Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008594.1 Hibiscus syriacus cultivar Beakdansim tig00111543_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1173925
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 6
Found at i:879310 original size:108 final size:108
Alignment explanation
Indices: 879136--879444 Score: 383
Period size: 108 Copynumber: 2.9 Consensus size: 108
879126 ATGTTTCCTA
* * ** *
879136 TTTCTTCA-GAGAGTATAAGACTCGAACAATCTTCAACAAACGGGTTCGCTCCCTCATTC-TCTA
1 TTTCTTCAGGA-AGTATAAAACTCGGAC-ATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTTC-A
*
879199 GGAAGCATGGAACTCGAACATCTTCTTCTTACGGGTTCACTCCCTC
63 GGAAGTATGGAACTCGAACATCTTCTTCTTACGGGTTCACTCCCTC
*
879245 TTTCTTCAGGAAGTATAAAACTCGGACATCTTCTTCAAACGGGTTAGCTCCCTCTTTCTTCAGGA
1 TTTCTTCAGGAAGTATAAAACTCGGACATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTTCAGGA
* * ** * *
879310 AGTATAGAACTCGGACATCTTCTTCAAATGGGTTCGCTCCCTC
66 AGTATGGAACTCGAACATCTTCTTCTTACGGGTTCACTCCCTC
* * * *
879353 TTTC-TCTAGGGAGTATAAAACTCGGACATCTTTTTCAAACGGGTTCGCTCCCCCTTTATAT-AG
1 TTTCTTC-AGGAAGTATAAAACTCGGACATCTTCTTCAAACGGGTTCGCTCCCTCTTTCT-TCAG
*
879416 GGAGTATGGAACTCGAACATCTTCTTCTT
64 GAAGTATGGAACTCGAACATCTTCTTCTT
879445 GCTTCACTAC
Statistics
Matches: 173, Mismatches: 23, Indels: 9
0.84 0.11 0.04
Matches are distributed among these distances:
107 2 0.01
108 144 0.83
109 25 0.14
110 2 0.01
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (108 bp):
TTTCTTCAGGAAGTATAAAACTCGGACATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTTCAGGA
AGTATGGAACTCGAACATCTTCTTCTTACGGGTTCACTCCCTC
Found at i:879360 original size:162 final size:163
Alignment explanation
Indices: 879136--879442 Score: 379
Period size: 162 Copynumber: 1.9 Consensus size: 163
879126 ATGTTTCCTA
879136 TTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAACGGGTTCGCTCCCTCATTCTCTAGG
1 TTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAACGGGTTCGCTCCCTCATTCTCTAGG
** ** * *
879201 AAGCATGGAACTCGAACATCTTCTTCTTACGGGTTCACTCCCTCTTTCT-TCAGGAAGTATAAAA
66 AAGCATAAAACTCGAACATCTTCTTCAAACGGGTTCACTCCCCCTTTATAT-AGGAAGTATAAAA
*
879265 CTCGGACATCTTCTTCAAACGGGTTAGCTCCCTC
130 CTCGAACATCTTCTTCAAACGGGTTAGCTCCCTC
* ** * *
879299 TTTCTTCAG-GAAGTAT-AGAACTCGGAC-ATCTTCTTCAAATGGGTTCGCTCCCTCTTTCTCTA
1 TTTCTTCAGAG-AGTATAAG-ACTCGAACAATCTTCAACAAACGGGTTCGCTCCCTCATTCTCTA
* * * * * * **
879361 GGGAGTATAAAACTCGGACATCTTTTTCAAACGGGTTCGCTCCCCCTTTATATAGGGAGTATGGA
64 GGAAGCATAAAACTCGAACATCTTCTTCAAACGGGTTCACTCCCCCTTTATATAGGAAGTATAAA
879426 ACTCGAACATCTTCTTC
129 ACTCGAACATCTTCTTC
879443 TTGCTTCACT
Statistics
Matches: 121, Mismatches: 20, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
162 99 0.82
163 22 0.18
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.32
Consensus pattern (163 bp):
TTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAACGGGTTCGCTCCCTCATTCTCTAGG
AAGCATAAAACTCGAACATCTTCTTCAAACGGGTTCACTCCCCCTTTATATAGGAAGTATAAAAC
TCGAACATCTTCTTCAAACGGGTTAGCTCCCTC
Found at i:879503 original size:37 final size:37
Alignment explanation
Indices: 879443--879523 Score: 112
Period size: 37 Copynumber: 2.2 Consensus size: 37
879433 CATCTTCTTC
879443 TTGCTTCACTACTTCTTTATGAAGGCTTATAG-ATGAT
1 TTGCTTCACTACTTCTTTATGAAGGCTTA-AGTATGAT
* *
879480 TTGCTTCACTAC-TCTTTTGTGAAGGCTTAAGTTTGAT
1 TTGCTTCACTACTTC-TTTATGAAGGCTTAAGTATGAT
879517 TTGCTTC
1 TTGCTTC
879524 GAAGGTCGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
36 4 0.10
37 36 0.90
ACGTcount: A:0.20, C:0.17, G:0.17, T:0.46
Consensus pattern (37 bp):
TTGCTTCACTACTTCTTTATGAAGGCTTAAGTATGAT
Found at i:880353 original size:214 final size:214
Alignment explanation
Indices: 879974--880761 Score: 1405
Period size: 214 Copynumber: 3.7 Consensus size: 214
879964 CGAAGGATTT
879974 AAACATCATTTTTTTCATTTTCAAATTCATGTGAAAACATCCTACCCGAAGGTTTTATGGATGGC
1 AAACATCA--TTTTTCATTTTCAAATTCATGTGAAAACATCCTACCCGAAGGTTTTATGGATGGC
* *
880039 CCGAAGGACTTATCATCTTGCTCTAAAGGCTTATAGATGACCCGAATGATTTAAGCATCATGCTC
64 CCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTC
* *
880104 GAAAGACTTACTGATGGCCCAAAAGACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTT
129 GAAAGACTTACTGATGGCCCGAAGGACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTT
*
880169 TTCAAAAATTTCATCTTCTTA
194 TTCAAAAATTCCATCTTCTTA
* * * *
880190 AAACATCATTTTTCATTTTCAAATTCATGTGAAAACATCATACCTGAAGATTTTATGGATGACCC
1 AAACATCATTTTTCATTTTCAAATTCATGTGAAAACATCCTACCCGAAGGTTTTATGGATGGCCC
* *
880255 GAAGGACTTGTCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCAA
66 GAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGA
*
880320 AAGACTTACTGATGGCTCGAAGGACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTT
131 AAGACTTACTGATGGCCCGAAGGACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTT
880385 CAAAAATTCCATCTTCTTA
196 CAAAAATTCCATCTTCTTA
880404 AAACATCATTTTTCATTTTCAAATTCATGTGAAAACATCCTACCCGAAGGTTTTATGGATGGCCC
1 AAACATCATTTTTCATTTTCAAATTCATGTGAAAACATCCTACCCGAAGGTTTTATGGATGGCCC
*
880469 GAAGGACTTGTCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGA
66 GAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGA
880534 AAGACTTACTGATGGCCCGAAGGACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTT
131 AAGACTTACTGATGGCCCGAAGGACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTT
880599 CAAAAATTCCATCTTCTTA
196 CAAAAATTCCATCTTCTTA
* * * *
880618 AAACATCATTTTTTATTTCCAAATTCATGTGAAAACATCCTACCTGAAGGTCTTATGGATGGCCC
1 AAACATCATTTTTCATTTTCAAATTCATGTGAAAACATCCTACCCGAAGGTTTTATGGATGGCCC
880683 GAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGA
66 GAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGA
880748 AAGACTTACTGATG
131 AAGACTTACTGATG
880762 AGTTTGCTTC
Statistics
Matches: 549, Mismatches: 23, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
214 541 0.99
216 8 0.01
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.33
Consensus pattern (214 bp):
AAACATCATTTTTCATTTTCAAATTCATGTGAAAACATCCTACCCGAAGGTTTTATGGATGGCCC
GAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGA
AAGACTTACTGATGGCCCGAAGGACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTT
CAAAAATTCCATCTTCTTA
Found at i:880756 original size:42 final size:41
Alignment explanation
Indices: 880675--880762 Score: 104
Period size: 42 Copynumber: 2.1 Consensus size: 41
880665 AGGTCTTATG
* * * * *
880675 GATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACA
1 GATGACCCGAAGGACTTAGCATCATGCTCGAAAGACTTACA
* *
880716 GATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACT
1 GATGACCCGAAGGACTT-AGCATCATGCTCGAAAGACTTACA
880758 GATGA
1 GATGA
880763 GTTTGCTTCA
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
41 15 0.38
42 24 0.62
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.25
Consensus pattern (41 bp):
GATGACCCGAAGGACTTAGCATCATGCTCGAAAGACTTACA
Found at i:885943 original size:6 final size:6
Alignment explanation
Indices: 885925--885974 Score: 57
Period size: 6 Copynumber: 8.2 Consensus size: 6
885915 AAATAAACAT
* *
885925 ATGC-A ATGTAA ATGCAA ATGCAAA ATGCAA ATGCAAA ATGCAA ATACAA
1 ATGCAA ATGCAA ATGCAA ATGC-AA ATGCAA ATGC-AA ATGCAA ATGCAA
885974 A
1 A
885975 AGGTGTCATT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
5 3 0.08
6 24 0.62
7 12 0.31
ACGTcount: A:0.54, C:0.14, G:0.14, T:0.18
Consensus pattern (6 bp):
ATGCAA
Found at i:885952 original size:7 final size:7
Alignment explanation
Indices: 885934--885968 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
885924 TATGCAATGT
885934 AAATGC-
1 AAATGCA
885940 AAATGCA
1 AAATGCA
885947 AAATGC-
1 AAATGCA
885953 AAATGCA
1 AAATGCA
885960 AAATGCA
1 AAATGCA
885967 AA
1 AA
885969 TACAAAAGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 12 0.44
7 15 0.56
ACGTcount: A:0.57, C:0.14, G:0.14, T:0.14
Consensus pattern (7 bp):
AAATGCA
Found at i:885952 original size:13 final size:13
Alignment explanation
Indices: 885934--885975 Score: 75
Period size: 13 Copynumber: 3.2 Consensus size: 13
885924 TATGCAATGT
885934 AAATGCAAATGCA
1 AAATGCAAATGCA
885947 AAATGCAAATGCA
1 AAATGCAAATGCA
*
885960 AAATGCAAATACA
1 AAATGCAAATGCA
885973 AAA
1 AAA
885976 GGTGTCATTC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.60, C:0.14, G:0.12, T:0.14
Consensus pattern (13 bp):
AAATGCAAATGCA
Found at i:891929 original size:3 final size:3
Alignment explanation
Indices: 891923--891973 Score: 63
Period size: 3 Copynumber: 17.7 Consensus size: 3
891913 TTAATATTAT
*
891923 TAA TAA TAA T-A TAT TAA T-A TAA TAA TAA TAA TAA TAA TAA TCAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA
891967 T-A TAA TA
1 TAA TAA TA
891974 TATATTTTTA
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
2 6 0.14
3 33 0.79
4 3 0.07
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:894030 original size:24 final size:24
Alignment explanation
Indices: 894003--894048 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
893993 ATAAGTCTAG
*
894003 ATTTAATATCT-TGATACATGATTC
1 ATTTAATAT-TATGAAACATGATTC
894027 ATTTAATATTATGAAACATGAT
1 ATTTAATATTATGAAACATGAT
894049 ATGAATTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 1 0.05
24 19 0.95
ACGTcount: A:0.39, C:0.09, G:0.09, T:0.43
Consensus pattern (24 bp):
ATTTAATATTATGAAACATGATTC
Found at i:894192 original size:2 final size:2
Alignment explanation
Indices: 894185--894214 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
894175 AGTGTATGTG
894185 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
894215 TATTTCATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:894750 original size:63 final size:62
Alignment explanation
Indices: 894671--894788 Score: 166
Period size: 63 Copynumber: 1.9 Consensus size: 62
894661 AGGGTTTACT
* * *
894671 TATGTTCTACGGAACATATGGACAGAATTACCTATG-TCTTTTGGGACATATGGACAATATACC
1 TATGTTCTAAGGAACATATGGACAG-ATTACCTAGGTTC-TTCGGGACATATGGACAATATACC
* *
894734 TATGTTCTAAGGAACATATGGACAGTTTACCTAGGTTCTTCGGGACCTATGGACA
1 TATGTTCTAAGGAACATATGGACAGATTACCTAGGTTCTTCGGGACATATGGACA
894789 TTTGCCAAGG
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
62 23 0.47
63 26 0.53
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (62 bp):
TATGTTCTAAGGAACATATGGACAGATTACCTAGGTTCTTCGGGACATATGGACAATATACC
Found at i:894785 original size:31 final size:31
Alignment explanation
Indices: 894664--894788 Score: 117
Period size: 31 Copynumber: 4.0 Consensus size: 31
894654 AGAGTCGAGG
*
894664 GTTTACTTATGTTCTACGGAACATATGGACA
1 GTTTACCTATGTTCTACGGAACATATGGACA
* ** *
894695 GAATTACCTATG-TCTTTTGGGACATATGGACA
1 G-TTTACCTATGTTC-TACGGAACATATGGACA
* * *
894727 ATATACCTATGTTCTAAGGAACATATGGACA
1 GTTTACCTATGTTCTACGGAACATATGGACA
* * * *
894758 GTTTACCTAGGTTCTTCGGGACCTATGGACA
1 GTTTACCTATGTTCTACGGAACATATGGACA
894789 TTTGCCAAGG
Statistics
Matches: 73, Mismatches: 18, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
31 49 0.67
32 24 0.33
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.33
Consensus pattern (31 bp):
GTTTACCTATGTTCTACGGAACATATGGACA
Found at i:894970 original size:21 final size:20
Alignment explanation
Indices: 894935--894975 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
894925 CATAAAGAGT
*
894935 ATATGTATGATTATATTTTA
1 ATATGTATGATTATAATTTA
*
894955 ATATGTTATTATTATAATTTA
1 ATATG-TATGATTATAATTTA
894976 CATTATTTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (20 bp):
ATATGTATGATTATAATTTA
Found at i:908838 original size:20 final size:20
Alignment explanation
Indices: 908810--908867 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
908800 TACATAGTTG
*
908810 TATCAATACCATAGGCTTAA
1 TATCGATACCATAGGCTTAA
* *
908830 TATCGATACCATAGACTTAG
1 TATCGATACCATAGGCTTAA
908850 TATCGATACCATCAGGCT
1 TATCGATACCAT-AGGCT
908868 CAACGGCTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
20 29 0.88
21 4 0.12
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.29
Consensus pattern (20 bp):
TATCGATACCATAGGCTTAA
Found at i:912440 original size:27 final size:28
Alignment explanation
Indices: 912319--912456 Score: 83
Period size: 28 Copynumber: 5.0 Consensus size: 28
912309 TGCTTGATTT
* *
912319 TAGATTGTAGCACAGAGGTGCTCAATCA
1 TAGATTGAAGCACAGAGGTGCTCAGTCA
** *
912347 T---TCCAATGCACAGAGGTGC-CAGAAT-T
1 TAGATTGAA-GCACAGAGGTGCTCAG--TCA
912373 TAGATTGAAGCACAGAGGTGCTCAGTCA
1 TAGATTGAAGCACAGAGGTGCTCAGTCA
** * *
912401 TAG-TTGGCTGCACAGAGTTG-TCAGTCC
1 TAGATT-GAAGCACAGAGGTGCTCAGTCA
* * *
912428 TCGATTGAAGCACAGATGTGCTCAATCA
1 TAGATTGAAGCACAGAGGTGCTCAGTCA
912456 T
1 T
912457 CTTAGCTACA
Statistics
Matches: 80, Mismatches: 19, Indels: 22
0.66 0.16 0.18
Matches are distributed among these distances:
25 4 0.05
26 13 0.16
27 22 0.28
28 35 0.44
29 6 0.08
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.25
Consensus pattern (28 bp):
TAGATTGAAGCACAGAGGTGCTCAGTCA
Found at i:912449 original size:55 final size:55
Alignment explanation
Indices: 912375--912621 Score: 275
Period size: 55 Copynumber: 4.5 Consensus size: 55
912365 CCAGAATTTA
* ** * * *
912375 GATTGAAGCACAGAGGTGCTCAGTCATAGTTGGCTGCACAGAGTTGTCAGTCCTC
1 GATTGAAGCACAGAGGTGCTCAATCATTTTTAGCTACACAGAGGTGTCAGTCCTC
* *
912430 GATTGAAGCACAGATGTGCTCAATCA-TCTTAGCTACACAGAGGTGTCAGCTCC-C
1 GATTGAAGCACAGAGGTGCTCAATCATTTTTAGCTACACAGAGGTGTCAG-TCCTC
** * * * *
912484 GGCTGAAGCACAGAGGTGCTCAGTCATTTTTTTTAACTGCACAGAGGTGTCAGTTCTC
1 GATTGAAGCACAGAGGTGCTCAATCA---TTTTTAGCTACACAGAGGTGTCAGTCCTC
* * *
912542 GATTGAAGCATAGAGGTGCTCAATCACTTTTGGCTACACAGAGGTGTCAG-CTCTC
1 GATTGAAGCACAGAGGTGCTCAATCATTTTTAGCTACACAGAGGTGTCAGTC-CTC
912597 GATTGAAGCACAGAGGTGCTCAATC
1 GATTGAAGCACAGAGGTGCTCAATC
912622 GTTAATTCTA
Statistics
Matches: 160, Mismatches: 25, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
54 41 0.26
55 74 0.46
57 2 0.01
58 43 0.27
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (55 bp):
GATTGAAGCACAGAGGTGCTCAATCATTTTTAGCTACACAGAGGTGTCAGTCCTC
Found at i:912611 original size:27 final size:27
Alignment explanation
Indices: 912354--912614 Score: 83
Period size: 27 Copynumber: 9.4 Consensus size: 27
912344 TCATTCCAAT
* * *
912354 GCACAGAGGTGCCAGAATTTAGATTGAA
1 GCACAGAGGTGTCAG-ATCTCGATTGAA
* **
912382 GCACAGAGGTGCTCAG-TCATAG-TTGGCT
1 GCACAGAGGTG-TCAGATC-TCGATT-GAA
*
912410 GCACAGAGTTGTCAG-TCCTCGATTGAA
1 GCACAGAGGTGTCAGAT-CTCGATTGAA
* *
912437 GCACAGATGTGCTCA-ATCATC--TTAGCTA
1 GCACAGAGGTG-TCAGATC-TCGATT-G-AA
* * **
912465 -CACAGAGGTGTCAGCTCCCGGCTGAA
1 GCACAGAGGTGTCAGATCTCGATTGAA
*** *
912491 GCACAGAGGTGCTCAG-TCATTTTTTTTAA
1 GCACAGAGGTG-TCAGATC--TCGATTGAA
*
912520 CTGCACAGAGGTGTCAGTTCTCGATTGAA
1 --GCACAGAGGTGTCAGATCTCGATTGAA
* * ** *
912549 GCATAGAGGTGCTCA-ATCACTTTTGGCTA
1 GCACAGAGGTG-TCAGATCTCGATT-G-AA
*
912578 -CACAGAGGTGTCAGCTCTCGATTGAA
1 GCACAGAGGTGTCAGATCTCGATTGAA
912604 GCACAGAGGTG
1 GCACAGAGGTG
912615 CTCAATCGTT
Statistics
Matches: 170, Mismatches: 38, Indels: 51
0.66 0.15 0.20
Matches are distributed among these distances:
26 8 0.05
27 75 0.44
28 58 0.34
29 12 0.07
30 4 0.02
31 13 0.08
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (27 bp):
GCACAGAGGTGTCAGATCTCGATTGAA
Found at i:912637 original size:55 final size:55
Alignment explanation
Indices: 912321--912642 Score: 254
Period size: 55 Copynumber: 5.8 Consensus size: 55
912311 CTTGATTTTA
* * * * *
912321 GATTGTAGCACAGAGGTGCTCAATCATTCCAA---T-GCACAGAGGTGCCAGAATTTA
1 GATTGAAGCACAGAGGTGCTCAATCATT--AATTCTAGCACAGAGGTGTCAG-CTCTC
* * *
912375 GATTGAAGCACAGAGGTGCTCAGTCA-TAGTTGGCT-GCACAGAGTTGTCAG-TCCTC
1 GATTGAAGCACAGAGGTGCTCAATCATTAATT--CTAGCACAGAGGTGTCAGCT-CTC
* * * *
912430 GATTGAAGCACAGATGTGCTCAATCATCTTA-GCTA-CACAGAGGTGTCAGCTCCC
1 GATTGAAGCACAGAGGTGCTCAATCAT-TAATTCTAGCACAGAGGTGTCAGCTCTC
** * ** * *
912484 GGCTGAAGCACAGAGGTGCTCAGTCATTTTTTTTAACTGCACAGAGGTGTCAGTTCTC
1 GATTGAAGCACAGAGGTGCTCAATCATTAATTCT-A--GCACAGAGGTGTCAGCTCTC
*
912542 GATTGAAGCATAGAGGTGCTCAATCACTT--TTGGCTA-CACAGAGGTGTCAGCTCTC
1 GATTGAAGCACAGAGGTGCTCAATCA-TTAATT--CTAGCACAGAGGTGTCAGCTCTC
*
912597 GATTGAAGCACAGAGGTGCTCAATCGTTAATTCTAGCACAGAGGTG
1 GATTGAAGCACAGAGGTGCTCAATCATTAATTCTAGCACAGAGGTG
912643 CTATGGATTC
Statistics
Matches: 216, Mismatches: 31, Indels: 41
0.75 0.11 0.14
Matches are distributed among these distances:
51 1 0.00
53 3 0.01
54 71 0.33
55 79 0.37
56 16 0.07
57 3 0.01
58 40 0.19
59 3 0.01
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (55 bp):
GATTGAAGCACAGAGGTGCTCAATCATTAATTCTAGCACAGAGGTGTCAGCTCTC
Found at i:912873 original size:81 final size:81
Alignment explanation
Indices: 912738--912889 Score: 259
Period size: 81 Copynumber: 1.9 Consensus size: 81
912728 CGAGTTACAA
*
912738 AGAATGGTTCGCACACGAAATGGCGCAGCAACAAGCTCTCACAGAGGTGTAGAGCAGGAAGTTAC
1 AGAATGGTTCGCACACGAAATGGCGCAGCAACAAGCTCTCACAGAGGTGTAGAGCAGGAAGCTAC
*
912803 TGAGCCGGTTGCACCG
66 CGAGCCGGTTGCACCG
* * *
912819 AGAATGGTTCGCACACGAAATGGCGGATCGACAAGCTCTCACAGAGGTGTAGAGCAGGAAGCTAC
1 AGAATGGTTCGCACACGAAATGGCGCAGCAACAAGCTCTCACAGAGGTGTAGAGCAGGAAGCTAC
912884 CGAGCC
66 CGAGCC
912890 AATTGTGCAA
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
81 66 1.00
ACGTcount: A:0.30, C:0.24, G:0.31, T:0.15
Consensus pattern (81 bp):
AGAATGGTTCGCACACGAAATGGCGCAGCAACAAGCTCTCACAGAGGTGTAGAGCAGGAAGCTAC
CGAGCCGGTTGCACCG
Found at i:919235 original size:2 final size:2
Alignment explanation
Indices: 919228--919262 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
919218 TAGTTGAATA
919228 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
919263 GAGAGAGAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:919267 original size:2 final size:2
Alignment explanation
Indices: 919262--919299 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
919252 ATATATATAT
919262 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
919300 GGGGGGAATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:922650 original size:21 final size:24
Alignment explanation
Indices: 922625--922670 Score: 62
Period size: 21 Copynumber: 2.0 Consensus size: 24
922615 CATTAAACAA
*
922625 AATAATT-AA-AAATTATT-ATAT
1 AATAATTGAATAAAATATTAATAT
922646 AATAATTGAATAAAATATTAATAT
1 AATAATTGAATAAAATATTAATAT
922670 A
1 A
922671 TTTATATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 7 0.33
22 2 0.10
23 7 0.33
24 5 0.24
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (24 bp):
AATAATTGAATAAAATATTAATAT
Found at i:925521 original size:2 final size:2
Alignment explanation
Indices: 925514--925558 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
925504 AATTTATAAT
925514 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
925556 TA T
1 TA T
925559 TTAGAGAAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:926404 original size:84 final size:84
Alignment explanation
Indices: 926263--926417 Score: 258
Period size: 84 Copynumber: 1.8 Consensus size: 84
926253 AAATTTGATT
* *
926263 CAACCTGGGTTTAAAGCGACTTCACTCGATCTGAAATTTGACTCGTATTTTTAGATAAAACTCGA
1 CAACCTGGGTTTAAAGCGACTTCACCCGATCTGAAATTTGACTCGTATTTTCAGATAAAACTCGA
926328 CCTGACCTGAAACGCAACC
66 CCTGACCTGAAACGCAACC
* *
926347 CAACCTGGGTTTAAAGTGACTTCACCCGATTTGAAATTTGAC-CTGTATTTTCAGATAAAACTCG
1 CAACCTGGGTTTAAAGCGACTTCACCCGATCTGAAATTTGACTC-GTATTTTCAGATAAAACTCG
926411 ACCTGAC
65 ACCTGAC
926418 ACACACACAA
Statistics
Matches: 66, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
83 1 0.02
84 65 0.98
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (84 bp):
CAACCTGGGTTTAAAGCGACTTCACCCGATCTGAAATTTGACTCGTATTTTCAGATAAAACTCGA
CCTGACCTGAAACGCAACC
Found at i:926623 original size:115 final size:117
Alignment explanation
Indices: 926417--926659 Score: 375
Period size: 115 Copynumber: 2.1 Consensus size: 117
926407 CTCGACCTGA
*
926417 CACACACACA-AGGATCAAATTGAAAAATAATATATAAAGAGAGATTATTAAAATTAACTTATCT
1 CACACACACATAGGATCAAACTGAAAAATAATATATAAAGAGAGATTATTAAAATTAACTTATCT
*
926481 ACTAACATGTAATATGAGCATGCCATATTCATCATCATAATGACTTAAAAAC
66 ACTAACATGTAATATGAACATGCCATATTCATCATCATAATGACTTAAAAAC
* * * *
926533 CACACACACATA-GATCTAACTGAAAAATAATATA-AGAGAGATATTATTACAATTAACTTATCT
1 CACACACACATAGGATCAAACTGAAAAATAATATATAAAGAGAGATTATTAAAATTAACTTATCT
* ** *
926596 ACTAACATGTAATATGAACATGTCATATTCATCATCATAATGACTTAGTAGC
66 ACTAACATGTAATATGAACATGCCATATTCATCATCATAATGACTTAAAAAC
926648 CACACACACATA
1 CACACACACATA
926660 TAATTTTTAA
Statistics
Matches: 116, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
115 85 0.73
116 30 0.26
117 1 0.01
ACGTcount: A:0.46, C:0.17, G:0.09, T:0.28
Consensus pattern (117 bp):
CACACACACATAGGATCAAACTGAAAAATAATATATAAAGAGAGATTATTAAAATTAACTTATCT
ACTAACATGTAATATGAACATGCCATATTCATCATCATAATGACTTAAAAAC
Found at i:930366 original size:32 final size:31
Alignment explanation
Indices: 930286--930373 Score: 92
Period size: 32 Copynumber: 2.9 Consensus size: 31
930276 AAAAAGGAAT
930286 ATGTGATATGTGAAAGTGAA-TCATATGAAA
1 ATGTGATATGTGAAAGTGAACTCATATGAAA
* * ** *
930316 ATGTGTTACGTGTGAGTGAACTACATGAT-TAA
1 ATGTGATATGTGAAAGTGAACT-CAT-ATGAAA
930348 ATGTGATATGTGAAAGTGAAC-CATAT
1 ATGTGATATGTGAAAGTGAACTCATAT
930374 ATATATATGA
Statistics
Matches: 46, Mismatches: 9, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
29 2 0.04
30 19 0.41
31 1 0.02
32 22 0.48
33 2 0.04
ACGTcount: A:0.38, C:0.07, G:0.24, T:0.32
Consensus pattern (31 bp):
ATGTGATATGTGAAAGTGAACTCATATGAAA
Found at i:931820 original size:22 final size:22
Alignment explanation
Indices: 931793--931835 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
931783 TGTTCACAGC
*
931793 ACTGTTCACGGTATTGTTCATT
1 ACTGTTCACGGTACTGTTCATT
*
931815 ACTGTTCATGGTACTGTTCAT
1 ACTGTTCACGGTACTGTTCAT
931836 ACCATATAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.44
Consensus pattern (22 bp):
ACTGTTCACGGTACTGTTCATT
Found at i:931829 original size:12 final size:12
Alignment explanation
Indices: 931793--931835 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
931783 TGTTCACAGC
*
931793 ACTGTTCACGGT
1 ACTGTTCATGGT
*
931805 ATTGTTCAT--T
1 ACTGTTCATGGT
931815 ACTGTTCATGGT
1 ACTGTTCATGGT
931827 ACTGTTCAT
1 ACTGTTCAT
931836 ACCATATAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
10 9 0.35
12 17 0.65
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.44
Consensus pattern (12 bp):
ACTGTTCATGGT
Found at i:934956 original size:21 final size:21
Alignment explanation
Indices: 934926--934966 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
934916 GAAATGTTAA
*
934926 AAATATTAATGTTTTAGGTAG
1 AAATAATAATGTTTTAGGTAG
934947 AAATAATAATGTTTTAGGTA
1 AAATAATAATGTTTTAGGTA
934967 AATTTTTACC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.17, T:0.41
Consensus pattern (21 bp):
AAATAATAATGTTTTAGGTAG
Found at i:940940 original size:24 final size:23
Alignment explanation
Indices: 940902--940955 Score: 81
Period size: 24 Copynumber: 2.3 Consensus size: 23
940892 GTCGAAATAT
*
940902 CCACATAGAATTGCACCGAAGTG
1 CCACGTAGAATTGCACCGAAGTG
*
940925 CCACGTAGAATATGCATCGAAGTG
1 CCACGTAGAAT-TGCACCGAAGTG
940949 CCACGTA
1 CCACGTA
940956 TAAACTGTCC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
23 10 0.36
24 18 0.64
ACGTcount: A:0.33, C:0.26, G:0.22, T:0.19
Consensus pattern (23 bp):
CCACGTAGAATTGCACCGAAGTG
Found at i:941229 original size:44 final size:45
Alignment explanation
Indices: 941166--941251 Score: 138
Period size: 44 Copynumber: 1.9 Consensus size: 45
941156 TATCATATAG
941166 TATTAAACAATGCATGTTCACGTAGTAAC-AAATCAAAACTAGGT
1 TATTAAACAATGCATGTTCACGTAGTAACTAAATCAAAACTAGGT
* * *
941210 TATTAAATAGTGCATGTTCACGTAGTAACTTAATCAAAACTA
1 TATTAAACAATGCATGTTCACGTAGTAACTAAATCAAAACTA
941252 TGCTTATATT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
44 27 0.71
45 11 0.29
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.30
Consensus pattern (45 bp):
TATTAAACAATGCATGTTCACGTAGTAACTAAATCAAAACTAGGT
Found at i:941458 original size:2 final size:2
Alignment explanation
Indices: 941451--941485 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
941441 CCATAAAACA
941451 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
941486 GTAATATGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:941934 original size:20 final size:20
Alignment explanation
Indices: 941900--942052 Score: 225
Period size: 20 Copynumber: 7.6 Consensus size: 20
941890 TTTACCTTAT
* *
941900 AGTATCAATATTGTTCTTCC
1 AGTATCGATACTGTTCTTCC
*
941920 AATATCGATACTGTTCTTCC
1 AGTATCGATACTGTTCTTCC
941940 AGTATCGATACTGTTCTTCC
1 AGTATCGATACTGTTCTTCC
* *
941960 AGTATAGATACTATTCTTCC
1 AGTATCGATACTGTTCTTCC
* *
941980 AGTATCGATATTTGTTCTTCT
1 AGTATCGATA-CTGTTCTTCC
942001 AGTATCGATACTGTTCTTCC
1 AGTATCGATACTGTTCTTCC
942021 AGTATCGATACTGTTCTTCC
1 AGTATCGATACTGTTCTTCC
*
942041 AGTATTGATACT
1 AGTATCGATACT
942053 TAAACCCAAA
Statistics
Matches: 119, Mismatches: 13, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
20 102 0.86
21 17 0.14
ACGTcount: A:0.24, C:0.21, G:0.13, T:0.42
Consensus pattern (20 bp):
AGTATCGATACTGTTCTTCC
Found at i:942013 original size:61 final size:60
Alignment explanation
Indices: 941913--942052 Score: 217
Period size: 61 Copynumber: 2.3 Consensus size: 60
941903 ATCAATATTG
*
941913 TTCTTCCAATATCGATACTGTTCTTCCAGTATCGATACTGTTCTTCCAGTATAGATACTA
1 TTCTTCCAGTATCGATACTGTTCTTCCAGTATCGATACTGTTCTTCCAGTATAGATACTA
* * * *
941973 TTCTTCCAGTATCGATATTTGTTCTTCTAGTATCGATACTGTTCTTCCAGTATCGATACTG
1 TTCTTCCAGTATCGATA-CTGTTCTTCCAGTATCGATACTGTTCTTCCAGTATAGATACTA
*
942034 TTCTTCCAGTATTGATACT
1 TTCTTCCAGTATCGATACT
942053 TAAACCCAAA
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
60 17 0.24
61 55 0.76
ACGTcount: A:0.22, C:0.22, G:0.13, T:0.43
Consensus pattern (60 bp):
TTCTTCCAGTATCGATACTGTTCTTCCAGTATCGATACTGTTCTTCCAGTATAGATACTA
Found at i:942034 original size:81 final size:80
Alignment explanation
Indices: 941900--942052 Score: 261
Period size: 81 Copynumber: 1.9 Consensus size: 80
941890 TTTACCTTAT
941900 AGTATCAATATTGTTCTTCCAATATCGATACTGTTCTTCCAGTATCGATACTGTTCTTCCAGTAT
1 AGTATCAATATTGTTCTTCCAATATCGATACTGTTCTTCCAGTATCGATACTGTTCTTCCAGTAT
941965 AGATACTATTCTTCC
66 AGATACTATTCTTCC
* * *
941980 AGTATCGATATTTGTTCTTCTAGTATCGATACTGTTCTTCCAGTATCGATACTGTTCTTCCAGTA
1 AGTATCAATA-TTGTTCTTCCAATATCGATACTGTTCTTCCAGTATCGATACTGTTCTTCCAGTA
*
942045 TTGATACT
65 TAGATACT
942053 TAAACCCAAA
Statistics
Matches: 68, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
80 9 0.13
81 59 0.87
ACGTcount: A:0.24, C:0.21, G:0.13, T:0.42
Consensus pattern (80 bp):
AGTATCAATATTGTTCTTCCAATATCGATACTGTTCTTCCAGTATCGATACTGTTCTTCCAGTAT
AGATACTATTCTTCC
Found at i:946341 original size:2 final size:2
Alignment explanation
Indices: 946284--946323 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
946274 GTATTTGCGG
946284 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
946324 GAATAAGATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:949672 original size:18 final size:19
Alignment explanation
Indices: 949649--949691 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
949639 AATTAAATGA
*
949649 GCATCGAATGCA-GTGAGT
1 GCATCGAATGCATGGGAGT
949667 GCATCG-ATGCATGGGAGT
1 GCATCGAATGCATGGGAGT
949685 GCATCGA
1 GCATCGA
949692 TACACCCCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 5 0.23
18 17 0.77
ACGTcount: A:0.26, C:0.19, G:0.35, T:0.21
Consensus pattern (19 bp):
GCATCGAATGCATGGGAGT
Found at i:951527 original size:21 final size:21
Alignment explanation
Indices: 951456--951554 Score: 101
Period size: 21 Copynumber: 4.7 Consensus size: 21
951446 TCGAAATGGA
* **
951456 GTGCATGGATGTACTACA-TA
1 GTGCATGGATGCACTACAGGG
* * **
951476 GTGTATCGATGCACTAGTGGAG
1 GTGCATGGATGCACTACAGG-G
*
951498 GTGCATGGATGCACTGCAGGG
1 GTGCATGGATGCACTACAGGG
*
951519 GTTCATGGATGCACTACAGGG
1 GTGCATGGATGCACTACAGGG
951540 GTGCATGGATGCACT
1 GTGCATGGATGCACT
951555 TTAACACCCT
Statistics
Matches: 62, Mismatches: 15, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
20 13 0.21
21 34 0.55
22 15 0.24
ACGTcount: A:0.23, C:0.17, G:0.34, T:0.25
Consensus pattern (21 bp):
GTGCATGGATGCACTACAGGG
Found at i:951802 original size:21 final size:21
Alignment explanation
Indices: 951778--951817 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
951768 ATGTTTAATG
951778 AAAAAGATACCAATTGTTAAC
1 AAAAAGATACCAATTGTTAAC
* *
951799 AAAATGATATCAATTGTTA
1 AAAAAGATACCAATTGTTA
951818 CCAATTGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.30
Consensus pattern (21 bp):
AAAAAGATACCAATTGTTAAC
Found at i:953022 original size:20 final size:19
Alignment explanation
Indices: 952982--953022 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
952972 CAAATTATAT
*
952982 TTAATTTTGAGTTTTGAAA
1 TTAATTTTGAATTTTGAAA
*
953001 TTAATTTTGAATATTTGGAA
1 TTAATTTTGAAT-TTTGAAA
953021 TT
1 TT
953023 CATGGTCTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.32, C:0.00, G:0.15, T:0.54
Consensus pattern (19 bp):
TTAATTTTGAATTTTGAAA
Found at i:956293 original size:13 final size:13
Alignment explanation
Indices: 956275--956299 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
956265 ACCGATTATG
956275 ACCCGACCCGTTA
1 ACCCGACCCGTTA
956288 ACCCGACCCGTT
1 ACCCGACCCGTT
956300 GACCGTTGAG
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:0.20, C:0.48, G:0.16, T:0.16
Consensus pattern (13 bp):
ACCCGACCCGTTA
Found at i:958693 original size:24 final size:24
Alignment explanation
Indices: 958666--958828 Score: 204
Period size: 24 Copynumber: 6.8 Consensus size: 24
958656 ATTTGAATTA
958666 TGATCTGATACTTGACATGGATTC
1 TGATCTGATACTTGACATGGATTC
* *
958690 TGATATGATA-TATGATATGGATTC
1 TGATCTGATACT-TGACATGGATTC
*
958714 TGATCTGATA-TCTGATATGGATTC
1 TGATCTGATACT-TGACATGGATTC
* *
958738 TGATCTGATACTTGACTTGGATTT
1 TGATCTGATACTTGACATGGATTC
* *
958762 TGATCTGATACTTGACTTGGATTT
1 TGATCTGATACTTGACATGGATTC
* *
958786 TGATCTGATACTTGACCTGGATTT
1 TGATCTGATACTTGACATGGATTC
*
958810 TGATATGATACTTGACATG
1 TGATCTGATACTTGACATG
958829 AATTATGTTT
Statistics
Matches: 127, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
23 1 0.01
24 125 0.98
25 1 0.01
ACGTcount: A:0.25, C:0.12, G:0.21, T:0.42
Consensus pattern (24 bp):
TGATCTGATACTTGACATGGATTC
Found at i:958707 original size:12 final size:12
Alignment explanation
Indices: 958688--958747 Score: 61
Period size: 12 Copynumber: 5.0 Consensus size: 12
958678 TGACATGGAT
958688 TCTGATATGATA
1 TCTGATATGATA
*
958700 TATGATATGGAT-
1 TCTGATAT-GATA
*
958712 TCTGATCTGATA
1 TCTGATATGATA
958724 TCTGATATGGAT-
1 TCTGATAT-GATA
*
958736 TCTGATCTGATA
1 TCTGATATGATA
958748 CTTGACTTGG
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
11 6 0.15
12 27 0.69
13 6 0.15
ACGTcount: A:0.28, C:0.10, G:0.20, T:0.42
Consensus pattern (12 bp):
TCTGATATGATA
Found at i:963381 original size:24 final size:24
Alignment explanation
Indices: 963345--963478 Score: 126
Period size: 24 Copynumber: 5.6 Consensus size: 24
963335 TGAAAATTTT
** * * *
963345 ATCTGATTTTTGATTTGAATTCAG
1 ATCTGATACTTGACTTGGATTCTG
*
963369 ATCTGATACTTGACATGGATTCTG
1 ATCTGATACTTGACTTGGATTCTG
* * *
963393 ATATGATA-TCTGGCATGGATTCTG
1 ATCTGATACT-TGACTTGGATTCTG
963417 ATCTGATACTTGACTTGGATTCTG
1 ATCTGATACTTGACTTGGATTCTG
* * * *
963441 ATATGATACTTGACCTAGATTTTG
1 ATCTGATACTTGACTTGGATTCTG
*
963465 ATATGATACTTGAC
1 ATCTGATACTTGAC
963479 ATGAATTATG
Statistics
Matches: 93, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
23 1 0.01
24 91 0.98
25 1 0.01
ACGTcount: A:0.26, C:0.13, G:0.19, T:0.41
Consensus pattern (24 bp):
ATCTGATACTTGACTTGGATTCTG
Found at i:963427 original size:48 final size:48
Alignment explanation
Indices: 963363--963481 Score: 159
Period size: 48 Copynumber: 2.5 Consensus size: 48
963353 TTTGATTTGA
* * *
963363 ATTCAGATCTGATACTTGACATGGATTCTGATATGATA-TCTGGCATGG
1 ATTCTGATCTGATACTTGACATGGATTCTGATATGATACT-TGACATAG
* *
963411 ATTCTGATCTGATACTTGACTTGGATTCTGATATGATACTTGACCTAG
1 ATTCTGATCTGATACTTGACATGGATTCTGATATGATACTTGACATAG
* *
963459 ATTTTGATATGATACTTGACATG
1 ATTCTGATCTGATACTTGACATG
963482 AATTATGTTT
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
48 61 0.98
49 1 0.02
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.39
Consensus pattern (48 bp):
ATTCTGATCTGATACTTGACATGGATTCTGATATGATACTTGACATAG
Found at i:967317 original size:24 final size:24
Alignment explanation
Indices: 967308--967426 Score: 159
Period size: 24 Copynumber: 5.0 Consensus size: 24
967298 TTTGATTTGA
967308 ATTCTGATCTGATACTTGACATGG
1 ATTCTGATCTGATACTTGACATGG
*
967332 ATTCTGATATGATA-TCTGACATGG
1 ATTCTGATCTGATACT-TGACATGG
*
967356 ATTCTGATCTGATACTTGACTTGG
1 ATTCTGATCTGATACTTGACATGG
* *
967380 ATTCTGATATGATACTTGACCTGG
1 ATTCTGATCTGATACTTGACATGG
* * *
967404 ATTTTGATATGATTCTTGACATG
1 ATTCTGATCTGATACTTGACATG
967427 AATTATGTTT
Statistics
Matches: 85, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
23 1 0.01
24 83 0.98
25 1 0.01
ACGTcount: A:0.25, C:0.14, G:0.20, T:0.40
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGACATGG
Found at i:967361 original size:12 final size:12
Alignment explanation
Indices: 967324--967426 Score: 54
Period size: 12 Copynumber: 8.6 Consensus size: 12
967314 ATCTGATACT
967324 TGACATGGATTC
1 TGACATGGATTC
*
967336 TGATAT-GATATC
1 TGACATGGAT-TC
967348 TGACATGGATTC
1 TGACATGGATTC
*
967360 TGATC-T-GATAC
1 TGA-CATGGATTC
*
967371 TTGACTTGGATTC
1 -TGACATGGATTC
* *
967384 TGATAT-GATAC
1 TGACATGGATTC
* *
967395 TTGACCTGGATTT
1 -TGACATGGATTC
*
967408 TGATAT-GATTC
1 TGACATGGATTC
967419 TTGACATG
1 -TGACATG
967427 AATTATGTTT
Statistics
Matches: 66, Mismatches: 15, Indels: 19
0.66 0.15 0.19
Matches are distributed among these distances:
11 16 0.24
12 39 0.59
13 11 0.17
ACGTcount: A:0.25, C:0.14, G:0.21, T:0.40
Consensus pattern (12 bp):
TGACATGGATTC
Found at i:967367 original size:48 final size:48
Alignment explanation
Indices: 967308--967426 Score: 177
Period size: 48 Copynumber: 2.5 Consensus size: 48
967298 TTTGATTTGA
967308 ATTCTGATCTGATACTTGACATGGATTCTGATATGATA-TCTGACATGG
1 ATTCTGATCTGATACTTGACATGGATTCTGATATGATACT-TGACATGG
* *
967356 ATTCTGATCTGATACTTGACTTGGATTCTGATATGATACTTGACCTGG
1 ATTCTGATCTGATACTTGACATGGATTCTGATATGATACTTGACATGG
* * *
967404 ATTTTGATATGATTCTTGACATG
1 ATTCTGATCTGATACTTGACATG
967427 AATTATGTTT
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
48 63 0.98
49 1 0.02
ACGTcount: A:0.25, C:0.14, G:0.20, T:0.40
Consensus pattern (48 bp):
ATTCTGATCTGATACTTGACATGGATTCTGATATGATACTTGACATGG
Found at i:967386 original size:72 final size:72
Alignment explanation
Indices: 967290--967426 Score: 195
Period size: 72 Copynumber: 1.9 Consensus size: 72
967280 TGAAAATTTT
** * *
967290 ATCTGATTTTTGATTTGAATTCTGATCTGATACTTGACATGGATTCTGATATGATATC-TGACAT
1 ATCTGATACTTGACTTGAATTCTGATATGATACTTGACATGGATTCTGATATGAT-TCTTGACAT
967354 GGATTCTG
65 GGATTCTG
* * *
967362 ATCTGATACTTGACTTGGATTCTGATATGATACTTGACCTGGATTTTGATATGATTCTTGACATG
1 ATCTGATACTTGACTTGAATTCTGATATGATACTTGACATGGATTCTGATATGATTCTTGACATG
967427 AATTATGTTT
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
71 2 0.04
72 55 0.96
ACGTcount: A:0.25, C:0.13, G:0.20, T:0.42
Consensus pattern (72 bp):
ATCTGATACTTGACTTGAATTCTGATATGATACTTGACATGGATTCTGATATGATTCTTGACATG
GATTCTG
Found at i:979414 original size:19 final size:19
Alignment explanation
Indices: 979390--979447 Score: 116
Period size: 19 Copynumber: 3.1 Consensus size: 19
979380 AACATCGAAT
979390 ATAAGGAGTGCATCGATGC
1 ATAAGGAGTGCATCGATGC
979409 ATAAGGAGTGCATCGATGC
1 ATAAGGAGTGCATCGATGC
979428 ATAAGGAGTGCATCGATGC
1 ATAAGGAGTGCATCGATGC
979447 A
1 A
979448 CTCCCTTAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 39 1.00
ACGTcount: A:0.33, C:0.16, G:0.31, T:0.21
Consensus pattern (19 bp):
ATAAGGAGTGCATCGATGC
Found at i:980333 original size:18 final size:18
Alignment explanation
Indices: 980310--980416 Score: 151
Period size: 18 Copynumber: 5.9 Consensus size: 18
980300 AGGGATTATC
*
980310 AGTGGTCCTTCGAGACAT
1 AGTGGTCCTTCGGGACAT
*
980328 AGTGGTCTTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
*
980346 AGTGGTCTTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
* *
980364 AGTGGTCATTCGGGACAC
1 AGTGGTCCTTCGGGACAT
*
980382 AGTGGTCCTTTGGGACAT
1 AGTGGTCCTTCGGGACAT
*
980400 AGTGGTCCTACGGGACA
1 AGTGGTCCTTCGGGACA
980417 AATTCTACAC
Statistics
Matches: 80, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 80 1.00
ACGTcount: A:0.20, C:0.20, G:0.33, T:0.28
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:980710 original size:15 final size:16
Alignment explanation
Indices: 980690--980793 Score: 86
Period size: 18 Copynumber: 6.1 Consensus size: 16
980680 CGAGGATTAT
980690 CAGTGGTCCTTC-GGA
1 CAGTGGTCCTTCGGGA
*
980705 CAGTGGTCTTTC-GGA
1 CAGTGGTCCTTCGGGA
*
980720 CATAGTGGTCTTTCGGGA
1 C--AGTGGTCCTTCGGGA
980738 CATAGTGGTCCTTCGGGACA
1 C--AGTGGTCCTTCGGG--A
*
980758 CAGTGGTCCTTTGGGA
1 CAGTGGTCCTTCGGGA
*
980774 CATAGTGGTCCTACGGGA
1 C--AGTGGTCCTTCGGGA
980792 CA
1 CA
980794 AATTCTACAC
Statistics
Matches: 77, Mismatches: 5, Indels: 13
0.81 0.05 0.14
Matches are distributed among these distances:
15 15 0.19
16 3 0.04
17 11 0.14
18 46 0.60
20 2 0.03
ACGTcount: A:0.17, C:0.22, G:0.33, T:0.28
Consensus pattern (16 bp):
CAGTGGTCCTTCGGGA
Found at i:980740 original size:18 final size:18
Alignment explanation
Indices: 980706--980793 Score: 117
Period size: 18 Copynumber: 4.9 Consensus size: 18
980696 TCCTTCGGAC
980706 AGTGGTCTTTC-GGACAT
1 AGTGGTCTTTCGGGACAT
980723 AGTGGTCTTTCGGGACAT
1 AGTGGTCTTTCGGGACAT
* *
980741 AGTGGTCCTTCGGGACAC
1 AGTGGTCTTTCGGGACAT
980759 AGTGGTCCTTT-GGGACAT
1 AGTGGT-CTTTCGGGACAT
* *
980777 AGTGGTCCTACGGGACA
1 AGTGGTCTTTCGGGACA
980794 AATTCTACAC
Statistics
Matches: 62, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
17 13 0.21
18 46 0.74
19 3 0.05
ACGTcount: A:0.18, C:0.20, G:0.33, T:0.28
Consensus pattern (18 bp):
AGTGGTCTTTCGGGACAT
Found at i:980764 original size:36 final size:36
Alignment explanation
Indices: 980690--980793 Score: 128
Period size: 36 Copynumber: 3.0 Consensus size: 36
980680 CGAGGATTAT
* *
980690 CAGTGGTCCTTC-GGAC--AGTGGTCTTTC-GGACA
1 CAGTGGTCTTTCGGGACATAGTGGTCCTTCGGGACA
*
980722 TAGTGGTCTTTCGGGACATAGTGGTCCTTCGGGACA
1 CAGTGGTCTTTCGGGACATAGTGGTCCTTCGGGACA
*
980758 CAGTGGTCCTTT-GGGACATAGTGGTCCTACGGGACA
1 CAGTGGT-CTTTCGGGACATAGTGGTCCTTCGGGACA
980794 AATTCTACAC
Statistics
Matches: 62, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
32 10 0.16
33 4 0.06
35 10 0.16
36 34 0.55
37 4 0.06
ACGTcount: A:0.17, C:0.22, G:0.33, T:0.28
Consensus pattern (36 bp):
CAGTGGTCTTTCGGGACATAGTGGTCCTTCGGGACA
Found at i:980783 original size:54 final size:50
Alignment explanation
Indices: 980691--980793 Score: 143
Period size: 54 Copynumber: 2.0 Consensus size: 50
980681 GAGGATTATC
* *
980691 AGTGGTCCTTCGGACAGTGGTCTTTCGGACATAGTGGTCTTTCGGGACAT
1 AGTGGTCCTTCGGACAGTGGTCTTTCGGACATAGTGGTCCTACGGGACAT
*
980741 AGTGGTCCTTCGGGACACAGTGGTCCTTTGGGACATAGTGGTCCTACGGGACA
1 AGTGGTCCTTC-GG--ACAGTGGT-CTTTCGGACATAGTGGTCCTACGGGACA
980794 AATTCTACAC
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
50 11 0.24
51 2 0.04
53 8 0.17
54 25 0.54
ACGTcount: A:0.17, C:0.21, G:0.33, T:0.28
Consensus pattern (50 bp):
AGTGGTCCTTCGGACAGTGGTCTTTCGGACATAGTGGTCCTACGGGACAT
Found at i:984476 original size:19 final size:20
Alignment explanation
Indices: 984452--984496 Score: 83
Period size: 19 Copynumber: 2.3 Consensus size: 20
984442 AGAAATACCA
984452 AGGCACTTGTAGGT-GCTTT
1 AGGCACTTGTAGGTCGCTTT
984471 AGGCACTTGTAGGTCGCTTT
1 AGGCACTTGTAGGTCGCTTT
984491 AGGCAC
1 AGGCAC
984497 AAATGAGCCT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 14 0.56
20 11 0.44
ACGTcount: A:0.18, C:0.20, G:0.31, T:0.31
Consensus pattern (20 bp):
AGGCACTTGTAGGTCGCTTT
Found at i:988832 original size:20 final size:20
Alignment explanation
Indices: 988807--988844 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
988797 TTCCCATTGA
*
988807 AGTGCATCGGTGCATTCTAC
1 AGTGCATCGATGCATTCTAC
988827 AGTGCATCGATGCATTCT
1 AGTGCATCGATGCATTCT
988845 TTAATAGGTG
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:0.21, C:0.24, G:0.24, T:0.32
Consensus pattern (20 bp):
AGTGCATCGATGCATTCTAC
Found at i:998594 original size:20 final size:21
Alignment explanation
Indices: 998555--998594 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
998545 ATCATATGAA
998555 ATGTGATAAGAAGCTATGTGCC
1 ATGTGATAAGAA-CTATGTGCC
998577 ATGTGATAAGAA-TATGTG
1 ATGTGATAAGAACTATGTG
998595 AAATGATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.33
22 12 0.67
ACGTcount: A:0.35, C:0.07, G:0.28, T:0.30
Consensus pattern (21 bp):
ATGTGATAAGAACTATGTGCC
Found at i:1001454 original size:10 final size:12
Alignment explanation
Indices: 1001438--1001470 Score: 52
Period size: 10 Copynumber: 2.9 Consensus size: 12
1001428 AATCGCTTAA
1001438 AAGAATTTTTG-
1 AAGAATTTTTGC
1001449 AA-AATTTTTGC
1 AAGAATTTTTGC
1001460 AAGAATTTTTG
1 AAGAATTTTTG
1001471 GAAGCCGGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 8 0.40
11 4 0.20
12 8 0.40
ACGTcount: A:0.36, C:0.03, G:0.15, T:0.45
Consensus pattern (12 bp):
AAGAATTTTTGC
Found at i:1001654 original size:29 final size:29
Alignment explanation
Indices: 1001612--1001769 Score: 138
Period size: 29 Copynumber: 5.3 Consensus size: 29
1001602 TTATTTAAAA
*
1001612 AAAAAAGTGTCATTCTGAGAATTATTTTG
1 AAAAAAGTGACATTCTGAGAATTATTTTG
* *
1001641 AAAAAAGTGACATTTTGGGAATTATTTTG
1 AAAAAAGTGACATTCTGAGAATTATTTTG
* * * *
1001670 AATAAGGTGACATTTTGGGAATTATTTTG
1 AAAAAAGTGACATTCTGAGAATTATTTTG
* * * * **
1001699 AAAAAGGTGATATTCTTAGAAATATTTAAAA
1 AAAAAAGTGACATTCTGAGAATTATTT--TG
*
1001730 AAAAAAGGTGACATTAT-AGGAATTATTTTG
1 AAAAAA-GTGACATTCTGA-GAATTATTTTG
*
1001760 AAAAATGTGA
1 AAAAAAGTGA
1001770 TATTTTGGGA
Statistics
Matches: 105, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
29 78 0.74
30 5 0.05
31 6 0.06
32 16 0.15
ACGTcount: A:0.42, C:0.04, G:0.19, T:0.35
Consensus pattern (29 bp):
AAAAAAGTGACATTCTGAGAATTATTTTG
Found at i:1002861 original size:26 final size:26
Alignment explanation
Indices: 1002808--1002861 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
1002798 AGGGTAACTC
* *
1002808 TTTTATGGGATTTACTGCAGTATAAT
1 TTTTATGAGATTTACTGCACTATAAT
* *
1002834 TTTTATGAGATTTACTGGACTATGAT
1 TTTTATGAGATTTACTGCACTATAAT
1002860 TT
1 TT
1002862 GTTTAATGTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.26, C:0.07, G:0.19, T:0.48
Consensus pattern (26 bp):
TTTTATGAGATTTACTGCACTATAAT
Found at i:1008519 original size:75 final size:75
Alignment explanation
Indices: 1008401--1008587 Score: 232
Period size: 75 Copynumber: 2.5 Consensus size: 75
1008391 TTTATGTCCA
* * * * *
1008401 TAGACTTAATATTATGGTTTCAGTATTAAGATTTGACACTTTAATATTATGGTTTGATTATGGAT
1 TAGAATTAATATTATGGTTTAAGTCTTGAGATTTGACACTTTAATATTATGATTTGATTATGGAT
1008466 TTTATTACTC
66 TTTATTACTC
* * * * * *
1008476 TAGAATTAATATTGTGGTTTAAATCTTGAGATTTGACATTTTAATATTGTTATTTGTTTATGGAT
1 TAGAATTAATATTATGGTTTAAGTCTTGAGATTTGACACTTTAATATTATGATTTGATTATGGAT
**
1008541 TTTATTGTTC
66 TTTATTACTC
*
1008551 TA-AACTTAATATTATGGTTTAAGTCTTGATATTTGAC
1 TAGAA-TTAATATTATGGTTTAAGTCTTGAGATTTGAC
1008588 TTTATTTATA
Statistics
Matches: 95, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
74 2 0.02
75 93 0.98
ACGTcount: A:0.29, C:0.06, G:0.15, T:0.50
Consensus pattern (75 bp):
TAGAATTAATATTATGGTTTAAGTCTTGAGATTTGACACTTTAATATTATGATTTGATTATGGAT
TTTATTACTC
Found at i:1008707 original size:12 final size:12
Alignment explanation
Indices: 1008690--1008715 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1008680 GTTATTTCCT
1008690 GTCTCCGTATCC
1 GTCTCCGTATCC
1008702 GTCTCCGTATCC
1 GTCTCCGTATCC
1008714 GT
1 GT
1008716 ATCAGTGCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.38, G:0.19, T:0.35
Consensus pattern (12 bp):
GTCTCCGTATCC
Found at i:1014418 original size:29 final size:29
Alignment explanation
Indices: 1014376--1014440 Score: 130
Period size: 29 Copynumber: 2.2 Consensus size: 29
1014366 TAGATCCCAG
1014376 TGGTTCAGGAAAGAGTACCATCATATCCA
1 TGGTTCAGGAAAGAGTACCATCATATCCA
1014405 TGGTTCAGGAAAGAGTACCATCATATCCA
1 TGGTTCAGGAAAGAGTACCATCATATCCA
1014434 TGGTTCA
1 TGGTTCA
1014441 ACGTTTCTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (29 bp):
TGGTTCAGGAAAGAGTACCATCATATCCA
Found at i:1017508 original size:15 final size:16
Alignment explanation
Indices: 1017488--1017517 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
1017478 TTGTGGTAAA
1017488 TTATGGA-AGGGTTAT
1 TTATGGAGAGGGTTAT
1017503 TTATGGAGAGGGTTA
1 TTATGGAGAGGGTTA
1017518 GGTGGCAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.27, C:0.00, G:0.37, T:0.37
Consensus pattern (16 bp):
TTATGGAGAGGGTTAT
Found at i:1022952 original size:30 final size:30
Alignment explanation
Indices: 1022916--1022975 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
1022906 TGAGGTGAAA
1022916 ATTCTTGATCCTTGTATGTTGAAAAACATT
1 ATTCTTGATCCTTGTATGTTGAAAAACATT
*
1022946 ATTCTTGATCCTTGTCTGTTGAAAAACATT
1 ATTCTTGATCCTTGTATGTTGAAAAACATT
1022976 CTCCAGTATA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.28, C:0.15, G:0.13, T:0.43
Consensus pattern (30 bp):
ATTCTTGATCCTTGTATGTTGAAAAACATT
Found at i:1025965 original size:44 final size:44
Alignment explanation
Indices: 1025883--1026004 Score: 149
Period size: 44 Copynumber: 2.8 Consensus size: 44
1025873 AAAATAATAT
* *
1025883 TGATGATGTTCCAACTCCTTAT-TGATGGAAAT-GAGTGAAATGG
1 TGATGATGATCCAACTCCTTATGTAATGG-AATCGAGTGAAATGG
* * *
1025926 TGATGCTGATCCAACTCTTTATGTAATGGAATCGAGTGAAATGT
1 TGATGATGATCCAACTCCTTATGTAATGGAATCGAGTGAAATGG
* * *
1025970 TGATGTTGATCTAACTCCTTATGTAAGGGAATCGA
1 TGATGATGATCCAACTCCTTATGTAATGGAATCGA
1026005 ACAAAAAAGG
Statistics
Matches: 68, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
43 22 0.32
44 46 0.68
ACGTcount: A:0.30, C:0.13, G:0.24, T:0.34
Consensus pattern (44 bp):
TGATGATGATCCAACTCCTTATGTAATGGAATCGAGTGAAATGG
Found at i:1040085 original size:26 final size:26
Alignment explanation
Indices: 1040055--1040104 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
1040045 TTGCCTTGGC
1040055 CAAACCATATAATGAGGCTGAAGTGT
1 CAAACCATATAATGAGGCTGAAGTGT
*
1040081 CAAACCTTATAATGAGGCTGAAGT
1 CAAACCATATAATGAGGCTGAAGT
1040105 AATCTGTGCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (26 bp):
CAAACCATATAATGAGGCTGAAGTGT
Found at i:1044671 original size:26 final size:27
Alignment explanation
Indices: 1044641--1044702 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
1044631 TTATTATACT
1044641 TGTTGAACTATA-TACAATTCACTTAA
1 TGTTGAACTATATTACAATTCACTTAA
* *
1044667 TGTTGAACTATATTACATTTGACTTAA
1 TGTTGAACTATATTACAATTCACTTAA
1044694 TGTTGAACT
1 TGTTGAACT
1044703 CCATTACTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
26 12 0.36
27 21 0.64
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.42
Consensus pattern (27 bp):
TGTTGAACTATATTACAATTCACTTAA
Found at i:1044976 original size:43 final size:43
Alignment explanation
Indices: 1044911--1045065 Score: 168
Period size: 43 Copynumber: 3.5 Consensus size: 43
1044901 ATTTGAGGCG
* * * *
1044911 TTTATATAAAAAATGCCGCTAAATATCATAACATTTTGTGACA
1 TTTATACAAAAAACGACGCTAAATATCATAACATATTGTGACA
* * * *
1044954 TTTATACAAAAAACGTCACTAAATATCATAACATGTTGTGGCA
1 TTTATACAAAAAACGACGCTAAATATCATAACATATTGTGACA
*
1044997 TTTATGCAAAAAAAAC-ACTGCTAAATATCATAACATATTGTGACA
1 TTTAT--ACAAAAAACGAC-GCTAAATATCATAACATATTGTGACA
* *
1045042 CTTATACAAAAAACGCCGCCTAAA
1 TTTATACAAAAAACGACG-CTAAA
1045066 GTCCACACCT
Statistics
Matches: 93, Mismatches: 14, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
43 51 0.55
44 7 0.08
45 35 0.38
ACGTcount: A:0.44, C:0.17, G:0.10, T:0.29
Consensus pattern (43 bp):
TTTATACAAAAAACGACGCTAAATATCATAACATATTGTGACA
Found at i:1045025 original size:45 final size:44
Alignment explanation
Indices: 1044927--1045054 Score: 152
Period size: 45 Copynumber: 2.9 Consensus size: 44
1044917 TAAAAAATGC
* * *
1044927 CGCTAAATATCATAACATTTTGTGACATTTAT-ACAAAAAACGT
1 CGCTAAATATCATAACATATTGTGACATTTATCAAAAAAAACCT
* * *
1044970 CACTAAATATCATAACATGTTGTGGCATTTATGCAAAAAAAACACT
1 CGCTAAATATCATAACATATTGTGACATTTAT-CAAAAAAAAC-CT
*
1045016 -GCTAAATATCATAACATATTGTGACACTTATACAAAAAA
1 CGCTAAATATCATAACATATTGTGACATTTAT-CAAAAAA
1045055 CGCCGCCTAA
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
43 29 0.40
45 42 0.58
46 1 0.01
ACGTcount: A:0.45, C:0.16, G:0.09, T:0.30
Consensus pattern (44 bp):
CGCTAAATATCATAACATATTGTGACATTTATCAAAAAAAACCT
Found at i:1055277 original size:23 final size:22
Alignment explanation
Indices: 1055234--1055315 Score: 69
Period size: 22 Copynumber: 3.7 Consensus size: 22
1055224 TATAGGCAGA
* *
1055234 GGGAATCGATACCCCCATGAAG
1 GGGAACCGATACCCCCTTGAAG
* *
1055256 GGGAACCGATTCCCCCTTTGAAT
1 GGGAACCGATACCCCC-TTGAAG
* *
1055279 AGGAACCGATTCCCCCCTT--AG
1 GGGAACCGA-TACCCCCTTGAAG
*
1055300 GGGAATCGATACCCCC
1 GGGAACCGATACCCCC
1055316 CAAGGGTTCT
Statistics
Matches: 48, Mismatches: 10, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
20 6 0.12
21 8 0.17
22 14 0.29
23 14 0.29
24 6 0.12
ACGTcount: A:0.26, C:0.33, G:0.23, T:0.18
Consensus pattern (22 bp):
GGGAACCGATACCCCCTTGAAG
Found at i:1066069 original size:15 final size:15
Alignment explanation
Indices: 1066051--1066081 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
1066041 TAGTTAGACT
1066051 AGGAGTAGTCATTGA
1 AGGAGTAGTCATTGA
1066066 AGGAGTAGTCATTGA
1 AGGAGTAGTCATTGA
1066081 A
1 A
1066082 TGTAAGGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.06, G:0.32, T:0.26
Consensus pattern (15 bp):
AGGAGTAGTCATTGA
Found at i:1067093 original size:24 final size:24
Alignment explanation
Indices: 1067066--1067117 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
1067056 AACATCAAAT
1067066 ACAATAA-AATAATATTATTTATTA
1 ACAATAATAATAATATTATTT-TTA
1067090 ACAA-AATAATAATATTATTTTTA
1 ACAATAATAATAATATTATTTTTA
1067113 A-AATA
1 ACAATA
1067118 TTAGAATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
22 2 0.08
23 7 0.27
24 17 0.65
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (24 bp):
ACAATAATAATAATATTATTTTTA
Found at i:1067247 original size:33 final size:32
Alignment explanation
Indices: 1067184--1067247 Score: 76
Period size: 33 Copynumber: 2.0 Consensus size: 32
1067174 ATAATTTTAT
* *
1067184 AAATAAAATATTATGATTATTATATGTTATTA
1 AAATAAAATATTATAATTATTATATATTATTA
*
1067216 AAATAAAATTATTATAAATTA-TATTTATTATT
1 AAATAAAA-TATTAT-AATTATTATATATTATT
1067248 TATTATAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
32 8 0.30
33 15 0.56
34 4 0.15
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (32 bp):
AAATAAAATATTATAATTATTATATATTATTA
Found at i:1067652 original size:62 final size:62
Alignment explanation
Indices: 1067511--1067644 Score: 241
Period size: 62 Copynumber: 2.2 Consensus size: 62
1067501 ATTGTTAGGC
* *
1067511 ATTTTACCGGAAATATTAAAAAACATTAAAGTTTTAGGTAGAAATATTAATGTTTTAGGTAA
1 ATTTTACCGGAAATGTTAAAAAACATTAAAGTTTTAGGTAGAAATAATAATGTTTTAGGTAA
1067573 ATTTTACCGGAAATGTTAAAAAACATTAAAGTTTTAGGTAGAAATAATAATGTTTTAGGTAA
1 ATTTTACCGGAAATGTTAAAAAACATTAAAGTTTTAGGTAGAAATAATAATGTTTTAGGTAA
*
1067635 TTTTTACCGG
1 ATTTTACCGG
1067645 TTTTGTTATA
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
62 69 1.00
ACGTcount: A:0.41, C:0.06, G:0.16, T:0.37
Consensus pattern (62 bp):
ATTTTACCGGAAATGTTAAAAAACATTAAAGTTTTAGGTAGAAATAATAATGTTTTAGGTAA
Found at i:1067968 original size:20 final size:22
Alignment explanation
Indices: 1067923--1067964 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
1067913 CATCAAATAC
1067923 AATAAAATATTATTTATTAACA
1 AATAAAATATTATTTATTAACA
1067945 AATAATAATATTATTT-TTAA
1 AATAA-AATATTATTTATTAA
1067965 AATATTAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (22 bp):
AATAAAATATTATTTATTAACA
Found at i:1068363 original size:851 final size:854
Alignment explanation
Indices: 1066715--1068429 Score: 3059
Period size: 851 Copynumber: 2.0 Consensus size: 854
1066705 ATTGTTAGGC
* *
1066715 ATTTTACAGGAAATGTTAAAAAACATTGATGTTTTAGGTAGAAATAATAATGTTTTAGGTAATTT
1 ATTTTACAGGAAATGTTAAAAAACATTAAAGTTTTAGGTAGAAATAATAATGTTTTAGGTAATTT
*
1066780 TTACCGGTTTTGTTATACCTAACAATAACAAAACCGGTAAAAATAGACTTTTTAATGATAAAATT
66 TTACCGGTTTTGTTATACCCAACAATAACAAAACCGGTAAAAATAGACTTTTTAATGATAAAATT
*
1066845 AGTAAACACAAATTATACAAATTAATTTTAATTTTTTAGTTTGTAAGTTGCCACAGTATAACTAA
131 AGTAAACACAAATTATACAAATTAATTTTAATTTTTTAGTTTGTAAGTTGCCACAATATAACTAA
1066910 TGAAAAAAAGACACGATATTTCAATTTCGATATTAGCTTTCTAATAATAAAATAAAAAAATAAAA
196 TGAAAAAAAGACACGATA-TT--ATTTCGATATTAGCTTTCTAATAATAAAATAAAAAAATAAAA
1066975 AAATATATATAATTACAATATAATTTTAAAAAATATCATAATGAAGTGATGAAAAATAATCATAA
258 AAATATATATAATTACAATATAATTTTAAAAAATATCATAATGAAGTGATGAAAAATAATCATAA
1067040 TTACAATATAACTATAAACATCAAATACAATAAAATAATATTATTTATTAACAAAATAATAATAT
323 TTACAATATAACTATAAACATCAAATACAAT-AAATAATATTATTTATTAACAAAATAATAATAT
*
1067105 TATTTTTAAAATATTAGAATAATTTATATAATATTATTTATGTCAATATTATTATTAAATATTAT
387 TATTTTTAAAATATTAGAATAATTTATATAATATTATTTATGTCAATATTATTATTAAATACTAT
*
1067170 ATCTATAATTTTATAAATAAAATATTATGATTATTATATGTTATTAAAATAAAATTATTATAAAT
452 ATCTATAATTTTATAAATAAAAAATTATGATTATTATATGTTATTAAAATAAAATTATTATAAAT
*
1067235 TATATTTATTATTTATTATAATAAGAATAATATATCATTAATTATATTATAATGAGAGAATAGTT
517 TATATTTATTATTTATTATAAAAAGAATAATATATCATTAATTATATTATAATGAGAGAATAGTT
1067300 AAACATAAGCGTCGATACATTTTCTAAAAGTATCGACACATATGTTACATCGAAACCGATAATTA
582 AAACATAAGCGTCGATACATTTTCTAAAAGTATCGACACATATGTTACATCGAAACCGATAATTA
1067365 TAATGTAATAGGTAAATTTACAATGTAACCGGTATACAACAATAAAAAAGCCAGTAAAACTTACC
647 TAATGTAATAGGTAAATTTACAATGTAACCGGTATACAACAATAAAAAAGCCAGTAAAACTTACC
* * *
1067430 AAAAACATCATTATTTTAACAAAACCGGTAAAACACTATCGATTTTGTTATTCTTTTTTAGCGTT
712 AAAAACAACATTATCTTAACAAAACCGGTAAAACACTACCGATTTTGTTATTCTTTTTTAGCGTT
* *
1067495 TTTGTTATTGTTAGGCATTTTACCGGAAATATTAAAAAACATTAAAGTTTTAGGTAGAAATATTA
777 TTTGTTATTATTAGGCATTTTACCGGAAATATTAAAAAACATTAAAGTTTTAGGTAGAAATAATA
1067560 ATGTTTTAGGTAA
842 ATGTTTTAGGTAA
*
1067573 ATTTTACCGGAAATGTTAAAAAACATTAAAGTTTTAGGTAGAAATAATAATGTTTTAGGTAATTT
1 ATTTTACAGGAAATGTTAAAAAACATTAAAGTTTTAGGTAGAAATAATAATGTTTTAGGTAATTT
*
1067638 TTACCGGTTTTGTTATACCCAACAATAACAAAACCGGTAAAAATATACTTTTTAATGATAAAATT
66 TTACCGGTTTTGTTATACCCAACAATAACAAAACCGGTAAAAATAGACTTTTTAATGATAAAATT
1067703 AGTAAACACAAATTATACAAATTAATTTTAATTTTTTAGTTTGTAAGTTGCCACAATATAACTAA
131 AGTAAACACAAATTATACAAATTAATTTTAATTTTTTAGTTTGTAAGTTGCCACAATATAACTAA
*
1067768 TGAAAAAAAGACACGATA-T-TTTCGATATTAGCTTTCTAATAATAAAATAAAAAATTAAAAAAA
196 TGAAAAAAAGACACGATATTATTTCGATATTAGCTTTCTAATAATAAAATAAAAAAAT-AAAAAA
1067831 ATTATATATAATTACAATATAATTTTAAAAAATATCATAATGAAGTGATGAAAAATAATCATAAT
260 A-TATATATAATTACAATATAATTTTAAAAAATATCATAATGAAGTGATGAAAAATAATCATAAT
1067896 TACAATATAACTATAAACATCAAATACAAT-AA-AATATTATTTATTAAC-AAATAATAATATTA
324 TACAATATAACTATAAACATCAAATACAATAAATAATATTATTTATTAACAAAATAATAATATTA
*
1067958 TTTTTAAAATATTAGAATAA-TTATTTAATATTATTTATGTCAATATTATTATTAAAATACTATA
389 TTTTTAAAATATTAGAATAATTTATATAATATTATTTATGTCAATATTATTATT-AAATACTATA
1068022 TCTATAATTTTATAAATAAAAAATTATGATTATTATATGTTATTAAAATAAAATTATTATAAATT
453 TCTATAATTTTATAAATAAAAAATTATGATTATTATATGTTATTAAAATAAAATTATTATAAATT
1068087 ATATTTATTATTTATTATAAAAAGAATAATATATCATTAATTATATTATAATGAGAGAATAGTTA
518 ATATTTATTATTTATTATAAAAAGAATAATATATCATTAATTATATTATAATGAGAGAATAGTTA
1068152 AACATAAGCGTCGATACATTTTCTAAAAGTATCGACACATATGTTACATCGAAACCGATAATTAT
583 AACATAAGCGTCGATACATTTTCTAAAAGTATCGACACATATGTTACATCGAAACCGATAATTAT
*
1068217 AATGTAATAGGTAAATTTACAATGTAACCGGTATACAACAATAACAAAA-CCTGTAAAACTTACC
648 AATGTAATAGGTAAATTTACAATGTAACCGGTATACAACAATAA-AAAAGCCAGTAAAACTTACC
* * * * *
1068281 GAAAACAACATTATCTTAACAAAACCGGTAAAGCGCTACCGGTTTTGTTGTTCTTTTTTA-CTGT
712 AAAAACAACATTATCTTAACAAAACCGGTAAAACACTACCGATTTTGTTATTCTTTTTTAGC-GT
* * *
1068345 TTTTGTTATTATTAGGCATTTTACCGGAAATGTTAAAAAACATTGATGTTTTAGGTAGAAATAAT
776 TTTTGTTATTATTAGGCATTTTACCGGAAATATTAAAAAACATTAAAGTTTTAGGTAGAAATAAT
1068410 AATGTTTTAGGTAA
841 AATGTTTTAGGTAA
*
1068424 TTTTTA
1 ATTTTA
1068430 TCGGTTTTGT
Statistics
Matches: 826, Mismatches: 26, Indels: 17
0.95 0.03 0.02
Matches are distributed among these distances:
850 33 0.04
851 427 0.52
852 20 0.02
853 38 0.05
854 7 0.01
855 93 0.11
856 1 0.00
858 207 0.25
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.37
Consensus pattern (854 bp):
ATTTTACAGGAAATGTTAAAAAACATTAAAGTTTTAGGTAGAAATAATAATGTTTTAGGTAATTT
TTACCGGTTTTGTTATACCCAACAATAACAAAACCGGTAAAAATAGACTTTTTAATGATAAAATT
AGTAAACACAAATTATACAAATTAATTTTAATTTTTTAGTTTGTAAGTTGCCACAATATAACTAA
TGAAAAAAAGACACGATATTATTTCGATATTAGCTTTCTAATAATAAAATAAAAAAATAAAAAAA
TATATATAATTACAATATAATTTTAAAAAATATCATAATGAAGTGATGAAAAATAATCATAATTA
CAATATAACTATAAACATCAAATACAATAAATAATATTATTTATTAACAAAATAATAATATTATT
TTTAAAATATTAGAATAATTTATATAATATTATTTATGTCAATATTATTATTAAATACTATATCT
ATAATTTTATAAATAAAAAATTATGATTATTATATGTTATTAAAATAAAATTATTATAAATTATA
TTTATTATTTATTATAAAAAGAATAATATATCATTAATTATATTATAATGAGAGAATAGTTAAAC
ATAAGCGTCGATACATTTTCTAAAAGTATCGACACATATGTTACATCGAAACCGATAATTATAAT
GTAATAGGTAAATTTACAATGTAACCGGTATACAACAATAAAAAAGCCAGTAAAACTTACCAAAA
ACAACATTATCTTAACAAAACCGGTAAAACACTACCGATTTTGTTATTCTTTTTTAGCGTTTTTG
TTATTATTAGGCATTTTACCGGAAATATTAAAAAACATTAAAGTTTTAGGTAGAAATAATAATGT
TTTAGGTAA
Found at i:1068807 original size:14 final size:14
Alignment explanation
Indices: 1068790--1068876 Score: 52
Period size: 14 Copynumber: 6.2 Consensus size: 14
1068780 TATTTATGTC
1068790 AATATTATTATTAA
1 AATATTATTATTAA
*
1068804 AATATTA-TATCTAT
1 AATATTATTAT-TAA
* * *
1068818 AATTTTATAAATAA
1 AATATTATTATTAA
* *
1068832 AATATTATGATTAT
1 AATATTATTATTAA
* *
1068846 TATA-TGTTATTAA
1 AATATTATTATTAA
**
1068859 AATAAAATTATTATA
1 AATATTATTATTA-A
1068874 AAT
1 AAT
1068877 TATATTTATT
Statistics
Matches: 53, Mismatches: 16, Indels: 7
0.70 0.21 0.09
Matches are distributed among these distances:
13 12 0.23
14 36 0.68
15 5 0.09
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.47
Consensus pattern (14 bp):
AATATTATTATTAA
Found at i:1068889 original size:33 final size:32
Alignment explanation
Indices: 1068826--1068889 Score: 76
Period size: 33 Copynumber: 2.0 Consensus size: 32
1068816 ATAATTTTAT
* *
1068826 AAATAAAATATTATGATTATTATATGTTATTA
1 AAATAAAATATTATAATTATTATATATTATTA
*
1068858 AAATAAAATTATTATAAATTA-TATTTATTATT
1 AAATAAAA-TATTAT-AATTATTATATATTATT
1068890 TATTATAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
32 8 0.30
33 15 0.56
34 4 0.15
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (32 bp):
AAATAAAATATTATAATTATTATATATTATTA
Found at i:1068972 original size:791 final size:799
Alignment explanation
Indices: 1067573--1072192 Score: 8059
Period size: 791 Copynumber: 5.9 Consensus size: 799
1067563 TTTTAGGTAA
* *
1067573 ATTTTACCGGAAATGTTAAAAAACATTAAAGTTTTAGGTAGAAATAATAATGTTTTAGGTAATTT
1 ATTTTACCGGAAATGTTAAAAAACATTGATGTTTTAGGTAGAAATAATAATGTTTTAGGTAATTT
*
1067638 TTACCGGTTTTGTTATACCCAACAATAACAAAACCGGTAAAAATATACTTTTTAATGATAAAATT
66 TTACCGGTTTTGTTATACCCAACAATAACAAAACCGGTAAAAATAGACTTTTTAATGATAAAATT
1067703 AGTAAACACAAATTATACAAATTAATTTTAATTTTTTAGTTTGTAAGTTGCCACAATATAACTAA
131 AGTAAACACAAATTATACAAATTAATTTTAATTTTTTAGTTTGTAAGTTGCCACAATATAACTAA
*
1067768 TGAAAAAAAGACACGATA----T-TTTCGATATTAGCTTTCTAATAATAAAATAAAAAATTAAAA
196 TGAAAAAAAGACACGATATTTCTATTTCGATATTAGCTTTCTAATAATAAAATAAAAAAATAAAA
1067828 AAAATTATATATAATTACAATATAATTTTAAAAAATATCATAATGAAGTGATGAAAAATAATCAT
261 AAAATTATATATAATTACAATATAATTTTAAAAAATATCATAATGAAGTGATGAAAAATAATCAT
1067893 AATTACAATATAACTATAAACATCAAATACAAT--AA-AATATTATTTATTAAC-AAATAATAAT
326 AATTACAATATAACTATAAACATCAAATACAATAAAATAATATTATTTATTAACAAAATAATAAT
*
1067954 ATTATTTTTAAAATATTAGAATAA-TTATTTAATATTATTTATGTCAATATTATTATTAAAATAC
391 ATTATTTTTAAAATATTAGAATAATTTATTTAATATTATTTATGTCAATATTATTATTAAAATAT
*
1068018 TATATCTATAATTTTATAAATAAAAAATTATGATTATTATATGTTATTAAAATAAAATTATTATA
456 TATATCTATAATTTTATAAATAAAATATTATGATTATTATATGTTATTAAAATAAAATTATTATA
*
1068083 AATTATATTTATTATTTATTATAAAAAGAATAATATATCATTAATTATATTATAATGAGAGAATA
521 AATTATATTTATTATTTATTATAATAAGAATAATATATCATTAATTATATTATAATGAGAGAATA
1068148 GTTAAACATAAGCGTCGATACATTTTCTAAAAGTATCGACACATATGTTACATCGAAACCGATAA
586 GTTAAACATAAGCGTCGATACATTTTCTAAAAGTATCGACACATATGTTACATCGAAACCGATAA
*
1068213 TTATAATGTAATAGGTAAATTTACAATGTAACCGGTATACAACAATAACAAAA-CCTGTAAAACT
651 TTATAATGTAATAGGTAAATTTACAATGTAACCGGTATACAACAATAA-AAAAGCCGGTAAAACT
* * *
1068277 TACCGAAAACAACATTATCTTAACAAAACCGGTAAAGCGCTACCGGTTTTGTTGTTCTTTTTTAC
715 TACCGAAAACATCATTATCTTAACAAAACCGGTAAAACGCTACCGGTTTTGTTATTCTTTTTTAC
* *
1068342 TGTTTTTGTTATTATTAGGC
780 CGTTTTTGTTATTGTTAGGC
1068362 ATTTTACCGGAAATGTTAAAAAACATTGATGTTTTAGGTAGAAATAATAATGTTTTAGGTAATTT
1 ATTTTACCGGAAATGTTAAAAAACATTGATGTTTTAGGTAGAAATAATAATGTTTTAGGTAATTT
*
1068427 TTATCGGTTTTGTTATACCCAACAATAACAAAAACCGGTAAAAATAGACTTTTTAATGATAAAAT
66 TTACCGGTTTTGTTATACCCAACAATAAC-AAAACCGGTAAAAATAGACTTTTTAATGATAAAAT
*
1068492 TAGTAAACACAAATTATACAAATTAATTTTAATTTTTTAGTTTGTAAGTTGTCACAATATAACTA
130 TAGTAAACACAAATTATACAAATTAATTTTAATTTTTTAGTTTGTAAGTTGCCACAATATAACTA
* *
1068557 ATGAAAAAAAAGATACGATATTTCTATTTCGATATTAGCTTTCTAATAATAAAATAATAAAAT-A
195 ATG-AAAAAAAGACACGATATTTCTATTTCGATATTAGCTTTCTAATAATAAAATAAAAAAATAA
* * *
1068621 TATATA-TATATATAATTACAATATAATTTT-AAAAA-ATCATAATGAAGTGATGAAAAATAATC
259 AAAAAATTATATATAATTACAATATAATTTTAAAAAATATCATAATGAAGTGATGAAAAATAATC
1068683 ATAATTAC-ATATAACTATAAACATCAAATACAATAAAAT-A-A-TATTTATTAACAAAATAATA
324 ATAATTACAATATAACTATAAACATCAAATACAATAAAATAATATTATTTATTAACAAAATAATA
1068744 ATATTATTTTTAAAATATTAGAATAA-TTATTTAATA-TATTTATGTCAATATTATTATTAAAAT
389 ATATTATTTTTAAAATATTAGAATAATTTATTTAATATTATTTATGTCAATATTATTATTAAAAT
1068807 ATTATATCTATAATTTTATAAATAAAATATTATGATTATTATATGTTATTAAAATAAAATTATTA
454 ATTATATCTATAATTTTATAAATAAAATATTATGATTATTATATGTTATTAAAATAAAATTATTA
1068872 TAAATTATATTTATTATTTATTATAATAAGAATAATATATCATTAATTATATTATAATGAGAGAA
519 TAAATTATATTTATTATTTATTATAATAAGAATAATATATCATTAATTATATTATAATGAGAGAA
1068937 TAGTTAAACATAAGCGTCGATACATTTTCTAAAAGTATCGACACATATGTTACATCGAAACCGAT
584 TAGTTAAACATAAGCGTCGATACATTTTCTAAAAGTATCGACACATATGTTACATCGAAACCGAT
*
1069002 AATTATAATATAATAGGTAAATTTACAATGTAACCGGTATACAACAATAAAAAAGCCGGTAAAAC
649 AATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATACAACAATAAAAAAGCCGGTAAAAC
* *
1069067 TTACCGAAAACATCATTATCTTAACAAAACTGGTAAAAAGCTACCGGTTTTGTTATTCTTTTTTA
714 TTACCGAAAACATCATTATCTTAACAAAACCGGTAAAACGCTACCGGTTTTGTTATTCTTTTTTA
1069132 CCGTTTTTGTTATTGTTAGGC
779 CCGTTTTTGTTATTGTTAGGC
1069153 ATTTTACCGGAAATGTTAAAAAACATTGATGTTTTAGGTAGAAATAATAATGTTTTAGGTAATTT
1 ATTTTACCGGAAATGTTAAAAAACATTGATGTTTTAGGTAGAAATAATAATGTTTTAGGTAATTT
1069218 TTACCGGTTTTGTTATACCCAACAATAACAAAACCGGTAAAAATAGACTTTTTAATGATAAAATT
66 TTACCGGTTTTGTTATACCCAACAATAACAAAACCGGTAAAAATAGACTTTTTAATGATAAAATT
1069283 AGTAAACACAAATTATACAAATTAATTTTAATTTTTTAGTTTGTAAGTTGCCACAATATAACTAA
131 AGTAAACACAAATTATACAAATTAATTTTAATTTTTTAGTTTGTAAGTTGCCACAATATAACTAA
1069348 TGAAAAAAAGACACGATATTTCTATTTCGATATTAGCTTTCTAATAATAAAATAAAAAAAT-AAA
196 TGAAAAAAAGACACGATATTTCTATTTCGATATTAGCTTTCTAATAATAAAATAAAAAAATAAAA
1069412 AAAATTATATATAATTACAATATAATTTTAAAAAATATCATAATGAAGTGATGAAAAATAATCAT
261 AAAATTATATATAATTACAATATAATTTTAAAAAATATCATAATGAAGTGATGAAAAATAATCAT
1069477 AATTACAATATAACTATAAACATCAAATACAATAAAATAATATTATTTATTAACAAAATAATAAT
326 AATTACAATATAACTATAAACATCAAATACAATAAAATAATATTATTTATTAACAAAATAATAAT
1069542 ATTATTTTTAAAATATTAGAATAATTTATTTAATATTATTTATGTCAATATTATTATTAAAATAT
391 ATTATTTTTAAAATATTAGAATAATTTATTTAATATTATTTATGTCAATATTATTATTAAAATAT
1069607 TATATCTATAATTTTATAAATAAAATATTATGATTATTATATGTTATTAAAATAAAATTATTATA
456 TATATCTATAATTTTATAAATAAAATATTATGATTATTATATGTTATTAAAATAAAATTATTATA
1069672 AATTATATTTATTATTTATTATAATAAGAATAATATATCATTAATTATATTATAATGAGAGAATA
521 AATTATATTTATTATTTATTATAATAAGAATAATATATCATTAATTATATTATAATGAGAGAATA
1069737 GTTAAACATAAGCGTCGATACATTTTCTAAAAGTATCGACACATATGTTACATCGAAACCGATAA
586 GTTAAACATAAGCGTCGATACATTTTCTAAAAGTATCGACACATATGTTACATCGAAACCGATAA
1069802 TTATAA--TAATAGGTAAATTTACAATGTAACCGGTATACAACAATAAAAAAGCCGGTAAAACTT
651 TTATAATGTAATAGGTAAATTTACAATGTAACCGGTATACAACAATAAAAAAGCCGGTAAAACTT
1069865 ACCGAAAACATCATTATCTTAACAAAACCGGTAAAACGCTACCGGTTTTGTTATTCTTTTTTACC
716 ACCGAAAACATCATTATCTTAACAAAACCGGTAAAACGCTACCGGTTTTGTTATTCTTTTTTACC
1069930 GTTTTTGTTATTGTTAGGC
781 GTTTTTGTTATTGTTAGGC
1069949 ATTTTACCGGAAATGTTAAAAAACATTGATGTTTTAGGTAGAAATAATAATGTTTTAGGTAATTT
1 ATTTTACCGGAAATGTTAAAAAACATTGATGTTTTAGGTAGAAATAATAATGTTTTAGGTAATTT
1070014 TTACCGGTTTTGTTATACCCAACAATAACAAAACCGGTAAAAATAGACTTTTTAATGATAAAATT
66 TTACCGGTTTTGTTATACCCAACAATAACAAAACCGGTAAAAATAGACTTTTTAATGATAAAATT
1070079 AGTAAACACAAATTATA-AAATTAATTTTAATTTTTTAGTTTGTAAGTTGCCACAATATAACTAA
131 AGTAAACACAAATTATACAAATTAATTTTAATTTTTTAGTTTGTAAGTTGCCACAATATAACTAA
1070143 TGAAAAAAAAGACACGATATTTCTATTTCGATATTAGCTTTCTAATAATAAAATAAAAAAATAAA
196 TG-AAAAAAAGACACGATATTTCTATTTCGATATTAGCTTTCTAATAATAAAATAAAAAAATAAA
1070208 AAAAATTATATATAATTACAATATAATTTT-AAAAA-ATCATAATGAAGTGATGAAAAATAATCA
260 AAAAATTATATATAATTACAATATAATTTTAAAAAATATCATAATGAAGTGATGAAAAATAATCA
*
1070271 TAATTACAATATAACTATAAAC-TCAAATATAATAAAATAATATTATTTATTAACAAAATAATAA
325 TAATTACAATATAACTATAAACATCAAATACAATAAAATAATATTATTTATTAACAAAATAATAA
1070335 TA-T-TTTTTAAAATATTAGAATAATTTATTTAATATTATTTATGTC-A-A-TATTATTAAAATA
390 TATTATTTTTAAAATATTAGAATAATTTATTTAATATTATTTATGTCAATATTATTATTAAAATA
1070395 TTATATCTATAATTTTATAAATAAAATATTATGATTATTATATGTTATTAAAATAAAATTATTAT
455 TTATATCTATAATTTTATAAATAAAATATTATGATTATTATATGTTATTAAAATAAAATTATTAT
1070460 AAATTATATTTATTATTTATTATAATAAGAATAATATATCATTAATTATATTATAATGAGAGAAT
520 AAATTATATTTATTATTTATTATAATAAGAATAATATATCATTAATTATATTATAATGAGAGAAT
1070525 AGTTAAACATAAGCGTCGATACATTTTCTAAAAGTATCGACACATATGTTACATCGAAACCGATA
585 AGTTAAACATAAGCGTCGATACATTTTCTAAAAGTATCGACACATATGTTACATCGAAACCGATA
1070590 ATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATACAACAATAAAAAAGCCGGTAAAA-T
650 ATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATACAACAATAAAAAAGCCGGTAAAACT
*
1070654 TACCGAAAACATCATTATTTTAACAAAACCGGTAAAACGCTACCGGTTTTGTTATT-TTTTTTAC
715 TACCGAAAACATCATTATCTTAACAAAACCGGTAAAACGCTACCGGTTTTGTTATTCTTTTTTAC
1070718 CGTTTTTGTTATTGTTAGGC
780 CGTTTTTGTTATTGTTAGGC
*
1070738 ATTTTACCGGAAATGTTAAAAAACATTAATGTTTTAGGTAGAAATAATAATGTTTTAGGTAATTT
1 ATTTTACCGGAAATGTTAAAAAACATTGATGTTTTAGGTAGAAATAATAATGTTTTAGGTAATTT
* *
1070803 TTATCGGTTTTGTTATACCCAACAATAACAAAACCGGTAAAAATATACTTTTTAATGATAAAATT
66 TTACCGGTTTTGTTATACCCAACAATAACAAAACCGGTAAAAATAGACTTTTTAATGATAAAATT
1070868 AGTAAACACAAATTATACAAATTAATTTTAATTTTTTAGTTTGTAAGTTGCCACAATATAACTAA
131 AGTAAACACAAATTATACAAATTAATTTTAATTTTTTAGTTTGTAAGTTGCCACAATATAACTAA
1070933 TGAAAAAAAGACACGATATTTCTATTTCGATATTAGCTTTCTAATAATAAAATAAAAAAATAAAA
196 TGAAAAAAAGACACGATATTTCTATTTCGATATTAGCTTTCTAATAATAAAATAAAAAAATAAAA
1070998 AAAATTATATATAATTACAATATAATTTTAAAAAATATCATAATGAAGTGATGAAAAATAATCAT
261 AAAATTATATATAATTACAATATAATTTTAAAAAATATCATAATGAAGTGATGAAAAATAATCAT
1071063 AATTACAATATAACTATAAACATCAAATACAATAAAATAATATTATTTATTAACAAAATAAT-AT
326 AATTACAATATAACTATAAACATCAAATACAATAAAATAATATTATTTATTAACAAAATAATAAT
*
1071127 ATTA-TTTTAAAATATTAGAATAATTTATTTAATATTATTTATGTCAATATTATTATTTAAATAT
391 ATTATTTTTAAAATATTAGAATAATTTATTTAATATTATTTATGTCAATATTATTATTAAAATAT
* * *
1071191 TATATCTATAATTTTATAAATAAAAAATTATGATTATTACATTTTATTAAAATAAAATTATTATA
456 TATATCTATAATTTTATAAATAAAATATTATGATTATTATATGTTATTAAAATAAAATTATTATA
*
1071256 AA-T-TATTTATTATTTATTATAATAA-AAAAATATATCATTAATTATATTATAATGAGAGAATA
521 AATTATATTTATTATTTATTATAATAAGAATAATATATCATTAATTATATTATAATGAGAGAATA
* * * * *
1071318 GTTAAACATATGTGTCAATACATTTTCAAAAAGTATCG--ACATATGTTACATAGAAACCGATAA
586 GTTAAACATAAGCGTCGATACATTTTCTAAAAGTATCGACACATATGTTACATCGAAACCGATAA
* * *
1071381 TTATAATGTAATAGGTAAATTTACAATGTAACAGGTATACAACAATAACAAAA-CCTGTAAAAAA
651 TTATAATGTAATAGGTAAATTTACAATGTAACCGGTATACAACAATAA-AAAAGCCGGT-AAAAC
* * * *
1071445 TTATCGAAAACATCATTATTTTAACAAAACCGGTAAAGCGCTACTGGTTTTGTTATT-TTTTTTA
714 TTACCGAAAACATCATTATCTTAACAAAACCGGTAAAACGCTACCGGTTTTGTTATTCTTTTTTA
* *
1071509 CCG-GTTTGTTATTGTTGGGC
779 CCGTTTTTGTTATTGTTAGGC
***
1071529 ATTTTACCGGAAATGTTAAAAAACATTGATGTTTTAGGTAGAAATAATAATGTTTTTTATAATTT
1 ATTTTACCGGAAATGTTAAAAAACATTGATGTTTTAGGTAGAAATAATAATGTTTTAGGTAATTT
* * * *
1071594 TTACCGGTTTTGTTA-GCTCAACAATAACAAAATCGGTAAAAATAGACATTTTAATGATAAAATT
66 TTACCGGTTTTGTTATACCCAACAATAACAAAACCGGTAAAAATAGACTTTTTAATGATAAAATT
* * * *
1071658 AGTGAACACAGATTATACAAATCAATTTTAA-TTTTT--TTTATAAGTTGCCACAATATAACTAA
131 AGTAAACACAAATTATACAAATTAATTTTAATTTTTTAGTTTGTAAGTTGCCACAATATAACTAA
* *
1071720 TGAAAAAAAGGACATGGTATTTCT-TTTCGATATTAGCTTTC------T--AAT-----AAT-AA
196 TGAAAAAAA-GACACGATATTTCTATTTCGATATTAGCTTTCTAATAATAAAATAAAAAAATAAA
*
1071770 AAGAATTATATATAATTACAATATAATTTTAAAAAA-ATCATAATGAAGTGATGAAAAATAATCA
260 AAAAATTATATATAATTACAATATAATTTTAAAAAATATCATAATGAAGTGATGAAAAATAATCA
* * *
1071834 TAATTACAATATAAATATAAACATCAAATACAATAAAATATTATTATTTATTAACAAAATAATAT
325 TAATTACAATATAACTATAAACATCAAATACAATAAAATAATATTATTTATTAACAAAATAATAA
1071899 TATTATTTTTAAAATATTAGAATAATTTATTTAATATTATTTATGTCAATATTATTATTAAAATA
390 TATTATTTTTAAAATATTAGAATAATTTATTTAATATTATTTATGTCAATATTATTATTAAAATA
* *
1071964 TTGTATCTATAATTTTATAAATAAAA-ATTATGATTATTATATTTTATTAAAATAAAATTATTAT
455 TTATATCTATAATTTTATAAATAAAATATTATGATTATTATATGTTATTAAAATAAAATTATTAT
1072028 AAATTATATTTATTATTTATTATAATAAG---AATATATCATTAA-T-TATTATAATGAGAGAAT
520 AAATTATATTTATTATTTATTATAATAAGAATAATATATCATTAATTATATTATAATGAGAGAAT
* *
1072088 AGTTAAACATATGTGTCGATACATTTTCTAAAAGTATCGACACATATGTTACATCGAAACCGATA
585 AGTTAAACATAAGCGTCGATACATTTTCTAAAAGTATCGACACATATGTTACATCGAAACCGATA
*
1072153 ATTATAATGTAATAGGTAAATTTACAATGTAACTGGTATA
650 ATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATA
1072193 AATATACCGG
Statistics
Matches: 3704, Mismatches: 82, Indels: 106
0.95 0.02 0.03
Matches are distributed among these distances:
771 54 0.01
772 90 0.02
773 157 0.04
774 87 0.02
775 22 0.01
779 3 0.00
781 1 0.00
787 51 0.01
788 12 0.00
789 636 0.17
790 489 0.13
791 712 0.19
792 372 0.10
793 63 0.02
794 70 0.02
795 182 0.05
796 431 0.12
797 42 0.01
798 230 0.06
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.38
Consensus pattern (799 bp):
ATTTTACCGGAAATGTTAAAAAACATTGATGTTTTAGGTAGAAATAATAATGTTTTAGGTAATTT
TTACCGGTTTTGTTATACCCAACAATAACAAAACCGGTAAAAATAGACTTTTTAATGATAAAATT
AGTAAACACAAATTATACAAATTAATTTTAATTTTTTAGTTTGTAAGTTGCCACAATATAACTAA
TGAAAAAAAGACACGATATTTCTATTTCGATATTAGCTTTCTAATAATAAAATAAAAAAATAAAA
AAAATTATATATAATTACAATATAATTTTAAAAAATATCATAATGAAGTGATGAAAAATAATCAT
AATTACAATATAACTATAAACATCAAATACAATAAAATAATATTATTTATTAACAAAATAATAAT
ATTATTTTTAAAATATTAGAATAATTTATTTAATATTATTTATGTCAATATTATTATTAAAATAT
TATATCTATAATTTTATAAATAAAATATTATGATTATTATATGTTATTAAAATAAAATTATTATA
AATTATATTTATTATTTATTATAATAAGAATAATATATCATTAATTATATTATAATGAGAGAATA
GTTAAACATAAGCGTCGATACATTTTCTAAAAGTATCGACACATATGTTACATCGAAACCGATAA
TTATAATGTAATAGGTAAATTTACAATGTAACCGGTATACAACAATAAAAAAGCCGGTAAAACTT
ACCGAAAACATCATTATCTTAACAAAACCGGTAAAACGCTACCGGTTTTGTTATTCTTTTTTACC
GTTTTTGTTATTGTTAGGC
Found at i:1069532 original size:24 final size:25
Alignment explanation
Indices: 1069505--1069573 Score: 76
Period size: 24 Copynumber: 2.9 Consensus size: 25
1069495 AACATCAAAT
1069505 ACAATAA-AATAATATTATTTATTA
1 ACAATAAGAATAATATTATTTATTA
*
1069529 ACAA-AATAATAATATTATTT-TTA
1 ACAATAAGAATAATATTATTTATTA
1069552 A-AATATTAGAATAAT-TTATTTA
1 ACAATA--AGAATAATATTATTTA
1069574 ATATTATTTA
Statistics
Matches: 39, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
22 2 0.05
23 7 0.18
24 23 0.59
25 7 0.18
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.43
Consensus pattern (25 bp):
ACAATAAGAATAATATTATTTATTA
Found at i:1069687 original size:33 final size:32
Alignment explanation
Indices: 1069624--1069687 Score: 76
Period size: 33 Copynumber: 2.0 Consensus size: 32
1069614 ATAATTTTAT
* *
1069624 AAATAAAATATTATGATTATTATATGTTATTA
1 AAATAAAATATTATAATTATTATATATTATTA
*
1069656 AAATAAAATTATTATAAATTA-TATTTATTATT
1 AAATAAAA-TATTAT-AATTATTATATATTATT
1069688 TATTATAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
32 8 0.30
33 15 0.56
34 4 0.15
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (32 bp):
AAATAAAATATTATAATTATTATATATTATTA
Found at i:1070328 original size:21 final size:21
Alignment explanation
Indices: 1070304--1070344 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1070294 CAAATATAAT
*
1070304 AAAATAATATTATTTATTAAC
1 AAAATAATAATATTTATTAAC
*
1070325 AAAATAATAATATTTTTTAA
1 AAAATAATAATATTTATTAA
1070345 AATATTAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (21 bp):
AAAATAATAATATTTATTAAC
Found at i:1070476 original size:33 final size:32
Alignment explanation
Indices: 1070413--1070476 Score: 76
Period size: 33 Copynumber: 2.0 Consensus size: 32
1070403 ATAATTTTAT
* *
1070413 AAATAAAATATTATGATTATTATATGTTATTA
1 AAATAAAATATTATAATTATTATATATTATTA
*
1070445 AAATAAAATTATTATAAATTA-TATTTATTATT
1 AAATAAAA-TATTAT-AATTATTATATATTATT
1070477 TATTATAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
32 8 0.30
33 15 0.56
34 4 0.15
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (32 bp):
AAATAAAATATTATAATTATTATATATTATTA
Found at i:1071168 original size:14 final size:14
Alignment explanation
Indices: 1071149--1071193 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
1071139 TATTAGAATA
1071149 ATTTATTTAATATT
1 ATTTATTTAATATT
*
1071163 ATTTATGTCAATATT
1 ATTTAT-TTAATATT
1071178 A-TTATTTAAATATT
1 ATTTATTT-AATATT
1071192 AT
1 AT
1071194 ATCTATAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
13 1 0.04
14 17 0.65
15 8 0.31
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (14 bp):
ATTTATTTAATATT
Found at i:1071890 original size:24 final size:24
Alignment explanation
Indices: 1071863--1071914 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
1071853 AACATCAAAT
1071863 ACAATAA-AATATTATTATTTATTA
1 ACAATAATAATATTATTATTT-TTA
1071887 ACAA-AATAATATTATTATTTTTA
1 ACAATAATAATATTATTATTTTTA
1071910 A-AATA
1 ACAATA
1071915 TTAGAATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
22 2 0.08
23 7 0.27
24 17 0.65
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (24 bp):
ACAATAATAATATTATTATTTTTA
Found at i:1072023 original size:30 final size:32
Alignment explanation
Indices: 1071975--1072042 Score: 83
Period size: 30 Copynumber: 2.3 Consensus size: 32
1071965 TGTATCTATA
*
1071975 ATTTTA-T-AAATAAAAATTATGAT-TATTAT
1 ATTTTATTAAAATAAAAATTATGATAAATTAT
*
1072004 ATTTTATTAAAAT-AAAATTATTATAAATTAT
1 ATTTTATTAAAATAAAAATTATGATAAATTAT
1072035 A-TTTATTA
1 ATTTTATTA
1072043 TTTATTATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
29 6 0.18
30 18 0.53
31 10 0.29
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (32 bp):
ATTTTATTAAAATAAAAATTATGATAAATTAT
Found at i:1072719 original size:23 final size:23
Alignment explanation
Indices: 1072692--1072744 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
1072682 TTCCGGTTAA
**
1072692 ATACCTATTTTATTATATAAGCG
1 ATACCTATTACATTATATAAGCG
*
1072715 CTACCTATTACATTATATAAGCG
1 ATACCTATTACATTATATAAGCG
1072738 ATACCTA
1 ATACCTA
1072745 ATATGTTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.36, C:0.19, G:0.08, T:0.38
Consensus pattern (23 bp):
ATACCTATTACATTATATAAGCG
Found at i:1072820 original size:87 final size:87
Alignment explanation
Indices: 1072620--1072952 Score: 521
Period size: 87 Copynumber: 3.9 Consensus size: 87
1072610 AAATATGTCA
*
1072620 ATATAAGCGCTACCTATTACATTATATAAAC-ACTACCTAATATGTTATTGTACTTGATAATA-T
1 ATATAAGCGCTACCTATTACATTATATAAGCGA-TACCTAATATGTTATTGTACTTGATAATATT
1072683 TCCGGTTAAATACCTATTTTATT
65 TCCGGTTAAATACCTATTTTATT
1072706 ATATAAGCGCTACCTATTACATTATATAAGCGATACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGCGATACCTAATATGTTATTGTACTTGATAATATTT
*
1072771 CCGGTTAAATACATATTTTATT
66 CCGGTTAAATACCTATTTTATT
* * * * * *
1072793 ATATAAGCGCTACGTATTACATTATATAAGTGCTACCTAATATGTTATTGAACATGATAATATTC
1 ATATAAGCGCTACCTATTACATTATATAAGCGATACCTAATATGTTATTGTACTTGATAATATTT
1072858 CCGGTTAAATACCTATTTTATT
66 CCGGTTAAATACCTATTTTATT
* * * *
1072880 GTATAAGCGTTACCTATTACA-T-TATAAGCGCTACCTAATATATTATTGTACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGCGATACCTAATATGTTATTGTACTTGATAATATTT
1072943 CCGGTTAAAT
66 CCGGTTAAAT
1072953 GATATAACAT
Statistics
Matches: 228, Mismatches: 17, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
85 46 0.20
86 60 0.26
87 122 0.54
ACGTcount: A:0.34, C:0.15, G:0.11, T:0.40
Consensus pattern (87 bp):
ATATAAGCGCTACCTATTACATTATATAAGCGATACCTAATATGTTATTGTACTTGATAATATTT
CCGGTTAAATACCTATTTTATT
Found at i:1072840 original size:23 final size:23
Alignment explanation
Indices: 1072790--1072834 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
1072780 TACATATTTT
* *
1072790 ATTATATAAGCGCTACGTATTAC
1 ATTATATAAGCGCTACCTAATAC
*
1072813 ATTATATAAGTGCTACCTAATA
1 ATTATATAAGCGCTACCTAATA
1072835 TGTTATTGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.36
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTAATAC
Found at i:1072907 original size:21 final size:21
Alignment explanation
Indices: 1072881--1072925 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1072871 TATTTTATTG
* *
1072881 TATAAGCGTTACCTATTACAT
1 TATAAGCGCTACCTAATACAT
*
1072902 TATAAGCGCTACCTAATATAT
1 TATAAGCGCTACCTAATACAT
1072923 TAT
1 TAT
1072926 TGTACTTGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.36, C:0.18, G:0.09, T:0.38
Consensus pattern (21 bp):
TATAAGCGCTACCTAATACAT
Found at i:1073442 original size:30 final size:30
Alignment explanation
Indices: 1073408--1073513 Score: 117
Period size: 30 Copynumber: 3.5 Consensus size: 30
1073398 GTTATGCTAT
1073408 TGTTCGTTTATTTATTTTTGAAGGTGTTCG
1 TGTTCGTTTATTTATTTTTGAAGGTGTTCG
* ** * *
1073438 TGTTCGTTTA--AATTTTAAATATCGTGTTCA
1 TGTTCGTTTATTTATTTTTGA-A-GGTGTTCG
*
1073468 TGTTCGTTTATTTATTTTTGAAGGTGTTAG
1 TGTTCGTTTATTTATTTTTGAAGGTGTTCG
*
1073498 TGTTCATTTATTTATT
1 TGTTCGTTTATTTATT
1073514 GTTCACGAAC
Statistics
Matches: 60, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
28 6 0.10
29 1 0.02
30 46 0.77
31 1 0.02
32 6 0.10
ACGTcount: A:0.19, C:0.07, G:0.18, T:0.57
Consensus pattern (30 bp):
TGTTCGTTTATTTATTTTTGAAGGTGTTCG
Found at i:1073677 original size:22 final size:22
Alignment explanation
Indices: 1073646--1073693 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
1073636 AACATTTTTC
1073646 GTTTAACGTTCATTTAGTGTTA
1 GTTTAACGTTCATTTAGTGTTA
* ** *
1073668 GTTTAGCGTTGTTTTAGTGTTT
1 GTTTAACGTTCATTTAGTGTTA
1073690 GTTT
1 GTTT
1073694 TTCGTTATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.15, C:0.06, G:0.23, T:0.56
Consensus pattern (22 bp):
GTTTAACGTTCATTTAGTGTTA
Found at i:1075607 original size:32 final size:32
Alignment explanation
Indices: 1075571--1075654 Score: 100
Period size: 31 Copynumber: 2.7 Consensus size: 32
1075561 ACTTCTTTGT
* *
1075571 ATTATCTAAATACAACACTGACAT-TCCTCTGC
1 ATTATCTAAATGCAACACTGA-ATCTACTCTGC
* *
1075603 ATTATCTAAATGCAACA-TGAATCTATTGTGC
1 ATTATCTAAATGCAACACTGAATCTACTCTGC
*
1075634 ATTATCTGAATGCAACACTGA
1 ATTATCTAAATGCAACACTGA
1075655 TAGCATATGG
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
30 2 0.04
31 24 0.53
32 19 0.42
ACGTcount: A:0.36, C:0.21, G:0.11, T:0.32
Consensus pattern (32 bp):
ATTATCTAAATGCAACACTGAATCTACTCTGC
Found at i:1094169 original size:3 final size:3
Alignment explanation
Indices: 1094161--1094224 Score: 76
Period size: 3 Copynumber: 21.0 Consensus size: 3
1094151 AATATTTATT
*
1094161 TAA TAA TAA TAA TAA -ATA TAA TAA TAA TAA TAA TAA TGTA TAA TAA
1 TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA T-AA TAA TAA
* *
1094207 TAA AAA TAA TAA AAA TAA
1 TAA TAA TAA TAA TAA TAA
1094225 AAAAACAAAC
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
2 1 0.02
3 48 0.92
4 3 0.06
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:1103785 original size:139 final size:138
Alignment explanation
Indices: 1103535--1103857 Score: 488
Period size: 139 Copynumber: 2.3 Consensus size: 138
1103525 AGTCAAGCAA
* *
1103535 AAGGTTGAACAAGTTCTTCTCATTATAAACTTTTCTCCCTCATCGGATGAGTTTTTCTCATTATG
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTTTCTCCCTCATCGGATGAGTTCTTCTCATTATG
* * * *** *
1103600 AAATCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTGTTGTTGATTCAACTCCATATGT-TATG
66 AAATCTCCACTAGAAACGTTGATCCCTCGAGTGAGGGGTCACTGATTCAACTCCATAT-TCGATG
1103664 AATTGAGCT
130 AATTGAGCT
* *
1103673 AAGGTTAAACAAGTTCTTCTCATTATGAACTTATTTTCCCTCATCGGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTT-TTCTCCCTCATCGGATGAGTTCTTCTCATTAT
*
1103738 -AAACTCTCCATTAGAAACGTTGATCCCTCGAGTGAGGGGTCACTGATTCAACTCCATATTCGAT
65 GAAA-TCTCCACTAGAAACGTTGATCCCTCGAGTGAGGGGTCACTGATTCAACTCCATATTCGAT
1103802 GAATTGAGCT
129 GAATTGAGCT
1103812 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCG
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTT-TTCTCCCTCATCG
1103858 AACGATTCTC
Statistics
Matches: 167, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
138 34 0.20
139 133 0.80
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (138 bp):
AAGGTTGAACAAGTTCTTCTCATTATGAACTTTTCTCCCTCATCGGATGAGTTCTTCTCATTATG
AAATCTCCACTAGAAACGTTGATCCCTCGAGTGAGGGGTCACTGATTCAACTCCATATTCGATGA
ATTGAGCT
Found at i:1104145 original size:253 final size:251
Alignment explanation
Indices: 1103673--1104171 Score: 779
Period size: 253 Copynumber: 2.0 Consensus size: 251
1103663 GAATTGAGCT
*
1103673 AAGGTTAAACAAGTTCTTCTCATTATGAACTTATTTTCCCTCATCGGATGAGTTCTTCTCATTAT
1 AAGGTTAAACAAGTTCTTCTCATTATGAACTTATTCTCCCTCATCGGATGAGTTCTTCTCATTAT
* * *
1103738 AAACTCTCCATTAGAAACGTTGATCCCTCGAGTGAGGGGTCACTGATTCAACTCCATATTCGATG
66 AAACTCTCCACTAGAAACGTTGATCCCTCGAGTGAGGGGTCACTGATTCAACTCCATATGCGATA
*
1103803 AATTGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGAACGATTCTC
131 AATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAA--TCTTCTCCCTCATCGAACGATTCTC
*
1103868 ATTATGAACCCTCCACTGGAAATGATGATCCACCTCATTCTGTGACGGATTTTAGCAA
194 ATTATGAACCATCCACTGGAAATGATGATCCACCTCATTCTGTGACGGATTTTAGCAA
* *
1103926 AAGGTTGAACAAGTTCTTCTCATTATGAACTTATTCTCCCTTATCGGATGAGTTCTTCTCATTAT
1 AAGGTTAAACAAGTTCTTCTCATTATGAACTTATTCTCCCTCATCGGATGAGTTCTTCTCATTAT
* * * *
1103991 GAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGGGTCACTGATTTAACTCCATATGCGATA
66 AAACTCTCCACTAGAAACGTTGATCCCTCGAGTGAGGGGTCACTGATTCAACTCCATATGCGATA
*
1104056 AATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAA-CTTCTCCCTCATCAGATATG-TTCTT
131 AATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAATCTTCTCCCTCATC-GA-ACGATTC--
* *
1104119 TTCATTATGAACTATCCACT-GAAATGATGATCCACCTCATTCTGTGATGGATT
192 -TCATTATGAACCATCCACTGGAAATGATGATCCACCTCATTCTGTGACGGATT
1104172 CAATATTTTC
Statistics
Matches: 226, Mismatches: 15, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
250 13 0.06
251 5 0.02
252 2 0.01
253 189 0.84
254 17 0.08
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.34
Consensus pattern (251 bp):
AAGGTTAAACAAGTTCTTCTCATTATGAACTTATTCTCCCTCATCGGATGAGTTCTTCTCATTAT
AAACTCTCCACTAGAAACGTTGATCCCTCGAGTGAGGGGTCACTGATTCAACTCCATATGCGATA
AATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAATCTTCTCCCTCATCGAACGATTCTCAT
TATGAACCATCCACTGGAAATGATGATCCACCTCATTCTGTGACGGATTTTAGCAA
Found at i:1104474 original size:37 final size:36
Alignment explanation
Indices: 1104411--1105105 Score: 326
Period size: 36 Copynumber: 19.1 Consensus size: 36
1104401 GAATGAAAAG
* **
1104411 AAATTTGTTTGAAGATGAACTATCTCAAGTGAGATA
1 AAATTTGTTTTAAGAAAAACTATCTCAAGTGAGATA
* * * **
1104447 AAATTTGTTTTGAGGGAAAACTGTCTCAAGTGAGACG
1 AAATTTGTTTT-AAGAAAAACTATCTCAAGTGAGATA
* * *
1104484 AAGTTTGTTTTAAGAAAAACAATCTCGAGTGAGATA
1 AAATTTGTTTTAAGAAAAACTATCTCAAGTGAGATA
* ** * *
1104520 AAATTTCTTGTTTCAAGTGAAACAATTTCAA---A-AT-
1 AAA--T-TTGTTTTAAGAAAAACTATCTCAAGTGAGATA
* * * * * * * *
1104554 ---TTATATTTCAAGTAAAATTTTCTCTAGCGAGATG
1 AAATT-TGTTTTAAGAAAAACTATCTCAAGTGAGATA
**
1104588 AAATTTGTTTTAAGAAAAACTATCTTGAGTGAGATA
1 AAATTTGTTTTAAGAAAAACTATCTCAAGTGAGATA
* * * * *
1104624 AAATTTCTTGGTTCAAGTGAAGCAATTGTCTCAAGTGAGACA
1 AAATTTGTT--TT-AA--GAA-AAACTATCTCAAGTGAGATA
* *
1104666 AAGTTTGTTTTAAGAAAAACTATCTCGAGTGAGATA
1 AAATTTGTTTTAAGAAAAACTATCTCAAGTGAGATA
* ** ** * * *
1104702 AATTTCTGTTTCGAGTGAAACTGTCTCAAGCGAGA-G
1 AAATT-TGTTTTAAGAAAAACTATCTCAAGTGAGATA
** *
1104738 AAATCAGTTTTAAGAAAAACTATCTCGAGTGAGATA
1 AAATTTGTTTTAAGAAAAACTATCTCAAGTGAGATA
* * * ** * * *
1104774 AATTTCTTTTTTGAGTGAAACTGTCTCAAGCGAGA-C
1 AAATT-TGTTTTAAGAAAAACTATCTCAAGTGAGATA
*
1104810 AAATCTTGTTTTAAGAAAAACTAT-TCGAGTGAGATA
1 AAAT-TTGTTTTAAGAAAAACTATCTCAAGTGAGATA
* ** ** *
1104846 AATTTCTGTTTCGAGTGAAACTATCTCAAGCGAGA-A
1 AAATT-TGTTTTAAGAAAAACTATCTCAAGTGAGATA
* *
1104882 AAATCTTGTTTTAAGAAAAACTATATCGAGTGAGAT-
1 AAAT-TTGTTTTAAGAAAAACTATCTCAAGTGAGATA
* * ** * * * *
1104918 AAATTTCTATTTCGAGTGAAACTGTCACAAGCGAGA-C
1 AAATTTGT-TTT-AAGAAAAACTATCTCAAGTGAGATA
*
1104955 AAATCTTGTTTTAAGAAAAACTATCTCGAGTGAGATA
1 AAAT-TTGTTTTAAGAAAAACTATCTCAAGTGAGATA
* * * *
1104992 AATTTCTGTTTT--GAATGAAACTGTCTCAAGCGAGA-C
1 AAATT-TGTTTTAAGAA--AAACTATCTCAAGTGAGATA
* *
1105028 AAATCTTGTTTTAAGAAAAACAATCTCAATTGAGATA
1 AAAT-TTGTTTTAAGAAAAACTATCTCAAGTGAGATA
* * ** *
1105065 AAATTTATGTTCAAGCGAAACTATCTAAAGTGAGATA
1 AAATTTGT-TTTAAGAAAAACTATCTCAAGTGAGATA
1105102 AAAT
1 AAAT
1105106 CTTTGCTTCA
Statistics
Matches: 475, Mismatches: 143, Indels: 81
0.68 0.20 0.12
Matches are distributed among these distances:
28 1 0.00
29 17 0.04
32 1 0.00
33 2 0.00
35 38 0.08
36 195 0.41
37 163 0.34
38 9 0.02
39 23 0.05
40 2 0.00
41 3 0.01
42 21 0.04
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.33
Consensus pattern (36 bp):
AAATTTGTTTTAAGAAAAACTATCTCAAGTGAGATA
Found at i:1104828 original size:145 final size:146
Alignment explanation
Indices: 1104574--1105066 Score: 724
Period size: 145 Copynumber: 3.4 Consensus size: 146
1104564 AGTAAAATTT
* * *
1104574 TCTCTAGCGAGATGAAAT-TTGTTTTAAGAAAAACTATCTTGAGTGAGATAAAATTTCTTGGTTC
1 TCTCAAGCGAGA-GAAATCTTGTTTTAAGAAAAACTATCTCGAGTGAGAT-AAATTTCTT-TTTC
* * *
1104638 AAGTGAAGCAATTGTCTCAAGTGAGACAAAGT-TTGTTTTAAGAAAAACTATCTCGAGTGAGATA
63 GAGTG-A--AACTGTCTCAAGCGAGACAAA-TCTTGTTTTAAGAAAAACTATCTCGAGTGAGATA
1104702 AATTTCTGTTTCGAGTGAAACTG
124 AATTTCTGTTTCGAGTGAAACTG
* *
1104725 TCTCAAGCGAGAGAAATC-AGTTTTAAGAAAAACTATCTCGAGTGAGATAAATTTCTTTTTTGAG
1 TCTCAAGCGAGAGAAATCTTGTTTTAAGAAAAACTATCTCGAGTGAGATAAATTTCTTTTTCGAG
1104789 TGAAACTGTCTCAAGCGAGACAAATCTTGTTTTAAGAAAAACTAT-TCGAGTGAGATAAATTTCT
66 TGAAACTGTCTCAAGCGAGACAAATCTTGTTTTAAGAAAAACTATCTCGAGTGAGATAAATTTCT
*
1104853 GTTTCGAGTGAAACTA
131 GTTTCGAGTGAAACTG
* * *
1104869 TCTCAAGCGAGAAAAATCTTGTTTTAAGAAAAACTATATCGAGTGAGATAAATTTCTATTTCGAG
1 TCTCAAGCGAGAGAAATCTTGTTTTAAGAAAAACTATCTCGAGTGAGATAAATTTCTTTTTCGAG
*
1104934 TGAAACTGTCACAAGCGAGACAAATCTTGTTTTAAGAAAAACTATCTCGAGTGAGATAAATTTCT
66 TGAAACTGTCTCAAGCGAGACAAATCTTGTTTTAAGAAAAACTATCTCGAGTGAGATAAATTTCT
* *
1104999 GTTTTGAATGAAACTG
131 GTTTCGAGTGAAACTG
* * * *
1105015 TCTCAAGCGAGACAAATCTTGTTTTAAGAAAAACAATCTCAATTGAGATAAA
1 TCTCAAGCGAGAGAAATCTTGTTTTAAGAAAAACTATCTCGAGTGAGATAAA
1105067 ATTTATGTTC
Statistics
Matches: 315, Mismatches: 23, Indels: 13
0.90 0.07 0.04
Matches are distributed among these distances:
144 52 0.17
145 124 0.39
146 79 0.25
147 1 0.00
148 6 0.02
149 9 0.03
150 33 0.10
151 11 0.03
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (146 bp):
TCTCAAGCGAGAGAAATCTTGTTTTAAGAAAAACTATCTCGAGTGAGATAAATTTCTTTTTCGAG
TGAAACTGTCTCAAGCGAGACAAATCTTGTTTTAAGAAAAACTATCTCGAGTGAGATAAATTTCT
GTTTCGAGTGAAACTG
Found at i:1104949 original size:73 final size:73
Alignment explanation
Indices: 1104574--1105075 Score: 706
Period size: 73 Copynumber: 6.8 Consensus size: 73
1104564 AGTAAAATTT
* * * *
1104574 TCTCTAGCGAGATGAAAT-TTGTTTTAAGAAAAACTATCTTGAGTGAGATAAAATTTCTTGGTTC
1 TCTCAAGCGAGA-CAAATCTTGTTTTAAGAAAAACTATCTCGAGTGAGAT-AAATTTC-TGTTTC
* *
1104638 AAGTGAAGCAATTG
63 GAGTG-A--AACTG
*
1104652 TCTCAAGTGAGACAAAGT-TTGTTTTAAGAAAAACTATCTCGAGTGAGATAAATTTCTGTTTCGA
1 TCTCAAGCGAGACAAA-TCTTGTTTTAAGAAAAACTATCTCGAGTGAGATAAATTTCTGTTTCGA
1104716 GTGAAACTG
65 GTGAAACTG
* * * *
1104725 TCTCAAGCGAGAGAAATC-AGTTTTAAGAAAAACTATCTCGAGTGAGATAAATTTCTTTTTTGAG
1 TCTCAAGCGAGACAAATCTTGTTTTAAGAAAAACTATCTCGAGTGAGATAAATTTCTGTTTCGAG
1104789 TGAAACTG
66 TGAAACTG
1104797 TCTCAAGCGAGACAAATCTTGTTTTAAGAAAAACTAT-TCGAGTGAGATAAATTTCTGTTTCGAG
1 TCTCAAGCGAGACAAATCTTGTTTTAAGAAAAACTATCTCGAGTGAGATAAATTTCTGTTTCGAG
*
1104861 TGAAACTA
66 TGAAACTG
* * *
1104869 TCTCAAGCGAGAAAAATCTTGTTTTAAGAAAAACTATATCGAGTGAGATAAATTTCTATTTCGAG
1 TCTCAAGCGAGACAAATCTTGTTTTAAGAAAAACTATCTCGAGTGAGATAAATTTCTGTTTCGAG
1104934 TGAAACTG
66 TGAAACTG
* * *
1104942 TCACAAGCGAGACAAATCTTGTTTTAAGAAAAACTATCTCGAGTGAGATAAATTTCTGTTTTGAA
1 TCTCAAGCGAGACAAATCTTGTTTTAAGAAAAACTATCTCGAGTGAGATAAATTTCTGTTTCGAG
1105007 TGAAACTG
66 TGAAACTG
* * * *
1105015 TCTCAAGCGAGACAAATCTTGTTTTAAGAAAAACAATCTCAATTGAGATAAAATTTATGTT
1 TCTCAAGCGAGACAAATCTTGTTTTAAGAAAAACTATCTCGAGTGAGAT-AAATTTCTGTT
1105076 CAAGCGAAAC
Statistics
Matches: 388, Mismatches: 31, Indels: 14
0.90 0.07 0.03
Matches are distributed among these distances:
72 137 0.35
73 180 0.46
74 10 0.03
75 1 0.00
76 9 0.02
77 10 0.03
78 41 0.11
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (73 bp):
TCTCAAGCGAGACAAATCTTGTTTTAAGAAAAACTATCTCGAGTGAGATAAATTTCTGTTTCGAG
TGAAACTG
Found at i:1110324 original size:29 final size:30
Alignment explanation
Indices: 1110293--1110372 Score: 94
Period size: 34 Copynumber: 2.6 Consensus size: 30
1110283 AAATGAAAAA
1110293 AAAATACAAAAAA-ATAAAAGA-AAAAATT
1 AAAATACAAAAAATATAAAAGAGAAAAATT
*
1110321 AAAATACAATAATTAAATATAAAAGAGATAAATT
1 AAAATAC-A-AA--AAATATAAAAGAGAAAAATT
1110355 AAAATA-AAAAAATATAAA
1 AAAATACAAAAAATATAAA
1110373 GCTGAAGTTA
Statistics
Matches: 45, Mismatches: 1, Indels: 11
0.79 0.02 0.19
Matches are distributed among these distances:
28 7 0.16
29 10 0.22
30 2 0.04
31 2 0.04
32 4 0.09
33 8 0.18
34 12 0.27
ACGTcount: A:0.74, C:0.03, G:0.04, T:0.20
Consensus pattern (30 bp):
AAAATACAAAAAATATAAAAGAGAAAAATT
Found at i:1112301 original size:21 final size:21
Alignment explanation
Indices: 1112277--1112318 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1112267 TACGATAATA
1112277 TCATACCA-AATCATATACAAT
1 TCATA-CATAATCATATACAAT
*
1112298 TCATACATACTCATATACAAT
1 TCATACATAATCATATACAAT
1112319 CATTTCCATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.45, C:0.24, G:0.00, T:0.31
Consensus pattern (21 bp):
TCATACATAATCATATACAAT
Found at i:1112654 original size:21 final size:22
Alignment explanation
Indices: 1112595--1112668 Score: 78
Period size: 21 Copynumber: 3.3 Consensus size: 22
1112585 CCACTAGGGG
* *
1112595 CACATAGAATTTGTACCGAAGGAC
1 CACATAGAA--TGTCCCAAAGGAC
*
1112619 CGCATAGAAATGTCCCAAAGGAC
1 CACATAG-AATGTCCCAAAGGAC
*
1112642 CACATAG-ATGTCCCGAAGGAC
1 CACATAGAATGTCCCAAAGGAC
1112663 CACATA
1 CACATA
1112669 TAACACATAT
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
21 19 0.43
23 17 0.39
24 6 0.14
25 2 0.05
ACGTcount: A:0.38, C:0.26, G:0.20, T:0.16
Consensus pattern (22 bp):
CACATAGAATGTCCCAAAGGAC
Found at i:1113639 original size:19 final size:19
Alignment explanation
Indices: 1113617--1113664 Score: 96
Period size: 19 Copynumber: 2.5 Consensus size: 19
1113607 CCTTCTATGT
1113617 TATCGATACCCCTCCTCGG
1 TATCGATACCCCTCCTCGG
1113636 TATCGATACCCCTCCTCGG
1 TATCGATACCCCTCCTCGG
1113655 TATCGATACC
1 TATCGATACC
1113665 ATTTTGCCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.19, C:0.40, G:0.15, T:0.27
Consensus pattern (19 bp):
TATCGATACCCCTCCTCGG
Found at i:1116542 original size:42 final size:42
Alignment explanation
Indices: 1116333--1116854 Score: 602
Period size: 43 Copynumber: 12.2 Consensus size: 42
1116323 TGTAAAATAA
* *
1116333 AAACGCCGCAGAAA-GTCAAGATCTATAGCGGCATTTTTGAAAC
1 AAACGCCGCA-AAAGGTC-AGATCTATAGCGGCGTTTTTGGAAC
* * *
1116376 AAACGCTGCAAAAGGTCGAGATCTATAGCAGCATTTTTGGATAC
1 AAACGCCGCAAAAGGTC-AGATCTATAGCGGCGTTTTTGGA-AC
1116420 AAACGCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGAAC
1 AAACGCCGCAAAAGGTC-AGATCTATAGCGGCGTTTTTGGAAC
* *
1116463 AAACGTCGCAAGAA-GTCAAGATCTATAGCGGCGTTTTTGCAAC
1 AAACGCCGCAA-AAGGTC-AGATCTATAGCGGCGTTTTTGGAAC
* * **
1116506 AAACGCCACAAAAGGTCAGATCTATAGCGGCATTTTTACAAC
1 AAACGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGGAAC
*
1116548 AAACGCCGCAAAAGTTCAGATCTATAGCGGCGTTTTTGGAAC
1 AAACGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGGAAC
* * * * **
1116590 AAATGCCGCAAAAAGTCAAGATCTATAGCAGTGTTTTTACAAC
1 AAACGCCGCAAAAGGTC-AGATCTATAGCGGCGTTTTTGGAAC
* *
1116633 AAACGCCACAAAAGGTCAGATCTATAGCGGCATTTTTGGATAC
1 AAACGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGGA-AC
* * * *
1116676 AAACGCAGCAAAAGGTCAGATTTATAGTGGCG-TTTTGTATAC
1 AAACGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGGA-AC
* * *
1116718 AAACGCTGCAAAAAGTCAGATCTATAGCGGCGTTTTTGTATAC
1 AAACGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGGA-AC
* * *
1116761 AAATGCCGCAAAAGGTCAGATCTATAACGGCGTTTTTTGATAC
1 AAACGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGGA-AC
* * *
1116804 AAACGCCGCAAAAGGTCATATTTATAGCGGCGTTTTT-TATAC
1 AAACGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGGA-AC
1116846 AAACGCCGC
1 AAACGCCGC
1116855 TAATTTCCAT
Statistics
Matches: 417, Mismatches: 55, Indels: 15
0.86 0.11 0.03
Matches are distributed among these distances:
42 147 0.35
43 228 0.55
44 42 0.10
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.25
Consensus pattern (42 bp):
AAACGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGGAAC
Found at i:1116550 original size:85 final size:85
Alignment explanation
Indices: 1116333--1116854 Score: 619
Period size: 85 Copynumber: 6.1 Consensus size: 85
1116323 TGTAAAATAA
* *
1116333 AAACGCCGCAGAAA-GTCAAGATCTATAGCGGCATTTTTGAAACAAACGCTGCAAAAGGTCGAGA
1 AAACGCCGCA-AAAGGTCAAGATCTATAGCGGCGTTTTT-AAACAAACGCCGCAAAAGGTC-AGA
* *
1116397 TCTATAGCAGCATTTTTGGATAC
63 TCTATAGCGGCGTTTTTGGATAC
* * *
1116420 AAACGCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGAACAAACGTCGCAAGAA-GTCAAGA
1 AAACGCCGCAAAAGGTCAAGATCTATAGCGGCGTTTTT-AAACAAACGCCGCAA-AAGGTC-AGA
*
1116484 TCTATAGCGGCGTTTTTGCA-AC
63 TCTATAGCGGCGTTTTTGGATAC
* * *
1116506 AAACGCCACAAAAGGTC-AGATCTATAGCGGCATTTTTACAACAAACGCCGCAAAAGTTCAGATC
1 AAACGCCGCAAAAGGTCAAGATCTATAGCGGCGTTTTTA-AACAAACGCCGCAAAAGGTCAGATC
1116570 TATAGCGGCGTTTTTGGA-AC
65 TATAGCGGCGTTTTTGGATAC
* * * * *
1116590 AAATGCCGCAAAAAGTCAAGATCTATAGCAGTGTTTTTACAACAAACGCCACAAAAGGTCAGATC
1 AAACGCCGCAAAAGGTCAAGATCTATAGCGGCGTTTTTA-AACAAACGCCGCAAAAGGTCAGATC
*
1116655 TATAGCGGCATTTTTGGATAC
65 TATAGCGGCGTTTTTGGATAC
* * * * * *
1116676 AAACGCAGCAAAAGGTC-AGATTTATAGTGGCGTTTTGTATACAAACGCTGCAAAAAGTCAGATC
1 AAACGCCGCAAAAGGTCAAGATCTATAGCGGCGTTTT-TAAACAAACGCCGCAAAAGGTCAGATC
*
1116740 TATAGCGGCGTTTTTGTATAC
65 TATAGCGGCGTTTTTGGATAC
* * * *
1116761 AAATGCCGCAAAAGGTC-AGATCTATAACGGCGTTTTTTGATACAAACGCCGCAAAAGGTCATAT
1 AAACGCCGCAAAAGGTCAAGATCTATAGCGGCG-TTTTT-AAACAAACGCCGCAAAAGGTCAGAT
* *
1116825 TTATAGCGGCGTTTTT-TATAC
64 CTATAGCGGCGTTTTTGGATAC
1116846 AAACGCCGC
1 AAACGCCGC
1116855 TAATTTCCAT
Statistics
Matches: 379, Mismatches: 47, Indels: 20
0.85 0.11 0.04
Matches are distributed among these distances:
84 40 0.11
85 189 0.50
86 80 0.21
87 68 0.18
88 2 0.01
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.25
Consensus pattern (85 bp):
AAACGCCGCAAAAGGTCAAGATCTATAGCGGCGTTTTTAAACAAACGCCGCAAAAGGTCAGATCT
ATAGCGGCGTTTTTGGATAC
Found at i:1120670 original size:41 final size:41
Alignment explanation
Indices: 1120625--1121049 Score: 467
Period size: 41 Copynumber: 10.3 Consensus size: 41
1120615 TATAAGTGTA
* *
1120625 TAGCGGCGTTTGAATAAAAATTCCACTAAAGTACGAGTCTT
1 TAGCGGCGTTTGTATAAAAATGCCACTAAAGTACGAGTCTT
* *
1120666 TAGCGGCGTTTGTATAAAAATGTCAATAAAGTACGAGTCTT
1 TAGCGGCGTTTGTATAAAAATGCCACTAAAGTACGAGTCTT
*
1120707 TAGCGGCGTTTGTATAAAAATGCCACTAAATTACGAGTCTT
1 TAGCGGCGTTTGTATAAAAATGCCACTAAAGTACGAGTCTT
* * * * * *
1120748 TAGCGACGTTTGTA-AACGCAAACGCCACTATAGTACAAGTGTA
1 TAGCGGCGTTTGTATAA---AAATGCCACTAAAGTACGAGTCTT
* * * * *
1120791 TAACGGCGTTTGAATAAAAATACCACTAAAGTACGTGTATT
1 TAGCGGCGTTTGTATAAAAATGCCACTAAAGTACGAGTCTT
* * *
1120832 TAGCGGAGTTTGTATAAAAACGCCACTAAAGTATGAGTCTT
1 TAGCGGCGTTTGTATAAAAATGCCACTAAAGTACGAGTCTT
* * * * *
1120873 TAGCGGCGTTTGTAAACACAAACGCCACTATAGTAC-ATGTGTA
1 TAGCGGCGTTTGTATA-A-AAATGCCACTAAAGTACGA-GTCTT
* ** * *
1120916 TAACGGCGTTTGTATAAAAATGCCACTAAAGTATAATTCTA
1 TAGCGGCGTTTGTATAAAAATGCCACTAAAGTACGAGTCTT
* *
1120957 TAGCGACGTTTGTATAAAAATGCCACTAAATTACGAGTCTT
1 TAGCGGCGTTTGTATAAAAATGCCACTAAAGTACGAGTCTT
* * *
1120998 TAGCGGCGTTTGTATAAAAACGCCACTAAAGTACTACTCTT
1 TAGCGGCGTTTGTATAAAAATGCCACTAAAGTACGAGTCTT
*
1121039 TTGCGGCGTTT
1 TAGCGGCGTTT
1121050 ATTGAAAAAA
Statistics
Matches: 318, Mismatches: 58, Indels: 16
0.81 0.15 0.04
Matches are distributed among these distances:
40 2 0.01
41 249 0.78
42 4 0.01
43 61 0.19
44 2 0.01
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.30
Consensus pattern (41 bp):
TAGCGGCGTTTGTATAAAAATGCCACTAAAGTACGAGTCTT
Found at i:1120808 original size:125 final size:124
Alignment explanation
Indices: 1120669--1121031 Score: 523
Period size: 125 Copynumber: 2.9 Consensus size: 124
1120659 GAGTCTTTAG
* *
1120669 CGGCGTTTGTATAAAAATGTCAATAAAGTACGAGTCTTTAGCGGCGTTTGTATAAAAATGCCACT
1 CGGCGTTTGTATAAAAATGCCACTAAAGTACGAGTCTTTAGCGGCGTTTGTATAAAAATGCCACT
*
1120734 AAATTACGAGTCTTTAGCGACGTTTGTAAACGCAAACGCCACTATAGTACAAGTGTATAA
66 AAATTACGAGTCTTTAGCGGCGTTTGTAAAC-CAAACGCCACTATAGTACAAGTGTATAA
* * * * * *
1120794 CGGCGTTTGAATAAAAATACCACTAAAGTACGTGTATTTAGCGGAGTTTGTATAAAAACGCCACT
1 CGGCGTTTGTATAAAAATGCCACTAAAGTACGAGTCTTTAGCGGCGTTTGTATAAAAATGCCACT
* * *
1120859 AAAGTATGAGTCTTTAGCGGCGTTTGTAAACACAAACGCCACTATAGTACATGTGTATAA
66 AAATTACGAGTCTTTAGCGGCGTTTGTAAAC-CAAACGCCACTATAGTACAAGTGTATAA
** * * *
1120919 CGGCGTTTGTATAAAAATGCCACTAAAGTATAATTCTATAGCGACGTTTGTATAAAAATGCCACT
1 CGGCGTTTGTATAAAAATGCCACTAAAGTACGAGTCTTTAGCGGCGTTTGTATAAAAATGCCACT
*
1120984 AAATTACGAGTCTTTAGCGGCGTTTGTATAA--AAACGCCACTAAAGTAC
66 AAATTACGAGTCTTTAGCGGCGTTTGTA-AACCAAACGCCACTATAGTAC
1121032 TACTCTTTTG
Statistics
Matches: 210, Mismatches: 27, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
123 16 0.08
125 192 0.91
126 2 0.01
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (124 bp):
CGGCGTTTGTATAAAAATGCCACTAAAGTACGAGTCTTTAGCGGCGTTTGTATAAAAATGCCACT
AAATTACGAGTCTTTAGCGGCGTTTGTAAACCAAACGCCACTATAGTACAAGTGTATAA
Found at i:1120864 original size:166 final size:167
Alignment explanation
Indices: 1120588--1121049 Score: 592
Period size: 166 Copynumber: 2.8 Consensus size: 167
1120578 AAACTTGTGG
*
1120588 CGTTTGTAAACACAAACGCCACTATAGTATAAGTGTATAGCGGCGTTTGAATAAAAATTCCACTA
1 CGTTTGTAAAC-CAAACGCCACTATAGTATAAGTGTATAGCGGCGTTTGAATAAAAATACCACTA
* * *
1120653 AAGTACGAGTCTTTAGCGGCGTTTGTATAAAAATGTCAATAAAGTACGAGTCTTTAGCGGCGTTT
65 AAGTACGAGTCTTTAGCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTTTAGCGGCGTTT
* * * * *
1120718 GTATA-A-AAATGCCACTAAATTACGA-GTCTTTAGCGA
130 GTAAACACAAACGCCACTAAAGTAC-ATGTCTATAACGA
* *
1120754 CGTTTGTAAACGCAAACGCCACTATAGTACAAGTGTATAACGGCGTTTGAATAAAAATACCACTA
1 CGTTTGTAAAC-CAAACGCCACTATAGTATAAGTGTATAGCGGCGTTTGAATAAAAATACCACTA
* * * *
1120819 AAGTACGTGTATTTAGCGGAGTTTGTATAAAAACGCCACTAAAGTATGAGTCTTTAGCGGCGTTT
65 AAGTACGAGTCTTTAGCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTTTAGCGGCGTTT
* * *
1120884 GTAAACACAAACGCCACTATAGTACATGTGTATAACGG
130 GTAAACACAAACGCCACTAAAGTACATGTCTATAACGA
* * * * * * *
1120922 CGTTTGTATAA--AAATGCCACTAAAGTATAATTCTATAGCGACGTTTGTATAAAAATGCCACTA
1 CGTTTGTA-AACCAAACGCCACTATAGTATAAGTGTATAGCGGCGTTTGAATAAAAATACCACTA
* * * *
1120985 AATTACGAGTCTTTAGCGGCGTTTGTATAAAAACGCCACTAAAGTACTACTCTTTTGCGGCGTTT
65 AAGTACGAGTCTTTAGCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTTTAGCGGCGTTT
1121050 ATTGAAAAAA
Statistics
Matches: 256, Mismatches: 36, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
166 223 0.87
167 2 0.01
168 29 0.11
169 2 0.01
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.29
Consensus pattern (167 bp):
CGTTTGTAAACCAAACGCCACTATAGTATAAGTGTATAGCGGCGTTTGAATAAAAATACCACTAA
AGTACGAGTCTTTAGCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTTTAGCGGCGTTTG
TAAACACAAACGCCACTAAAGTACATGTCTATAACGA
Found at i:1123045 original size:27 final size:27
Alignment explanation
Indices: 1123014--1123101 Score: 76
Period size: 27 Copynumber: 3.3 Consensus size: 27
1123004 TTTAAATTAT
*
1123014 ATTTACACTTATATATGAATCATATCA
1 ATTTAAACTTATATATGAATCATATCA
* **
1123041 ATTTAAAC-TATA-ATAAATTCA-AAAA
1 ATTTAAACTTATATATGAA-TCATATCA
* *
1123066 ATTTATTA-TTATATATGAATTATATCA
1 ATTTA-AACTTATATATGAATCATATCA
1123093 ATTTAAACT
1 ATTTAAACT
1123102 ATAAAAATGA
Statistics
Matches: 45, Mismatches: 10, Indels: 12
0.67 0.15 0.18
Matches are distributed among these distances:
25 11 0.24
26 15 0.33
27 19 0.42
ACGTcount: A:0.47, C:0.09, G:0.02, T:0.42
Consensus pattern (27 bp):
ATTTAAACTTATATATGAATCATATCA
Found at i:1126875 original size:40 final size:41
Alignment explanation
Indices: 1126808--1126929 Score: 156
Period size: 40 Copynumber: 3.0 Consensus size: 41
1126798 TTGTTTAAAG
*
1126808 AACGCCGCTAAATACTCGTACTTTAGTGGCATTTTTATATA
1 AACGCCGCTAAAGACTCGTACTTTAGTGGCATTTTTATATA
* * * * *
1126849 AACGCCGTTAAAGA-TTGTATTTTAGTGGCGTTTTTATACA
1 AACGCCGCTAAAGACTCGTACTTTAGTGGCATTTTTATATA
** *
1126889 AACGTGGCTAAAGACTCGTACTTTAGTGACATTTTTATATA
1 AACGCCGCTAAAGACTCGTACTTTAGTGGCATTTTTATATA
1126930 CTCGTATTTT
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
40 33 0.50
41 33 0.50
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.38
Consensus pattern (41 bp):
AACGCCGCTAAAGACTCGTACTTTAGTGGCATTTTTATATA
Found at i:1127036 original size:109 final size:108
Alignment explanation
Indices: 1126819--1127022 Score: 259
Period size: 109 Copynumber: 1.9 Consensus size: 108
1126809 ACGCCGCTAA
* * * *
1126819 ATACTCGTACTTTAGTGGCATTTTTATATAAACGCCGTTAAAGATTGTATTTTAGTGGCGTTTTT
1 ATACTCGTACTTTAGTGGCAGTTTTATATAAACACCGCTAAAGATTGTATTTTAGTGGCGTTTGT
* * * *
1126884 ATACAAACGTGGCTAAAGACTCGTACTTTAGTGACATTTTTAT
66 ATACAAACATCGCTAAAAACACGTACTTTAGTGACATTTTTAT
* ** *
1126927 ATACTCGTATTTTAGTGGTGGTTTTATATAAACACCGCTATAGACTCT-TATTTTTA-TGGCGTT
1 ATACTCGTACTTTAGTGGCAGTTTTATATAAACACCGCTAAAGA-T-TGTA-TTTTAGTGGCGTT
1126990 TGTATACAAACATCGCTAAAAACACGTACTTTA
63 TGTATACAAACATCGCTAAAAACACGTACTTTA
1127023 ATTGTATTTT
Statistics
Matches: 81, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
108 37 0.46
109 38 0.47
110 6 0.07
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.40
Consensus pattern (108 bp):
ATACTCGTACTTTAGTGGCAGTTTTATATAAACACCGCTAAAGATTGTATTTTAGTGGCGTTTGT
ATACAAACATCGCTAAAAACACGTACTTTAGTGACATTTTTAT
Found at i:1127037 original size:41 final size:41
Alignment explanation
Indices: 1126992--1127076 Score: 107
Period size: 41 Copynumber: 2.1 Consensus size: 41
1126982 ATGGCGTTTG
* * *
1126992 TATACAAACATCGCTAAAAACACGTACTTTAATTGTATTTT
1 TATACAAAAATCGCTAAAAACACATACTTTAATGGTATTTT
* * * *
1127033 TATACAAAAATCGCTATAAACTCATATTTTAGTGGTATTTT
1 TATACAAAAATCGCTAAAAACACATACTTTAATGGTATTTT
1127074 TAT
1 TAT
1127077 TCCTGCCGTT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.38, C:0.14, G:0.08, T:0.40
Consensus pattern (41 bp):
TATACAAAAATCGCTAAAAACACATACTTTAATGGTATTTT
Found at i:1134487 original size:19 final size:19
Alignment explanation
Indices: 1134463--1134518 Score: 94
Period size: 19 Copynumber: 2.9 Consensus size: 19
1134453 TAATCCTAAC
1134463 AATTAGGCTATAATTTAGT
1 AATTAGGCTATAATTTAGT
*
1134482 AATTAGGCTATAGTTTAGT
1 AATTAGGCTATAATTTAGT
*
1134501 AATTAGGTTATAATTTAG
1 AATTAGGCTATAATTTAG
1134519 GAAACTAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.36, C:0.04, G:0.18, T:0.43
Consensus pattern (19 bp):
AATTAGGCTATAATTTAGT
Found at i:1134860 original size:11 final size:11
Alignment explanation
Indices: 1134844--1134870 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
1134834 AAAGCCACTA
1134844 AATACATAGTC
1 AATACATAGTC
1134855 AATACATAGTC
1 AATACATAGTC
1134866 AATAC
1 AATAC
1134871 CGGCTTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.48, C:0.19, G:0.07, T:0.26
Consensus pattern (11 bp):
AATACATAGTC
Found at i:1135142 original size:27 final size:27
Alignment explanation
Indices: 1135104--1135156 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
1135094 GTCAATGACA
1135104 AGTGTCGCTTTTTGCGGT-GTTTGTTTC
1 AGTGTCGCTTTTTGC-GTCGTTTGTTTC
1135131 AGTGTCGCTTTTTGCGTCGTTTGTTT
1 AGTGTCGCTTTTTGCGTCGTTTGTTT
1135157 TTGTGCCACA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 2 0.08
27 23 0.92
ACGTcount: A:0.04, C:0.15, G:0.28, T:0.53
Consensus pattern (27 bp):
AGTGTCGCTTTTTGCGTCGTTTGTTTC
Found at i:1139107 original size:10 final size:10
Alignment explanation
Indices: 1139092--1139127 Score: 63
Period size: 10 Copynumber: 3.6 Consensus size: 10
1139082 ATTCGCTAAT
1139092 TTTGGATTAA
1 TTTGGATTAA
1139102 TTTGGATTAA
1 TTTGGATTAA
1139112 TTTGGATTAA
1 TTTGGATTAA
*
1139122 CTTGGA
1 TTTGGA
1139128 AAGAGTCGCC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.28, C:0.03, G:0.22, T:0.47
Consensus pattern (10 bp):
TTTGGATTAA
Found at i:1141907 original size:3 final size:3
Alignment explanation
Indices: 1141901--1141958 Score: 62
Period size: 3 Copynumber: 19.0 Consensus size: 3
1141891 TTATTATTAT
* * * * *
1141901 TAA TAA TAT TAA TAA TAC TAT TAC TAA TAA TAA TAA TAA TTTA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA
1141947 TAA TAA TAA TAA
1 TAA TAA TAA TAA
1141959 ATATAATATT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
3 44 0.96
4 2 0.04
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (3 bp):
TAA
Done.