Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold194
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: 3945165
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1023 characters in sequence are not A, C, G, or T
File 6 of 24
Found at i:915773 original size:33 final size:33
Alignment explanation
Indices: 915731--915796 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
915721 GTTACATGCT
*
915731 ATGTATCGATACATT-TCATCATGTATCGATACA
1 ATGTATCGATACATTGT-ACCATGTATCGATACA
915764 ATGTATCGATACATTGTACCATGTATCGATACA
1 ATGTATCGATACATTGTACCATGTATCGATACA
915797 TAGTGATAGG
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 30 0.97
34 1 0.03
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (33 bp):
ATGTATCGATACATTGTACCATGTATCGATACA
Found at i:918213 original size:20 final size:23
Alignment explanation
Indices: 918188--918234 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
918178 TTCTGTTAAT
918188 GATTTTG-A-TGAAAAA-TGAAA
1 GATTTTGAAGTGAAAAAGTGAAA
918208 GATTTTGAAGTGAAAAAGTGAAA
1 GATTTTGAAGTGAAAAAGTGAAA
918231 -ATTT
1 GATTT
918235 GTGGAAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.29
21 1 0.04
22 11 0.46
23 5 0.21
ACGTcount: A:0.47, C:0.00, G:0.21, T:0.32
Consensus pattern (23 bp):
GATTTTGAAGTGAAAAAGTGAAA
Found at i:924523 original size:13 final size:13
Alignment explanation
Indices: 924505--924537 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
924495 ACGTTTCATC
924505 ATGTATCGATATA
1 ATGTATCGATATA
924518 ATGTATCGATATA
1 ATGTATCGATATA
*
924531 TTGTATC
1 ATGTATC
924538 ATGTATCGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.33, C:0.09, G:0.15, T:0.42
Consensus pattern (13 bp):
ATGTATCGATATA
Found at i:924527 original size:33 final size:33
Alignment explanation
Indices: 924485--924548 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
924475 GTTACATGCT
*
924485 ATGTATCGATACGTT-TCATCATGTATCGATATA
1 ATGTATCGATACATTGT-ATCATGTATCGATATA
*
924518 ATGTATCGATATATTGTATCATGTATCGATA
1 ATGTATCGATACATTGTATCATGTATCGATA
924549 CAAATAGTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 27 0.96
34 1 0.04
ACGTcount: A:0.31, C:0.12, G:0.16, T:0.41
Consensus pattern (33 bp):
ATGTATCGATACATTGTATCATGTATCGATATA
Found at i:924624 original size:19 final size:20
Alignment explanation
Indices: 924580--924630 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
924570 CTGCCAGTTT
* *
924580 CATGTATCGATACAATTGTC
1 CATGTATCGATACAAGTGAC
*
924600 CATGTATCGATAC-AGTGAG
1 CATGTATCGATACAAGTGAC
924619 CATGTATCGATA
1 CATGTATCGATA
924631 TAATGTATCG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (20 bp):
CATGTATCGATACAAGTGAC
Found at i:927636 original size:45 final size:45
Alignment explanation
Indices: 927572--927664 Score: 177
Period size: 45 Copynumber: 2.1 Consensus size: 45
927562 CCCATTTAGT
927572 CCTTATTATTAGATGATCACTCGATCTTTTTACCAAAGACCATAC
1 CCTTATTATTAGATGATCACTCGATCTTTTTACCAAAGACCATAC
*
927617 CCTTATTATTAGATGATCACTCGATCTTTTTACTAAAGACCATAC
1 CCTTATTATTAGATGATCACTCGATCTTTTTACCAAAGACCATAC
927662 CCT
1 CCT
927665 ACTTCTCTCA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.30, C:0.25, G:0.09, T:0.37
Consensus pattern (45 bp):
CCTTATTATTAGATGATCACTCGATCTTTTTACCAAAGACCATAC
Found at i:933041 original size:30 final size:30
Alignment explanation
Indices: 933007--933960 Score: 914
Period size: 30 Copynumber: 32.0 Consensus size: 30
932997 ACACAAGTTG
** * * *
933007 GTGGCACCCAATTCAAAAATCCACAACTCC
1 GTGGCACCCTTTTCTAAAGTCCACAACTCT
* *
933037 GTGGCACCC-CTTCTTAAAGTTCACAACTCT
1 GTGGCACCCTTTTC-TAAAGTCCACAACTCT
*
933067 GTGGCACCC-TCTCTCAAAGT-CACAACTCT
1 GTGGCACCCTTTTCT-AAAGTCCACAACTCT
* * *
933096 GTGCCACCCTTTTCTAAAGTCCACAACACC
1 GTGGCACCCTTTTCTAAAGTCCACAACTCT
*
933126 GTGGCACCATTTTCTAAAGTCCACAACTCT
1 GTGGCACCCTTTTCTAAAGTCCACAACTCT
*
933156 GTGGCACCC-TTTCTCAAAGTCCACAACTTT
1 GTGGCACCCTTTTCT-AAAGTCCACAACTCT
*
933186 GTGACACCCTTTTCTAAAGTCCACAACTCT
1 GTGGCACCCTTTTCTAAAGTCCACAACTCT
* * * * *
933216 ATCGTACCGTTTTCTAAAGTCCACAACTCC
1 GTGGCACCCTTTTCTAAAGTCCACAACTCT
* *
933246 GTGGCACCCTTTTCTAAAATCCACAACTCC
1 GTGGCACCCTTTTCTAAAGTCCACAACTCT
* *
933276 GTGGCACTC-TTTCTCAAAGTCCACAACTTT
1 GTGGCACCCTTTTCT-AAAGTCCACAACTCT
*
933306 GTGGCACCCTTTTCTAAAGTCCTCAACTCT
1 GTGGCACCCTTTTCTAAAGTCCACAACTCT
* *
933336 GTGGCACCCTTTTCTAAAGTCCACAACACC
1 GTGGCACCCTTTTCTAAAGTCCACAACTCT
* *
933366 GTGGCACCATTTTCTAAAGTCCACAACTCC
1 GTGGCACCCTTTTCTAAAGTCCACAACTCT
* *
933396 GTGGCACCC-TTTCTCAAAGTCTACAACTTT
1 GTGGCACCCTTTTCT-AAAGTCCACAACTCT
933426 GTGGCACCCTTTTCTAAAGTCCACAACTCT
1 GTGGCACCCTTTTCTAAAGTCCACAACTCT
*
933456 GTGGCACCCTTTTCAAAAGTCCACAACTCT
1 GTGGCACCCTTTTCTAAAGTCCACAACTCT
*
933486 GTGGCACCCTTTTCAAAAGTCCACAACTCT
1 GTGGCACCCTTTTCTAAAGTCCACAACTCT
* * *
933516 GT--TACCATTTTCTAAAGTCCACAACTCC
1 GTGGCACCCTTTTCTAAAGTCCACAACTCT
* ** * *
933544 ATGGCACCCCATCCCAAAGTCCACAACTCT
1 GTGGCACCCTTTTCTAAAGTCCACAACTCT
*
933574 GTGGCACCC-TTTCTAAAGTCCATAACTCT
1 GTGGCACCCTTTTCTAAAGTCCACAACTCT
* * * *
933603 ATGGCATCC-ATTCTCAAAGTCCACAACTTT
1 GTGGCACCCTTTTCT-AAAGTCCACAACTCT
* * * *
933633 GTGGCGCCCCTTTTTTAAAAGTCCATAACTCC
1 GTGGC-ACCCTTTTCT-AAAGTCCACAACTCT
* *
933665 GTAGCACCCTTTTCTAAAGTCCGCAACTCT
1 GTGGCACCCTTTTCTAAAGTCCACAACTCT
* **
933695 GCGGCACCCTTTTCTAAAGTCTGCAACTCT
1 GTGGCACCCTTTTCTAAAGTCCACAACTCT
* *
933725 GCGGCACCC-TTT-TAAAGCCCACAACTCT
1 GTGGCACCCTTTTCTAAAGTCCACAACTCT
* * * * * *
933753 CCT-ACA-CCTTTT-TCAAGTTCATAACTCC
1 -GTGGCACCCTTTTCTAAAGTCCACAACTCT
* * *
933781 ATGGCACTCTTTTCTAAAGTCCACAACTCC
1 GTGGCACCCTTTTCTAAAGTCCACAACTCT
* * * *
933811 GTGGCACCTTTTTCTAGAGTCCATAACTCC
1 GTGGCACCCTTTTCTAAAGTCCACAACTCT
* ** *
933841 GTGGCACCCTTTTTTTAAAGTTTACAACTCC
1 GTGGCACCC-TTTTCTAAAGTCCACAACTCT
* *** * * *
933872 GTAGCATGTTTTTCTAAAGTTCATAA-TTT
1 GTGGCACCCTTTTCTAAAGTCCACAACTCT
*** * *
933901 CGTGGCATGTTTTTCTAAAATCCACAACTCC
1 -GTGGCACCCTTTTCTAAAGTCCACAACTCT
* *
933932 GTGGCACCTTTTTCTAAAGTCCCCAACTC
1 GTGGCACCCTTTTCTAAAGTCCACAACTC
933961 CATGGTACCT
Statistics
Matches: 765, Mismatches: 136, Indels: 46
0.81 0.14 0.05
Matches are distributed among these distances:
27 3 0.00
28 54 0.07
29 77 0.10
30 565 0.74
31 47 0.06
32 19 0.02
ACGTcount: A:0.25, C:0.33, G:0.12, T:0.30
Consensus pattern (30 bp):
GTGGCACCCTTTTCTAAAGTCCACAACTCT
Found at i:934270 original size:19 final size:21
Alignment explanation
Indices: 934227--934278 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 21
934217 TTCAATAATT
*
934227 TGTATCGATACATTCAGTAAA
1 TGTATCGATACATTAAGTAAA
934248 TGTATCGATACA-TAAGT-AA
1 TGTATCGATACATTAAGTAAA
*
934267 TGTATTGATACA
1 TGTATCGATACA
934279 GTGTATCGCT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 13 0.45
20 4 0.14
21 12 0.41
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (21 bp):
TGTATCGATACATTAAGTAAA
Found at i:936801 original size:52 final size:51
Alignment explanation
Indices: 936629--936867 Score: 284
Period size: 51 Copynumber: 4.6 Consensus size: 51
936619 TTAAGTTTCT
* *
936629 CAATTTTTCATAATCGGGGATACTCCAACCCC-AGTTTTATTTCTAAAACAC
1 CAATTTTTCACAATCGGGGATACTCCAACCCCGA-TTTTATTTTTAAAACAC
* * * *
936680 TAATTTTCCACAATCGGGGATACTCCAACTCCGATTTT-TTTTTCGAAACAC
1 CAATTTTTCACAATCGGGGATACTCCAACCCCGATTTTATTTTT-AAAACAC
* *
936731 CAATTTTCCACAATCGGGGATACTCCAACCCCGGTTTTATTTTTAAAACAC
1 CAATTTTTCACAATCGGGGATACTCCAACCCCGATTTTATTTTTAAAACAC
** * *** **
936782 CAATTTTTCTTTAGTCGGGGATACTCCAACTTTGATTTTATTTCAAAAAACAC
1 CAATTTTTC-ACAATCGGGGATACTCCAACCCCGATTTTATTT-TTAAAACAC
936835 CAATTTTTCACAATCGGGGATACTCCAACCCCG
1 CAATTTTTCACAATCGGGGATACTCCAACCCCG
936868 TTATTTTCGA
Statistics
Matches: 157, Mismatches: 26, Indels: 9
0.82 0.14 0.05
Matches are distributed among these distances:
50 4 0.03
51 87 0.55
52 50 0.32
53 16 0.10
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (51 bp):
CAATTTTTCACAATCGGGGATACTCCAACCCCGATTTTATTTTTAAAACAC
Found at i:936891 original size:80 final size:79
Alignment explanation
Indices: 936798--937022 Score: 315
Period size: 80 Copynumber: 2.8 Consensus size: 79
936788 TTCTTTAGTC
*** * *
936798 GGGGATACTCCAACTTTGATTTTATTTCAAAAAACACCAATTTTTCACAATCGGGGATACTCCAA
1 GGGGATACTCCAACCCCGGTTTTATTTC-TAAAACACCAATTTTTCACAATCGGGGATACTCCAA
*
936863 CCCCGTTATTTTCGA
65 CCCCGTTATTTTCAA
* *
936878 GGGGATACTCCAACCCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAA
1 GGGGATACTCCAA-CCCCGGTTTTATTTCTAAAACACCAATTTTTCACAATCGGGGATACTCCAA
936943 CCCCGTTATTTTCAA
65 CCCCGTTATTTTCAA
** * * *
936958 GGGGATACTCGTACCCCGGTTTTATTTCTAAAACACCAATTCTCCACAATCGGGGATATTCCAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTCACAATCGGGGATACTCCAAC
937023 TCCGATTTTA
Statistics
Matches: 129, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
79 47 0.36
80 71 0.55
81 11 0.09
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (79 bp):
GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTCACAATCGGGGATACTCCAAC
CCCGTTATTTTCAA
Found at i:937035 original size:51 final size:51
Alignment explanation
Indices: 936977--937073 Score: 140
Period size: 51 Copynumber: 1.9 Consensus size: 51
936967 CGTACCCCGG
* * *
936977 TTTTATTTCTAAAACACCAATTCTCCACAATCGGGGATATTCCAACTCCGA
1 TTTTATTTCCAAAACACCAATTCTCCACAATCGAGGATACTCCAACTCCGA
* * *
937028 TTTTATTTCCAAAACACTAATTTTTCACAATCGAGGATACTCCAAC
1 TTTTATTTCCAAAACACCAATTCTCCACAATCGAGGATACTCCAAC
937074 CTCGTTATTT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 40 1.00
ACGTcount: A:0.33, C:0.26, G:0.08, T:0.33
Consensus pattern (51 bp):
TTTTATTTCCAAAACACCAATTCTCCACAATCGAGGATACTCCAACTCCGA
Found at i:937093 original size:28 final size:30
Alignment explanation
Indices: 937057--937131 Score: 104
Period size: 28 Copynumber: 2.6 Consensus size: 30
937047 ATTTTTCACA
* *
937057 ATCGAGGATACTCCAACCTCGTTA-TTTC-
1 ATCGGGGATACTCCAACCCCGTTACTTTCG
937085 ATCGGGGATACTCCAACCCCGTTACTTTCG
1 ATCGGGGATACTCCAACCCCGTTACTTTCG
937115 A--GGGGATACTCCAACCC
1 ATCGGGGATACTCCAACCC
937132 TGGCTTTATT
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
28 38 0.88
29 4 0.09
30 1 0.02
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.25
Consensus pattern (30 bp):
ATCGGGGATACTCCAACCCCGTTACTTTCG
Found at i:937273 original size:237 final size:237
Alignment explanation
Indices: 936847--937345 Score: 585
Period size: 237 Copynumber: 2.1 Consensus size: 237
936837 ATTTTTCACA
* * *
936847 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCCGGTTTTATTTCTAAAA
1 ATCGGGGATACTCCAACCCCGTTACTTTCGAGGGGATACTCCAACCCCCGGCTTTATTTCCAAAA
* * * ** *
936912 CATCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCAAGGGGATACTCGTACCCCGG
66 CATCAATTTCTCATAATCGGGGATACTCCAACCCCATTATTTTCAAGAGGATACTCCAACCCCGA
* * *
936977 TTTTATTTCTAAAACACCAATTCTCCACAATCGGGGATATTCCAACTCCGATTTTATTTCCAAAA
131 CTTTATTTCTAAAACACCAATTCTCCACAATCGGGGACATTCCAACTCCGATCTTATTTCCAAAA
* *
937042 CA-CTAATTTTTCACAATCGAGGATACTCCAACCTCGTTATTT
196 CATC-AATTTTTCACAATCGAGGATACTCCAACCCCATTATTT
*
937084 CATCGGGGATACTCCAACCCCGTTACTTTCGAGGGGATACTCCAA-CCCTGGCTTTATTTCCAAA
1 -ATCGGGGATACTCCAACCCCGTTACTTTCGAGGGGATACTCCAACCCCCGGCTTTATTTCCAAA
* ** * * * *
937148 ATATTGATTTCTCATAATTGGGGATACTCCAACCCTATTATTTTCACGAGGATACTCCAATCCCG
65 ACATCAATTTCTCATAATCGGGGATACTCCAACCCCATTATTTTCAAGAGGATACTCCAACCCCG
* * * * * * * *
937213 ACTTTATTTTTGAAACATCTATTTTCTATAATCGGGGACACTT-CAAC-CCTTG-TCTTATTTCT
130 ACTTTATTTCTAAAACACCAATTCTCCACAATCGGGGACA-TTCCAACTCC--GATCTTATTTCC
* * * *
937275 AAATCATCGATTTTTCACAATCGGGGATTCTCCAACCCCATTATTT
192 AAAACATCAATTTTTCACAATCGAGGATACTCCAACCCCATTATTT
* *
937321 TTGAGGGGATACTCCAACCCCGTTA
1 AT-CGGGGATACTCCAACCCCGTTA
937346 TTATTTCCAA
Statistics
Matches: 220, Mismatches: 36, Indels: 11
0.82 0.13 0.04
Matches are distributed among these distances:
236 3 0.01
237 170 0.77
238 47 0.21
ACGTcount: A:0.26, C:0.26, G:0.14, T:0.33
Consensus pattern (237 bp):
ATCGGGGATACTCCAACCCCGTTACTTTCGAGGGGATACTCCAACCCCCGGCTTTATTTCCAAAA
CATCAATTTCTCATAATCGGGGATACTCCAACCCCATTATTTTCAAGAGGATACTCCAACCCCGA
CTTTATTTCTAAAACACCAATTCTCCACAATCGGGGACATTCCAACTCCGATCTTATTTCCAAAA
CATCAATTTTTCACAATCGAGGATACTCCAACCCCATTATTT
Found at i:938460 original size:61 final size:59
Alignment explanation
Indices: 938312--938540 Score: 218
Period size: 61 Copynumber: 3.9 Consensus size: 59
938302 TTGCGACAGT
*
938312 ACCC-TTTT-AAAGTCCACAACTCCGTGGCA-CCCTTTT-AAAGTCCACAACT-CTGTAGC
1 ACCCTTTTTCAAAGTCCACAACTCCATGGCACCCCTTTTCAAAGTCCACAACTCCTG-A-C
* * * * * * *
938368 TCCCTTTTTCAAAGTCTATAACTCCACGGCACCCCTTTTCAAAGTCTATAACTCCACGAC
1 ACCCTTTTTCAAAGTCCACAACTCCATGGCACCCCTTTTCAAAGTCCACAACTCC-TGAC
* * ** * *
938428 ACCCTTTTTTCAAAATCCACAACTCCGTGGCACCATTTTTTAAAGTCCACAACTCCGTGGC
1 ACCC-TTTTTCAAAGTCCACAACTCCATGGCACCCCTTTTCAAAGTCCACAACTCC-TGAC
* * *
938489 ACCC-TTTTCAAAGTCTACAACTCTATGGCACCCCTTTTCAAATTCCACAACT
1 ACCCTTTTTCAAAGTCCACAACTCCATGGCACCCCTTTTCAAAGTCCACAACT
938541 TGGTGAGTTG
Statistics
Matches: 136, Mismatches: 30, Indels: 11
0.77 0.17 0.06
Matches are distributed among these distances:
56 3 0.02
57 4 0.03
58 17 0.12
59 47 0.35
60 15 0.11
61 49 0.36
62 1 0.01
ACGTcount: A:0.27, C:0.34, G:0.10, T:0.29
Consensus pattern (59 bp):
ACCCTTTTTCAAAGTCCACAACTCCATGGCACCCCTTTTCAAAGTCCACAACTCCTGAC
Found at i:938467 original size:91 final size:89
Alignment explanation
Indices: 938312--938540 Score: 239
Period size: 91 Copynumber: 2.6 Consensus size: 89
938302 TTGCGACAGT
* ** * * * * *
938312 ACCCTTTT-AAAGTCCACAACTCCGTGGCA-CCCTTTT-AAAGTCCACAACTCTGTAGCTCCCTT
1 ACCCTTTTCAAAGTCTACAACTCCACGACACCCCTTTTCAAAATCCACAACTCCGTAGCACCATT
* *
938374 TTTCAAAGTCTATAACTCCACGGC
66 TTTCAAAGTCCACAACTCCACGGC
* * *
938398 ACCCCTTTTCAAAGTCTATAACTCCACGACACCCTTTTTTCAAAATCCACAACTCCGTGGCACCA
1 A-CCCTTTTCAAAGTCTACAACTCCACGACACCC-CTTTTCAAAATCCACAACTCCGTAGCACCA
* **
938463 TTTTTTAAAGTCCACAACTCCGTGGC
64 TTTTTCAAAGTCCACAACTCCACGGC
* * * *
938489 ACCCTTTTCAAAGTCTACAACTCTATGGCACCCCTTTTCAAATTCCACAACT
1 ACCCTTTTCAAAGTCTACAACTCCACGACACCCCTTTTCAAAATCCACAACT
938541 TGGTGAGTTG
Statistics
Matches: 116, Mismatches: 22, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
86 1 0.01
87 7 0.06
88 16 0.14
89 19 0.16
90 32 0.28
91 41 0.35
ACGTcount: A:0.27, C:0.34, G:0.10, T:0.29
Consensus pattern (89 bp):
ACCCTTTTCAAAGTCTACAACTCCACGACACCCCTTTTCAAAATCCACAACTCCGTAGCACCATT
TTTCAAAGTCCACAACTCCACGGC
Found at i:938536 original size:59 final size:60
Alignment explanation
Indices: 938312--938540 Score: 234
Period size: 59 Copynumber: 3.9 Consensus size: 60
938302 TTGCGACAGT
* * *
938312 ACCC-TTTT-AAAGTCCACAACTCCGTGGCA-CCCTTTT-AAAGTCCACAACTCTGTAGC
1 ACCCTTTTTCAAAGTCCACAACTCCATGGCACCCCTTTTCAAAGTCCACAACTCCGTGGC
* * * * * * ** *
938368 TCCCTTTTTCAAAGTCTATAACTCCACGGCACCCCTTTTCAAAGTCTATAACTCCACGAC
1 ACCCTTTTTCAAAGTCCACAACTCCATGGCACCCCTTTTCAAAGTCCACAACTCCGTGGC
* * ** *
938428 ACCCTTTTTTCAAAATCCACAACTCCGTGGCACCATTTTTTAAAGTCCACAACTCCGTGGC
1 ACCC-TTTTTCAAAGTCCACAACTCCATGGCACCCCTTTTCAAAGTCCACAACTCCGTGGC
* * *
938489 ACCC-TTTTCAAAGTCTACAACTCTATGGCACCCCTTTTCAAATTCCACAACT
1 ACCCTTTTTCAAAGTCCACAACTCCATGGCACCCCTTTTCAAAGTCCACAACT
938541 TGGTGAGTTG
Statistics
Matches: 134, Mismatches: 34, Indels: 7
0.77 0.19 0.04
Matches are distributed among these distances:
56 3 0.02
57 4 0.03
58 17 0.13
59 47 0.35
60 16 0.12
61 47 0.35
ACGTcount: A:0.27, C:0.34, G:0.10, T:0.29
Consensus pattern (60 bp):
ACCCTTTTTCAAAGTCCACAACTCCATGGCACCCCTTTTCAAAGTCCACAACTCCGTGGC
Found at i:938539 original size:30 final size:30
Alignment explanation
Indices: 938313--938540 Score: 221
Period size: 30 Copynumber: 7.7 Consensus size: 30
938303 TGCGACAGTA
938313 CCCTTTT-AAAGTCCACAACTCCGTGGCA-
1 CCCTTTTCAAAGTCCACAACTCCGTGGCAC
* * *
938341 CCCTTTT-AAAGTCCACAACTCTGTAGCTC
1 CCCTTTTCAAAGTCCACAACTCCGTGGCAC
* * * **
938370 CCTTTTTCAAAGTCTATAACTCCACGGCAC
1 CCCTTTTCAAAGTCCACAACTCCGTGGCAC
* * ** *
938400 CCCTTTTCAAAGTCTATAACTCCACGACAC
1 CCCTTTTCAAAGTCCACAACTCCGTGGCAC
* *
938430 CCTTTTTTCAAAATCCACAACTCCGTGGCAC
1 CC-CTTTTCAAAGTCCACAACTCCGTGGCAC
** *
938461 CATTTTTTAAAGTCCACAACTCCGTGGCA-
1 CCCTTTTCAAAGTCCACAACTCCGTGGCAC
* **
938490 CCCTTTTCAAAGTCTACAACTCTATGGCAC
1 CCCTTTTCAAAGTCCACAACTCCGTGGCAC
*
938520 CCCTTTTCAAATTCCACAACT
1 CCCTTTTCAAAGTCCACAACT
938541 TGGTGAGTTG
Statistics
Matches: 165, Mismatches: 31, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
28 25 0.15
29 29 0.18
30 89 0.54
31 22 0.13
ACGTcount: A:0.27, C:0.34, G:0.10, T:0.29
Consensus pattern (30 bp):
CCCTTTTCAAAGTCCACAACTCCGTGGCAC
Found at i:938851 original size:52 final size:52
Alignment explanation
Indices: 938755--938891 Score: 132
Period size: 52 Copynumber: 2.6 Consensus size: 52
938745 CTTTAAGCCT
* ** * *
938755 AATGTTGCTAGCCTTGAATTAGCACATTAGCATTCTTCTTATCTTTAAGTTC
1 AATGTTGCTAGCCTTGAATCAGCACATTAGCACCCTTATCATCTTTAAGTTC
* * * **
938807 AATGTTGTTGGCCTTGAATCAGCACATTGGCACCCTTATCATCTTTAAGGCC
1 AATGTTGCTAGCCTTGAATCAGCACATTAGCACCCTTATCATCTTTAAGTTC
** * *
938859 AATGTCACTAGCCTTAAATC-GACACATTGGCAC
1 AATGTTGCTAGCCTTGAATCAG-CACATTAGCAC
938892 TTTTATTATT
Statistics
Matches: 69, Mismatches: 15, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
51 1 0.01
52 68 0.99
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.34
Consensus pattern (52 bp):
AATGTTGCTAGCCTTGAATCAGCACATTAGCACCCTTATCATCTTTAAGTTC
Found at i:938907 original size:52 final size:52
Alignment explanation
Indices: 938818--938944 Score: 134
Period size: 52 Copynumber: 2.4 Consensus size: 52
938808 ATGTTGTTGG
* *
938818 CCTTGAATCAGCACATTGGCACCCTTATCATCTTTAAGGCCAATGTCACTAG
1 CCTTGAAACAGCACATTGGCACCCTTATCATCTTTAAGGCCAATGTCACTAA
** * * * *
938870 CCTT-AAATC-GACACATTGGCACTTTTATTAT-TGTTAAGTCTATTGTCACTAA
1 CCTTGAAA-CAG-CACATTGGCACCCTTATCATCT-TTAAGGCCAATGTCACTAA
938922 CCTTGAAACAGCACATTGGCACC
1 CCTTGAAACAGCACATTGGCACC
938945 ATGTCAATGT
Statistics
Matches: 61, Mismatches: 9, Indels: 10
0.76 0.11 0.12
Matches are distributed among these distances:
51 4 0.07
52 53 0.87
53 4 0.07
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.31
Consensus pattern (52 bp):
CCTTGAAACAGCACATTGGCACCCTTATCATCTTTAAGGCCAATGTCACTAA
Found at i:941588 original size:97 final size:97
Alignment explanation
Indices: 941422--941602 Score: 254
Period size: 97 Copynumber: 1.9 Consensus size: 97
941412 TATTCACGGG
** ** * * * *
941422 GATACTCCAACCCTGTTTTTAAACTTGCCAAGATTTAAATCTTTTTTTTGCTTAAATTGTTATCA
1 GATACTCCAACCCCATTTTTAAACTAACCAAGATTTAAATCTTATTTTTGCCTAAATTATCATCA
*
941487 TCGGGGATACCCCTACCCCATTCTTCTGAAGC
66 TCGGGGATACCCCAACCCCATTCTTCTGAAGC
* *
941519 GATACTCCAACCCCATTTTTAAACTAATCAAGATTTAAATCTTATTTTTGCCTAAATTATCATCG
1 GATACTCCAACCCCATTTTTAAACTAACCAAGATTTAAATCTTATTTTTGCCTAAATTATCATCA
*
941584 TCGGGGATACTCCAACCCC
66 TCGGGGATACCCCAACCCC
941603 GTTTCTCCGT
Statistics
Matches: 72, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
97 72 1.00
ACGTcount: A:0.28, C:0.25, G:0.11, T:0.36
Consensus pattern (97 bp):
GATACTCCAACCCCATTTTTAAACTAACCAAGATTTAAATCTTATTTTTGCCTAAATTATCATCA
TCGGGGATACCCCAACCCCATTCTTCTGAAGC
Found at i:949517 original size:20 final size:19
Alignment explanation
Indices: 949474--949566 Score: 71
Period size: 20 Copynumber: 4.7 Consensus size: 19
949464 AACCCTTGTA
* * *
949474 TGTATCGATACATATTGAGA
1 TGTATCGATACATGTTCA-T
*
949494 TGTATCGATACAT-TATGCTT
1 TGTATCGATACATGT-T-CAT
949514 TGTATCGATACATGTTCAT
1 TGTATCGATACATGTTCAT
* **
949533 TGTATCGATACGTGCACAAT
1 TGTATCGATACATGTTC-AT
*
949553 TTTATCGATACATG
1 TGTATCGATACATG
949567 AAACTGGCAG
Statistics
Matches: 60, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
19 17 0.28
20 42 0.70
21 1 0.02
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.39
Consensus pattern (19 bp):
TGTATCGATACATGTTCAT
Found at i:949637 original size:33 final size:32
Alignment explanation
Indices: 949595--949664 Score: 88
Period size: 33 Copynumber: 2.1 Consensus size: 32
949585 CTACCACTGT
*
949595 TTGTATCGATATAT-AGCACATTGTATCAATATA
1 TTGTATCGATACATAAG-A-ATTGTATCAATATA
*
949628 TTGTATCGATACATGAAGAATTGTATCGATATA
1 TTGTATCGATACAT-AAGAATTGTATCAATATA
949661 TTGT
1 TTGT
949665 CCCAAATGGT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
33 30 0.91
34 1 0.03
35 2 0.06
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.40
Consensus pattern (32 bp):
TTGTATCGATACATAAGAATTGTATCAATATA
Found at i:951262 original size:12 final size:12
Alignment explanation
Indices: 951247--951279 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
951237 ACCATCAAAG
951247 ATGATGAAGATA
1 ATGATGAAGATA
*
951259 ATGATGATGATA
1 ATGATGAAGATA
951271 ATGATGAAG
1 ATGATGAAG
951280 TTGACTCGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.45, C:0.00, G:0.27, T:0.27
Consensus pattern (12 bp):
ATGATGAAGATA
Found at i:958310 original size:13 final size:13
Alignment explanation
Indices: 958292--958318 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
958282 ATATTATGCT
958292 TTGTATCGATACA
1 TTGTATCGATACA
958305 TTGTATCGATACA
1 TTGTATCGATACA
958318 T
1 T
958319 GTTCATTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:958352 original size:20 final size:19
Alignment explanation
Indices: 958308--958363 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 19
958298 CGATACATTG
* *
958308 TATCGATACATGTTCATTA
1 TATCGATACATGATAATTA
*
958327 TATCGATACATGCATAATTT
1 TATCGATACATG-ATAATTA
*
958347 TATCGATCCATGA-AATT
1 TATCGATACATGATAATT
958364 GTCAGTAGCT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
18 4 0.12
19 13 0.41
20 15 0.47
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (19 bp):
TATCGATACATGATAATTA
Found at i:958713 original size:19 final size:20
Alignment explanation
Indices: 958689--958742 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 20
958679 ACATTATCCT
**
958689 TTGTATCGATACATGTTC-A
1 TTGTATCGATACATGGACAA
*
958708 TTGTATCGACACATGGACAA
1 TTGTATCGATACATGGACAA
*
958728 TTTTATCGATACATG
1 TTGTATCGATACATG
958743 AAACTGGCAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.37
Consensus pattern (20 bp):
TTGTATCGATACATGGACAA
Found at i:958789 original size:13 final size:13
Alignment explanation
Indices: 958771--958819 Score: 56
Period size: 13 Copynumber: 4.2 Consensus size: 13
958761 CTACCACTGT
958771 TTGTATCGATACA
1 TTGTATCGATACA
958784 TTGTATCGATACA
1 TTGTATCGATACA
958797 -TG-AT-G--A-A
1 TTGTATCGATACA
958804 TTGTATCGATACA
1 TTGTATCGATACA
958817 TTG
1 TTG
958820 CTTCAAACGG
Statistics
Matches: 30, Mismatches: 0, Indels: 12
0.71 0.00 0.29
Matches are distributed among these distances:
7 1 0.03
8 3 0.10
9 2 0.07
10 2 0.07
11 2 0.07
12 3 0.10
13 17 0.57
ACGTcount: A:0.31, C:0.12, G:0.18, T:0.39
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:972977 original size:20 final size:20
Alignment explanation
Indices: 972923--972978 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
972913 AAAATTCCCA
**
972923 AATGTATCGATACAAAGATC
1 AATGTATCGATACATTGATC
972943 AATGTATCGATACATTGAAT-
1 AATGTATCGATACATTG-ATC
972963 AATGTATCGATACATT
1 AATGTATCGATACATT
972979 TCCTTAGCAG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
20 31 0.94
21 2 0.06
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.32
Consensus pattern (20 bp):
AATGTATCGATACATTGATC
Found at i:975750 original size:28 final size:26
Alignment explanation
Indices: 975719--975778 Score: 84
Period size: 28 Copynumber: 2.2 Consensus size: 26
975709 CTTACATCAA
975719 TTCAAACTCTTTTTTTTTCTTATTTTTT
1 TTCAAACTC-TTTTTTTTCTT-TTTTTT
975747 TTCAAAAACTCTTTTTTTTCTTTTTTTT
1 TTC--AAACTCTTTTTTTTCTTTTTTTT
975775 TTCA
1 TTCA
975779 CAATTATTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
26 1 0.03
28 12 0.40
29 11 0.37
30 6 0.20
ACGTcount: A:0.17, C:0.15, G:0.00, T:0.68
Consensus pattern (26 bp):
TTCAAACTCTTTTTTTTCTTTTTTTT
Found at i:975761 original size:29 final size:29
Alignment explanation
Indices: 975722--975778 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
975712 ACATCAATTC
975722 AAACTCTTTTTTTTTCTTATTTTTTTTCAA
1 AAACTCTTTTTTTTTCTT-TTTTTTTTCAA
975752 AAACTC-TTTTTTTTCTTTTTTTTTTCA
1 AAACTCTTTTTTTTTCTTTTTTTTTTCA
975779 CAATTATTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 10 0.37
29 11 0.41
30 6 0.22
ACGTcount: A:0.18, C:0.14, G:0.00, T:0.68
Consensus pattern (29 bp):
AAACTCTTTTTTTTTCTTTTTTTTTTCAA
Found at i:980881 original size:18 final size:18
Alignment explanation
Indices: 980858--980893 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
980848 TTAAGAGGAT
980858 AAACTTTAACTTTTTATA
1 AAACTTTAACTTTTTATA
980876 AAACTTTAACTTTTTATA
1 AAACTTTAACTTTTTATA
980894 GGACCTATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (18 bp):
AAACTTTAACTTTTTATA
Found at i:982449 original size:19 final size:19
Alignment explanation
Indices: 982405--982460 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
982395 CTGCCAGTTT
**
982405 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
982425 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
*
982444 CATGTATCAATACAATG
1 CATGTATCGATACAATG
982461 TATCGATACA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:982467 original size:32 final size:33
Alignment explanation
Indices: 982426--982490 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
982416 ACAATTGTCC
*
982426 ATGTATCGATACAATG-AACATGTATCAATACA
1 ATGTATCGATACAAAGCAACATGTATCAATACA
* *
982458 ATGTATCGATACAAAGCAGCATGTATCGATACA
1 ATGTATCGATACAAAGCAACATGTATCAATACA
982491 TCTGGGCATG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 15 0.52
33 14 0.48
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.26
Consensus pattern (33 bp):
ATGTATCGATACAAAGCAACATGTATCAATACA
Found at i:984944 original size:13 final size:13
Alignment explanation
Indices: 984926--984954 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
984916 AAATAGTACC
984926 CAATGTATCGATA
1 CAATGTATCGATA
984939 CAATGTATCGATA
1 CAATGTATCGATA
984952 CAA
1 CAA
984955 GGAATATTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:988899 original size:21 final size:21
Alignment explanation
Indices: 988877--988934 Score: 109
Period size: 21 Copynumber: 2.8 Consensus size: 21
988867 AAGTTTTTAT
988877 TTTTC-TTAGCTAATTCATTA
1 TTTTCATTAGCTAATTCATTA
988897 TTTTCATTAGCTAATTCATTA
1 TTTTCATTAGCTAATTCATTA
988918 TTTTCATTAGCTAATTC
1 TTTTCATTAGCTAATTC
988935 CTTAATATCA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 5 0.14
21 32 0.86
ACGTcount: A:0.26, C:0.16, G:0.05, T:0.53
Consensus pattern (21 bp):
TTTTCATTAGCTAATTCATTA
Found at i:989541 original size:3 final size:3
Alignment explanation
Indices: 989533--989557 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
989523 TCCAAATTAC
989533 CAT CAT CAT CAT CAT CAT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT C
989558 TTTCTCTTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.36, G:0.00, T:0.32
Consensus pattern (3 bp):
CAT
Found at i:991222 original size:20 final size:19
Alignment explanation
Indices: 991197--991246 Score: 64
Period size: 20 Copynumber: 2.6 Consensus size: 19
991187 CTGCCAGTTT
**
991197 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
*
991217 CATGTATCAATACAATGAA
1 CATGTATCGATACAATGAA
991236 CATGTATCGAT
1 CATGTATCGAT
991247 CTAATGTATC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 12 0.46
20 14 0.54
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:997916 original size:21 final size:21
Alignment explanation
Indices: 997848--997923 Score: 71
Period size: 21 Copynumber: 3.6 Consensus size: 21
997838 ATTGGGATTC
* *
997848 TAAAGTATCGATGCTTTTGCT
1 TAAAGTATCAATACTTTTGCT
* ** *
997869 TATAGTATCAATACTTAGGGT
1 TAAAGTATCAATACTTTTGCT
* *
997890 TGAAGTATCAATACTTTTGTT
1 TAAAGTATCAATACTTTTGCT
*
997911 TAAAGTATTAATA
1 TAAAGTATCAATA
997924 TTTCTTTGAG
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.33, C:0.09, G:0.16, T:0.42
Consensus pattern (21 bp):
TAAAGTATCAATACTTTTGCT
Found at i:1000122 original size:36 final size:34
Alignment explanation
Indices: 1000038--1000135 Score: 123
Period size: 36 Copynumber: 2.9 Consensus size: 34
1000028 CCTTACAACA
*
1000038 CTATC-TTTCAAGGCTAAGATAGAA--AC-CTCC
1 CTATCTTTTCAAGGCTAAGATAGAACCTCTCTCC
*
1000068 CTATCTTTTCATGAGCTAAGATAGAACCTCTCTCC
1 CTATCTTTTCAAG-GCTAAGATAGAACCTCTCTCC
1000103 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTC-AAGGCTAAGATAGAACCTCTC
1000136 AATCACTTAG
Statistics
Matches: 58, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
30 5 0.09
31 6 0.10
32 12 0.21
34 1 0.02
35 9 0.16
36 23 0.40
37 2 0.03
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.32
Consensus pattern (34 bp):
CTATCTTTTCAAGGCTAAGATAGAACCTCTCTCC
Found at i:1001316 original size:31 final size:32
Alignment explanation
Indices: 1001262--1001323 Score: 108
Period size: 31 Copynumber: 1.9 Consensus size: 32
1001252 TACAAGCCAA
1001262 TGTATCGATACATATTTTTTGTGTATCGATAAT
1 TGTATCGATACATA-TTTTTGTGTATCGATAAT
1001295 TGTATCGATACATA-TTTTGTGTATCGATA
1 TGTATCGATACATATTTTTGTGTATCGATA
1001324 CAAGTTTGGC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
31 15 0.52
33 14 0.48
ACGTcount: A:0.27, C:0.10, G:0.16, T:0.47
Consensus pattern (32 bp):
TGTATCGATACATATTTTTGTGTATCGATAAT
Found at i:1001430 original size:20 final size:20
Alignment explanation
Indices: 1001377--1001432 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
1001367 ACATCTTTTT
*
1001377 CATGTATCGATACATTGCAA
1 CATGTATCGATACTTTGCAA
1001397 CATGTATCGATACTTTG-AA
1 CATGTATCGATACTTTGCAA
*
1001416 CTGTGTATCGATACTTT
1 C-ATGTATCGATACTTT
1001433 TAAGGGTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 3 0.09
20 30 0.91
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.38
Consensus pattern (20 bp):
CATGTATCGATACTTTGCAA
Found at i:1003180 original size:13 final size:13
Alignment explanation
Indices: 1003162--1003186 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1003152 CATAAAGTGT
1003162 TGTATCGATACAA
1 TGTATCGATACAA
1003175 TGTATCGATACA
1 TGTATCGATACA
1003187 TATTTTTTTG
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:1003184 original size:33 final size:33
Alignment explanation
Indices: 1003142--1003208 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1003132 TTCAACGATT
1003142 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
1003175 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
1003208 T
1 T
1003209 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:1003267 original size:13 final size:13
Alignment explanation
Indices: 1003249--1003273 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1003239 ATCAGTTAAA
1003249 TGTATCGATACAT
1 TGTATCGATACAT
1003262 TGTATCGATACA
1 TGTATCGATACA
1003274 CTGATCTTTG
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:1003338 original size:52 final size:52
Alignment explanation
Indices: 1003282--1003410 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
1003272 CACTGATCTT
*
1003282 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
**
1003334 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1003386 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
1003411 TCATATTTCG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:1007429 original size:13 final size:13
Alignment explanation
Indices: 1007411--1007448 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
1007401 ATAATCCCCC
1007411 TGTATCGATACAG
1 TGTATCGATACAG
*
1007424 TGTATCGATACAT
1 TGTATCGATACAG
1007437 TGTATCGATACA
1 TGTATCGATACA
1007449 AAGAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:1009004 original size:15 final size:15
Alignment explanation
Indices: 1008984--1009014 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1008974 ATTTCGTTTG
*
1008984 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1008999 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1009014 G
1 G
1009015 GACATTTTTA
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:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:1013018 original size:20 final size:20
Alignment explanation
Indices: 1012965--1013020 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
1012955 ACATCTTTTT
*
1012965 CATGTATCGATACATTGCAA
1 CATGTATCGATACTTTGCAA
1012985 CATGTATCGATACTTTG-AA
1 CATGTATCGATACTTTGCAA
*
1013004 CTGTGTATCGATACTTT
1 C-ATGTATCGATACTTT
1013021 TAAGGGTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 3 0.09
20 30 0.91
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.38
Consensus pattern (20 bp):
CATGTATCGATACTTTGCAA
Found at i:1013388 original size:32 final size:32
Alignment explanation
Indices: 1013352--1013433 Score: 110
Period size: 32 Copynumber: 2.6 Consensus size: 32
1013342 TACTGTTCAC
* *
1013352 ATGTATCGATATATAAACAATGATGAATAGTG
1 ATGTATCGATACATAAACAATGATAAATAGTG
* * * *
1013384 ATGTATCGATGCATGAATAGTGATAAATAGTG
1 ATGTATCGATACATAAACAATGATAAATAGTG
1013416 ATGTATCGATACATAAAC
1 ATGTATCGATACATAAAC
1013434 TGTGATCAAC
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.41, C:0.09, G:0.20, T:0.30
Consensus pattern (32 bp):
ATGTATCGATACATAAACAATGATAAATAGTG
Found at i:1017344 original size:59 final size:60
Alignment explanation
Indices: 1017212--1017344 Score: 155
Period size: 59 Copynumber: 2.3 Consensus size: 60
1017202 CCATTTGCAC
* * * * *
1017212 ATCTAAGGTCATTTT-AACAATTTTCATTCATTTTAGATCTATTTAGGATATTTTATACA
1 ATCTAAGGTCATTTTAAACAATTTCCATACATTTTAGAGCTATATAGGATATTTTACACA
* * * *
1017271 ATCTAGGGTC-TTTTAAACAATTTCCATACATTTTAGGGC-ATATAGGTTATTTTACATA
1 ATCTAAGGTCATTTTAAACAATTTCCATACATTTTAGAGCTATATAGGATATTTTACACA
*
1017329 ATCTAAGGCCATTTTA
1 ATCTAAGGTCATTTTA
1017345 GCCATTCTTA
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
58 27 0.44
59 34 0.56
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.44
Consensus pattern (60 bp):
ATCTAAGGTCATTTTAAACAATTTCCATACATTTTAGAGCTATATAGGATATTTTACACA
Found at i:1017541 original size:58 final size:58
Alignment explanation
Indices: 1017404--1017568 Score: 204
Period size: 58 Copynumber: 2.8 Consensus size: 58
1017394 ATTTAGGGTC
* * * *
1017404 ATTTAGGTTATTTTACATAATCTAAGGTTATTTTGGAAATTTTCATGCATTTTAGGGAT
1 ATTTAGGTTATTTTACATAATCTAGGGTTATTTTAGAAATTTTTAT-CATTTTAAGGAT
* * * * * *
1017463 GTATATGTTATTTTAAATAATCTAGGGTTATTTTAGTAATTTTTATCATTTTAAGGCT
1 ATTTAGGTTATTTTACATAATCTAGGGTTATTTTAGAAATTTTTATCATTTTAAGGAT
* * *
1017521 ATTTAGGCTATTTTACATAATCTAGGGTCATTTTAGCAATTTTTATCA
1 ATTTAGGTTATTTTACATAATCTAGGGTTATTTTAGAAATTTTTATCA
1017569 CCTTACGAAC
Statistics
Matches: 89, Mismatches: 17, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
58 51 0.57
59 38 0.43
ACGTcount: A:0.29, C:0.08, G:0.15, T:0.48
Consensus pattern (58 bp):
ATTTAGGTTATTTTACATAATCTAGGGTTATTTTAGAAATTTTTATCATTTTAAGGAT
Found at i:1021062 original size:52 final size:52
Alignment explanation
Indices: 1020913--1021041 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
1020903 CGAAATATGA
1020913 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTAGGC
* *
1020965 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTAGGC
*
1021017 AAATTTGTCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
1021042 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTAGGC
Found at i:1021119 original size:13 final size:13
Alignment explanation
Indices: 1021101--1021127 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1021091 TACAAAACTT
1021101 ATGTATCGATACA
1 ATGTATCGATACA
1021114 ATGTATCGATACA
1 ATGTATCGATACA
1021127 A
1 A
1021128 CACTTTATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1021126 original size:32 final size:33
Alignment explanation
Indices: 1021085--1021147 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
1021075 GCTTAAATTA
*
1021085 TATCGATACAAAAC-TTATGTATCGATACAATG
1 TATCGATACAAAACTTTATGTATCAATACAATG
*
1021117 TATCGATACAACACTTTATGTATCAATACAA
1 TATCGATACAAAACTTTATGTATCAATACAA
1021148 ATCGTTGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
32 13 0.46
33 15 0.54
ACGTcount: A:0.41, C:0.17, G:0.10, T:0.32
Consensus pattern (33 bp):
TATCGATACAAAACTTTATGTATCAATACAATG
Found at i:1022007 original size:52 final size:52
Alignment explanation
Indices: 1021919--1022540 Score: 361
Period size: 49 Copynumber: 13.0 Consensus size: 52
1021909 GAAGATGAGA
* * ** * * * *
1021919 AAAG-TGATAAAGATGCCAATATATTGATTCATGGCCAACGATAATGGGCTT
1 AAAGATGACAAAGACGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1021970 AAAGATGACAAAGACGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 AAAGATGACAAAGACGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
* *
1022022 AGAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 AAAGATGACAAAGACGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
* * * *
1022074 AAAGAT---------GCCAATGTGTTGATTCAAGGCCAGCGACATTGGGCTT
1 AAAGATGACAAAGACGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
* ** * *
1022117 AAAGA--A-GAAGGTGCCAATATGCTGATTCAAGGCTAGCTATATTGGACTT
1 AAAGATGACAAAGACGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
** * * * * *
1022166 ---G--GACTTAAAGGTGCCAATGTACTAATTCAAGGCCAGCTACATTGGACTT
1 AAAGATGAC--AAAGACGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
** **
1022215 AAAGATG---AAGGTGCCAATAAACTGATTCAAGGCCAGCGATATTGGACTT
1 AAAGATGACAAAGACGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
* * * *
1022264 -AA-A-G-----G-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGATGACAAAGACGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
* * *
1022307 AAAGA--A-GAAGATGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTT
1 AAAGATGACAAAGACGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
* * * *
1022356 -AA-A-G-----G-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGATGACAAAGACGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
*
1022399 AAA-A--A-AGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 AAAGATGACA-AAGACGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
* * * *
1022448 -AA-A-G-----G-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGATGACAAAGACGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
* * * *
1022491 AAAGA--A-GAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGGCTT
1 AAAGATGACAAAGACGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1022540 A
1 A
1022541 GAAGGGTTGC
Statistics
Matches: 476, Mismatches: 55, Indels: 82
0.78 0.09 0.13
Matches are distributed among these distances:
43 140 0.29
44 10 0.02
45 2 0.00
46 3 0.01
47 2 0.00
48 10 0.02
49 209 0.44
51 4 0.01
52 95 0.20
54 1 0.00
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.24
Consensus pattern (52 bp):
AAAGATGACAAAGACGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
Found at i:1022161 original size:49 final size:49
Alignment explanation
Indices: 1021985--1022540 Score: 563
Period size: 49 Copynumber: 11.8 Consensus size: 49
1021975 TGACAAAGAC
* *
1021985 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAGAGATGACA-AAGGC
1 GCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTA-A-A-GA-AGAAGGT
*
1022037 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT--A-AAG-A--T
1 GCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAAGAAGGT
* * * * *
1022080 GCCAATGTGTTGATTCAAGGCCAGCGACATTGGGCTTAAAGAAGAAGGT
1 GCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAAGAAGGT
* * ***
1022129 GCCAATATGCTGATTCAAGGCTAGCTATATTGGACTTGGACTTA-AAGGT
1 GCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT-AAAGAAGAAGGT
* * * * *
1022178 GCCAATGTACTAATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGT
1 GCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAAGAAGGT
** *
1022227 GCCAATAAACTGATTCAAGGCCAGCGATATTGGACTT-----A-AAGGT
1 GCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAAGAAGGT
* * *
1022270 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGAT
1 GCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAAGAAGGT
1022319 GCCAATATGCTGATTCAAGGCCAG-TGATATTGGACTT-----A-AAGGT
1 GCCAATATGCTGATTCAAGGCCAGCT-ATATTGGACTTAAAGAAGAAGGT
* * * *
1022362 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAAAAGAAGAT
1 GCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAAGAAGGT
*
1022411 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-----A-AAGGT
1 GCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAAGAAGGT
* * *
1022454 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGAT
1 GCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAAGAAGGT
* *
1022503 GCCAATATGCTGATTCAAGGCCAGCAATATTGGGCTTA
1 GCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTA
1022541 GAAGGGTTGC
Statistics
Matches: 420, Mismatches: 55, Indels: 61
0.78 0.10 0.11
Matches are distributed among these distances:
43 145 0.35
44 3 0.01
45 3 0.01
46 4 0.01
47 1 0.00
48 6 0.01
49 219 0.52
50 2 0.00
52 37 0.09
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.24
Consensus pattern (49 bp):
GCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAAGAAGGT
Found at i:1022219 original size:141 final size:141
Alignment explanation
Indices: 1021926--1022540 Score: 576
Period size: 141 Copynumber: 4.3 Consensus size: 141
1021916 AGAAAAGTGA
** * * * * *
1021926 TAAAGATGCCAATATATTGATTCATGGCCAACGATAATGGGCTTAAAGATGACAAAGACGCCAAT
1 TAAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGA--A-GAAGATGCCAAT
* * *
1021991 ATGCTGATTCAAGGCCAGCGATATTGGACTTAGAGA-TGACAAAGGCGCCAATATGCTGATTCAA
63 ATGCTGATTCAAGGCCAGCTATATTGGACTT-G-GACT--TAAAGGTGCCAATATGCTGATTCAA
* *
1022055 GGCCAGCGATATTGGACT
124 GGCCAGCTACATTGGACT
* * * *
1022073 TAAAGATGCCAATGTGTTGATTCAAGGCCAGCGACATTGGGCTTAAAGAAGAAGGTGCCAATATG
1 TAAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGAAGAAGATGCCAATATG
* * * *
1022138 CTGATTCAAGGCTAGCTATATTGGACTTGGACTTAAAGGTGCCAATGTACTAATTCAAGGCCAGC
66 CTGATTCAAGGCCAGCTATATTGGACTTGGACTTAAAGGTGCCAATATGCTGATTCAAGGCCAGC
1022203 TACATTGGACT
131 TACATTGGACT
** *
1022214 TAAAGATGAAGGTGCCAATAAACTGATTCAAGGCCAGCGATATTGGACTT--A-AAG--G-TGCC
1 T-AA-A-G-A--TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGAAGAAGATGCC
* * * *** *
1022273 AATGTGCTGATTCAAGGCCAGCTACATTGGACTT-AAAGAAGAAGATGCCAATATGCTGATTCAA
60 AATATGCTGATTCAAGGCCAGCTATATTGGACTTGGACTTA-AAGGTGCCAATATGCTGATTCAA
*
1022337 GGCCAG-TGATATTGGACT
124 GGCCAGCT-ACATTGGACT
* * * * * *
1022355 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAAAAGAAGATGCCAATATG
1 TAAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGAAGAAGATGCCAATATG
* *
1022420 CTGATTCAAGGCCAGC--GA-T--A-TTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGC
66 CTGATTCAAGGCCAGCTATATTGGACTTGGACTTAAAGGTGCCAATATGCTGATTCAAGGCCAGC
1022479 TACATTGGACT
131 TACATTGGACT
*
1022490 TAAAGAAGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGGCTTA
1 T-----A-AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTA
1022541 GAAGGGTTGC
Statistics
Matches: 389, Mismatches: 56, Indels: 52
0.78 0.11 0.10
Matches are distributed among these distances:
135 72 0.19
136 4 0.01
137 1 0.00
138 5 0.01
139 2 0.01
140 7 0.02
141 170 0.44
142 5 0.01
143 3 0.01
144 42 0.11
145 3 0.01
147 75 0.19
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.24
Consensus pattern (141 bp):
TAAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGAAGAAGATGCCAATATG
CTGATTCAAGGCCAGCTATATTGGACTTGGACTTAAAGGTGCCAATATGCTGATTCAAGGCCAGC
TACATTGGACT
Found at i:1022308 original size:92 final size:92
Alignment explanation
Indices: 1021985--1022545 Score: 818
Period size: 92 Copynumber: 6.0 Consensus size: 92
1021975 TGACAAAGAC
* * * **
1021985 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAGAGATGACA-AAGGCGCCAATATGCTG
1 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA-A-A-GA-AGAAGATGCCAATATGCTG
*
1022049 ATTCAAGGCCAGCGATATTGGACTTAAAGAT
62 ATTCAAGGCCAGCGATATTGGACTTAAAGGT
* * * *
1022080 GCCAATGTGTTGATTCAAGGCCAGCGACATTGGGCTTAAAGAAGAAGGTGCCAATATGCTGATTC
1 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGATGCCAATATGCTGATTC
* *
1022145 AAGGCTAGCTATATTGGACTTGGACTTAAAGGT
66 AAGGCCAGC--GA-T--A-TTGGACTTAAAGGT
* * * * **
1022178 GCCAATGTACTAATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATAAACTGATTC
1 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGATGCCAATATGCTGATTC
1022243 AAGGCCAGCGATATTGGACTTAAAGGT
66 AAGGCCAGCGATATTGGACTTAAAGGT
1022270 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGATGCCAATATGCTGATTC
1 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGATGCCAATATGCTGATTC
*
1022335 AAGGCCAGTGATATTGGACTTAAAGGT
66 AAGGCCAGCGATATTGGACTTAAAGGT
*
1022362 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAAAAGAAGATGCCAATATGCTGATTC
1 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGATGCCAATATGCTGATTC
1022427 AAGGCCAGCGATATTGGACTTAAAGGT
66 AAGGCCAGCGATATTGGACTTAAAGGT
1022454 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGATGCCAATATGCTGATTC
1 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGATGCCAATATGCTGATTC
* *
1022519 AAGGCCAGCAATATTGGGCTTAGAAGG
66 AAGGCCAGCGATATTGGACTTA-AAGG
1022546 GTTGCCACCG
Statistics
Matches: 428, Mismatches: 30, Indels: 18
0.90 0.06 0.04
Matches are distributed among these distances:
91 1 0.00
92 303 0.71
93 6 0.01
94 2 0.00
95 36 0.08
96 1 0.00
97 1 0.00
98 78 0.18
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.24
Consensus pattern (92 bp):
GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGATGCCAATATGCTGATTC
AAGGCCAGCGATATTGGACTTAAAGGT
Found at i:1022728 original size:32 final size:33
Alignment explanation
Indices: 1022542--1022739 Score: 264
Period size: 32 Copynumber: 6.2 Consensus size: 33
1022532 TTGGGCTTAG
1022542 AAGGGTTGCCACCGACTTGTGTGGGCTTTAGAA
1 AAGGGTTGCCACCGACTTGTGTGGGCTTTAGAA
* * *
1022575 AATGGTTGCCATCAACTTGTGTGGGCTTTAG-A
1 AAGGGTTGCCACCGACTTGTGTGGGCTTTAGAA
* *
1022607 GAGGGTTGCCACCGACTTGTGTGGGCTTT-CAA
1 AAGGGTTGCCACCGACTTGTGTGGGCTTTAGAA
* *
1022639 AAGGGCTGCCACCGACTTGTGTGGGCTTT-GAG
1 AAGGGTTGCCACCGACTTGTGTGGGCTTTAGAA
*
1022671 AAGGGTTGCCACCGACTTGTTTGGGCTTTGAGAA
1 AAGGGTTGCCACCGACTTGTGTGGGCTTT-AGAA
*
1022705 AAAGGTTGCCACCGAC-T-TGTGGGCTTT-GAA
1 AAGGGTTGCCACCGACTTGTGTGGGCTTTAGAA
1022735 AAGGG
1 AAGGG
1022740 AAAGATGCCA
Statistics
Matches: 144, Mismatches: 18, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
30 7 0.05
32 91 0.63
33 29 0.20
34 17 0.12
ACGTcount: A:0.20, C:0.19, G:0.33, T:0.28
Consensus pattern (33 bp):
AAGGGTTGCCACCGACTTGTGTGGGCTTTAGAA
Found at i:1022810 original size:61 final size:60
Alignment explanation
Indices: 1022740--1022938 Score: 220
Period size: 61 Copynumber: 3.2 Consensus size: 60
1022730 TTGAAAAGGG
* * *
1022740 AAAGA-TGCCACGAAGCTGTGGACGTAAAAGGGTGCCACAGAGTTGCGGACTTAGAAGGAG
1 AAAGAGTGCCACGAAG-TGTGGACATAAAAGGGTGCCACAGAGTTGTGGACTTAGAAGGAA
* * *
1022800 AAAGAGTGCCACGAAGTTGTGGGCTTAAAAATAAAAAGGTGCCACGGAGTTGTGGACTTAGAAGG
1 AAAGAGTGCCACGAAG-TGT-GG-----ACATAAAAGGGTGCCACAGAGTTGTGGACTTAGAAGG
1022865 AA
59 AA
* * * *
1022867 AAAGAGTGCCACGGAGTCGTGGGCTTAAACGGGTGCCACAGAGTTGTGGACTTAGAAGGAA
1 AAAGAGTGCCACGAAGT-GTGGACATAAAAGGGTGCCACAGAGTTGTGGACTTAGAAGGAA
1022928 AAAGAGTGCCA
1 AAAGAGTGCCA
1022939 TGAGTTGTGG
Statistics
Matches: 117, Mismatches: 14, Indels: 15
0.80 0.10 0.10
Matches are distributed among these distances:
60 5 0.04
61 57 0.49
62 2 0.02
66 3 0.03
67 50 0.43
ACGTcount: A:0.34, C:0.15, G:0.34, T:0.17
Consensus pattern (60 bp):
AAAGAGTGCCACGAAGTGTGGACATAAAAGGGTGCCACAGAGTTGTGGACTTAGAAGGAA
Found at i:1022818 original size:34 final size:34
Alignment explanation
Indices: 1022765--1022948 Score: 156
Period size: 34 Copynumber: 5.7 Consensus size: 34
1022755 CTGTGGACGT
* *
1022765 AAAAGGGTGCCAC-AGAGTTGCGGACTTAGAAGGA
1 AAAAGAGTGCCACGA-AGTTGTGGACTTAGAAGGA
* * * **
1022799 GAAAGAGTGCCACGAAGTTGTGGGCTTAAAAATA
1 AAAAGAGTGCCACGAAGTTGTGGACTTAGAAGGA
*
1022833 AAAAG-GTGCCACGGAGTTGTGGACTTAGAAGGA
1 AAAAGAGTGCCACGAAGTTGTGGACTTAGAAGGA
* * * *
1022866 AAAAGAGTGCCACGGAGTCGTGGGCTTA-AACG-
1 AAAAGAGTGCCACGAAGTTGTGGACTTAGAAGGA
1022898 ----G-GTGCCAC-AGAGTTGTGGACTTAGAAGGA
1 AAAAGAGTGCCACGA-AGTTGTGGACTTAGAAGGA
*
1022927 AAAAGAGTGCCATG-AGTTGTGG
1 AAAAGAGTGCCACGAAGTTGTGG
1022949 GCTTTGAAAA
Statistics
Matches: 118, Mismatches: 21, Indels: 23
0.73 0.13 0.14
Matches are distributed among these distances:
27 18 0.15
28 4 0.03
33 40 0.34
34 55 0.47
35 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.35, T:0.18
Consensus pattern (34 bp):
AAAAGAGTGCCACGAAGTTGTGGACTTAGAAGGA
Found at i:1022841 original size:67 final size:61
Alignment explanation
Indices: 1022764--1022967 Score: 248
Period size: 67 Copynumber: 3.2 Consensus size: 61
1022754 GCTGTGGACG
* *
1022764 TAAAAGGGTGCCACAGAGTTGCGGACTTAGAAGGAGAAAGAGTGCCACGAAGTTGTGGGCTT
1 TAAAAGGGTGCCACAGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACG-AGTTGTGGGCTT
* * *
1022826 AAAAATAAAAAGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTCGTGGGC
1 -----TAAAAGGGTGCCACAGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCAC-GAGTTGTGGGC
1022891 -T
60 TT
* *
1022892 TAAACGGGTGCCACAGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCATGAGTTGTGGGCTT
1 TAAAAGGGTGCCACAGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGAGTTGTGGGCTT
* *
1022953 TGAAAAAGATGCCAC
1 T-AAAAGGGTGCCAC
1022968 TAACTTGTGG
Statistics
Matches: 121, Mismatches: 13, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
60 10 0.08
61 46 0.38
62 10 0.08
66 1 0.01
67 53 0.44
68 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.33, T:0.19
Consensus pattern (61 bp):
TAAAAGGGTGCCACAGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGAGTTGTGGGCTT
Found at i:1022843 original size:128 final size:128
Alignment explanation
Indices: 1022703--1022952 Score: 328
Period size: 128 Copynumber: 2.0 Consensus size: 128
1022693 GGGCTTTGAG
* *
1022703 AAAAAGGTTGCCACCGACTTGTGGGCTTTGAAAAGG-GAAAGA-TGCCACGAAG-CTGTGGACGT
1 AAAAAGGTTGCCACCGACTTGTGGAC-TT-AAAAGGAAAAAGAGTGCCACGAAGTC-GTGGACGT
*
1022765 AAAAGGGTGCCACAGAGTTGCGGACTTAGAAGGAGAAAGAGTGCCACGAAGTTGTGGGCTTAAAA
63 AAAAGGGTGCCACAGAGTTGCGGACTTAGAAGGAAAAAGAGTGCCACG-AGTTGTGGGCTTAAAA
1022830 AT
127 AT
* * * * * *
1022832 AAAAAGG-TGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTCGTGGGCTTAAA
1 AAAAAGGTTGCCACCGACTTGTGGACTTAAAAGGAAAAAGAGTGCCACGAAGTCGTGGACGTAAA
* * *
1022896 CGGGTGCCACAGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCATGAGTTGTGGGCTT
66 AGGGTGCCACAGAGTTGCGGACTTAGAAGGAAAAAGAGTGCCACGAGTTGTGGGCTT
1022953 TGAAAAAGAT
Statistics
Matches: 106, Mismatches: 12, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
126 5 0.05
127 19 0.18
128 74 0.70
129 8 0.08
ACGTcount: A:0.32, C:0.15, G:0.34, T:0.19
Consensus pattern (128 bp):
AAAAAGGTTGCCACCGACTTGTGGACTTAAAAGGAAAAAGAGTGCCACGAAGTCGTGGACGTAAA
AGGGTGCCACAGAGTTGCGGACTTAGAAGGAAAAAGAGTGCCACGAGTTGTGGGCTTAAAAAT
Found at i:1022966 original size:28 final size:30
Alignment explanation
Indices: 1022925--1022982 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
1022915 GACTTAGAAG
* *
1022925 GAAAAAGAGTGCCA-TGAGTTGTGGGCTTT
1 GAAAAAGAGTGCCACTAACTTGTGGGCTTT
1022954 GAAAAAGA-TGCCACTAACTTGTGGGCTTT
1 GAAAAAGAGTGCCACTAACTTGTGGGCTTT
1022983 TGAAGGGTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 5 0.19
29 21 0.81
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.28
Consensus pattern (30 bp):
GAAAAAGAGTGCCACTAACTTGTGGGCTTT
Found at i:1035385 original size:52 final size:52
Alignment explanation
Indices: 1035244--1035395 Score: 234
Period size: 52 Copynumber: 2.9 Consensus size: 52
1035234 CGAAATATGA
* *
1035244 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATTTAGGC
*
1035296 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATTTAGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATTTAGGC
***
1035348 AAATTTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACATTT
1 AAATTTGCCTGCATGTATCGATACATTTTAT-AGTGTATCGATACATTT
1035396 TTTGGCAGTA
Statistics
Matches: 92, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
51 2 0.02
52 90 0.98
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATTTAGGC
Found at i:1036451 original size:49 final size:49
Alignment explanation
Indices: 1036232--1036840 Score: 568
Period size: 49 Copynumber: 12.8 Consensus size: 49
1036222 GTGATAAAGA
* * * * * *
1036232 TGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGACAAAGA
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGA--A-GAAGG
* *
1036284 CGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGA--A-GAAGG
* ** *
1036336 CGCCAATATGCTTCTTCAAGGCCAGTGATATTGGACTT--A-AAG-A--
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAAGAAGG
* * * *
1036379 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGGCTTAAAGAAGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAAGAAGG
* * ***
1036428 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTGGACTTA-AAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AAAGAAGAAGG
* * * *
1036477 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAAGAAGG
*
1036526 TGCCAATACGCTGATTCAAGGCCAGCGATATTGGACTT----AAG--GG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAAGAAGG
* * * * *
1036569 TGCCAATGTGTTG-TTACAAGGCCAGCTACATTGGACTTAAAGAAGAAGA
1 TGCCAATATGCTGATT-CAAGGCCAGCGATATTGGACTTAAAGAAGAAGG
* * *
1036618 TGCCAATACGCTGTTTCAAGGCCAACGATATTGGACTT-----A-AAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAAGAAGG
* * * *
1036661 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGA
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAAGAAGG
1036710 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-----A-AAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAAGAAGG
* * * *
1036753 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGA
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAAGAAGG
* *
1036802 TGCCAATATGCTGATTCAAGGCCAGCAATATTGGGCTTA
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
1036841 GAAGGGTTGC
Statistics
Matches: 458, Mismatches: 71, Indels: 59
0.78 0.12 0.10
Matches are distributed among these distances:
42 2 0.00
43 135 0.29
44 2 0.00
45 4 0.01
46 3 0.01
47 5 0.01
48 3 0.01
49 218 0.48
50 5 0.01
52 81 0.18
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.25
Consensus pattern (49 bp):
TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAAGAAGG
Found at i:1036611 original size:92 final size:92
Alignment explanation
Indices: 1036285--1036845 Score: 791
Period size: 92 Copynumber: 6.0 Consensus size: 92
1036275 TGACAAAGAC
* * * * ** **
1036285 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGGCGCCAATATGCTTC
1 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA--A-GAAGATGCCAATATGCTGA
* *
1036350 TTCAAGGCCAGTGATATTGGACTTAAAGAT
63 TTCAAGGCCAGCGATATTGGACTTAAAGGT
* * * *
1036380 GCCAATGTGCTGATTCAAGGCCAACGACATTGGGCTTAAAGAAGAAGGTGCCAATATGCTGATTC
1 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGATGCCAATATGCTGATTC
*
1036445 AAGGCCAGCTATATTGGACTTGGACTTAAAGGT
66 AAGGCCAGC--GA-T--A-TTGGACTTAAAGGT
* * *
1036478 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATACGCTGATTC
1 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGATGCCAATATGCTGATTC
*
1036543 AAGGCCAGCGATATTGGACTTAAGGGT
66 AAGGCCAGCGATATTGGACTTAAAGGT
* * *
1036570 GCCAATGTGTTG-TTACAAGGCCAGCTACATTGGACTTAAAGAAGAAGATGCCAATACGCTGTTT
1 GCCAATGTGCTGATT-CAAGGCCAGCTACATTGGACTTAAAGAAGAAGATGCCAATATGCTGATT
*
1036634 CAAGGCCAACGATATTGGACTTAAAGGT
65 CAAGGCCAGCGATATTGGACTTAAAGGT
1036662 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGATGCCAATATGCTGATTC
1 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGATGCCAATATGCTGATTC
1036727 AAGGCCAGCGATATTGGACTTAAAGGT
66 AAGGCCAGCGATATTGGACTTAAAGGT
1036754 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGATGCCAATATGCTGATTC
1 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGATGCCAATATGCTGATTC
* *
1036819 AAGGCCAGCAATATTGGGCTTAGAAGG
66 AAGGCCAGCGATATTGGACTTA-AAGG
1036846 GTTGCCACCG
Statistics
Matches: 427, Mismatches: 30, Indels: 20
0.90 0.06 0.04
Matches are distributed among these distances:
91 2 0.00
92 292 0.68
93 8 0.02
94 1 0.00
95 40 0.09
96 1 0.00
97 1 0.00
98 82 0.19
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (92 bp):
GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGATGCCAATATGCTGATTC
AAGGCCAGCGATATTGGACTTAAAGGT
Found at i:1036925 original size:32 final size:32
Alignment explanation
Indices: 1036833--1037030 Score: 246
Period size: 32 Copynumber: 6.2 Consensus size: 32
1036823 CCAGCAATAT
1036833 TGGGC-TTAGA-AGGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTG
* * * *
1036863 TGGGCTTTAGAAAATGGTTGCCATCAACTTGTG
1 TGGGCTTTAG-AGAGGGTTGCCACCGACTTGTG
1036896 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTG
1036928 TGGGCTTT-GAGAAGGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAG-AGGGTTGCCACCGACTTGTG
*
1036960 TGGGCTTT-GAGAAGGGTTGCCGCCGACTTGTG
1 TGGGCTTTAGAG-AGGGTTGCCACCGACTTGTG
* * *
1036992 TGGGCTTTGAGAAAAGGTTGCCACCGA-TT-TA
1 TGGGCTTT-AGAGAGGGTTGCCACCGACTTGTG
1037023 TGGGCTTT
1 TGGGCTTT
1037031 GAAAAGGAGA
Statistics
Matches: 150, Mismatches: 12, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
30 5 0.03
31 16 0.11
32 88 0.59
33 39 0.26
34 2 0.01
ACGTcount: A:0.18, C:0.18, G:0.35, T:0.30
Consensus pattern (32 bp):
TGGGCTTTAGAGAGGGTTGCCACCGACTTGTG
Found at i:1036960 original size:64 final size:64
Alignment explanation
Indices: 1036833--1037030 Score: 273
Period size: 64 Copynumber: 3.1 Consensus size: 64
1036823 CCAGCAATAT
* *
1036833 TGGGC-TTAGA-AGGGTTGCCACCGACTTGTGTGGGCTTT-AGAAAATGGTTGCCATCAACTTGT
1 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTGTGGGCTTTGAG-AAA-GGTTGCCACCGACTTGT
1036895 G
64 G
*
1036896 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTGTGGGCTTTGAGAAGGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTGTGGGCTTTGAGAAAGGTTGCCACCGACTTGTG
*
1036960 TGGGCTTT-GAGAAGGGTTGCCGCCGACTTGTGTGGGCTTTGAGAAAAGGTTGCCACCGA-TT-T
1 TGGGCTTTAGAG-AGGGTTGCCACCGACTTGTGTGGGCTTTGAG-AAAGGTTGCCACCGACTTGT
*
1037022 A
64 G
1037023 TGGGCTTT
1 TGGGCTTT
1037031 GAAAAGGAGA
Statistics
Matches: 124, Mismatches: 6, Indels: 10
0.89 0.04 0.07
Matches are distributed among these distances:
63 17 0.14
64 61 0.49
65 44 0.35
66 2 0.02
ACGTcount: A:0.18, C:0.18, G:0.35, T:0.30
Consensus pattern (64 bp):
TGGGCTTTAGAGAGGGTTGCCACCGACTTGTGTGGGCTTTGAGAAAGGTTGCCACCGACTTGTG
Found at i:1037011 original size:97 final size:95
Alignment explanation
Indices: 1036833--1037037 Score: 281
Period size: 97 Copynumber: 2.2 Consensus size: 95
1036823 CCAGCAATAT
* *
1036833 TGGGC-TT-AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAAATGGTTGCCATCAACTTGTG
1 TGGGCTTTGAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAAAGGGTTGCCACCAACTTGTG
* * *
1036896 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTG
66 TGGGCTTTAGAAAAGGTTGCCACCGA-TT-TA
* * *
1036928 TGGGCTTTGAGAAGGGTTGCCACCGACTTGTGTGGGCTTT-GAGAAGGGTTGCCGCCGACTTGTG
1 TGGGCTTTGAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAAAGGGTTGCCACCAACTTGTG
1036992 TGGGCTTTGAGAAAAGGTTGCCACCGATTTA
66 TGGGCTTT-AGAAAAGGTTGCCACCGATTTA
*
1037023 TGGGCTTTGAAAAGG
1 TGGGCTTTGAGAAGG
1037038 AGAAAGATGC
Statistics
Matches: 98, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
95 20 0.20
96 31 0.32
97 47 0.48
ACGTcount: A:0.19, C:0.17, G:0.35, T:0.29
Consensus pattern (95 bp):
TGGGCTTTGAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAAAGGGTTGCCACCAACTTGTG
TGGGCTTTAGAAAAGGTTGCCACCGATTTA
Found at i:1037104 original size:22 final size:22
Alignment explanation
Indices: 1037074--1037117 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
1037064 TAAAAGGGTG
1037074 CCACAGAGTTATGGACTTAAAA
1 CCACAGAGTTATGGACTTAAAA
* * *
1037096 CCACGGAGTTGTGGGCTTAAAA
1 CCACAGAGTTATGGACTTAAAA
1037118 AGAAAAAGGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (22 bp):
CCACAGAGTTATGGACTTAAAA
Found at i:1037171 original size:34 final size:33
Alignment explanation
Indices: 1037096--1037298 Score: 178
Period size: 34 Copynumber: 6.4 Consensus size: 33
1037086 GGACTTAAAA
* * *
1037096 CCACGGAGTTGTGGGCTTAAAAAGAAAAAGGTG
1 CCACGGAGTTGTGGACTTAGAAGGAAAAAGGTG
*
1037129 CCATGGAGTTGTGGACTTAGAAGGAAAAAGAGTG
1 CCACGGAGTTGTGGACTTAGAAGGAAAAAG-GTG
* * *
1037163 CCACGGAGTCGTGGGCTTA-AACG-----GGTG
1 CCACGGAGTTGTGGACTTAGAAGGAAAAAGGTG
**
1037190 CCACAAAGTTGTGGACTTAGAAGGAAAAAGAGTG
1 CCACGGAGTTGTGGACTTAGAAGGAAAAAG-GTG
* * *
1037224 CCACGGAGTCGTGGGCTTA-AACG-----GGTG
1 CCACGGAGTTGTGGACTTAGAAGGAAAAAGGTG
*
1037251 CCACAGAGTTGTGGACTTAGAAGGAAAAAGAGTG
1 CCACGGAGTTGTGGACTTAGAAGGAAAAAG-GTG
1037285 CCACGGAGTTGTGG
1 CCACGGAGTTGTGG
1037299 GCTTTGAAAA
Statistics
Matches: 132, Mismatches: 23, Indels: 29
0.72 0.12 0.16
Matches are distributed among these distances:
27 37 0.28
28 8 0.06
33 34 0.26
34 53 0.40
ACGTcount: A:0.31, C:0.15, G:0.35, T:0.19
Consensus pattern (33 bp):
CCACGGAGTTGTGGACTTAGAAGGAAAAAGGTG
Found at i:1037203 original size:27 final size:27
Alignment explanation
Indices: 1037160--1037269 Score: 85
Period size: 27 Copynumber: 3.8 Consensus size: 27
1037150 AGGAAAAAGA
* * *
1037160 GTGCCACGGAGTCGTGGGCTTAAACGG
1 GTGCCACAGAGTTGTGGACTTAAACGG
* *
1037187 GTGCCACAAAGTTGTGGACTTAGAAGGAAAAAG
1 GTGCCACAGAGTTGTGGACTTA-AACG-----G
* * *
1037220 AGTGCCACGGAGTCGTGGGCTTAAACGG
1 -GTGCCACAGAGTTGTGGACTTAAACGG
1037248 GTGCCACAGAGTTGTGGACTTA
1 GTGCCACAGAGTTGTGGACTTA
1037270 GAAGGAAAAA
Statistics
Matches: 63, Mismatches: 13, Indels: 14
0.70 0.14 0.16
Matches are distributed among these distances:
27 37 0.59
28 4 0.06
33 4 0.06
34 18 0.29
ACGTcount: A:0.26, C:0.18, G:0.35, T:0.20
Consensus pattern (27 bp):
GTGCCACAGAGTTGTGGACTTAAACGG
Found at i:1037220 original size:61 final size:61
Alignment explanation
Indices: 1037135--1037302 Score: 318
Period size: 61 Copynumber: 2.8 Consensus size: 61
1037125 GGTGCCATGG
1037135 AGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTCGTGGGCTTAAACGGGTGCCACAA
1 AGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTCGTGGGCTTAAACGGGTGCCACAA
*
1037196 AGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTCGTGGGCTTAAACGGGTGCCACAG
1 AGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTCGTGGGCTTAAACGGGTGCCACAA
*
1037257 AGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
1 AGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTCGTGGGCTT
1037303 TGAAAAAGAT
Statistics
Matches: 105, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 105 1.00
ACGTcount: A:0.30, C:0.15, G:0.36, T:0.20
Consensus pattern (61 bp):
AGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTCGTGGGCTTAAACGGGTGCCACAA
Found at i:1037317 original size:29 final size:30
Alignment explanation
Indices: 1037152--1037332 Score: 97
Period size: 34 Copynumber: 6.0 Consensus size: 30
1037142 GACTTAGAAG
*
1037152 GAAAAAGAGTGCCACGGAGTCGTGGGC-TT
1 GAAAAAGAGTGCCACGGAGTTGTGGGCTTT
* * ** * *
1037181 --AAACGGGTGCCACAAAGTTGTGGACTTAGAAG
1 GAAAAAGAGTGCCACGGAGTTGTGGGCTT----T
*
1037213 GAAAAAGAGTGCCACGGAGTCGTGGGC-TT
1 GAAAAAGAGTGCCACGGAGTTGTGGGCTTT
* * * * *
1037242 --AAACGGGTGCCACAGAGTTGTGGACTTAGAAG
1 GAAAAAGAGTGCCACGGAGTTGTGGGCTT----T
1037274 GAAAAAGAGTGCCACGGAGTTGTGGGCTTT
1 GAAAAAGAGTGCCACGGAGTTGTGGGCTTT
** *
1037304 GAAAAAGA-TGCCACTCACTTGTGGGCTTT
1 GAAAAAGAGTGCCACGGAGTTGTGGGCTTT
1037333 TGAAGGGTAA
Statistics
Matches: 110, Mismatches: 28, Indels: 28
0.66 0.17 0.17
Matches are distributed among these distances:
27 39 0.35
28 2 0.02
29 18 0.16
30 8 0.07
33 1 0.01
34 42 0.38
ACGTcount: A:0.29, C:0.17, G:0.34, T:0.20
Consensus pattern (30 bp):
GAAAAAGAGTGCCACGGAGTTGTGGGCTTT
Found at i:1037336 original size:30 final size:30
Alignment explanation
Indices: 1037274--1037332 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
1037264 GACTTAGAAG
* *
1037274 GAAAAAGAGTGCCACGGAGTTGTGGGCTTT
1 GAAAAAGAGTGCCACGCACTTGTGGGCTTT
*
1037304 GAAAAAGA-TGCCACTCACTTGTGGGCTTT
1 GAAAAAGAGTGCCACGCACTTGTGGGCTTT
1037333 TGAAGGGTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 18 0.69
30 8 0.31
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (30 bp):
GAAAAAGAGTGCCACGCACTTGTGGGCTTT
Found at i:1052085 original size:13 final size:13
Alignment explanation
Indices: 1052067--1052092 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1052057 TAGCTTAAAT
1052067 TGTATCGATACAA
1 TGTATCGATACAA
1052080 TGTATCGATACAA
1 TGTATCGATACAA
1052093 CACTTTATGT
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):
TGTATCGATACAA
Found at i:1054617 original size:21 final size:21
Alignment explanation
Indices: 1054591--1054633 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
1054581 ATACAAGTAG
*
1054591 AAATGTATCGATACATTATGT
1 AAATGTATCGATACATAATGT
1054612 AAATGTATCGATACATAATGT
1 AAATGTATCGATACATAATGT
1054633 A
1 A
1054634 TTGTATTGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.42, C:0.09, G:0.14, T:0.35
Consensus pattern (21 bp):
AAATGTATCGATACATAATGT
Found at i:1054698 original size:112 final size:112
Alignment explanation
Indices: 1054501--1054776 Score: 383
Period size: 112 Copynumber: 2.5 Consensus size: 112
1054491 AAAAATATTG
* * * * *
1054501 AATGTATTGATACAATACTGTA-CATATCGATACATATGATTGGCAATAGCTACAAAATGCTAAA
1 AATGTATCGATAC-ATAATGTATTATATCGATACATATGGTTGGCAGTAGCTACAAAATGCTAAA
* **
1054565 ACCCTTATTTCTATTGATACAAGTAGAAATGTATCGATACATTATGTA
65 ACCCTTATTCCTACCGATACAAGTAGAAATGTATCGATACATTATGTA
* * ** *
1054613 AATGTATCGATACATAATGTATTGTATTGATATTTATGGTTGGCAGTAGCTATAAAATGCTAAAA
1 AATGTATCGATACATAATGTATTATATCGATACATATGGTTGGCAGTAGCTACAAAATGCTAAAA
*
1054678 CCCTTATTCCTACCGATACAAGTGGAAATGTATCGATACATTATGTA
66 CCCTTATTCCTACCGATACAAGTAGAAATGTATCGATACATTATGTA
* * *
1054725 AATGTATTGATACATAATGTATTATATCGATACATCTTGTTGGCAGTAGCTA
1 AATGTATCGATACATAATGTATTATATCGATACATATGGTTGGCAGTAGCTA
1054777 AGGTAATTAT
Statistics
Matches: 142, Mismatches: 21, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
111 7 0.05
112 135 0.95
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.35
Consensus pattern (112 bp):
AATGTATCGATACATAATGTATTATATCGATACATATGGTTGGCAGTAGCTACAAAATGCTAAAA
CCCTTATTCCTACCGATACAAGTAGAAATGTATCGATACATTATGTA
Found at i:1054729 original size:21 final size:21
Alignment explanation
Indices: 1054703--1054759 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
1054693 ATACAAGTGG
*
1054703 AAATGTATCGATACATTATGT
1 AAATGTATCGATACATAATGT
*
1054724 AAATGTATTGATACATAATGT
1 AAATGTATCGATACATAATGT
* *
1054745 -ATTATATCGATACAT
1 AAATGTATCGATACAT
1054760 CTTGTTGGCA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
20 12 0.39
21 19 0.61
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.39
Consensus pattern (21 bp):
AAATGTATCGATACATAATGT
Found at i:1054922 original size:20 final size:20
Alignment explanation
Indices: 1054897--1054934 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1054887 CTTTTTTTTA
*
1054897 AAGTAATGTATCGATACATT
1 AAGTAATATATCGATACATT
1054917 AAGTAATATATCGATACA
1 AAGTAATATATCGATACA
1054935 ATATCATTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.32
Consensus pattern (20 bp):
AAGTAATATATCGATACATT
Found at i:1059053 original size:19 final size:21
Alignment explanation
Indices: 1059011--1059063 Score: 74
Period size: 19 Copynumber: 2.6 Consensus size: 21
1059001 ATTACTTTTC
*
1059011 TATTTTTTTAAAATTTTAACT
1 TATTTTTTTAAAATTATAACT
1059032 TATTTTTTTAAAA-TATAA-T
1 TATTTTTTTAAAATTATAACT
*
1059051 TATTTTTCTAAAA
1 TATTTTTTTAAAA
1059064 ATTCATTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 13 0.43
20 4 0.13
21 13 0.43
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (21 bp):
TATTTTTTTAAAATTATAACT
Found at i:1059064 original size:20 final size:20
Alignment explanation
Indices: 1059014--1059065 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
1059004 ACTTTTCTAT
* *
1059014 TTTTTTAAAATTTTAACTTA
1 TTTTTTAAAAATATAACTTA
*
1059034 TTTTTTTAAAATATAA-TTA
1 TTTTTTAAAAATATAACTTA
1059053 TTTTTCTAAAAAT
1 TTTTT-TAAAAAT
1059066 TCATTTTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 8 0.30
20 19 0.70
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (20 bp):
TTTTTTAAAAATATAACTTA
Found at i:1059313 original size:102 final size:102
Alignment explanation
Indices: 1059183--1059430 Score: 345
Period size: 102 Copynumber: 2.4 Consensus size: 102
1059173 GGTACACGGT
* * * *
1059183 TAAAATTTGAAAATAAAAAAATAATAATAGATTTTAAATATTAAAATTCAAATTTAAATCTATTA
1 TAAAATTTAAAAAT-AAAAAATAATAATAAATTTTAAATATTAAAATTCAAATTCAAATCTACTA
* * * * *
1059248 AATTTTATCTCTTAAGATATATGCATGAATGAACAAGC
65 AATTTCATCTCCTAAAATATATGCACGAATGAACAAAC
*
1059286 TAAAATTTAAAAATAAAAAATAATAATAAATTTTAAATATTAAAATTTAAATTCAAATCTACTAA
1 TAAAATTTAAAAATAAAAAATAATAATAAATTTTAAATATTAAAATTCAAATTCAAATCTACTAA
* * *
1059351 ATTTCATCTCCTAAAATATATGTACGAGTGAACAAAT
66 ATTTCATCTCCTAAAATATATGCACGAATGAACAAAC
* *
1059388 TAAAAATTAAAAATAAAAAATAATAATAAATTTTAGAT-TTAAA
1 TAAAATTTAAAAATAAAAAATAATAATAAATTTTAAATATTAAA
1059431 TCCACTAAAC
Statistics
Matches: 130, Mismatches: 15, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
101 5 0.04
102 112 0.86
103 13 0.10
ACGTcount: A:0.54, C:0.06, G:0.05, T:0.35
Consensus pattern (102 bp):
TAAAATTTAAAAATAAAAAATAATAATAAATTTTAAATATTAAAATTCAAATTCAAATCTACTAA
ATTTCATCTCCTAAAATATATGCACGAATGAACAAAC
Found at i:1059329 original size:14 final size:14
Alignment explanation
Indices: 1059286--1059337 Score: 54
Period size: 14 Copynumber: 3.9 Consensus size: 14
1059276 ATGAACAAGC
1059286 TAAAATTTAAA-AA
1 TAAAATTTAAATAA
**
1059299 TAAAAAAT-AATAA
1 TAAAATTTAAATAA
* *
1059312 TAAATTTTAAATAT
1 TAAAATTTAAATAA
1059326 TAAAATTTAAAT
1 TAAAATTTAAAT
1059338 TCAAATCTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
12 2 0.07
13 13 0.43
14 15 0.50
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
TAAAATTTAAATAA
Found at i:1061059 original size:24 final size:24
Alignment explanation
Indices: 1061032--1061080 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
1061022 CTATTTATAA
1061032 AAATAATAATA-ATAATATTTTATT
1 AAAT-ATAATAGATAATATTTTATT
* *
1061056 AAATGTAATAGTTAATATTTTATT
1 AAATATAATAGATAATATTTTATT
1061080 A
1 A
1061081 TTATTGCTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 5 0.23
24 17 0.77
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (24 bp):
AAATATAATAGATAATATTTTATT
Found at i:1061969 original size:3 final size:3
Alignment explanation
Indices: 1061961--1061986 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
1061951 AATTTCAATC
1061961 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
1061987 TATGTGTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:1063148 original size:2 final size:2
Alignment explanation
Indices: 1063141--1063187 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
1063131 CCTCACCATC
1063141 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1063183 TA TA T
1 TA TA T
1063188 TCCTAATCCT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1070897 original size:16 final size:16
Alignment explanation
Indices: 1070878--1070930 Score: 61
Period size: 16 Copynumber: 3.3 Consensus size: 16
1070868 TATTGCTATT
*
1070878 TAGCAATATCATTACC
1 TAGCAACATCATTACC
* *
1070894 TAGCGACATCAATACC
1 TAGCAACATCATTACC
**
1070910 TAGCAACATTGTTACC
1 TAGCAACATCATTACC
1070926 TAGCA
1 TAGCA
1070931 GTAACTTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.36, C:0.26, G:0.11, T:0.26
Consensus pattern (16 bp):
TAGCAACATCATTACC
Found at i:1071034 original size:22 final size:22
Alignment explanation
Indices: 1071009--1071054 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
1070999 TGCTACCTAG
* *
1071009 TGGCAGCCCTACTTTGTGGTAA
1 TGGCAACCCTACTTTGCGGTAA
* *
1071031 TGGCAACCTTATTTTGCGGTAA
1 TGGCAACCCTACTTTGCGGTAA
1071053 TG
1 TG
1071055 CTGCCTAACA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.35
Consensus pattern (22 bp):
TGGCAACCCTACTTTGCGGTAA
Found at i:1073301 original size:33 final size:33
Alignment explanation
Indices: 1073258--1073322 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
1073248 TTACAAGCAA
*
1073258 TGTATCGATACAAT-TCATCATGTATCGATACAT
1 TGTATCGATACAATGT-ACCATGTATCGATACAT
*
1073291 TGTATTGATACAATGTACCATGTATCGATACA
1 TGTATCGATACAATGTACCATGTATCGATACA
1073323 AACAGTGGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (33 bp):
TGTATCGATACAATGTACCATGTATCGATACAT
Found at i:1073396 original size:19 final size:19
Alignment explanation
Indices: 1073351--1073412 Score: 90
Period size: 19 Copynumber: 3.2 Consensus size: 19
1073341 ACTGTCAGTT
1073351 TCATGTATCGATACAATTG-
1 TCATGTATCGATACAA-TGA
1073370 TCCATGTATCGATACAATGA
1 T-CATGTATCGATACAATGA
1073390 TCATGTATCGATACAATGTA
1 TCATGTATCGATACAATG-A
1073410 TCA
1 TCA
1073413 ATACAAAGCA
Statistics
Matches: 40, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
19 20 0.50
20 20 0.50
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.34
Consensus pattern (19 bp):
TCATGTATCGATACAATGA
Found at i:1078757 original size:18 final size:18
Alignment explanation
Indices: 1078734--1078778 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
1078724 ATACTGTAGG
1078734 ATCATTTTAGAAAATTTC
1 ATCATTTTAGAAAATTTC
1078752 ATCATTTTAGAAAATTTC
1 ATCATTTTAGAAAATTTC
*
1078770 ATCGTTTTA
1 ATCATTTTA
1078779 AGGCCATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.36, C:0.11, G:0.07, T:0.47
Consensus pattern (18 bp):
ATCATTTTAGAAAATTTC
Found at i:1078766 original size:76 final size:75
Alignment explanation
Indices: 1078677--1078844 Score: 203
Period size: 76 Copynumber: 2.2 Consensus size: 75
1078667 ACTATTAGGG
* * ** * *
1078677 TCATTGTAGAAAATTTTATCATTTTAAGGTTATTTAGGTTATTTTACATACTGT-AGGATCATTT
1 TCATTTTAGAAAATTTCATCATTTTAAGGCCATTTAGGTTATTTTACATAATGTAAGG-TCA-TC
1078741 TAGAAAATTTCA
64 TAGAAAATTTCA
* * * *
1078753 TCATTTTAGAAAATTTCATCGTTTTAAGGCCATTTATGTTATTTTCCATAATTTAAGGTCATCTA
1 TCATTTTAGAAAATTTCATCATTTTAAGGCCATTTAGGTTATTTTACATAATGTAAGGTCATCTA
1078818 GAAAATTTCA
66 GAAAATTTCA
*
1078828 TTATTTTAGAAACATTT
1 TCATTTTAGAAA-ATTT
1078845 AGGTTATTTT
Statistics
Matches: 79, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
75 24 0.30
76 52 0.66
77 3 0.04
ACGTcount: A:0.33, C:0.10, G:0.11, T:0.46
Consensus pattern (75 bp):
TCATTTTAGAAAATTTCATCATTTTAAGGCCATTTAGGTTATTTTACATAATGTAAGGTCATCTA
GAAAATTTCA
Found at i:1078839 original size:18 final size:19
Alignment explanation
Indices: 1078816--1078894 Score: 65
Period size: 20 Copynumber: 4.2 Consensus size: 19
1078806 TAAGGTCATC
1078816 TAGAAAATTTCA-TTATTT
1 TAGAAAATTTCAGTTATTT
1078834 TAGAAACATTT-AGGTTATTT
1 TAGAAA-ATTTCA-GTTATTT
* * ** *
1078854 TACATAATATAAAGTCATTT
1 TAGAAAAT-TTCAGTTATTT
1078874 TAGAAAATTTCA-TTATTT
1 TAGAAAATTTCAGTTATTT
1078892 TAG
1 TAG
1078895 GGCCATTTAA
Statistics
Matches: 47, Mismatches: 9, Indels: 10
0.71 0.14 0.15
Matches are distributed among these distances:
18 15 0.32
19 8 0.17
20 23 0.49
21 1 0.02
ACGTcount: A:0.39, C:0.06, G:0.09, T:0.46
Consensus pattern (19 bp):
TAGAAAATTTCAGTTATTT
Found at i:1078902 original size:58 final size:58
Alignment explanation
Indices: 1078753--1078909 Score: 199
Period size: 57 Copynumber: 2.7 Consensus size: 58
1078743 GAAAATTTCA
** * * * * *
1078753 TCATTTTAGAAAATTTCATCGTTTTAAGGCCATTTATGTTATTTTCCATAATTTAAGG
1 TCATTTTAGAAAATTTCATTATTTTAGGGCCATTTAAGTTATTTTACATAATATAAAG
* *** *
1078811 TCA-TCTAGAAAATTTCATTATTTTAGAAACATTTAGGTTATTTTACATAATATAAAG
1 TCATTTTAGAAAATTTCATTATTTTAGGGCCATTTAAGTTATTTTACATAATATAAAG
1078868 TCATTTTAGAAAATTTCATTATTTTAGGGCCATTTAAGTTAT
1 TCATTTTAGAAAATTTCATTATTTTAGGGCCATTTAAGTTAT
1078910 ATAATTTATG
Statistics
Matches: 82, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
57 46 0.56
58 36 0.44
ACGTcount: A:0.34, C:0.10, G:0.11, T:0.45
Consensus pattern (58 bp):
TCATTTTAGAAAATTTCATTATTTTAGGGCCATTTAAGTTATTTTACATAATATAAAG
Found at i:1078956 original size:29 final size:29
Alignment explanation
Indices: 1078923--1079014 Score: 80
Period size: 29 Copynumber: 3.2 Consensus size: 29
1078913 ATTTATGGAC
1078923 CATTTAGCAATTTTCATGCATTTTAAAGT
1 CATTTAGCAATTTTCATGCATTTTAAAGT
** * ** * * * *
1078952 CATTTAG-TTTTTTTATTTAATGT-AGGAC
1 CATTTAGCAATTTTCATGCATTTTAAAG-T
1078980 CATTTAGCAATTTTCATGCATTTTAAAGT
1 CATTTAGCAATTTTCATGCATTTTAAAGT
1079009 CATTTA
1 CATTTA
1079015 ATTTTTTTTT
Statistics
Matches: 42, Mismatches: 18, Indels: 6
0.64 0.27 0.09
Matches are distributed among these distances:
27 2 0.05
28 16 0.38
29 22 0.52
30 2 0.05
ACGTcount: A:0.29, C:0.12, G:0.11, T:0.48
Consensus pattern (29 bp):
CATTTAGCAATTTTCATGCATTTTAAAGT
Found at i:1078987 original size:57 final size:59
Alignment explanation
Indices: 1078919--1079061 Score: 254
Period size: 59 Copynumber: 2.5 Consensus size: 59
1078909 TATAATTTAT
1078919 GGACCATTTAGCAATTTTCATGCATTTTAAAGTCATTT-A-GTTTTTTTATTTAATGTA
1 GGACCATTTAGCAATTTTCATGCATTTTAAAGTCATTTAATGTTTTTTTATTTAATGTA
*
1078976 GGACCATTTAGCAATTTTCATGCATTTTAAAGTCATTTAATTTTTTTTTATTTAATGTA
1 GGACCATTTAGCAATTTTCATGCATTTTAAAGTCATTTAATGTTTTTTTATTTAATGTA
*
1079035 GGACCATTTAGCAATTTCCATGCATTT
1 GGACCATTTAGCAATTTTCATGCATTT
1079062 AGGCCCATTA
Statistics
Matches: 82, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
57 38 0.46
58 1 0.01
59 43 0.52
ACGTcount: A:0.28, C:0.13, G:0.12, T:0.48
Consensus pattern (59 bp):
GGACCATTTAGCAATTTTCATGCATTTTAAAGTCATTTAATGTTTTTTTATTTAATGTA
Found at i:1081157 original size:20 final size:20
Alignment explanation
Indices: 1081128--1081168 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
1081118 TTTAAACAAG
*
1081128 ATTATGTAAAT-ATTAAATTA
1 ATTATATAAATAATT-AATTA
1081148 ATTATATAAATAATTAATTA
1 ATTATATAAATAATTAATTA
1081168 A
1 A
1081169 ACCATATCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 16 0.84
21 3 0.16
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (20 bp):
ATTATATAAATAATTAATTA
Found at i:1082773 original size:20 final size:20
Alignment explanation
Indices: 1082747--1082805 Score: 100
Period size: 20 Copynumber: 2.9 Consensus size: 20
1082737 TTCCCGTGTA
1082747 AATGTATCGATACAATTTTT
1 AATGTATCGATACAATTTTT
*
1082767 GATGTATCGATACAATTTTT
1 AATGTATCGATACAATTTTT
1082787 AATGTATCGATACATATTT
1 AATGTATCGATACA-ATTT
1082806 GAAAATATAG
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
20 32 0.89
21 4 0.11
ACGTcount: A:0.34, C:0.10, G:0.12, T:0.44
Consensus pattern (20 bp):
AATGTATCGATACAATTTTT
Found at i:1082879 original size:13 final size:13
Alignment explanation
Indices: 1082861--1082885 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1082851 AATTTTTTGC
1082861 GTATCGATACATT
1 GTATCGATACATT
1082874 GTATCGATACAT
1 GTATCGATACAT
1082886 ACTTGGTGTA
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):
GTATCGATACATT
Found at i:1084953 original size:21 final size:20
Alignment explanation
Indices: 1084924--1084966 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
1084914 GACTAGTGTG
*
1084924 GGGACTGCCCGGTTGCGACCT
1 GGGACTG-CCGGTCGCGACCT
*
1084945 GGGAGTGCCGGTCGCGACCT
1 GGGACTGCCGGTCGCGACCT
1084965 GG
1 GG
1084967 AGGTGCTGCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.09, C:0.30, G:0.44, T:0.16
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCT
Found at i:1085425 original size:13 final size:13
Alignment explanation
Indices: 1085407--1085438 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
1085397 ATAATCCCCC
*
1085407 TGTATCGATACAG
1 TGTATCGATACAA
1085420 TGTATCGATACAA
1 TGTATCGATACAA
1085433 TGTATC
1 TGTATC
1085439 AAAGAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1091614 original size:13 final size:13
Alignment explanation
Indices: 1091596--1091621 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1091586 CAATTTTTTG
1091596 TGTATCGATACAT
1 TGTATCGATACAT
1091609 TGTATCGATACAT
1 TGTATCGATACAT
1091622 ACTTGGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1091636 original size:32 final size:33
Alignment explanation
Indices: 1091576--1091639 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
1091566 TACAAGCCAA
** *
1091576 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
1091609 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
1091640 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:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:1093645 original size:2 final size:2
Alignment explanation
Indices: 1093638--1093674 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
1093628 TTTGCAAGGC
1093638 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1093675 CTTCTAGGCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1094259 original size:13 final size:13
Alignment explanation
Indices: 1094241--1094267 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1094231 TTTAAGGTTA
1094241 TATCAAATCAATG
1 TATCAAATCAATG
1094254 TATCAAATCAATG
1 TATCAAATCAATG
1094267 T
1 T
1094268 GAAAATAGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.15, G:0.07, T:0.33
Consensus pattern (13 bp):
TATCAAATCAATG
Found at i:1095688 original size:13 final size:13
Alignment explanation
Indices: 1095648--1095700 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
1095638 CCGTTACAAG
1095648 CAATGTATCGATA
1 CAATGTATCGATA
1095661 CAA--T-TC-AT-
1 CAATGTATCGATA
1095669 C-ATGTATCGATA
1 CAATGTATCGATA
1095681 CAATGTATCGATA
1 CAATGTATCGATA
*
1095694 TAATGTA
1 CAATGTA
1095701 CCATGTATCG
Statistics
Matches: 33, Mismatches: 1, Indels: 12
0.72 0.02 0.26
Matches are distributed among these distances:
7 1 0.03
8 1 0.03
9 3 0.09
10 4 0.12
11 3 0.09
12 1 0.03
13 20 0.61
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:1095688 original size:33 final size:33
Alignment explanation
Indices: 1095648--1095716 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
1095638 CCGTTACAAG
*
1095648 CAATGTATCGATACAAT-TCATCATGTATCGATA
1 CAATGTATCGATACAATGT-ACCATGTATCGATA
*
1095681 CAATGTATCGATATAATGTACCATGTATCGATA
1 CAATGTATCGATACAATGTACCATGTATCGATA
1095714 CAA
1 CAA
1095717 ACAGTGGTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
33 32 0.97
34 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (33 bp):
CAATGTATCGATACAATGTACCATGTATCGATA
Found at i:1095784 original size:13 final size:13
Alignment explanation
Indices: 1095766--1095792 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1095756 ACAATTGTCC
1095766 ATGTATCGATACA
1 ATGTATCGATACA
1095779 ATGTATCGATACA
1 ATGTATCGATACA
1095792 A
1 A
1095793 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1102471 original size:17 final size:17
Alignment explanation
Indices: 1102442--1102474 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
1102432 TACAAAATTT
1102442 ATAAAGCATTTAATTGA
1 ATAAAGCATTTAATTGA
1102459 ATAAA-CATATTAATTG
1 ATAAAGCAT-TTAATTG
1102475 TTATGTTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.48, C:0.06, G:0.09, T:0.36
Consensus pattern (17 bp):
ATAAAGCATTTAATTGA
Found at i:1110415 original size:18 final size:18
Alignment explanation
Indices: 1110392--1110436 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
1110382 ATACTGTAGG
1110392 ATCATTTTAGAAAATTTC
1 ATCATTTTAGAAAATTTC
1110410 ATCATTTTAGAAAATTTC
1 ATCATTTTAGAAAATTTC
*
1110428 ATCGTTTTA
1 ATCATTTTA
1110437 AGGCCATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.36, C:0.11, G:0.07, T:0.47
Consensus pattern (18 bp):
ATCATTTTAGAAAATTTC
Found at i:1110424 original size:76 final size:75
Alignment explanation
Indices: 1110335--1110502 Score: 203
Period size: 76 Copynumber: 2.2 Consensus size: 75
1110325 ACTATTAGGG
* * ** * *
1110335 TCATTGTAGAAAATTTTATCATTTTAAGGTTATTTAGGTTATTTTACATACTGT-AGGATCATTT
1 TCATTTTAGAAAATTTCATCATTTTAAGGCCATTTAGGTTATTTTACATAATGTAAGG-TCA-TC
1110399 TAGAAAATTTCA
64 TAGAAAATTTCA
* * * *
1110411 TCATTTTAGAAAATTTCATCGTTTTAAGGCCATTTATGTTATTTTCCATAATTTAAGGTCATCTA
1 TCATTTTAGAAAATTTCATCATTTTAAGGCCATTTAGGTTATTTTACATAATGTAAGGTCATCTA
1110476 GAAAATTTCA
66 GAAAATTTCA
*
1110486 TTATTTTAGAAACATTT
1 TCATTTTAGAAA-ATTT
1110503 AGGTTATTTT
Statistics
Matches: 79, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
75 24 0.30
76 52 0.66
77 3 0.04
ACGTcount: A:0.33, C:0.10, G:0.11, T:0.46
Consensus pattern (75 bp):
TCATTTTAGAAAATTTCATCATTTTAAGGCCATTTAGGTTATTTTACATAATGTAAGGTCATCTA
GAAAATTTCA
Found at i:1110497 original size:18 final size:19
Alignment explanation
Indices: 1110474--1110552 Score: 65
Period size: 20 Copynumber: 4.2 Consensus size: 19
1110464 TAAGGTCATC
1110474 TAGAAAATTTCA-TTATTT
1 TAGAAAATTTCAGTTATTT
1110492 TAGAAACATTT-AGGTTATTT
1 TAGAAA-ATTTCA-GTTATTT
* * ** *
1110512 TACATAATATAAAGTCATTT
1 TAGAAAAT-TTCAGTTATTT
1110532 TAGAAAATTTCA-TTATTT
1 TAGAAAATTTCAGTTATTT
1110550 TAG
1 TAG
1110553 GGCCATTTAA
Statistics
Matches: 47, Mismatches: 9, Indels: 10
0.71 0.14 0.15
Matches are distributed among these distances:
18 15 0.32
19 8 0.17
20 23 0.49
21 1 0.02
ACGTcount: A:0.39, C:0.06, G:0.09, T:0.46
Consensus pattern (19 bp):
TAGAAAATTTCAGTTATTT
Found at i:1110560 original size:58 final size:58
Alignment explanation
Indices: 1110411--1110567 Score: 199
Period size: 57 Copynumber: 2.7 Consensus size: 58
1110401 GAAAATTTCA
** * * * * *
1110411 TCATTTTAGAAAATTTCATCGTTTTAAGGCCATTTATGTTATTTTCCATAATTTAAGG
1 TCATTTTAGAAAATTTCATTATTTTAGGGCCATTTAAGTTATTTTACATAATATAAAG
* *** *
1110469 TCA-TCTAGAAAATTTCATTATTTTAGAAACATTTAGGTTATTTTACATAATATAAAG
1 TCATTTTAGAAAATTTCATTATTTTAGGGCCATTTAAGTTATTTTACATAATATAAAG
1110526 TCATTTTAGAAAATTTCATTATTTTAGGGCCATTTAAGTTAT
1 TCATTTTAGAAAATTTCATTATTTTAGGGCCATTTAAGTTAT
1110568 ATAATTTATG
Statistics
Matches: 82, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
57 46 0.56
58 36 0.44
ACGTcount: A:0.34, C:0.10, G:0.11, T:0.45
Consensus pattern (58 bp):
TCATTTTAGAAAATTTCATTATTTTAGGGCCATTTAAGTTATTTTACATAATATAAAG
Found at i:1110614 original size:29 final size:29
Alignment explanation
Indices: 1110581--1110672 Score: 80
Period size: 29 Copynumber: 3.2 Consensus size: 29
1110571 ATTTATGGAC
1110581 CATTTAGCAATTTTCATGCATTTTAAAGT
1 CATTTAGCAATTTTCATGCATTTTAAAGT
** * ** * * * *
1110610 CATTTAG-TTTTTTTATTTAATGT-AGGAC
1 CATTTAGCAATTTTCATGCATTTTAAAG-T
1110638 CATTTAGCAATTTTCATGCATTTTAAAGT
1 CATTTAGCAATTTTCATGCATTTTAAAGT
1110667 CATTTA
1 CATTTA
1110673 ATTTTTTTTT
Statistics
Matches: 42, Mismatches: 18, Indels: 6
0.64 0.27 0.09
Matches are distributed among these distances:
27 2 0.05
28 16 0.38
29 22 0.52
30 2 0.05
ACGTcount: A:0.29, C:0.12, G:0.11, T:0.48
Consensus pattern (29 bp):
CATTTAGCAATTTTCATGCATTTTAAAGT
Found at i:1110645 original size:57 final size:59
Alignment explanation
Indices: 1110577--1110719 Score: 254
Period size: 59 Copynumber: 2.5 Consensus size: 59
1110567 TATAATTTAT
1110577 GGACCATTTAGCAATTTTCATGCATTTTAAAGTCATTT-A-GTTTTTTTATTTAATGTA
1 GGACCATTTAGCAATTTTCATGCATTTTAAAGTCATTTAATGTTTTTTTATTTAATGTA
*
1110634 GGACCATTTAGCAATTTTCATGCATTTTAAAGTCATTTAATTTTTTTTTATTTAATGTA
1 GGACCATTTAGCAATTTTCATGCATTTTAAAGTCATTTAATGTTTTTTTATTTAATGTA
*
1110693 GGACCATTTAGCAATTTCCATGCATTT
1 GGACCATTTAGCAATTTTCATGCATTT
1110720 AGGCCCATTA
Statistics
Matches: 82, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
57 38 0.46
58 1 0.01
59 43 0.52
ACGTcount: A:0.28, C:0.13, G:0.12, T:0.48
Consensus pattern (59 bp):
GGACCATTTAGCAATTTTCATGCATTTTAAAGTCATTTAATGTTTTTTTATTTAATGTA
Found at i:1114430 original size:20 final size:20
Alignment explanation
Indices: 1114387--1114444 Score: 91
Period size: 20 Copynumber: 2.9 Consensus size: 20
1114377 TTCCCGTGTA
1114387 AATGTATCGATACAA-TTTT
1 AATGTATCGATACAATTTTT
*
1114406 GATGTATCGATACAATTTTT
1 AATGTATCGATACAATTTTT
1114426 AATGTATCGATACATATTT
1 AATGTATCGATACA-ATTT
1114445 GAAAATATAG
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.40
20 17 0.49
21 4 0.11
ACGTcount: A:0.34, C:0.10, G:0.12, T:0.43
Consensus pattern (20 bp):
AATGTATCGATACAATTTTT
Found at i:1114519 original size:13 final size:13
Alignment explanation
Indices: 1114501--1114525 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1114491 AATTTTTTGC
1114501 GTATCGATACATT
1 GTATCGATACATT
1114514 GTATCGATACAT
1 GTATCGATACAT
1114526 ACTTGGTGTA
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):
GTATCGATACATT
Found at i:1116589 original size:21 final size:20
Alignment explanation
Indices: 1116560--1116602 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
1116550 GACTAGTGTG
*
1116560 GGGACTGCCCGGTTGCGACCT
1 GGGACTG-CCGGTCGCGACCT
*
1116581 GGGAGTGCCGGTCGCGACCT
1 GGGACTGCCGGTCGCGACCT
1116601 GG
1 GG
1116603 AGGTGCTGCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.09, C:0.30, G:0.44, T:0.16
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCT
Done.