Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold108
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: 1249174
ACGTcount: A:0.19, C:0.10, G:0.10, T:0.18
Warning! 531763 characters in sequence are not A, C, G, or T
File 4 of 5
Found at i:458892 original size:79 final size:81
Alignment explanation
Indices: 458668--458866 Score: 264
Period size: 79 Copynumber: 2.5 Consensus size: 81
458658 TGGAGATAAC
* * *
458668 AACGGGGCTGGAGTATCCCCGATTGTGGAAAATCGATG-TTCTGAAAATAAAATCGAGGTTGGAG
1 AACGGGGTTGGAGTATCCCCGATTGTGAAAAATCGATGATTCTGAAAATAAAATCGGGGTTGGAG
*
458732 TA-TCCCTTCGGAAAT
66 TATTCCCTTCGAAAAT
* * * * * *
458747 AACAGGGTTGGAGCATCCCTGATTAT-AGAAAATCAAT-ATTGTGAAAATAAAATCGGGGTTGGA
1 AACGGGGTTGGAGTATCCCCGATTGTGA-AAAATCGATGATTCTGAAAATAAAATCGGGGTTGGA
458810 GTATTCCC-TCGAAAAT
65 GTATTCCCTTCGAAAAT
458826 AACGGGGTTGGAGTATCCCCGATTGTGAAAAATCGATGATT
1 AACGGGGTTGGAGTATCCCCGATTGTGAAAAATCGATGATT
458867 TAGAAATAAG
Statistics
Matches: 100, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
79 92 0.92
80 8 0.08
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.26
Consensus pattern (81 bp):
AACGGGGTTGGAGTATCCCCGATTGTGAAAAATCGATGATTCTGAAAATAAAATCGGGGTTGGAG
TATTCCCTTCGAAAAT
Found at i:458924 original size:51 final size:51
Alignment explanation
Indices: 458828--458944 Score: 155
Period size: 51 Copynumber: 2.3 Consensus size: 51
458818 TCGAAAATAA
* * *
458828 CGGGGTTGGAGTATCCCCGATTGTGAAAAATCGATGATTTAGAAATAAGGT
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATCAATGATTTAGAAATAAAGC
* * * *
458879 GGGGGTTGAAGTATCCCCGATTGTGAGAAATCAAT-ATTTTGGAAATAAAGC
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATCAATGA-TTTAGAAATAAAGC
458930 CGGGGTTGGAGTATC
1 CGGGGTTGGAGTATC
458945 TCTCGGAAAT
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
50 1 0.02
51 55 0.98
ACGTcount: A:0.30, C:0.12, G:0.31, T:0.27
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCCCGATTGTGAAAAATCAATGATTTAGAAATAAAGC
Found at i:459100 original size:51 final size:51
Alignment explanation
Indices: 458988--459104 Score: 162
Period size: 51 Copynumber: 2.3 Consensus size: 51
458978 GAAATAACAA
* * **
458988 GGTTAGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAATTGG
1 GGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAACCGG
* * * *
459039 AGTTGAAGTATCCTCGATTGTGGAAAATTGGTGTTTTAGAAATAAAACCGG
1 GGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAACCGG
459090 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
459105 TCAGAAATGA
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
51 55 1.00
ACGTcount: A:0.30, C:0.11, G:0.27, T:0.32
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAACCGG
Found at i:459128 original size:79 final size:79
Alignment explanation
Indices: 459040--459260 Score: 275
Period size: 78 Copynumber: 2.8 Consensus size: 79
459030 TAAAATTGGA
* * * *
459040 GTTGAAGTATCCTCGATTGTGGAAAATTGGTGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAACCGGGGTTGGAGTATCCCC
* **
459105 TCAGAAATGATGGG
66 TCAGAAATAACAGG
* * * * * *
459119 GTTGGAGTATCCCCAATTGTGAAAAACTGGTGTTTTGGGAATAAAATCAGGGTTAGAGTAT-CCC
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAACCGGGGTTGGAGTATCCCC
459183 TCAGAAATAACAGG
66 TCAGAAATAACAGG
* * * *
459197 ATTAGAGTATCCCCGATTATGAAAAATTGATGTTTTGGAAAT-AAACCGGGGTTGGAGTATCCCC
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAACCGGGGTTGGAGTATCCCC
459261 AAGATGAAGA
Statistics
Matches: 118, Mismatches: 23, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
77 15 0.13
78 52 0.44
79 51 0.43
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (79 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAACCGGGGTTGGAGTATCCCC
TCAGAAATAACAGG
Found at i:461510 original size:20 final size:21
Alignment explanation
Indices: 461485--461524 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
461475 AAAATGCTTG
461485 AATGTATCGATAC-ATTGTAC
1 AATGTATCGATACAATTGTAC
461505 AATGTATCGATACAATTGTA
1 AATGTATCGATACAATTGTA
461525 AAAATTTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (21 bp):
AATGTATCGATACAATTGTAC
Found at i:462074 original size:42 final size:43
Alignment explanation
Indices: 462027--462110 Score: 125
Period size: 43 Copynumber: 2.0 Consensus size: 43
462017 GAGGGCAAAG
* *
462027 TGAAAAAG-AGTACGTCCTGCTTTTCGAGGACAAAAGAAAAAA
1 TGAAAAAGAAATACGTCCTACTTTTCGAGGACAAAAGAAAAAA
* *
462069 TGAAAACGAAATACGTCCTACTTTTTGAGGACAAAAGAAAAA
1 TGAAAAAGAAATACGTCCTACTTTTCGAGGACAAAAGAAAAA
462111 GGAAAATAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 7 0.19
43 30 0.81
ACGTcount: A:0.46, C:0.14, G:0.19, T:0.20
Consensus pattern (43 bp):
TGAAAAAGAAATACGTCCTACTTTTCGAGGACAAAAGAAAAAA
Found at i:462180 original size:45 final size:45
Alignment explanation
Indices: 462083--462321 Score: 203
Period size: 45 Copynumber: 5.4 Consensus size: 45
462073 AACGAAATAC
*
462083 GTCCTACTTTTTGAGGACAAAA--G-AAA-AAGGAAAAT-AAA-GT
1 GTCCTACTCTTTGAGGACAAAAGGGAAAAGAAGG-AAATGAAATGT
*
462123 GCACCCTACTCTTTGAGGACAAAAGGGAAAAGAAGGAAAT-AAAGTGT
1 G--TCCTACTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAA-TGT
* * * * *
462170 GTCGTGCTCTTTGAGGACAAAAAGGGGAAAATAAGGAAATGGAACGT
1 GTCCTACTCTTTGAGGAC-AAAA-GGGAAAAGAAGGAAATGAAATGT
* * * *
462217 GTCCTGCTATTTGAGGAC-AAA-GGAGAAG-AGGAAAAT-AAAGTGC
1 GTCCTACTCTTTGAGGACAAAAGGGAAAAGAAGG-AAATGAAA-TGT
* *
462260 GTCCTACTCTTTGAAGACAAAAGGAAAAAGAAGGAAATGAAATGT
1 GTCCTACTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAATGT
*
462305 GTTCTACTCTTTGAGGA
1 GTCCTACTCTTTGAGGA
462322 TACAGGAGAA
Statistics
Matches: 159, Mismatches: 23, Indels: 29
0.75 0.11 0.14
Matches are distributed among these distances:
40 1 0.01
42 24 0.15
43 25 0.16
44 4 0.03
45 53 0.33
46 14 0.09
47 36 0.23
48 2 0.01
ACGTcount: A:0.41, C:0.12, G:0.26, T:0.21
Consensus pattern (45 bp):
GTCCTACTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAATGT
Found at i:462494 original size:62 final size:62
Alignment explanation
Indices: 462329--464140 Score: 2037
Period size: 62 Copynumber: 29.6 Consensus size: 62
462319 GGATACAGGA
* * * ** **
462329 GAAAAGGAAAAGGCATCCTACTCTTCAAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTT
1 GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTT
* * *
462391 GAAAAG-AAAAGGCGTCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGACTTT
1 GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTT
* * *
462452 GAAAAGAAAAAGGTGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAGCTCGTGTAGGCTTT
1 GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTT
* * ** *
462514 GAAAAGAAAAATGCGTCTTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT
1 GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTT
* * *
462576 AAAAAGAAAAAGGTGTCTTGCTCTTTGAGGACTAAA-GGTGCCACCAACTCGTGTGGGCTTT
1 GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTT
*
462637 GAAAAGAAAAAGACGTCCTGCTCTTTGAGGACTAGAA-GGTGCCACCAACTCGTGTGGGCTTT
1 GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTA-AAGGGTGCCACCAACTCGTGTGGGCTTT
* * *
462699 --AAAGGAGAAGGCGTCCTACTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTT
1 GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTT
* * *
462759 GAAAAGAAAAATGTGTCCTGCTCTTTGAGGACT-AAGAGGTGCCACTAACTCGTGTGGGCTTT
1 GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAG-GGTGCCACCAACTCGTGTGGGCTTT
* * * *
462821 G--AAGGAGAAGGCGTCTTACTCTTTGAGGACTAAAGGGTGCCACCAACAT-GTGTGGGCTTT
1 GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAAC-TCGTGTGGGCTTT
* * *
462881 GAAAAGAAAAAGGTGTCCTACTCTTTGAGGACTAGAA-GGTGCCACCAA-TTGTGTGGGCTTT
1 GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTA-AAGGGTGCCACCAACTCGTGTGGGCTTT
* * *
462942 -AAAGGAGAAA-GCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGAGCTTT
1 GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTT
* * * * * *
463002 GAAAAGAAAAAAGGTGTCCTACACTTTAAGGACT-AGGAGGTGCCACCAACTCGTGTAGGCTTT
1 GAAAAG-AAAAAGGCGTCCTGCTCTTTGAGGACTAAAG-GGTGCCACCAACTCGTGTGGGCTTT
* * * *
463065 G--AAGGAGAAGGCATCCTGCTCTTTAAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTT
1 GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTT
* ** * ** *
463125 GAAAAGGAAAAGGTATCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT
1 GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTT
*** * *
463187 -AAAAGGAAAAAAATGTCCTGCTCTTTGAGGACTAAACGGTGCCACCAACTCATGTGGGCTTT
1 GAAAA-GAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTT
* * * * * *
463249 GAGAAG-AAAAGGACGTCTTGCTTTTTGAGGACTGGAA-GGTGCCACCAACTTGTGTGGGATTT
1 GAAAAGAAAAAGG-CGTCCTGCTCTTTGAGGACT-AAAGGGTGCCACCAACTCGTGTGGGCTTT
* * * *
463311 --AAAGGAGAAGGCGTCCTGCTTTTTGAGG-CATAAAGGGTGTCACCAACTCGTGTGGGCTTT
1 GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGAC-TAAAGGGTGCCACCAACTCGTGTGGGCTTT
* *
463371 GAAAAGAAAAAGGTGTCCTGCTCTTTGAGGACT-AAGAGGTGCCACTAACTCGTGTGGGCTTT
1 GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAG-GGTGCCACCAACTCGTGTGGGCTTT
*** *
463433 G--AAGGTGAAGGCGTCTTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTT
1 GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTT
* * * *
463493 G-AGAG-AGAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT
1 GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTT
* * ** *
463553 GAAAAGAAAAAGGTGTCCTGCTTTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT
1 GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTT
* *** * * * *
463615 AAAAAGAAAAAAATGTCCTGCTCTTTGAGAACTAAA-TGTGCCACCAACTTGTCTGGGCTTT
1 GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTT
* * * *
463676 GAAAAGAAAAAGACGTCCTACTCTTTGAGGACTAGAA-GGTGCCACCAATTTGTGTGGGCTTT
1 GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTA-AAGGGTGCCACCAACTCGTGTGGGCTTT
* * * * * * *
463738 --AAAGGAAAAGGCATCCTGTTCCTTGACGACTAAAGGGAGCCAACAACTCGTGTGGGCTTT
1 GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTT
* * * *
463798 GAAAAGAAAAAAGTGTCCTGCTCTTTGAGGACTGGAA-GGTGCCACCAACTTGTGTGGGCTTT
1 GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACT-AAAGGGTGCCACCAACTCGTGTGGGCTTT
* * * * * *
463860 --AAAGGAGAAGGCGTCCTACTCTTTGAAGACTAAAGGGTGTCACCAACTCGTGTGGACTTT
1 GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTT
** ** *
463920 GAAAAGAAAAAGGTTTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT
1 GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTT
* * * * *
463982 AAAAAGAAAAAGGTGTCATGCTCTTTGAGGACTAAA-GGTGCCACCAGCTTGTGTGGGCTTT
1 GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTT
* * * * * * *
464043 -AAAAGGAAACGGCATCTTGCTCTTTGAAGACTAGAA-GGTGCCACCAAGTTGT-TGGGCTTT
1 GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTA-AAGGGTGCCACCAACTCGTGTGGGCTTT
*
464103 -AAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGG
1 GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGG
464141 CTAAAAGGGG
Statistics
Matches: 1500, Mismatches: 204, Indels: 94
0.83 0.11 0.05
Matches are distributed among these distances:
58 2 0.00
59 42 0.03
60 469 0.31
61 251 0.17
62 685 0.46
63 51 0.03
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (62 bp):
GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTT
Found at i:462778 original size:122 final size:122
Alignment explanation
Indices: 462330--464139 Score: 2066
Period size: 122 Copynumber: 14.8 Consensus size: 122
462320 GATACAGGAG
* * ** **
462330 AAAAGGAAAAGGCATCCTACTCTTCAAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAA
1 AAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAA
* *
462395 AG-AAAAGGCGTCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGACTTT
66 AGAAAAAGGCGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTCGTGTGGGCTTT
* * * *
462452 GAAAAGAAAAAGGTGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAGCTCGTGTAGGCTTTGAA
1 -AAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAA
* * * *
462517 AAGAAAAATGCGTCTTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT
65 AAGAAAAAGGCGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTCGTGTGGGCTTT
* * *
462576 AAAAAGAAAAAGGTGTCTTGCTCTTTGAGGACTAAA-GGTGCCACCAACTCGTGTGGGCTTTGAA
1 -AAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAA
*
462640 AAGAAAAAGACGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTCGTGTGGGCTTT
65 AAGAAAAAGGCGTCCTGCTCTTTGAGGACTA-AAGGTGCCACCAACTCGTGTGGGCTTT
* *
462699 -AAAGGAGAAGGCGTCCTACTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAA
1 AAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAA
* * *
462763 AGAAAAATGTGTCCTGCTCTTTGAGGACTAAGAGGTGCCACTAACTCGTGTGGGCTTT
66 AGAAAAAGGCGTCCTGCTCTTTGAGGACTAA-AGGTGCCACCAACTCGTGTGGGCTTT
* * * *
462821 -GAAGGAGAAGGCGTCTTACTCTTTGAGGACTAAAGGGTGCCACCAACAT-GTGTGGGCTTTGAA
1 AAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAAC-TCGTGTGGGCTTTGAA
* * *
462884 AAGAAAAAGGTGTCCTACTCTTTGAGGACTAGAAGGTGCCACCAA-TTGTGTGGGCTTT
65 AAGAAAAAGGCGTCCTGCTCTTTGAGGACTA-AAGGTGCCACCAACTCGTGTGGGCTTT
*
462942 -AAAGGAGAAA-GCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGAGCTTTGAA
1 AAAAGGA-AAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAA
* * * * * *
463005 AAGAAAAAAGGTGTCCTACACTTTAAGGACTAGGAGGTGCCACCAACTCGTGTAGGCTTT
65 AAG-AAAAAGGCGTCCTGCTCTTTGAGGACTA-AAGGTGCCACCAACTCGTGTGGGCTTT
* * * *
463065 -GAAGGAGAAGGCATCCTGCTCTTTAAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAA
1 AAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAA
* ** * * *
463129 AGGAAAAGGTATCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT
66 AGAAAAAGGCGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTCGTGTGGGCTTT
*** * * *
463187 AAAAGGAAAAAAATGTCCTGCTCTTTGAGGACTAAACGGTGCCACCAACTCATGTGGGCTTTGAG
1 AAAAGG-AAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAA
* * * * *
463252 AAG-AAAAGGACGTCTTGCTTTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGATTT
65 AAGAAAAAGG-CGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTCGTGTGGGCTTT
* * *
463311 -AAAGGAGAAGGCGTCCTGCTTTTTGAGG-CATAAAGGGTGTCACCAACTCGTGTGGGCTTTGAA
1 AAAAGGAAAAGGCGTCCTGCTCTTTGAGGAC-TAAAGGGTGCCACCAACTCGTGTGGGCTTTGAA
* *
463374 AAGAAAAAGGTGTCCTGCTCTTTGAGGACTAAGAGGTGCCACTAACTCGTGTGGGCTTT
65 AAGAAAAAGGCGTCCTGCTCTTTGAGGACTAA-AGGTGCCACCAACTCGTGTGGGCTTT
* ** * *
463433 -GAAGGTGAAGGCGTCTTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTG-AG
1 AAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAA
* *
463496 AG-AGAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT
66 AGAAAAAGGCGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTCGTGTGGGCTTT
* * * ** * *
463553 GAAAAGAAAAAGGTGTCCTGCTTTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAAA
1 -AAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAA
*** * * * *
463618 AAGAAAAAAATGTCCTGCTCTTTGAGAACTAAATGTGCCACCAACTTGTCTGGGCTTT
65 AAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGCTTT
* * * * *
463676 GAAAAGAAAAAGACGTCCTACTCTTTGAGGACTAGAA-GGTGCCACCAATTTGTGTGGGCTTT--
1 -AAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTA-AAGGGTGCCACCAACTCGTGTGGGCTTTGA
* * * * * * *
463738 AAAGGAAAAGGCATCCTGTTCCTTGACGACTAAAGGGAGCCAACAACTCGTGTGGGCTTT
64 AAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAA-GGTGCCACCAACTCGTGTGGGCTTT
* * * * *
463798 GAAAAGAAAAAAGTGTCCTGCTCTTTGAGGACTGGAA-GGTGCCACCAACTTGTGTGGGCTTT--
1 -AAAAGGAAAAGGCGTCCTGCTCTTTGAGGACT-AAAGGGTGCCACCAACTCGTGTGGGCTTTGA
* * * * * *
463860 AAAGGAGAAGGCGTCCTACTCTTTGAAGACTAAAGGGTGTCACCAACTCGTGTGGACTTT
64 AAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAA-GGTGCCACCAACTCGTGTGGGCTTT
* ** ** * *
463920 GAAAAGAAAAAGGTTTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAAA
1 -AAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAA
* * * *
463985 AAGAAAAAGGTGTCATGCTCTTTGAGGACTAAAGGTGCCACCAGCTTGTGTGGGCTTT
65 AAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGCTTT
* * * * * *
464043 AAAAGGAAACGGCATCTTGCTCTTTGAAGACTAGAA-GGTGCCACCAAGTTGT-TGGGCTTT-AA
1 AAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTA-AAGGGTGCCACCAACTCGTGTGGGCTTTGAA
*
464105 AAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAGG
65 AAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGG
464140 GCTAAAAGGG
Statistics
Matches: 1466, Mismatches: 190, Indels: 65
0.85 0.11 0.04
Matches are distributed among these distances:
120 83 0.06
121 140 0.10
122 685 0.47
123 333 0.23
124 225 0.15
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (122 bp):
AAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAA
AGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGCTTT
Found at i:471772 original size:20 final size:20
Alignment explanation
Indices: 471747--471934 Score: 200
Period size: 20 Copynumber: 9.7 Consensus size: 20
471737 AAAATGCTTG
471747 AATGTATCGATACATTGTAA
1 AATGTATCGATACATTGTAA
471767 AATGTATCGATACATTGTAA
1 AATGTATCGATACATTGTAA
471787 AATGTATCGATACATTGTAA
1 AATGTATCGATACATTGTAA
471807 AATGTATCGATACATTGTAA
1 AATGTATCGATACATTGTAA
471827 AATGTATCGATACATCTAGGT--
1 AATGTATCGATACAT-T--GTAA
471848 AATGTATCGATAC-------
1 AATGTATCGATACATTGTAA
* *
471861 AATGTATCGATACAATG-AGC
1 AATGTATCGATACATTGTA-A
* *
471881 AATGTATCGATACAATGCAA
1 AATGTATCGATACATTGTAA
* *
471901 AATGTATTGATACAATG-AA
1 AATGTATCGATACATTGTAA
471920 CAATGTATCGATACA
1 -AATGTATCGATACA
471935 AATTGTGAAA
Statistics
Matches: 153, Mismatches: 3, Indels: 24
0.85 0.02 0.13
Matches are distributed among these distances:
13 13 0.08
19 2 0.01
20 121 0.79
21 15 0.10
23 2 0.01
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.31
Consensus pattern (20 bp):
AATGTATCGATACATTGTAA
Found at i:471896 original size:13 final size:13
Alignment explanation
Indices: 471848--471877 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
471838 ACATCTAGGT
471848 AATGTATCGATAC
1 AATGTATCGATAC
471861 AATGTATCGATAC
1 AATGTATCGATAC
471874 AATG
1 AATG
471878 AGCAATGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:476741 original size:20 final size:20
Alignment explanation
Indices: 476713--476750 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
476703 CCATTGGACT
* *
476713 TAATGTATCGATATAATTCA
1 TAATATATCGATACAATTCA
476733 TAATATATCGATACAATT
1 TAATATATCGATACAATT
476751 ATAGCCGTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.11, G:0.08, T:0.39
Consensus pattern (20 bp):
TAATATATCGATACAATTCA
Found at i:477076 original size:24 final size:23
Alignment explanation
Indices: 477032--477076 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
477022 ATTATTTTTA
* *
477032 CTTGAAAAATATTTGATTTATTG
1 CTTGAAAAATATTTAACTTATTG
477055 CTTGAAAAATATTTAAACTTAT
1 CTTGAAAAATATTT-AACTTAT
477077 CTCTAAAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.40, C:0.07, G:0.09, T:0.44
Consensus pattern (23 bp):
CTTGAAAAATATTTAACTTATTG
Found at i:477703 original size:13 final size:13
Alignment explanation
Indices: 477685--477710 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
477675 TACAGCAAGT
477685 ATGTATCGATACA
1 ATGTATCGATACA
477698 ATGTATCGATACA
1 ATGTATCGATACA
477711 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:479962 original size:21 final size:21
Alignment explanation
Indices: 479929--479973 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
479919 TTGGAAGTTG
*
479929 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
479951 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
479971 AAA
1 AAA
479974 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:481796 original size:15 final size:15
Alignment explanation
Indices: 481776--481806 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
481766 TAAAAATGTC
*
481776 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
481791 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
481806 C
1 C
481807 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:483903 original size:13 final size:13
Alignment explanation
Indices: 483885--483923 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
483875 ACATTTTTCT
483885 TTGTATCGATACA
1 TTGTATCGATACA
483898 TTGTATCGATACA
1 TTGTATCGATACA
483911 TTGTATCGATACA
1 TTGTATCGATACA
483924 GGGTGATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:485714 original size:20 final size:20
Alignment explanation
Indices: 485689--485729 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
485679 TGATATGAAT
*
485689 TACTTGATTAAGGGGGAGAA
1 TACTTGATTAAGGGAGAGAA
485709 TACTTGATTAAGGGAGAGAA
1 TACTTGATTAAGGGAGAGAA
485729 T
1 T
485730 TATTAATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.37, C:0.05, G:0.32, T:0.27
Consensus pattern (20 bp):
TACTTGATTAAGGGAGAGAA
Found at i:486463 original size:13 final size:13
Alignment explanation
Indices: 486445--486470 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
486435 TACAGCAAGT
486445 ATGTATCGATACA
1 ATGTATCGATACA
486458 ATGTATCGATACA
1 ATGTATCGATACA
486471 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:492333 original size:20 final size:21
Alignment explanation
Indices: 492301--492339 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
492291 TGCATCACAC
492301 ACCTTATGGCAATCAAACTTT
1 ACCTTATGGCAATCAAACTTT
*
492322 ACCTTA-GGCAATCCAACT
1 ACCTTATGGCAATCAAACT
492340 ACAAAGTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.33, C:0.28, G:0.10, T:0.28
Consensus pattern (21 bp):
ACCTTATGGCAATCAAACTTT
Found at i:493270 original size:21 final size:21
Alignment explanation
Indices: 493246--493286 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
493236 ATGCAATTTC
*
493246 TTGTTCTTGCTAGTTAATTCG
1 TTGTTCTTACTAGTTAATTCG
* *
493267 TTGTTTTTATTAGTTAATTC
1 TTGTTCTTACTAGTTAATTC
493287 TTTATTGTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.17, C:0.10, G:0.15, T:0.59
Consensus pattern (21 bp):
TTGTTCTTACTAGTTAATTCG
Found at i:495339 original size:20 final size:21
Alignment explanation
Indices: 495316--495354 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
495306 CTAAGCAATA
495316 TGTATCGATACA-TCTAGGTG
1 TGTATCGATACATTCTAGGTG
495336 TGTATCGATACATTCTAGG
1 TGTATCGATACATTCTAGG
495355 GTTTTGACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (21 bp):
TGTATCGATACATTCTAGGTG
Found at i:495457 original size:24 final size:23
Alignment explanation
Indices: 495413--495457 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
495403 ATTGTTTTTA
* * *
495413 CTTGAAAAAGATTTGATTTATTG
1 CTTGAAAAAAATTTAACTTATTG
495436 CTTGAAAAAAATTTAAACTTAT
1 CTTGAAAAAAATTT-AACTTAT
495458 CTCTACAACA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 13 0.72
24 5 0.28
ACGTcount: A:0.42, C:0.07, G:0.11, T:0.40
Consensus pattern (23 bp):
CTTGAAAAAAATTTAACTTATTG
Found at i:498289 original size:21 final size:22
Alignment explanation
Indices: 498256--498296 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
498246 TTAGCTTAGA
498256 TGATGAGATTATGATGAAATCT
1 TGATGAGATTATGATGAAATCT
*
498278 TGATGA-ATTATGTTGAAAT
1 TGATGAGATTATGATGAAAT
498297 GAACTTAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.37, C:0.02, G:0.22, T:0.39
Consensus pattern (22 bp):
TGATGAGATTATGATGAAATCT
Found at i:499257 original size:53 final size:50
Alignment explanation
Indices: 499197--499300 Score: 127
Period size: 50 Copynumber: 2.0 Consensus size: 50
499187 AAAGAAATAT
* * *
499197 TTTTGTCTAGGTCCTTACTCTTAGAAATTTTTTTTTTAGTATATATCATCTAA
1 TTTTGTCTAGGTCCCTAATCTTAG-AA--TTTGTTTTAGTATATATCATCTAA
* * *
499250 TTTTGTCTTGGTCCCTAATCTTAGAATTTGTTTTAGTATTTTTCATCTAA
1 TTTTGTCTAGGTCCCTAATCTTAGAATTTGTTTTAGTATATATCATCTAA
499300 T
1 T
499301 CCTCATTGAA
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
50 22 0.49
52 2 0.04
53 21 0.47
ACGTcount: A:0.22, C:0.13, G:0.11, T:0.54
Consensus pattern (50 bp):
TTTTGTCTAGGTCCCTAATCTTAGAATTTGTTTTAGTATATATCATCTAA
Found at i:500853 original size:54 final size:53
Alignment explanation
Indices: 500726--500899 Score: 154
Period size: 54 Copynumber: 3.2 Consensus size: 53
500716 TTCCAAGTCT
** *
500726 AATGATGCCGATAGGCTAGTTTC-TCTAATTGGCCCATTTTAAAAGTTAAGCCC
1 AATGATGTTGATAGGCTAGTTTCGT-TAATTGGCCCATTTCAAAAGTTAAGCCC
* * * * * *
500779 AACGATGCT-AGTAAGTTAGTTCCAGTTAATTAGCCCATTTCAAAAGTTAAGCCC
1 AATGATGTTGA-TAGGCTAGTTTC-GTTAATTGGCCCATTTCAAAAGTTAAGCCC
* * * * * *
500833 AATAATGTTGATAGGCTAGTTTTGGCTAATTGGCCTATATCAAAAGTTAAGCCT
1 AATGATGTTGATAGGCTAG-TTTCGTTAATTGGCCCATTTCAAAAGTTAAGCCC
*
500887 AATGATGTCGATA
1 AATGATGTTGATA
500900 ATACTAATTC
Statistics
Matches: 95, Mismatches: 21, Indels: 9
0.76 0.17 0.07
Matches are distributed among these distances:
52 1 0.01
53 16 0.17
54 74 0.78
55 4 0.04
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (53 bp):
AATGATGTTGATAGGCTAGTTTCGTTAATTGGCCCATTTCAAAAGTTAAGCCC
Found at i:500931 original size:55 final size:54
Alignment explanation
Indices: 500750--501002 Score: 177
Period size: 54 Copynumber: 4.7 Consensus size: 54
500740 GCTAGTTTCT
* * * * * ** * *
500750 CTAATTGGCCCATTTTAAAAGTTAAGCCCAACGATGCT-AGTAAGTTAGTTCCAG
1 CTAATTGGCCTATTTCAAAAGTTAAGCCTAATGATGTTGA-TAAACTAATTCTAG
* * * * * ** * * *
500804 TTAATTAGCCCATTTCAAAAGTTAAGCCCAATAATGTTGATAGGCTAGTTTTGG
1 CTAATTGGCCTATTTCAAAAGTTAAGCCTAATGATGTTGATAAACTAATTCTAG
* *
500858 CTAATTGGCCTATATCAAAAGTTAAGCCTAATGATGTCGATAATACTAATTCTAG
1 CTAATTGGCCTATTTCAAAAGTTAAGCCTAATGATGTTGATAA-ACTAATTCTAG
* * * * * * * *
500913 CTAATTGGTCTTTTTCAAAATTTATG-CTCAATGACGTTAATAAACTAATTCCAA
1 CTAATTGGCCTATTTCAAAAGTTAAGCCT-AATGATGTTGATAAACTAATTCTAG
* * *
500967 TTAATTGGCCTATTTCAATAGTTAATCCTAATGATG
1 CTAATTGGCCTATTTCAAAAGTTAAGCCTAATGATG
501003 CTGGTATAGT
Statistics
Matches: 154, Mismatches: 41, Indels: 8
0.76 0.20 0.04
Matches are distributed among these distances:
54 112 0.73
55 42 0.27
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (54 bp):
CTAATTGGCCTATTTCAAAAGTTAAGCCTAATGATGTTGATAAACTAATTCTAG
Found at i:502066 original size:20 final size:20
Alignment explanation
Indices: 502041--502096 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 20
502031 CGACCACTGT
*
502041 TTGTATTGATACATTG-CACA
1 TTGTATCGATACATTGACA-A
502061 TTGTATCGATACA-TGACGAA
1 TTGTATCGATACATTGAC-AA
502081 TTGTATCGATACATTG
1 TTGTATCGATACATTG
502097 TCCCAAACAG
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
19 2 0.06
20 27 0.84
21 3 0.09
ACGTcount: A:0.30, C:0.14, G:0.18, T:0.38
Consensus pattern (20 bp):
TTGTATCGATACATTGACAA
Found at i:506647 original size:21 final size:21
Alignment explanation
Indices: 506598--506649 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 21
506588 AGAAAATATT
*
506598 ATTTGTTATAAAA--GAAGAA
1 ATTTGGTATAAAATTGAAGAA
506617 A-TTGG-A-AAAATTGAAGAA
1 ATTTGGTATAAAATTGAAGAA
506635 ATTTGGTATAAAATT
1 ATTTGGTATAAAATT
506650 TCTTTATAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 8
0.75 0.03 0.22
Matches are distributed among these distances:
16 4 0.15
17 1 0.04
18 10 0.37
19 5 0.19
20 1 0.04
21 6 0.22
ACGTcount: A:0.50, C:0.00, G:0.17, T:0.33
Consensus pattern (21 bp):
ATTTGGTATAAAATTGAAGAA
Found at i:508491 original size:20 final size:19
Alignment explanation
Indices: 508466--508519 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 19
508456 GTTACAAGCA
508466 ATGTATCGATACAA-TCCAT
1 ATGTATCGATACAAGTCC-T
508485 CATGTATCGATACAATGTCCT
1 -ATGTATCGATACAA-GTCCT
508506 ATGTATCGATACAA
1 ATGTATCGATACAA
508520 ACAGTGGTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 28 0.88
21 1 0.03
22 3 0.09
ACGTcount: A:0.35, C:0.20, G:0.13, T:0.31
Consensus pattern (19 bp):
ATGTATCGATACAAGTCCT
Found at i:508574 original size:20 final size:20
Alignment explanation
Indices: 508549--508601 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
508539 TACCAGCTTC
*
508549 ATGTATCGATACAAAGTATT
1 ATGTATCGATACAAAGTATA
508569 ATGTATCGATACAAAGTATA
1 ATGTATCGATACAAAGTATA
508589 ATGTATCGATACA
1 ATGTATCGATACA
508602 TCTGGGTGTG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.42, C:0.11, G:0.15, T:0.32
Consensus pattern (20 bp):
ATGTATCGATACAAAGTATA
Found at i:511098 original size:13 final size:13
Alignment explanation
Indices: 511080--511104 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
511070 TAGTAACCCA
511080 TGTATCGATACAG
1 TGTATCGATACAG
511093 TGTATCGATACA
1 TGTATCGATACA
511105 AGGAATGCTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:514993 original size:13 final size:13
Alignment explanation
Indices: 514975--515000 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
514965 TACACAAAGT
514975 ATGTATCGATACA
1 ATGTATCGATACA
514988 ATGTATCGATACA
1 ATGTATCGATACA
515001 TAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:514998 original size:32 final size:33
Alignment explanation
Indices: 514957--515020 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
514947 TAGCCAAACT
**
514957 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
*
514989 TGTATCGATACATAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
515021 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.30
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:519109 original size:15 final size:15
Alignment explanation
Indices: 519071--519101 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
519061 TAAAAATGTC
*
519071 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
519086 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
519101 C
1 C
519102 CAAGTGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:521195 original size:13 final size:13
Alignment explanation
Indices: 521177--521201 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
521167 CATTTTTCTT
521177 TGTATCGATACAA
1 TGTATCGATACAA
521190 TGTATCGATACA
1 TGTATCGATACA
521202 GGGGGATTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:521680 original size:21 final size:21
Alignment explanation
Indices: 521642--521685 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
521632 GGCAGCACCA
* * *
521642 CCAGGTCGCGACCTGGCACTC
1 CCAGGTCACAACCGGGCACTC
*
521663 CCAGGTCACAACCGGGCAGTC
1 CCAGGTCACAACCGGGCACTC
521684 CC
1 CC
521686 CACACTAGTC
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:0.18, C:0.43, G:0.27, T:0.11
Consensus pattern (21 bp):
CCAGGTCACAACCGGGCACTC
Found at i:523782 original size:13 final size:13
Alignment explanation
Indices: 523764--523789 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
523754 TTCCCAAAGT
523764 ATGTATCGATACA
1 ATGTATCGATACA
523777 ATGTATCGATACA
1 ATGTATCGATACA
523790 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:527163 original size:20 final size:19
Alignment explanation
Indices: 527138--527191 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 19
527128 GTTACAAGCA
527138 ATGTATCGATACAA-TCCAT
1 ATGTATCGATACAAGTCC-T
527157 CATGTATCGATACAATGTCCT
1 -ATGTATCGATACAA-GTCCT
527178 ATGTATCGATACAA
1 ATGTATCGATACAA
527192 ACAGTGGTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 28 0.88
21 1 0.03
22 3 0.09
ACGTcount: A:0.35, C:0.20, G:0.13, T:0.31
Consensus pattern (19 bp):
ATGTATCGATACAAGTCCT
Found at i:527264 original size:19 final size:20
Alignment explanation
Indices: 527220--527272 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
527210 CTGTTAGTTT
**
527220 CATGTATCGATACAATAGTC
1 CATGTATCGATACAATAGAA
527240 CATGTATCGATACAAT-GAA
1 CATGTATCGATACAATAGAA
527259 CATGTATCGATACA
1 CATGTATCGATACA
527273 TTGTATCGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (20 bp):
CATGTATCGATACAATAGAA
Found at i:527279 original size:13 final size:13
Alignment explanation
Indices: 527261--527285 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
527251 ACAATGAACA
527261 TGTATCGATACAT
1 TGTATCGATACAT
527274 TGTATCGATACA
1 TGTATCGATACA
527286 AAGCATAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:527302 original size:33 final size:32
Alignment explanation
Indices: 527242--527306 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 32
527232 CAATAGTCCA
*
527242 TGTATCGATACAATGAACATGTATCGATACAT
1 TGTATCGATACAAAGAACATGTATCGATACAT
527274 TGTATCGATACAAAGCATA-ATGTATCGATACAT
1 TGTATCGATACAAAG-A-ACATGTATCGATACAT
527307 CTGGTGAGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 14 0.47
33 15 0.50
34 1 0.03
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (32 bp):
TGTATCGATACAAAGAACATGTATCGATACAT
Found at i:529109 original size:19 final size:19
Alignment explanation
Indices: 529085--529137 Score: 70
Period size: 19 Copynumber: 2.8 Consensus size: 19
529075 TGTATCGATA
*
529085 CATTGTATTGATACACGTT
1 CATTGTATCGATACACGTT
*
529104 CATTGTATCGATACATGTT
1 CATTGTATCGATACACGTT
* *
529123 CATTATATCAATACA
1 CATTGTATCGATACA
529138 TGCACAATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.32, C:0.17, G:0.11, T:0.40
Consensus pattern (19 bp):
CATTGTATCGATACACGTT
Found at i:529156 original size:20 final size:19
Alignment explanation
Indices: 529104--529159 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
529094 GATACACGTT
* **
529104 CATTGTATCGATACATGTT
1 CATTATATCGATACATGCA
*
529123 CATTATATCAATACATGCA
1 CATTATATCGATACATGCA
*
529142 CAATTTTATCGATACATG
1 C-ATTATATCGATACATG
529160 AAACTGATAG
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.38
Consensus pattern (19 bp):
CATTATATCGATACATGCA
Found at i:529233 original size:21 final size:20
Alignment explanation
Indices: 529188--529242 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 20
529178 CTACCACTGT
*
529188 TTGTATCGATACATGGCACA
1 TTGTATCGATACATGACACA
529208 TTGTATCGATACATGACTGA-A
1 TTGTATCGATACATGAC--ACA
529229 TTGTATCGATACAT
1 TTGTATCGATACAT
529243 TATCTAAATG
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
20 16 0.50
21 15 0.47
22 1 0.03
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (20 bp):
TTGTATCGATACATGACACA
Found at i:532018 original size:20 final size:17
Alignment explanation
Indices: 531986--532030 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 17
531976 GTTTAACTTG
531986 TTTTTTCTATTTTCTCTCT
1 TTTTTTCTATTTT-T-TCT
*
532005 TTTCTTTCTTTTTTTTCT
1 TTT-TTTCTATTTTTTCT
532023 TTTTTTCT
1 TTTTTTCT
532031 CTCCACTTGC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.21
18 6 0.25
19 4 0.17
20 9 0.38
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (17 bp):
TTTTTTCTATTTTTTCT
Found at i:536589 original size:33 final size:33
Alignment explanation
Indices: 536552--536615 Score: 110
Period size: 33 Copynumber: 1.9 Consensus size: 33
536542 AGGCACGTCG
*
536552 GTTTCCATTGCTCGCTCTTCTTCAAGCACGTTA
1 GTTTCCATTGCTCACTCTTCTTCAAGCACGTTA
*
536585 GTTTCTATTGCTCACTCTTCTTCAAGCACGT
1 GTTTCCATTGCTCACTCTTCTTCAAGCACGT
536616 CATCGCGTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.16, C:0.30, G:0.14, T:0.41
Consensus pattern (33 bp):
GTTTCCATTGCTCACTCTTCTTCAAGCACGTTA
Found at i:544203 original size:13 final size:13
Alignment explanation
Indices: 544167--544210 Score: 61
Period size: 13 Copynumber: 3.4 Consensus size: 13
544157 ACTTTTCACT
*
544167 ATGTATTGATACC
1 ATGTATTGATACA
* *
544180 ATGTGTCGATACA
1 ATGTATTGATACA
544193 ATGTATTGATACA
1 ATGTATTGATACA
544206 ATGTA
1 ATGTA
544211 CCATGTATCG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.36
Consensus pattern (13 bp):
ATGTATTGATACA
Found at i:544295 original size:13 final size:13
Alignment explanation
Indices: 544277--544301 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
544267 CAATTGAGTG
544277 TGTATCGATACAA
1 TGTATCGATACAA
544290 TGTATCGATACA
1 TGTATCGATACA
544302 TCTGGATGTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:544298 original size:33 final size:33
Alignment explanation
Indices: 544256--544320 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
544246 TGCCAATTTC
544256 ATGTATCGATACAAT-T-GAGTGTGTATCGATACA
1 ATGTATCGATAC-ATCTGGA-TGTGTATCGATACA
544289 ATGTATCGATACATCTGGATGTGTATCGATAC
1 ATGTATCGATACATCTGGATGTGTATCGATAC
544321 TTTCTAGGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
32 2 0.07
33 26 0.87
34 2 0.07
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.34
Consensus pattern (33 bp):
ATGTATCGATACATCTGGATGTGTATCGATACA
Found at i:544711 original size:18 final size:19
Alignment explanation
Indices: 544671--544714 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
544661 TATTTAGGTA
544671 ATTTTGCCTGATTCATGGC
1 ATTTTGCCTGATTCATGGC
*
544690 ATTTTGCCTTATTCAT-GC
1 ATTTTGCCTGATTCATGGC
544708 ATTTTGC
1 ATTTTGC
544715 TCCAATTGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 9 0.38
19 15 0.62
ACGTcount: A:0.16, C:0.20, G:0.16, T:0.48
Consensus pattern (19 bp):
ATTTTGCCTGATTCATGGC
Found at i:551222 original size:20 final size:20
Alignment explanation
Indices: 551171--551224 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 20
551161 TTCTACGATT
* *
551171 TGTATCGATACAATTAGTGAA
1 TGTATTGATAC-ATAAGTGAA
551192 TGTA-TGAATACATAAGTGAA
1 TGTATTG-ATACATAAGTGAA
551212 TGTATTGATACAT
1 TGTATTGATACAT
551225 GTCTCAAATG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
20 19 0.66
21 10 0.34
ACGTcount: A:0.39, C:0.07, G:0.19, T:0.35
Consensus pattern (20 bp):
TGTATTGATACATAAGTGAA
Found at i:551313 original size:20 final size:21
Alignment explanation
Indices: 551290--551330 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
551280 ATACATAAGT
551290 AAATCTATCGATAC-ATTTCC
1 AAATCTATCGATACAATTTCC
*
551310 AAATGTATCGATACAATTTCC
1 AAATCTATCGATACAATTTCC
551331 TTTGTATCAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.34
Consensus pattern (21 bp):
AAATCTATCGATACAATTTCC
Found at i:554476 original size:20 final size:19
Alignment explanation
Indices: 554450--554526 Score: 75
Period size: 20 Copynumber: 3.9 Consensus size: 19
554440 TAAAAAGACG
554450 AAATGTATCGATACATCGA
1 AAATGTATCGATACATCGA
554469 AGAATGTATCGATACATTC-A
1 A-AATGTATCGATACA-TCGA
* * *
554489 TACACGTATCGATACATTGAA
1 -AAATGTATCGATACATCG-A
*
554510 AAATGTATTGATACATC
1 AAATGTATCGATACATC
554527 TGGGTACTTT
Statistics
Matches: 46, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
19 2 0.04
20 40 0.87
21 4 0.09
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.30
Consensus pattern (19 bp):
AAATGTATCGATACATCGA
Found at i:555498 original size:28 final size:28
Alignment explanation
Indices: 555426--555865 Score: 574
Period size: 28 Copynumber: 15.5 Consensus size: 28
555416 CACTAACTTG
* *
555426 TGTGGGCTTTGAAAAGAGTTGCCACCGACTT
1 TGTGGGCTTTG-AAAG-GATGCCACTGAC-T
*
555457 GTGTGGGCTTTGAAAGGGTGCCACTGACT
1 -TGTGGGCTTTGAAAGGATGCCACTGACT
* *
555486 TATGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
555514 TGTGGGCATTGAAAAGAATGCCATTGACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
555543 TGTGTAGGCTTTGAAAGGATGCCACTGACT
1 TGTG--GGCTTTGAAAGGATGCCACTGACT
*
555573 TGTGGGCTTTAAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
555601 TATAGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
555629 TGTAGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
** * *
555657 CATGGGCTTTAAAAGGATGCCACTGTCT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
555685 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
555713 TATGGGGTTTAAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
555741 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
555769 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
555797 TGTGGGCTTTGAAAGGATGGCACTGAAT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
555825 TGTGGGCTTTGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
555853 TGTGGGCTTTGAA
1 TGTGGGCTTTGAA
555866 GAGATGAACG
Statistics
Matches: 358, Mismatches: 47, Indels: 10
0.86 0.11 0.02
Matches are distributed among these distances:
28 289 0.81
29 19 0.05
30 29 0.08
31 10 0.03
32 11 0.03
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.29
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGATGCCACTGACT
Found at i:557112 original size:31 final size:30
Alignment explanation
Indices: 557077--557148 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 30
557067 GACCCCTTTC
557077 TGTTTTTTTGCTATTTGTTTCTTG-GTTTTTT
1 TGTTTTTTTG-T-TTTGTTTCTTGTGTTTTTT
* *
557108 TGTTTTTTTTTGTTTTTTTTGTTGTGTTTTTT
1 TG--TTTTTTTGTTTTGTTTCTTGTGTTTTTT
557140 TGTTTTTTT
1 TGTTTTTTT
557149 TAGGTATAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
30 7 0.19
31 11 0.31
32 10 0.28
33 8 0.22
ACGTcount: A:0.01, C:0.03, G:0.15, T:0.81
Consensus pattern (30 bp):
TGTTTTTTTGTTTTGTTTCTTGTGTTTTTT
Found at i:557117 original size:10 final size:10
Alignment explanation
Indices: 557102--557149 Score: 69
Period size: 10 Copynumber: 4.6 Consensus size: 10
557092 TGTTTCTTGG
557102 TTTTTTTGTT
1 TTTTTTTGTT
557112 TTTTTTTGTTT
1 TTTTTTTG-TT
*
557123 TTTTTGTTGTG
1 TTTTT-TTGTT
557134 TTTTTTTGTT
1 TTTTTTTGTT
557144 TTTTTT
1 TTTTTT
557150 AGGTATAAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
10 18 0.53
11 13 0.38
12 3 0.09
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (10 bp):
TTTTTTTGTT
Found at i:557127 original size:22 final size:22
Alignment explanation
Indices: 557102--557149 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
557092 TGTTTCTTGG
*
557102 TTTTT-TTGTTTTTTTTTGTTT
1 TTTTTGTTGTGTTTTTTTGTTT
557123 TTTTTGTTGTGTTTTTTTGTTT
1 TTTTTGTTGTGTTTTTTTGTTT
557145 TTTTT
1 TTTTT
557150 AGGTATAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 5 0.20
22 20 0.80
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (22 bp):
TTTTTGTTGTGTTTTTTTGTTT
Found at i:557149 original size:31 final size:33
Alignment explanation
Indices: 557079--557149 Score: 101
Period size: 32 Copynumber: 2.2 Consensus size: 33
557069 CCCCTTTCTG
557079 TTTTTTTGCTATTTGTTTCTTGGTTTTTTTGTT
1 TTTTTTTGCTATTTGTTTCTTGGTTTTTTTGTT
* *
557112 TTTTTTTG-T-TTTTTTTGTTGTGTTTTTTTGTT
1 TTTTTTTGCTATTTGTTTCTTG-GTTTTTTTGTT
557144 TTTTTT
1 TTTTTT
557150 AGGTATAAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
31 9 0.26
32 18 0.51
33 8 0.23
ACGTcount: A:0.01, C:0.03, G:0.14, T:0.82
Consensus pattern (33 bp):
TTTTTTTGCTATTTGTTTCTTGGTTTTTTTGTT
Found at i:570114 original size:22 final size:22
Alignment explanation
Indices: 570071--570116 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
570061 TCTTGACATG
*
570071 GAAAATATGATAATCATACAAT
1 GAAAAAATGATAATCATACAAT
*
570093 GAAAAAATGGATAA-CATTCAAT
1 GAAAAAAT-GATAATCATACAAT
570115 GA
1 GA
570117 GATGCTGGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.54, C:0.09, G:0.13, T:0.24
Consensus pattern (22 bp):
GAAAAAATGATAATCATACAAT
Found at i:571300 original size:13 final size:13
Alignment explanation
Indices: 571282--571312 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
571272 TTGGTGCTCG
571282 ATACAGTGTATCC
1 ATACAGTGTATCC
*
571295 ATACAGTGTATCG
1 ATACAGTGTATCC
571308 ATACA
1 ATACA
571313 TTATTCAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.29
Consensus pattern (13 bp):
ATACAGTGTATCC
Found at i:575818 original size:15 final size:15
Alignment explanation
Indices: 575798--575829 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
575788 GTCAACTTTT
575798 TCATCACCATCATCA
1 TCATCACCATCATCA
575813 TCATCACCATCATCA
1 TCATCACCATCATCA
575828 TC
1 TC
575830 TTTGATGGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.41, G:0.00, T:0.28
Consensus pattern (15 bp):
TCATCACCATCATCA
Found at i:580388 original size:20 final size:21
Alignment explanation
Indices: 580349--580388 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
580339 TAGCCTTCGA
*
580349 CCATGCATTTTTTACTATGTT
1 CCATGCATTTTTAACTATGTT
580370 CCATGCATTTTTAAC-ATGT
1 CCATGCATTTTTAACTATGT
580389 CTAGCATCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.23, C:0.20, G:0.10, T:0.47
Consensus pattern (21 bp):
CCATGCATTTTTAACTATGTT
Found at i:582776 original size:32 final size:30
Alignment explanation
Indices: 582740--582798 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
582730 GAAATCAAAT
582740 ACAAAGAGCT-TAGAAAAATAATAACAATATGA
1 ACAAA-AGCTCTAGAAAAAT-ATAA-AATATGA
*
582772 ACAAAAGCTCTTGAAAAATATAAAATA
1 ACAAAAGCTCTAGAAAAATATAAAATA
582799 CTTTGATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 4 0.16
31 8 0.32
32 13 0.52
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.20
Consensus pattern (30 bp):
ACAAAAGCTCTAGAAAAATATAAAATATGA
Found at i:583117 original size:32 final size:33
Alignment explanation
Indices: 583058--583121 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
583048 TACAGGCCAA
**
583058 TGTATCGATACAATTTTTTGTGCATCGATACAT
1 TGTATCGATACAATACTTTGTGCATCGATACAT
*
583091 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGCATCGATACA
583122 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGCATCGATACAT
Found at i:585666 original size:13 final size:13
Alignment explanation
Indices: 585648--585686 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
585638 ATAATCCCCC
585648 TGTATCGATACAA
1 TGTATCGATACAA
*
585661 TGTATCGATACAT
1 TGTATCGATACAA
585674 TGTATCGATACAA
1 TGTATCGATACAA
585687 AGAAAAATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:589625 original size:21 final size:21
Alignment explanation
Indices: 589596--589640 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
589586 AAGTTTTTAT
*
589596 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
589616 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
589638 TTT
1 TTT
589641 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:591559 original size:32 final size:30
Alignment explanation
Indices: 591523--591581 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
591513 GAAATCAAAT
591523 ACAAAGAGCT-TAGAAAAATAATAACAATATGA
1 ACAAA-AGCTCTAGAAAAAT-ATAA-AATATGA
*
591555 ACAAAAGCTCTTGAAAAATATAAAATA
1 ACAAAAGCTCTAGAAAAATATAAAATA
591582 CTTTGATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 4 0.16
31 8 0.32
32 13 0.52
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.20
Consensus pattern (30 bp):
ACAAAAGCTCTAGAAAAATATAAAATATGA
Found at i:591866 original size:20 final size:20
Alignment explanation
Indices: 591841--591892 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
591831 TACAGGCCAA
**
591841 TGTATCGATACAATTTTTTG
1 TGTATCGATACAATACTTTG
591861 TGTATCGATAC-ATACTTTG
1 TGTATCGATACAATACTTTG
591880 TGTATCGATACAA
1 TGTATCGATACAA
591893 GTTTGGCTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.42
Consensus pattern (20 bp):
TGTATCGATACAATACTTTG
Found at i:1129741 original size:18 final size:18
Alignment explanation
Indices: 1129713--1129754 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
1129703 CACTTTGCAT
1129713 TAAATGTTTACGGGGAATA
1 TAAA-GTTTACGGGGAATA
1129732 TAAAGTTTACGGGGAATA
1 TAAAGTTTACGGGGAATA
1129750 TAAAG
1 TAAAG
1129755 ATGACTCATC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.40, C:0.05, G:0.26, T:0.29
Consensus pattern (18 bp):
TAAAGTTTACGGGGAATA
Found at i:1130209 original size:186 final size:188
Alignment explanation
Indices: 1129872--1130247 Score: 605
Period size: 186 Copynumber: 2.0 Consensus size: 188
1129862 TAAATTAGTC
* * **
1129872 AAAATAATAAATAAAAAATAAAATTAATTAAAATTTCGAAAATTCCCCTTAAAAATAGAATTAAT
1 AAAATAAAAAATAAAAAATAAAATTAATTAAAATCTCGAAAATTCCCCCAAAAAATAGAATTAAT
* *
1129937 ATTAATTACTCACAAACAAGATTTTAGAAATAGAATAATGAAAAAGAACTTAATTACAAGTTAAA
66 ATTAATTAATCACAAACAAGATTTTAGAAATAGAATAATGAAAAAGAACTTAATTACAAGTAAAA
* *
1130002 AACTCGTGAATTTTCACGAGAAATATCTTGATGTAGG-AAAATCAATATATACAAAAA
131 AACTCGTGAATTTTCACGAGAAATAACTTGATATAGGAAAAATCAATATATACAAAAA
1130059 AAAATAAAAAAATAAAAAATAAAATTAATTAAAATCTC-AAAATTCCCCCAAAAAATAGAATTAA
1 AAAAT-AAAAAATAAAAAATAAAATTAATTAAAATCTCGAAAATTCCCCCAAAAAATAGAATTAA
* *
1130123 TATTAATTAATCACAAACAAGA-TTTAGAAATGGAATAATGAAAAAGAACTTAATTGCAAGTAAA
65 TATTAATTAATCACAAACAAGATTTTAGAAATAGAATAATGAAAAAGAACTTAATTACAAGTAAA
* * *
1130187 AAACTCGTGAATTTTTACGAGAAATAACTTGGTATAGGAAAAATCAATATATATAAAAA
130 AAACTCGTGAATTTTCACGAGAAATAACTTGATATAGGAAAAATCAATATATACAAAAA
1130246 AA
1 AA
1130248 TTTAAATTAA
Statistics
Matches: 174, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
186 73 0.42
187 71 0.41
188 30 0.17
ACGTcount: A:0.55, C:0.09, G:0.09, T:0.27
Consensus pattern (188 bp):
AAAATAAAAAATAAAAAATAAAATTAATTAAAATCTCGAAAATTCCCCCAAAAAATAGAATTAAT
ATTAATTAATCACAAACAAGATTTTAGAAATAGAATAATGAAAAAGAACTTAATTACAAGTAAAA
AACTCGTGAATTTTCACGAGAAATAACTTGATATAGGAAAAATCAATATATACAAAAA
Found at i:1132162 original size:84 final size:83
Alignment explanation
Indices: 1132077--1132330 Score: 222
Period size: 84 Copynumber: 3.0 Consensus size: 83
1132067 ATAAAATATA
* * *
1132077 AAAAGAAGTACTTAGGACCAAGCCGACAAGTGAATGAAAGATAAAAAGTTGATTGGGATTAAACT
1 AAAAGAAGTACTTGGGACCAAGCCGACAGGTGAATGAAAGATAAAAAGTTGATCGGGATTAAACT
1132142 GACAAGTCAACGAGGGAT
66 GACAAGTCAACGAGGGAT
* ** * *** * ** **
1132160 AAAGGATTTACTCGGGACTGGGCC-AGCAGGTAAAAAAAAGATAAAGAAGTTGATCGGGATTGGA
1 AAAAGAAGTACTTGGGACCAAGCCGA-CAGGTGAATGAAAGATAAA-AAGTTGATCGGGATTAAA
* * * **
1132224 CCGACTAGTCAACAAAAGAT
64 CTGACAAGTCAACGAGGGAT
* * * * * *
1132244 AAAAGAAAGTACCTGGGACCAAGCCGATAGGGGAATGAAGGATAAAAAGTTGACCAGGATTAAAC
1 AAAAG-AAGTACTTGGGACCAAGCCGACAGGTGAATGAAAGATAAAAAGTTGATCGGGATTAAAC
* *
1132309 TGACATGTCACCGAGGGAT
65 TGACAAGTCAACGAGGGAT
1132328 AAA
1 AAA
1132331 GGATTTACCC
Statistics
Matches: 122, Mismatches: 45, Indels: 7
0.70 0.26 0.04
Matches are distributed among these distances:
82 1 0.01
83 31 0.25
84 64 0.52
85 25 0.20
86 1 0.01
ACGTcount: A:0.43, C:0.14, G:0.27, T:0.17
Consensus pattern (83 bp):
AAAAGAAGTACTTGGGACCAAGCCGACAGGTGAATGAAAGATAAAAAGTTGATCGGGATTAAACT
GACAAGTCAACGAGGGAT
Found at i:1132162 original size:168 final size:167
Alignment explanation
Indices: 1131954--1132417 Score: 450
Period size: 168 Copynumber: 2.8 Consensus size: 167
1131944 CAAGAGAAGG
** * * * * * * *
1131954 AAGTTGATCGGGATCGAATTGACAAGTCAACAAAGGATAAAAGATTTATCCGAGACTAAGTC-GA
1 AAGTTGATCGGGATTAAACTGACAAGTCAACGAGGGATAAAGGATTTA-CCGGGACTAGGCCAG-
* ** * * *
1132018 CAAGTAAACAAGGGATAAAAAAGTTGACCGACATTGGATCGA-TAAGTCAATAAAATATAAAA-A
64 CAAGTAAAAAAAAGATAAAAAAGTTGACCGACATTGGACCGACT-AGTCAACAAAAGATAAAAGA
* *
1132081 GAAGTACTTAGGACCAAGCCGACAAGTGAATGAAAGATAAA
128 -AAGTACCTAGGACCAAGCCGACAAGGGAATGAAAGATAAA
* *
1132122 AAGTTGATTGGGATTAAACTGACAAGTCAACGAGGGATAAAGGATTTACTCGGGACTGGGCCAGC
1 AAGTTGATCGGGATTAAACTGACAAGTCAACGAGGGATAAAGGATTTAC-CGGGACTAGGCCAGC
* * * **
1132187 AGGTAAAAAAAAGATAAAGAAGTTGATCGGGATTGGACCGACTAGTCAACAAAAGATAAAAGAAA
65 AAGTAAAAAAAAGATAAAAAAGTTGACCGACATTGGACCGACTAGTCAACAAAAGATAAAAGAAA
* * * *
1132252 GTACCTGGGACCAAGCCGATAGGGGAATGAAGGATAAA
130 GTACCTAGGACCAAGCCGACAAGGGAATGAAAGATAAA
* * * * * * *
1132290 AAGTTGACCAGGATTAAACTGACATGTCACCGAGGGATAAAGGATTTACCCGGGACTGGGCCGGT
1 AAGTTGATCGGGATTAAACTGACAAGTCAACGAGGGATAAAGGATTTA-CCGGGACTAGGCCAGC
** * * ** * *
1132355 GGGTAAACAAAAGATAAAAAAGTTGACTGGGATTGGACC-AATAAGTTAACAAAAGATAAAAGA
65 AAGTAAAAAAAAGATAAAAAAGTTGACCGACATTGGACCGACT-AGTCAACAAAAGATAAAAGA
1132418 TTTATCCGAG
Statistics
Matches: 248, Mismatches: 42, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
167 3 0.01
168 241 0.97
169 4 0.02
ACGTcount: A:0.43, C:0.13, G:0.25, T:0.18
Consensus pattern (167 bp):
AAGTTGATCGGGATTAAACTGACAAGTCAACGAGGGATAAAGGATTTACCGGGACTAGGCCAGCA
AGTAAAAAAAAGATAAAAAAGTTGACCGACATTGGACCGACTAGTCAACAAAAGATAAAAGAAAG
TACCTAGGACCAAGCCGACAAGGGAATGAAAGATAAA
Found at i:1132375 original size:84 final size:83
Alignment explanation
Indices: 1132113--1132388 Score: 223
Period size: 84 Copynumber: 3.3 Consensus size: 83
1132103 CAAGTGAATG
** * *
1132113 AAAGATAAAAAGTTGATTGGGATTAAACTGACAAGTCAACGAGGGATAAAGGATTTACTCGGGAC
1 AAAGATAAAAAGTTGACCGGGATTAAACTGACATGTCAACGAGGGATAAAGGATTTACCCGGGAC
* **
1132178 TGGGCCAGCAGGTAAAAA
66 TGGGCCGGTGGGTAAAAA
* ** * * ** * ** *
1132196 AAAGATAAAGAAGTTGATCGGGATTGGACCGAC-TAGTCAACAAAAGATAAAAGAAAGTACCTGG
1 AAAGATAAA-AAGTTGACCGGGATTAAACTGACAT-GTCAACGAGGGAT-AAAGGATTTACCCGG
*** * * **
1132260 GACCAAGCCGATAGGG-GAATG
63 GACTGGGCCGGT-GGGTAAAAA
* * *
1132281 AAGGATAAAAAGTTGACCAGGATTAAACTGACATGTCACCGAGGGATAAAGGATTTACCCGGGAC
1 AAAGATAAAAAGTTGACCGGGATTAAACTGACATGTCAACGAGGGATAAAGGATTTACCCGGGAC
*
1132346 TGGGCCGGTGGGTAAACA
66 TGGGCCGGTGGGTAAAAA
*
1132364 AAAGATAAAAAAGTTGACTGGGATT
1 AAAGAT-AAAAAGTTGACCGGGATT
1132389 GGACCAATAA
Statistics
Matches: 139, Mismatches: 47, Indels: 13
0.70 0.24 0.07
Matches are distributed among these distances:
82 3 0.02
83 35 0.25
84 72 0.52
85 27 0.19
86 2 0.01
ACGTcount: A:0.40, C:0.13, G:0.28, T:0.18
Consensus pattern (83 bp):
AAAGATAAAAAGTTGACCGGGATTAAACTGACATGTCAACGAGGGATAAAGGATTTACCCGGGAC
TGGGCCGGTGGGTAAAAA
Found at i:1132739 original size:252 final size:251
Alignment explanation
Indices: 1132199--1132740 Score: 592
Period size: 252 Copynumber: 2.1 Consensus size: 251
1132189 GTAAAAAAAA
* * *
1132199 GATAAAGAAGTTGATCGGGATTGGACCGACTAGTCAACAAAAGATAAAAGAAAGTACCTGGGACC
1 GATAAA-AAGTTGACCGGGATTGGACCGACAAGTCAACAAAAGATAAAAGAAAGTACCTAGGACC
* * * *
1132264 AAGCCGATAGGGGAATGAAGGATAAAAAGTTGACCAGGATTAAACTGACATGTCACCGAGGGATA
65 AAGCCGACAAGGGAATGAAGGATAAAAAGTTAACCAGGATTAAACTGACAAGTCACCGAGGGATA
* ** *
1132329 AAGGATTTACCCGGGACTGGGCCGGTGGGTAAACAAAAGATAAAAAAGTTGACTGGGATTGGACC
130 AAGGATTTACCCAGGACTGGGCCGACGGGTAAACAAAAGATAAAAAAGTTGACTAGGATTGGACC
* * * * ** * *
1132394 AATAAGTTAACAAAAGATAAAAGATTTATCCGAGACTAAGTCGACAAGTAAACAAGG
195 AACAAATCAACAAAAAATAAAAGAAGTATCCGAGACCAAGTCGACAAGGAAACAAGG
* * * * * *
1132451 GATAAAAAGGCTGACCCGGATTGGACCGATAAGTCAATAAAATATAAAAGGAAGTACCTAGGACC
1 GATAAAAA-GTTGACCGGGATTGGACCGACAAGTCAACAAAAGATAAAAGAAAGTACCTAGGACC
* *
1132516 AAGTCGACAAGTGAATGAAGGATAAAAAGTTAACC-GAGATTAAACTGACAAGTCGA-CGAGGGA
65 AAGCCGACAAGGGAATGAAGGATAAAAAGTTAACCAG-GATTAAACTGACAAGTC-ACCGAGGGA
* * * * *
1132579 TAAAGGATTTACCTAGGACTGGGTCGACGGGTAAACAAAGGATAAAGATGTTGA-TCAGGATTGG
128 TAAAGGATTTACCCAGGACTGGGCCGACGGGTAAACAAAAGATAAAAAAGTTGACT-AGGATTGG
** * * **
1132643 ACTGACAAATCAACAAAAAATAAAAAGAAGTA-CCTGGGACCAAG-CTGATAATGGAATGAA-G
192 ACCAACAAATCAACAAAAAAT-AAAAGAAGTATCC-GAGACCAAGTC-GACAA-GGAAACAAGG
** *
1132704 GATAAAAAGTTGACCGGGATTAAATCGACAAGTCAAC
1 GATAAAAAGTTGACCGGGATTGGACCGACAAGTCAAC
1132741 GAGGGATAAA
Statistics
Matches: 237, Mismatches: 45, Indels: 16
0.80 0.15 0.05
Matches are distributed among these distances:
251 4 0.02
252 199 0.84
253 29 0.12
254 5 0.02
ACGTcount: A:0.42, C:0.14, G:0.26, T:0.18
Consensus pattern (251 bp):
GATAAAAAGTTGACCGGGATTGGACCGACAAGTCAACAAAAGATAAAAGAAAGTACCTAGGACCA
AGCCGACAAGGGAATGAAGGATAAAAAGTTAACCAGGATTAAACTGACAAGTCACCGAGGGATAA
AGGATTTACCCAGGACTGGGCCGACGGGTAAACAAAAGATAAAAAAGTTGACTAGGATTGGACCA
ACAAATCAACAAAAAATAAAAGAAGTATCCGAGACCAAGTCGACAAGGAAACAAGG
Found at i:1132746 original size:420 final size:419
Alignment explanation
Indices: 1131977--1132831 Score: 1227
Period size: 420 Copynumber: 2.0 Consensus size: 419
1131967 TCGAATTGAC
* *
1131977 AAGTCAACAAAGGATAAAAGATTTATCCGAGACTAAGTCGACAAGTAAACAAGGGATAAAAAAGT
1 AAGTCAACAAAAGATAAAAGATTTATCCGAGACTAAGTCGACAAGTAAACAAGGGATAAAAAAGC
* *
1132042 TGACCGACATTGGATCGATAAGTCAATAAAATATAAAAAGAAGTACTTAGGACCAAGCCGACAAG
66 TGACCGACATTGGACCGATAAGTCAATAAAATATAAAAAGAAGTACCTAGGACCAAGCCGACAAG
* ** *
1132107 TGAATGAAAGATAAAAAGTTGATTGGGATTAAACTGACAAGTCAACGAGGGATAAAGGATTTACT
131 TGAATGAAAGATAAAAAGTTAACCGAGATTAAACTGACAAGTCAACGAGGGATAAAGGATTTACT
* * * *
1132172 CGGGACTGGGCCAGCAGGTAAAAAAAAGATAAAGAAGTTGATCGGGATTGGACCGACTAGTCAAC
196 CAGGACTGGGCCAGCAGGTAAAAAAAAGATAAAGAAGTTGATCAGGATTGGACCGACAAATCAAC
* *
1132237 AAAAGATAAAAGAAAGTACCTGGGACCAAGCCGATAGGGGAATGAAGGATAAAAAGTTGACCAGG
261 AAAAAATAAAAGAAAGTACCTGGGACCAAGCCGATAAGGGAATGAAGGATAAAAAGTTGACCAGG
* * ****
1132302 ATTAAACTGACATGTCACCGAGGGATAAAGGATTTACCCGGGACTGGGCCGGTGGGTAAACAAAA
326 ATTAAACTGACAAGTCAACGAGGGATAAA-GATTTACCCGGGACTGGGCCGACAAGTAAACAAAA
* *
1132367 GATAAAAAAGTTGA-CTGGGATTGGACCAAT
390 GATAAAAAAGTTGATC-GAGATTAGACCAAT
* *
1132397 AAGTTAACAAAAGATAAAAGATTTATCCGAGACTAAGTCGACAAGTAAACAAGGGATAAAAAGGC
1 AAGTCAACAAAAGATAAAAGATTTATCCGAGACTAAGTCGACAAGTAAACAAGGGATAAAAAAGC
* * *
1132462 TGACCCG-GATTGGACCGATAAGTCAATAAAATATAAAAGGAAGTACCTAGGACCAAGTCGACAA
66 TGA-CCGACATTGGACCGATAAGTCAATAAAATATAAAAAGAAGTACCTAGGACCAAGCCGACAA
* *
1132526 GTGAATGAAGGATAAAAAGTTAACCGAGATTAAACTGACAAGTCGACGAGGGATAAAGGATTTAC
130 GTGAATGAAAGATAAAAAGTTAACCGAGATTAAACTGACAAGTCAACGAGGGATAAAGGATTTAC
* * * * * *
1132591 -CTAGGACTGGGTC-GACGGGTAAACAAAGGATAAAGATGTTGATCAGGATTGGACTGACAAATC
195 TC-AGGACTGGGCCAG-CAGGTAAAAAAAAGATAAAGAAGTTGATCAGGATTGGACCGACAAATC
* *
1132654 AACAAAAAATAAAA-AGAAGTACCTGGGACCAAGCTGATAATGGAATGAAGGATAAAAAGTTGAC
258 AACAAAAAATAAAAGA-AAGTACCTGGGACCAAGCCGATAAGGGAATGAAGGATAAAAAGTTGAC
* *
1132718 CGGGATTAAA-TCGACAAGTCAACGAGGGATAAAGATTTACCCGGGACTGGGCTGACAAGTAAAC
322 CAGGATTAAACT-GACAAGTCAACGAGGGATAAAGATTTACCCGGGACTGGGCCGACAAGTAAAC
* **
1132782 AAAGGATAAAAAAGTTGATCGAGATTAGACTGAT
386 AAAAGATAAAAAAGTTGATCGAGATTAGACCAAT
1132816 AAGTCAACAAAAGATA
1 AAGTCAACAAAAGATA
1132832 GAATGAAGTA
Statistics
Matches: 386, Mismatches: 43, Indels: 13
0.87 0.10 0.03
Matches are distributed among these distances:
419 72 0.19
420 311 0.81
421 3 0.01
ACGTcount: A:0.43, C:0.14, G:0.25, T:0.18
Consensus pattern (419 bp):
AAGTCAACAAAAGATAAAAGATTTATCCGAGACTAAGTCGACAAGTAAACAAGGGATAAAAAAGC
TGACCGACATTGGACCGATAAGTCAATAAAATATAAAAAGAAGTACCTAGGACCAAGCCGACAAG
TGAATGAAAGATAAAAAGTTAACCGAGATTAAACTGACAAGTCAACGAGGGATAAAGGATTTACT
CAGGACTGGGCCAGCAGGTAAAAAAAAGATAAAGAAGTTGATCAGGATTGGACCGACAAATCAAC
AAAAAATAAAAGAAAGTACCTGGGACCAAGCCGATAAGGGAATGAAGGATAAAAAGTTGACCAGG
ATTAAACTGACAAGTCAACGAGGGATAAAGATTTACCCGGGACTGGGCCGACAAGTAAACAAAAG
ATAAAAAAGTTGATCGAGATTAGACCAAT
Found at i:1132850 original size:167 final size:168
Alignment explanation
Indices: 1132433--1132876 Score: 542
Period size: 168 Copynumber: 2.6 Consensus size: 168
1132423 CCGAGACTAA
* * * * * * *
1132433 GTCGACAAGTAAACAAGGGATAAAAAGGCTGACCCG-GATTGGACCGATAAGTCAATAAAATATA
1 GTCGACAAGTAAACAAAGGATAAAAAAGTTGA-TCGAGATTGGACTGATAAGTCAACAAAAAATA
* *
1132497 AAAGGAAGTACCTAGGACCAAGTCGACAAGTGAATGAAGGATAAAAAGTTAACCGAGATTAAACT
65 AAAAGAAGTACCTGGGACCAAGTCGACAAGTGAATGAAGGATAAAAAGTTAACCGAGATTAAACT
* *
1132562 GACAAGTCGACGAGGGATAAAGGATTTACCTAGGACTGG
130 GACAAGTCAACGAGGGATAAAGGATTTACCCAGGACTGG
** * * * *
1132601 GTCGACGGGTAAACAAAGGATAAAGATGTTGATC-AGGATTGGACTGACAAATCAACAAAAAATA
1 GTCGACAAGTAAACAAAGGATAAAAAAGTTGATCGA-GATTGGACTGATAAGTCAACAAAAAATA
* * *
1132665 AAAAGAAGTACCTGGGACCAAG-CTGATAA-TGGAATGAAGGATAAAAAGTTGACCGGGATTAAA
65 AAAAGAAGTACCTGGGACCAAGTC-GACAAGT-GAATGAAGGATAAAAAGTTAACCGAGATTAAA
*
1132728 -TCGACAAGTCAACGAGGGATAAA-GATTTACCCGGGACTGG
128 CT-GACAAGTCAACGAGGGATAAAGGATTTACCCAGGACTGG
* *
1132768 G-CTGACAAGTAAACAAAGGATAAAAAAGTTGATCGAGATTAGACTGATAAGTCAACAAAAGATA
1 GTC-GACAAGTAAACAAAGGATAAAAAAGTTGATCGAGATTGGACTGATAAGTCAACAAAAAATA
* * * *
1132832 GAATGAAGTACATGGGACCAAGTCGACAGGTGAATGAAGGATAAA
65 AAAAGAAGTACCTGGGACCAAGTCGACAAGTGAATGAAGGATAAA
1132877 GGTTGATCGA
Statistics
Matches: 234, Mismatches: 33, Indels: 19
0.82 0.12 0.07
Matches are distributed among these distances:
166 1 0.00
167 107 0.46
168 126 0.54
ACGTcount: A:0.43, C:0.14, G:0.26, T:0.18
Consensus pattern (168 bp):
GTCGACAAGTAAACAAAGGATAAAAAAGTTGATCGAGATTGGACTGATAAGTCAACAAAAAATAA
AAAGAAGTACCTGGGACCAAGTCGACAAGTGAATGAAGGATAAAAAGTTAACCGAGATTAAACTG
ACAAGTCAACGAGGGATAAAGGATTTACCCAGGACTGG
Found at i:1132964 original size:83 final size:83
Alignment explanation
Indices: 1132846--1133210 Score: 347
Period size: 84 Copynumber: 4.4 Consensus size: 83
1132836 GAAGTACATG
* * * *
1132846 GGACCAAGTCGACAGGTGAATGAA-GGATAAAGGTTGATCGAGACTGAACTGACAGGTCACCATA
1 GGACTAAGCCGACAGGTAAAT-AATGGATGAAGGTTGATCGAGACTGAACTGACAGGTCACCATA
*
1132910 AGGGTAATGGGTTTATTGA
65 AGGGTAATGGGTTTATCGA
* * * * *
1132929 GGACTAAGCCGATAAGTAAATAATGGATGAAGGTTGACCGTAGACTGAGCTGATAGGTCACCATA
1 GGACTAAGCCGACAGGTAAATAATGGATGAAGGTTGATCG-AGACTGAACTGACAGGTCACCATA
* * * *
1132994 AGGATAATGGGTCTACCGG
65 AGGGTAATGGGTTTATCGA
* *
1133013 GGACTAAGTCGACAGGTAAACAATGGATGAAGGTTGATCGGAGACT-AAGCTGACAGGTCACCAT
1 GGACTAAGCCGACAGGTAAATAATGGATGAAGGTTGATC-GAGACTGAA-CTGACAGGTCACCAT
1133077 AAGGG--ATGGGGTTTATCGA
64 AAGGGTAAT-GGGTTTATCGA
* * * * *
1133096 GGATTGAGCCAACAGGTAAATAATGGATGCAGGTTGATCG-GA--GAACTGACA---CGCCATGA
1 GGACTAAGCCGACAGGTAAATAATGGATGAAGGTTGATCGAGACTGAACTGACAGGTCACCAT-A
* *
1133155 AGGAG-AGTTGGGGTTTATCGG
65 AGG-GTA-AT-GGGTTTATCGA
**
1133176 GGACTAAGTTGACAGGTAAATAATGGATGAAGGTT
1 GGACTAAGCCGACAGGTAAATAATGGATGAAGGTT
1133211 ATTTCTTGAT
Statistics
Matches: 232, Mismatches: 40, Indels: 23
0.79 0.14 0.08
Matches are distributed among these distances:
76 5 0.02
77 4 0.02
78 1 0.00
79 6 0.03
80 43 0.19
81 2 0.01
82 5 0.02
83 72 0.31
84 93 0.40
85 1 0.00
ACGTcount: A:0.33, C:0.13, G:0.32, T:0.22
Consensus pattern (83 bp):
GGACTAAGCCGACAGGTAAATAATGGATGAAGGTTGATCGAGACTGAACTGACAGGTCACCATAA
GGGTAATGGGTTTATCGA
Found at i:1133385 original size:43 final size:43
Alignment explanation
Indices: 1133337--1134337 Score: 282
Period size: 43 Copynumber: 23.6 Consensus size: 43
1133327 AAAAATGAAA
* *
1133337 AAGTCTCTCGAGTCTAAGCCGACGGGCAGACAATTAACAAAGG
1 AAGTCTCTCGAGTCTAAGCCGACGGGCAGACGATTGACAAAGG
* *** ** * * *
1133380 AAGTCT-TCCGAGACTAAATTGATTGGCA-AAGATGGATAAAGG
1 AAGTCTCT-CGAGTCTAAGCCGACGGGCAGACGATTGACAAAGG
* * * * * *
1133422 AAGTCTCCCGAGTCTGAGCTGACGGGCAAACGGTTAACAAAGG
1 AAGTCTCTCGAGTCTAAGCCGACGGGCAGACGATTGACAAAGG
* * * ** * * * *
1133465 AAGTCCACCCG-GTCTAAGCCAATC-AACAGACAATTAATAAATG
1 AAGT-CTCTCGAGTCTAAGCCGA-CGGGCAGACGATTGACAAAGG
* * * * *
1133508 -AGTCTC-CTAGTTCTGAGCCGATGGGTAGACGATTG---ATGG
1 AAGTCTCTCGAG-TCTAAGCCGACGGGCAGACGATTGACAAAGG
** * * * *
1133547 AAAACTCTCCCAGGTCTAAGCCGATGGGCAGATGATTGACAAAAG
1 AAGTCTCT-CGA-GTCTAAGCCGACGGGCAGACGATTGACAAAGG
* * * * * *
1133592 AAATTTCTCGGGTCTAAGCCGACGGGTAGATGATTGATAAAGG
1 AAGTCTCTCGAGTCTAAGCCGACGGGCAGACGATTGACAAAGG
* * * * *
1133635 AAATCTCACGGGTCTAAGCCGACGAGCAGACGATTGACAAAAG
1 AAGTCTCTCGAGTCTAAGCCGACGGGCAGACGATTGACAAAGG
* *** * * **
1133678 AAGTCTTTC-AGGTCTAAGCCGATAAGCAAATGATTGATGGAA--
1 AAGTCTCTCGA-GTCTAAGCCGACGGGCAGACGATTGA-CAAAGG
* * *
1133720 AAGTATC-CTAGGTCTAAGTCGACGGGCAGACGATTGACAAAGG
1 AAGTCTCTCGA-GTCTAAGCCGACGGGCAGACGATTGACAAAGG
* * * * ** *
1133763 AAGTCTCCCGAGTCTGAGCTGACAGATAGATGATTGACAAAGG
1 AAGTCTCTCGAGTCTAAGCCGACGGGCAGACGATTGACAAAGG
* * * * *
1133806 AAGTCTCCCGAATCTAAGCTGACGGGTAGACGATTG---ATGG
1 AAGTCTCTCGAGTCTAAGCCGACGGGCAGACGATTGACAAAGG
* * * * * ** *
1133846 AAGCCTCACGGGTCTGAGCCGATGGGCAGATAATTG---ATGG
1 AAGTCTCTCGAGTCTAAGCCGACGGGCAGACGATTGACAAAGG
* * * *
1133886 AAATGTCTCTTG-GATCTAAGCCAACAGGCAGACGATTGACAAAAG
1 -AA-GTCTCTCGAG-TCTAAGCCGACGGGCAGACGATTGACAAAGG
* * ** * * ** *
1133931 AAATCTCCCGAGTCTAAGCTAATGGGCAGATGAAAGATGAAA--
1 AAGTCTCTCGAGTCTAAGCCGACGGGCAGACGATTGA-CAAAGG
* * * * * * **
1133973 AAGTCTC-CTAGGTCTAAGTCGACGGACAGATGGTGGATGAAGG
1 AAGTCTCTCGA-GTCTAAGCCGACGGGCAGACGATTGACAAAGG
* * * * * * * * **
1134016 AAGTCTCCCGGGACTAAGCTGACAGGTAGACAATGGATGAA-G
1 AAGTCTCTCGAGTCTAAGCCGACGGGCAGACGATTGACAAAGG
* * * * * *
1134058 AAGGCTCCCGGGTCTAAGTCGATGGGCAGACGATTGATAAAGG
1 AAGTCTCTCGAGTCTAAGCCGACGGGCAGACGATTGACAAAGG
* ** *
1134101 AAGTCTCTC-AGGTCTAAGCCAATAGGCAGACGATTGATAAAGG
1 AAGTCTCTCGA-GTCTAAGCCGACGGGCAGACGATTGACAAAGG
* * * * * * * * **
1134144 AAGTCCCCCAAGACTGAGCCGACAGGCAGACTATGGATGAA-G
1 AAGTCTCTCGAGTCTAAGCCGACGGGCAGACGATTGACAAAGG
* * * *
1134186 AAGTCTC-CTGAGTCTTAGTCGACGGGCAGACGGTTGATAAAGG
1 AAGTCTCTC-GAGTCTAAGCCGACGGGCAGACGATTGACAAAGG
* * * * * * **
1134229 AAGTCT-TCTGGGACTAAGCTGACGAGCAGACAATGGATGAA-G
1 AAGTCTCTC-GAGTCTAAGCCGACGGGCAGACGATTGACAAAGG
* * * * *
1134271 AAGTCTCCCGGGTCTAAG-CGACGGGCAGACAATTGATAAAAG
1 AAGTCTCTCGAGTCTAAGCCGACGGGCAGACGATTGACAAAGG
* * *
1134313 AAGTCCCTAG-GTCTAAGCTGACGGG
1 AAGTCTCTCGAGTCTAAGCCGACGGG
1134338 TGAACGAAGG
Statistics
Matches: 703, Mismatches: 213, Indels: 85
0.70 0.21 0.08
Matches are distributed among these distances:
39 2 0.00
40 38 0.05
41 39 0.06
42 236 0.34
43 359 0.51
44 19 0.03
45 10 0.01
ACGTcount: A:0.32, C:0.19, G:0.28, T:0.20
Consensus pattern (43 bp):
AAGTCTCTCGAGTCTAAGCCGACGGGCAGACGATTGACAAAGG
Found at i:1133796 original size:85 final size:85
Alignment explanation
Indices: 1133531--1134138 Score: 331
Period size: 85 Copynumber: 7.2 Consensus size: 85
1133521 TGAGCCGATG
* * * * * * *
1133531 GGTAGACGATTGATGGAAAACTCTCCCAGGTCTAAGCCGATGGGCAGATGATTGACAAAAGAAAT
1 GGTAGATGATTGATGGAAAAGTCTCCTAGGTCTAAGCCGACGGGCAGACGATTGACAAAGGAAGT
* * * *
1133596 TTCTCGGGTCTAAGCCGACG
66 CTCCCGAGTCTAAGCCGACA
* * *
1133616 GGTAGATGATTGATAAAGG-AAA-TCTCAC-GGGTCTAAGCCGACGAGCAGACGATTGACAAAAG
1 GGTAGATGATTGAT---GGAAAAGTCTC-CTAGGTCTAAGCCGACGGGCAGACGATTGACAAAGG
** *
1133678 AAGTCTTTC-AGGTCTAAGCCGATA
62 AAGTCTCCCGA-GTCTAAGCCGACA
* * * * *
1133702 AGCAAATGATTGATGGAAAAGTATCCTAGGTCTAAGTCGACGGGCAGACGATTGACAAAGGAAGT
1 GGTAGATGATTGATGGAAAAGTCTCCTAGGTCTAAGCCGACGGGCAGACGATTGACAAAGGAAGT
* *
1133767 CTCCCGAGTCTGAGCTGACA
66 CTCCCGAGTCTAAGCCGACA
* ** * * * * *
1133787 GATAGATGATTGA-CAAAGGAAGTCTCC-CGAATCTAAGCTGACGGGTAGACGATTG---ATGGA
1 GGTAGATGATTGATGGAA--AAGTCTCCTAG-GTCTAAGCCGACGGGCAGACGATTGACAAAGGA
* * * * **
1133847 AGCCTCACGGGTCTGAGCCGATG
63 AGTCTCCCGAGTCTAAGCCGACA
* * * * * * * *
1133870 GGCAGATAATTGATGGAAATGTCT-CTTGGATCTAAGCCAACAGGCAGACGATTGACAAAAGAAA
1 GGTAGATGATTGATGGAAAAGTCTCCTAGG-TCTAAGCCGACGGGCAGACGATTGACAAAGGAAG
** **
1133934 TCTCCCGAGTCTAAGCTAATG
65 TCTCCCGAGTCTAAGCCGACA
* ** * * * * * * **
1133955 GGCAGATGAAAGATGAAAAAGTCTCCTAGGTCTAAGTCGACGGACAGATGGTGGATGAAGGAAGT
1 GGTAGATGATTGATGGAAAAGTCTCCTAGGTCTAAGCCGACGGGCAGACGATTGACAAAGGAAGT
* * *
1134020 CTCCCGGGACTAAGCTGACA
66 CTCCCGAGTCTAAGCCGACA
** * * ** * * *
1134040 GGTAGACAATGGAT-GAAGAAGGCTCCCGGGTCTAAGTCGATGGGCAGACGATTGATAAAGGAAG
1 GGTAGATGATTGATGGAA-AAGTCTCCTAGGTCTAAGCCGACGGGCAGACGATTGACAAAGGAAG
* * *
1134104 TCTCTC-AGGTCTAAGCCAATA
65 TCTCCCGA-GTCTAAGCCGACA
* *
1134125 GGCAGACGATTGAT
1 GGTAGATGATTGAT
1134139 AAAGGAAGTC
Statistics
Matches: 392, Mismatches: 110, Indels: 42
0.72 0.20 0.08
Matches are distributed among these distances:
81 1 0.00
82 26 0.07
83 33 0.08
84 10 0.03
85 221 0.56
86 95 0.24
87 4 0.01
88 2 0.01
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.20
Consensus pattern (85 bp):
GGTAGATGATTGATGGAAAAGTCTCCTAGGTCTAAGCCGACGGGCAGACGATTGACAAAGGAAGT
CTCCCGAGTCTAAGCCGACA
Found at i:1134118 original size:128 final size:127
Alignment explanation
Indices: 1133973--1134303 Score: 350
Period size: 128 Copynumber: 2.6 Consensus size: 127
1133963 AAAGATGAAA
* *
1133973 AAGTCTC-CTAGGTCTAAGTCGACGGACAGATGGTGGATGAAGGAAGTCTCCCGGGACTAAGCTG
1 AAGTCTCTCTAGGTCTAAG-CGACGGACAGACGATGGATGAAGGAAGTCTCCCGGGACTAAGC-G
* * *
1134037 ACAGGTAGACAATGGATGAAGAAGGCTCCCGGGTCTAAGTCGATGGGCAGACGATTGATAAAGG
64 ACAGGCAGACAATGGATGAAGAAGGCTCCCGAGTCTAAGTCGACGGGCAGACGATTGATAAAGG
* * * * * ** *
1134101 AAGTCTCTC-AGGTCTAAGCCAATAGG-CAGACGATTGATAAAGGAAGTCCCCCAAGACTGAGCC
1 AAGTCTCTCTAGGTCTAAG-CGA-CGGACAGACGATGGATGAAGGAAGTCTCCCGGGACTAAG-C
* * * * *
1134164 GACAGGCAGACTATGGATGAAGAAGTCTCCTGAGTCTTAGTCGACGGGCAGACGGTTGATAAAGG
63 GACAGGCAGACAATGGATGAAGAAGGCTCCCGAGTCTAAGTCGACGGGCAGACGATTGATAAAGG
* * * *
1134229 AAGTCT-TCTGGGACTAAGCTGAC-GAGCAGACAATGGATGAA-GAAGTCTCCCGGGTCTAAGCG
1 AAGTCTCTCTAGGTCTAAGC-GACGGA-CAGACGATGGATGAAGGAAGTCTCCCGGGACTAAGCG
*
1134291 ACGGGCAGACAAT
64 ACAGGCAGACAAT
1134304 TGATAAAAGA
Statistics
Matches: 163, Mismatches: 33, Indels: 16
0.77 0.16 0.08
Matches are distributed among these distances:
126 14 0.09
127 17 0.10
128 128 0.79
129 4 0.02
ACGTcount: A:0.31, C:0.20, G:0.31, T:0.18
Consensus pattern (127 bp):
AAGTCTCTCTAGGTCTAAGCGACGGACAGACGATGGATGAAGGAAGTCTCCCGGGACTAAGCGAC
AGGCAGACAATGGATGAAGAAGGCTCCCGAGTCTAAGTCGACGGGCAGACGATTGATAAAGG
Found at i:1134191 original size:85 final size:82
Alignment explanation
Indices: 1134082--1134319 Score: 224
Period size: 85 Copynumber: 2.8 Consensus size: 82
1134072 TAAGTCGATG
* * * * **
1134082 GGCAGACGATTGATAAAGGAAGTCTCTCAGGTCTAAGCCAATAGGCAGACGATTGATAAAGGAAG
1 GGCAGACAATGGATGAA-GAAGTCTC-CAGGTCTAAG-CGACGGGCAGACGATTGATAAAGGAAG
*
1134147 TCCCCCAAGACTGAGCCGAC
63 TCCCCCAAGACTAAGCCGAC
* * * *
1134167 AGGCAGACTATGGATGAAGAAGTCTCCTGAGTCTTAGTCGACGGGCAGACGGTTGATAAAGGAAG
1 -GGCAGACAATGGATGAAGAAGTCTCCAG-GTCTAAG-CGACGGGCAGACGATTGATAAAGGAAG
** *** *
1134232 TCTTCTGGGACTAAGCTGAC
63 TCCCCCAAGACTAAGCCGAC
* * *
1134252 GAGCAGACAATGGATGAAGAAGTCTCCCGGGTCTAAGCGACGGGCAGACAATTGATAAAAGAAGT
1 G-GCAGACAATGGATGAAGAAGTCT-CCAGGTCTAAGCGACGGGCAGACGATTGATAAAGGAAGT
1134317 CCC
64 CCC
1134320 TAGGTCTAAG
Statistics
Matches: 124, Mismatches: 25, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
84 29 0.23
85 78 0.63
86 17 0.14
ACGTcount: A:0.32, C:0.20, G:0.29, T:0.18
Consensus pattern (82 bp):
GGCAGACAATGGATGAAGAAGTCTCCAGGTCTAAGCGACGGGCAGACGATTGATAAAGGAAGTCC
CCCAAGACTAAGCCGAC
Found at i:1134192 original size:213 final size:210
Alignment explanation
Indices: 1133801--1134330 Score: 572
Period size: 213 Copynumber: 2.5 Consensus size: 210
1133791 GATGATTGAC
* * * * *
1133801 AAAGGAAGTCTCCC-GAATCTAAGCTGACGGGTAGACGATTGATG--GAAGCCTCACGGGTCTGA
1 AAAGGAAGTCTCCCGGGA-CTAAGCTGAC-GGTAGACAATGGATGAAGAAGCCTCCCGGGTCTAA
* *
1133863 GCCGATGGGCAGATAATTGAT---GGAAATGTCTCTTGGATCTAAGCCAACAGGCAGACGATTGA
64 G-CGATGGGCAGACAATTGATAAAGG-AA-GTCTCTAGG-TCTAAGCCAACAGGCAGACGATTGA
* * * * **
1133925 CAAAAGAAATCTCCCGAGTCTAAGCTAATGGGCAGATGAAAGATGAAAAAGTCTCCT-AGGTCTA
125 CAAAAGAAATCCCCCAAGACTAAGCCAACAGGCAGATGAAAGATGAAAAAGTCTCCTGA-GTCTA
*
1133989 AGTCGACGGACAGATGGTGGAT
189 AGTCGACGGACAGACGGTGGAT
* *
1134011 GAAGGAAGTCTCCCGGGACTAAGCTGACAGGTAGACAATGGATGAAGAAGGCTCCCGGGTCTAAG
1 AAAGGAAGTCTCCCGGGACTAAGCTGAC-GGTAGACAATGGATGAAGAAGCCTCCCGGGTCTAAG
* * *
1134076 TCGATGGGCAGACGATTGATAAAGGAAGTCTCTCAGGTCTAAGCCAATAGGCAGACGATTGATAA
65 -CGATGGGCAGACAATTGATAAAGGAAGTCTCT-AGGTCTAAGCCAACAGGCAGACGATTGACAA
* * * * ** * *
1134141 AGGAAGTCCCCCAAGACTGAGCCGACAGGCAGACT-ATGGATGAAGAAGTCTCCTGAGTCTTAGT
128 AAGAAATCCCCCAAGACTAAGCCAACAGGCAGA-TGAAAGATGAAAAAGTCTCCTGAGTCTAAGT
* *
1134205 CGACGGGCAGACGGTTGAT
192 CGACGGACAGACGGTGGAT
* * * *
1134224 AAAGGAAGTCTTCTGGGACTAAGCTGACGAGCAGACAATGGATGAAGAAGTCTCCCGGGTCTAAG
1 AAAGGAAGTCTCCCGGGACTAAGCTGACG-GTAGACAATGGATGAAGAAGCCTCCCGGGTCTAAG
* * *
1134289 CGACGGGCAGACAATTGATAAAAGAAGTCCCTAGGTCTAAGC
65 CGATGGGCAGACAATTGATAAAGGAAGTCTCTAGGTCTAAGC
1134331 TGACGGGTGA
Statistics
Matches: 270, Mismatches: 40, Indels: 19
0.82 0.12 0.06
Matches are distributed among these distances:
210 36 0.13
211 12 0.04
212 62 0.23
213 152 0.56
214 6 0.02
215 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.30, T:0.19
Consensus pattern (210 bp):
AAAGGAAGTCTCCCGGGACTAAGCTGACGGTAGACAATGGATGAAGAAGCCTCCCGGGTCTAAGC
GATGGGCAGACAATTGATAAAGGAAGTCTCTAGGTCTAAGCCAACAGGCAGACGATTGACAAAAG
AAATCCCCCAAGACTAAGCCAACAGGCAGATGAAAGATGAAAAAGTCTCCTGAGTCTAAGTCGAC
GGACAGACGGTGGAT
Found at i:1134214 original size:42 final size:41
Alignment explanation
Indices: 1133966--1134414 Score: 231
Period size: 42 Copynumber: 10.6 Consensus size: 41
1133956 GCAGATGAAA
* * * ***
1133966 GATGAAAAAGTCTCCTAGGTCTAAGTCGACGGACAGATGGTG
1 GATGAAGAAGTCTCCTGGGTCTAAG-CGACGGGCAGACAATG
* * * *
1134008 GATGAAGGAAGTCTCCCGGGACTAAGCTGACAGGTAGACAATG
1 GATGAA-GAAGTCTCCTGGGTCTAAGC-GACGGGCAGACAATG
* * * * *
1134051 GATGAAGAAGGCTCCCGGGTCTAAGTCGATGGGCAGACGATT
1 GATGAAGAAGTCTCCTGGGTCTAAG-CGACGGGCAGACAATG
* * * ** * *
1134093 GATAAAGGAAGTCT-CTCAGGTCTAAGCCAATAGGCAGACGATT
1 GATGAA-GAAGTCTCCT-GGGTCTAAG-CGACGGGCAGACAATG
* * *** * * * *
1134136 GATAAAGGAAGTCCCCCAAGACTGAGCCGACAGGCAGACTATG
1 GATGAA-GAAGTCTCCTGGGTCTAAG-CGACGGGCAGACAATG
* * ** *
1134179 GATGAAGAAGTCTCCTGAGTCTTAGTCGACGGGCAGACGGTT
1 GATGAAGAAGTCTCCTGGGTCTAAG-CGACGGGCAGACAATG
* * * *
1134221 GATAAAGGAAGTCTTCTGGGACTAAGCTGACGAGCAGACAATG
1 GATGAA-GAAGTCTCCTGGGTCTAAGC-GACGGGCAGACAATG
* *
1134264 GATGAAGAAGTCTCCCGGGTCTAAGCGACGGGCAGACAATT
1 GATGAAGAAGTCTCCTGGGTCTAAGCGACGGGCAGACAATG
* * *
1134305 GATAAAAGAAGTC-CCTAGGTCTAAGCTGACGGG-TGAACGAA-G
1 GAT-GAAGAAGTCTCCTGGGTCTAAGC-GACGGGCAG-AC-AATG
* * ** * * * *
1134347 GATGAAGAAGTCTCTTAGAACTGAGCCAATGAGCAGACAATG
1 GATGAAGAAGTCTCCTGGGTCTAAG-CGACGGGCAGACAATG
*
1134389 GATGAAGAAGTCTCCCGGGTCTAAGC
1 GATGAAGAAGTCTCCTGGGTCTAAGC
1134415 CGATGAGCAC
Statistics
Matches: 312, Mismatches: 79, Indels: 33
0.74 0.19 0.08
Matches are distributed among these distances:
41 39 0.12
42 141 0.45
43 131 0.42
44 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.31, T:0.18
Consensus pattern (41 bp):
GATGAAGAAGTCTCCTGGGTCTAAGCGACGGGCAGACAATG
Found at i:1134360 original size:83 final size:85
Alignment explanation
Indices: 1134125--1134360 Score: 239
Period size: 85 Copynumber: 2.8 Consensus size: 85
1134115 TAAGCCAATA
* * * * * * * *
1134125 GGCAGACGATTGATAAAGGAAGTCCCCCAAGACTGAGCCGAC-AGGCAGACTATGGATGAAGAAG
1 GGCAGACAATTGATAAAAGAAGTCTCCTAGGACTAAGCTGACGA-GCAGACAATGGATGAAGAAG
* *
1134189 TCTCCTGAGTCTTAGTCGACG
65 TCTCCCGAGTCTAAGTCGACG
** * * *
1134210 GGCAGACGGTTGATAAAGGAAGTCTTCTGGGACTAAGCTGACGAGCAGACAATGGATGAAGAAGT
1 GGCAGACAATTGATAAAAGAAGTCTCCTAGGACTAAGCTGACGAGCAGACAATGGATGAAGAAGT
*
1134275 CTCCCGGGTCTAAG-CGACG
66 CTCCCGAGTCTAAGTCGACG
* **
1134294 GGCAGACAATTGATAAAAGAAGTC-CCTAGGTCTAAGCTGACG-GGTGAACGAA-GGATGAAGAA
1 GGCAGACAATTGATAAAAGAAGTCTCCTAGGACTAAGCTGACGAGCAG-AC-AATGGATGAAGAA
1134356 GTCTC
64 GTCTC
1134361 TTAGAACTGA
Statistics
Matches: 128, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
82 2 0.02
83 32 0.25
84 28 0.22
85 65 0.51
86 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.31, T:0.18
Consensus pattern (85 bp):
GGCAGACAATTGATAAAAGAAGTCTCCTAGGACTAAGCTGACGAGCAGACAATGGATGAAGAAGT
CTCCCGAGTCTAAGTCGACG
Found at i:1134482 original size:43 final size:42
Alignment explanation
Indices: 1133523--1134484 Score: 277
Period size: 43 Copynumber: 22.7 Consensus size: 42
1133513 CCTAGTTCTG
* * * * *
1133523 AGCCGATGGGTAGACGATTGATGGAA-AACTCTCCCAGGTCTA
1 AGCCGACGGGCAGACGATGGAT-GAAGAAGTCTCCCTGGTCTA
* * * ** * * * *
1133565 AGCCGATGGGCAGATGATTGACAAAAGAAATTTCTCGGGTCTA
1 AGCCGACGGGCAGACGATGGA-TGAAGAAGTCTCCCTGGTCTA
* * * * * * *
1133608 AGCCGACGGGTAGATGATTGATAAAGGAAATCTCACGGGTCTA
1 AGCCGACGGGCAGACGATGGATGAA-GAAGTCTCCCTGGTCTA
* * ** ** *
1133651 AGCCGACGAGCAGACGATTGACAAAAGAAGTCTTTCAGGTCTA
1 AGCCGACGGGCAGACGATGGA-TGAAGAAGTCTCCCTGGTCTA
*** * * * *
1133694 AGCCGATAAGCAAATGATTGATGGAA-AAGTAT-CCTAGGTCTA
1 AGCCGACGGGCAGACGATGGAT-GAAGAAGTCTCCCT-GGTCTA
* * ** *
1133736 AGTCGACGGGCAGACGATTGACAAAGGAAGTCTCCC-GAGTCTG
1 AGCCGACGGGCAGACGATGGATGAA-GAAGTCTCCCTG-GTCTA
* * ** * * ** *
1133779 AGCTGACAGATAGATGATTGACAAAGGAAGTCTCCC-GAATCTA
1 AGCCGACGGGCAGACGATGGATGAA-GAAGTCTCCCTG-GTCTA
* * * * * * *
1133822 AGCTGACGGGTAGACGATTGATG--GAAGCCTCACGGGTCTG
1 AGCCGACGGGCAGACGATGGATGAAGAAGTCTCCCTGGTCTA
* ** * * *
1133862 AGCCGATGGGCAGATAATTGATGGAA-ATGTCT-CTTGGATCTA
1 AGCCGACGGGCAGACGATGGAT-GAAGAAGTCTCCCTGG-TCTA
* * * ** *
1133904 AGCCAACAGGCAGACGATTGACAAAAGAAATCTCCC-GAGTCTA
1 AGCCGACGGGCAGACGATGGA-TGAAGAAGTCTCCCTG-GTCTA
** * * ** *
1133947 AGCTAATGGGCAGATGAAAGATGAAAAAGTCT-CCTAGGTCTA
1 AGCCGACGGGCAGACGATGGATGAAGAAGTCTCCCT-GGTCTA
* * * * * *
1133989 AGTCGACGGACAGATGGTGGATGAAGGAAGTCTCCCGGGACTA
1 AGCCGACGGGCAGACGATGGATGAA-GAAGTCTCCCTGGTCTA
* * * * * *
1134032 AGCTGACAGGTAGACAATGGATGAAGAAGGCTCCCGGGTCTA
1 AGCCGACGGGCAGACGATGGATGAAGAAGTCTCCCTGGTCTA
* * * * * *
1134074 AGTCGATGGGCAGACGATTGATAAAGGAAGTCTCTCAGGTCTA
1 AGCCGACGGGCAGACGATGGATGAA-GAAGTCTCCCTGGTCTA
* ** * * * ** * *
1134117 AGCCAATAGGCAGACGATTGATAAAGGAAGTCCCCCAAGACTG
1 AGCCGACGGGCAGACGATGGATGAA-GAAGTCTCCCTGGTCTA
* * *
1134160 AGCCGACAGGCAGACTATGGATGAAGAAGTCT-CCTGAGTCTT
1 AGCCGACGGGCAGACGATGGATGAAGAAGTCTCCCTG-GTCTA
* * * * * *
1134202 AGTCGACGGGCAGACGGTTGATAAAGGAAGTCT-TCTGGGACTA
1 AGCCGACGGGCAGACGATGGATGAA-GAAGTCTCCCT-GGTCTA
* * * *
1134245 AGCTGACGAGCAGACAATGGATGAAGAAGTCTCCCGGGTCTA
1 AGCCGACGGGCAGACGATGGATGAAGAAGTCTCCCTGGTCTA
* * *
1134287 AG-CGACGGGCAGACAATTGATAAAAGAAG--TCCCTAGGTCTA
1 AGCCGACGGGCAGACGATGGAT-GAAGAAGTCTCCCT-GGTCTA
* * * * ** *
1134328 AGCTGACGGG-TGAACGAAGGATGAAGAAGTCT-CTTAGAACTG
1 AGCCGACGGGCAG-ACGATGGATGAAGAAGTCTCCCT-GGTCTA
* * * * *
1134370 AGCCAATGAGCAGACAATGGATGAAGAAGTCTCCCGGGTCTA
1 AGCCGACGGGCAGACGATGGATGAAGAAGTCTCCCTGGTCTA
* * * * * ** * * *
1134412 AGCCGATGAGCACATGATTGACAAAGAAAGTCTCTCTGGACTG
1 AGCCGACGGGCAGACGATGGATGAAG-AAGTCTCCCTGGTCTA
* *
1134455 AGTCGATGGGCAGACGATGGATGAAGAAGT
1 AGCCGACGGGCAGACGATGGATGAAGAAGT
1134485 TTCTCGGATC
Statistics
Matches: 681, Mismatches: 202, Indels: 74
0.71 0.21 0.08
Matches are distributed among these distances:
40 32 0.05
41 42 0.06
42 252 0.37
43 345 0.51
44 10 0.01
ACGTcount: A:0.32, C:0.19, G:0.29, T:0.20
Consensus pattern (42 bp):
AGCCGACGGGCAGACGATGGATGAAGAAGTCTCCCTGGTCTA
Found at i:1134568 original size:43 final size:43
Alignment explanation
Indices: 1134521--1134731 Score: 167
Period size: 43 Copynumber: 4.9 Consensus size: 43
1134511 CTTGAAGGTA
*
1134521 AAGAAGTCTTCAGGGTTAAAGCCGACAGGTAGACTTAAGGGGG
1 AAGAAGTCTTCAGGGTCAAAGCCGACAGGTAGACTTAAGGGGG
* * * * * *
1134564 AAGAAGTCTCCAGGGTCAAAGCCGATAGGCACACTTTAGGGAG
1 AAGAAGTCTTCAGGGTCAAAGCCGACAGGTAGACTTAAGGGGG
* * *
1134607 AAGAAGTC-TCTAGAGTCAAAGCCGACGGGTAGACTTATA-GAGG
1 AAGAAGTCTTC-AGGGTCAAAGCCGACAGGTAGACTTA-AGGGGG
* * * * * * **
1134650 AAGAAGTC-CCTAGTGTCAAAGCCGACAGGCACACTTTAGTGCA
1 AAGAAGTCTTC-AGGGTCAAAGCCGACAGGTAGACTTAAGGGGG
* * * * *
1134693 AAGAAATCTCCAGGGTCAAAGCTGACAAGAAGACTTAAG
1 AAGAAGTCTTCAGGGTCAAAGCCGACAGGTAGACTTAAG
1134732 ATTAAAGTAT
Statistics
Matches: 131, Mismatches: 33, Indels: 8
0.76 0.19 0.05
Matches are distributed among these distances:
42 2 0.02
43 126 0.96
44 3 0.02
ACGTcount: A:0.35, C:0.19, G:0.28, T:0.18
Consensus pattern (43 bp):
AAGAAGTCTTCAGGGTCAAAGCCGACAGGTAGACTTAAGGGGG
Found at i:1134628 original size:86 final size:86
Alignment explanation
Indices: 1134520--1134731 Score: 252
Period size: 86 Copynumber: 2.5 Consensus size: 86
1134510 ACTTGAAGGT
* *
1134520 AAAGAAGTCT-TCAGGGTTAAAGCCGACAGGTAGACTTAAGGGGGAAGAAGTCTCC-AGGGTCAA
1 AAAGAAGTCTCT-AGGGTCAAAGCCGACAGGTAGACTTAAGGAGGAAGAAGTC-CCTAGGGTCAA
* *
1134583 AGCCGATAGGCACACTTTAG-GG
64 AGCCGACAGGCACACTTTAGTGC
* * *
1134605 AGAAGAAGTCTCTAGAGTCAAAGCCGACGGGTAGACTTATA-GAGGAAGAAGTCCCTAGTGTCAA
1 A-AAGAAGTCTCTAGGGTCAAAGCCGACAGGTAGACTTA-AGGAGGAAGAAGTCCCTAGGGTCAA
1134669 AGCCGACAGGCACACTTTAGTGC
64 AGCCGACAGGCACACTTTAGTGC
* * * * *
1134692 AAAGAAATCTCCAGGGTCAAAGCTGACAAGAAGACTTAAG
1 AAAGAAGTCTCTAGGGTCAAAGCCGACAGGTAGACTTAAG
1134732 ATTAAAGTAT
Statistics
Matches: 107, Mismatches: 14, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
85 4 0.04
86 99 0.93
87 4 0.04
ACGTcount: A:0.35, C:0.19, G:0.28, T:0.17
Consensus pattern (86 bp):
AAAGAAGTCTCTAGGGTCAAAGCCGACAGGTAGACTTAAGGAGGAAGAAGTCCCTAGGGTCAAAG
CCGACAGGCACACTTTAGTGC
Found at i:1134905 original size:43 final size:44
Alignment explanation
Indices: 1134808--1134905 Score: 119
Period size: 43 Copynumber: 2.2 Consensus size: 44
1134798 AATGCAAATT
* *
1134808 GTTTGACCTAGGTGGTAACCATATGTCAAACAAGAAGGAGGTAGA
1 GTTTG-CCTAGGTGGTAACCATACGTCAAACAAGAAAGAGGTAGA
* * * *
1134853 -TTTGACTAGGTGGTAACCATACGTCAAATAGGAAATAGG-AGA
1 GTTTGCCTAGGTGGTAACCATACGTCAAACAAGAAAGAGGTAGA
1134895 GTTTGCCTAGG
1 GTTTGCCTAGG
1134906 CCCTAAGACC
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
42 3 0.07
43 38 0.84
44 4 0.09
ACGTcount: A:0.34, C:0.13, G:0.29, T:0.24
Consensus pattern (44 bp):
GTTTGCCTAGGTGGTAACCATACGTCAAACAAGAAAGAGGTAGA
Found at i:1139797 original size:154 final size:152
Alignment explanation
Indices: 1139147--1140105 Score: 656
Period size: 155 Copynumber: 6.2 Consensus size: 152
1139137 AAAAAAAAAA
* * * * * * *
1139147 ACGAAAATACCCTTA-GGGGATACCTTCGACGTGAAAGTATCCCGGTACCCCTAAATGAC-CAGA
1 ACGAAAATACCCCTATGGGTATACCTTCGACGTAAAAGTACCCCGATA-CCCTAAAGGACTTA-A
* * * *
1139210 AAAGA-TCAGAAAAAGGATGAACCTATCATAAATGCCCA-CTTTGGCATAAAAGTGGACCTGGTG
64 AAAGACT-AGAAAAGGGATGAACCTATCCTAAATGCCCACCTTTGGCATAAAAG-CGACC-AGTG
* * * *
1139273 ACGACTTAGAAGTTGGTTCT--AAAATT
126 ACAACCTAGGACTT-GTTCTAAAAAATT
* * * ** * * * * * *
1139299 ATGAAAATAGCTCTACAGGTATACCTTCGACATAAAAGTATCTCGATAATCTTAAAGAACTTAAA
1 ACGAAAATACCCCTATGGGTATACCTTCGACGTAAAAGTACCCCGAT-ACCCTAAAGGACTTAAA
* * * * *
1139364 AAGACTAGAGATGGGATGAACCTATCCTAAATGCCCACCTTCGACACAAAAGCGAACCCAGTGAC
65 AAGACTAGAAAAGGGATGAACCTATCCTAAATGCCCACCTTTGGCATAAAAGCG-A-CCAGTGAC
*
1139429 AACCTAGGACTCGATTCTAAAAAAATT
128 AACCTAGGACTTG-TTCT-AAAAAATT
* * **** * * *
1139456 ACCAAAAT-GCCCT-TAAAAATACCTTCGACGTAAAAGTA-CCTGATACCCT-TAGTAGACACTA
1 ACGAAAATACCCCTATGGGTATACCTTCGACGTAAAAGTACCCCGATACCCTAAAG--GAC-TTA
* * * * * * *
1139517 AAAAGAATAGATAAGAGATGAACCTATCCTGAATGCCCACTTTTGGCTTTAAAAGCGAACCCGAT
63 AAAAGACTAGAAAAGGGATGAACCTATCCTAAATGCCCACCTTTGGC-ATAAAAGCG-ACCAG-T
* * *
1139582 GACGAA-CTAAGAGTTGGTTTTAAAAAATT
125 GAC-AACCTAGGACTT-GTTCTAAAAAATT
* * * ***
1139611 ACAAAAATGCCCCT-TGGGGATACCTTCGACGTAAAAGTA-CTTAATACCCTAAAGGACTTAAAA
1 ACGAAAATACCCCTATGGGTATACCTTCGACGTAAAAGTACCCCGATACCCTAAAGGACTTAAAA
* * *
1139674 AGACTAGAAATGGTGATGAACCTATCCTAAATGCCAAGCTTTGGCATAAAAGCAGATCCAGTGAC
66 AGACTAGAAAAGG-GATGAACCTATCCTAAATGCCCACCTTTGGCATAAAAGC-GA-CCAGTGAC
* **
1139739 AACTTAGGACTTGTTCTAGGAAATT
128 AACCTAGGACTTGTTCTAAAAAATT
* * * *
1139764 ACGAAAATATCTCTATGGGTATACCTTCAACGTAAAAGTACCCCAGCA-ACCCTAAAAGACTTAA
1 ACGAAAATACCCCTATGGGTATACCTTCGACGTAAAAGTACCCC-G-ATACCCTAAAGGACTTAA
* * * * *
1139828 AAAGACTAGAAAAGGG-TAAACCTATCCTAAATACCCACCTTTAGCATAAAAGTGGACTCGGTGA
64 AAAGACTAGAAAAGGGATGAACCTATCCTAAATGCCCACCTTTGGCATAAAAG-CGAC-CAGTGA
* ** * *
1139892 TAACCTACAACTCGATTCTAAGAAATT
127 CAACCTAGGACTTG-TTCTAAAAAATT
* * * * *
1139919 ATGAAAATGCCCCTATGGGTATACATTCGACGTAAAAGTACCCCGATAACCTTAAAAGACTTAAA
1 ACGAAAATACCCCTATGGGTATACCTTCGACGTAAAAGTACCCCGAT-ACCCTAAAGGACTTAAA
* * * * * * * *
1139984 AAGACCATAAAAGGG-TGAACATATCCTAAATACCCACCTTCGGCATAAAAACAGACTCGGTGAT
65 AAGACTAGAAAAGGGATGAACCTATCCTAAATGCCCACCTTTGGCATAAAAGC-GAC-CAGTGAC
* *
1140048 AACCTAAGACTCGATTCTAAAAAATT
128 AACCTAGGACTTG-TTCTAAAAAATT
* ** *
1140074 ACAAAAATACCCCTAAAGG-ATACCTTTGACGT
1 ACGAAAATACCCCTATGGGTATACCTTCGACGT
1140106 GAAGTGCTCG
Statistics
Matches: 639, Mismatches: 134, Indels: 66
0.76 0.16 0.08
Matches are distributed among these distances:
152 13 0.02
153 94 0.15
154 151 0.24
155 274 0.43
156 89 0.14
157 18 0.03
ACGTcount: A:0.39, C:0.21, G:0.17, T:0.23
Consensus pattern (152 bp):
ACGAAAATACCCCTATGGGTATACCTTCGACGTAAAAGTACCCCGATACCCTAAAGGACTTAAAA
AGACTAGAAAAGGGATGAACCTATCCTAAATGCCCACCTTTGGCATAAAAGCGACCAGTGACAAC
CTAGGACTTGTTCTAAAAAATT
Found at i:1140099 original size:309 final size:302
Alignment explanation
Indices: 1139150--1140105 Score: 840
Period size: 309 Copynumber: 3.1 Consensus size: 302
1139140 AAAAAAAACG
* ** * * * * *
1139150 AAAATACCCTTAGGGGATACCTTCGACGTGAAAGTATCCCGGTACCCCTAAATGACCAGAAAAGA
1 AAAATACCCCTAAAGGATACCTTCGACGTAAAAGTA-CCCAG-AACCCTAAAAGACTA-AAAAGA
* * *
1139215 TCAGAAAAAGGATGAACCTATCATAAATGCCCA-CTTTGGCATAAAAGTGGACCTGGTGACGACT
63 T-AG-AAAAGGATGAACCTATCCTAAATGCCCACCTTTGGCATAAAAGTGGACC-GGTGACAACC
* ** *
1139279 TAGAAGTTGGTTCT-AAAATTATGAAAATAG-CTCTACAGGTATACCTTCGACATAAAAGTATCT
125 TA-AAGTTGGTTCTAAAAATTATGAAAAT-GCCCCTATGGGTATACCTTCGACGTAAAAGTA-CT
* *
1139342 CGATAATCTT-AAAGAACTTAAAAAGACTAGAGATGGGATGAACCTATCCTAAATGCCCACCTTC
187 CGATAACCTTAAAAG-ACTTAAAAAGACTAGAAATGGGATGAACCTATCCTAAATGCCCACCTTC
* * * *
1139406 GACACAAAAGC-GAACCCAGTGACAACCTAGGACTCGATTCTAAAAAAATTACC
251 GGCATAAAAGCAG-ACTCAGTGACAACCTAGGACTCGATTCT-AAAAAATTACA
* * * * * *
1139459 AAAATGCCCTTAAA-AATACCTTCGACGTAAAAGTA-CCTGATACCCTTAGTAGACACTAAAAAG
1 AAAATACCCCTAAAGGATACCTTCGACGTAAAAGTACCCAGA-ACCC-TA--AAAGACTAAAAAG
* * * * * * *
1139522 AATAGATAAGAGATGAACCTATCCTGAATGCCCACTTTTGGCTTTAAAAGCGAACCCGATGACGA
62 -ATAGAAAAG-GATGAACCTATCCTAAATGCCCACCTTTGGC-ATAAAAGTGGA-CCGGTGAC-A
* ** *
1139587 A-CTAAGAGTTGGTTTTAAAAAATTACAAAAATGCCCCT-TGGGGATACCTTCGACGTAAAAGTA
122 ACCTAA-AGTTGGTTCT-AAAAATTATGAAAATGCCCCTATGGGTATACCTTCGACGTAAAAGTA
** * * * *
1139650 CTTAAT-ACCCTAAAGGACTTAAAAAGACTAGAAATGGTGATGAACCTATCCTAAATGCCAAGCT
185 CTCGATAACCTTAAAAGACTTAAAAAGACTAGAAATGG-GATGAACCTATCCTAAATGCCCACCT
* * * ** *
1139714 TTGGCATAAAAGCAGA-TCCAGTGACAACTTAGGACTTG-TTCTAGGAAATTACG
249 TCGGCATAAAAGCAGACT-CAGTGACAACCTAGGACTCGATTCTAAAAAATTACA
* * ** *
1139767 AAAATATCTCTATGGGTATACCTTCAACGTAAAAGTACCCCAGCAACCCTAAAAGACTTAAAAAG
1 AAAATACCCCTAAAGG-ATACCTTCGACGTAAAAGTA-CCCAG-AACCCTAAAAGAC-TAAAAAG
* * * * *
1139832 ACTAGAAAAGGGTAAACCTATCCTAAATACCCACCTTTAGCATAAAAGTGGACTCGGTGATAACC
62 A-TAGAAAAGGATGAACCTATCCTAAATGCCCACCTTTGGCATAAAAGTGGAC-CGGTGACAACC
* * * * *
1139897 TACAACTCGATTCTAAGAAATTATGAAAATGCCCCTATGGGTATACATTCGACGTAAAAGTACCC
125 TA-AAGTTGGTTCTAA-AAATTATGAAAATGCCCCTATGGGTATACCTTCGACGTAAAAGTA-CT
* * * * *
1139962 CGATAACCTTAAAAGACTTAAAAAGACCATAAAAGGG-TGAACATATCCTAAATACCCACCTTCG
187 CGATAACCTTAAAAGACTTAAAAAGACTAGAAATGGGATGAACCTATCCTAAATGCCCACCTTCG
* * * *
1140026 GCATAAAAACAGACTCGGTGATAACCTAAGACTCGATTCTAAAAAATTACA
252 GCATAAAAGCAGACTCAGTGACAACCTAGGACTCGATTCTAAAAAATTACA
*
1140077 AAAATACCCCTAAAGGATACCTTTGACGT
1 AAAATACCCCTAAAGGATACCTTCGACGT
1140106 GAAGTGCTCG
Statistics
Matches: 508, Mismatches: 105, Indels: 68
0.75 0.15 0.10
Matches are distributed among these distances:
305 1 0.00
306 6 0.01
307 11 0.02
308 102 0.20
309 165 0.32
310 146 0.29
311 54 0.11
312 22 0.04
313 1 0.00
ACGTcount: A:0.39, C:0.21, G:0.17, T:0.23
Consensus pattern (302 bp):
AAAATACCCCTAAAGGATACCTTCGACGTAAAAGTACCCAGAACCCTAAAAGACTAAAAAGATAG
AAAAGGATGAACCTATCCTAAATGCCCACCTTTGGCATAAAAGTGGACCGGTGACAACCTAAAGT
TGGTTCTAAAAATTATGAAAATGCCCCTATGGGTATACCTTCGACGTAAAAGTACTCGATAACCT
TAAAAGACTTAAAAAGACTAGAAATGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAG
CAGACTCAGTGACAACCTAGGACTCGATTCTAAAAAATTACA
Found at i:1140970 original size:167 final size:163
Alignment explanation
Indices: 1140679--1141148 Score: 534
Period size: 167 Copynumber: 2.8 Consensus size: 163
1140669 AACGATTAAT
* * ** *
1140679 ATTTATTTATTTTTGGAAAAAAAATTATTTTGTACCTTAATGGATACCCGAAAAA-ATACGAAAA
1 ATTTATTTATGTTT-GAAAAAAAATAATTTCATACCTTAATAGATACCC-AAAAAGATACGAAAA
* * * *
1140743 GTTTTTGAAATCTTATA--CACCTCTACGGATACCCATAGGAATATAAAAAATTAAAAATAATTA
64 TTTTTTGAAATCTTATATGC-CCT-TACGAATACCCATAGAAATATAAAAGATTAAAAATAATTA
*
1140806 ATATTTATTTAAATTAACGGGGAATGAATTTAATATC
127 ATATTTATTTAAATTAACGAGGAATGAATTTAATATC
*
1140843 ATTTATTTATGTATGTTTAAAAAAAATAATTTCATACCTTAATAGATACCCAAAAAGATACGAAA
1 ATTTATTTATG--T-TTGAAAAAAAATAATTTCATACCTTAATAGATACCCAAAAAGATACGAAA
* *
1140908 TTTTTTTTAAAATCTTATATGCCCTTACGAATACCCATAGAAATATAAAAGATTAAAAATAATTA
63 -ATTTTTTGAAATCTTATATGCCCTTACGAATACCCATAGAAATATAAAAGATTAAAAATAATTA
*
1140973 ATATTTATTTAAATTAACGAGGAGTGAATTTAATATC
127 ATATTTATTTAAATTAACGAGGAATGAATTTAATATC
* **
1141010 ATTTATTTATGTTTGGAAAAAAATAATTTCGTTCCTTAATAGATACCTTAATAGATACCTGAAAA
1 ATTTATTTATGTTTGAAAAAAAATAA--T--TT-C-------ATACCTTAATAGATACCCAAAAA
*
1141075 GATACGAAAAGTTTTTTGAAATCTTATATGCCCTAACGAATACCCATA-AGAATATAAAAGATTT
54 GATACGAAAA-TTTTTTGAAATCTTATATGCCCTTACGAATACCCATAGA-AATATAAAAGA-TT
1141139 AAAAAATAAT
116 -AAAAATAAT
1141149 AAATGTTGAA
Statistics
Matches: 262, Mismatches: 21, Indels: 32
0.83 0.07 0.10
Matches are distributed among these distances:
164 22 0.08
165 6 0.02
166 39 0.15
167 100 0.38
168 5 0.02
169 2 0.01
175 1 0.00
176 76 0.29
177 2 0.01
178 9 0.03
ACGTcount: A:0.44, C:0.11, G:0.10, T:0.35
Consensus pattern (163 bp):
ATTTATTTATGTTTGAAAAAAAATAATTTCATACCTTAATAGATACCCAAAAAGATACGAAAATT
TTTTGAAATCTTATATGCCCTTACGAATACCCATAGAAATATAAAAGATTAAAAATAATTAATAT
TTATTTAAATTAACGAGGAATGAATTTAATATC
Found at i:1141060 original size:12 final size:12
Alignment explanation
Indices: 1141043--1141079 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
1141033 TAATTTCGTT
1141043 CCTTAATAGATA
1 CCTTAATAGATA
1141055 CCTTAATAGATA
1 CCTTAATAGATA
* *
1141067 CCTGAAAAGATA
1 CCTTAATAGATA
1141079 C
1 C
1141080 GAAAAGTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.43, C:0.19, G:0.11, T:0.27
Consensus pattern (12 bp):
CCTTAATAGATA
Found at i:1143065 original size:164 final size:164
Alignment explanation
Indices: 1142610--1143069 Score: 592
Period size: 164 Copynumber: 2.8 Consensus size: 164
1142600 GAAAATAGGG
* * * *
1142610 ATTTCAAAGAAAAAATTCAAAAACTCATGCATATGAATGAATTTTTGAAATCA-GAATTAATATG
1 ATTTCAAGGAAAAAATTCAAAAACTCATGAAAATGAATGAATTTTTGAAA-AATGAATTAATATG
* * * * *
1142674 AAATAAATAATGATATTTGATAAATTTTAAAAATTGAAAACCTCAAAAATCC-CCTCAACAAAAT
65 AAATAAATAATAATATTTGATGAATTTTAAAAATTGAAAACATGAAAAATCCTCC-CAAAAAAAT
*
1142738 TACAGAGTAAAAAACACCGTATTTTGGAAAAGGGAA
129 TACAGAGTAAAAAACACCGTATTTTGAAAAAGGGAA
*
1142774 ATTTCAAGGAAAAAATTCAAAAACTCATCAAAATGAATGAATTTTT-AAAAACTGAATTAATATG
1 ATTTCAAGGAAAAAATTCAAAAACTCATGAAAATGAATGAATTTTTGAAAAA-TGAATTAATATG
* * * *
1142838 AAATAAATGATAATATTTAATGAATTTTAAAAATTGAAAACCAAG-AAAATCCTCTCGAAAAAAA
65 AAATAAATAATAATATTTGATGAATTTTAAAAATTGAAAA-CATGAAAAATCCTC-CCAAAAAAA
* *
1142902 TTACAGAGTAGAAAACACCGTATTTTAGAAAAAGGGAT
128 TTACAGAGTAAAAAACACCGTATTTT-GAAAAAGGGAA
* * * *
1142940 ATTTTAAGG-AAAAA-TCAAAAACTCGTGAAAATGAATTAATTTTTGAAAAATGATTTAATAT-A
1 ATTTCAAGGAAAAAATTCAAAAACTCATGAAAATGAATGAATTTTTGAAAAATGAATTAATATGA
* *
1143002 AATTAAATAATAATATTTGATGAATTTTAAAAATTAAAAATTATGAAAAATCCTCCCAAAAAAAT
66 AA-TAAATAATAATATTTGATGAATTTTAAAAATTGAAAA-CATGAAAAATCCTCCCAAAAAAAT
1143067 TAC
129 TAC
1143070 GGAAAAGAAA
Statistics
Matches: 258, Mismatches: 29, Indels: 18
0.85 0.10 0.06
Matches are distributed among these distances:
162 1 0.00
163 6 0.02
164 181 0.70
165 52 0.20
166 18 0.07
ACGTcount: A:0.51, C:0.10, G:0.10, T:0.29
Consensus pattern (164 bp):
ATTTCAAGGAAAAAATTCAAAAACTCATGAAAATGAATGAATTTTTGAAAAATGAATTAATATGA
AATAAATAATAATATTTGATGAATTTTAAAAATTGAAAACATGAAAAATCCTCCCAAAAAAATTA
CAGAGTAAAAAACACCGTATTTTGAAAAAGGGAA
Found at i:1149443 original size:16 final size:15
Alignment explanation
Indices: 1149412--1149458 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
1149402 ACCTATAATC
* *
1149412 TATAATTTATAAAAA
1 TATAAATTAAAAAAA
1149427 TATAAATATAAAAAAA
1 TATAAAT-TAAAAAAA
*
1149443 TTTAAATTAAAAAAA
1 TATAAATTAAAAAAA
1149458 T
1 T
1149459 TATTATTATT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
15 15 0.54
16 13 0.46
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
TATAAATTAAAAAAA
Found at i:1149459 original size:15 final size:16
Alignment explanation
Indices: 1149422--1149459 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
1149412 TATAATTTAT
*
1149422 AAAAATATAAATATAA
1 AAAAATTTAAATATAA
1149438 AAAAATTTAAAT-TAA
1 AAAAATTTAAATATAA
1149453 AAAAATT
1 AAAAATT
1149460 ATTATTATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 10 0.48
16 11 0.52
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAAATTTAAATATAA
Found at i:1150405 original size:16 final size:16
Alignment explanation
Indices: 1150380--1150413 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1150370 TTACGTTGTC
*
1150380 ATTATAAATAATTTTT
1 ATTATAAATAATATTT
*
1150396 ATTATTAATAATATTT
1 ATTATAAATAATATTT
1150412 AT
1 AT
1150414 CTAATTTATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
ATTATAAATAATATTT
Found at i:1150635 original size:2 final size:2
Alignment explanation
Indices: 1150628--1150654 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1150618 TCATTGCTTA
1150628 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1150655 CATCTTAGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1152793 original size:27 final size:27
Alignment explanation
Indices: 1152755--1152807 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
1152745 TGCAACCTTC
*
1152755 ACTGTTTCAAATTGAATTTCATAATTT
1 ACTGTTTCAAATTGAATTTCAAAATTT
1152782 ACTGTTTCAAATTGAATTTCAAAATT
1 ACTGTTTCAAATTGAATTTCAAAATT
1152808 GACGGCACAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.36, C:0.11, G:0.08, T:0.45
Consensus pattern (27 bp):
ACTGTTTCAAATTGAATTTCAAAATTT
Found at i:1152979 original size:21 final size:20
Alignment explanation
Indices: 1152955--1152993 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1152945 AAATATCAAT
1152955 TAAAACTAAAAATTTTTACTA
1 TAAAA-TAAAAATTTTTACTA
* *
1152976 TAAAATAGATATTTTTAC
1 TAAAATAAAAATTTTTAC
1152994 CATTATTTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.49, C:0.08, G:0.03, T:0.41
Consensus pattern (20 bp):
TAAAATAAAAATTTTTACTA
Found at i:1153542 original size:16 final size:16
Alignment explanation
Indices: 1153517--1153550 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1153507 TTACGTTGTC
*
1153517 ATTATAAATAATTTTT
1 ATTATAAATAATATTT
*
1153533 ATTATTAATAATATTT
1 ATTATAAATAATATTT
1153549 AT
1 AT
1153551 CTAATTTATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
ATTATAAATAATATTT
Found at i:1153773 original size:2 final size:2
Alignment explanation
Indices: 1153766--1153792 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1153756 TCATTGCTTA
1153766 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1153793 CACATCTTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1154432 original size:58 final size:59
Alignment explanation
Indices: 1154368--1154487 Score: 188
Period size: 58 Copynumber: 2.1 Consensus size: 59
1154358 TTAGGAAATA
** * *
1154368 AATATAATTGTACCTTATTTTGAGAATAAAAATTTATAAGAACTT-TAGAAAAACTCAC
1 AATATAATTACACCTTATTTTGAGAATAAAAATTTATAAGAACTTAAAAAAAAACTCAC
*
1154426 AATATAATTACACCTTATTTTGAGAATAAAGATTTATAAGAACTTAAAAAAAAACTCAC
1 AATATAATTACACCTTATTTTGAGAATAAAAATTTATAAGAACTTAAAAAAAAACTCAC
1154485 AAT
1 AAT
1154488 CTTTGTGCCT
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
58 42 0.75
59 14 0.25
ACGTcount: A:0.49, C:0.11, G:0.07, T:0.33
Consensus pattern (59 bp):
AATATAATTACACCTTATTTTGAGAATAAAAATTTATAAGAACTTAAAAAAAAACTCAC
Found at i:1155097 original size:22 final size:22
Alignment explanation
Indices: 1155069--1155113 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
1155059 TATGTTACAA
*
1155069 ACTAAATAGTCACAAACTAAAT
1 ACTAAATAATCACAAACTAAAT
* *
1155091 ACTAAATAATCCCAAATTAAAT
1 ACTAAATAATCACAAACTAAAT
1155113 A
1 A
1155114 GTCAAAACAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.56, C:0.18, G:0.02, T:0.24
Consensus pattern (22 bp):
ACTAAATAATCACAAACTAAAT
Found at i:1159790 original size:20 final size:19
Alignment explanation
Indices: 1159765--1159818 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 19
1159755 CTATCACTGT
1159765 TTGTATCGATACATG-GCACA
1 TTGTATCGATACATGAG-A-A
1159785 TTGTATCGATACATGATGAA
1 TTGTATCGATACATGA-GAA
1159805 TTGTATCGATACAT
1 TTGTATCGATACAT
1159819 TACTTCAAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 30 0.94
21 1 0.03
22 1 0.03
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (19 bp):
TTGTATCGATACATGAGAA
Found at i:1161022 original size:19 final size:19
Alignment explanation
Indices: 1160998--1161053 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
1160988 GTATTGATAC
**
1160998 ATTGTATCGATACATGTTA
1 ATTGTATCGATACATGACA
1161017 ATTGTATCGATACATGGACA
1 ATTGTATCGATACAT-GACA
1161037 ATTGTATCGATACATGA
1 ATTGTATCGATACATGA
1161054 GATTGGCAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 17 0.50
20 17 0.50
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (19 bp):
ATTGTATCGATACATGACA
Found at i:1161041 original size:20 final size:20
Alignment explanation
Indices: 1160998--1161052 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
1160988 GTATTGATAC
**
1160998 ATTGTATCGATACAT-GTTA
1 ATTGTATCGATACATGGACA
1161017 ATTGTATCGATACATGGACA
1 ATTGTATCGATACATGGACA
1161037 ATTGTATCGATACATG
1 ATTGTATCGATACATG
1161053 AGATTGGCAG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
19 15 0.45
20 18 0.55
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.36
Consensus pattern (20 bp):
ATTGTATCGATACATGGACA
Found at i:1161118 original size:13 final size:13
Alignment explanation
Indices: 1161097--1161127 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1161087 TAATACATGG
*
1161097 TACAATGTATCGA
1 TACATTGTATCGA
1161110 TACATTGTATCGA
1 TACATTGTATCGA
1161123 TACAT
1 TACAT
1161128 GATGAATTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:1164836 original size:20 final size:20
Alignment explanation
Indices: 1164811--1164862 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
1164801 AAAACCCAGA
*
1164811 TGTATCGATACAATATTCCT
1 TGTATCGATACAACATTCCT
1164831 TGTATCGATACAACATTCCT
1 TGTATCGATACAACATTCCT
1164851 TGTATCGATACA
1 TGTATCGATACA
1164863 GTGGGTACTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.37
Consensus pattern (20 bp):
TGTATCGATACAACATTCCT
Found at i:1165029 original size:20 final size:22
Alignment explanation
Indices: 1164985--1165031 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
1164975 AATTTTCCAC
1164985 AAAT-TTTCACTTTTTCACTTCA
1 AAATCTTTCACTTTTTCAC-TCA
1165007 AAATCTTTCA-TTTTTCA-TCA
1 AAATCTTTCACTTTTTCACTCA
1165027 AAATC
1 AAATC
1165032 ATCAACAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.33
22 11 0.46
23 5 0.21
ACGTcount: A:0.32, C:0.21, G:0.00, T:0.47
Consensus pattern (22 bp):
AAATCTTTCACTTTTTCACTCA
Found at i:1172472 original size:79 final size:77
Alignment explanation
Indices: 1172341--1172714 Score: 328
Period size: 79 Copynumber: 4.8 Consensus size: 77
1172331 ACAACGGGGC
** * * * *
1172341 TGGAGTATCATTGATTATGGAAAATTGGTGTTCTGGAAATAAAATCGAGGTTGGAGTATCCCCTC
1 TGGAGTATCCCTGATTAT-GAAAATTGATGTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCTC
1172406 AGAAATAACAGGGT
65 AGAAATAAC-GGGT
* *
1172420 TGGAGTATCCCTGATTATAGAAAATTGACGTTTTGAAAACAAAATCGGGGTTGGAGTATCCCCTC
1 TGGAGTATCCCTGATTAT-GAAAATTGATGTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCTC
*
1172485 -GAAAATAACGGGG
65 AG-AAATAACGGGT
** * * * ***
1172498 TAAAGTATCCCCGATTGTGAAAAATTGATGCTTT-AGAAATAAGGCCGGGGTTGGAGTAT-CCCT
1 TGGAGTATCCCTGATTATG-AAAATTGATGTTTTGA-AAATAAAATCGGGGTTGGAGTATCCCCT
1172561 GCCAG-AATAACGGGGT
64 --CAGAAATAAC-GGGT
* ** * * *
1172577 TGGAGTAT-CCTCGATTGTGAGAAATCAATATTTT-AGAAATAAAGTCGAGGTTGGAGTATCCCC
1 TGGAGTATCCCT-GATTATGA-AAATTGATGTTTTGA-AAATAAAATCGGGGTTGGAGTATCCCC
*
1172640 TCGGAAATAACGGGAT
63 TCAGAAATAACGGG-T
* * * *
1172656 TAGAGTATCCCTGATTATAAAAAATTGATGTTTTGGAAATAAAACCGGGGTTGGAGTAT
1 TGGAGTATCCCTGATTAT-GAAAATTGATGTTTTGAAAATAAAATCGGGGTTGGAGTAT
1172715 TCCCGAGATG
Statistics
Matches: 238, Mismatches: 42, Indels: 30
0.77 0.14 0.10
Matches are distributed among these distances:
77 6 0.03
78 63 0.26
79 160 0.67
80 9 0.04
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (77 bp):
TGGAGTATCCCTGATTATGAAAATTGATGTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCTCA
GAAATAACGGGT
Found at i:1172558 original size:157 final size:157
Alignment explanation
Indices: 1172376--1172714 Score: 400
Period size: 157 Copynumber: 2.2 Consensus size: 157
1172366 TGGTGTTCTG
* *
1172376 GAAATAAAATCGAGGTTGGAGTATCCC-CTCAGAAATAACAGGGTTGGAGTATCC-CTGATTAT-
1 GAAATAAAACCGGGGTTGGAGTATCCCTC-CAG-AATAACAGGGTTGGAGTATCCTC-GATTATG
** * *
1172438 AGAAAATTGACGTTTT-GAAAACAAAATCGGGGTTGGAGTATCCCCTCGAAAATAACGGG-GTAA
63 AG-AAATCAACATTTTAG-AAACAAAATCGAGGTTGGAGTATCCCCTCGAAAATAACGGGAGTAA
* *
1172501 AGTATCCCCGATTGTGAAAAATTGATGCTTTA
126 AGTATCCCCGATTATAAAAAATTGATGCTTTA
** * *
1172533 GAAATAAGGCCGGGGTTGGAGTATCCCTGCCAGAATAACGGGGTTGGAGTATCCTCGATTGTGAG
1 GAAATAAAACCGGGGTTGGAGTATCCCT-CCAGAATAACAGGGTTGGAGTATCCTCGATTATGAG
* * * * * *
1172598 AAATCAATATTTTAGAAATAAAGTCGAGGTTGGAGTATCCCCTCGGAAATAACGGGATTAGAGTA
65 AAATCAACATTTTAGAAACAAAATCGAGGTTGGAGTATCCCCTCGAAAATAACGGGAGTAAAGTA
* * *
1172663 TCCCTGATTATAAAAAATTGATGTTTTG
130 TCCCCGATTATAAAAAATTGATGCTTTA
1172691 GAAATAAAACCGGGGTTGGAGTAT
1 GAAATAAAACCGGGGTTGGAGTAT
1172715 TCCCGAGATG
Statistics
Matches: 153, Mismatches: 23, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
157 94 0.61
158 58 0.38
159 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.26, T:0.27
Consensus pattern (157 bp):
GAAATAAAACCGGGGTTGGAGTATCCCTCCAGAATAACAGGGTTGGAGTATCCTCGATTATGAGA
AATCAACATTTTAGAAACAAAATCGAGGTTGGAGTATCCCCTCGAAAATAACGGGAGTAAAGTAT
CCCCGATTATAAAAAATTGATGCTTTA
Found at i:1172745 original size:50 final size:50
Alignment explanation
Indices: 1172686--1172781 Score: 131
Period size: 50 Copynumber: 1.9 Consensus size: 50
1172676 AAAATTGATG
* * *
1172686 TTTTGGAAATAAAACCGGGGTTGGAGTAT-TCCCGAGATGAAAAATCAATA
1 TTTTAGAAATAAAACCAGGGTTAGAGTATCT-CCGAGATGAAAAATCAATA
* *
1172736 TTTTAGAAATAAAGCTAGGGTTAGAGTATCTCCGAGATGAAAAATC
1 TTTTAGAAATAAAACCAGGGTTAGAGTATCTCCGAGATGAAAAATC
1172782 TAGAAATTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
50 39 0.98
51 1 0.03
ACGTcount: A:0.39, C:0.11, G:0.23, T:0.27
Consensus pattern (50 bp):
TTTTAGAAATAAAACCAGGGTTAGAGTATCTCCGAGATGAAAAATCAATA
Found at i:1175088 original size:20 final size:20
Alignment explanation
Indices: 1175063--1175166 Score: 73
Period size: 20 Copynumber: 4.8 Consensus size: 20
1175053 AAAATGTTTG
1175063 AATGTATCGATACATTGAAA
1 AATGTATCGATACATTGAAA
1175083 AATGTATCGATACATCTAGGTAAA
1 AATGTATCGATACAT-T--G-AAA
* * *
1175107 CCCAGTATGTATCAATACAATGAAC
1 ---A--ATGTATCGATACATTGAAA
* *
1175132 AATGTATCGATACAATGAAC
1 AATGTATCGATACATTGAAA
*
1175152 AATGTATCAATACAT
1 AATGTATCGATACAT
1175167 CTAGGTAAAA
Statistics
Matches: 69, Mismatches: 6, Indels: 18
0.74 0.06 0.19
Matches are distributed among these distances:
20 46 0.67
21 1 0.01
22 1 0.01
23 1 0.01
24 3 0.04
25 2 0.03
26 1 0.01
27 1 0.01
28 1 0.01
29 12 0.17
ACGTcount: A:0.43, C:0.15, G:0.13, T:0.28
Consensus pattern (20 bp):
AATGTATCGATACATTGAAA
Found at i:1175174 original size:69 final size:70
Alignment explanation
Indices: 1175063--1175212 Score: 230
Period size: 69 Copynumber: 2.2 Consensus size: 70
1175053 AAAATGTTTG
* * *
1175063 AATGTATCGATACATTGAAAAATGTATCGATACATCTAGGT-AAACCCAGTATGTATCAATACAA
1 AATGTATCGATACAATGAAAAATGTATCAATACATCTAGGTAAAACCCAGAATGTATCAATACAA
1175127 TGAAC
66 TGAAC
* * *
1175132 AATGTATCGATACAATGAACAATGTATCAATACATCTAGGTAAAACTCAGAATGTATCGATACAA
1 AATGTATCGATACAATGAAAAATGTATCAATACATCTAGGTAAAACCCAGAATGTATCAATACAA
*
1175197 TGAAT
66 TGAAC
1175202 AATGTATCGAT
1 AATGTATCGAT
1175213 CCAAATTATG
Statistics
Matches: 73, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
69 38 0.52
70 35 0.48
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.28
Consensus pattern (70 bp):
AATGTATCGATACAATGAAAAATGTATCAATACATCTAGGTAAAACCCAGAATGTATCAATACAA
TGAAC
Found at i:1175948 original size:41 final size:40
Alignment explanation
Indices: 1175811--1175948 Score: 127
Period size: 41 Copynumber: 3.4 Consensus size: 40
1175801 GGAATGGAGC
**
1175811 GTCCTGCTCTTT-AAGGACAAAGG-AAAAGGAGAACGAAATAG
1 GTCCTGCTCTTTGAA-GACAAAGGAAAAAGGA-AATAAAAT-G
* * *
1175852 GTCCTGCTCCTTGATGACAAAGGAAAAAAGGATATAAAATG
1 GTCCTGCTCTTTGAAGACAAAGG-AAAAAGGAAATAAAATG
* * *
1175893 CATCCTGCCCTTTGAAGACAAAGGAAAAAGGAAATTAAATG
1 -GTCCTGCTCTTTGAAGACAAAGGAAAAAGGAAATAAAATG
*
1175934 TGTCCTGCTTTTTGA
1 -GTCCTGCTCTTTGA
1175949 GGACTGTAGA
Statistics
Matches: 78, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
41 46 0.59
42 25 0.32
43 7 0.09
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.23
Consensus pattern (40 bp):
GTCCTGCTCTTTGAAGACAAAGGAAAAAGGAAATAAAATG
Found at i:1176975 original size:17 final size:15
Alignment explanation
Indices: 1176955--1176995 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
1176945 CATCCTCCAC
*
1176955 AAAAAAAAGAAAAGAG
1 AAAAAAAA-AAAAAAG
*
1176971 AAAAAAAATAAAAAG
1 AAAAAAAAAAAAAAG
1176986 AAAAAAAAAA
1 AAAAAAAAAA
1176996 CAACCAAAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
15 14 0.64
16 8 0.36
ACGTcount: A:0.88, C:0.00, G:0.10, T:0.02
Consensus pattern (15 bp):
AAAAAAAAAAAAAAG
Found at i:1176976 original size:15 final size:15
Alignment explanation
Indices: 1176955--1176993 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 15
1176945 CATCCTCCAC
*
1176955 AAAAAAAAGAAAAGAG
1 AAAAAAAATAAAA-AG
1176971 AAAAAAAATAAAAAG
1 AAAAAAAATAAAAAG
1176986 AAAAAAAA
1 AAAAAAAA
1176994 AACAACCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 10 0.45
16 12 0.55
ACGTcount: A:0.87, C:0.00, G:0.10, T:0.03
Consensus pattern (15 bp):
AAAAAAAATAAAAAG
Found at i:1178561 original size:29 final size:29
Alignment explanation
Indices: 1178439--1178675 Score: 244
Period size: 28 Copynumber: 8.3 Consensus size: 29
1178429 CTCACCTTCT
* *
1178439 AAAGTCCACAAGTCAGTGGCATCTTTTC-
1 AAAGCCCACAAGTCAGTGGCACCTTTTCA
*
1178467 AAAGCTCACAAGTCAGTGGCAACC--TTCA
1 AAAGCCCACAAGTCAGTGGC-ACCTTTTCA
*
1178495 AAAGCCCACAAGTCAGTGGCAAGC--TTCA
1 AAAGCCCACAAGTCAGTGGC-ACCTTTTCA
*
1178523 AAAGCCCACAAGTCAGTGGCATCTTTTCA
1 AAAGCCCACAAGTCAGTGGCACCTTTTCA
*
1178552 AAAGCCCACAAGTTAGTGGCACCTTTTC-
1 AAAGCCCACAAGTCAGTGGCACCTTTTCA
*
1178580 AAAGCCCACAAGTCGGTGGCACCCTTTTC-
1 AAAGCCCACAAGTCAGTGGCA-CCTTTTCA
1178609 AAAGCCCACAAAGT-AGTGGCAACC--TTCA
1 AAAGCCCAC-AAGTCAGTGGC-ACCTTTTCA
* ** *
1178637 AAAGCACACAAGTTGGT-GCAACCCTTTCA
1 AAAGCCCACAAGTCAGTGGC-ACCTTTTCA
1178666 AAAGCCCACA
1 AAAGCCCACA
1178676 CAAGTTGGTG
Statistics
Matches: 184, Mismatches: 14, Indels: 21
0.84 0.06 0.10
Matches are distributed among these distances:
27 18 0.10
28 93 0.51
29 68 0.37
30 5 0.03
ACGTcount: A:0.33, C:0.29, G:0.18, T:0.20
Consensus pattern (29 bp):
AAAGCCCACAAGTCAGTGGCACCTTTTCA
Found at i:1178571 original size:57 final size:57
Alignment explanation
Indices: 1178439--1178675 Score: 238
Period size: 57 Copynumber: 4.2 Consensus size: 57
1178429 CTCACCTTCT
* * * * *
1178439 AAAGTCCACAAGTCAGTGGCATCTTTTC-AAAGCTCACAAGTCAGTGGCAACC--TTCA
1 AAAGCCCACAAGTTAGTGGCAAC-CTTCAAAAGCCCACAAGTCAGTGGC-ACCTTTTCA
* * *
1178495 AAAGCCCACAAGTCAGTGGCAAGCTTCAAAAGCCCACAAGTCAGTGGCATCTTTTCA
1 AAAGCCCACAAGTTAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCACCTTTTCA
*
1178552 AAAGCCCACAAGTTAGTGGC-ACCTTTTC-AAAGCCCACAAGTCGGTGGCACCCTTTTC-
1 AAAGCCCACAAGTTAGTGGCAACC--TTCAAAAGCCCACAAGTCAGTGGCA-CCTTTTCA
* ** *
1178609 AAAGCCCACAAAG-TAGTGGCAACCTTCAAAAGCACACAAGTTGGT-GCAACCCTTTCA
1 AAAGCCCAC-AAGTTAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGC-ACCTTTTCA
1178666 AAAGCCCACA
1 AAAGCCCACA
1178676 CAAGTTGGTG
Statistics
Matches: 157, Mismatches: 13, Indels: 22
0.82 0.07 0.11
Matches are distributed among these distances:
55 5 0.03
56 53 0.34
57 84 0.54
58 15 0.10
ACGTcount: A:0.33, C:0.29, G:0.18, T:0.20
Consensus pattern (57 bp):
AAAGCCCACAAGTTAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCACCTTTTCA
Done.