Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008238.1 Hibiscus syriacus cultivar Beakdansim tig00110885_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 622934
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
File 2 of 3
Found at i:339850 original size:12 final size:12
Alignment explanation
Indices: 339778--339862 Score: 80
Period size: 12 Copynumber: 7.1 Consensus size: 12
339768 AAGATGAAGC
*
339778 TGACGATGAAGA
1 TGACGATGATGA
339790 TGACGATGATGA
1 TGACGATGATGA
* *
339802 TGACGATGAAGC
1 TGACGATGATGA
* *
339814 TGGCGATGAAGA
1 TGACGATGATGA
* * *
339826 TTATGACGATGA
1 TGACGATGATGA
*
339838 TGATGATGATGA
1 TGACGATGATGA
*
339850 TGAAGATGATGA
1 TGACGATGATGA
339862 T
1 T
339863 CCAAACAAGT
Statistics
Matches: 60, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 60 1.00
ACGTcount: A:0.35, C:0.07, G:0.33, T:0.25
Consensus pattern (12 bp):
TGACGATGATGA
Found at i:342951 original size:23 final size:23
Alignment explanation
Indices: 342920--342992 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
342910 ATAGGTAAAA
*
342920 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
342943 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
342966 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
342989 ATAT
1 ATAT
342993 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:343389 original size:21 final size:23
Alignment explanation
Indices: 343339--343409 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 23
343329 TAAGGTAAAA
*
343339 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
343362 ATATAATGTAATAGGTATCG-TT
1 ATATAATGTAATAGGTAGCGCTT
* *
343384 -TATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
343406 ATAT
1 ATAT
343410 TGTAAAGTGT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
21 17 0.40
22 4 0.10
23 21 0.50
ACGTcount: A:0.34, C:0.04, G:0.23, T:0.39
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:343413 original size:21 final size:21
Alignment explanation
Indices: 343345--343414 Score: 70
Period size: 21 Copynumber: 3.2 Consensus size: 21
343335 AAAAATATGA
*
343345 TGTAATAGGTAGCGCTTATAT
1 TGTAATAGGTAGTGCTTATAT
* *
343366 AATGTAATAGGTA-TCGTTTATAA
1 --TGTAATAGGTAGT-GCTTATAT
*
343389 TGTAATAGGTAGTGGTTATAT
1 TGTAATAGGTAGTGCTTATAT
343410 TGTAA
1 TGTAA
343415 AGTGTCTATC
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
21 22 0.55
22 1 0.03
23 17 0.43
ACGTcount: A:0.33, C:0.04, G:0.23, T:0.40
Consensus pattern (21 bp):
TGTAATAGGTAGTGCTTATAT
Found at i:343514 original size:422 final size:422
Alignment explanation
Indices: 342716--343753 Score: 1817
Period size: 422 Copynumber: 2.5 Consensus size: 422
342706 GTTAATGTTG
342716 TTAAATTAAAAATTCTAAATAATATTTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATAATA--TTTATAAAATATCAAATAATCAAAT-ATTTTTTGTGCAA
342781 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
63 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
*
342846 AAATTACATAACTTTAAAAGAAGTATCGATCATGTTTATAAAAAGTATGGACACTTTCAATATAA
128 AAATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATAT-A
342911 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
192 -AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
* *
342976 ATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAGTGTCCATACTTTTTTCACTGTG
256 ATAGGTAGTGGTTATATTGTAAAGTGTCTATCATTTTTATAAGTGTCCATAATTTTTTCACTGTG
*
343041 GAAAACATTAATTTAATTTATATTTTGAGTGAGTTCTAAGATATTTTTAGTAATTATAGGCGTCT
321 GAAAACATTAATTTAAGTTATATTTTGAGTGAGTTCTAAGATATTTTTAGTAATTATAGGCGTCT
343106 AATGATTTA-TTTTTTACGTTACGATATATA-TATTA
386 AATGATTTATTTTTTTACGTTACGATATATATTATTA
343141 TTAAATT-AAAATTCTAAATAATATTTATAAAATATCAAATAATCAAATATTTTTTTGTGCAAAT
1 TTAAATTAAAAATTCTAAATAATATTTATAAAATATCAAATAATCAAATA-TTTTTTGTGCAAAT
343205 GAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAAATTGAAACAT-
65 GAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAAATTGAAACATA
*
343269 AATTACATAACTTT-AAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAG
129 AATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAAG
343333 GTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCG-TT-TATAATGTAATA
194 GTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATA
343396 GGTAGTGGTTATATTGTAAAGTGTCTATCATTTTTATAAAAGTGTCCATAATTTTTTCACTGTGG
259 GGTAGTGGTTATATTGTAAAGTGTCTATCATTTTTAT--AAGTGTCCATAATTTTTTCACTGTGG
* *
343461 AAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGT
322 AAAACATTAATTTAA-GTTATATTTTGAGTGAGTTCTAAGATATT--TTTAGTAATTATAGGCGT
343526 CTAATGATTTATTTTTTTACGTTACGATATATATTATTA
384 CTAATGATTTATTTTTTTACGTTACGATATATATTATTA
* *
343565 TTAAATTAAAAATTCTAAATAAT-TTTATAAAA-ATC-AATAATCAAATAATTTTTGTGCAAATA
1 TTAAATTAAAAATTCTAAATAATATTTATAAAATATCAAATAATCAAATATTTTTTGTGCAAATG
343627 AAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAA
66 AAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAA
343692 TTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAA
131 TTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAA
343754 TATAATGTAA
Statistics
Matches: 591, Mismatches: 10, Indels: 27
0.94 0.02 0.04
Matches are distributed among these distances:
417 48 0.08
418 2 0.00
419 91 0.15
420 44 0.07
421 118 0.20
422 188 0.32
423 41 0.07
424 37 0.06
425 22 0.04
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.39
Consensus pattern (422 bp):
TTAAATTAAAAATTCTAAATAATATTTATAAAATATCAAATAATCAAATATTTTTTGTGCAAATG
AAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAA
TTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAAGGT
AAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGG
TAGTGGTTATATTGTAAAGTGTCTATCATTTTTATAAGTGTCCATAATTTTTTCACTGTGGAAAA
CATTAATTTAAGTTATATTTTGAGTGAGTTCTAAGATATTTTTAGTAATTATAGGCGTCTAATGA
TTTATTTTTTTACGTTACGATATATATTATTA
Found at i:344363 original size:18 final size:16
Alignment explanation
Indices: 344331--344366 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 16
344321 TAAAAATATT
344331 TTATTTTTAAAATAAA
1 TTATTTTTAAAATAAA
344347 TTATTTTATAGAAATAAA
1 TTATTTT-TA-AAATAAA
344365 TT
1 TT
344367 TTATCATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.39
17 2 0.11
18 9 0.50
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (16 bp):
TTATTTTTAAAATAAA
Found at i:353240 original size:63 final size:63
Alignment explanation
Indices: 353167--353295 Score: 195
Period size: 63 Copynumber: 2.0 Consensus size: 63
353157 GGTTGCACTT
* * *
353167 TTTGATGTATCTGTTTCAAGGCATTGTTTCTTTGCTGATGGCTCCCCCAATTTATCTACTTGA
1 TTTGATGTATCTGTTTCAAGGCATTGTTCCTTTGCTGATGGATCCCCCAACTTATCTACTTGA
* * * *
353230 TTTGATGTATCTGTTTCAAGGCATTGTTCCTTTTCTGGTGGATCCTCCGACTTATCTACTTGA
1 TTTGATGTATCTGTTTCAAGGCATTGTTCCTTTGCTGATGGATCCCCCAACTTATCTACTTGA
353293 TTT
1 TTT
353296 TCAATATTTG
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
63 59 1.00
ACGTcount: A:0.16, C:0.20, G:0.18, T:0.46
Consensus pattern (63 bp):
TTTGATGTATCTGTTTCAAGGCATTGTTCCTTTGCTGATGGATCCCCCAACTTATCTACTTGA
Found at i:355857 original size:30 final size:30
Alignment explanation
Indices: 355821--355903 Score: 107
Period size: 28 Copynumber: 2.8 Consensus size: 30
355811 AAGTTAATCG
*
355821 AAATATTAATTTGACCTTATATTTTATATA
1 AAATATTAATTTGACCTTATATTTTACATA
* * *
355851 AAATATTAATTTAATCTTA-A-ATTACATA
1 AAATATTAATTTGACCTTATATTTTACATA
355879 AAATATTAATTTGACTCTTATATTT
1 AAATATTAATTTGAC-CTTATATTT
355904 AATCAAAGTT
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
28 19 0.44
29 5 0.12
30 18 0.42
31 1 0.02
ACGTcount: A:0.42, C:0.07, G:0.02, T:0.48
Consensus pattern (30 bp):
AAATATTAATTTGACCTTATATTTTACATA
Found at i:356517 original size:2 final size:2
Alignment explanation
Indices: 356510--356538 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
356500 ATTCTCTATG
356510 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
356539 TTTTGTTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:357171 original size:6 final size:6
Alignment explanation
Indices: 357164--357233 Score: 122
Period size: 6 Copynumber: 11.7 Consensus size: 6
357154 GGAAGAGATT
* *
357164 GTGATT GTGATT GTGATC GTGATC GTGATC GTGATC GTGATC GTGATC
1 GTGATC GTGATC GTGATC GTGATC GTGATC GTGATC GTGATC GTGATC
357212 GTGATC GTGATC GTGATC GTGA
1 GTGATC GTGATC GTGATC GTGA
357234 GAGTTCTTTT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 63 1.00
ACGTcount: A:0.17, C:0.13, G:0.34, T:0.36
Consensus pattern (6 bp):
GTGATC
Found at i:361570 original size:35 final size:35
Alignment explanation
Indices: 361524--361605 Score: 157
Period size: 35 Copynumber: 2.4 Consensus size: 35
361514 TAATCCAGCA
361524 GAAACATTGTCAAGCTGTAAATACAAGTGACAAGT
1 GAAACATTGTCAAGCTGTAAATACAAGTGACAAGT
361559 GAAACATTGTCAAGCTGTAAATACAAGTGACAAGT
1 GAAACATTGTCAAGCTGTAAATACAAGTGACAAGT
361594 GAAACA-TGTCAA
1 GAAACATTGTCAA
361606 TAACACTACT
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
34 6 0.13
35 41 0.87
ACGTcount: A:0.44, C:0.15, G:0.20, T:0.22
Consensus pattern (35 bp):
GAAACATTGTCAAGCTGTAAATACAAGTGACAAGT
Found at i:367778 original size:47 final size:46
Alignment explanation
Indices: 367706--367798 Score: 134
Period size: 47 Copynumber: 2.0 Consensus size: 46
367696 GAGTACTCTA
*
367706 TTGAAAGAGATATGAAATGAAGATAAGGTATCACCCTTTCCAAGAGC
1 TTGAAAGAGATATGAAATGAAGATAAGGTAT-ACCCTTACCAAGAGC
* *
367753 TTGAAAGAGATATGAACT-AAGGATAAGGTATATCCTTACCAAGAGC
1 TTGAAAGAGATATGAAATGAA-GATAAGGTATACCCTTACCAAGAGC
367799 AAAAGTGTAT
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
46 15 0.36
47 27 0.64
ACGTcount: A:0.41, C:0.14, G:0.22, T:0.24
Consensus pattern (46 bp):
TTGAAAGAGATATGAAATGAAGATAAGGTATACCCTTACCAAGAGC
Found at i:368635 original size:14 final size:14
Alignment explanation
Indices: 368616--368644 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
368606 TTTAACTCAC
368616 AGAGAGCAGATGAT
1 AGAGAGCAGATGAT
368630 AGAGAGCAGATGAT
1 AGAGAGCAGATGAT
368644 A
1 A
368645 AAGGAAGATT
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:0.45, C:0.07, G:0.34, T:0.14
Consensus pattern (14 bp):
AGAGAGCAGATGAT
Found at i:379050 original size:50 final size:49
Alignment explanation
Indices: 378975--379083 Score: 155
Period size: 50 Copynumber: 2.2 Consensus size: 49
378965 GTAACAGTAA
*
378975 AGCGCGCCCCCTGAACCGCGCTATACGCTGATTTGGCGCCACGTGGGTAT
1 AGCGCGCCCCCTGAACCGCGATATACGCTGATTT-GCGCCACGTGGGTAT
** * *
379025 AGCGCGCCCCCTGCCCCGCGATATACGGTGATTTGTGCCACGTGGGTAT
1 AGCGCGCCCCCTGAACCGCGATATACGCTGATTTGCGCCACGTGGGTAT
*
379074 AGCGTGCCCC
1 AGCGCGCCCC
379084 TGATCCACGC
Statistics
Matches: 53, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
49 23 0.43
50 30 0.57
ACGTcount: A:0.15, C:0.35, G:0.30, T:0.20
Consensus pattern (49 bp):
AGCGCGCCCCCTGAACCGCGATATACGCTGATTTGCGCCACGTGGGTAT
Found at i:379587 original size:111 final size:111
Alignment explanation
Indices: 379393--379725 Score: 594
Period size: 111 Copynumber: 3.0 Consensus size: 111
379383 TGAAAATCAT
* *
379393 ATATCTCTACACTTTGCTGATACGGTAAAATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
*
379458 TATTTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
*
379504 ATATCTCGACACTTTGCTGATACGATAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
*
379569 TAATTAGTTGATTTATTTAATGCATGATTATTAAATTAAGAATTAA
66 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
* * *
379615 ATATTTCGACACTTTGTTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAGTTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
379680 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
379726 TTTTTGTAAT
Statistics
Matches: 212, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
111 212 1.00
ACGTcount: A:0.36, C:0.07, G:0.11, T:0.45
Consensus pattern (111 bp):
ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
Found at i:381860 original size:35 final size:35
Alignment explanation
Indices: 381821--381900 Score: 94
Period size: 35 Copynumber: 2.3 Consensus size: 35
381811 ATATTTCAGT
381821 TAATTTTGTT-T-A-TTACCATTTAATATCAGTTATTG
1 TAATTTTGTTATCATTTACCATTTAAT-TC--TTATTG
*
381856 TAATTTGGTTATCATTTACCATTTAATTCTTATTG
1 TAATTTTGTTATCATTTACCATTTAATTCTTATTG
*
381891 TAAGTTTGTT
1 TAATTTTGTT
381901 GGATTTAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
35 23 0.59
36 1 0.03
37 3 0.08
38 12 0.31
ACGTcount: A:0.26, C:0.09, G:0.10, T:0.55
Consensus pattern (35 bp):
TAATTTTGTTATCATTTACCATTTAATTCTTATTG
Found at i:383003 original size:24 final size:23
Alignment explanation
Indices: 382976--383062 Score: 111
Period size: 23 Copynumber: 3.7 Consensus size: 23
382966 CAGCTAGTAT
*
382976 AAATGCACCGAAGTGCCGCGTAAA
1 AAATGCACCGAAGTGCCGCGT-AG
* *
383000 AAATGCACCGTAGTGCCACGTAG
1 AAATGCACCGAAGTGCCGCGTAG
* *
383023 AATTGCACCGAAGTGCCGCATAG
1 AAATGCACCGAAGTGCCGCGTAG
*
383046 AAATGCACCGTAGTGCC
1 AAATGCACCGAAGTGCC
383063 ATATAATGTC
Statistics
Matches: 54, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
23 35 0.65
24 19 0.35
ACGTcount: A:0.32, C:0.26, G:0.25, T:0.16
Consensus pattern (23 bp):
AAATGCACCGAAGTGCCGCGTAG
Found at i:393470 original size:61 final size:60
Alignment explanation
Indices: 393395--393521 Score: 238
Period size: 60 Copynumber: 2.1 Consensus size: 60
393385 CACAAGTCAT
393395 ATTC-AAAGCAAGTCATAAAATATATAAGTTAAAAACCATAAAATCAAGTTAAACAAAATG
1 ATTCAAAAGCAAGTCATAAAATATATAAGTT-AAAACCATAAAATCAAGTTAAACAAAATG
393455 ATTCAAAAGCAAGTCATAAAATATATAAGTTAAAACCATAAAATCAAGTTAAACAAAATG
1 ATTCAAAAGCAAGTCATAAAATATATAAGTTAAAACCATAAAATCAAGTTAAACAAAATG
393515 ATTCAAA
1 ATTCAAA
393522 TAACTACAAC
Statistics
Matches: 66, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
60 40 0.61
61 26 0.39
ACGTcount: A:0.57, C:0.12, G:0.08, T:0.24
Consensus pattern (60 bp):
ATTCAAAAGCAAGTCATAAAATATATAAGTTAAAACCATAAAATCAAGTTAAACAAAATG
Found at i:393549 original size:60 final size:59
Alignment explanation
Indices: 393395--393550 Score: 174
Period size: 60 Copynumber: 2.6 Consensus size: 59
393385 CACAAGTCAT
* * *
393395 ATTC-AAAGCAAGTCATAAAATATATAAGTTAAAAACCATAAAATCAAGTTAAACAAAATG
1 ATTCAAAAACAAGACAT-AAATATATAAGGT-AAAACCATAAAATCAAGTTAAACAAAATG
* * *
393455 ATTCAAAAGCAAGTCATAAAATATATAAGTTAAAACCATAAAATCAAGTTAAACAAAATG
1 ATTCAAAAACAAGACAT-AAATATATAAGGTAAAACCATAAAATCAAGTTAAACAAAATG
*
393515 ATTCAAATAACTACA-ACAT-AATATTTAAGGTAAAAC
1 ATTCAAA-AAC-A-AGACATAAATATATAAGGTAAAAC
393551 ATATTAATAT
Statistics
Matches: 88, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
60 55 0.62
61 28 0.32
62 4 0.05
63 1 0.01
ACGTcount: A:0.56, C:0.12, G:0.08, T:0.24
Consensus pattern (59 bp):
ATTCAAAAACAAGACATAAATATATAAGGTAAAACCATAAAATCAAGTTAAACAAAATG
Found at i:404676 original size:18 final size:16
Alignment explanation
Indices: 404653--404731 Score: 59
Period size: 18 Copynumber: 4.6 Consensus size: 16
404643 CGTTAGAAGG
404653 AAAAAATGAATGAATGAA
1 AAAAAATGAA-GAAT-AA
404671 AAAAAATGAAGAATAA
1 AAAAAATGAAGAATAA
* * *
404687 AAATAAGTAAAAAAATAA
1 AAA-AAAT-GAAGAATAA
* *
404705 AAATAAAAGAAAAATAA
1 AAA-AAATGAAGAATAA
*
404722 AATAAATGAA
1 AAAAAATGAA
404732 ATATATATAT
Statistics
Matches: 51, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
16 11 0.22
17 17 0.33
18 23 0.45
ACGTcount: A:0.75, C:0.00, G:0.10, T:0.15
Consensus pattern (16 bp):
AAAAAATGAAGAATAA
Found at i:404678 original size:14 final size:13
Alignment explanation
Indices: 404661--404702 Score: 50
Period size: 12 Copynumber: 3.2 Consensus size: 13
404651 GGAAAAAATG
404661 AATGAATGAAAAAA
1 AATGAA-GAAAAAA
*
404675 AATGAAGAATAAA
1 AATGAAGAAAAAA
*
404688 AAT-AAGTAAAAA
1 AATGAAGAAAAAA
404700 AAT
1 AAT
404703 AAAAATAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
12 10 0.40
13 9 0.36
14 6 0.24
ACGTcount: A:0.71, C:0.00, G:0.12, T:0.17
Consensus pattern (13 bp):
AATGAAGAAAAAA
Found at i:404712 original size:11 final size:11
Alignment explanation
Indices: 404698--404727 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
404688 AATAAGTAAA
404698 AAAATAAAAAT
1 AAAATAAAAAT
*
404709 AAAAGAAAAAT
1 AAAATAAAAAT
404720 AAAATAAA
1 AAAATAAA
404728 TGAAATATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.13
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:404732 original size:16 final size:17
Alignment explanation
Indices: 404669--404732 Score: 69
Period size: 16 Copynumber: 3.8 Consensus size: 17
404659 TGAATGAATG
*
404669 AAAAA-AAATGAAGAAT
1 AAAAATAAATGAAAAAT
* *
404685 AAAAATAAGTAAAAAAAT
1 AAAAATAAAT-GAAAAAT
*
404703 AAAAATAAAAGAAAAAT
1 AAAAATAAATGAAAAAT
404720 -AAAATAAATGAAA
1 AAAAATAAATGAAA
404733 TATATATATA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
16 17 0.44
17 9 0.23
18 13 0.33
ACGTcount: A:0.78, C:0.00, G:0.08, T:0.14
Consensus pattern (17 bp):
AAAAATAAATGAAAAAT
Found at i:404739 original size:2 final size:2
Alignment explanation
Indices: 404732--404764 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
404722 AATAAATGAA
*
404732 AT AT AT AT AT AT AT AT AT AT AT AT AT AG AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
404765 AATGAGTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (2 bp):
AT
Found at i:404838 original size:4 final size:4
Alignment explanation
Indices: 404829--404883 Score: 51
Period size: 4 Copynumber: 14.0 Consensus size: 4
404819 TATATAATAT
* * *
404829 TAAA TAAA TAAAA AAAA TTAA -AAA TAAA -AAA TAAA TAAA TATA TAAA
1 TAAA TAAA T-AAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
*
404876 TCAA TAAA
1 TAAA TAAA
404884 AGTATCGTAT
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
3 5 0.12
4 32 0.80
5 3 0.08
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:404845 original size:27 final size:24
Alignment explanation
Indices: 404815--404875 Score: 63
Period size: 24 Copynumber: 2.5 Consensus size: 24
404805 TAGTAATATG
*
404815 AAAATATATAATATTAAATAAATAAA
1 AAAATATATAA-AATAAA-AAATAAA
404841 AAAA-AT-TAAAAATAAAAAATAAA
1 AAAATATAT-AAAATAAAAAATAAA
*
404864 TAAATATATAAA
1 AAAATATATAAA
404876 TCAATAAAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
23 10 0.33
24 11 0.37
25 5 0.17
26 4 0.13
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (24 bp):
AAAATATATAAAATAAAAAATAAA
Found at i:404881 original size:27 final size:25
Alignment explanation
Indices: 404815--404884 Score: 74
Period size: 25 Copynumber: 2.8 Consensus size: 25
404805 TAGTAATATG
*
404815 AAAATATAT-AATATTAAATAAATAA
1 AAAATATATAAATAATAAA-AAATAA
*
404840 AAAAAAT-TAAA-AATAAAAAATAA
1 AAAATATATAAATAATAAAAAATAA
404863 ATAAATATATAAATCAATAAAA
1 A-AAATATATAAAT-AATAAAA
404885 GTATCGTATA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
23 7 0.19
24 11 0.30
25 12 0.32
27 7 0.19
ACGTcount: A:0.73, C:0.01, G:0.00, T:0.26
Consensus pattern (25 bp):
AAAATATATAAATAATAAAAAATAA
Found at i:404987 original size:2 final size:2
Alignment explanation
Indices: 404976--405057 Score: 57
Period size: 2 Copynumber: 42.5 Consensus size: 2
404966 TAAAAATAAT
* * *
404976 TA TA -A TA TA TA TA TA TA -A TA -A TA CT- TA TA AA TA AA TA TT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA
* * *
405015 TA AA AA GTA TA TA TA TA TA TA TA TA TA TA TA TA AA TA TA -A TA
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
405057 T
1 T
405058 TAAAAATAAC
Statistics
Matches: 63, Mismatches: 10, Indels: 14
0.72 0.11 0.16
Matches are distributed among these distances:
1 5 0.08
2 56 0.89
3 2 0.03
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (2 bp):
TA
Found at i:405061 original size:12 final size:13
Alignment explanation
Indices: 404965--405066 Score: 54
Period size: 14 Copynumber: 7.8 Consensus size: 13
404955 AAAAAACTAA
*
404965 ATAAAAATAAT-T
1 ATAAATATAATAT
404977 AT-AATAT-ATAT
1 ATAAATATAATAT
*
404988 ATATA-ATAATACTT
1 ATAAATATAATA--T
405002 ATAAATA-AATATTT
1 ATAAATATAATA--T
*
405016 AAAAAGTATATATAT
1 ATAAA-TATA-ATAT
*
405031 ATATATATATATAT
1 ATAAATATA-ATAT
405045 ATAAATATAATAT
1 ATAAATATAATAT
*
405058 -TAAAAATAA
1 ATAAATATAA
405067 CCAAATGAAT
Statistics
Matches: 72, Mismatches: 9, Indels: 18
0.73 0.09 0.18
Matches are distributed among these distances:
10 2 0.03
11 9 0.12
12 14 0.19
13 4 0.06
14 32 0.44
15 7 0.10
16 1 0.01
17 3 0.04
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (13 bp):
ATAAATATAATAT
Found at i:406248 original size:18 final size:16
Alignment explanation
Indices: 406215--406269 Score: 58
Period size: 17 Copynumber: 3.3 Consensus size: 16
406205 TATATATACA
406215 TATATT-TTTATTATT
1 TATATTATTTATTATT
406230 TATATTCATTTAGTTATT
1 TATATT-ATTTA-TTATT
* *
406248 TTTATTATTTATATATA
1 TATATTATTTAT-TATT
406265 TATAT
1 TATAT
406270 ATACTTTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
15 6 0.18
16 1 0.03
17 16 0.48
18 10 0.30
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (16 bp):
TATATTATTTATTATT
Found at i:406277 original size:27 final size:27
Alignment explanation
Indices: 406197--406278 Score: 98
Period size: 27 Copynumber: 3.0 Consensus size: 27
406187 TTTTACACTA
*
406197 TATTA-TTATATATATACATATATTTT
1 TATTATTTATATATATATATATATTTT
*
406223 TATTATTTATAT-TCATTTAGT-TATTTT
1 TATTATTTATATAT-ATATA-TATATTTT
406250 TATTATTTATATATATATATATACTTTT
1 TATTATTTATATATATATATATA-TTTT
406278 T
1 T
406279 TTTAAATATT
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
26 7 0.15
27 33 0.70
28 7 0.15
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.62
Consensus pattern (27 bp):
TATTATTTATATATATATATATATTTT
Found at i:406544 original size:2 final size:2
Alignment explanation
Indices: 406537--406561 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
406527 TTACTCATTT
406537 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
406562 TAATATTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:417152 original size:2 final size:2
Alignment explanation
Indices: 417145--417175 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
417135 TATTGTATCG
417145 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
417176 AATTTGAGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:417693 original size:21 final size:20
Alignment explanation
Indices: 417608--417764 Score: 84
Period size: 21 Copynumber: 7.8 Consensus size: 20
417598 AATGACCAAT
** *
417608 AAAATCGCAACGCGA-AATA
1 AAAATCGCAACGCGATTTTC
***
417627 AAAATCGCAACGCGATCCCC
1 AAAATCGCAACGCGATTTTC
* ** *
417647 AGAATCGCAAATC-AGTTTCC
1 AAAATCGCAACGCGA-TTTTC
*
417667 AAAATCGCAACGCGATTCTTG
1 AAAATCGCAACGCGATT-TTC
* * *
417688 AAAATCGCAATGCGATAGTAC
1 AAAATCGCAACGCGAT-TTTC
* **
417709 AAATTCGCATTGCGATTTTCC
1 AAAATCGCAACGCGATTTT-C
* * *
417730 AAAATCGCAACGCGAATATG
1 AAAATCGCAACGCGATTTTC
417750 AAAATCGCAACGCGA
1 AAAATCGCAACGCGA
417765 ACACATAAAT
Statistics
Matches: 104, Mismatches: 28, Indels: 11
0.73 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
AAAATCGCAACGCGATTTTC
Found at i:417755 original size:20 final size:20
Alignment explanation
Indices: 417731--417995 Score: 293
Period size: 20 Copynumber: 13.2 Consensus size: 20
417721 CGATTTTCCA
* ** *
417731 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
417751 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
417771 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
417791 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
417811 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
417831 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
417851 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
417871 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* *
417891 AAATCGCAACGAGAATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
417911 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
417931 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
*
417951 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
417971 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
417991 AAATC
1 AAATC
417996 CGGTAGGGCA
Statistics
Matches: 215, Mismatches: 26, Indels: 8
0.86 0.10 0.03
Matches are distributed among these distances:
19 1 0.00
20 212 0.99
21 2 0.01
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:418745 original size:24 final size:24
Alignment explanation
Indices: 418706--418752 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
418696 AAATTTGGTC
418706 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
418730 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
418753 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:418944 original size:12 final size:12
Alignment explanation
Indices: 418927--418951 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
418917 ATATAATCCT
418927 GAAGAAGAAAAA
1 GAAGAAGAAAAA
418939 GAAGAAGAAAAA
1 GAAGAAGAAAAA
418951 G
1 G
418952 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:421307 original size:33 final size:34
Alignment explanation
Indices: 421256--421491 Score: 238
Period size: 33 Copynumber: 6.8 Consensus size: 34
421246 CGGAAATTAC
*
421256 AATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAACGATGAAAATCGCAATGCGAAATGAA
* *
421289 AATCCCAAC-ATGAAAATCGCAATGCGGAAATAAA
1 AATCGCAACGATGAAAATCGCAATGC-GAAATGAA
421323 AATCGCAACGA-GAAAATCGCAATGCGAAATGAA
1 AATCGCAACGATGAAAATCGCAATGCGAAATGAA
*
421356 AATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAG
1 AATCGCAA--CG--ATGAAAATCGCAATGCGAAATGAA
421389 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAA--CG--ATGAAAATCGCAATGCGAAATGAA
*
421427 AATCGCAACGA-GATAATCGCAATGCGAAATGAA
1 AATCGCAACGATGAAAATCGCAATGCGAAATGAA
*
421460 AATCGCAATGCGAAATGAAAATCGCATTGCGA
1 AATCGCAA--CG--ATGAAAATCGCAATGCGA
421492 TTCTCTCGTT
Statistics
Matches: 175, Mismatches: 10, Indels: 31
0.81 0.05 0.14
Matches are distributed among these distances:
32 1 0.01
33 94 0.54
34 31 0.18
35 7 0.04
36 4 0.02
37 3 0.02
38 35 0.20
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.14
Consensus pattern (34 bp):
AATCGCAACGATGAAAATCGCAATGCGAAATGAA
Found at i:421337 original size:19 final size:19
Alignment explanation
Indices: 421270--421491 Score: 250
Period size: 19 Copynumber: 12.7 Consensus size: 19
421260 GCAACGAGAG
421270 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
421289 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
*
421303 AATCGCAATGCGGAAATAAA
1 AATCGCAATGC-GAAATGAA
421323 AATCGCAA--CG--A-GAA
1 AATCGCAATGCGAAATGAA
421337 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
421356 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
421375 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
421389 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
421408 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
421427 AATCGCAA--CG--A-GAT
1 AATCGCAATGCGAAATGAA
421441 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
421460 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
421479 AATCGCATTGCGA
1 AATCGCAATGCGA
421492 TTCTCTCGTT
Statistics
Matches: 173, Mismatches: 9, Indels: 42
0.77 0.04 0.19
Matches are distributed among these distances:
14 42 0.24
15 3 0.02
16 7 0.04
17 6 0.03
18 4 0.02
19 99 0.57
20 12 0.07
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:421426 original size:71 final size:71
Alignment explanation
Indices: 421270--421491 Score: 237
Period size: 71 Copynumber: 3.2 Consensus size: 71
421260 GCAACGAGAG
* * * **
421270 AATCGCAATGCGAAATGAAAATCCCAAC-ATGAAAATCGCAATGCGGAAATAAAAATCGCAA--C
1 AATCGCAATGCGAAATGAAAATCGCAACGA-GATAATCGAAATGC-GAAACGAAAATCGCAATGC
421332 G--A-GAA
64 GAAATGAA
* * *
421337 AATCGCAATGCGAAATGAAAATCGCAATGCGA-AAT-GAAAAT-CGCAACGAGAGAATCGCAATG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGATAATCG-AAATGCGAAACGA-A-AATCGCAATG
421399 CGAAATGAA
63 CGAAATGAA
* *
421408 AATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAAATGAAAATCGCAATGCGA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGAAATGCGAAACGAAAATCGCAATGCGA
421473 AATGAA
66 AATGAA
*
421479 AATCGCATTGCGA
1 AATCGCAATGCGA
421492 TTCTCTCGTT
Statistics
Matches: 130, Mismatches: 13, Indels: 20
0.80 0.08 0.12
Matches are distributed among these distances:
64 4 0.03
65 3 0.02
66 14 0.11
67 28 0.22
68 2 0.02
70 1 0.01
71 64 0.49
72 7 0.05
73 7 0.05
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.15
Consensus pattern (71 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGAAATGCGAAACGAAAATCGCAATGCGA
AATGAA
Found at i:421505 original size:52 final size:52
Alignment explanation
Indices: 421298--421485 Score: 340
Period size: 52 Copynumber: 3.6 Consensus size: 52
421288 AAATCCCAAC
* *
421298 ATGAAAATCGCAATGCGGAAATAAAAATCGCAACGAGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGATAATCGCAATGCGAA
*
421351 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAA
421403 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAA
421455 ATGAAAATCGCAATGCGAAATGAAAATCGCA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCA
421486 TTGCGATTCT
Statistics
Matches: 132, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
52 116 0.88
53 16 0.12
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.14
Consensus pattern (52 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAA
Found at i:421594 original size:52 final size:53
Alignment explanation
Indices: 421481--421597 Score: 227
Period size: 53 Copynumber: 2.2 Consensus size: 53
421471 GAAATGAAAA
421481 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
421534 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
421586 TCGCATTGCGAT
1 TCGCATTGCGAT
421598 AGTCATTTTT
Statistics
Matches: 64, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 30 0.47
53 34 0.53
ACGTcount: A:0.14, C:0.24, G:0.18, T:0.44
Consensus pattern (53 bp):
TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
Found at i:421605 original size:19 final size:19
Alignment explanation
Indices: 421500--421597 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
421490 GATTCTCTCG
421500 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
421520 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
421539 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
421553 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
421572 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
421591 TTGCGAT
1 TTGCGAT
421598 AGTCATTTTT
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.08
16 7 0.10
17 7 0.10
19 36 0.51
20 15 0.21
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:421719 original size:14 final size:14
Alignment explanation
Indices: 421700--421736 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
421690 CATCAATTAC
421700 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
421714 ACAAATCATCTTTT
1 ACAAATCAACTTTT
421728 ACAAATCAA
1 ACAAATCAA
421737 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:423702 original size:19 final size:18
Alignment explanation
Indices: 423662--423796 Score: 106
Period size: 19 Copynumber: 7.6 Consensus size: 18
423652 TAGTTTACTT
*
423662 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC--AAAA
423682 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAA-CAAAA
*
423701 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAA-CAAAA
*
423720 TCGCAA--CG-AA-AGAA
1 TCGCAACGCGAAACAAAA
423734 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAA-CAAAA
*
423753 TCGCAA--CG-AA-AGAA
1 TCGCAACGCGAAACAAAA
*
423767 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAA-CAAAA
*
423786 TCGCAATGCGA
1 TCGCAACGCGA
423797 TTTTGGTTTC
Statistics
Matches: 96, Mismatches: 8, Indels: 23
0.76 0.06 0.18
Matches are distributed among these distances:
14 18 0.19
16 8 0.08
17 8 0.08
19 49 0.51
20 12 0.12
21 1 0.01
ACGTcount: A:0.47, C:0.25, G:0.19, T:0.10
Consensus pattern (18 bp):
TCGCAACGCGAAACAAAA
Found at i:423736 original size:33 final size:33
Alignment explanation
Indices: 423699--423791 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
423689 GCGAAACCAA
423699 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
**
423732 AATCGCAACGCGAAACCAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
423765 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
423792 TGCGATTTTG
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.48, C:0.24, G:0.19, T:0.09
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:423737 original size:14 final size:14
Alignment explanation
Indices: 423718--423774 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
423708 GCGAAATGAA
423718 AATCGCAACGAAAG
1 AATCGCAACGAAAG
*
423732 AATCGCAACGCGAAACCAA
1 AATCGCAA--CG-AA--AG
423751 AATCGCAACGAAAG
1 AATCGCAACGAAAG
423765 AATCGCAACG
1 AATCGCAACG
423775 CGAAATGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 19 0.53
16 4 0.11
17 4 0.11
19 9 0.25
ACGTcount: A:0.47, C:0.26, G:0.19, T:0.07
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:423788 original size:52 final size:54
Alignment explanation
Indices: 423662--423796 Score: 158
Period size: 52 Copynumber: 2.5 Consensus size: 54
423652 TAGTTTACTT
*
423662 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAATGAAAA
1 TCGCAAC-CGAAA-TGAAAATCGCAACGCGAAACCAAAATCGCAAC-CGAAATG-AAA
423720 TCGCAA-CGAAA-G--AATCGCAACGCGAAACCAAAATCGCAA-CGAAA-G-AA
1 TCGCAACCGAAATGAAAATCGCAACGCGAAACCAAAATCGCAACCGAAATGAAA
*
423767 TCGCAACGCGAAATGAAAATCGCAATGCGA
1 TCGCAAC-CGAAATGAAAATCGCAACGCGA
423797 TTTTGGTTTC
Statistics
Matches: 70, Mismatches: 2, Indels: 16
0.80 0.02 0.18
Matches are distributed among these distances:
47 8 0.11
49 6 0.09
50 6 0.09
52 39 0.56
56 5 0.07
58 6 0.09
ACGTcount: A:0.47, C:0.25, G:0.19, T:0.10
Consensus pattern (54 bp):
TCGCAACCGAAATGAAAATCGCAACGCGAAACCAAAATCGCAACCGAAATGAAA
Found at i:423814 original size:19 final size:19
Alignment explanation
Indices: 423792--423920 Score: 116
Period size: 19 Copynumber: 7.3 Consensus size: 19
423782 AAAATCGCAA
423792 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
423811 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
423825 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
423844 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
423858 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
423877 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* * *
423896 TGCAATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
423916 TGCGA
1 TGCGA
423921 AAGTAAACTA
Statistics
Matches: 88, Mismatches: 11, Indels: 21
0.73 0.09 0.17
Matches are distributed among these distances:
14 22 0.25
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 47 0.53
20 12 0.14
ACGTcount: A:0.09, C:0.17, G:0.28, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:423834 original size:33 final size:33
Alignment explanation
Indices: 423792--423883 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
423782 AAAATCGCAA
423792 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
423825 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
423858 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
423884 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:424406 original size:92 final size:93
Alignment explanation
Indices: 423968--424527 Score: 1072
Period size: 93 Copynumber: 6.1 Consensus size: 93
423958 ATGGATTGCA
*
423968 TTAC-TTCAACCAATAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
424032 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
424060 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
424125 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
424153 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
424218 TAGTAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
424246 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
424311 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
424339 TTACTTTCAACCAAAAGAC-AAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
424403 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
424431 TTACTTTCAACCAAAAGACAAAACAAAGAC-AATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
424495 TAGCAGAATTGGCAGCAACCGAATAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
424523 TTACT
1 TTACT
424528 AAGCAATCTA
Statistics
Matches: 462, Mismatches: 4, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
92 162 0.35
93 300 0.65
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:426251 original size:14 final size:14
Alignment explanation
Indices: 426232--426321 Score: 72
Period size: 14 Copynumber: 5.7 Consensus size: 14
426222 TTGAAATGAA
426232 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
426246 AATCGCAACGCGAAATGAC
1 AATCGCAA--CG--A-GAG
426265 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
426279 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
426298 AATCGCAACGAGAG
1 AATCGCAACGAGAG
426312 AATCGCAACG
1 AATCGCAACG
426322 CGAAATGAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
14 30 0.48
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 20 0.32
ACGTcount: A:0.43, C:0.23, G:0.24, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:426269 original size:33 final size:33
Alignment explanation
Indices: 426224--426338 Score: 221
Period size: 33 Copynumber: 3.5 Consensus size: 33
426214 TCTTTGGGTT
426224 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
426257 GAAATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
426290 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
426323 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
426339 TGCGATTTTG
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 80 1.00
ACGTcount: A:0.46, C:0.21, G:0.23, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:426270 original size:19 final size:19
Alignment explanation
Indices: 426246--426343 Score: 90
Period size: 19 Copynumber: 5.7 Consensus size: 19
426236 GCAACGAGAG
*
426246 AATCGCAACGCGAAATGAC
1 AATCGCAACGCGAAATGAA
*
426265 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
426279 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
426298 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
426312 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
426331 AATCGCAATGCGA
1 AATCGCAACGCGA
426344 TTTTGGTTTC
Statistics
Matches: 64, Mismatches: 5, Indels: 20
0.72 0.06 0.22
Matches are distributed among these distances:
14 20 0.31
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 32 0.50
ACGTcount: A:0.44, C:0.22, G:0.23, T:0.10
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:426374 original size:14 final size:14
Alignment explanation
Indices: 426355--426411 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
426345 TTTGGTTTCG
426355 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
426369 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
426388 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
426402 CGTTGCGATT
1 CGTTGCGATT
426412 TTCATTTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:426387 original size:33 final size:33
Alignment explanation
Indices: 426339--426419 Score: 144
Period size: 33 Copynumber: 2.5 Consensus size: 33
426329 AAAATCGCAA
**
426339 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
426372 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
426405 TGCGATTTTCATTTC
1 TGCGATTTTCATTTC
426420 TCTCGTTGCG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.09, C:0.22, G:0.22, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:426442 original size:20 final size:20
Alignment explanation
Indices: 426395--426451 Score: 78
Period size: 21 Copynumber: 2.8 Consensus size: 20
426385 TCGCGTTGCG
***
426395 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGACAGTC
426415 ATTTCTCTCGTTGCGACAGTC
1 A-TTCTCTCGTTGCGACAGTC
426436 ATTCTCTCGTTGCGAC
1 ATTCTCTCGTTGCGAC
426452 TCTTCTGCAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
20 16 0.48
21 17 0.52
ACGTcount: A:0.12, C:0.28, G:0.18, T:0.42
Consensus pattern (20 bp):
ATTCTCTCGTTGCGACAGTC
Found at i:426803 original size:22 final size:22
Alignment explanation
Indices: 426749--426803 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
426739 TGGTTGTGAG
**
426749 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
** *
426771 GGAAATATTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
426793 GGATTTCTTCG
1 GGATTTCTTCG
426804 CCGTAGAGAG
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.22, C:0.15, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:426977 original size:20 final size:20
Alignment explanation
Indices: 426950--427162 Score: 250
Period size: 20 Copynumber: 10.7 Consensus size: 20
426940 CTTTAAATAT
*
426950 CGCGTTGCGATTTACGGATT
1 CGCGTTGCGATTTACGGATA
*
426970 CTCGTTGCGATTTACGGATTA
1 CGCGTTGCGATTTACGGA-TA
*
426991 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
427010 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* *
427030 CGCATTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
427050 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
427070 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
427090 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
427110 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
427130 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
427150 CGCGTTGCGATTT
1 CGCGTTGCGATTT
427163 TGTAAAATCG
Statistics
Matches: 170, Mismatches: 19, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
19 2 0.01
20 166 0.98
21 2 0.01
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.34
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:427163 original size:20 final size:20
Alignment explanation
Indices: 427129--427226 Score: 81
Period size: 21 Copynumber: 4.8 Consensus size: 20
427119 ATTTATGTGT
*
427129 TCGCGTTGCGATTTTCATAT
1 TCGCGTTGCGATTTTCATAA
* *
427149 TCGCGTTGCGATTTTGTAAAA
1 TCGCGTTGCGATTTT-CATAA
** *
427170 TCGCAATGCGAATTTTTACT-A
1 TCGCGTTGCG-ATTTTCA-TAA
* *
427191 TCGCATTGCGATTTTCAAGAA
1 TCGCGTTGCGATTTTC-ATAA
427212 TCGCGTTGCGATTTT
1 TCGCGTTGCGATTTT
427227 GGAAACTGAT
Statistics
Matches: 63, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
20 20 0.32
21 38 0.60
22 5 0.08
ACGTcount: A:0.21, C:0.18, G:0.20, T:0.40
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCATAA
Found at i:427222 original size:42 final size:41
Alignment explanation
Indices: 427129--427226 Score: 110
Period size: 42 Copynumber: 2.4 Consensus size: 41
427119 ATTTATGTGT
* *
427129 TCGCGTTGCGATTTTCATATTCGCGTTGCGATTTTGTAAAA
1 TCGCGTTGCGATTTTCATATTCGCATTGCGATTTTGCAAAA
** *
427170 TCGCAATGCGAATTTTTACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCG-ATTTTCA-TATTCGCATTGCGATTTTGCAA-AA
427212 TCGCGTTGCGATTTT
1 TCGCGTTGCGATTTT
427227 GGAAACTGAT
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
41 15 0.32
42 30 0.64
43 2 0.04
ACGTcount: A:0.21, C:0.18, G:0.20, T:0.40
Consensus pattern (41 bp):
TCGCGTTGCGATTTTCATATTCGCATTGCGATTTTGCAAAA
Found at i:429739 original size:19 final size:19
Alignment explanation
Indices: 429715--429751 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
429705 TCTTCCTGCC
*
429715 TGACCCCAGGTGAGGTTGA
1 TGACCCCAGGAGAGGTTGA
*
429734 TGACCCCTGGAGAGGTTG
1 TGACCCCAGGAGAGGTTG
429752 TCCACGTGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.19, C:0.22, G:0.38, T:0.22
Consensus pattern (19 bp):
TGACCCCAGGAGAGGTTGA
Found at i:436629 original size:15 final size:15
Alignment explanation
Indices: 436609--436652 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
436599 GATTAAATTT
*
436609 ATTAAATTATTTAAA
1 ATTAAATTATTGAAA
*
436624 ATTAAA-TATTGAGA
1 ATTAAATTATTGAAA
436638 ATTAAATTTATTGAA
1 ATTAAA-TTATTGAA
436653 TTATTTTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
14 12 0.50
15 6 0.25
16 6 0.25
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (15 bp):
ATTAAATTATTGAAA
Found at i:436790 original size:20 final size:20
Alignment explanation
Indices: 436753--436792 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
436743 GTCTAGACGT
* **
436753 TTTAATTTAAATGTAAATAA
1 TTTAATTGAAATCAAAATAA
436773 TTTAATTGAAATCAAAATAA
1 TTTAATTGAAATCAAAATAA
436793 AATTTTAATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.40
Consensus pattern (20 bp):
TTTAATTGAAATCAAAATAA
Found at i:440023 original size:2 final size:2
Alignment explanation
Indices: 440011--440078 Score: 118
Period size: 2 Copynumber: 34.0 Consensus size: 2
440001 ATTTAAAAAT
* *
440011 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA AA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
440053 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
440079 CAAGACCATG
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 62 1.00
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:444197 original size:29 final size:29
Alignment explanation
Indices: 444155--444243 Score: 151
Period size: 29 Copynumber: 3.1 Consensus size: 29
444145 GTGAAGCCGT
*
444155 AGGTCGCCATGCACTTCAGGCGACCAAGG
1 AGGTCGCCATGCACTCCAGGCGACCAAGG
*
444184 AGGTCGCCATGCACTCCAGGCGACCAAAG
1 AGGTCGCCATGCACTCCAGGCGACCAAGG
*
444213 AGGTCGCCATGCACTCCGGGCGACCAAGG
1 AGGTCGCCATGCACTCCAGGCGACCAAGG
444242 AG
1 AG
444244 TGAGTGCAAG
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 56 1.00
ACGTcount: A:0.25, C:0.33, G:0.31, T:0.11
Consensus pattern (29 bp):
AGGTCGCCATGCACTCCAGGCGACCAAGG
Found at i:444276 original size:32 final size:32
Alignment explanation
Indices: 444235--444299 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
444225 ACTCCGGGCG
*
444235 ACCAAGGAGTGAGTGCAAGCTATCCATGGAGC
1 ACCAAGGAGTGAGTGCAAGCTATCCAGGGAGC
**
444267 ACCAAGGAGTGAGTGTGAGCTATCCAGGGAGC
1 ACCAAGGAGTGAGTGCAAGCTATCCAGGGAGC
444299 A
1 A
444300 TTGCATGGCC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.31, C:0.20, G:0.34, T:0.15
Consensus pattern (32 bp):
ACCAAGGAGTGAGTGCAAGCTATCCAGGGAGC
Found at i:444520 original size:23 final size:23
Alignment explanation
Indices: 444490--444535 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
444480 CATGCATGCG
444490 TTGCATCCATAGCTGGGAGATTC
1 TTGCATCCATAGCTGGGAGATTC
444513 TTGCATCCATAGCTGGGAGATTC
1 TTGCATCCATAGCTGGGAGATTC
444536 CAGCGTTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (23 bp):
TTGCATCCATAGCTGGGAGATTC
Found at i:444926 original size:74 final size:74
Alignment explanation
Indices: 444842--444985 Score: 184
Period size: 74 Copynumber: 1.9 Consensus size: 74
444832 TATATGAAAT
* * * *
444842 TATTAGTTTGTTAGCTTAGGGTT-TAGGGTA-AAACTAAAATTTAGTTAATTAGTTTGTTAGTTT
1 TATTAGTTTGTTAGCTTA-AGTTATAGAGTATAAA-TAAAAATTAGTTAATTAGTTTCTTAGTTT
444905 AAGTTATATTA
64 AAGTTATATTA
* * * *
444916 TATTAGTTTGTTAGTTTAAGTTATATATTATATATAAAAATTAGTTAATTAGTTTCTTAGTTTAA
1 TATTAGTTTGTTAGCTTAAGTTATAGAGTATAAATAAAAATTAGTTAATTAGTTTCTTAGTTTAA
444981 GTTAT
66 GTTAT
444986 TAAATATAAA
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
73 3 0.05
74 55 0.92
75 2 0.03
ACGTcount: A:0.33, C:0.02, G:0.15, T:0.50
Consensus pattern (74 bp):
TATTAGTTTGTTAGCTTAAGTTATAGAGTATAAATAAAAATTAGTTAATTAGTTTCTTAGTTTAA
GTTATATTA
Found at i:444969 original size:46 final size:44
Alignment explanation
Indices: 444912--445009 Score: 133
Period size: 46 Copynumber: 2.2 Consensus size: 44
444902 TTTAAGTTAT
* * *
444912 ATTATATTAGTTTGTTAGTTTAAGTTATATATTATATATAAAAATTA
1 ATTA-ATTAGTTTCTTAGTTTAAGTTAT-TA-AATATAAAAAAATTA
*
444959 GTTAATTAGTTTCTTAGTTTAAGTTATTAAATATAAAAAAATTA
1 ATTAATTAGTTTCTTAGTTTAAGTTATTAAATATAAAAAAATTA
445003 ATTAATT
1 ATTAATT
445010 TGTTAGTATA
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
44 19 0.41
45 2 0.04
46 22 0.48
47 3 0.07
ACGTcount: A:0.42, C:0.01, G:0.08, T:0.49
Consensus pattern (44 bp):
ATTAATTAGTTTCTTAGTTTAAGTTATTAAATATAAAAAAATTA
Found at i:445024 original size:44 final size:46
Alignment explanation
Indices: 444912--445014 Score: 120
Period size: 44 Copynumber: 2.3 Consensus size: 46
444902 TTTAAGTTAT
** * *
444912 ATTATATTAGTTTGTTAGTTTAAGTTATATATTATATATAAAAATTA
1 ATTA-ATTAGTTACTTAGTTTAAGTTATATATAATATAAAAAAATTA
* *
444959 GTTAATTAGTTTCTTAGTTTAAGTTAT-TA-AATATAAAAAAATTA
1 ATTAATTAGTTACTTAGTTTAAGTTATATATAATATAAAAAAATTA
*
445003 ATTAATTTGTTA
1 ATTAATTAGTTA
445015 GTATATTTAA
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
44 22 0.45
45 2 0.04
46 22 0.45
47 3 0.06
ACGTcount: A:0.41, C:0.01, G:0.09, T:0.50
Consensus pattern (46 bp):
ATTAATTAGTTACTTAGTTTAAGTTATATATAATATAAAAAAATTA
Found at i:445487 original size:21 final size:20
Alignment explanation
Indices: 445442--445481 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
445432 AAATATTGTG
445442 TTTAAAAAATATTTAGTGTTT
1 TTTAAAAAATATTTA-TGTTT
445463 TTTAAAAAATATTT-TGTTT
1 TTTAAAAAATATTTATGTTT
445482 AATTTATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.26
21 14 0.74
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (20 bp):
TTTAAAAAATATTTATGTTT
Found at i:448667 original size:49 final size:49
Alignment explanation
Indices: 448609--448813 Score: 333
Period size: 49 Copynumber: 4.2 Consensus size: 49
448599 GACCTCATCT
448609 TTAGTAATAATAAAATTATTATTAATATTTAATGATTTGGTAGTAATGA
1 TTAGTAATAATAAAATTATTATTAATATTTAATGATTTGGTAGTAATGA
* *
448658 TTAGTAATAATAAAATTATTATTAATATTTAATGGTTTGGTAGTAATAA
1 TTAGTAATAATAAAATTATTATTAATATTTAATGATTTGGTAGTAATGA
*
448707 TTAGTAATAATTAAATTATTATTAATATTTAATGATTTGGTAGTAATGA
1 TTAGTAATAATAAAATTATTATTAATATTTAATGATTTGGTAGTAATGA
* * **
448756 TTAGTAATAATTAAATTATTGTTAATATTTAATGATTTAATAGTAATGA
1 TTAGTAATAATAAAATTATTATTAATATTTAATGATTTGGTAGTAATGA
448805 TT--TAATAAT
1 TTAGTAATAAT
448814 TATTAGTAAT
Statistics
Matches: 148, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
47 7 0.05
49 141 0.95
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.46
Consensus pattern (49 bp):
TTAGTAATAATAAAATTATTATTAATATTTAATGATTTGGTAGTAATGA
Found at i:448802 original size:21 final size:20
Alignment explanation
Indices: 448778--448829 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
448768 AAATTATTGT
*
448778 TAATATTTAATGATTTAATAG
1 TAATATTTAAT-AATTAATAG
*
448799 TAATGATTTAATAATTATTAG
1 TAAT-ATTTAATAATTAATAG
*
448820 TAATAATTAA
1 TAATATTTAA
448830 ATTATAATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.19
21 15 0.56
22 7 0.26
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (20 bp):
TAATATTTAATAATTAATAG
Found at i:448804 original size:14 final size:14
Alignment explanation
Indices: 448785--448811 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
448775 TGTTAATATT
448785 TAATGATTTAATAG
1 TAATGATTTAATAG
448799 TAATGATTTAATA
1 TAATGATTTAATA
448812 ATTATTAGTA
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:0.44, C:0.00, G:0.11, T:0.44
Consensus pattern (14 bp):
TAATGATTTAATAG
Found at i:448829 original size:98 final size:97
Alignment explanation
Indices: 448613--448837 Score: 292
Period size: 98 Copynumber: 2.3 Consensus size: 97
448603 TCATCTTTAG
* * *
448613 TAATAATAAAATTATTATTAATATTTAATGATTTGGTAGTAATGATTAGTAATAATAAAATTATT
1 TAATAATTAAATAATAATTAATATTTAATGATTTGGTAGTAATGATTAGTAATAATAAAATTATT
* **
448678 ATTAATATTTAATGGTTTGGTAGTAATAATTA
66 ATTAATATTTAATGATTTAATAGTAATAATTA
* * *
448710 GTAATAATTAAATTATTATTAATATTTAATGATTTGGTAGTAATGATTAGTAATAATTAAATTAT
1 -TAATAATTAAATAATAATTAATATTTAATGATTTGGTAGTAATGATTAGTAATAATAAAATTAT
* *
448775 TGTTAATATTTAATGATTTAATAGTAATGATT-
65 TATTAATATTTAATGATTTAATAGTAATAATTA
*
448807 TAATAATTATTAGTAATAATTAA-ATTATAAT
1 TAATAATTA--AATAATAATTAATATT-TAAT
448838 ATTATGATTA
Statistics
Matches: 114, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
96 9 0.08
97 3 0.03
98 102 0.89
ACGTcount: A:0.44, C:0.00, G:0.10, T:0.46
Consensus pattern (97 bp):
TAATAATTAAATAATAATTAATATTTAATGATTTGGTAGTAATGATTAGTAATAATAAAATTATT
ATTAATATTTAATGATTTAATAGTAATAATTA
Found at i:449046 original size:19 final size:18
Alignment explanation
Indices: 449026--449077 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 18
449016 AAATATTTTA
449026 ATAATGATTTTAATA-TT
1 ATAATGATTTTAATATTT
*
449043 -TAATGA-TTTGATGATTT
1 ATAATGATTTTAAT-ATTT
449060 AGTAATGATTTTAATATT
1 A-TAATGATTTTAATATT
449078 ATGATTTAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
15 5 0.18
16 7 0.25
17 2 0.07
19 9 0.32
20 5 0.18
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.52
Consensus pattern (18 bp):
ATAATGATTTTAATATTT
Found at i:449069 original size:11 final size:11
Alignment explanation
Indices: 449053--449313 Score: 135
Period size: 12 Copynumber: 21.2 Consensus size: 11
449043 TAATGATTTG
*
449053 ATGATTTAGTA
1 ATGATTTAATA
449064 ATGATTTTAATA
1 ATGA-TTTAATA
449076 TTATGATTTAATA
1 --ATGATTTAATA
449089 ATGATTTAGTAATA
1 ATGA-TT--TAATA
*
449103 ATCATTATAATA
1 ATGATT-TAATA
449115 ATGATTTAATA
1 ATGATTTAATA
449126 ATGACTTTAATA
1 ATGA-TTTAATA
* * * * * *
449138 TTTAATGATTTG
1 ATGATTTA-ATA
*
449150 ATGATTTAGTA
1 ATGATTTAATA
449161 ATGATTTTATAATA
1 ATGA--TT-TAATA
*
449175 ATCATTATAATA
1 ATGATT-TAATA
449187 ATGATTTAGTAATA
1 ATGA-TT--TAATA
*
449201 ATCATTATAATA
1 ATGATT-TAATA
449213 ATGATTTAATA
1 ATGATTTAATA
* *
449224 ATAATGATAATA
1 ATGAT-TTAATA
449236 ATGATTTAATAATA
1 ATGA-TT--TAATA
*
449250 ATCATTATAATA
1 ATGATT-TAATA
449262 ATGATTTAATAGTA
1 ATGATTT-A-A-TA
*
449276 ATGATTTAGTA
1 ATGATTTAATA
449287 ATGATTTTATAATA
1 ATGA--TT-TAATA
449301 ATGATTTAATA
1 ATGATTTAATA
449312 AT
1 AT
449314 TATTACTAAT
Statistics
Matches: 196, Mismatches: 31, Indels: 46
0.72 0.11 0.17
Matches are distributed among these distances:
11 47 0.24
12 75 0.38
13 22 0.11
14 52 0.27
ACGTcount: A:0.44, C:0.02, G:0.09, T:0.45
Consensus pattern (11 bp):
ATGATTTAATA
Found at i:449073 original size:35 final size:35
Alignment explanation
Indices: 449022--449169 Score: 129
Period size: 35 Copynumber: 4.5 Consensus size: 35
449012 CATAAAATAT
*
449022 TTTAATAATGATTTTAATATTTAATGATTTGATGA
1 TTTAGTAATGATTTTAATATTTAATGATTTGATGA
*
449057 TTTAGTAATGATTTTAATA-TT-ATGATTTAATAATGA
1 TTTAGTAATGATTTTAATATTTAATGA-TT--TGATGA
* * *
449093 TTTAGTAAT-A--ATCAT-TATAAT-A----ATGA
1 TTTAGTAATGATTTTAATATTTAATGATTTGATGA
* *
449119 TTTAATAATGACTTTAATATTTAATGATTTGATGA
1 TTTAGTAATGATTTTAATATTTAATGATTTGATGA
449154 TTTAGTAATGATTTTA
1 TTTAGTAATGATTTTA
449170 TAATAATCAT
Statistics
Matches: 88, Mismatches: 11, Indels: 28
0.69 0.09 0.22
Matches are distributed among these distances:
26 12 0.14
27 1 0.01
29 3 0.03
30 5 0.06
31 1 0.01
33 9 0.10
34 6 0.07
35 37 0.42
36 14 0.16
ACGTcount: A:0.39, C:0.01, G:0.11, T:0.49
Consensus pattern (35 bp):
TTTAGTAATGATTTTAATATTTAATGATTTGATGA
Found at i:449135 original size:97 final size:98
Alignment explanation
Indices: 449022--449225 Score: 358
Period size: 97 Copynumber: 2.1 Consensus size: 98
449012 CATAAAATAT
* * *
449022 TTTAATAATGATTTTAATATTTAATGATTTGATGATTTAGTAATGATTTTA-ATATTATGATT-T
1 TTTAATAATGACTTTAATATTTAATGATTTGATGATTTAGTAATGATTTTATA-ATAATCATTAT
449085 AATAATGATTTAGTAATAATCATTATAATAATGA
65 AATAATGATTTAGTAATAATCATTATAATAATGA
449119 TTTAATAATGACTTTAATATTTAATGATTTGATGATTTAGTAATGATTTTATAATAATCATTATA
1 TTTAATAATGACTTTAATATTTAATGATTTGATGATTTAGTAATGATTTTATAATAATCATTATA
449184 ATAATGATTTAGTAATAATCATTATAATAATGA
66 ATAATGATTTAGTAATAATCATTATAATAATGA
449217 TTTAATAAT
1 TTTAATAAT
449226 AATGATAATA
Statistics
Matches: 102, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
97 57 0.56
98 45 0.44
ACGTcount: A:0.41, C:0.02, G:0.09, T:0.48
Consensus pattern (98 bp):
TTTAATAATGACTTTAATATTTAATGATTTGATGATTTAGTAATGATTTTATAATAATCATTATA
ATAATGATTTAGTAATAATCATTATAATAATGA
Found at i:449166 original size:72 final size:70
Alignment explanation
Indices: 449078--449293 Score: 247
Period size: 72 Copynumber: 3.0 Consensus size: 70
449068 TTTTAATATT
* * *
449078 ATGATTTAATAATGATTTAGTAATAATCATTATAATAATGATTTAATAATGA-CTTTAATATTTA
1 ATGATTTAATAATGATTTA-TAATAATCATTATAATAATGATTTAATAATAATCATT-ATA-ATA
*
449142 ATGATTTG
63 ATGATTTA
* *
449150 ATGATTTAGTAATGATTTTATAATAATCATTATAATAATGATTTAGTAATAATCATTATAATAAT
1 ATGATTTAATAATGA-TTTATAATAATCATTATAATAATGATTTAATAATAATCATTATAATAAT
449215 GATTTA
65 GATTTA
* * * *
449221 ATAATAATGATAATAATGATTTAATAATAATCATTATAATAATGATTTAATAGTAATGATT-TAG
1 ATGAT--T--TAATAATGATTT-ATAATAATCATTATAATAATGATTTAATAATAATCATTATAA
449285 TAATGATTT
61 TAATGATTT
449294 TATAATAATG
Statistics
Matches: 125, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
71 13 0.10
72 47 0.38
73 8 0.06
74 14 0.11
75 43 0.34
ACGTcount: A:0.44, C:0.02, G:0.09, T:0.44
Consensus pattern (70 bp):
ATGATTTAATAATGATTTATAATAATCATTATAATAATGATTTAATAATAATCATTATAATAATG
ATTTA
Found at i:449188 original size:26 final size:25
Alignment explanation
Indices: 449056--449313 Score: 201
Period size: 26 Copynumber: 10.4 Consensus size: 25
449046 TGATTTGATG
* * *
449056 ATTTAGTAATGATTTTA-ATATTATG
1 ATTTAATAATGATTTTATA-ATAATC
449081 ATTTAATAATGA-TTTAGTAATAATC
1 ATTTAATAATGATTTTA-TAATAATC
* *
449106 ATTATAATAATGATTTAATAATGA-C
1 ATT-TAATAATGATTTTATAATAATC
* * * * * * *
449131 -TTTAATATTTA-ATGAT-TTGATG
1 ATTTAATAATGATTTTATAATAATC
*
449153 ATTTAGTAATGATTTTATAATAATC
1 ATTTAATAATGATTTTATAATAATC
449178 ATTATAATAATGA-TTTAGTAATAATC
1 ATT-TAATAATGATTTTA-TAATAATC
* *
449204 ATTATAATAATGATTTAATAATAATG
1 ATT-TAATAATGATTTTATAATAATC
*
449230 A--TAATAATGATTTAATAATAATC
1 ATTTAATAATGATTTTATAATAATC
* * *
449253 ATTATAATAATGATTTAATAGTAATG
1 ATT-TAATAATGATTTTATAATAATC
* *
449279 ATTTAGTAATGATTTTATAATAATG
1 ATTTAATAATGATTTTATAATAATC
449304 ATTTAATAAT
1 ATTTAATAAT
449314 TATTACTAAT
Statistics
Matches: 190, Mismatches: 29, Indels: 28
0.77 0.12 0.11
Matches are distributed among these distances:
21 3 0.02
22 3 0.02
23 37 0.19
24 9 0.05
25 57 0.30
26 75 0.39
27 6 0.03
ACGTcount: A:0.44, C:0.02, G:0.09, T:0.45
Consensus pattern (25 bp):
ATTTAATAATGATTTTATAATAATC
Found at i:449223 original size:49 final size:49
Alignment explanation
Indices: 449062--449272 Score: 211
Period size: 49 Copynumber: 4.3 Consensus size: 49
449052 GATGATTTAG
*
449062 TAATGATTTTAATATTATGATT-TAATAATGATTTAGTAATAATCATTATAA
1 TAATGA-TTTAATA--ATCATTATAATAATGATTTAGTAATAATCATTATAA
* * *
449113 TAATGATTTAATAATGACTTTAATATTTAATGATTT-G--ATGAT--TTAGTAA
1 TAATGATTTAATAAT--CATT-ATA-ATAATGATTTAGTAATAATCATTA-TAA
* *
449162 TGAT-TTTATAATAATCATTATAATAATGATTTAGTAATAATCATTATAA
1 TAATGATT-TAATAATCATTATAATAATGATTTAGTAATAATCATTATAA
* * *
449211 TAATGATTTAATAATAATGATAATAATGATTTAATAATAATCATTATAA
1 TAATGATTTAATAATCATTATAATAATGATTTAGTAATAATCATTATAA
449260 TAATGATTTAATA
1 TAATGATTTAATA
449273 GTAATGATTT
Statistics
Matches: 133, Mismatches: 14, Indels: 28
0.76 0.08 0.16
Matches are distributed among these distances:
45 9 0.07
46 4 0.03
47 3 0.02
48 11 0.08
49 70 0.53
50 18 0.14
51 6 0.05
52 3 0.02
53 9 0.07
ACGTcount: A:0.45, C:0.02, G:0.08, T:0.45
Consensus pattern (49 bp):
TAATGATTTAATAATCATTATAATAATGATTTAGTAATAATCATTATAA
Found at i:451831 original size:11 final size:11
Alignment explanation
Indices: 451817--451855 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
451807 ATAAACTATT
451817 CTTTAATATAA
1 CTTTAATATAA
*
451828 CTTTAACTAT-T
1 CTTTAA-TATAA
451839 CTTTAATATAA
1 CTTTAATATAA
451850 CTTTAA
1 CTTTAA
451856 CTAATAAACT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
10 3 0.12
11 18 0.75
12 3 0.12
ACGTcount: A:0.38, C:0.13, G:0.00, T:0.49
Consensus pattern (11 bp):
CTTTAATATAA
Found at i:451835 original size:22 final size:22
Alignment explanation
Indices: 451810--451858 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
451800 ACAACTAATA
451810 AACTATTCTTTAATATAACTTT
1 AACTATTCTTTAATATAACTTT
451832 AACTATTCTTTAATATAACTTT
1 AACTATTCTTTAATATAACTTT
451854 AACTA
1 AACTA
451859 ATAAACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.39, C:0.14, G:0.00, T:0.47
Consensus pattern (22 bp):
AACTATTCTTTAATATAACTTT
Found at i:451836 original size:30 final size:30
Alignment explanation
Indices: 451802--451927 Score: 128
Period size: 30 Copynumber: 4.4 Consensus size: 30
451792 TACCTTAAAC
451802 AACTAATAAACTATTCTTTAATATAAC--T
1 AACTAATAAACTATTCTTTAATATAACTTT
451830 ---T--T-AACTATTCTTTAATATAACTTT
1 AACTAATAAACTATTCTTTAATATAACTTT
*
451854 AACTAATAAACTATTCTTTAATATAACTTA
1 AACTAATAAACTATTCTTTAATATAACTTT
*
451884 AACTAATAAACGATT-TTTAATTATAA-TTT
1 AACTAATAAACTATTCTTTAA-TATAACTTT
*
451913 ACTACTAAAAAACTA
1 A--ACTAATAAACTA
451928 ATTAACTAAA
Statistics
Matches: 82, Mismatches: 5, Indels: 19
0.77 0.05 0.18
Matches are distributed among these distances:
22 19 0.23
23 1 0.01
24 1 0.01
25 1 0.01
27 1 0.01
29 9 0.11
30 40 0.49
31 10 0.12
ACGTcount: A:0.45, C:0.13, G:0.01, T:0.41
Consensus pattern (30 bp):
AACTAATAAACTATTCTTTAATATAACTTT
Found at i:451875 original size:15 final size:16
Alignment explanation
Indices: 451831--451881 Score: 61
Period size: 15 Copynumber: 3.3 Consensus size: 16
451821 AATATAACTT
451831 TAACTATTCTTTAATA
1 TAACTATTCTTTAATA
***
451847 TAACT-TTAACTAATA
1 TAACTATTCTTTAATA
451862 -AACTATTCTTTAATA
1 TAACTATTCTTTAATA
451877 TAACT
1 TAACT
451882 TAAACTAATA
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
14 4 0.15
15 14 0.52
16 9 0.33
ACGTcount: A:0.41, C:0.14, G:0.00, T:0.45
Consensus pattern (16 bp):
TAACTATTCTTTAATA
Found at i:452039 original size:41 final size:37
Alignment explanation
Indices: 451984--452097 Score: 97
Period size: 41 Copynumber: 2.9 Consensus size: 37
451974 CTTAACTATT
451984 TAACTAAC--ACAAACTAATTACATATTTTTTTATATA
1 TAACTAACAAACAAACTAATTA-ATATTTTTTTATATA
* *
452020 TAACTAACGACTAACAAACTAACTAATTATTTTTATTAATATG
1 TAACTAAC-A--AACAAACTAATTAA-TATTTTT-TT-ATATA
* * *
452063 TAACTATCAAACATACTAATTAAATAATTTTTTAT
1 TAACTAACAAACAAACTAATT-AATATTTTTTTAT
452098 TTCTATATGA
Statistics
Matches: 63, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
36 8 0.13
38 2 0.03
39 2 0.03
40 17 0.27
41 20 0.32
42 3 0.05
43 11 0.17
ACGTcount: A:0.45, C:0.13, G:0.02, T:0.40
Consensus pattern (37 bp):
TAACTAACAAACAAACTAATTAATATTTTTTTATATA
Found at i:452131 original size:21 final size:21
Alignment explanation
Indices: 452107--452146 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
452097 TTTCTATATG
452107 ATATAACTTAAACTAACAATA
1 ATATAACTTAAACTAACAATA
*
452128 ATATAATTTAAACTAACAA
1 ATATAACTTAAACTAACAA
452147 ACTCATTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.30
Consensus pattern (21 bp):
ATATAACTTAAACTAACAATA
Found at i:452224 original size:18 final size:18
Alignment explanation
Indices: 452171--452225 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
452161 TTTGTTTACC
*
452171 CTAATTTATAATAATAAA
1 CTAATTTATAACAATAAA
452189 CTAA--T-TAAC--T-AA
1 CTAATTTATAACAATAAA
452201 -TAATTTATAACAATAAA
1 CTAATTTATAACAATAAA
452218 CTAATTTA
1 CTAATTTA
452226 AATAATTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 14
0.66 0.02 0.32
Matches are distributed among these distances:
11 3 0.10
12 2 0.07
13 2 0.07
14 4 0.14
15 3 0.10
16 2 0.07
17 2 0.07
18 11 0.38
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (18 bp):
CTAATTTATAACAATAAA
Found at i:452303 original size:8 final size:8
Alignment explanation
Indices: 452290--452320 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
452280 AACTTAAACT
*
452290 ACTAATAA
1 ACTAATTA
452298 ACTAATTA
1 ACTAATTA
452306 ACTAATTA
1 ACTAATTA
452314 ACTAATT
1 ACTAATT
452321 TTTATATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (8 bp):
ACTAATTA
Found at i:452395 original size:27 final size:29
Alignment explanation
Indices: 452360--452424 Score: 73
Period size: 28 Copynumber: 2.3 Consensus size: 29
452350 TATATATAAC
* *
452360 TTAACTATTTA-ACTAAC-TACAAACTAA
1 TTAAATATTTAGACTAACAAACAAACTAA
*
452387 TTAAATA-TTAGACTAACAAACACACTAA
1 TTAAATATTTAGACTAACAAACAAACTAA
*
452415 TTAATTATTT
1 TTAAATATTT
452425 TTTTAATATA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
26 3 0.10
27 12 0.39
28 14 0.45
29 2 0.06
ACGTcount: A:0.48, C:0.15, G:0.02, T:0.35
Consensus pattern (29 bp):
TTAAATATTTAGACTAACAAACAAACTAA
Found at i:452561 original size:39 final size:39
Alignment explanation
Indices: 452506--452590 Score: 152
Period size: 39 Copynumber: 2.2 Consensus size: 39
452496 AATAATAAAA
452506 CTTAAACTAACAAACTAATTAACAAAAATTTTGTTTTAC
1 CTTAAACTAACAAACTAATTAACAAAAATTTTGTTTTAC
* *
452545 CTTAAACTAACTAACTAATTAACTAAAATTTTGTTTTAC
1 CTTAAACTAACAAACTAATTAACAAAAATTTTGTTTTAC
452584 CTTAAAC
1 CTTAAAC
452591 CATAAACTAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.44, C:0.16, G:0.02, T:0.38
Consensus pattern (39 bp):
CTTAAACTAACAAACTAATTAACAAAAATTTTGTTTTAC
Found at i:453028 original size:29 final size:29
Alignment explanation
Indices: 452996--453060 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 29
452986 GTCGTCGGGC
*
452996 GTGCATGGCGACC-TACAAGGTCGCTGGGA
1 GTGCATGGCGACCTTA-AAGGTCACTGGGA
* *
453025 GTGCATGGCGACCTTATAGGTCATTGGGA
1 GTGCATGGCGACCTTAAAGGTCACTGGGA
453054 GTGCATG
1 GTGCATG
453061 AAGACCTGTG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
29 30 0.94
30 2 0.06
ACGTcount: A:0.20, C:0.20, G:0.37, T:0.23
Consensus pattern (29 bp):
GTGCATGGCGACCTTAAAGGTCACTGGGA
Found at i:455536 original size:15 final size:15
Alignment explanation
Indices: 455509--455564 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
455499 ATATTATTTT
455509 TATTATT-TTTAAAA
1 TATTATTATTTAAAA
455523 TATTATTATTTAAAA
1 TATTATTATTTAAAA
* *
455538 TATTTGTTTATTAAAAA
1 TA-TT-ATTATTTAAAA
*
455555 TATTAATATT
1 TATTATTATT
455565 AGACGTTACT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
14 7 0.20
15 13 0.37
16 4 0.11
17 11 0.31
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (15 bp):
TATTATTATTTAAAA
Found at i:457233 original size:25 final size:25
Alignment explanation
Indices: 457205--457252 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
457195 CAGTGTGACA
*
457205 TAATAAACCGGTTATTGATATATGG
1 TAATAAACCGGTAATTGATATATGG
*
457230 TAATAAATCGGTAATTGATATAT
1 TAATAAACCGGTAATTGATATAT
457253 TTATACATCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.40, C:0.06, G:0.17, T:0.38
Consensus pattern (25 bp):
TAATAAACCGGTAATTGATATATGG
Found at i:472301 original size:20 final size:19
Alignment explanation
Indices: 472197--472327 Score: 163
Period size: 19 Copynumber: 6.7 Consensus size: 19
472187 AACACAGAAG
*
472197 TCAAATTCGCAACACTTAATT
1 TCAAATTCGC-A-ACTGAATT
*
472218 TCAAATTCACAACTGAATT
1 TCAAATTCGCAACTGAATT
472237 TCAAATTCGCAACTGAATT
1 TCAAATTCGCAACTGAATT
472256 TCAAATTCGCAACTGAATT
1 TCAAATTCGCAACTGAATT
*
472275 TCAAATTCGCAACTCGATTT
1 TCAAATTCGCAACT-GAATT
* * *
472295 TCGAATTCACAACTCGATTT
1 TCAAATTCGCAACT-GAATT
*
472315 TCGAATTCGCAAC
1 TCAAATTCGCAAC
472328 AGGTTTTAGT
Statistics
Matches: 102, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
19 58 0.57
20 35 0.34
21 9 0.09
ACGTcount: A:0.35, C:0.24, G:0.09, T:0.32
Consensus pattern (19 bp):
TCAAATTCGCAACTGAATT
Found at i:473914 original size:18 final size:17
Alignment explanation
Indices: 473860--473908 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
473850 TTGGACCCTT
* *
473860 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TCA
473878 GAGTGCATCGATGCATCA
1 -AGTGCATCGATGCATCA
473896 AGTGCATTCGATG
1 AGTGCA-TCGATG
473909 TTTCAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATCA
Found at i:473928 original size:64 final size:61
Alignment explanation
Indices: 473859--474039 Score: 193
Period size: 65 Copynumber: 2.8 Consensus size: 61
473849 GTTGGACCCT
*
473859 TAGTGCATCGGTGCACTAAGAGTGCATCGATGCATCAAGTGCATTCGATGTTTCA-AAATAGCC
1 TAGTGCATCGGTGCA-T-AGAGTGCATCGATGCATCAAATGCATTCGATGTTTCATAAA-AGCC
* * * * *
473922 ATAGTGCATCGATGCATTGCTGGTGTATCGATGCATCAAATGCATTCGATGTTTTCATAAAATCC
1 -TAGTGCATCGGTGCATAG--AGTGCATCGATGCATCAAATGCATTCGATG-TTTCATAAAAGCC
* *
473987 TCAGTGCATCGGTGCATGGTATGTGCATCGATGCATGAAATGCATTCGATGTT
1 T-AGTGCATCGGTGCATAG-A-GTGCATCGATGCATCAAATGCATTCGATGTT
474040 CAATTTAATT
Statistics
Matches: 100, Mismatches: 11, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
62 1 0.01
63 1 0.01
64 45 0.45
65 50 0.50
66 3 0.03
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.31
Consensus pattern (61 bp):
TAGTGCATCGGTGCATAGAGTGCATCGATGCATCAAATGCATTCGATGTTTCATAAAAGCC
Found at i:474017 original size:65 final size:65
Alignment explanation
Indices: 473880--474039 Score: 202
Period size: 65 Copynumber: 2.5 Consensus size: 65
473870 TGCACTAAGA
*
473880 GTGCATCGATGCATCAAGTGCATTCGATG-TTTCAAAATAGCCATAGTGCATCGATGCATTGCTG
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAATAGCCATAGTGCATCGATGCATTGCTG
* * * *
473944 GTGTATCGATGCATCAAATGCATTCGATGTTTTCATAAA-ATCC-TCAGTGCATCGGTGCA-TGG
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTCA-AAATAGCCAT-AGTGCATCGATGCATTGC
*
474006 TAT
64 T-G
*
474009 GTGCATCGATGCATGAAATGCATTCGATGTT
1 GTGCATCGATGCATCAAATGCATTCGATGTT
474040 CAATTTAATT
Statistics
Matches: 84, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
64 31 0.37
65 50 0.60
66 3 0.04
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (65 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAATAGCCATAGTGCATCGATGCATTGCTG
Found at i:474557 original size:2 final size:2
Alignment explanation
Indices: 474546--474592 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
474536 AAACATAGCC
474546 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
474587 AT AT AT
1 AT AT AT
474593 TAAGCTGCTA
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 43 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:475168 original size:21 final size:21
Alignment explanation
Indices: 475144--475187 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
475134 GAGCTGGAGG
* *
475144 AGGAGGAGCACGAGAGGAGCT
1 AGGAGCAGCACGAGAGGAACT
* *
475165 AGGAGCAGCTCGTGAGGAACT
1 AGGAGCAGCACGAGAGGAACT
475186 AG
1 AG
475188 CTCCTGGAGT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.43, T:0.09
Consensus pattern (21 bp):
AGGAGCAGCACGAGAGGAACT
Found at i:475330 original size:31 final size:32
Alignment explanation
Indices: 475272--475331 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
475262 AGGATATGAG
475272 ATTGATTTGATTTTGAAGTGGGATAGGATTGT
1 ATTGATTTGATTTTGAAGTGGGATAGGATTGT
475304 ATTGATTTGATTTTGAAGT-GGATAGGAT
1 ATTGATTTGATTTTGAAGTGGGATAGGAT
475332 GTCAAGAGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 9 0.32
32 19 0.68
ACGTcount: A:0.27, C:0.00, G:0.30, T:0.43
Consensus pattern (32 bp):
ATTGATTTGATTTTGAAGTGGGATAGGATTGT
Found at i:475928 original size:19 final size:20
Alignment explanation
Indices: 475896--475933 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
475886 TCCTCTCATC
475896 TCTTCTTCCTTCTT-TCTTA
1 TCTTCTTCCTTCTTCTCTTA
475915 TCTTCTTCAC-TCTTCTCTT
1 TCTTCTTC-CTTCTTCTCTT
475934 CTTCCAAACG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.05, C:0.34, G:0.00, T:0.61
Consensus pattern (20 bp):
TCTTCTTCCTTCTTCTCTTA
Found at i:476436 original size:21 final size:21
Alignment explanation
Indices: 476394--476436 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
476384 TTTCTGGGCT
* *
476394 AGGGGAATCGGTACCCATTCA
1 AGGGGAATCGATACCCACTCA
*
476415 AGGGGAATCGATACCCCCTCA
1 AGGGGAATCGATACCCACTCA
476436 A
1 A
476437 CGAATATGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:477164 original size:23 final size:23
Alignment explanation
Indices: 477120--477164 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
477110 ATTATTATAT
*
477120 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
* *
477143 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
477165 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:482702 original size:19 final size:20
Alignment explanation
Indices: 482670--482707 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
482660 TCCTCTCATC
482670 TCTTCTTCCTTCTT-TCTTA
1 TCTTCTTCCTTCTTCTCTTA
482689 TCTTCTTCAC-TCTTCTCTT
1 TCTTCTTC-CTTCTTCTCTT
482708 CTTCCAAACG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.05, C:0.34, G:0.00, T:0.61
Consensus pattern (20 bp):
TCTTCTTCCTTCTTCTCTTA
Found at i:483209 original size:21 final size:21
Alignment explanation
Indices: 483167--483209 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
483157 TTTCTGGGCT
* *
483167 AGGGGAATCGGTACCCATTCA
1 AGGGGAATCGATACCCACTCA
*
483188 AGGGGAATCGATACCCCCTCA
1 AGGGGAATCGATACCCACTCA
483209 A
1 A
483210 CGAATATGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:483942 original size:23 final size:23
Alignment explanation
Indices: 483898--483942 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
483888 ATTATTATAT
*
483898 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
* *
483921 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
483943 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:485181 original size:17 final size:19
Alignment explanation
Indices: 485159--485200 Score: 61
Period size: 17 Copynumber: 2.3 Consensus size: 19
485149 ATTTTTGAAA
*
485159 TTTTGAAATAATT-TTT-T
1 TTTTGAAAAAATTGTTTGT
485176 TTTTGAAAAAATTGTTTGT
1 TTTTGAAAAAATTGTTTGT
485195 TTTTGA
1 TTTTGA
485201 CGAAATTGGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 12 0.55
18 3 0.14
19 7 0.32
ACGTcount: A:0.29, C:0.00, G:0.12, T:0.60
Consensus pattern (19 bp):
TTTTGAAAAAATTGTTTGT
Found at i:485458 original size:19 final size:20
Alignment explanation
Indices: 485434--485472 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
485424 AAAAATCGTT
485434 GATTTTGAGCAAGA-ATGGA
1 GATTTTGAGCAAGAGATGGA
* *
485453 GATTTTTAGGAAGAGATGGA
1 GATTTTGAGCAAGAGATGGA
485473 CGAATGGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.36, C:0.03, G:0.33, T:0.28
Consensus pattern (20 bp):
GATTTTGAGCAAGAGATGGA
Found at i:487446 original size:21 final size:21
Alignment explanation
Indices: 487404--487500 Score: 65
Period size: 21 Copynumber: 4.6 Consensus size: 21
487394 GAGTGGGACA
*
487404 TCTTGAACGATGACAGGGGCC
1 TCTTGAACGATGACAGGAGCC
* **
487425 TCTTGAACGGTGGGAGGAGCC
1 TCTTGAACGATGACAGGAGCC
* * *
487446 TCTTCG-ATGATGAGATGAGCC
1 TCTT-GAACGATGACAGGAGCC
* *
487467 TCTTGAATGAT-A-GGAGACGCC
1 TCTTGAACGATGACAG-GA-GCC
487488 TCTTGAACGATGA
1 TCTTGAACGATGA
487501 TAGGTGCATC
Statistics
Matches: 60, Mismatches: 11, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
20 4 0.07
21 54 0.90
22 2 0.03
ACGTcount: A:0.25, C:0.20, G:0.32, T:0.24
Consensus pattern (21 bp):
TCTTGAACGATGACAGGAGCC
Found at i:487500 original size:42 final size:42
Alignment explanation
Indices: 487404--487500 Score: 99
Period size: 42 Copynumber: 2.3 Consensus size: 42
487394 GAGTGGGACA
* * *
487404 TCTTGAACGATGACAGGGGCCTCTTGAACGGTGGGAGGAGCC
1 TCTTGAACGATGACAGGAGCCTCTTGAACGATAGGAGGAGCC
* * * *
487446 TCTTCG-ATGATGAGATGAGCCTCTTGAATGATAGGA-GACGCC
1 TCTT-GAACGATGACAGGAGCCTCTTGAACGATAGGAGGA-GCC
487488 TCTTGAACGATGA
1 TCTTGAACGATGA
487501 TAGGTGCATC
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
41 3 0.07
42 40 0.91
43 1 0.02
ACGTcount: A:0.25, C:0.20, G:0.32, T:0.24
Consensus pattern (42 bp):
TCTTGAACGATGACAGGAGCCTCTTGAACGATAGGAGGAGCC
Found at i:490040 original size:22 final size:23
Alignment explanation
Indices: 490015--490071 Score: 57
Period size: 22 Copynumber: 2.6 Consensus size: 23
490005 AGATGGAGAT
* *
490015 AGACAGATTTCGCTGA-AGATGG
1 AGACAGATTTCGCTCAGAGACGG
490037 AGAC-GAATTTCG-TCAGAGACGG
1 AGACAG-ATTTCGCTCAGAGACGG
*
490059 AGACAGATGTCGC
1 AGACAGATTTCGC
490072 CGTAGAGAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
21 3 0.11
22 24 0.86
23 1 0.04
ACGTcount: A:0.32, C:0.18, G:0.32, T:0.19
Consensus pattern (23 bp):
AGACAGATTTCGCTCAGAGACGG
Found at i:490215 original size:19 final size:20
Alignment explanation
Indices: 490185--490227 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
490175 GTTTCGAATT
*
490185 CGAAAATAAAATTCGCGTTG
1 CGAAAATAAAATGCGCGTTG
*
490205 CGAAAAT-AAATGCGCTTTG
1 CGAAAATAAAATGCGCGTTG
490224 CGAA
1 CGAA
490228 TTTGACTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.40, C:0.16, G:0.21, T:0.23
Consensus pattern (20 bp):
CGAAAATAAAATGCGCGTTG
Found at i:490274 original size:20 final size:20
Alignment explanation
Indices: 490221--490345 Score: 198
Period size: 20 Copynumber: 6.3 Consensus size: 20
490211 TAAATGCGCT
490221 TTGCGAATTTGACTTTTGTG
1 TTGCGAATTTGACTTTTGTG
490241 TTGC-AATTTGACTTTTGTG
1 TTGCGAATTTGACTTTTGTG
* *
490260 TTGCGAATTTAACTTCTGTG
1 TTGCGAATTTGACTTTTGTG
*
490280 TTGCGAATTTGACTTTTGTA
1 TTGCGAATTTGACTTTTGTG
*
490300 TTGCGAATTTGACTTATGTG
1 TTGCGAATTTGACTTTTGTG
*
490320 TTGCGAATTTGACTTATGTG
1 TTGCGAATTTGACTTTTGTG
490340 TTGCGA
1 TTGCGA
490346 TTTCCAAATT
Statistics
Matches: 97, Mismatches: 7, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
19 19 0.20
20 78 0.80
ACGTcount: A:0.18, C:0.11, G:0.23, T:0.47
Consensus pattern (20 bp):
TTGCGAATTTGACTTTTGTG
Found at i:490304 original size:40 final size:40
Alignment explanation
Indices: 490221--490370 Score: 189
Period size: 40 Copynumber: 3.8 Consensus size: 40
490211 TAAATGCGCT
* *
490221 TTGCGAATTTGACTTTTGTGTTGC-AATTTGACTTTTGTG
1 TTGCGAATTTAACTTCTGTGTTGCGAATTTGACTTTTGTG
*
490260 TTGCGAATTTAACTTCTGTGTTGCGAATTTGACTTTTGTA
1 TTGCGAATTTAACTTCTGTGTTGCGAATTTGACTTTTGTG
* * *
490300 TTGCGAATTTGACTTATGTGTTGCGAATTTGACTTATGTG
1 TTGCGAATTTAACTTCTGTGTTGCGAATTTGACTTTTGTG
* *
490340 TTGCG-ATTTCCAAATTC-GCGTTGCGAATTTG
1 TTGCGAATTT--AACTTCTGTGTTGCGAATTTG
490371 GAAACTGAGT
Statistics
Matches: 97, Mismatches: 11, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
39 26 0.27
40 68 0.70
41 3 0.03
ACGTcount: A:0.19, C:0.13, G:0.23, T:0.46
Consensus pattern (40 bp):
TTGCGAATTTAACTTCTGTGTTGCGAATTTGACTTTTGTG
Found at i:490364 original size:60 final size:60
Alignment explanation
Indices: 490240--490370 Score: 158
Period size: 60 Copynumber: 2.2 Consensus size: 60
490230 TGACTTTTGT
* * * ** * *
490240 GTTGC-AATTTGACTTTTGTGTTGCGAATTTAACTTCTGTGTTGCGAATTTGACTTTTGT
1 GTTGCGAATTTGACTTATGTGTTGCGAATTTAACTTATGTGTTGCGAATTTCAAATTCGC
* *
490299 ATTGCGAATTTGACTTATGTGTTGCGAATTTGACTTATGTGTTGCG-ATTTCCAAATTCGC
1 GTTGCGAATTTGACTTATGTGTTGCGAATTTAACTTATGTGTTGCGAATTT-CAAATTCGC
490359 GTTGCGAATTTG
1 GTTGCGAATTTG
490371 GAAACTGAGT
Statistics
Matches: 60, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
59 8 0.13
60 52 0.87
ACGTcount: A:0.19, C:0.13, G:0.23, T:0.45
Consensus pattern (60 bp):
GTTGCGAATTTGACTTATGTGTTGCGAATTTAACTTATGTGTTGCGAATTTCAAATTCGC
Found at i:490382 original size:20 final size:20
Alignment explanation
Indices: 490359--490406 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
490349 CCAAATTCGC
490359 GTTGCGAATTTGGAAACTGA
1 GTTGCGAATTTGGAAACTGA
*
490379 GTTGCGAATTTGGAAACTGG
1 GTTGCGAATTTGGAAACTGA
490399 GTTGCGAA
1 GTTGCGAA
490407 ATAGGAGTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.27, C:0.10, G:0.33, T:0.29
Consensus pattern (20 bp):
GTTGCGAATTTGGAAACTGA
Found at i:514099 original size:23 final size:23
Alignment explanation
Indices: 514073--514120 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
514063 ATCAAGTATA
514073 ATAA-CAAATTAGGTAGCGCTTAT
1 ATAATCAAA-TAGGTAGCGCTTAT
**
514096 ATAATGTAATAGGTAGCGCTTAT
1 ATAATCAAATAGGTAGCGCTTAT
514119 AT
1 AT
514121 TGACCTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 20 0.91
24 2 0.09
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAATCAAATAGGTAGCGCTTAT
Done.