACCAAATAGCTAAATATCCTTTTAAAATTTCAAAGTAAGGT
*
464031 AATATTTTGTGTTTGGAAATTTGAGAAAACGTGCCCTAATGTGCTGGGTTTCAATTTTTTCGTTT
1 AATATTTTGCGTTTGGAAATTTGAGAAAACGTGCCCTAATGTGCTGGGTTTCAATTTTTT--TTT
* * * *
464096 -GACCAAATAGCCAAATAACCTTTTAAAATTTGAAAGTAAGACT
64 CGACCAAATAGCTAAATATCCTTTTAAAATTTCAAAGTAAG-GT
* * * * * *
464139 -ATATTTTGCGTTTGGAAATTCGAG-GAACGTGCCATAATGTGCTGAGTTTCGATTTCTTGTTT-
1 AATATTTTGCGTTTGGAAATTTGAGAAAACGTGCCCTAATGTGCTGGGTTTCAATTT-TTTTTTC
*
464201 AACCAAATAGCTAAATATCCT
65 GACCAAATAGCTAAATATCCT
464222 CATAAATCTC
Statistics
Matches: 266, Mismatches: 27, Indels: 13
0.87 0.09 0.04
Matches are distributed among these distances:
105 21 0.08
106 84 0.32
107 60 0.23
108 100 0.38
110 1 0.00
ACGTcount: A:0.30, C:0.14, G:0.18, T:0.38
Consensus pattern (106 bp):
AATATTTTGCGTTTGGAAATTTGAGAAAACGTGCCCTAATGTGCTGGGTTTCAATTTTTTTTTCG
ACCAAATAGCTAAATATCCTTTTAAAATTTCAAAGTAAGGT
Found at i:464170 original size:214 final size:212
Alignment explanation
Indices: 463799--464221 Score: 568
Period size: 214 Copynumber: 2.0 Consensus size: 212
463789 CAAAAAGGAA
* *
463799 AAATTTTCAAACGAAGTCAATATTTTGCGTTTGGAAATTTGAGAAAATGTGCCCTAATGTGTTGG
1 AAATTTTCAAACGAAGTCAATATTTTGCGTTTGGAAATTTGAGAAAACGTGCCCTAATGTGCTGG
* * * * *
463864 GTTTCGATTTTTTTTTCGTCCAAATAGCAAAATATCCTATTAAAATTCCAAAGTAAGGCAATGTT
66 GTTTCAATTTTTTTTTCGACCAAATAGCAAAATAACCTATTAAAATTCCAAAGTAAGACAATATT
* * * * *
463929 TTGCGTTTGGAAATTTGAGAAAACGTGCCCTAATGTGCTGGGTTTCAATTT-TTTTCATTCGACC
131 TTGCGTTTGGAAATTCGAGAAAACGTGCCATAATGTGCTGAGTTTCAATTTCTTGT--TT-AACC
463993 AAATAGCTAAATATCCTTTT
193 AAATAGCTAAATATCCTTTT
*
464013 AAATTTTCAAA-GTAAGGT-AATATTTTGTGTTTGGAAATTTGAGAAAACGTGCCCTAATGTGCT
1 AAATTTTCAAACG-AA-GTCAATATTTTGCGTTTGGAAATTTGAGAAAACGTGCCCTAATGTGCT
* * ** *
464076 GGGTTTCAATTTTTTCGTTT-GACCAAATAGCCAAATAACCTTTTAAAATTTGAAAGTAAGACTA
64 GGGTTTCAATTTTTT--TTTCGACCAAATAGCAAAATAACCTATTAAAATTCCAAAGTAAGACAA
* *
464140 TATTTTGCGTTTGGAAATTCGAG-GAACGTGCCATAATGTGCTGAGTTTCGATTTCTTGTTTAAC
127 TATTTTGCGTTTGGAAATTCGAGAAAACGTGCCATAATGTGCTGAGTTTCAATTTCTTGTTTAAC
464204 CAAATAGCTAAATATCCT
192 CAAATAGCTAAATATCCT
464222 CATAAATCTC
Statistics
Matches: 184, Mismatches: 20, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
212 20 0.11
213 3 0.02
214 96 0.52
215 62 0.34
216 3 0.02
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.37
Consensus pattern (212 bp):
AAATTTTCAAACGAAGTCAATATTTTGCGTTTGGAAATTTGAGAAAACGTGCCCTAATGTGCTGG
GTTTCAATTTTTTTTTCGACCAAATAGCAAAATAACCTATTAAAATTCCAAAGTAAGACAATATT
TTGCGTTTGGAAATTCGAGAAAACGTGCCATAATGTGCTGAGTTTCAATTTCTTGTTTAACCAAA
TAGCTAAATATCCTTTT
Found at i:475934 original size:45 final size:45
Alignment explanation
Indices: 475867--476091 Score: 333
Period size: 45 Copynumber: 5.0 Consensus size: 45
475857 ACAAATCAGT
* * * *
475867 GAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGTAGATT
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
*
475912 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGCAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * * *
475957 GAAGATAGCAGATCTTGTCTTCTTGTATTGGTAGTGAAGCAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
476002 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * * *
476047 GAAGCTAGTAGGTCTTGTTTTCCTGTATTGGCAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
476092 AAATATCATA
Statistics
Matches: 164, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 164 1.00
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (45 bp):
GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
Found at i:476246 original size:44 final size:43
Alignment explanation
Indices: 476108--476489 Score: 207
Period size: 44 Copynumber: 8.8 Consensus size: 43
476098 CATATCAAAC
*
476108 CTTATC-CCCTTGAAGTTGCAGTGGGGCAGATTGAAGATA-CAAG-T
1 CTTATCTCCC-TGAAGTTGCAGTGGAGCAGATT-AA-A-ACCAAGAT
* * * * *
476152 CTTATCTCTCTAAACTTGTAGTGGAGCAGATAGAAGAAACC-A-AT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGAT--TA-AAACCAAGAT
* * *
476196 CCTATCTCGCTGAAGTTGCAGTGGAGCGGATTAAAACCATAGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCA-AGAT
* * * *** *
476240 CTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCC-AG-T
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCAAGAT
* *
476281 CTTATCTCCCTGAAGTTGCATTAGAGAAGACAGAAT-AAACC-A-AT
1 CTTATCTCCCTGAAGTTGCAGT-G-G-AG-CAGATTAAAACCAAGAT
* * * *
476325 CCTATCTCCCTGAAGTTGTAGTGGACCGGATTAAAACCACAGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCA-AGAT
* * * * *** *
476369 CTTATCTCTCTAAAGTTGCAATAGAGCAGATCGCATCC-AG-T
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCAAGAT
* **
476410 CTTATCTCCCTGAAGTTGCACTGGAGCAGATTGAAGTAA-TTA-AT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AA--AACCAAGAT
* *
476454 CCTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAA
476490 TGATAAATCC
Statistics
Matches: 255, Mismatches: 60, Indels: 49
0.70 0.16 0.13
Matches are distributed among these distances:
40 4 0.02
41 62 0.24
42 6 0.02
43 6 0.02
44 168 0.66
45 8 0.03
46 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.28
Consensus pattern (43 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCAAGAT
Found at i:476330 original size:129 final size:129
Alignment explanation
Indices: 476183--476521 Score: 466
Period size: 129 Copynumber: 2.6 Consensus size: 129
476173 TGGAGCAGAT
* * *
476183 AGAAGAAACCAATCCTATCTCGCTGAAGTTGCAGTGGAGCGGATTAAAACCATAGATCTTATCTC
1 AGAATAAACCAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAACCATAGATCTTATCTC
* *
476248 TCTGAAGTTGCAGTAGAGTAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCATTAGAGAAGAC
66 TCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCACTAGAGAAGAC
* *
476312 AGAATAAACCAATCCTATCTCCCTGAAGTTGTAGTGGACCGGATTAAAACCACAGATCTTATCTC
1 AGAATAAACCAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAACCATAGATCTTATCTC
* * * * *
476377 TCTAAAGTTGCAATAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCACTGGAGCAGAT
66 TCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCACTAGAGAAGAC
* ** * ** * *
476441 TGAAGT-AATTAATCCTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAATGATAAATCCTATAC
1 AGAA-TAAACCAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAACCATAGATCTTAT-C
476505 -CTCTGAAGTTGCAGTAG
64 TCTCTGAAGTTGCAGTAG
476522 GCCGGATTAA
Statistics
Matches: 184, Mismatches: 24, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
129 182 0.99
130 2 0.01
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (129 bp):
AGAATAAACCAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAACCATAGATCTTATCTC
TCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCACTAGAGAAGAC
Found at i:476499 original size:44 final size:44
Alignment explanation
Indices: 476412--476517 Score: 133
Period size: 44 Copynumber: 2.4 Consensus size: 44
476402 CATCCAGTCT
* * *
476412 TATCTCCCTGAAGTTGCACTGGAGCAGATTGAAGTAATTAATCC
1 TATCTCCCTGAAGTTGCACTGGAGCAGATTAAAATAATAAATCC
* * *
476456 TATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAATGATAAATCC
1 TATCTCCCTGAAGTTGCACTGGAGCAGATTAAAATAATAAATCC
*
476500 TATAC-CTCTGAAGTTGCA
1 TAT-CTCCCTGAAGTTGCA
476518 GTAGGCCGGA
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
44 52 0.98
45 1 0.02
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGCACTGGAGCAGATTAAAATAATAAATCC
Found at i:477125 original size:20 final size:20
Alignment explanation
Indices: 477100--477139 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
477090 CCCTAGCCCT
477100 GCCACTGCCACGGTCACGTC
1 GCCACTGCCACGGTCACGTC
*
477120 GCCACTGCCATGGTCACGTC
1 GCCACTGCCACGGTCACGTC
477140 ACCGCCCATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.15, C:0.42, G:0.25, T:0.17
Consensus pattern (20 bp):
GCCACTGCCACGGTCACGTC
Found at i:478057 original size:3 final size:3
Alignment explanation
Indices: 478043--478182 Score: 111
Period size: 3 Copynumber: 47.0 Consensus size: 3
478033 AATTTAGTCC
* * ** * *
478043 TAT TAT TGT TAT TAT TAT TAT TAT TAT TAT TAA GCT AAT TAG T-T TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * ** *
478090 TAT TAC TAT TAT TAT AAG TAT TAT TAA TAT TAT TAT TAT TAT CCT TAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
478138 TAT TAT TAT TAG TAT TAT TGT TAA TAT TAT TGT TAT TAT CAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
478183 ATTTCCATTT
Statistics
Matches: 101, Mismatches: 35, Indels: 2
0.73 0.25 0.01
Matches are distributed among these distances:
2 1 0.01
3 100 0.99
ACGTcount: A:0.33, C:0.04, G:0.05, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:478891 original size:107 final size:108
Alignment explanation
Indices: 478650--478919 Score: 382
Period size: 107 Copynumber: 2.5 Consensus size: 108
478640 AAGGAAAATG
* * *
478650 TTTCAAAGTAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAATGCGCCCTAATCTGCTGGGTTT
1 TTTCAAAGTAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATCTGATGGGTTT
* *
478715 CTATTTTTTTTTCATTCGACCAAACAGCAAAATATCCTATTAAAA
66 CGA--TTTTTTTCATTCGACCAAACAGCAAAATAACCTATTAAAA
* *
478760 TTTCAAAGTAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGATGGGTTT
1 TTTCAAAGTAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATCTGATGGGTTT
* * *
478825 CGA-TTTTTTCATTCGACCAAATAGCCAAATAACCTTTTAAAA
66 CGATTTTTTTCATTCGACCAAACAGCAAAATAACCTATTAAAA
*** *
478867 TTTCAAAGTAAGATTATATTTTGCGTTTGGAAATTCGAG-GAACGTGCCCTAAT
1 TTTCAAAGTAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAAT
478920 ATGCTAAGTT
Statistics
Matches: 145, Mismatches: 15, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
106 13 0.09
107 70 0.48
110 62 0.43
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (108 bp):
TTTCAAAGTAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATCTGATGGGTTT
CGATTTTTTTCATTCGACCAAACAGCAAAATAACCTATTAAAA
Found at i:480193 original size:15 final size:15
Alignment explanation
Indices: 480173--480220 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
480163 CTTTGGTTGG
* *
480173 ACCACATTGAGCAGC
1 ACCACACTGACCAGC
480188 ACCACACTGACCAGC
1 ACCACACTGACCAGC
* *
480203 ACCACGCCGACCAGC
1 ACCACACTGACCAGC
480218 ACC
1 ACC
480221 TCTACCACCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.31, C:0.46, G:0.17, T:0.06
Consensus pattern (15 bp):
ACCACACTGACCAGC
Found at i:486423 original size:16 final size:16
Alignment explanation
Indices: 486402--486451 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 16
486392 TTTGAGAAAG
486402 TATTTCAAATTTTTAA
1 TATTTCAAATTTTTAA
486418 TATTTCAAATAAATTTTTAA
1 TATTTC----AAATTTTTAA
486438 TATTTCAAATTTTT
1 TATTTCAAATTTTT
486452 GAGAAAGTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
16 14 0.47
20 16 0.53
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (16 bp):
TATTTCAAATTTTTAA
Found at i:486433 original size:20 final size:20
Alignment explanation
Indices: 486408--486447 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
486398 AAAGTATTTC
486408 AAATTTTTAATATTTCAAAT
1 AAATTTTTAATATTTCAAAT
486428 AAATTTTTAATATTTCAAAT
1 AAATTTTTAATATTTCAAAT
486448 TTTTGAGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (20 bp):
AAATTTTTAATATTTCAAAT
Found at i:489289 original size:20 final size:21
Alignment explanation
Indices: 489245--489292 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
489235 GAACATGTTA
489245 ATTTTTAGTCAATTTTACAATT
1 ATTTTTAGTCAATTTTA-AATT
* *
489267 ATTTTTAGTGAATTTT-GATT
1 ATTTTTAGTCAATTTTAAATT
489287 ATTTTT
1 ATTTTT
489293 GGCAAATTCG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 9 0.38
22 15 0.62
ACGTcount: A:0.27, C:0.04, G:0.08, T:0.60
Consensus pattern (21 bp):
ATTTTTAGTCAATTTTAAATT
Found at i:492017 original size:40 final size:40
Alignment explanation
Indices: 491943--492089 Score: 195
Period size: 40 Copynumber: 3.7 Consensus size: 40
491933 GTACTCAGAA
* * *
491943 GAGCCATACCTACTGAATCTACTAAAACGCATGCGCCTTC
1 GAGCCATACCTACTGAATCTACTGAAACGTATGCGCTTTC
* * * *
491983 GAGCAATACTTACTAAATCTACTGAAACGTATGCGCTTTT
1 GAGCCATACCTACTGAATCTACTGAAACGTATGCGCTTTC
* * *
492023 GAGCCACACCTACTGAATTTACTGAAACGTATGCTCTTTC
1 GAGCCATACCTACTGAATCTACTGAAACGTATGCGCTTTC
*
492063 AAGCCATACCTACTGAATCTACTGAAA
1 GAGCCATACCTACTGAATCTACTGAAA
492090 AGAATGCTCT
Statistics
Matches: 90, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 90 1.00
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.27
Consensus pattern (40 bp):
GAGCCATACCTACTGAATCTACTGAAACGTATGCGCTTTC
Found at i:494008 original size:40 final size:40
Alignment explanation
Indices: 493924--494070 Score: 132
Period size: 40 Copynumber: 3.7 Consensus size: 40
493914 GTGCTCAGAA
* * * * * *
493924 GAGCCATACCTTCTGAATCTACTAAAACGCATGCGCCTTC
1 GAGCCATAACTACTAAATCTACTGAAACGTATGCGCTTTC
** * *
493964 GAGCCATATTTACTAAATCTACTGAAACGTATGCGATTTT
1 GAGCCATAACTACTAAATCTACTGAAACGTATGCGCTTTC
* * * * * *
494004 GAGCCACACCTACTAAATTTTCTGAAACATATGCTCTTTC
1 GAGCCATAACTACTAAATCTACTGAAACGTATGCGCTTTC
* *
494044 GATCCATAACTACTGAATCTACTGAAA
1 GAGCCATAACTACTAAATCTACTGAAA
494071 AGAATGCTCT
Statistics
Matches: 83, Mismatches: 24, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
40 83 1.00
ACGTcount: A:0.32, C:0.25, G:0.13, T:0.30
Consensus pattern (40 bp):
GAGCCATAACTACTAAATCTACTGAAACGTATGCGCTTTC
Found at i:495408 original size:22 final size:22
Alignment explanation
Indices: 495367--495408 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
495357 AGAAACATTA
*
495367 TAACACCCCAAACCTAGCCTTG
1 TAACACCCCAAACCGAGCCTTG
* *
495389 TAACTCCCCAAACCGGGCCT
1 TAACACCCCAAACCGAGCCT
495409 AGACATTATG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.29, C:0.43, G:0.12, T:0.17
Consensus pattern (22 bp):
TAACACCCCAAACCGAGCCTTG
Found at i:496588 original size:27 final size:27
Alignment explanation
Indices: 496569--496980 Score: 323
Period size: 27 Copynumber: 15.2 Consensus size: 27
496559 AGGGATATAA
*
496569 CAGTCATTTTACCTTATAGGGGTATTT
1 CAGTCATTTTACCCTATAGGGGTATTT
* *
496596 CGGTCATTTTACCCTATGGGGGTATTT
1 CAGTCATTTTACCCTATAGGGGTATTT
* *
496623 CAGTCATTCTACCCTGT-GGGG-ATGTT
1 CAGTCATTTTACCCTATAGGGGTAT-TT
** * *
496649 TTGCTCATTTTAGCCTATAGGGTTATTT
1 CAG-TCATTTTACCCTATAGGGGTATTT
** * * *
496677 TGGTCATTCTACCTTATGGGGGGTATTT
1 CAGTCATTTTACCCTAT-AGGGGTATTT
* * * * *
496705 CGGTTATTCTACCTTAT-GAGGATATTT
1 CAGTCATTTTACCCTATAG-GGGTATTT
* *
496732 CAGTCATTTTAACCTATGGGGGTATTT
1 CAGTCATTTTACCCTATAGGGGTATTT
* * *
496759 C-GATCATTTTATCTTATAGGAGTATTT
1 CAG-TCATTTTACCCTATAGGGGTATTT
*
496786 CAGTCATTTTACCCTATGGGGGTATTT
1 CAGTCATTTTACCCTATAGGGGTATTT
* * * *
496813 CAATCATTCTATCCTATGGGGGTATTT
1 CAGTCATTTTACCCTATAGGGGTATTT
* * *
496840 CGGTCATTTTACACTATGGGGGTATTT
1 CAGTCATTTTACCCTATAGGGGTATTT
** *
496867 TGGTCATTCTACCCTAT-GAGGGTATTT
1 CAGTCATTTTACCCTATAG-GGGTATTT
* *
496894 CGGTCATTTTACCCTATGGGGGTATTT
1 CAGTCATTTTACCCTATAGGGGTATTT
* * *
496921 -TGATCATTTTACCCTTTGGGGGTATTT
1 CAG-TCATTTTACCCTATAGGGGTATTT
* **
496948 CGGTCATTTTACCCTATAAAGGTATTT
1 CAGTCATTTTACCCTATAGGGGTATTT
*
496975 CGGTCA
1 CAGTCA
496981 GATATCGACC
Statistics
Matches: 317, Mismatches: 55, Indels: 26
0.80 0.14 0.07
Matches are distributed among these distances:
25 2 0.01
26 11 0.03
27 268 0.85
28 34 0.11
29 2 0.01
ACGTcount: A:0.19, C:0.17, G:0.22, T:0.42
Consensus pattern (27 bp):
CAGTCATTTTACCCTATAGGGGTATTT
Found at i:496695 original size:81 final size:79
Alignment explanation
Indices: 496571--496964 Score: 416
Period size: 81 Copynumber: 4.9 Consensus size: 79
496561 GGATATAACA
* * *
496571 GTCATTTTACCTTATAGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCAGTCATTCTACC
1 GTCATTTTACC-TATGGGGGTATTTCGGTCATTTTACCTTATGGGGGTATTTCGGTCATTCTACC
* * *
496636 CTGTGGGGATGTTTT
65 CTATGGGGATATTTC
* * * * *
496651 GCTCATTTTAGCCTATAGGGTTATTTTGGTCATTCTACCTTATGGGGGGTATTTCGGTTATTCTA
1 G-TCATTTTA-CCTATGGGGGTATTTCGGTCATTTTACCTTAT-GGGGGTATTTCGGTCATTCTA
* *
496716 CCTTATGAGGATATTTC
63 CCCTATGGGGATATTTC
* * * * * *
496733 AGTCATTTTAACCTATGGGGGTATTTCGATCATTTTATCTTATAGGAGTATTTCAGTCATTTTAC
1 -GTCATTTT-ACCTATGGGGGTATTTCGGTCATTTTACCTTATGGGGGTATTTCGGTCATTCTAC
*
496798 CCTATGGGGGTATTTC
64 CCTATGGGGATATTTC
* * *
496814 AATCATTCTATCCTATGGGGGTATTTCGGTCATTTTACAC-TATGGGGGTATTTTGGTCATTCTA
1 -GTCATTTTA-CCTATGGGGGTATTTCGGTCATTTTAC-CTTATGGGGGTATTTCGGTCATTCTA
496878 CCCTATGAGGG-TATTTC
63 CCCTATG-GGGATATTTC
* * *
496895 GGTCATTTTACCCTATGGGGGTATTTTGATCATTTTACCCTT-TGGGGGTATTTCGGTCATTTTA
1 -GTCATTTTA-CCTATGGGGGTATTTCGGTCATTTTA-CCTTATGGGGGTATTTCGGTCATTCTA
496959 CCCTAT
63 CCCTAT
496965 AAAGGTATTT
Statistics
Matches: 262, Mismatches: 42, Indels: 19
0.81 0.13 0.06
Matches are distributed among these distances:
80 2 0.01
81 186 0.71
82 72 0.27
83 2 0.01
ACGTcount: A:0.19, C:0.17, G:0.22, T:0.43
Consensus pattern (79 bp):
GTCATTTTACCTATGGGGGTATTTCGGTCATTTTACCTTATGGGGGTATTTCGGTCATTCTACCC
TATGGGGATATTTC
Found at i:496974 original size:54 final size:54
Alignment explanation
Indices: 496571--496964 Score: 428
Period size: 54 Copynumber: 7.3 Consensus size: 54
496561 GGATATAACA
* * * *
496571 GTCATTTTACCTTATAGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTCG
* * * * * * * * * *
496625 GTCATTCTACCCTGTGGGGATGTTTTGCTCATTTTAGCCTATAGGGTTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTCG
* * * * * * * * *
496679 GTCATTCTACCTTATGGGGGGTATTTCGGTTATTCTACCTTATGAGGATATTTCA
1 GTCATTTTACCCTAT-GGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTCG
* * * * * *
496734 GTCATTTTAACCTATGGGGGTATTTCGATCATTTTATCTTATAGGAGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTCG
* * *
496788 GTCATTTTACCCTATGGGGGTATTTCAATCATTCTATCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTCG
* * * * *
496842 GTCATTTTACACTATGGGGGTATTTTGGTCATTCTACCCTATGAGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTCG
* *
496896 GTCATTTTACCCTATGGGGGTATTTTGATCATTTTACCCTTTGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTCG
496950 GTCATTTTACCCTAT
1 GTCATTTTACCCTAT
496965 AAAGGTATTT
Statistics
Matches: 282, Mismatches: 57, Indels: 2
0.83 0.17 0.01
Matches are distributed among these distances:
54 244 0.87
55 38 0.13
ACGTcount: A:0.19, C:0.17, G:0.22, T:0.43
Consensus pattern (54 bp):
GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTCG
Found at i:508713 original size:19 final size:19
Alignment explanation
Indices: 508691--508728 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
508681 TCAATCATCC
508691 CTCATCCTATCA-TCTCTCA
1 CTCATCC-ATCATTCTCTCA
*
508710 CTCATTCATCATTCTCTCA
1 CTCATCCATCATTCTCTCA
508729 ACTCTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.21, C:0.39, G:0.00, T:0.39
Consensus pattern (19 bp):
CTCATCCATCATTCTCTCA
Found at i:509443 original size:359 final size:359
Alignment explanation
Indices: 508784--509503 Score: 1431
Period size: 359 Copynumber: 2.0 Consensus size: 359
508774 TTAGCAATTA
508784 AGCCTCTTAAAGAACCCTTGGTCAGCCACCTTGGAGAGCCATCAGCAAAGTAGCAATGCAAAGAA
1 AGCCTCTTAAAGAACCCTTGGTCAGCCACCTTGGAGAGCCATCAGCAAAGTAGCAATGCAAAGAA
*
508849 GAGAAGGAGCCTTGTCAGTTAGAGTCTTGGGTGATAGTCACTCTGAATTTGGTTTAATCTTTCTT
66 GAGAAGGAGCCTTGTCAGTCAGAGTCTTGGGTGATAGTCACTCTGAATTTGGTTTAATCTTTCTT
508914 TTCTTTAAAATTAATTTAAAGATGTTTGCTATGTGTTCTTTGTTCTTGTTTACAACAATGATAGC
131 TTCTTTAAAATTAATTTAAAGATGTTTGCTATGTGTTCTTTGTTCTTGTTTACAACAATGATAGC
508979 TTAAATTTATTTATGCTAGGATGATTATTTTGATTAAATAATATTTATTTGATTCATGCTTATAA
196 TTAAATTTATTTATGCTAGGATGATTATTTTGATTAAATAATATTTATTTGATTCATGCTTATAA
509044 TGTTTATGCCTCAATCGATCATGTTTTCAATTAAAATCAAGTCTGTATTTCACTCATATGTGATT
261 TGTTTATGCCTCAATCGATCATGTTTTCAATTAAAATCAAGTCTGTATTTCACTCATATGTGATT
509109 GAAACGCACCTGAATTAGCTGAGCGATCCTATCC
326 GAAACGCACCTGAATTAGCTGAGCGATCCTATCC
509143 AGCCTCTTAAAGAACCCTTGGTCAGCCACCTTGGAGAGCCATCAGCAAAGTAGCAATGCAAAGAA
1 AGCCTCTTAAAGAACCCTTGGTCAGCCACCTTGGAGAGCCATCAGCAAAGTAGCAATGCAAAGAA
509208 GAGAAGGAGCCTTGTCAGTCAGAGTCTTGGGTGATAGTCACTCTGAATTTGGTTTAATCTTTCTT
66 GAGAAGGAGCCTTGTCAGTCAGAGTCTTGGGTGATAGTCACTCTGAATTTGGTTTAATCTTTCTT
509273 TTCTTTAAAATTAATTTAAAGATGTTTGCTATGTGTTCTTTGTTCTTGTTTACAACAATGATAGC
131 TTCTTTAAAATTAATTTAAAGATGTTTGCTATGTGTTCTTTGTTCTTGTTTACAACAATGATAGC
509338 TTAAATTTATTTATGCTAGGATGATTATTTTGATTAAATAATATTTATTTGATTCATGCTTATAA
196 TTAAATTTATTTATGCTAGGATGATTATTTTGATTAAATAATATTTATTTGATTCATGCTTATAA
509403 TGTTTATGCCTCAATCGATCATGTTTTCAATTAAAATCAAGTCTGTATTTCACTCATATGTGATT
261 TGTTTATGCCTCAATCGATCATGTTTTCAATTAAAATCAAGTCTGTATTTCACTCATATGTGATT
509468 GAAACGCACCTGAATTAGCTGAGCGATCCTATCC
326 GAAACGCACCTGAATTAGCTGAGCGATCCTATCC
509502 AG
1 AG
509504 ACGACGGCTA
Statistics
Matches: 360, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
359 360 1.00
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.37
Consensus pattern (359 bp):
AGCCTCTTAAAGAACCCTTGGTCAGCCACCTTGGAGAGCCATCAGCAAAGTAGCAATGCAAAGAA
GAGAAGGAGCCTTGTCAGTCAGAGTCTTGGGTGATAGTCACTCTGAATTTGGTTTAATCTTTCTT
TTCTTTAAAATTAATTTAAAGATGTTTGCTATGTGTTCTTTGTTCTTGTTTACAACAATGATAGC
TTAAATTTATTTATGCTAGGATGATTATTTTGATTAAATAATATTTATTTGATTCATGCTTATAA
TGTTTATGCCTCAATCGATCATGTTTTCAATTAAAATCAAGTCTGTATTTCACTCATATGTGATT
GAAACGCACCTGAATTAGCTGAGCGATCCTATCC
Found at i:510885 original size:36 final size:36
Alignment explanation
Indices: 510834--510909 Score: 116
Period size: 36 Copynumber: 2.1 Consensus size: 36
510824 GGTTATAGAG
* *
510834 CATTACCGAATTTTACAAATTAATTTTCAGACATTT
1 CATTACCGAAGTTTACAAATTAATTTTCAGACATTC
* *
510870 CATTACCGGAGTTTACTAATTAATTTTCAGACATTC
1 CATTACCGAAGTTTACAAATTAATTTTCAGACATTC
510906 CATT
1 CATT
510910 TTTATCTAAC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.33, C:0.18, G:0.08, T:0.41
Consensus pattern (36 bp):
CATTACCGAAGTTTACAAATTAATTTTCAGACATTC
Found at i:521080 original size:12 final size:12
Alignment explanation
Indices: 521042--521083 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
521032 AATAGTCATA
*
521042 GAGAGATTTGAG
1 GAGAGATTTTAG
*
521054 GAGGGATATTT-G
1 GAGAGAT-TTTAG
521066 GAGAGATTTTAG
1 GAGAGATTTTAG
521078 GAGAGA
1 GAGAGA
521084 ATATTGGGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
11 3 0.12
12 20 0.80
13 2 0.08
ACGTcount: A:0.33, C:0.00, G:0.40, T:0.26
Consensus pattern (12 bp):
GAGAGATTTTAG
Found at i:521090 original size:24 final size:24
Alignment explanation
Indices: 521042--521088 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
521032 AATAGTCATA
*
521042 GAGAGATTTGAGGAGGGATATTTG
1 GAGAGATTTGAGGAGGAATATTTG
*
521066 GAGAGATTTTAGGAGAGAATATT
1 GAGAGATTTGAGGAG-GAATATT
521089 GGGATTTGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.34, C:0.00, G:0.36, T:0.30
Consensus pattern (24 bp):
GAGAGATTTGAGGAGGAATATTTG
Found at i:521790 original size:27 final size:27
Alignment explanation
Indices: 521749--522129 Score: 449
Period size: 27 Copynumber: 14.1 Consensus size: 27
521739 AGAGGTCGAT
* *
521749 AAATGATCGATATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
*
521776 AAATGACCGAAATACCCCTATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
521803 AAATGACCAAAATA-CCCTATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * *
521829 AAATGACTGAAATACCCCCGTAGGATA
1 AAATGACCGAAATACCCCCATAGGGTA
521856 AAATGACCGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* **
521883 GAATGACCGAAATACCCTTATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * *
521910 GAATGATCGAAATACCCCCATAAGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
*
521937 AAATGACCGAAATACCCTCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * *
521964 AAATGACTGAAAGACCCCCATATGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
** *
521991 AAATGACTAAAATACCCCAATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * * *
522018 GAATGACTGAAATACCACCATAAGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * * * *
522045 GAATAACAGAAATACCTCCATAGAGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * *
522072 AAACGACAGAAATACCCTCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
*
522099 AAATGACCAAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
522126 AAAT
1 AAAT
522130 TACATGGGAA
Statistics
Matches: 302, Mismatches: 51, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
26 24 0.08
27 278 0.92
ACGTcount: A:0.43, C:0.21, G:0.18, T:0.18
Consensus pattern (27 bp):
AAATGACCGAAATACCCCCATAGGGTA
Found at i:524956 original size:14 final size:14
Alignment explanation
Indices: 524937--524965 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
524927 GTGTGATTAA
524937 ATTGTTTCAAACCT
1 ATTGTTTCAAACCT
524951 ATTGTTTCAAACCT
1 ATTGTTTCAAACCT
524965 A
1 A
524966 ACACGTCCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.31, C:0.21, G:0.07, T:0.41
Consensus pattern (14 bp):
ATTGTTTCAAACCT
Found at i:526291 original size:25 final size:26
Alignment explanation
Indices: 526263--526318 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
526253 CTGAGTGTTT
526263 TCAGTACAGT-CTACCTATAGTAGTC
1 TCAGTACAGTACTACCTATAGTAGTC
** * *
526288 TCAGT-TTGTACTATCTATAGTAGTT
1 TCAGTACAGTACTACCTATAGTAGTC
526313 TCAGTA
1 TCAGTA
526319 TCAAATTAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
24 2 0.08
25 23 0.92
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.39
Consensus pattern (26 bp):
TCAGTACAGTACTACCTATAGTAGTC
Found at i:529528 original size:27 final size:27
Alignment explanation
Indices: 529475--529529 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 27
529465 AAATCATTGA
*
529475 TACTTTCAATTTAGTTTTTTTTTTTTT
1 TACTTTCAATTTAGTTTTTTTTATTTT
529502 TACTTTC-A-TTAGTTTTTAGTTTATTTT
1 TACTTTCAATTTAGTTTTT--TTTATTTT
529529 T
1 T
529530 TATTACATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
25 9 0.36
26 1 0.04
27 15 0.60
ACGTcount: A:0.16, C:0.07, G:0.05, T:0.71
Consensus pattern (27 bp):
TACTTTCAATTTAGTTTTTTTTATTTT
Found at i:532735 original size:28 final size:28
Alignment explanation
Indices: 532701--532761 Score: 95
Period size: 28 Copynumber: 2.2 Consensus size: 28
532691 AAGTAACAGT
*
532701 ACAGTGTGGGCCTTAGCCCAATACAGAA
1 ACAGTGTGGGCCTAAGCCCAATACAGAA
* *
532729 ACAGTGTGGGCCTAAGCCCGATACAGTA
1 ACAGTGTGGGCCTAAGCCCAATACAGAA
532757 ACAGT
1 ACAGT
532762 ATGGTGCAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.31, C:0.25, G:0.26, T:0.18
Consensus pattern (28 bp):
ACAGTGTGGGCCTAAGCCCAATACAGAA
Found at i:532784 original size:62 final size:62
Alignment explanation
Indices: 532661--532784 Score: 142
Period size: 62 Copynumber: 2.0 Consensus size: 62
532651 ATATATAGAA
* ** * * **
532661 ACAGAAACAGTGTGGGCCTATGCCCGATAAAAGTAACAGTACAGTGTGGGCCTTAGCCCAAT
1 ACAGAAACAGTGTGGGCCTAAGCCCGATAAAAGTAACAGTACAGTGCAGGCATCAAACCAAT
* **
532723 ACAGAAACAGTGTGGGCCTAAGCCCGAT-ACAGTAACAGTATGGTGCAGGCATGCAAACCAAT
1 ACAGAAACAGTGTGGGCCTAAGCCCGATAAAAGTAACAGTACAGTGCAGGCAT-CAAACCAAT
532785 CCCAATCCAG
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
61 18 0.35
62 33 0.65
ACGTcount: A:0.34, C:0.23, G:0.26, T:0.18
Consensus pattern (62 bp):
ACAGAAACAGTGTGGGCCTAAGCCCGATAAAAGTAACAGTACAGTGCAGGCATCAAACCAAT
Found at i:533045 original size:32 final size:32
Alignment explanation
Indices: 532972--533141 Score: 184
Period size: 32 Copynumber: 5.4 Consensus size: 32
532962 GAATGGCTGC
* * * *
532972 AAGCCATAAGT-ACAGTAATGTGATTGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGACACA
* *
533003 AAGCCATCAGTAGCAGTGATATGATCGACACA
1 AAGCCATCAGTAACAGTAATATGATCGACACA
* * * *
533035 CAGCCATCAGTAACGGTAATATGATTGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGACACA
* *
533067 AAGCCAT-AGTAACGGTAATATGATCGACACC
1 AAGCCATCAGTAACAGTAATATGATCGACACA
* *
533098 AAGCCATCAGTAACGGTAACATGATC-AGCACA
1 AAGCCATCAGTAACAGTAATATGATCGA-CACA
533130 AAGCCATCAGTA
1 AAGCCATCAGTA
533142 GCATCGCAGC
Statistics
Matches: 118, Mismatches: 18, Indels: 5
0.84 0.13 0.04
Matches are distributed among these distances:
31 39 0.33
32 79 0.67
ACGTcount: A:0.38, C:0.22, G:0.21, T:0.19
Consensus pattern (32 bp):
AAGCCATCAGTAACAGTAATATGATCGACACA
Found at i:533103 original size:63 final size:63
Alignment explanation
Indices: 532971--533141 Score: 229
Period size: 63 Copynumber: 2.7 Consensus size: 63
532961 AGAATGGCTG
* * * * *
532971 CAAGCCATAAGT-ACAGTAATGTGATTGGCACAAAGCCATCAGTAGCAGTGATATGATCGACA
1 CAAGCCATCAGTAACGGTAATATGATTGGCACAAAGCCATCAGTAACAGTAATATGATCGACA
*
533033 CACAGCCATCAGTAACGGTAATATGATTGGCACAAAGCCAT-AGTAACGGTAATATGATCGACA
1 CA-AGCCATCAGTAACGGTAATATGATTGGCACAAAGCCATCAGTAACAGTAATATGATCGACA
* **
533096 CCAAGCCATCAGTAACGGTAACATGATCAGCACAAAGCCATCAGTA
1 -CAAGCCATCAGTAACGGTAATATGATTGGCACAAAGCCATCAGTA
533142 GCATCGCAGC
Statistics
Matches: 96, Mismatches: 9, Indels: 6
0.86 0.08 0.05
Matches are distributed among these distances:
62 2 0.02
63 63 0.66
64 31 0.32
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.19
Consensus pattern (63 bp):
CAAGCCATCAGTAACGGTAATATGATTGGCACAAAGCCATCAGTAACAGTAATATGATCGACA
Found at i:533378 original size:24 final size:24
Alignment explanation
Indices: 533333--533378 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
533323 ACCAAACACA
* *
533333 GACAAAGCAGTCATTTGCATCAAG
1 GACAAAGCAATCATTTACATCAAG
* *
533357 GACAAATCAATCATTTATATCA
1 GACAAAGCAATCATTTACATCA
533379 CAAAAAATTC
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.41, C:0.20, G:0.13, T:0.26
Consensus pattern (24 bp):
GACAAAGCAATCATTTACATCAAG
Found at i:533477 original size:27 final size:26
Alignment explanation
Indices: 533447--533511 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 26
533437 TATCGATCAG
*
533447 TTTACCTAGCAAAGGCATTACGGTCCT
1 TTTACCTA-CAAAGGCATTACGGTCAT
* *
533474 TTTACCCTACAAGGGTATTACGGTCAT
1 TTTA-CCTACAAAGGCATTACGGTCAT
533501 TTTACCCTACA
1 TTTA-CCTACA
533512 GGGGTATTAC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
27 30 0.88
28 4 0.12
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.32
Consensus pattern (26 bp):
TTTACCTACAAAGGCATTACGGTCAT
Found at i:533516 original size:27 final size:27
Alignment explanation
Indices: 533463--533522 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
533453 TAGCAAAGGC
*
533463 ATTACGGTCCTTTTACCCTACAAGGGT
1 ATTACGGTCATTTTACCCTACAAGGGT
*
533490 ATTACGGTCATTTTACCCTACAGGGGT
1 ATTACGGTCATTTTACCCTACAAGGGT
533517 ATTACG
1 ATTACG
533523 ATACTTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.33
Consensus pattern (27 bp):
ATTACGGTCATTTTACCCTACAAGGGT
Found at i:533737 original size:46 final size:46
Alignment explanation
Indices: 533680--533777 Score: 126
Period size: 46 Copynumber: 2.1 Consensus size: 46
533670 TACCCGTATG
* * * *
533680 GGCCCATAAGCCTATTGGGACCATACAGCCCATTTC-GACCAATTGA
1 GGCCCACAAGCCCACTGGGACCACACAGCCCATTTCGGACCAA-TGA
* *
533726 GGCCCACAAGCCCACTGGGCCCACACAGCCCATTTCGGCCCAATGA
1 GGCCCACAAGCCCACTGGGACCACACAGCCCATTTCGGACCAATGA
533772 GGCCCA
1 GGCCCA
533778 GAACAGCCCA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
46 40 0.89
47 5 0.11
ACGTcount: A:0.26, C:0.38, G:0.21, T:0.15
Consensus pattern (46 bp):
GGCCCACAAGCCCACTGGGACCACACAGCCCATTTCGGACCAATGA
Found at i:536050 original size:122 final size:122
Alignment explanation
Indices: 535833--536067 Score: 461
Period size: 122 Copynumber: 1.9 Consensus size: 122
535823 TCTACAAACA
535833 AATTCTTTAGCACTACATCAATAATATTTCTTGAGTAAACTTCTAAAAAATTGATTTTTAACACA
1 AATTCTTTAGCACTACATCAATAATATTTCTTGAGTAAACTTCTAAAAAATTGATTTTTAACACA
535898 AAATGTTTTCTCTCACAAAATTTGTTATTATTTTTAGTTTTGAACCATTTCATTATT
66 AAATGTTTTCTCTCACAAAATTTGTTATTATTTTTAGTTTTGAACCATTTCATTATT
535955 AATTCTTTAGCACTACATCAATAATATTTCTTGAGTAAACTTCTAAAAAATTGATTTTTAACACA
1 AATTCTTTAGCACTACATCAATAATATTTCTTGAGTAAACTTCTAAAAAATTGATTTTTAACACA
*
536020 AAATGTTTTCTCTCACAAAGTTTGTTATTATTTTTAGTTTTGAACCAT
66 AAATGTTTTCTCTCACAAAATTTGTTATTATTTTTAGTTTTGAACCAT
536068 ACATTTCATT
Statistics
Matches: 112, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
122 112 1.00
ACGTcount: A:0.34, C:0.14, G:0.07, T:0.44
Consensus pattern (122 bp):
AATTCTTTAGCACTACATCAATAATATTTCTTGAGTAAACTTCTAAAAAATTGATTTTTAACACA
AAATGTTTTCTCTCACAAAATTTGTTATTATTTTTAGTTTTGAACCATTTCATTATT
Found at i:562751 original size:18 final size:19
Alignment explanation
Indices: 562728--562763 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
562718 AATTTCTAAT
562728 AATAATAAAAATA-AAAGA
1 AATAATAAAAATATAAAGA
562746 AATAATAAAAATATAAAG
1 AATAATAAAAATATAAAG
562764 TTAGCATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (19 bp):
AATAATAAAAATATAAAGA
Found at i:567429 original size:38 final size:38
Alignment explanation
Indices: 567378--567450 Score: 119
Period size: 38 Copynumber: 1.9 Consensus size: 38
567368 ATAACTCCAT
* *
567378 AATCCCATGTTTTCCTCCTAAAATCAGTCCAACACGCC
1 AATCCCATATTTTCCTCCTAAAATCACTCCAACACGCC
*
567416 AATCTCATATTTTCCTCCTAAAATCACTCCAACAC
1 AATCCCATATTTTCCTCCTAAAATCACTCCAACAC
567451 TCCTCCACCA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.32, C:0.36, G:0.04, T:0.29
Consensus pattern (38 bp):
AATCCCATATTTTCCTCCTAAAATCACTCCAACACGCC
Found at i:574192 original size:30 final size:30
Alignment explanation
Indices: 574152--574209 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
574142 AGCTTAGGGA
*
574152 CAAAAGTGTAAATATGCAAAAGTTTGGGGG
1 CAAAAGTGTAAATATGCAAAAATTTGGGGG
* * *
574182 CAAAATTGTAAATTTTCAAAAATTTGGG
1 CAAAAGTGTAAATATGCAAAAATTTGGG
574210 AGGACTATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.29
Consensus pattern (30 bp):
CAAAAGTGTAAATATGCAAAAATTTGGGGG
Found at i:574569 original size:33 final size:33
Alignment explanation
Indices: 574532--574756 Score: 138
Period size: 33 Copynumber: 6.4 Consensus size: 33
574522 ATTGAATATA
*
574532 GTTGCTAAGTGCTGATTCCCTGATTCATTGGTG
1 GTTGCTAAGTGCTGATTCCCCGATTCATTGGTG
* *
574565 GTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAGGGG
1 GTTGCTAAGTGCTGATTCC-CCG-A--TT-CAT-T---GGTG
*
574607 GTTGCTAAGTGCTGATTCCCC----CA-AGG-G
1 GTTGCTAAGTGCTGATTCCCCGATTCATTGGTG
* *
574634 GTTGCTAAGTGCTAATTCCCCAATTCATTGGTG
1 GTTGCTAAGTGCTGATTCCCCGATTCATTGGTG
* *
574667 GTTGCTAAGTGCTGATTCAACCGTATTTTCTAATGTGAAAAGGG
1 GTTGCTAAGTGCTGATTC-CCCG-A--TTC--AT-TG----GTG
* *
574711 GTTGCTAAGTGCTGATTCCTCGAATCATTGGTG
1 GTTGCTAAGTGCTGATTCCCCGATTCATTGGTG
574744 GTTGCTAAGTGCT
1 GTTGCTAAGTGCT
574757 CAATCCACCG
Statistics
Matches: 151, Mismatches: 15, Indels: 52
0.69 0.07 0.24
Matches are distributed among these distances:
27 21 0.14
28 2 0.01
31 2 0.01
32 2 0.01
33 53 0.35
34 4 0.03
35 2 0.01
37 7 0.05
38 4 0.03
39 3 0.02
40 4 0.03
41 2 0.01
42 23 0.15
43 2 0.01
44 20 0.13
ACGTcount: A:0.21, C:0.18, G:0.27, T:0.35
Consensus pattern (33 bp):
GTTGCTAAGTGCTGATTCCCCGATTCATTGGTG
Found at i:574663 original size:102 final size:104
Alignment explanation
Indices: 574532--574729 Score: 328
Period size: 102 Copynumber: 1.9 Consensus size: 104
574522 ATTGAATATA
* ** *
574532 GTTGCTAAGTGCTGATTCCCTGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTTT-AA
1 GTTGCTAAGTGCTAATTCCCCAATTCATTGGTGGTTGCTAAGTGCTGATTCAACCGTATTTTCAA
*
574596 ATGTG-AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGG
66 ATGTGAAAAGGGGTTGCTAAGTGCTGATTCCCCCAAGGG
*
574634 GTTGCTAAGTGCTAATTCCCCAATTCATTGGTGGTTGCTAAGTGCTGATTCAACCGTATTTTCTA
1 GTTGCTAAGTGCTAATTCCCCAATTCATTGGTGGTTGCTAAGTGCTGATTCAACCGTATTTTCAA
574699 ATGTGAAAAGGGGTTGCTAAGTGCTGATTCC
66 ATGTGAAAAGGGGTTGCTAAGTGCTGATTCC
574730 TCGAATCATT
Statistics
Matches: 88, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
102 58 0.66
103 6 0.07
104 24 0.27
ACGTcount: A:0.21, C:0.18, G:0.26, T:0.34
Consensus pattern (104 bp):
GTTGCTAAGTGCTAATTCCCCAATTCATTGGTGGTTGCTAAGTGCTGATTCAACCGTATTTTCAA
ATGTGAAAAGGGGTTGCTAAGTGCTGATTCCCCCAAGGG
Found at i:577406 original size:27 final size:27
Alignment explanation
Indices: 577368--577481 Score: 122
Period size: 27 Copynumber: 4.3 Consensus size: 27
577358 ATTCGTGGGC
* *
577368 AAATGATCGAAATACGCTCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
*
577395 AAATGACCGAAATACCCTCGATGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* * * *
577422 AAATGATCAAAATACCCCCGAAGGATA
1 AAATGACCGAAATACCCTCGAAGGGTA
* * *
577449 AAATGACTGAAACA-CCTCGTAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
*
577475 AGATGAC
1 AAATGAC
577482 TATTATACCC
Statistics
Matches: 71, Mismatches: 16, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
26 15 0.21
27 56 0.79
ACGTcount: A:0.41, C:0.19, G:0.22, T:0.18
Consensus pattern (27 bp):
AAATGACCGAAATACCCTCGAAGGGTA
Found at i:579021 original size:17 final size:17
Alignment explanation
Indices: 578999--579036 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
578989 ATACAACATT
578999 TAAGCATTTAAGCTTAG
1 TAAGCATTTAAGCTTAG
579016 TAAGCATTTAAGCTTAG
1 TAAGCATTTAAGCTTAG
579033 TAAG
1 TAAG
579037 TTCATATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.34
Consensus pattern (17 bp):
TAAGCATTTAAGCTTAG
Found at i:579213 original size:25 final size:22
Alignment explanation
Indices: 579184--579267 Score: 69
Period size: 25 Copynumber: 3.4 Consensus size: 22
579174 GTATGCTTAT
579184 ACGAGCTGTGAATCAGTATGCTC
1 ACGAGCTGT-AATCAGTATGCTC
*
579207 ACTCGAGCTGTAGATCAATATGCAATC
1 A--CGAGCTGTA-ATCAGTATGC--TC
*
579234 ACGAGCTATAAATCAGTATGCTC
1 ACGAGCTGT-AATCAGTATGCTC
579257 TTACGAGCTGT
1 --ACGAGCTGT
579268 GGAGTATTCG
Statistics
Matches: 49, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
23 3 0.06
24 1 0.02
25 41 0.84
26 1 0.02
27 3 0.06
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.27
Consensus pattern (22 bp):
ACGAGCTGTAATCAGTATGCTC
Found at i:579450 original size:21 final size:23
Alignment explanation
Indices: 579401--579443 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
579391 GCACTCGGTA
*
579401 ATTATATATGATAAATTATAACT
1 ATTATATATGATAAATTAAAACT
579424 ATTATATATGA-AAATTAAAA
1 ATTATATATGATAAATTAAAA
579444 ACATATAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.53, C:0.02, G:0.05, T:0.40
Consensus pattern (23 bp):
ATTATATATGATAAATTAAAACT
Found at i:588031 original size:49 final size:49
Alignment explanation
Indices: 587954--588050 Score: 185
Period size: 49 Copynumber: 2.0 Consensus size: 49
587944 TCTTATTGAG
*
587954 TTAGCTATTAATTAACCAACTATTACCTCTCGTCCTCTAACTAATTAAC
1 TTAGCTATTAATTAACCAACTATAACCTCTCGTCCTCTAACTAATTAAC
588003 TTAGCTATTAATTAACCAACTATAACCTCTCGTCCTCTAACTAATTAA
1 TTAGCTATTAATTAACCAACTATAACCTCTCGTCCTCTAACTAATTAA
588051 TTAATCAACC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.34, C:0.26, G:0.04, T:0.36
Consensus pattern (49 bp):
TTAGCTATTAATTAACCAACTATAACCTCTCGTCCTCTAACTAATTAAC
Found at i:588054 original size:41 final size:44
Alignment explanation
Indices: 587960--588062 Score: 122
Period size: 49 Copynumber: 2.3 Consensus size: 44
587950 TGAGTTAGCT
*
587960 ATTAATTAACCAACTATTACCTCTCGTCCTCTAACTAATTAACTTAGC
1 ATTAATTAACCAACTATAACCTCTCGTCCTCTAAC--A-TAACTTA-C
588008 TATTAATTAACCAACTATAACCTCTCGTCCTCTAAC-TAA-TTA-
1 -ATTAATTAACCAACTATAACCTCTCGTCCTCTAACATAACTTAC
*
588050 ATTAATCAACCAA
1 ATTAATTAACCAA
588063 TACATGCTTA
Statistics
Matches: 52, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
41 12 0.23
44 3 0.06
45 3 0.06
49 34 0.65
ACGTcount: A:0.37, C:0.26, G:0.03, T:0.34
Consensus pattern (44 bp):
ATTAATTAACCAACTATAACCTCTCGTCCTCTAACATAACTTAC
Found at i:595248 original size:511 final size:511
Alignment explanation
Indices: 594287--595308 Score: 1967
Period size: 511 Copynumber: 2.0 Consensus size: 511
594277 AAATGTTGGC
594287 ATTGGAAATAAGAGATTTAAGGCACTAAAAGTGGGATTGAAATTTGGCATGAGATATTTGCAATT
1 ATTGGAAATAAGAGATTTAAGGCACTAAAAGTGGGATTGAAATTTGGCATGAGATATTTGCAATT
594352 TTTGGTCCATAATTGTATAGTGACTTTGCAAGTTGATCCCTGAATCTCAACTATAAATAGGCCTA
66 TTTGGTCCATAATTGTATAGTGACTTTGCAAGTTGATCCCTGAATCTCAACTATAAATAGGCCTA
*** *
594417 ACCATTTATCATTTTCGATCATCCCCAACATTTGCCATTCTCTCCTTAAGGCATTGTTCTCTCTC
131 ACCATTTATCATTTTCGATCATCCCCAACATTTAAAATTCTATCCTTAAGGCATTGTTCTCTCTC
594482 TTTATTTGTAAATTTTCTCTTGTATTTTGGAGTCAAATATATTTATTAGTGCCTGAGGACGTAGG
196 TTTATTTGTAAATTTTCTCTTGTATTTTGGAGTCAAATATATTTATTAGTGCCTGAGGACGTAGG
594547 TAAAATTTGCTGAACCTTGTTAAAATTCTTGTGTTCTTTATTGTTTCATTTGCATATTTTGTGAG
261 TAAAATTTGCTGAACCTTGTTAAAATTCTTGTGTTCTTTATTGTTTCATTTGCATATTTTGTGAG
594612 TGTGATTGTAATGATTTATTGTACGGTTAAATAACGATAGAGGGATATTCTGGCTAGGAAAGACC
326 TGTGATTGTAATGATTTATTGTACGGTTAAATAACGATAGAGGGATATTCTGGCTAGGAAAGACC
594677 AAGTACTTAAGTGGTCCTTATGATCTCCCTCTCTTCCCTAAGAATTGAACTTAGTGTGATTTTTC
391 AAGTACTTAAGTGGTCCTTATGATCTCCCTCTCTTCCCTAAGAATTGAACTTAGTGTGATTTTTC
594742 AGTACAATAATTTTACTATTTTACACGCTTCCGCGCAACAATTTGTATTAGCGCTA
456 AGTACAATAATTTTACTATTTTACACGCTTCCGCGCAACAATTTGTATTAGCGCTA
594798 ATTGGAAATAAGAGATTTAAGGCACTAAAAGTGGGATTGAAATTTGGCATGAGATATTTGCAATT
1 ATTGGAAATAAGAGATTTAAGGCACTAAAAGTGGGATTGAAATTTGGCATGAGATATTTGCAATT
594863 TTTGGTCCATAATTGTATAGTGACTTTGCAAGTTGATCCCTGAATCTCAACTATAAATAGGCCTA
66 TTTGGTCCATAATTGTATAGTGACTTTGCAAGTTGATCCCTGAATCTCAACTATAAATAGGCCTA
*
594928 ACCATTTTTCATTTTC-ATTCATCCCTC-ACATTTAAAATTCTATCCTTAAGGCATTGTTCTCTC
131 ACCATTTATCATTTTCGA-TCATCCC-CAACATTTAAAATTCTATCCTTAAGGCATTGTTCTCTC
594991 TCTTTATTTGTAAATTTTCTCTTGTATTTTGGAGTCAAATATATTTATTAGTGCCTGAGGACGTA
194 TCTTTATTTGTAAATTTTCTCTTGTATTTTGGAGTCAAATATATTTATTAGTGCCTGAGGACGTA
595056 GGTAAAATTTGCTGAACCTTGTTAAAATTCTTGTGTTCTTTATTGTTTCATTTGCATATTTTGTG
259 GGTAAAATTTGCTGAACCTTGTTAAAATTCTTGTGTTCTTTATTGTTTCATTTGCATATTTTGTG
595121 AGTGTGATTGTAATGATTTATTGTACGGTTAAATAACGATAGAGGGATATTCTGGCTAGGAAAGA
324 AGTGTGATTGTAATGATTTATTGTACGGTTAAATAACGATAGAGGGATATTCTGGCTAGGAAAGA
595186 CCAAGTACTTAAGTGGTCCTTATGATCTCCCTCTCTTCCCTAAGAATTGAACTTAGTGTGATTTT
389 CCAAGTACTTAAGTGGTCCTTATGATCTCCCTCTCTTCCCTAAGAATTGAACTTAGTGTGATTTT
595251 TCAGTACAATAATTTTACTATTTTACACGCTTCCGCGCAACAATTTGTATTAGCGCTA
454 TCAGTACAATAATTTTACTATTTTACACGCTTCCGCGCAACAATTTGTATTAGCGCTA
595309 GGTTTGTACT
Statistics
Matches: 504, Mismatches: 5, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
510 1 0.00
511 502 1.00
512 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.39
Consensus pattern (511 bp):
ATTGGAAATAAGAGATTTAAGGCACTAAAAGTGGGATTGAAATTTGGCATGAGATATTTGCAATT
TTTGGTCCATAATTGTATAGTGACTTTGCAAGTTGATCCCTGAATCTCAACTATAAATAGGCCTA
ACCATTTATCATTTTCGATCATCCCCAACATTTAAAATTCTATCCTTAAGGCATTGTTCTCTCTC
TTTATTTGTAAATTTTCTCTTGTATTTTGGAGTCAAATATATTTATTAGTGCCTGAGGACGTAGG
TAAAATTTGCTGAACCTTGTTAAAATTCTTGTGTTCTTTATTGTTTCATTTGCATATTTTGTGAG
TGTGATTGTAATGATTTATTGTACGGTTAAATAACGATAGAGGGATATTCTGGCTAGGAAAGACC
AAGTACTTAAGTGGTCCTTATGATCTCCCTCTCTTCCCTAAGAATTGAACTTAGTGTGATTTTTC
AGTACAATAATTTTACTATTTTACACGCTTCCGCGCAACAATTTGTATTAGCGCTA
Found at i:601594 original size:284 final size:284
Alignment explanation
Indices: 601084--601629 Score: 792
Period size: 284 Copynumber: 1.9 Consensus size: 284
601074 ATTCGAGAAT
* * * * *
601084 ACTTAATATACAAGGAAGTGACACCCTAGTAGAAGATCTAGATAGGTGAGACCTAGAGGGTGTCA
1 ACTTAATATACAAGGAAATGACACCCTAGTAGAAGATCTAGACAAGTGAGACCGAGAGGGTATCA
* ** * * *
601149 TTTTGAATAGAACTCGTACCAAGTGGTGGGACTAAGAGAGTACTCGTTTGCCTAGCTGAGACCGA
66 TTTTCAATAGAACTCGTACCAAGTCATGGGACCAAGAGAGTACTCGTATGCCTAGATGAGACCGA
* * * * *
601214 GAGGGCATCTTAGGTTGTAATTATCGGTGAAGATGAAACCTAGAGGGTATTCTAAACTAAGGGTA
131 AAGGGCATCTTAGATGGTAATTATCAGTGAAGATGAAACCAAGAGGGTATTCTAAACTAAGGGTA
*
601279 GTAAATACTTAATCAAAGGTCATTGTTGACTTAGTTAATAATTAGGGCTAAAATTGATTCTTGGC
196 GTAAATACTTAATCAAAGGTCATTGTTGACTTAATTAATAATTAGGGCTAAAATTGATTCTTGGC
601344 TGAGAGGGCTAAAATTGATTCTTG
261 TGAGAGGGCTAAAATTGATTCTTG
601368 ACTTAATATA-AAGGGAAATGACACCCTAGTAGAAGATCTAGACAAGTGAGACCGAGAGGGTATC
1 ACTTAATATACAA-GGAAATGACACCCTAGTAGAAGATCTAGACAAGTGAGACCGAGAGGGTATC
* *
601432 -TTGTTCAGTAGAACTCGTACCAAGTCATGGGACCAATAGAGTA-TCCGTATGCCTAGATGAGAC
65 ATT-TTCAATAGAACTCGTACCAAGTCATGGGACCAAGAGAGTACT-CGTATGCCTAGATGAGAC
* * * * *
601495 TGAAAGGGCATCTTAGATGGTAATTCTTAGTGAAGATGAAACCAAGAGGGTATTCTTAGCTAAGG
128 CGAAAGGGCATCTTAGATGGTAATTATCAGTGAAGATGAAACCAAGAGGGTATTCTAAACTAAGG
* * * *
601560 GTAGTAAATACTTAATTAAAGGTTATTGTTGACTTAATTAATAATTAGGGTTAAAATTTATTCTT
193 GTAGTAAATACTTAATCAAAGGTCATTGTTGACTTAATTAATAATTAGGGCTAAAATTGATTCTT
601625 GGCTG
258 GGCTG
601630 GGATGGCTCA
Statistics
Matches: 231, Mismatches: 28, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
283 5 0.02
284 226 0.98
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.29
Consensus pattern (284 bp):
ACTTAATATACAAGGAAATGACACCCTAGTAGAAGATCTAGACAAGTGAGACCGAGAGGGTATCA
TTTTCAATAGAACTCGTACCAAGTCATGGGACCAAGAGAGTACTCGTATGCCTAGATGAGACCGA
AAGGGCATCTTAGATGGTAATTATCAGTGAAGATGAAACCAAGAGGGTATTCTAAACTAAGGGTA
GTAAATACTTAATCAAAGGTCATTGTTGACTTAATTAATAATTAGGGCTAAAATTGATTCTTGGC
TGAGAGGGCTAAAATTGATTCTTG
Found at i:607537 original size:27 final size:26
Alignment explanation
Indices: 607504--607640 Score: 132
Period size: 27 Copynumber: 5.2 Consensus size: 26
607494 AAGGGTCGTT
607504 AAATGACCAAAATACCCTCAAAGGGTA
1 AAATGACCAAAATACCC-CAAAGGGTA
** *
607531 AAATGACTGAAATACCCCCAAAGGTTA
1 AAATGACCAAAATA-CCCCAAAGGGTA
* *
607558 AAATGACCAAAGTAACCCCGAAGGGTA
1 AAATGACCAAAAT-ACCCCAAAGGGTA
* ** * *
607585 AAATGTCTGAAATATCCTCAAAGTGTA
1 AAATGACCAAAATA-CCCCAAAGGGTA
*
607612 AAATGACCAAAATACCCC-TAGGGTA
1 AAATGACCAAAATACCCCAAAGGGTA
607637 AAAT
1 AAAT
607641 TACCGTTTTA
Statistics
Matches: 86, Mismatches: 21, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
25 9 0.10
26 4 0.05
27 69 0.80
28 4 0.05
ACGTcount: A:0.45, C:0.20, G:0.16, T:0.18
Consensus pattern (26 bp):
AAATGACCAAAATACCCCAAAGGGTA
Found at i:607567 original size:54 final size:52
Alignment explanation
Indices: 607504--607640 Score: 177
Period size: 54 Copynumber: 2.6 Consensus size: 52
607494 AAGGGTCGTT
607504 AAATGACCAAAATACCCTCAAAGGGTAAAATGACTGAAATACCCCCAAAG-GTTA
1 AAATGACCAAAATACCC-C-AAGGGTAAAATGACTGAAATACCCCCAAAGTG-TA
* * * *
607558 AAATGACCAAAGTAACCCCGAAGGGTAAAATGTCTGAAATATCCTCAAAGTGTA
1 AAATGACCAAAAT-ACCCC-AAGGGTAAAATGACTGAAATACCCCCAAAGTGTA
*
607612 AAATGACCAAAATACCCCTAGGGTAAAAT
1 AAATGACCAAAATACCCCAAGGGTAAAAT
607641 TACCGTTTTA
Statistics
Matches: 74, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
52 10 0.14
53 5 0.07
54 54 0.73
55 5 0.07
ACGTcount: A:0.45, C:0.20, G:0.16, T:0.18
Consensus pattern (52 bp):
AAATGACCAAAATACCCCAAGGGTAAAATGACTGAAATACCCCCAAAGTGTA
Found at i:612384 original size:40 final size:40
Alignment explanation
Indices: 612326--612436 Score: 123
Period size: 40 Copynumber: 2.8 Consensus size: 40
612316 ACACATGCAT
* * * *
612326 TTTCGATCCATACTTATTGAATCTACTAAAACGTATGTGC
1 TTTCGAGCCAAACCTATTGAATCTACTAAAACATATGTGC
* * *
612366 TTTTGAGCCAAATCTATTGAATCTACTGAAACATATGTGC
1 TTTCGAGCCAAACCTATTGAATCTACTAAAACATATGTGC
* * * *
612406 TTTCGAGTCATACCTACTGAATTTACTAAAA
1 TTTCGAGCCAAACCTATTGAATCTACTAAAA
612437 AGAGTGCTCT
Statistics
Matches: 57, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
40 57 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (40 bp):
TTTCGAGCCAAACCTATTGAATCTACTAAAACATATGTGC
Found at i:612908 original size:18 final size:19
Alignment explanation
Indices: 612879--612914 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
612869 GCTTGTTTGC
*
612879 TTAAGTTGAAATGAATGAT
1 TTAAGTTGAAATCAATGAT
612898 TTAAG-TGAAATCAATGA
1 TTAAGTTGAAATCAATGA
612915 CACTATATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.44, C:0.03, G:0.19, T:0.33
Consensus pattern (19 bp):
TTAAGTTGAAATCAATGAT
Found at i:613384 original size:19 final size:20
Alignment explanation
Indices: 613348--613385 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
613338 ATGCACATGG
*
613348 GCATGTAAGGTCACACACAA
1 GCATGTAAGGTCAAACACAA
*
613368 GCATGT-AGGTTAAACACA
1 GCATGTAAGGTCAAACACA
613386 CGACCATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 10 0.62
20 6 0.38
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.18
Consensus pattern (20 bp):
GCATGTAAGGTCAAACACAA
Found at i:614935 original size:20 final size:20
Alignment explanation
Indices: 614910--614949 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
614900 AGGTGCTATT
*
614910 CAGGGGCACCGAAGTACAAA
1 CAGGGGCACCAAAGTACAAA
614930 CAGGGGCACCAAAGTACAAA
1 CAGGGGCACCAAAGTACAAA
614950 TAAAGGCACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.42, C:0.25, G:0.28, T:0.05
Consensus pattern (20 bp):
CAGGGGCACCAAAGTACAAA
Found at i:614957 original size:20 final size:20
Alignment explanation
Indices: 614914--614958 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
614904 GCTATTCAGG
* **
614914 GGCACCGAAGTACAAACAGG
1 GGCACCAAAGTACAAACAAA
*
614934 GGCACCAAAGTACAAATAAA
1 GGCACCAAAGTACAAACAAA
614954 GGCAC
1 GGCAC
614959 ATATGTCCAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.44, C:0.24, G:0.24, T:0.07
Consensus pattern (20 bp):
GGCACCAAAGTACAAACAAA
Found at i:627146 original size:32 final size:32
Alignment explanation
Indices: 627110--627173 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
627100 AGAAAATATC
*
627110 TCAATTTGATTTTATTCCAATCAAATTGATTT
1 TCAATTTGATTTGATTCCAATCAAATTGATTT
** *
627142 TCAATTTGATTTGATTTTATTCAAATTGATTT
1 TCAATTTGATTTGATTCCAATCAAATTGATTT
627174 AAATGCTCAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.30, C:0.09, G:0.08, T:0.53
Consensus pattern (32 bp):
TCAATTTGATTTGATTCCAATCAAATTGATTT
Found at i:628174 original size:77 final size:77
Alignment explanation
Indices: 627892--628213 Score: 319
Period size: 77 Copynumber: 4.1 Consensus size: 77
627882 TATTCCTTTT
** *
627892 TTTTGTTTCCAAACAAGAAATAATTGAATAA-TCTGTATCGGGATTTATTC-CTACCGTTTAACA
1 TTTTGTTTCCAAACAAGATTTAATTAAATAATTCTGTATCGGGATTTATTCTC-ACCGTTTAACA
*
627955 GGTTTGATTTGATTTTGA
65 -----GATTTTATTTTGA
* * * *
627973 TTTTGTTTCCAAATGAAGATTTAATTAAATAATTGTGTTAT-GGGATTTATTCCCACCATTTAAC
1 TTTTGTTTCCAAA-CAAGATTTAATTAAATAATTCTG-TATCGGGATTTATTCTCACCGTTTAAC
* *
628037 AGATTTCATTTTGG
64 AGATTTTATTTTGA
* * * * *
628051 TTTTGTTTTCAAACAATATTTAATTAAAGAATTCTATTTCGGGATTTATTCTCACCGTTTAACAG
1 TTTTGTTTCCAAACAAGATTTAATTAAATAATTCTGTATCGGGATTTATTCTCACCGTTTAACAG
628116 ATTTTATTTTGA
66 ATTTTATTTTGA
* * * ** *
628128 TTTTGTTTCCAAACAAGATTTTATTAAATAACTT-TGTATCGAGATTTAATCTTGCCATTTAACA
1 TTTTGTTTCCAAACAAGATTTAATTAAATAA-TTCTGTATCGGGATTTATTCTCACCGTTTAACA
** *
628192 GAACTAATTTTGA
65 GATTTTATTTTGA
628205 TTTTGTTTC
1 TTTTGTTTC
628214 AAAATTTAAA
Statistics
Matches: 202, Mismatches: 33, Indels: 16
0.80 0.13 0.06
Matches are distributed among these distances:
76 2 0.01
77 120 0.59
78 25 0.12
81 13 0.06
82 14 0.07
83 24 0.12
84 4 0.02
ACGTcount: A:0.30, C:0.12, G:0.13, T:0.45
Consensus pattern (77 bp):
TTTTGTTTCCAAACAAGATTTAATTAAATAATTCTGTATCGGGATTTATTCTCACCGTTTAACAG
ATTTTATTTTGA
Found at i:628186 original size:154 final size:155
Alignment explanation
Indices: 627929--628216 Score: 361
Period size: 154 Copynumber: 1.8 Consensus size: 155
627919 ATAATCTGTA
*
627929 TCGGGATTTATTCCTACCGTTTAACAGGTTTGATTTGATTTTGATTTTGTTTCCAAATGAAGATT
1 TCGGGATTTATTCCTACCGTTTAACA----TGATTTGATTTTGATTTTGTTTCCAAATCAAGATT
* * ** * *
627994 TAATTAAATAATTGTGTTATGGGATTTATTCCCACCATTTAACAGATTTCATTTTGGTTTTGTTT
62 TAATTAAATAATTGTGTTATGAGATTTAATCCCACCATTTAACAGAACTAATTTTGATTTTG-TT
628059 TCAAACAATATTTAATTAAAGAATTCTATT
126 TCAAACAATATTTAATTAAAGAATTCTATT
* *
628089 TCGGGATTTATT-CTCACCGTTTAACA-GATTTTATTTTGATTTTGTTTCCAAA-CAAGATTTTA
1 TCGGGATTTATTCCT-ACCGTTTAACATGATTTGATTTTGATTTTGTTTCCAAATCAAGATTTAA
***
628151 TTAAATAACTT-TG-TATCGAGATTTAATCTTGCCATTTAACAGAACTAATTTTGATTTTGTTTC
65 TTAAATAA-TTGTGTTAT-GAGATTTAATCCCACCATTTAACAGAACTAATTTTGATTTTGTTTC
628214 AAA
128 AAA
628217 ATTTAAATTC
Statistics
Matches: 113, Mismatches: 12, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
153 10 0.09
154 51 0.45
155 27 0.24
159 2 0.02
160 23 0.20
ACGTcount: A:0.29, C:0.12, G:0.13, T:0.46
Consensus pattern (155 bp):
TCGGGATTTATTCCTACCGTTTAACATGATTTGATTTTGATTTTGTTTCCAAATCAAGATTTAAT
TAAATAATTGTGTTATGAGATTTAATCCCACCATTTAACAGAACTAATTTTGATTTTGTTTCAAA
CAATATTTAATTAAAGAATTCTATT
Found at i:629567 original size:17 final size:18
Alignment explanation
Indices: 629530--629568 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
629520 ATTTCCAATG
*
629530 AAGTGTTTGACATGGACTT
1 AAGTGTATGACAT-GACTT
629549 AAGTGTATGACAT-ACTT
1 AAGTGTATGACATGACTT
629566 AAG
1 AAG
629569 AATCATGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
19 12 0.63
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.33
Consensus pattern (18 bp):
AAGTGTATGACATGACTT
Found at i:646897 original size:25 final size:25
Alignment explanation
Indices: 646840--646897 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
646830 ATTTTTCTCC
*
646840 TAAATTTTAATTTTATTTAATTATT
1 TAAATTTTAATTTTATTGAATTATT
*
646865 TAAGTTTTCAA-TTTATTGAATTA-T
1 TAAATTTT-AATTTTATTGAATTATT
646889 TAATATTTT
1 TAA-ATTTT
646898 GTACTAATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
24 4 0.14
25 22 0.79
26 2 0.07
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.60
Consensus pattern (25 bp):
TAAATTTTAATTTTATTGAATTATT
Found at i:651400 original size:27 final size:27
Alignment explanation
Indices: 651362--651557 Score: 227
Period size: 27 Copynumber: 7.3 Consensus size: 27
651352 AATCATGGGC
*
651362 AAATGATCGAATTACCCTCGAAGGGTA
1 AAATGACCGAATTACCCTCGAAGGGTA
*
651389 AAATGACCGAATTACCCCCGAAGGGTA
1 AAATGACCGAATTACCCTCGAAGGGTA
*
651416 AAATGATCGAATTACCC-CTGAAGGGTA
1 AAATGACCGAATTACCCTC-GAAGGGTA
* *
651443 AAATGATCGAATTACCCCCGAAGGGTA
1 AAATGACCGAATTACCCTCGAAGGGTA
*
651470 AAATGACCGAATTA-GCTCCGAAGGGTA
1 AAATGACCGAATTACCCT-CGAAGGGTA
* * * *
651497 AAATTACTGAAGTACCCTCGAAGGATA
1 AAATGACCGAATTACCCTCGAAGGGTA
* * *
651524 AAATGACCGAAATACCC-CTATAGGGTG
1 AAATGACCGAATTACCCTCGA-AGGGTA
651551 AAATGAC
1 AAATGAC
651558 TATTATACCC
Statistics
Matches: 147, Mismatches: 17, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
26 4 0.03
27 140 0.95
28 3 0.02
ACGTcount: A:0.38, C:0.20, G:0.22, T:0.19
Consensus pattern (27 bp):
AAATGACCGAATTACCCTCGAAGGGTA
Found at i:651497 original size:81 final size:81
Alignment explanation
Indices: 651362--651541 Score: 256
Period size: 81 Copynumber: 2.2 Consensus size: 81
651352 AATCATGGGC
*
651362 AAATGATCGAATTACCCTCGAAGGGTAAAATGACCGAATTACCCCCGAAGGGTAAAATGA-TCGA
1 AAATGATCGAATTACCCCCGAAGGGTAAAATGACCGAATTACCCCCGAAGGGTAAAATGACT-GA
* *
651426 ATTACCC-CTGAAGGGTA
65 AGTACCCTC-GAAGGATA
* * *
651443 AAATGATCGAATTACCCCCGAAGGGTAAAATGACCGAATTAGCTCCGAAGGGTAAAATTACTGAA
1 AAATGATCGAATTACCCCCGAAGGGTAAAATGACCGAATTACCCCCGAAGGGTAAAATGACTGAA
651508 GTACCCTCGAAGGATA
66 GTACCCTCGAAGGATA
* *
651524 AAATGACCGAAATACCCC
1 AAATGATCGAATTACCCC
651542 TATAGGGTGA
Statistics
Matches: 89, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
81 87 0.98
82 2 0.02
ACGTcount: A:0.38, C:0.22, G:0.21, T:0.19
Consensus pattern (81 bp):
AAATGATCGAATTACCCCCGAAGGGTAAAATGACCGAATTACCCCCGAAGGGTAAAATGACTGAA
GTACCCTCGAAGGATA
Found at i:651748 original size:26 final size:26
Alignment explanation
Indices: 651719--651773 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
651709 TACTGGTGGT
651719 TTTGCCACATATACTG-TACTGGCAGC
1 TTTGCCACAT-TACTGTTACTGGCAGC
**
651745 TTTGCTGCATTACTGTTACTGGCAGC
1 TTTGCCACATTACTGTTACTGGCAGC
651771 TTT
1 TTT
651774 AGTGCATCTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 5 0.19
26 21 0.81
ACGTcount: A:0.18, C:0.24, G:0.20, T:0.38
Consensus pattern (26 bp):
TTTGCCACATTACTGTTACTGGCAGC
Found at i:651779 original size:26 final size:27
Alignment explanation
Indices: 651730--651802 Score: 100
Period size: 26 Copynumber: 2.8 Consensus size: 27
651720 TTGCCACATA
651730 TACTG-TACTGGCAGCTTTGCTGCAT-
1 TACTGTTACTGGCAGCTTTGCTGCATC
651755 TACTGTTACTGGCAGCTTTAG-TGCATC
1 TACTGTTACTGGCAGCTTT-GCTGCATC
*
651782 T-CTATTACTGGCAGCTTTGCT
1 TACTGTTACTGGCAGCTTTGCT
651803 ACGATATTGG
Statistics
Matches: 43, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
25 6 0.14
26 35 0.81
27 2 0.05
ACGTcount: A:0.16, C:0.23, G:0.22, T:0.38
Consensus pattern (27 bp):
TACTGTTACTGGCAGCTTTGCTGCATC
Found at i:657565 original size:6 final size:6
Alignment explanation
Indices: 657549--657587 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
657539 AAGAAGCAGC
* * *
657549 TAAAAA CAAAAT TAAAAA TAAAGA TAAAAA TAAAAA TAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAA
657588 CTAAAACGAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.77, C:0.03, G:0.03, T:0.18
Consensus pattern (6 bp):
TAAAAA
Found at i:657715 original size:5 final size:5
Alignment explanation
Indices: 657699--657822 Score: 58
Period size: 5 Copynumber: 23.4 Consensus size: 5
657689 TAATTAGCAT
* *
657699 AAATA AATTA AAATA AAATTA AAATA CAAGCATA AGAATA ATAAAA CAAAT-
1 AAATA AAATA AAATA AAA-TA AAATA -AA--ATA A-AATA A-AATA -AAATA
* * * * *
657750 AAATA AAATA AGAA-A ATATA TTATTC AAATA AAA-A TAAATA ATATA
1 AAATA AAATA A-AATA AAATA -AAATA AAATA AAATA -AAATA AAATA
657796 ACAA-A AAATA AAATA AAATA AAATA AA
1 A-AATA AAATA AAATA AAATA AAATA AA
657823 CAAAAGGGTA
Statistics
Matches: 90, Mismatches: 15, Indels: 28
0.68 0.11 0.21
Matches are distributed among these distances:
4 8 0.09
5 55 0.61
6 21 0.23
7 2 0.02
8 4 0.04
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.23
Consensus pattern (5 bp):
AAATA
Found at i:658949 original size:69 final size:69
Alignment explanation
Indices: 658869--659101 Score: 376
Period size: 69 Copynumber: 3.4 Consensus size: 69
658859 ATCAATTTGG
* * * * * *
658869 ACAGCTTATATACAACAAATGGGCAACATATACATACCAAATTTAACAACACTTTTACACCAAAA
1 ACAGCATATATACAACAAATGGGCAGCATATACATACCAAATTGAGCAGCATTTTTACACCAAAA
658934 TTTA
66 TTTA
* * *
658938 ACAGCATATATACAACAAATGGGCAGGATATACATGCCAAATTGAGTAGCATTTTTACACCAAAA
1 ACAGCATATATACAACAAATGGGCAGCATATACATACCAAATTGAGCAGCATTTTTACACCAAAA
659003 TTTA
66 TTTA
*
659007 ACAGCATATATACAACAAATGGGCAGCATATACGTACCAAATTGAGCAGCATTTTTACACCAAAA
1 ACAGCATATATACAACAAATGGGCAGCATATACATACCAAATTGAGCAGCATTTTTACACCAAAA
659072 TTTA
66 TTTA
659076 ACAGCATATATACAACAAATGGGCAG
1 ACAGCATATATACAACAAATGGGCAG
659102 TGTTGAAACC
Statistics
Matches: 151, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
69 151 1.00
ACGTcount: A:0.44, C:0.20, G:0.12, T:0.24
Consensus pattern (69 bp):
ACAGCATATATACAACAAATGGGCAGCATATACATACCAAATTGAGCAGCATTTTTACACCAAAA
TTTA
Found at i:658951 original size:24 final size:24
Alignment explanation
Indices: 658897--658956 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 24
658887 ATGGGCAACA
*
658897 TATACATACCAAATTTAACAACACT
1 TATACA-ACAAAATTTAACAACACT
* * *
658922 TTTACACCAAAATTTAACAGCA-T
1 TATACAACAAAATTTAACAACACT
658945 ATATACAACAAA
1 -TATACAACAAA
658957 TGGGCAGGAT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
23 1 0.04
24 22 0.79
25 5 0.18
ACGTcount: A:0.50, C:0.22, G:0.02, T:0.27
Consensus pattern (24 bp):
TATACAACAAAATTTAACAACACT
Found at i:659012 original size:24 final size:23
Alignment explanation
Indices: 658904--659095 Score: 74
Period size: 24 Copynumber: 8.3 Consensus size: 23
658894 ACATATACAT
* *
658904 ACCAAATTTAACAACACTTT-TAC
1 ACCAAATTGAACAGCA-TTTATAC
* *
658927 ACCAAAATTTAACAGCATATATAC
1 ACC-AAATTGAACAGCATTTATAC
* ** *
658951 AACAAA-TGGGCAGGA--TATAC
1 ACCAAATTGAACAGCATTTATAC
** *
658971 ATGCCAAATTGAGTAGCATTTTTAC
1 A--CCAAATTGAACAGCATTTATAC
* *
658996 ACCAAAATTTAACAGCATATATAC
1 ACC-AAATTGAACAGCATTTATAC
* **
659020 AACAAA-TGGGCAGCA--TATAC
1 ACCAAATTGAACAGCATTTATAC
* *
659040 GTACCAAATTGAGCAGCATTTTTAC
1 --ACCAAATTGAACAGCATTTATAC
* *
659065 ACCAAAATTTAACAGCATATATAC
1 ACC-AAATTGAACAGCATTTATAC
*
659089 AACAAAT
1 ACCAAAT
659096 GGGCAGTGTT
Statistics
Matches: 126, Mismatches: 29, Indels: 28
0.69 0.16 0.15
Matches are distributed among these distances:
20 11 0.09
22 20 0.16
23 34 0.27
24 52 0.41
25 9 0.07
ACGTcount: A:0.44, C:0.20, G:0.10, T:0.26
Consensus pattern (23 bp):
ACCAAATTGAACAGCATTTATAC
Found at i:659036 original size:22 final size:23
Alignment explanation
Indices: 658939--659095 Score: 88
Period size: 24 Copynumber: 6.8 Consensus size: 23
658929 CAAAATTTAA
*
658939 CAGCATATATACAACAAA-TGGG
1 CAGCATATATACAACAAATTGAG
* * ***
658961 CAGGATATACATGCCAAATTGAG
1 CAGCATATATACAACAAATTGAG
* * * * * *
658984 TAGCATTTTTACACCAAAATTTAA
1 CAGCATATATACAAC-AAATTGAG
*
659008 CAGCATATATACAACAAA-TGGG
1 CAGCATATATACAACAAATTGAG
659030 CAGCATATACGTAC--CAAATTGAG
1 CAGCATATA--TACAACAAATTGAG
* * * * *
659053 CAGCATTTTTACACCAAAATTTAA
1 CAGCATATATACAAC-AAATTGAG
659077 CAGCATATATACAACAAAT
1 CAGCATATATACAACAAAT
659096 GGGCAGTGTT
Statistics
Matches: 97, Mismatches: 30, Indels: 15
0.68 0.21 0.11
Matches are distributed among these distances:
21 3 0.03
22 27 0.28
23 29 0.30
24 38 0.39
ACGTcount: A:0.43, C:0.19, G:0.13, T:0.25
Consensus pattern (23 bp):
CAGCATATATACAACAAATTGAG
Found at i:660351 original size:20 final size:21
Alignment explanation
Indices: 660312--660352 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
660302 AAATATTAGT
660312 TAAAAAAATAAATATGTACATG
1 TAAAAAAATAAATA-GTACATG
660334 TAAAAAAATAAATA-TACAT
1 TAAAAAAATAAATAGTACAT
660353 ATATATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.26
22 14 0.74
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.27
Consensus pattern (21 bp):
TAAAAAAATAAATAGTACATG
Found at i:661201 original size:23 final size:22
Alignment explanation
Indices: 661154--661199 Score: 67
Period size: 23 Copynumber: 2.1 Consensus size: 22
661144 AAATATTAGT
*
661154 TAAAAAATAAATATGTGCATGTA
1 TAAAAAATAAATA-GTACATGTA
661177 TAAAAAATAAATA-TACATGTA
1 TAAAAAATAAATAGTACATGTA
661198 TA
1 TA
661200 TATATATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 9 0.41
23 13 0.59
ACGTcount: A:0.57, C:0.04, G:0.09, T:0.30
Consensus pattern (22 bp):
TAAAAAATAAATAGTACATGTA
Found at i:663391 original size:126 final size:126
Alignment explanation
Indices: 663166--663417 Score: 468
Period size: 126 Copynumber: 2.0 Consensus size: 126
663156 ACATACCTGA
*
663166 ATAATTTAGCTTTCTTAACACATTTATTTGTTTTTACTATTGCTCACATAAGATTTATAGAACAT
1 ATAATTTAGCTTTCTTAACACATTTATTTGTTTTTACTATTGCTCACATAAGATTTATAGAACAC
**
663231 AGAGCCTTGTATAAAACACCGGCATAAAGCCTGCTAGGCACAAAGCCCGATACATTTCACC
66 AGAGCCCCGTATAAAACACCGGCATAAAGCCTGCTAGGCACAAAGCCCGATACATTTCACC
663292 ATAATTTAGCTTTCTTAACACATTTATTTGTTTTTACTATTGCTCACATAAGATTTATAGAACAC
1 ATAATTTAGCTTTCTTAACACATTTATTTGTTTTTACTATTGCTCACATAAGATTTATAGAACAC
*
663357 ATAGCCCCGTATAAAACACCGGCATAAAGCCTGCTAGGCACAAAGCCCGATACATTTCACC
66 AGAGCCCCGTATAAAACACCGGCATAAAGCCTGCTAGGCACAAAGCCCGATACATTTCACC
663418 CGCACAAAGC
Statistics
Matches: 122, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
126 122 1.00
ACGTcount: A:0.33, C:0.23, G:0.12, T:0.32
Consensus pattern (126 bp):
ATAATTTAGCTTTCTTAACACATTTATTTGTTTTTACTATTGCTCACATAAGATTTATAGAACAC
AGAGCCCCGTATAAAACACCGGCATAAAGCCTGCTAGGCACAAAGCCCGATACATTTCACC
Found at i:663527 original size:41 final size:41
Alignment explanation
Indices: 663373--663527 Score: 220
Period size: 41 Copynumber: 3.8 Consensus size: 41
663363 CCGTATAAAA
* * * * *
663373 CACCGGCATAAAGCCTGCTAGGCACAAAGCCCGATACATTT
1 CACCGGCACAAAGCCTGCTAGGCATAAAGCCTGATATAATT
* * *
663414 CACCCGCACAAAGCCTGCTAGACATAAAGTCTGATATAATT
1 CACCGGCACAAAGCCTGCTAGGCATAAAGCCTGATATAATT
*
663455 CACTGGCACAAAGCCTGCTAGGCATAAAGCCTGATATAATT
1 CACCGGCACAAAGCCTGCTAGGCATAAAGCCTGATATAATT
*
663496 CACCGGCATAAAGCCTGCTAGGCATAAAGCCT
1 CACCGGCACAAAGCCTGCTAGGCATAAAGCCT
663528 AAACTTACAA
Statistics
Matches: 100, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 100 1.00
ACGTcount: A:0.34, C:0.28, G:0.19, T:0.19
Consensus pattern (41 bp):
CACCGGCACAAAGCCTGCTAGGCATAAAGCCTGATATAATT
Found at i:668159 original size:22 final size:21
Alignment explanation
Indices: 668126--668183 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 21
668116 ATATATTATT
* *
668126 CAAATAAAAATAAATAATATAA
1 CAAA-AAAAATAAAAAATAAAA
668148 CAAAAAATAATAAAAAATAAAA
1 CAAAAAA-AATAAAAAATAAAA
*
668170 GAAAAGAAAATAAA
1 CAAAA-AAAATAAA
668184 GAAAAGGGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
21 3 0.10
22 26 0.84
23 2 0.06
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.16
Consensus pattern (21 bp):
CAAAAAAAATAAAAAATAAAA
Found at i:668186 original size:14 final size:15
Alignment explanation
Indices: 668161--668189 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
668151 AAAATAATAA
668161 AAAATAAAAGAAAAG
1 AAAATAAAAGAAAAG
668176 AAAAT-AAAGAAAAG
1 AAAATAAAAGAAAAG
668190 GGTAAAAGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.79, C:0.00, G:0.14, T:0.07
Consensus pattern (15 bp):
AAAATAAAAGAAAAG
Found at i:670646 original size:14 final size:14
Alignment explanation
Indices: 670627--670653 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
670617 AGAAGCAAAT
670627 AAAATAAAAATTAG
1 AAAATAAAAATTAG
670641 AAAATAAAAATTA
1 AAAATAAAAATTA
670654 AACTAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (14 bp):
AAAATAAAAATTAG
Found at i:670650 original size:6 final size:6
Alignment explanation
Indices: 670623--670687 Score: 60
Period size: 6 Copynumber: 10.7 Consensus size: 6
670613 TGCCAGAAGC
* * * *
670623 AAAT-A AAATAA AAATTAGA AAATAA AAATTA AACTAA AAATGA AAATTA
1 AAATAA AAATAA AAA-TA-A AAATAA AAATAA AAATAA AAATAA AAATAA
*
670672 TAATAA AAATAA AAAT
1 AAATAA AAATAA AAAT
670688 GGCTAAATTA
Statistics
Matches: 48, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
5 4 0.08
6 36 0.75
7 4 0.08
8 4 0.08
ACGTcount: A:0.72, C:0.02, G:0.03, T:0.23
Consensus pattern (6 bp):
AAATAA
Found at i:670668 original size:18 final size:18
Alignment explanation
Indices: 670641--670687 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
670631 TAAAAATTAG
670641 AAAATAAAAATTA-AACTA
1 AAAATAAAAATTATAA-TA
*
670659 AAAATGAAAATTATAATA
1 AAAATAAAAATTATAATA
670677 AAAATAAAAAT
1 AAAATAAAAAT
670688 GGCTAAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 24 0.92
19 2 0.08
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.23
Consensus pattern (18 bp):
AAAATAAAAATTATAATA
Found at i:670684 original size:24 final size:24
Alignment explanation
Indices: 670623--670688 Score: 71
Period size: 24 Copynumber: 2.7 Consensus size: 24
670613 TGCCAGAAGC
670623 AAAT-AAAATAAAAATTAGAAAATAA
1 AAATAAAAATAAAAA-T-GAAAATAA
* * *
670648 AAATTAAACTAAAAATGAAAATTA
1 AAATAAAAATAAAAATGAAAATAA
*
670672 TAATAAAAATAAAAATG
1 AAATAAAAATAAAAATG
670689 GCTAAATTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
24 21 0.60
25 5 0.14
26 9 0.26
ACGTcount: A:0.71, C:0.02, G:0.05, T:0.23
Consensus pattern (24 bp):
AAATAAAAATAAAAATGAAAATAA
Found at i:674816 original size:24 final size:24
Alignment explanation
Indices: 674784--674834 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
674774 TAGAGTATCA
674784 TGAGGATGTATTAAACTATTGCCT
1 TGAGGATGTATTAAACTATTGCCT
*
674808 TGAGGATGTATTAAACTATTGTCT
1 TGAGGATGTATTAAACTATTGCCT
674832 TGA
1 TGA
674835 TGCTTGTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.39
Consensus pattern (24 bp):
TGAGGATGTATTAAACTATTGCCT
Found at i:675493 original size:21 final size:21
Alignment explanation
Indices: 675469--675550 Score: 85
Period size: 21 Copynumber: 3.8 Consensus size: 21
675459 AATAAAGTAG
*
675469 ATTATATATTATCTTTATAGT
1 ATTATATATTATATTTATAGT
675490 ATTATATATTATGATTT-TAGT
1 ATTATATATTAT-ATTTATAGT
* * *
675511 AAATTCTATATTATTTTTATTGT
1 --ATTATATATTATATTTATAGT
675534 ATTATATATTATGATTT
1 ATTATATATTAT-ATTT
675551 TTTAATTCAT
Statistics
Matches: 50, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
21 27 0.54
22 9 0.18
23 14 0.28
ACGTcount: A:0.33, C:0.02, G:0.06, T:0.59
Consensus pattern (21 bp):
ATTATATATTATATTTATAGT
Found at i:675536 original size:44 final size:44
Alignment explanation
Indices: 675464--675551 Score: 140
Period size: 44 Copynumber: 2.0 Consensus size: 44
675454 AAAATAATAA
*
675464 AGTAGATTATATATTATCTTTATAGTATTATATATTATGATTTT
1 AGTAAATTATATATTATCTTTATAGTATTATATATTATGATTTT
* * *
675508 AGTAAATTCTATATTATTTTTATTGTATTATATATTATGATTTT
1 AGTAAATTATATATTATCTTTATAGTATTATATATTATGATTTT
675552 TTAATTCATA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.33, C:0.02, G:0.08, T:0.57
Consensus pattern (44 bp):
AGTAAATTATATATTATCTTTATAGTATTATATATTATGATTTT
Found at i:675864 original size:16 final size:16
Alignment explanation
Indices: 675843--675898 Score: 85
Period size: 16 Copynumber: 3.5 Consensus size: 16
675833 TGAATTACTT
*
675843 ATTACAACTCTATTCC
1 ATTACAGCTCTATTCC
* *
675859 ATTACAGCTCTCTTCA
1 ATTACAGCTCTATTCC
675875 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
675891 ATTACAGC
1 ATTACAGC
675899 GAACCAAACG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.29, C:0.30, G:0.05, T:0.36
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:676580 original size:43 final size:42
Alignment explanation
Indices: 676521--676916 Score: 306
Period size: 43 Copynumber: 9.2 Consensus size: 42
676511 TTTTAGAAAT
* * *
676521 AAACGCCACTATAGATCATGACCTTTAGCGGTGCTTCTTCCAG
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGTGCTT-TTCCAC
* * * *
676564 AAACGCCGCTATAGATCAGGACCTTTAGGGGCGCTTTTACAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGTGCTTTTCCAC
** * * * ** *
676606 AAACGCCATTATAGCTCAAGATCTGTAGCGGCACTTTTTTCCAA
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGTGC--TTTTCCAC
* *
676650 AAATGCCGCTATAGATCAAGACCTTTAGCGGTGCCTTTCCCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGTG-CTTTTCCAC
* *
676693 AAACGCCGCTATAGATCAAGACCTTTGGCTGTGCTTTTTCCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGTGC-TTTTCCAC
* ** ** **
676736 AAACGCCGCTATAGCTCAAGACCTTTATTGACGCTTTGTTTAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGTGCTTT-TCCAC
* ** ** **
676779 AAACGCCGCTATAGCTCAAGACCTTTATTGACGCTTTGTTTAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGTGCTTT-TCCAC
* * * **** *
676822 AAACGCTGCTATAGACCATGACCTTTAGCAACACTTTTTCCAA
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGTGC-TTTTCCAC
** * *
676865 AAACGCCGCTATAGGCCAAGACCTTTGGCGGCGCTTTTCCCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGTGCTTTT-CCAC
676908 AAACGCCGC
1 AAACGCCGC
676917 GAAAGACCAT
Statistics
Matches: 288, Mismatches: 58, Indels: 14
0.80 0.16 0.04
Matches are distributed among these distances:
42 38 0.13
43 215 0.75
44 34 0.12
45 1 0.00
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.27
Consensus pattern (42 bp):
AAACGCCGCTATAGATCAAGACCTTTAGCGGTGCTTTTCCAC
Found at i:676803 original size:86 final size:85
Alignment explanation
Indices: 676521--676916 Score: 355
Period size: 86 Copynumber: 4.6 Consensus size: 85
676511 TTTTAGAAAT
* * * * * * *
676521 AAACGCCACTATAGATCATGACCTTTAGCGGTGCTTCTTCCAGAAACGCCGCTATAGATCAGGAC
1 AAACGCCGCTATAGCTCAAGACCTTTAGCGGCGCTTTTTCCACAAACGCCGCTATAGATCAAGAC
* * *
676586 CTTTAGGGGCGCTTTTACAC
66 CTTTAGCGACGCTTTTTCAC
** * * * * *
676606 AAACGCCATTATAGCTCAAGATCTGTAGCGGCACTTTTTTCCAAAAATGCCGCTATAGATCAAGA
1 AAACGCCGCTATAGCTCAAGACCTTTAGCGGCGC-TTTTTCCACAAACGCCGCTATAGATCAAGA
** **
676671 CCTTTAGCGGTGCCTTTCCCAC
65 CCTTTAGCGACG-CTTTTTCAC
* * * * *
676693 AAACGCCGCTATAGATCAAGACCTTTGGCTGTGCTTTTTCCACAAACGCCGCTATAGCTCAAGAC
1 AAACGCCGCTATAGCTCAAGACCTTTAGCGGCGCTTTTTCCACAAACGCCGCTATAGATCAAGAC
** *
676758 CTTTATTGACGCTTTGTTTAC
66 CTTTAGCGACGCTTT-TTCAC
** * * * * *
676779 AAACGCCGCTATAGCTCAAGACCTTTATTGACGCTTTGTT-TACAAACGCTGCTATAGACCATGA
1 AAACGCCGCTATAGCTCAAGACCTTTAGCGGCGCTTT-TTCCACAAACGCCGCTATAGATCAAGA
* * *
676843 CCTTTAGCAACACTTTTTCCAA
65 CCTTTAGCGACGCTTTTT-CAC
* *
676865 AAACGCCGCTATAGGC-CAAGACCTTTGGCGGCGCTTTTCCCACAAACGCCGC
1 AAACGCCGCTATA-GCTCAAGACCTTTAGCGGCGCTTTTTCCACAAACGCCGC
676917 GAAAGACCAT
Statistics
Matches: 245, Mismatches: 59, Indels: 13
0.77 0.19 0.04
Matches are distributed among these distances:
85 34 0.14
86 175 0.71
87 36 0.15
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.27
Consensus pattern (85 bp):
AAACGCCGCTATAGCTCAAGACCTTTAGCGGCGCTTTTTCCACAAACGCCGCTATAGATCAAGAC
CTTTAGCGACGCTTTTTCAC
Done.