Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008283.1 Hibiscus syriacus cultivar Beakdansim tig00110945_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: 2862730
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 7 of 14
Found at i:1258534 original size:819 final size:817
Alignment explanation
Indices: 1256958--1259173 Score: 3062
Period size: 819 Copynumber: 2.7 Consensus size: 817
1256948 ATCATAACTC
* * * ** * * * * *
1256958 AAGTCGAGAAGGGTTATCTGCACCAAAAGACCTTTGAGTTCGAGTACGCTCAGC-TCTAAGGCAT
1 AAGTCGAGAAGAGCTATCTG--CC-AAAGACCCTCAAGTTCGATTACACTCAGCTTCGAGGGCAC
* * * ** *
1257022 ATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACC-AAAGACCTTTGAGTTCGAC
63 ATCATTTACAGCATAACTTAAGGCTAGAAGGGTTATCTG-TGACCAAAAGACCTTCGAGTTCGAC
* * * * *
1257086 TACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG---TCA
127 TACGCTCAGCTCCAAGGCATATCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCAACCA
** * * * * * * * *
1257148 AAGA-CTCTCGAGTTCGGTTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCT
192 AAGACCT-TCGAGTTCGACTACACTCAGC-TCCAAGGAACATCATTTGCAGCATAGCTTAAGTCG
* * * * *
1257212 AGAAGGGCTATCTGCCAAAGACTCCCGAGTTCGACTATACTCAGCTTCTAGGGCACATCATTTAC
255 AGAAAGGCTATCTGCCAAAGACCCCCGAGTTCGATTATACTCAGCTCCAAGGGCACATCATTTAC
** * * * * * *
1257277 AGCATAACTCAAGTCTAGAAGGGTTATCTGTCAATAAATACCTTTTAGTTTGACTACACTCAACT
320 AGCATAACTCAAGGATAAAAGGGTTATCTGTCAATAAAGACCTTTGAGTTCGATTACACTCAGCT
* *
1257342 CAAAGGCACATCATTTGCAGCATATTTTAAGTCGAGAAGGGCTATCTGCCAAAGACCATCGAGTT
385 CAAAGGCACATCATTTGCA-CATAGTTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTT
* * * * *
1257407 CGATTACACTCAGCTCCAAGGGCACATCATTTACAGCATAACGCAAGGCTAGAAAGGTTATCTAT
449 CGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTCT
* * * * * *
1257472 GATCAAAAGACCTTCAAGTTCGACTACACTCAACTCCAAGGCATATCATTTGCTGTATAACTTAA
514 GACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAA
*
1257537 GTCAAAAGGGTTATCTACCAACCAAAGACCTTCGAGTTCGACTACGCTCAACTCCAAGGCACATC
579 GTCAAAAGGGTTATCTACCAACCAAAAACCTTCGAGTTCGACTACGCTCAACTCCAAGGCACATC
1257602 ATTTGCAGCATAGCTTAAGTCGGAAAGGATATCTGCCAAAGACCCCCGAGTTTGATTAAACTCAG
644 ATTTGCAGCATAGCTTAAGTCGGAAAGGATATCTGCCAAAGACCCCCGAGTTTGATTAAACTCAG
* * *
1257667 CTCAGAGGGCATATCATTTACAGCATAACTCAAGACTATAAGGGTTATCTGTCAATAAAGACCTT
709 CTCAGAGGGCACATCATTTACAACATAACTCAAGACTAGAAGGGTTATCTGTCAATAAAGACCTT
1257732 TGAGTTCG-A-ACTCAGCTCAAAGGCACATCATTTGCAACATAGCTT
774 TGAGTTCGTACACTCA-CTCAAAGGCACATCATTT--AACATAGCTT
* * *
1257777 AAGTCGAGAAGAGCTATCTGCTAAAGACCCTCAAGTTCGATTACATTCAGCTTCGAGGGCACATT
1 AAGTCGAGAAGAGCTATCTGCCAAAGACCCTCAAGTTCGATTACACTCAGCTTCGAGGGCACATC
*
1257842 ATTTACA-CATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACG
66 ATTTACAGCATAACTTAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACG
*
1257906 CTTAGCTCCAAGGCATATCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAG
131 CTCAGCTCCAAGGCATATCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTG-CAACCAAAG
* * *
1257971 ACCTTTGAGTTCGACTACACTCAGCTCCAAGGTACATCATTTGTAGCATAGCTTAAGTCGAGAAA
195 ACCTTCGAGTTCGACTACACTCAGCTCCAAGGAACATCATTTGCAGCATAGCTTAAGTCGAGAAA
*
1258036 GGCTATCTGCCAAAGACCCCCGAGTTCGATTATACTCAGCTCCGAGGGCACATCATTTACAGCAT
260 GGCTATCTGCCAAAGACCCCCGAGTTCGATTATACTCAGCTCCAAGGGCACATCATTTACAGCAT
1258101 AACTCAAGGATAAAAGGGTTATCTGTCAATAAAGACCTTTGAGTTCGATTACACTCAGCTCAAAG
325 AACTCAAGGATAAAAGGGTTATCTGTCAATAAAGACCTTTGAGTTCGATTACACTCAGCTCAAAG
*
1258166 GCACATCATTTGCACATAGTTTAAGTCGAGAAGGGTTATCTGCCAAAGACCCTCGAGTTCGATTA
390 GCACATCATTTGCACATAGTTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTA
* * *
1258231 CACTCACCTTCGAGGGCACATCATTAACAACATAACTCAAGGCTAGAAGGGTTATCTCTGACCAA
455 CACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTCTGACCAA
*
1258296 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAG
520 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTC-AA
* * *
1258361 AAGGGTTATCTTCCAACCAAAAACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTG
584 AAGGGTTATCTACCAACCAAAAACCTTCGAGTTCGACTACGCTCAACTCCAAGGCACATCATTTG
* * * *
1258426 TAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAG-TTGATTATACTCAGCTTC
649 CAGCATAGCTTAAGTCG-GAAAGGATATCTGCCAAAGACCCCCGAGTTTGATTAAACTCAGC-TC
* *
1258490 -GAGGGCACATCATTTATAACATAACTCAAGGCTAGAAGGGTTATCTGTCAATAAAGACCTTTGA
712 AGAGGGCACATCATTTACAACATAACTCAAGACTAGAAGGGTTATCTGTCAATAAAGACCTTTGA
* * *
1258554 GTTCGATTACACTCACTCAAAGGCACATTATTTAGCATAGTTT
777 GTTCG--TACACTCACTCAAAGGCACATCATTTAACATAGCTT
* * *
1258597 AAGTCGAGAAGGGCTATTTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATC
1 AAGTCGAGAAGAGCTATCTGCCAAAGACCCTCAAGTTCGATTACACTCAGCTTCGAGGGCACATC
* *
1258662 ATTTACAGTATAACTTAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGATTTCGACTACG
66 ATTTACAGCATAACTTAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACG
1258727 CTCAGCTCCAAGGCATATCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCTAACCAAAG
131 CTCAGCTCCAAGGCATATCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGC-AACCAAAG
* *
1258792 ACCTTCAAGTTCGACTACGCTCAGCTCCAAGGAACATCATTTGCAGCATAGCTTAAGTCGA-AAA
195 ACCTTCGAGTTCGACTACACTCAGCTCCAAGGAACATCATTTGCAGCATAGCTTAAGTCGAGAAA
* * * * *
1258856 GGGCTATCTCCCAAAGACCCCTGAGTTTGATTATACTCAGCTCTAAGGGCACATCATTTACAACA
260 -GGCTATCTGCCAAAGACCCCCGAGTTCGATTATACTCAGCTCCAAGGGCACATCATTTACAGCA
1258921 TAACTCAA-GACTAGAAA-GGTTATCTGTCAATAAAGACCTTTGAGTTCGATTACACTCAGCTCA
324 TAACTCAAGGA-TA-AAAGGGTTATCTGTCAATAAAGACCTTTGAGTTCGATTACACTCAGCTCA
* * * *
1258984 AAAGCACATCATTTG--TATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGA
387 AAGGCACATCATTTGCACATAGTTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGA
* * * * * * * * *
1259047 TTATACTCAGCTTTGAGGGCATATCATTTGCTGCATAACTTAAGTCGAGAAGGGTTATCTGCTAA
452 TTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCT-CTGA
* * * * * *
1259112 CC-AAAGACCTTCGAGTTTGACTACGCTTAGCTCCAAGGAACATCATTTACAGCATAGCTTAA
516 CCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAA
1259174 AAGAATATCT
Statistics
Matches: 1248, Mismatches: 129, Indels: 40
0.88 0.09 0.03
Matches are distributed among these distances:
815 3 0.00
816 120 0.10
817 16 0.01
818 161 0.13
819 483 0.39
820 137 0.11
821 302 0.24
822 21 0.02
823 5 0.00
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (817 bp):
AAGTCGAGAAGAGCTATCTGCCAAAGACCCTCAAGTTCGATTACACTCAGCTTCGAGGGCACATC
ATTTACAGCATAACTTAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACG
CTCAGCTCCAAGGCATATCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCAACCAAAGA
CCTTCGAGTTCGACTACACTCAGCTCCAAGGAACATCATTTGCAGCATAGCTTAAGTCGAGAAAG
GCTATCTGCCAAAGACCCCCGAGTTCGATTATACTCAGCTCCAAGGGCACATCATTTACAGCATA
ACTCAAGGATAAAAGGGTTATCTGTCAATAAAGACCTTTGAGTTCGATTACACTCAGCTCAAAGG
CACATCATTTGCACATAGTTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTAC
ACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTCTGACCAAA
AGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCAAAA
GGGTTATCTACCAACCAAAAACCTTCGAGTTCGACTACGCTCAACTCCAAGGCACATCATTTGCA
GCATAGCTTAAGTCGGAAAGGATATCTGCCAAAGACCCCCGAGTTTGATTAAACTCAGCTCAGAG
GGCACATCATTTACAACATAACTCAAGACTAGAAGGGTTATCTGTCAATAAAGACCTTTGAGTTC
GTACACTCACTCAAAGGCACATCATTTAACATAGCTT
Found at i:1260087 original size:37 final size:36
Alignment explanation
Indices: 1260040--1260445 Score: 337
Period size: 37 Copynumber: 11.6 Consensus size: 36
1260030 ACGATTTCCA
* *
1260040 AAAATTTATATATTATATAGTTTTTGAAAACATTTTT
1 AAAATATATATA-TATATAGTTTTTAAAAACATTTTT
*
1260077 AAAATATATATAATATATAGTTTTTGAAAACA---TT
1 AAAATATATAT-ATATATAGTTTTTAAAAACATTTTT
*
1260111 ----TATATAT-TATATAGTTTTT-AAAACATTTTG
1 AAAATATATATATATATAGTTTTTAAAAACATTTTT
*
1260141 AAAACT-TATATAGTATATAGTTTTTTAAAACATTTTT
1 AAAA-TATATATA-TATATAGTTTTTAAAAACATTTTT
1260178 GAAAAT-TATATATATATAG-TTTT-AAAACATTTTT
1 -AAAATATATATATATATAGTTTTTAAAAACATTTTT
* *
1260212 GAAATATATATATATATAG-TTTTAAAAATATTTTTT
1 AAAATATATATATATATAGTTTTTAAAAACA-TTTTT
*
1260248 GAAAA-ATTATATAATATATA-ATTTTAAAAACATTTTT
1 -AAAATA-TATAT-ATATATAGTTTTTAAAAACATTTTT
*
1260285 AAAAAATTATATAATATATAG-TTTTAAAAACATTTTTT
1 AAAATA-TATAT-ATATATAGTTTTTAAAAACA-TTTTT
* *
1260323 GAAAA-CT-TATATA-ATA-TTTTT-AAAACATTTTA
1 -AAAATATATATATATATAGTTTTTAAAAACATTTTT
* *
1260355 AAAACTATATA-ATATATAG-TTTTGAAAACTTTTTT
1 AAAA-TATATATATATATAGTTTTTAAAAACATTTTT
* *
1260390 AAAA-A-ATATA-ATATAG-TTTAAAAAATATTTTT
1 AAAATATATATATATATAGTTTTTAAAAACATTTTT
*
1260422 TAAATATATATATTATATAGTTTT
1 AAAATATATATA-TATATAGTTTT
1260446 ATTAATTAGT
Statistics
Matches: 315, Mismatches: 17, Indels: 74
0.78 0.04 0.18
Matches are distributed among these distances:
27 6 0.02
28 12 0.04
30 8 0.03
31 4 0.01
32 28 0.09
33 17 0.05
34 56 0.18
35 26 0.08
36 38 0.12
37 89 0.28
38 27 0.09
39 4 0.01
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.47
Consensus pattern (36 bp):
AAAATATATATATATATAGTTTTTAAAAACATTTTT
Found at i:1260101 original size:26 final size:25
Alignment explanation
Indices: 1260072--1260133 Score: 79
Period size: 28 Copynumber: 2.4 Consensus size: 25
1260062 TTTGAAAACA
1260072 TTTTTAAAATATATATAATATATAG
1 TTTTTAAAATATATATAATATATAG
* *
1260097 TTTTTGAAAACATTTATATATTATATAG
1 TTTTT--AAA-ATATATATAATATATAG
1260125 TTTTTAAAA
1 TTTTTAAAA
1260134 CATTTTGAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
25 6 0.19
26 3 0.09
27 3 0.09
28 20 0.62
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.50
Consensus pattern (25 bp):
TTTTTAAAATATATATAATATATAG
Found at i:1260136 original size:27 final size:28
Alignment explanation
Indices: 1260083--1260138 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
1260073 TTTTAAAATA
1260083 TATATAATATATAGTTTTTGAAAACATT
1 TATATAATATATAGTTTTTGAAAACATT
*
1260111 TATATATTATATAGTTTTT-AAAACATT
1 TATATAATATATAGTTTTTGAAAACATT
1260138 T
1 T
1260139 TGAAAACTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
27 9 0.33
28 18 0.67
ACGTcount: A:0.41, C:0.04, G:0.05, T:0.50
Consensus pattern (28 bp):
TATATAATATATAGTTTTTGAAAACATT
Found at i:1260432 original size:68 final size:72
Alignment explanation
Indices: 1260112--1260446 Score: 313
Period size: 68 Copynumber: 4.7 Consensus size: 72
1260102 GAAAACATTT
* * * *
1260112 ATATATTATATAGTTTTTAAAACA--TTTTGAAAACTTATATAGTATATAGTTTTTTAAAACA-T
1 ATATA-TATATAG-TTTAAAAACATTTTTTAAAAAC-TATATAATATATAG-TTTTAAAAACATT
*
1260174 TTTTGAAAATT
62 TTTTGAAAATA
* * * *
1260185 ATATATATATAGTTTTAAAACATTTTTGAAATA-TATAT-ATATATAGTTTTAAAAATATTTTTT
1 ATATATATATAGTTTAAAAACATTTTTTAAAAACTATATAATATATAGTTTTAAAAACATTTTTT
*
1260248 GAAAAATT
66 G-AAAATA
* * *
1260256 ATATAATATATAATTTTAAAAACATTTTTAAAAAATTATATAATATATAGTTTTAAAAACATTTT
1 ATAT-ATATAT-AGTTTAAAAACATTTTTTAAAAACTATATAATATATAGTTTTAAAAACATTTT
1260321 TTGAAAACT-
64 TTGAAAA-TA
* * *
1260330 -TATATA-ATATTTTTAAAACA--TTTTAAAAACTATATAATATATAGTTTTGAAAAC-TTTTTT
1 ATATATATATAGTTTAAAAACATTTTTTAAAAACTATATAATATATAGTTTTAAAAACATTTTTT
1260390 -AAAA-A
66 GAAAATA
* * *
1260395 ATATA-ATATAGTTTAAAAAATATTTTTTAAATA-TATATATTATATAGTTTTA
1 ATATATATATAGTTT-AAAAACATTTTTTAAAAACTATATAATATATAGTTTTA
1260447 TTAATTAGTA
Statistics
Matches: 226, Mismatches: 21, Indels: 35
0.80 0.07 0.12
Matches are distributed among these distances:
65 1 0.00
66 14 0.06
67 11 0.05
68 48 0.21
69 17 0.08
70 24 0.11
71 27 0.12
72 16 0.07
73 33 0.15
74 9 0.04
75 26 0.12
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (72 bp):
ATATATATATAGTTTAAAAACATTTTTTAAAAACTATATAATATATAGTTTTAAAAACATTTTTT
GAAAATA
Found at i:1261790 original size:19 final size:19
Alignment explanation
Indices: 1261744--1261792 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
1261734 TTTTATCTTG
*
1261744 GTTTGTTTTATCGTATTTC
1 GTTTGTTTTATCCTATTTC
* *
1261763 ATTTTTTTTATCTCTATTT-
1 GTTTGTTTTATC-CTATTTC
1261782 GTTTGTTTTAT
1 GTTTGTTTTAT
1261793 TATTATTATA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
19 19 0.79
20 5 0.21
ACGTcount: A:0.12, C:0.08, G:0.10, T:0.69
Consensus pattern (19 bp):
GTTTGTTTTATCCTATTTC
Found at i:1261945 original size:25 final size:26
Alignment explanation
Indices: 1261888--1261956 Score: 67
Period size: 25 Copynumber: 2.8 Consensus size: 26
1261878 TCTTATTATT
1261888 TTGGTATTTTATTTATTT-ATTTACTA
1 TTGGTATTTTA-TTATTTAATTTACTA
*
1261914 TAT--TATTTTATTATTTAATTT-TTA
1 T-TGGTATTTTATTATTTAATTTACTA
*
1261938 TTGGTATTATATT-TTTAAT
1 TTGGTATTTTATTATTTAAT
1261957 ATTTCGACCC
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
23 1 0.03
24 15 0.41
25 19 0.51
26 1 0.03
27 1 0.03
ACGTcount: A:0.26, C:0.01, G:0.06, T:0.67
Consensus pattern (26 bp):
TTGGTATTTTATTATTTAATTTACTA
Found at i:1262052 original size:11 final size:11
Alignment explanation
Indices: 1262036--1262060 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1262026 TTTTCGTGAA
1262036 TATATTATTAT
1 TATATTATTAT
1262047 TATATTATTAT
1 TATATTATTAT
1262058 TAT
1 TAT
1262061 CTTTTTCATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
TATATTATTAT
Found at i:1262277 original size:258 final size:247
Alignment explanation
Indices: 1261790--1262295 Score: 879
Period size: 246 Copynumber: 2.0 Consensus size: 247
1261780 TTGTTTGTTT
1261790 TATTATTATTATATTATTATTATCTTTTTCATCTTATATTTTTTCCTATTTTCCTATTTTATTTT
1 TATTATTATTATATTATTATTATCTTTTTCATCTTATA-TTTTTCCTATTTTCCTATTTTATTTT
1261855 ATTTTATTTTTCTCTCTTTCCTTTCTTATTATTTTGGTATTTTATTTATTTATTTACTATATTAT
65 ATTTTATTTTTCTCTCTTTCCTTTCTTATTATTTTGGTATTTTATTTATTTATTTACTATATTAT
1261920 TTTATTATTTAATTTTTATTGGTATTATATTTTTAATATTTCGACCCTTTTTTGATTTCAACCAA
130 TTTATTATTTAATTTTTATTGGTATTATATTTTTAATATTTCGACCCTTTTTTGATTTCAACCAA
1261985 ATCAGAGGTAAGTAATTTGGATCGAATAATTTAAATTTTAATTTTCGTGAATA
195 ATCAGAGGTAAGTAATTTGGATCGAATAATTTAAATTTTAATTTTCGTGAATA
1262038 TATTATTATTATATTATTATTATCTTTTTCATCTTATA-TTTTCCTATTTTCCTATTTTATTTTA
1 TATTATTATTATATTATTATTATCTTTTTCATCTTATATTTTTCCTATTTTCCTATTTTATTTTA
1262102 TTTTATTTTTCTCTCTTTCCTTTCTTATTATTTTGGTATTTTATTTATTTATTTACTATTATTAT
66 TTTTATTTTTCTCTCTTTCCTTTCTTATTATTTTGGTATTTTATTTATTTATTTACTA-TATTA-
*
1262167 TTTTTATGTATTTAATTTTTATTTATTGGTATTATTATTTTTAATATTTTTGACCCTTTTTTAGA
129 -TTTTAT-TATTTAA---TT-TTTATTGGTATTA-TATTTTTAATA-TTTCGACCCTTTTTT-GA
1262232 TTTCCAACCAAATCAGAGGTAAGTAATTTGGATCGAATAATTTAAATTTTAATTTTCGTGAATA
185 TTT-CAACCAAATCAGAGGTAAGTAATTTGGATCGAATAATTTAAATTTTAATTTTCGTGAATA
1262296 AAACAACCGA
Statistics
Matches: 245, Mismatches: 1, Indels: 14
0.94 0.00 0.05
Matches are distributed among these distances:
246 84 0.34
247 5 0.02
248 38 0.16
249 6 0.02
250 7 0.03
253 2 0.01
254 13 0.05
255 11 0.04
256 14 0.06
257 5 0.02
258 60 0.24
ACGTcount: A:0.25, C:0.09, G:0.06, T:0.59
Consensus pattern (247 bp):
TATTATTATTATATTATTATTATCTTTTTCATCTTATATTTTTCCTATTTTCCTATTTTATTTTA
TTTTATTTTTCTCTCTTTCCTTTCTTATTATTTTGGTATTTTATTTATTTATTTACTATATTATT
TTATTATTTAATTTTTATTGGTATTATATTTTTAATATTTCGACCCTTTTTTGATTTCAACCAAA
TCAGAGGTAAGTAATTTGGATCGAATAATTTAAATTTTAATTTTCGTGAATA
Found at i:1262924 original size:19 final size:19
Alignment explanation
Indices: 1262888--1262925 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
1262878 TATAGGTTTG
*
1262888 AAATTCGATCTTGTTTTTA
1 AAATTCGATCTTGATTTTA
1262907 AAATTCGAGT-TTGATTTTA
1 AAATTCGA-TCTTGATTTTA
1262926 TTCGATTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 16 0.94
20 1 0.06
ACGTcount: A:0.29, C:0.08, G:0.13, T:0.50
Consensus pattern (19 bp):
AAATTCGATCTTGATTTTA
Found at i:1275626 original size:2 final size:2
Alignment explanation
Indices: 1275619--1275644 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1275609 GACTACTAAC
1275619 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
1275645 GTAATACATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1276769 original size:93 final size:92
Alignment explanation
Indices: 1276605--1276789 Score: 271
Period size: 93 Copynumber: 2.0 Consensus size: 92
1276595 GCTAGAAGTG
1276605 CGACGTTAAACTATAACATATCTCGGAACCAAGTCCCCCAGCTTCTTTCAAATAGCACAAATTCG
1 CGACGTTAAACTATAACATATCTCGGAACCAAGTCCCCCAGCTTCTTTCAAATAGCACAAATTCG
1276670 CCCAAGAGCACCAATGAACTCACTTCT
66 CCCAAGAGCACCAATGAACTCACTTCT
* * * *
1276697 CGACGTTAAACTTTGACATATCTCGGAAACCAAGTCCCCCAGTTTCTTTCAAATAGCATAAATTC
1 CGACGTTAAACTATAACATATCTCGG-AACCAAGTCCCCCAGCTTCTTTCAAATAGCACAAATTC
*** * * *
1276762 TTTCAAGAGCACGAATGAATTCGCTTCT
65 GCCCAAGAGCACCAATGAACTCACTTCT
1276790 GACCTTCGGA
Statistics
Matches: 82, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
92 24 0.29
93 58 0.71
ACGTcount: A:0.32, C:0.28, G:0.13, T:0.26
Consensus pattern (92 bp):
CGACGTTAAACTATAACATATCTCGGAACCAAGTCCCCCAGCTTCTTTCAAATAGCACAAATTCG
CCCAAGAGCACCAATGAACTCACTTCT
Found at i:1291578 original size:37 final size:37
Alignment explanation
Indices: 1291528--1291603 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
1291518 TGCTCTACCA
1291528 ACTGAGCTGGATGGTCATTTCTCATTATATCCTTAAT
1 ACTGAGCTGGATGGTCATTTCTCATTATATCCTTAAT
1291565 ACTGAGCTGGATGGTCATTTCTCATTATATCCTTAAT
1 ACTGAGCTGGATGGTCATTTCTCATTATATCCTTAAT
1291602 AC
1 AC
1291604 GTAACTAAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (37 bp):
ACTGAGCTGGATGGTCATTTCTCATTATATCCTTAAT
Found at i:1313266 original size:3 final size:3
Alignment explanation
Indices: 1313258--1313283 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
1313248 GAATTGGGTT
1313258 TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TT
1313284 AAGAAGAGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:1324955 original size:3 final size:3
Alignment explanation
Indices: 1324947--1324975 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
1324937 GAATTGGGTT
1324947 TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1324976 AAGAAGAGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:1342161 original size:9 final size:9
Alignment explanation
Indices: 1342148--1342181 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
1342138 GAATTTGGTT
1342148 AATTAACCG
1 AATTAACCG
*
1342157 TATTAACCG
1 AATTAACCG
1342166 AATTAACCG
1 AATTAACCG
1342175 AAATTAA
1 -AATTAA
1342182 ATTTTAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 16 0.73
10 6 0.27
ACGTcount: A:0.47, C:0.18, G:0.09, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:1342502 original size:184 final size:182
Alignment explanation
Indices: 1342187--1342572 Score: 598
Period size: 184 Copynumber: 2.1 Consensus size: 182
1342177 ATTAAATTTT
* *
1342187 AAATATTAAATATATTATATATAACATATGGGCTCAGCCCAAACCATTTAAAAACCAATTAATAA
1 AAATATTAAATATATTATATATAACATATGAGCTAAGCCCAAACCATTTAAAAACCAATTAATAA
* *
1342252 TTTAAGATCTAATAACTTTTAAACCTAAGTCAATATTAATTAATTAAAAAACTTATATATAATTT
66 TTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAACTTATATATAATTT
* *
1342317 TTATTTTATAATTATATATTATTTAAATTAATTGTAAATGTTTTTTTAATTAAA
131 TTATTTTATAATTATATATTATTTAAATTAATTATAAA--CTTTTTTAATTAAA
*
1342371 AAATATTATATATATTATATATAACATATGAGCTAAGCCCAAACCATTT-AAAACTCAATTAATA
1 AAATATTAAATATATTATATATAACATATGAGCTAAGCCCAAACCATTTAAAAAC-CAATTAATA
* *
1342435 ATTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTTATCTGA-AAT
65 ATTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAACTTATAT-ATAAT
*
1342499 TTTTATTTTATAATTATATATTATTTAGATTAATTATAAACTTTTTTAATTAAA
129 TTTTATTTTATAATTATATATTATTTAAATTAATTATAAACTTTTTTAATTAAA
* * *
1342553 AAACATTTAAT-TTTTATATA
1 AAATATTAAATATATTATATA
1342573 AATTAGAAAA
Statistics
Matches: 186, Mismatches: 14, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
181 8 0.04
182 21 0.11
183 5 0.03
184 151 0.81
185 1 0.01
ACGTcount: A:0.45, C:0.09, G:0.04, T:0.42
Consensus pattern (182 bp):
AAATATTAAATATATTATATATAACATATGAGCTAAGCCCAAACCATTTAAAAACCAATTAATAA
TTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAACTTATATATAATTT
TTATTTTATAATTATATATTATTTAAATTAATTATAAACTTTTTTAATTAAA
Found at i:1342550 original size:20 final size:20
Alignment explanation
Indices: 1342509--1342551 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
1342499 TTTTATTTTA
*
1342509 TAATTATATATTATTTAGAT
1 TAATTATAAATTATTTAGAT
*
1342529 TAATTATAAACTTTTTTA-AT
1 TAATTATAAA-TTATTTAGAT
1342549 TAA
1 TAA
1342552 AAAACATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (20 bp):
TAATTATAAATTATTTAGAT
Found at i:1343464 original size:3 final size:3
Alignment explanation
Indices: 1343456--1343488 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
1343446 ATTGTTTAAT
1343456 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1343489 ATATATATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:1344378 original size:39 final size:40
Alignment explanation
Indices: 1344335--1344427 Score: 102
Period size: 39 Copynumber: 2.3 Consensus size: 40
1344325 AAGTGTTCTG
*
1344335 TAGCGGCGTTTACAATCCAAATGCCAC-A-A-AATGATACTT
1 TAGCGGCGTTTACAA--CAAATGCCACAATATAATGATAATT
* *
1344374 TAGCGGCGTTTTTTCAACAAATGCCACAATATAATGGTAATT
1 TAGCGGCG--TTTACAACAAATGCCACAATATAATGATAATT
1344416 TAGCGGCGTTTA
1 TAGCGGCGTTTA
1344428 TAGCTCAAAC
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
39 18 0.40
40 4 0.09
41 7 0.16
42 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.30
Consensus pattern (40 bp):
TAGCGGCGTTTACAACAAATGCCACAATATAATGATAATT
Found at i:1345110 original size:22 final size:22
Alignment explanation
Indices: 1345079--1345128 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
1345069 GTGTTTTTCT
*
1345079 GCTTTCGAATAGAAA-ACTAATA
1 GCTTTTGAATAGAAACA-TAATA
* *
1345101 GCTTTTGAATTGGAACATAATA
1 GCTTTTGAATAGAAACATAATA
1345123 GCTTTT
1 GCTTTT
1345129 CAAAACGTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 23 0.96
23 1 0.04
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (22 bp):
GCTTTTGAATAGAAACATAATA
Found at i:1346569 original size:7 final size:7
Alignment explanation
Indices: 1346554--1346583 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
1346544 CAGTTGTCTT
*
1346554 CATCTAG
1 CATCCAG
1346561 CATCCAG
1 CATCCAG
1346568 CATCCAG
1 CATCCAG
1346575 CATCCAG
1 CATCCAG
1346582 CA
1 CA
1346584 GTTGTCTGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.30, C:0.40, G:0.13, T:0.17
Consensus pattern (7 bp):
CATCCAG
Found at i:1348892 original size:36 final size:36
Alignment explanation
Indices: 1348791--1348893 Score: 154
Period size: 36 Copynumber: 2.9 Consensus size: 36
1348781 GGTGGAAAAA
*
1348791 AGTTTACCTATAATAATTAACTACACCAAGGAGAAT
1 AGTTTACCTATAATAATTAACTACACCAATGAGAAT
* * *
1348827 GGGTTACCTAGAATAATTAACTACACCAATGA-ATAT
1 AGTTTACCTATAATAATTAACTACACCAATGAGA-AT
1348863 AGTTTACCTATAATAATTAACTACACCAATG
1 AGTTTACCTATAATAATTAACTACACCAATG
1348894 CTGATATTTC
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
35 1 0.02
36 58 0.98
ACGTcount: A:0.43, C:0.17, G:0.11, T:0.29
Consensus pattern (36 bp):
AGTTTACCTATAATAATTAACTACACCAATGAGAAT
Found at i:1350729 original size:44 final size:44
Alignment explanation
Indices: 1350521--1350729 Score: 233
Period size: 44 Copynumber: 4.8 Consensus size: 44
1350511 TTTTTTTTTA
* * *
1350521 TAAAAATGTCGCTATATACCA-ACTTTTAGCGGCGTTTGTATCT
1 TAAAAACGCCGCTATATACCAGACTTTTAGCGGCGTTTGTATCC
* * * * *
1350564 TAAAAACACCGCTATATACTAGACCTATCA-CGACGTTTGTATCC
1 TAAAAACGCCGCTATATACCAGA-CTTTTAGCGGCGTTTGTATCC
* * *
1350608 TAAAAACGCCGCTAAATACCAGACCTTTAGCGGCGTTTGTATCA
1 TAAAAACGCCGCTATATACCAGACTTTTAGCGGCGTTTGTATCC
* * * *
1350652 TAAAAACGCTGCTATATACCAGACCTATCGCGGCGTTTGTATCC
1 TAAAAACGCCGCTATATACCAGACTTTTAGCGGCGTTTGTATCC
* * *
1350696 TAAAAATGCCGCTAAATACCAGAATTTTAGCGGC
1 TAAAAACGCCGCTATATACCAGACTTTTAGCGGC
1350730 ATTTTCATAA
Statistics
Matches: 135, Mismatches: 28, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
43 20 0.15
44 111 0.82
45 4 0.03
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (44 bp):
TAAAAACGCCGCTATATACCAGACTTTTAGCGGCGTTTGTATCC
Found at i:1350745 original size:88 final size:88
Alignment explanation
Indices: 1350521--1350729 Score: 312
Period size: 88 Copynumber: 2.4 Consensus size: 88
1350511 TTTTTTTTTA
* * * *
1350521 TAAAAATGTCGCTATATACCA-ACTTTTAGCGGCGTTTGTATCTTAAAAACACCGCTATATACTA
1 TAAAAATGCCGCTAAATACCAGACTTTTAGCGGCGTTTGTATCATAAAAACACCGCTATATACCA
1350585 GACCTATCACGACGTTTGTATCC
66 GACCTATCACGACGTTTGTATCC
* * * *
1350608 TAAAAACGCCGCTAAATACCAGACCTTTAGCGGCGTTTGTATCATAAAAACGCTGCTATATACCA
1 TAAAAATGCCGCTAAATACCAGACTTTTAGCGGCGTTTGTATCATAAAAACACCGCTATATACCA
* *
1350673 GACCTATCGCGGCGTTTGTATCC
66 GACCTATCACGACGTTTGTATCC
*
1350696 TAAAAATGCCGCTAAATACCAGAATTTTAGCGGC
1 TAAAAATGCCGCTAAATACCAGACTTTTAGCGGC
1350730 ATTTTCATAA
Statistics
Matches: 108, Mismatches: 13, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
87 18 0.17
88 90 0.83
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (88 bp):
TAAAAATGCCGCTAAATACCAGACTTTTAGCGGCGTTTGTATCATAAAAACACCGCTATATACCA
GACCTATCACGACGTTTGTATCC
Found at i:1350779 original size:88 final size:88
Alignment explanation
Indices: 1350545--1350755 Score: 230
Period size: 88 Copynumber: 2.4 Consensus size: 88
1350535 TATACCAACT
* * * * * * *
1350545 TTTAGCGGCGTTTGTATCTTAAAAACA-CCGCTATATACTAGACCTATCACGACGTTTGTATCCT
1 TTTAGCGGCATTTGTATC-AAAAAAAAGCCACTAAATACCAGACCTATCGCGACGTTTGTATCCT
*
1350609 AAAAACGCCGCTAAATACCAGACC
65 AAAAACGCCGCTAAATACCAGAAC
* * * ** * *
1350633 TTTAGCGGCGTTTGTATCATAAAAACGCTGCTATATACCAGACCTATCGCGGCGTTTGTATCCTA
1 TTTAGCGGCATTTGTATCAAAAAAAAGCCACTAAATACCAGACCTATCGCGACGTTTGTATCCTA
* *
1350698 AAAATGCCGCTAAATACCAGAAT
66 AAAACGCCGCTAAATACCAGAAC
1350721 TTTAGCGGCATTT-TCAT-AAAAAAAAGCCACTAAAT
1 TTTAGCGGCATTTGT-ATCAAAAAAAAGCCACTAAAT
1350756 CTCAACACTT
Statistics
Matches: 104, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
87 18 0.17
88 86 0.83
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (88 bp):
TTTAGCGGCATTTGTATCAAAAAAAAGCCACTAAATACCAGACCTATCGCGACGTTTGTATCCTA
AAAACGCCGCTAAATACCAGAAC
Found at i:1350873 original size:43 final size:43
Alignment explanation
Indices: 1350747--1350874 Score: 134
Period size: 43 Copynumber: 3.0 Consensus size: 43
1350737 TAAAAAAAAG
* * * * *
1350747 CCACTAAATCTCAACACTTATTGCGACGTTTGTGATAA-AAACA
1 CCACTAAATATCAATACCTATTGCGGCGTTTGT-TTAACAAACA
* * *
1350790 CCGCTAAATATCAATACCTATTGCAGCGTTTG-TAAGACAAACA
1 CCACTAAATATCAATACCTATTGCGGCGTTTGTTTA-ACAAACA
* *
1350833 CCACTAAATATCATTACGTATTGCGGCGTTTGTTTAACAAAC
1 CCACTAAATATCAATACCTATTGCGGCGTTTGTTTAACAAAC
1350875 GCGGATTGCG
Statistics
Matches: 69, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
41 1 0.01
42 1 0.01
43 65 0.94
44 2 0.03
ACGTcount: A:0.35, C:0.23, G:0.13, T:0.29
Consensus pattern (43 bp):
CCACTAAATATCAATACCTATTGCGGCGTTTGTTTAACAAACA
Found at i:1350890 original size:27 final size:28
Alignment explanation
Indices: 1350852--1350905 Score: 83
Period size: 27 Copynumber: 1.9 Consensus size: 28
1350842 ATCATTACGT
1350852 ATTGCGGCGTTTGT-TTAACAAACGCGG
1 ATTGCGGCGTTTGTATTAACAAACGCGG
*
1350879 ATTGCGGCGTTTTTCATTAACAAACGC
1 ATTGCGGCGTTTGT-ATTAACAAACGC
1350906 CGCGAACTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 13 0.54
29 11 0.46
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.31
Consensus pattern (28 bp):
ATTGCGGCGTTTGTATTAACAAACGCGG
Found at i:1353252 original size:18 final size:19
Alignment explanation
Indices: 1353209--1353254 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
1353199 TTCTAGTAAT
*
1353209 TTTAAAAAATTTATTTAAA
1 TTTAAAAAAATTATTTAAA
* *
1353228 ATT-AAAAAATTA-TTATA
1 TTTAAAAAAATTATTTAAA
1353245 TTTAAAAAAA
1 TTTAAAAAAA
1353255 CTCAAATATT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
17 6 0.27
18 14 0.64
19 2 0.09
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
TTTAAAAAAATTATTTAAA
Found at i:1353958 original size:34 final size:34
Alignment explanation
Indices: 1353919--1353988 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
1353909 TATTATCTTA
1353919 TTAAAAGTAATGGATATGTAATTTTTTTTCATTT
1 TTAAAAGTAATGGATATGTAATTTTTTTTCATTT
*
1353953 TTAAAAGTAATGGATATGTATTTTTTTTTCATTT
1 TTAAAAGTAATGGATATGTAATTTTTTTTCATTT
1353987 TT
1 TT
1353989 CATTTTTTCT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.30, C:0.03, G:0.11, T:0.56
Consensus pattern (34 bp):
TTAAAAGTAATGGATATGTAATTTTTTTTCATTT
Found at i:1357097 original size:65 final size:65
Alignment explanation
Indices: 1356993--1357130 Score: 231
Period size: 65 Copynumber: 2.1 Consensus size: 65
1356983 AATTCCTGCA
* * *
1356993 CCTGCACCACGACCAAGCTTTAATCCTATCCCTCATGCATGCATTGCATCCATAGCTGGGAGATT
1 CCTGCATCACGACCAAGCTTTAACCCTATCCCTCATGCATGCATTACATCCATAGCTGGGAGATT
* *
1357058 CCTGCATCGCGACCAAGCTTTAACCCTATCCCTCATGCATGCGTTACATCCATAGCTGGGAGATT
1 CCTGCATCACGACCAAGCTTTAACCCTATCCCTCATGCATGCATTACATCCATAGCTGGGAGATT
1357123 CCTGCATC
1 CCTGCATC
1357131 CGTAGCTGCA
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
65 68 1.00
ACGTcount: A:0.23, C:0.33, G:0.17, T:0.26
Consensus pattern (65 bp):
CCTGCATCACGACCAAGCTTTAACCCTATCCCTCATGCATGCATTACATCCATAGCTGGGAGATT
Found at i:1357557 original size:21 final size:21
Alignment explanation
Indices: 1357532--1357575 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
1357522 AATCTAGTTA
1357532 ATTAGTTTGTTAGTATAAATT
1 ATTAGTTTGTTAGTATAAATT
* *
1357553 ATTAGTTTGTTAGTTTAAGTT
1 ATTAGTTTGTTAGTATAAATT
1357574 AT
1 AT
1357576 ATTATATTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.55
Consensus pattern (21 bp):
ATTAGTTTGTTAGTATAAATT
Found at i:1357585 original size:28 final size:30
Alignment explanation
Indices: 1357552--1357614 Score: 112
Period size: 28 Copynumber: 2.2 Consensus size: 30
1357542 TAGTATAAAT
1357552 TATTAGTTTGTTAGTTTAAG-T-TATATTA
1 TATTAGTTTGTTAGTTTAAGTTATATATTA
1357580 TATTAGTTTGTTAGTTTAAGTTATATATTA
1 TATTAGTTTGTTAGTTTAAGTTATATATTA
1357610 TATTA
1 TATTA
1357615 TATAAAAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 20 0.61
29 1 0.03
30 12 0.36
ACGTcount: A:0.30, C:0.00, G:0.13, T:0.57
Consensus pattern (30 bp):
TATTAGTTTGTTAGTTTAAGTTATATATTA
Found at i:1358121 original size:17 final size:17
Alignment explanation
Indices: 1358099--1358160 Score: 61
Period size: 17 Copynumber: 3.4 Consensus size: 17
1358089 AGATAATTTC
1358099 TGTTTAAAAAAATATTG
1 TGTTTAAAAAAATATTG
* *
1358116 TGTTTAAAAATATTTAGTG
1 TGTTTAAAAA-A-ATATTG
*
1358135 TTGTTTTAAAAAAATATTT
1 -TG-TTTAAAAAAATATTG
1358154 TGTTTAA
1 TGTTTAA
1358161 TTTATATTGT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
17 15 0.42
18 3 0.08
19 7 0.19
20 3 0.08
21 8 0.22
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.48
Consensus pattern (17 bp):
TGTTTAAAAAAATATTG
Found at i:1358164 original size:22 final size:23
Alignment explanation
Indices: 1358121--1358164 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
1358111 TATTGTGTTT
**
1358121 AAAAATATTTAGTGTTGTTTTAA
1 AAAAATATTTAGTGTTAATTTAA
*
1358144 AAAAATATTTTGT-TTAATTTA
1 AAAAATATTTAGTGTTAATTTA
1358165 TATTGTATGT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (23 bp):
AAAAATATTTAGTGTTAATTTAA
Found at i:1361495 original size:12 final size:12
Alignment explanation
Indices: 1361474--1361528 Score: 69
Period size: 12 Copynumber: 4.7 Consensus size: 12
1361464 CATAAAAATG
1361474 ATTTAATAAT-A
1 ATTTAATAATAA
*
1361485 ATTTAAATAAT-G
1 ATTT-AATAATAA
*
1361497 ATTTAATAATGA
1 ATTTAATAATAA
1361509 ATTTAATAATAA
1 ATTTAATAATAA
1361521 ATTTAATA
1 ATTTAATA
1361529 TTTAATGATT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
11 10 0.26
12 29 0.74
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.44
Consensus pattern (12 bp):
ATTTAATAATAA
Found at i:1361496 original size:23 final size:24
Alignment explanation
Indices: 1361466--1361641 Score: 89
Period size: 26 Copynumber: 7.2 Consensus size: 24
1361456 CAATTAACCA
1361466 TAAA-AATGATTTAATAAT-AATT
1 TAAATAATGATTTAATAATGAATT
1361488 TAAATAATGATTTAATAATGAATT
1 TAAATAATGATTTAATAATGAATT
* * *
1361512 T-AATAATAAATTTAATATTTAA-T
1 TAAATAAT-GATTTAATAATGAATT
* ** * *
1361535 GATTTGATGATTTAGTAATG-ATT
1 TAAATAATGATTTAATAATGAATT
* *
1361558 TGATAATAATCATTATAGTAATG-ATT
1 T-A-AATAATGATT-TAATAATGAATT
*
1361584 TGATAATAATCATTATAATAATG-ATT
1 T-A-AATAATGATT-TAATAATGAATT
* *
1361610 TAGTAATAATCATTATAGTAATG-ATT
1 TA--AATAATGATT-TAATAATGAATT
1361636 TAAATA
1 TAAATA
1361642 TTTAATGATT
Statistics
Matches: 127, Mismatches: 18, Indels: 16
0.79 0.11 0.10
Matches are distributed among these distances:
22 5 0.04
23 30 0.24
24 24 0.19
25 7 0.06
26 61 0.48
ACGTcount: A:0.46, C:0.02, G:0.09, T:0.43
Consensus pattern (24 bp):
TAAATAATGATTTAATAATGAATT
Found at i:1361576 original size:26 final size:26
Alignment explanation
Indices: 1361547--1361636 Score: 155
Period size: 26 Copynumber: 3.5 Consensus size: 26
1361537 TTTGATGATT
1361547 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
1361573 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
*
1361599 TAATAATGATTT-AGTAATAATCATTA
1 TAGTAATGATTTGA-TAATAATCATTA
1361625 TAGTAATGATTT
1 TAGTAATGATTT
1361637 AAATATTTAA
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
25 1 0.02
26 60 0.98
ACGTcount: A:0.42, C:0.03, G:0.11, T:0.43
Consensus pattern (26 bp):
TAGTAATGATTTGATAATAATCATTA
Found at i:1361637 original size:26 final size:26
Alignment explanation
Indices: 1361547--1361674 Score: 145
Period size: 26 Copynumber: 4.8 Consensus size: 26
1361537 TTTGATGATT
1361547 TAGTAATGATTT-GATAATAATCATTA
1 TAGTAATGATTTAG-TAATAATCATTA
1361573 TAGTAATGATTT-GATAATAATCATTA
1 TAGTAATGATTTAG-TAATAATCATTA
*
1361599 TAATAATGATTTAGTAATAATCATTA
1 TAGTAATGATTTAGTAATAATCATTA
* * *
1361625 TAGTAATGATTTAAATATTTAATGATTTGA
1 TAGTAATGATTT-AGTA-ATAATCA-TT-A
1361655 TAGTAATGA-TTAGTAATAAT
1 TAGTAATGATTTAGTAATAAT
1361675 GAAATTATTA
Statistics
Matches: 90, Mismatches: 7, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
26 60 0.67
27 8 0.09
28 8 0.09
29 4 0.04
30 10 0.11
ACGTcount: A:0.43, C:0.02, G:0.12, T:0.43
Consensus pattern (26 bp):
TAGTAATGATTTAGTAATAATCATTA
Found at i:1361744 original size:17 final size:18
Alignment explanation
Indices: 1361718--1361752 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
1361708 AATGATTAAT
1361718 AATTATTAATAATAATGA
1 AATTATTAATAATAATGA
1361736 AATTA-TAATAATAATGA
1 AATTATTAATAATAATGA
1361753 TTTACTAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (18 bp):
AATTATTAATAATAATGA
Found at i:1362020 original size:26 final size:25
Alignment explanation
Indices: 1361991--1362273 Score: 190
Period size: 26 Copynumber: 11.2 Consensus size: 25
1361981 GATGATTTAG
1361991 TAATGATTTGATAATAATTATTATAA
1 TAATGATTT-ATAATAATTATTATAA
1362017 TAATGATTTGATAATAATTATTATAA
1 TAATGATTT-ATAATAATTATTATAA
*
1362043 TAATGATTTAGTAATAATCATTATAA
1 TAATGATTTA-TAATAATTATTATAA
* * *
1362069 TAATGATTTA-AATATTTAATGAT-T
1 TAATGATTTATAATAATT-ATTATAA
* *
1362093 TGATGATTTAATAATAATT-TGATAA
1 TAATGATTT-ATAATAATTATTATAA
* *
1362118 TAATCA-TTATAATAATGATTTAGTAA
1 TAATGATTTATAATAATTA-TTA-TAA
* *
1362144 TAATCA-TTATAATAATGATTTAATAA
1 TAATGATTTATAATAATTA-TT-ATAA
* * * *
1362170 TAAT-AATGATAATAATGATTTAATAG
1 TAATGATTTATAATAATTA-TT-ATAA
* *
1362196 TAATTATTTAGTAATGATT-TTATAA
1 TAATGATTTA-TAATAATTATTATAA
* *
1362221 TAATGATTTAATACTAATGATT-TAA
1 TAATGATTT-ATAATAATTATTATAA
* *
1362246 TAATTA-TTACTAATAATTA-TAGAA
1 TAATGATTTA-TAATAATTATTATAA
1362270 TAAT
1 TAAT
1362274 AACAAATGAG
Statistics
Matches: 214, Mismatches: 27, Indels: 34
0.78 0.10 0.12
Matches are distributed among these distances:
23 10 0.05
24 34 0.16
25 37 0.17
26 123 0.57
27 4 0.02
28 6 0.03
ACGTcount: A:0.46, C:0.02, G:0.08, T:0.45
Consensus pattern (25 bp):
TAATGATTTATAATAATTATTATAA
Found at i:1362085 original size:113 final size:113
Alignment explanation
Indices: 1361953--1362192 Score: 385
Period size: 113 Copynumber: 2.1 Consensus size: 113
1361943 AAATATTATT
* * *
1361953 TAATAATGAATTT-AATATTTAATGATTTGATGATTTAGTAATGATTTGATAATAATTATTATAA
1 TAATAATG-ATTTAAATATTTAATGATTTGATGATTTAATAATAATTTGATAATAATCATTATAA
* * * *
1362017 TAATGATTT-GATAATAATTATTATAATAATGATTTAGTAATAATCATTA
65 TAATGATTTAG-TAATAATCATTATAATAATGATTTAATAATAATAATGA
1362066 TAATAATGATTTAAATATTTAATGATTTGATGATTTAATAATAATTTGATAATAATCATTATAAT
1 TAATAATGATTTAAATATTTAATGATTTGATGATTTAATAATAATTTGATAATAATCATTATAAT
1362131 AATGATTTAGTAATAATCATTATAATAATGATTTAATAATAATAATGA
66 AATGATTTAGTAATAATCATTATAATAATGATTTAATAATAATAATGA
1362179 TAATAATGATTTAA
1 TAATAATGATTTAA
1362193 TAGTAATTAT
Statistics
Matches: 118, Mismatches: 7, Indels: 4
0.91 0.05 0.03
Matches are distributed among these distances:
112 4 0.03
113 113 0.96
114 1 0.01
ACGTcount: A:0.45, C:0.01, G:0.09, T:0.45
Consensus pattern (113 bp):
TAATAATGATTTAAATATTTAATGATTTGATGATTTAATAATAATTTGATAATAATCATTATAAT
AATGATTTAGTAATAATCATTATAATAATGATTTAATAATAATAATGA
Found at i:1362115 original size:87 final size:89
Alignment explanation
Indices: 1361982--1362262 Score: 315
Period size: 87 Copynumber: 3.2 Consensus size: 89
1361972 TAATGATTTG
* * * * *
1361982 ATGATTTAGTAATGAT-TTGATAATAATTATTATAATAATGATTTGATAATAATTATTATAATAA
1 ATGATTTAATAATAATAATGATAATAATGATT-TAATAATAATTTGATAATAATTATTATAATAA
1362046 TGATTTAGTAATAATCATTATAATA
65 TGATTTAGTAATAATCATTATAATA
* * * *
1362071 ATGATTT-A-AATATTTAATGAT-TTGATGATTTAATAATAATTTGATAATAATCATTATAATAA
1 ATGATTTAATAATA-ATAATGATAATAATGATTTAATAATAATTTGATAATAATTATTATAATAA
1362133 TGATTTAGTAATAATCATTATAATA
65 TGATTTAGTAATAATCATTATAATA
* * *
1362158 ATGATTTAATAATAATAATGATAATAATGATTTAATAGTAATTATTTAGTAATGATT-TTATAAT
1 ATGATTTAATAATAATAATGATAATAATGATTTAATAATAA-T-TTGA-TAATAATTATTATAAT
* * *
1362222 AATGATTTAATACTAATGATT-TAATA
63 AATGATTTAGTAATAATCATTATAATA
* *
1362248 ATTA-TTACTAATAAT
1 ATGATTTAATAATAAT
1362263 TATAGAATAA
Statistics
Matches: 163, Mismatches: 21, Indels: 16
0.81 0.10 0.08
Matches are distributed among these distances:
87 65 0.40
88 15 0.09
89 40 0.25
90 9 0.06
91 28 0.17
92 6 0.04
ACGTcount: A:0.45, C:0.02, G:0.08, T:0.45
Consensus pattern (89 bp):
ATGATTTAATAATAATAATGATAATAATGATTTAATAATAATTTGATAATAATTATTATAATAAT
GATTTAGTAATAATCATTATAATA
Found at i:1362414 original size:24 final size:24
Alignment explanation
Indices: 1362366--1362410 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
1362356 GATTTGATAC
*
1362366 TAATGATTTACTAATTATTATTAA
1 TAATGATTTACTAATTAATATTAA
*
1362390 TAATGATTTA-TTATTAATATT
1 TAATGATTTACTAATTAATATT
1362411 TAATTATTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.53
Consensus pattern (24 bp):
TAATGATTTACTAATTAATATTAA
Found at i:1362417 original size:17 final size:17
Alignment explanation
Indices: 1362377--1362418 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
1362367 AATGATTTAC
1362377 TAATTATTATTAATAAT
1 TAATTATTATTAATAAT
* * *
1362394 GATTTATTATTAATATT
1 TAATTATTATTAATAAT
1362411 TAATTATT
1 TAATTATT
1362419 TGATACTAAT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (17 bp):
TAATTATTATTAATAAT
Found at i:1363669 original size:14 final size:14
Alignment explanation
Indices: 1363636--1363669 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
1363626 TTTTAATCAA
*
1363636 AATAAATATTTTCT
1 AATAAATATTTTAT
1363650 AATAAATATTTTAT
1 AATAAATATTTTAT
*
1363664 ATTAAA
1 AATAAA
1363670 ATAGAGGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (14 bp):
AATAAATATTTTAT
Found at i:1364694 original size:15 final size:16
Alignment explanation
Indices: 1364674--1364707 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
1364664 AAAAAAAATT
1364674 TAATATAAT-AACTTA
1 TAATATAATAAACTTA
1364689 TAATATAATAAACTTA
1 TAATATAATAAACTTA
1364705 TAA
1 TAA
1364708 AGAAACAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (16 bp):
TAATATAATAAACTTA
Found at i:1364795 original size:30 final size:30
Alignment explanation
Indices: 1364761--1364850 Score: 135
Period size: 30 Copynumber: 3.0 Consensus size: 30
1364751 TTGCTTTAAA
1364761 CAACTAATAAACTATTCTTTAATATAATTT
1 CAACTAATAAACTATTCTTTAATATAATTT
*
1364791 CAACTAATAAACTATTCTTTAATATAACTT
1 CAACTAATAAACTATTCTTTAATATAATTT
* * *
1364821 AAACTAATAAACGATTTTTTAATTATAATT
1 CAACTAATAAACTATTCTTTAA-TATAATT
1364851 CACTACTAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
30 48 0.89
31 6 0.11
ACGTcount: A:0.44, C:0.12, G:0.01, T:0.42
Consensus pattern (30 bp):
CAACTAATAAACTATTCTTTAATATAATTT
Found at i:1364813 original size:15 final size:16
Alignment explanation
Indices: 1364765--1364819 Score: 55
Period size: 15 Copynumber: 3.6 Consensus size: 16
1364755 TTTAAACAAC
1364765 TAATA-AACTATTCTT
1 TAATATAACTATTCTT
**
1364780 TAATATAA-T-TTCAAC
1 TAATATAACTATTC-TT
1364795 TAATA-AACTATTCTT
1 TAATATAACTATTCTT
1364810 TAATATAACT
1 TAATATAACT
1364820 TAAACTAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 9
0.70 0.09 0.20
Matches are distributed among these distances:
14 5 0.16
15 17 0.55
16 9 0.29
ACGTcount: A:0.44, C:0.13, G:0.00, T:0.44
Consensus pattern (16 bp):
TAATATAACTATTCTT
Found at i:1365460 original size:29 final size:29
Alignment explanation
Indices: 1365406--1365481 Score: 100
Period size: 29 Copynumber: 2.6 Consensus size: 29
1365396 AAGGTCGCAG
*
1365406 GGCGTGCATGGCGACCTACCATGTCGCCT
1 GGCGTGCATGGCGACCTACCATGTCGCCC
*
1365435 GGCGTGCATGGCGACCT-CCTTGGTCGCCC
1 GGCGTGCATGGCGACCTACCAT-GTCGCCC
* *
1365464 GGAGTGCATGTCGACCTA
1 GGCGTGCATGGCGACCTA
1365482 TGGGTTGGGT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.93
ACGTcount: A:0.13, C:0.33, G:0.33, T:0.21
Consensus pattern (29 bp):
GGCGTGCATGGCGACCTACCATGTCGCCC
Found at i:1371417 original size:44 final size:45
Alignment explanation
Indices: 1371350--1371448 Score: 123
Period size: 44 Copynumber: 2.2 Consensus size: 45
1371340 ATTATTCTTT
*
1371350 ATTTTCATTTATGGCATCCTTTCATG-CGATAATGCACCGTTATGC
1 ATTTTCATTTATGACATCCTTTCATGTCG-TAATGCACCGTTATGC
* * *
1371395 ATTTT-ATTTATGATATCTTTTCATGTCGTAATGCATCGTTATG-
1 ATTTTCATTTATGACATCCTTTCATGTCGTAATGCACCGTTATGC
*
1371438 AGTTTCATTTA
1 ATTTTCATTTA
1371449 ACTTGCATTA
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
43 4 0.09
44 36 0.77
45 7 0.15
ACGTcount: A:0.23, C:0.16, G:0.14, T:0.46
Consensus pattern (45 bp):
ATTTTCATTTATGACATCCTTTCATGTCGTAATGCACCGTTATGC
Found at i:1371819 original size:55 final size:55
Alignment explanation
Indices: 1371681--1371966 Score: 470
Period size: 54 Copynumber: 5.3 Consensus size: 55
1371671 ATTACGTGGG
* * *
1371681 TTGCACACACAGTGCCAATACCGAAATTCATAAACTTATTATGAATTTCTTAG-G
1 TTGCACACACAGTGCCCATACAGAAATTCATAAACTTATTATGAATTTCTTAGTT
* *
1371735 TTGCACACACAGTGTCAATACAGAAATTCATAAACTTATTATGAATTTCTTAGTT
1 TTGCACACACAGTGCCCATACAGAAATTCATAAACTTATTATGAATTTCTTAGTT
* *
1371790 TTGCACACACAATGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGTT
1 TTGCACACACAGTGCCCATACAGAAATTCATAAACTTATTATGAATTTCTTAGTT
1371845 TTGCACACACAGTGCCCATAC-GAAATTCATAAACTTATTATGAATTTCTTAGTT
1 TTGCACACACAGTGCCCATACAGAAATTCATAAACTTATTATGAATTTCTTAGTT
*
1371899 TTGCACACACAGTGCCCATACAAAAATTCATAAACTTATTATGAATTTCTTAG-T
1 TTGCACACACAGTGCCCATACAGAAATTCATAAACTTATTATGAATTTCTTAGTT
*
1371953 TTGCACGCACAGTG
1 TTGCACACACAGTG
1371967 ACATTTGGTA
Statistics
Matches: 220, Mismatches: 10, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
54 119 0.54
55 101 0.46
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.34
Consensus pattern (55 bp):
TTGCACACACAGTGCCCATACAGAAATTCATAAACTTATTATGAATTTCTTAGTT
Found at i:1371822 original size:109 final size:108
Alignment explanation
Indices: 1371681--1371966 Score: 473
Period size: 109 Copynumber: 2.6 Consensus size: 108
1371671 ATTACGTGGG
* * *
1371681 TTGCACACACAGTGCCAATACCGAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACACA
1 TTGCACACACAGTGCCCATACAGAAATTCATAAACTTATTATGAATTTCTTAGTTTGCACACACA
*
1371746 GTGTCAATACAGAAATTCATAAACTTATTATGAATTTCTTAGTT
66 GTGCCAATAC-GAAATTCATAAACTTATTATGAATTTCTTAGTT
* *
1371790 TTGCACACACAATGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAC
1 TTGCACACACAGTGCCCATACAGAAATTCATAAACTTATTATGAATTTCTTAG-TTTGCACACAC
*
1371855 AGTGCCCATACGAAATTCATAAACTTATTATGAATTTCTTAGTT
65 AGTGCCAATACGAAATTCATAAACTTATTATGAATTTCTTAGTT
* *
1371899 TTGCACACACAGTGCCCATACAAAAATTCATAAACTTATTATGAATTTCTTAGTTTGCACGCACA
1 TTGCACACACAGTGCCCATACAGAAATTCATAAACTTATTATGAATTTCTTAGTTTGCACACACA
1371964 GTG
66 GTG
1371967 ACATTTGGTA
Statistics
Matches: 166, Mismatches: 10, Indels: 3
0.93 0.06 0.02
Matches are distributed among these distances:
108 14 0.08
109 133 0.80
110 19 0.11
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.34
Consensus pattern (108 bp):
TTGCACACACAGTGCCCATACAGAAATTCATAAACTTATTATGAATTTCTTAGTTTGCACACACA
GTGCCAATACGAAATTCATAAACTTATTATGAATTTCTTAGTT
Found at i:1372480 original size:94 final size:94
Alignment explanation
Indices: 1372311--1372509 Score: 211
Period size: 94 Copynumber: 2.1 Consensus size: 94
1372301 ATATACCATG
*** * * *
1372311 GTATCGATACTTCTATATTGTGGTACCGATACTCCCTTTCCGTATCAATACCATTTATACATTCT
1 GTATCGATACTTCTATACCATGGTACCGATACTCCATTACAGTATCAATACCATTTATACATTCT
* * * * *
1372376 GGATCCATGGTATTGACACTTTTCTCCTA
66 GAATCAATGGTATCGACACCTTCCTCCTA
* * * * **
1372405 GTATCGATACTTCTATACCATGGTACCGATACTTCATTACATTATCGATA-CATTTCTGTATTCT
1 GTATCGATACTTCTATACCATGGTACCGATACTCCATTACAGTATCAATACCATTTATACATTCT
* *
1372469 GTAATCAATGGTATCGATACCTTCCTCTTA
66 G-AATCAATGGTATCGACACCTTCCTCCTA
1372499 GTATCGATACT
1 GTATCGATACT
1372510 AATTGCATCA
Statistics
Matches: 85, Mismatches: 19, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
93 12 0.14
94 73 0.86
ACGTcount: A:0.25, C:0.23, G:0.13, T:0.39
Consensus pattern (94 bp):
GTATCGATACTTCTATACCATGGTACCGATACTCCATTACAGTATCAATACCATTTATACATTCT
GAATCAATGGTATCGACACCTTCCTCCTA
Found at i:1376773 original size:38 final size:39
Alignment explanation
Indices: 1376661--1376778 Score: 113
Period size: 38 Copynumber: 3.1 Consensus size: 39
1376651 TTATATTTTT
* * *
1376661 ATTTATAA-TTCTCAAATTATTTTAC-TCTAACATTCTAA
1 ATTTCTAATTTCTTAAATTATTTCACAT-TAACATTCTAA
* *
1376699 ATTTCTAATTTCTTAAATT-TTGCCACCA-TAATATTCTAA
1 ATTTCTAATTTCTTAAATTATT-TCA-CATTAACATTCTAA
1376738 A-TTCTTAATTT-TTAAATTATTTCACATTAACATTCTAA
1 ATTTC-TAATTTCTTAAATTATTTCACATTAACATTCTAA
1376776 ATT
1 ATT
1376779 ATTTTTTAAA
Statistics
Matches: 65, Mismatches: 7, Indels: 15
0.75 0.08 0.17
Matches are distributed among these distances:
37 2 0.03
38 32 0.49
39 30 0.46
40 1 0.02
ACGTcount: A:0.36, C:0.15, G:0.01, T:0.48
Consensus pattern (39 bp):
ATTTCTAATTTCTTAAATTATTTCACATTAACATTCTAA
Found at i:1376986 original size:18 final size:19
Alignment explanation
Indices: 1376954--1376991 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
1376944 ATATATATTT
* *
1376954 AAAAATAATATAATTCTAA
1 AAAAATAATAAAATTATAA
1376973 AAAAATAA-AAAATTATAA
1 AAAAATAATAAAATTATAA
1376991 A
1 A
1376992 TCAGGTACCC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (19 bp):
AAAAATAATAAAATTATAA
Found at i:1379153 original size:16 final size:16
Alignment explanation
Indices: 1379132--1379188 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
1379122 GCCTCCAACG
1379132 TTTATGTTCGTATTCA
1 TTTATGTTCGTATTCA
1379148 TTTATGTTCGTATTCA
1 TTTATGTTCGTATTCA
* **
1379164 TTTATGTTCGTGTTTG
1 TTTATGTTCGTATTCA
1379180 TTTATGTTC
1 TTTATGTTC
1379189 ATTTATTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 38 1.00
ACGTcount: A:0.14, C:0.11, G:0.16, T:0.60
Consensus pattern (16 bp):
TTTATGTTCGTATTCA
Found at i:1383606 original size:21 final size:20
Alignment explanation
Indices: 1383564--1383606 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
1383554 TTTTAAGTCG
**
1383564 TTGGGTCGATTTGGGTTTAA
1 TTGGGTCGATTTGGGTCCAA
*
1383584 TTGGGTTGAGTTTGGGTCCAA
1 TTGGGTCGA-TTTGGGTCCAA
1383605 TT
1 TT
1383607 AGTAAAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.14, C:0.07, G:0.35, T:0.44
Consensus pattern (20 bp):
TTGGGTCGATTTGGGTCCAA
Found at i:1385643 original size:14 final size:14
Alignment explanation
Indices: 1385624--1385651 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1385614 CTAAACTTAG
1385624 CCACCGGTCGGCCA
1 CCACCGGTCGGCCA
1385638 CCACCGGTCGGCCA
1 CCACCGGTCGGCCA
1385652 TCATCGATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.50, G:0.29, T:0.07
Consensus pattern (14 bp):
CCACCGGTCGGCCA
Found at i:1386271 original size:3 final size:3
Alignment explanation
Indices: 1386265--1386350 Score: 91
Period size: 3 Copynumber: 28.7 Consensus size: 3
1386255 ATTTGGCCTG
* * * * *
1386265 TAA TAA TAA TAT TAT TTA TAA TAA TAA TAA TAA TAA TTA TAA CAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
1386313 TAA TAA TAA TAA TAT TTA TAA AAA TAA TTA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1386351 TAAAATGAAA
Statistics
Matches: 67, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 67 1.00
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:1386312 original size:27 final size:27
Alignment explanation
Indices: 1386282--1386350 Score: 111
Period size: 27 Copynumber: 2.6 Consensus size: 27
1386272 AATATTATTT
*
1386282 ATAATAATAATAATAATAATTATAACA
1 ATAATAATAATAATAATAATTATAAAA
*
1386309 ATAATAATAATAATAATATTTATAAAA
1 ATAATAATAATAATAATAATTATAAAA
*
1386336 ATAATTATAATAATA
1 ATAATAATAATAATA
1386351 TAAAATGAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.36
Consensus pattern (27 bp):
ATAATAATAATAATAATAATTATAAAA
Found at i:1386709 original size:45 final size:45
Alignment explanation
Indices: 1386599--1387380 Score: 1197
Period size: 45 Copynumber: 17.2 Consensus size: 45
1386589 TAAAATCTCA
* * * * * *
1386599 TTTGAAAACATCCTACATTGAAGGTCTTACGGATGACCCGAATGCTTT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAA-G--GT
* * *
1386647 TTTGAAAACATCTTGCACTGAAGGGCTTACAGATGACTCAAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
*
1386692 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGGAGGTTT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG--T
*
1386739 TTTGAAAACATCATGCACCGAAGGGCTTACAGATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
* * *
1386784 TTTGAAAACATTATACACTGAAGGGCTTACAGATTACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
* * *
1386829 TTTGAAAAAATCACGCACTGAAGGGCTTACAGATGACCCGAAGTT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
*
1386874 TTTAAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
*
1386919 TTTGAAAACATCATGCACTGAAGTGCTTACAGAT-ATCCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGA-CCCGAAGGT
1386964 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
* * * *
1387009 TTTGAAAACATCATGCATTAAAGGGCTTAAAGATGACCTGAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
* *
1387054 TTTGAAAACATCATGCACTAAAAGGCTTACAGATGACCCGAAGGTT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG-T
** * *
1387100 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGGTCCAAAGTT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
*
1387145 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCAAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
*
1387190 TTTGAAAACTTCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
*
1387235 TTTGAAAACATCATGAACTGAAGGGCTTACAGATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
1387280 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
*
1387325 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCAAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
1387370 TTTGAAAACAT
1 TTTGAAAACAT
1387381 TAAAAAGCTC
Statistics
Matches: 675, Mismatches: 54, Indels: 13
0.91 0.07 0.02
Matches are distributed among these distances:
44 1 0.00
45 555 0.82
46 40 0.06
47 44 0.07
48 35 0.05
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (45 bp):
TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
Found at i:1387257 original size:25 final size:25
Alignment explanation
Indices: 1387229--1387348 Score: 62
Period size: 25 Copynumber: 5.2 Consensus size: 25
1387219 CAGATGACCC
1387229 GAAGGTTTTGAAAACATCATGAACT
1 GAAGGTTTTGAAAACATCATGAACT
** * * *
1387254 GAAGGGCTT----ACA-GATGACCC
1 GAAGGTTTTGAAAACATCATGAACT
*
1387274 GAAGGTTTTGAAAACATCATGCACT
1 GAAGGTTTTGAAAACATCATGAACT
** * * *
1387299 GAAGGGCTT----ACA-GATGACCC
1 GAAGGTTTTGAAAACATCATGAACT
*
1387319 GAAGGTTTTGAAAACATCATGCACT
1 GAAGGTTTTGAAAACATCATGAACT
1387344 GAAGG
1 GAAGG
1387349 GCTTACAGAT
Statistics
Matches: 62, Mismatches: 23, Indels: 20
0.59 0.22 0.19
Matches are distributed among these distances:
20 23 0.37
21 6 0.10
24 6 0.10
25 27 0.44
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (25 bp):
GAAGGTTTTGAAAACATCATGAACT
Found at i:1388632 original size:54 final size:54
Alignment explanation
Indices: 1388550--1388711 Score: 220
Period size: 54 Copynumber: 3.0 Consensus size: 54
1388540 ATAATCACTG
* * *
1388550 GTTCGTAAAACATGTGACAATACATTCATCATTTCTCGTGGTTTCTGCACAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCATTTCTTGTGGTTTCTGCACAGAT
* * *
1388604 GTTCGTAAAACATTTGATAACACATTCATCCTTTCTTGTGGCTTCTGGC-CAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCATTTCTTGTGGTTTCT-GCACAGAT
* *
1388658 GTTCGTAAAGCATTTGACAACACATTCATCATTT-TATGTGGTTTCTACACAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCATTTCT-TGTGGTTTCTGCACAGAT
1388712 TTCTGATCAA
Statistics
Matches: 94, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
53 2 0.02
54 90 0.96
55 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.36
Consensus pattern (54 bp):
GTTCGTAAAACATTTGACAACACATTCATCATTTCTTGTGGTTTCTGCACAGAT
Found at i:1389736 original size:75 final size:74
Alignment explanation
Indices: 1389582--1389810 Score: 246
Period size: 75 Copynumber: 3.1 Consensus size: 74
1389572 ATGCCCTAAC
* * * * * *
1389582 ATTTGCTAATACAGACGTTCCAAATGCACCAACATTCCTGATTCTGATT-AAAAGGGCTTTCAGC
1 ATTTGCTGATACAAACGTTCAAAATGCAACAATATT-CTGATTCTGATTGAAATGGGCTTTCAGC
* *
1389646 ATGGCCCAGC
65 ATGCCCCAGT
* * *
1389656 ATTTGCTGATACAAATGTTTAAAATG-AGACAATATTTTTGATTCTGATTGAAATGGGCTTTCAG
1 ATTTGCTGATACAAACGTTCAAAATGCA-ACAATA-TTCTGATTCTGATTGAAATGGGCTTTCAG
1389720 CATGCCCCAGT
64 CATGCCCCAGT
** ** *
1389731 ATTTGCTGATACAAACGTTCAAAATGCATTAATATTCAAACTTCAGATTGAAATGGGCTTTCAGC
1 ATTTGCTGATACAAACGTTCAAAATGCAACAATATTCTGA-TTCTGATTGAAATGGGCTTTCAGC
* *
1389796 ATGCTCCAAT
65 ATGCCCCAGT
1389806 ATTTG
1 ATTTG
1389811 TTTCTTGTTG
Statistics
Matches: 129, Mismatches: 21, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
73 1 0.01
74 39 0.30
75 88 0.68
76 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.32
Consensus pattern (74 bp):
ATTTGCTGATACAAACGTTCAAAATGCAACAATATTCTGATTCTGATTGAAATGGGCTTTCAGCA
TGCCCCAGT
Found at i:1397476 original size:2 final size:2
Alignment explanation
Indices: 1397469--1397554 Score: 119
Period size: 2 Copynumber: 45.5 Consensus size: 2
1397459 AAAAATAAAG
*
1397469 TA TA TA TA TA GA TA TA TA TA TA TA TA TA -A TA T- 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
*
1397509 TA TA TA TA TA TA TA TA TC TA TA -A TA TA TA TA T- TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1397548 TA TA TA T
1 TA TA TA T
1397555 TGGTTTTATA
Statistics
Matches: 75, Mismatches: 4, Indels: 10
0.84 0.04 0.11
Matches are distributed among these distances:
1 5 0.07
2 70 0.93
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1397723 original size:5 final size:5
Alignment explanation
Indices: 1397713--1397754 Score: 59
Period size: 5 Copynumber: 8.4 Consensus size: 5
1397703 ATTTCATGAT
*
1397713 TAAAA TAAAA TAAAGA TAAAA T-AAA TAAAA TAAAT TAAAA TA
1 TAAAA TAAAA TAAA-A TAAAA TAAAA TAAAA TAAAA TAAAA TA
1397755 CTAAATTAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
4 4 0.12
5 24 0.73
6 5 0.15
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (5 bp):
TAAAA
Found at i:1398767 original size:3 final size:3
Alignment explanation
Indices: 1398759--1398818 Score: 57
Period size: 3 Copynumber: 20.0 Consensus size: 3
1398749 ATTTGGCCTG
* * * * * * *
1398759 TAA TAA TAA TAT TAT TTA TAA TAA TAA TAA TAT TTA TAA AAA TAA TTA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1398807 TAA TAA TAA TAA
1 TAA TAA TAA TAA
1398819 AATGAAAAAA
Statistics
Matches: 45, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (3 bp):
TAA
Found at i:1398782 original size:18 final size:18
Alignment explanation
Indices: 1398759--1398818 Score: 75
Period size: 18 Copynumber: 3.3 Consensus size: 18
1398749 ATTTGGCCTG
*
1398759 TAATAATAATATTATTTA
1 TAATAATAATAATATTTA
1398777 TAATAATAATAATATTTA
1 TAATAATAATAATATTTA
* * * *
1398795 TAAAAATAATTATAATAA
1 TAATAATAATAATATTTA
1398813 TAATAA
1 TAATAA
1398819 AATGAAAAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TAATAATAATAATATTTA
Found at i:1398802 original size:21 final size:21
Alignment explanation
Indices: 1398760--1398820 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
1398750 TTTGGCCTGT
*
1398760 AATAATAATATTATTTAT---
1 AATAATAATAATATTTATAAA
1398778 AATAATAATAATATTTATAAA
1 AATAATAATAATATTTATAAA
* * *
1398799 AATAATTATAATAATAATAAA
1 AATAATAATAATATTTATAAA
1398820 A
1 A
1398821 TGAAAAAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
18 17 0.47
21 19 0.53
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
AATAATAATAATATTTATAAA
Found at i:1402518 original size:18 final size:18
Alignment explanation
Indices: 1402495--1402535 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
1402485 TAGAGTGCGG
1402495 TAGTGTAGGACCTCCCTT
1 TAGTGTAGGACCTCCCTT
*
1402513 TAGTGTGGGACCTCCCTT
1 TAGTGTAGGACCTCCCTT
1402531 TAGTG
1 TAGTG
1402536 AGGCAAGCTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.15, C:0.24, G:0.27, T:0.34
Consensus pattern (18 bp):
TAGTGTAGGACCTCCCTT
Found at i:1403043 original size:89 final size:89
Alignment explanation
Indices: 1402881--1403043 Score: 197
Period size: 89 Copynumber: 1.8 Consensus size: 89
1402871 ATAGGTATAA
* * * *
1402881 GTAGGCTAGAGGGGTGTGTGAGCTTCGAAATATAACCTTTTAGTGCACCATAATGCCTACCTCAG
1 GTAGGCTAGAGGGGTATGTGAGCTTCGAAATATAACCTATCAGTGCACCATAATGCCTACCTCAA
*
1402946 CTTGTGTGTTGCATAGTAGTGTAG
66 CTTATGTGTTGCATAGTAGTGTAG
* * * *
1402970 GTAGGCTAGAGGGGTATGTGAGCTTC-AAGATGTAGGCC-ATCAGTCGCACTATGATGCCTACCT
1 GTAGGCTAGAGGGGTATGTGAGCTTCGAA-ATATA-ACCTATCAGT-GCACCATAATGCCTACCT
1403033 CAAC-TATGTGT
63 CAACTTATGTGT
1403044 ATATGTTTAT
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
88 2 0.03
89 39 0.63
90 21 0.34
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.29
Consensus pattern (89 bp):
GTAGGCTAGAGGGGTATGTGAGCTTCGAAATATAACCTATCAGTGCACCATAATGCCTACCTCAA
CTTATGTGTTGCATAGTAGTGTAG
Found at i:1409704 original size:21 final size:23
Alignment explanation
Indices: 1409678--1409729 Score: 63
Period size: 21 Copynumber: 2.3 Consensus size: 23
1409668 GGTCATTGGT
*
1409678 ATAATTTACCTTT-TATTTTA-A
1 ATAATTTACCTTTAAATTTTATA
*
1409699 ATAATTTATCTTTAAATTTTATA
1 ATAATTTACCTTTAAATTTTATA
*
1409722 CTAATTTA
1 ATAATTTA
1409730 TAATTATATG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 12 0.46
22 6 0.23
23 8 0.31
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.56
Consensus pattern (23 bp):
ATAATTTACCTTTAAATTTTATA
Found at i:1416158 original size:14 final size:13
Alignment explanation
Indices: 1416138--1416177 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 13
1416128 TTTGTTTCAC
*
1416138 TAAAAATAATTTT
1 TAAAAATAAATTT
1416151 TGAAAAATAAATTT
1 T-AAAAATAAATTT
1416165 TAAAAAGTAAATT
1 TAAAAA-TAAATT
1416178 ATATTTCTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 6 0.25
14 18 0.75
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (13 bp):
TAAAAATAAATTT
Found at i:1420021 original size:3 final size:3
Alignment explanation
Indices: 1420013--1420037 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
1420003 ATTTTTTATT
1420013 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
1420038 GAAAAAATTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:1420728 original size:10 final size:10
Alignment explanation
Indices: 1420713--1420766 Score: 55
Period size: 10 Copynumber: 5.8 Consensus size: 10
1420703 TTCATCTTCT
1420713 TTTTCTTCAC
1 TTTTCTTCAC
1420723 TTTTCTT--C
1 TTTTCTTCAC
*
1420731 --TTCTT-TC
1 TTTTCTTCAC
1420738 TTTCTCTTCAC
1 TTT-TCTTCAC
1420749 TTTTCTTCAC
1 TTTTCTTCAC
1420759 TTTTCTTC
1 TTTTCTTC
1420767 GTTTCCTCTT
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
6 5 0.13
7 1 0.03
8 1 0.03
9 1 0.03
10 26 0.68
11 4 0.11
ACGTcount: A:0.06, C:0.30, G:0.00, T:0.65
Consensus pattern (10 bp):
TTTTCTTCAC
Found at i:1420745 original size:26 final size:25
Alignment explanation
Indices: 1420700--1420757 Score: 89
Period size: 26 Copynumber: 2.3 Consensus size: 25
1420690 CTTCAACACA
*
1420700 TTCTTCATCTTCTTTTTCTTCACTT
1 TTCTTCATCTTCTTTCTCTTCACTT
*
1420725 TTCTTCTTCTTTCTTTCTCTTCACTT
1 TTCTTCATC-TTCTTTCTCTTCACTT
1420751 TTCTTCA
1 TTCTTCA
1420758 CTTTTCTTCG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 8 0.28
26 21 0.72
ACGTcount: A:0.07, C:0.29, G:0.00, T:0.64
Consensus pattern (25 bp):
TTCTTCATCTTCTTTCTCTTCACTT
Found at i:1420763 original size:26 final size:25
Alignment explanation
Indices: 1420700--1420765 Score: 87
Period size: 26 Copynumber: 2.6 Consensus size: 25
1420690 CTTCAACACA
* *
1420700 TTCTTCATCTTCTTTTTCTTCACTT
1 TTCTTCATTTTCTTTCTCTTCACTT
*
1420725 TTCTTCTTCTTTCTTTCTCTTCACTT
1 TTCTTCAT-TTTCTTTCTCTTCACTT
1420751 TTCTTCACTTTTCTT
1 TTCTTCA-TTTTCTT
1420766 CGTTTCCTCT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
25 7 0.20
26 27 0.77
27 1 0.03
ACGTcount: A:0.06, C:0.29, G:0.00, T:0.65
Consensus pattern (25 bp):
TTCTTCATTTTCTTTCTCTTCACTT
Found at i:1422638 original size:26 final size:25
Alignment explanation
Indices: 1422602--1422653 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 25
1422592 ATAAGAGGAA
*
1422602 AAGAACAAAAGTGAAGAGAAAGAAAG
1 AAGAACAAAAGTGAAGA-AAAAAAAG
*
1422628 AAGAAGAAAAGTGAAGAAAAAAAAG
1 AAGAACAAAAGTGAAGAAAAAAAAG
1422653 A
1 A
1422654 TGGGGAATGG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 8 0.33
26 16 0.67
ACGTcount: A:0.69, C:0.02, G:0.25, T:0.04
Consensus pattern (25 bp):
AAGAACAAAAGTGAAGAAAAAAAAG
Found at i:1423821 original size:47 final size:45
Alignment explanation
Indices: 1423745--1423870 Score: 155
Period size: 47 Copynumber: 2.8 Consensus size: 45
1423735 TATAAAATCT
* * *
1423745 CTTACCATTTATCCCATATGCTCGTAAGCTTATTTTACCAAAATA
1 CTTACCATTTATTCCATAAGCTCATAAGCTTATTTTACCAAAATA
* *
1423790 CTTACCATTTAAATTCCATAAGCTCATAAGCTTATTTTTCCAATATA
1 CTTACCATTT--ATTCCATAAGCTCATAAGCTTATTTTACCAAAATA
* * *
1423837 CTTGCCA-TTATTCCGTAGGCTCATAAGCTTATTT
1 CTTACCATTTATTCCATAAGCTCATAAGCTTATTT
1423871 GCATGGTTAT
Statistics
Matches: 71, Mismatches: 8, Indels: 5
0.85 0.10 0.06
Matches are distributed among these distances:
44 23 0.32
45 10 0.14
46 2 0.03
47 36 0.51
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (45 bp):
CTTACCATTTATTCCATAAGCTCATAAGCTTATTTTACCAAAATA
Found at i:1430939 original size:47 final size:45
Alignment explanation
Indices: 1430861--1430985 Score: 146
Period size: 47 Copynumber: 2.8 Consensus size: 45
1430851 TATAAAATCT
* * * *
1430861 CTTACCATTTATCCCATATGCTCGTTAGCTTATTTTACCAAAATA
1 CTTACCATTTATTCCATAAGCTCATAAGCTTATTTTACCAAAATA
* *
1430906 CTTACCATTTAAATTCCATAAGCTCATAAGCTTATTTTTCCAATATA
1 CTTACCATTT--ATTCCATAAGCTCATAAGCTTATTTTACCAAAATA
* *
1430953 CTTGCCA-TTATTCCGTAAGCTCATAAGC-TATTT
1 CTTACCATTTATTCCATAAGCTCATAAGCTTATTT
1430986 GCATGGTTAC
Statistics
Matches: 70, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
43 5 0.07
44 18 0.26
45 10 0.14
46 2 0.03
47 35 0.50
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.40
Consensus pattern (45 bp):
CTTACCATTTATTCCATAAGCTCATAAGCTTATTTTACCAAAATA
Found at i:1433550 original size:3 final size:3
Alignment explanation
Indices: 1433536--1433574 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
1433526 GTTTTACTTT
*
1433536 TTA TTT TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1433575 ACAATATTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:1434738 original size:23 final size:23
Alignment explanation
Indices: 1434712--1434757 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
1434702 CACCACAGCT
*
1434712 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
*
1434735 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
1434758 TATAATAATG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.28, C:0.26, G:0.24, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:1435951 original size:18 final size:18
Alignment explanation
Indices: 1435930--1435964 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
1435920 TCCCATCTAG
1435930 CTTATC-TTATATGTTCAT
1 CTTATCATT-TATGTTCAT
1435948 CTTATCATTTATGTTCA
1 CTTATCATTTATGTTCA
1435965 AATCTCCTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.23, C:0.17, G:0.06, T:0.54
Consensus pattern (18 bp):
CTTATCATTTATGTTCAT
Found at i:1436607 original size:63 final size:63
Alignment explanation
Indices: 1436455--1436614 Score: 189
Period size: 64 Copynumber: 2.5 Consensus size: 63
1436445 TAATGAAGGT
* * * *
1436455 ATGCATCGATGCACTACACCATGCATCGATGCATAAATCCTATTCGATGTTTGTATTTAATGGGG
1 ATGCATCGATGCACTACA-TATGCATCGATGCATAAATCATATTCGATGTTTCTATTTAAT-GGC
* * *
1436520 ATGCATCGATGCACTCCTTATGCATCGATGCATAAATCATATTCG-TGTTTTCTATTTAAAT-TC
1 ATGCATCGATGCACTACATATGCATCGATGCATAAATCATATTCGATG-TTTCTATTT-AATGGC
* *
1436583 ATGCATCGATGCACTGCATGTGCATCGATGCA
1 ATGCATCGATGCACTACATATGCATCGATGCA
1436615 CCTTAAATAA
Statistics
Matches: 83, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
63 31 0.37
64 33 0.40
65 19 0.23
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (63 bp):
ATGCATCGATGCACTACATATGCATCGATGCATAAATCATATTCGATGTTTCTATTTAATGGC
Found at i:1440078 original size:151 final size:149
Alignment explanation
Indices: 1439726--1440029 Score: 431
Period size: 151 Copynumber: 2.0 Consensus size: 149
1439716 CCGAAGTGCA
* **
1439726 GCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAGAA
1 GCGTAGAATCGCACCGTAGTGCCATATAACCATGTCCAT-A-GACCACATAGAATTCCTTAAGAA
** *
1439791 TCATATACATATGCTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCACAGAATAT
64 TCATATACATATGCTAGGGATCAAGTATGTGTCTCACAAGACTTCACACATGTTCCACAGAAGAT
1439856 ATATATATATCCCGAAGGACC
129 ATATATATATCCCGAAGGACC
* **
1439877 GCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAA
1 GCGTAGAATCGCACCGTAGTGCCATATAACCATGTCCAT-A-GACCACATAGAATTCCTTAAGAA
*
1439942 TCATATACATATGCTA-GGATCATA-TATGTGTCTCACCAGACTTCACACATGTT-C-CA-AAGA
64 TCATATACATATGCTAGGGATCA-AGTATGTGTCTCACAAGACTTCACACATGTTCCACAGAAGA
1440002 -ATATATATATCCCGAAGGACC
128 TATATATATATCCCGAAGGACC
1440023 GCGTAGA
1 GCGTAGA
1440030 CCCTCGACTC
Statistics
Matches: 147, Mismatches: 5, Indels: 7
0.92 0.03 0.04
Matches are distributed among these distances:
146 28 0.19
147 3 0.02
148 2 0.01
149 1 0.01
150 32 0.22
151 81 0.55
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (149 bp):
GCGTAGAATCGCACCGTAGTGCCATATAACCATGTCCATAGACCACATAGAATTCCTTAAGAATC
ATATACATATGCTAGGGATCAAGTATGTGTCTCACAAGACTTCACACATGTTCCACAGAAGATAT
ATATATATCCCGAAGGACC
Found at i:1440937 original size:18 final size:18
Alignment explanation
Indices: 1440916--1440950 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
1440906 TCCCATCTAG
1440916 CTTATC-TTATATGTTCAT
1 CTTATCATT-TATGTTCAT
1440934 CTTATCATTTATGTTCA
1 CTTATCATTTATGTTCA
1440951 AATCTCCTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.23, C:0.17, G:0.06, T:0.54
Consensus pattern (18 bp):
CTTATCATTTATGTTCAT
Found at i:1441558 original size:65 final size:65
Alignment explanation
Indices: 1441434--1441558 Score: 173
Period size: 64 Copynumber: 1.9 Consensus size: 65
1441424 TAATGAAGGT
* *
1441434 ATGCATCGATGCACTACACCATGCATCGATGCATAAATCCTATTCGATGGTTGTATTTAATGGGG
1 ATGCATCGATGCACTACACCATGCATCGATGCATAAATCATATTCGATGGTTCTATTTAATGGGG
* * *
1441499 ATGCATCGATGCACT-C-CTTATGTATCGATGCATAAATCATATTCGATGTTTTCTATTTAA
1 ATGCATCGATGCACTACAC-CATGCATCGATGCATAAATCATATTCGATG-GTTCTATTTAA
1441559 ATTCATGCAT
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
63 1 0.02
64 28 0.53
65 24 0.45
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (65 bp):
ATGCATCGATGCACTACACCATGCATCGATGCATAAATCATATTCGATGGTTCTATTTAATGGGG
Found at i:1441567 original size:64 final size:64
Alignment explanation
Indices: 1441434--1441594 Score: 168
Period size: 64 Copynumber: 2.5 Consensus size: 64
1441424 TAATGAAGGT
* * *
1441434 ATGCATCGATGCACTACACCATGCATCGATGCATAAATCCTATTCGATGGTTGTATTTAATGGGG
1 ATGCATCGATGCACTACACCATGCATCGATGCATAAATCATATTCGATGGTTCTATTTAAT-GGC
* * *
1441499 ATGCATCGATGCACT-C-CTTATGTATCGATGCATAAATCATATTCGATGTTTTCTATTTAAAT-
1 ATGCATCGATGCACTACAC-CATGCATCGATGCATAAATCATATTCGATG-GTTCTATTT-AATG
*
1441561 TC
63 GC
* **
1441563 ATGCATCGATGCACTGCA-TGTGCATCGATGCA
1 ATGCATCGATGCACTACACCATGCATCGATGCA
1441595 CTGCATGTGC
Statistics
Matches: 82, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
63 1 0.01
64 55 0.67
65 23 0.28
66 3 0.04
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (64 bp):
ATGCATCGATGCACTACACCATGCATCGATGCATAAATCATATTCGATGGTTCTATTTAATGGC
Found at i:1441588 original size:19 final size:19
Alignment explanation
Indices: 1441564--1441614 Score: 102
Period size: 19 Copynumber: 2.7 Consensus size: 19
1441554 TTTAAATTCA
1441564 TGCATCGATGCACTGCATG
1 TGCATCGATGCACTGCATG
1441583 TGCATCGATGCACTGCATG
1 TGCATCGATGCACTGCATG
1441602 TGCATCGATGCAC
1 TGCATCGATGCAC
1441615 CTTAAACAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.25
Consensus pattern (19 bp):
TGCATCGATGCACTGCATG
Found at i:1445672 original size:132 final size:132
Alignment explanation
Indices: 1445435--1445699 Score: 530
Period size: 132 Copynumber: 2.0 Consensus size: 132
1445425 GGGGATATTT
1445435 AAGAGAAAATTTTCACAATGAGAGGTAAAAGTTTTCAATCAAGCATTCATGTATAAAAACATGCA
1 AAGAGAAAATTTTCACAATGAGAGGTAAAAGTTTTCAATCAAGCATTCATGTATAAAAACATGCA
1445500 CCGAGGGGTAAAAGAAGTTCAGAGAGTAGAAAAAGGAGACTTGCTTGAAGATAGTGCAACATTCG
66 CCGAGGGGTAAAAGAAGTTCAGAGAGTAGAAAAAGGAGACTTGCTTGAAGATAGTGCAACATTCG
1445565 AA
131 AA
1445567 AAGAGAAAATTTTCACAATGAGAGGTAAAAGTTTTCAATCAAGCATTCATGTATAAAAACATGCA
1 AAGAGAAAATTTTCACAATGAGAGGTAAAAGTTTTCAATCAAGCATTCATGTATAAAAACATGCA
1445632 CCGAGGGGTAAAAGAAGTTCAGAGAGTAGAAAAAGGAGACTTGCTTGAAGATAGTGCAACATTCG
66 CCGAGGGGTAAAAGAAGTTCAGAGAGTAGAAAAAGGAGACTTGCTTGAAGATAGTGCAACATTCG
1445697 AA
131 AA
1445699 A
1 A
1445700 CAGGAAAGAT
Statistics
Matches: 133, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
132 133 1.00
ACGTcount: A:0.43, C:0.12, G:0.23, T:0.22
Consensus pattern (132 bp):
AAGAGAAAATTTTCACAATGAGAGGTAAAAGTTTTCAATCAAGCATTCATGTATAAAAACATGCA
CCGAGGGGTAAAAGAAGTTCAGAGAGTAGAAAAAGGAGACTTGCTTGAAGATAGTGCAACATTCG
AA
Found at i:1453359 original size:3 final size:3
Alignment explanation
Indices: 1453353--1453398 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
1453343 AAGAATTCAG
1453353 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
1453399 ATCAACTGAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
CTT
Found at i:1456672 original size:51 final size:51
Alignment explanation
Indices: 1456600--1456846 Score: 282
Period size: 51 Copynumber: 4.8 Consensus size: 51
1456590 TTCAAAATAC
* * * *
1456600 AAAAAATATGTAACACTTAACAGATACTTATACTGGTATAAGTGAATAAAAT
1 AAAAAA-ATGTAACACTTAACACATACTTACACTGATGTAAGTGAATAAAAT
* * * * *
1456652 AAATAAGTGTAACATTTAACACATACTTACACCGATGTAAGTGAATAAAACA
1 AAAAAAATGTAACACTTAACACATACTTACACTGATGTAAGTGAATAAAA-T
* * * *
1456704 AAAAAAATGTAGCACTTAACGCATAC-TACACTGGTGTAAGTGGATAAAAT
1 AAAAAAATGTAACACTTAACACATACTTACACTGATGTAAGTGAATAAAAT
* * * * *
1456754 AAAAAAGTATAACACTTAACACATATTTACAAC-GATGTAATTAAATAAAAT
1 AAAAAAATGTAACACTTAACACATACTTAC-ACTGATGTAAGTGAATAAAAT
*
1456805 AAAAAAATGTAACACTTAACACATACTTACACCGATGTAAGT
1 AAAAAAATGTAACACTTAACACATACTTACACTGATGTAAGT
1456847 ATGTATATCT
Statistics
Matches: 160, Mismatches: 31, Indels: 9
0.80 0.16 0.05
Matches are distributed among these distances:
50 23 0.14
51 109 0.68
52 28 0.17
ACGTcount: A:0.49, C:0.14, G:0.11, T:0.26
Consensus pattern (51 bp):
AAAAAAATGTAACACTTAACACATACTTACACTGATGTAAGTGAATAAAAT
Found at i:1456755 original size:102 final size:103
Alignment explanation
Indices: 1456598--1456846 Score: 324
Period size: 102 Copynumber: 2.4 Consensus size: 103
1456588 AATTCAAAAT
* * * * *
1456598 ACAAAAAATATGTAACACTTAACAG-ATACTTATACTGGTATAAGTGAATAAAATAAATAAGTGT
1 ACAAAAAAAATGTAACACTTAAC-GCATACTTACACTGGTGTAAGTGAATAAAATAAAAAAGTAT
* * *
1456662 AACATTTAACACATACTTACACCGATGTAAGTGAATAAA
65 AACACTTAACACATACTTACAACGATGTAAGTAAATAAA
* *
1456701 ACAAAAAAAATGTAGCACTTAACGCATAC-TACACTGGTGTAAGTGGATAAAATAAAAAAGTATA
1 ACAAAAAAAATGTAACACTTAACGCATACTTACACTGGTGTAAGTGAATAAAATAAAAAAGTATA
* *
1456765 ACACTTAACACATATTTACAACGATGTAATTAAATAAA
66 ACACTTAACACATACTTACAACGATGTAAGTAAATAAA
* * * *
1456803 A-TAAAAAAATGTAACACTTAACACATACTTACACCGATGTAAGT
1 ACAAAAAAAATGTAACACTTAACGCATACTTACACTGGTGTAAGT
1456847 ATGTATATCT
Statistics
Matches: 127, Mismatches: 17, Indels: 5
0.85 0.11 0.03
Matches are distributed among these distances:
101 24 0.19
102 78 0.61
103 25 0.20
ACGTcount: A:0.49, C:0.14, G:0.11, T:0.26
Consensus pattern (103 bp):
ACAAAAAAAATGTAACACTTAACGCATACTTACACTGGTGTAAGTGAATAAAATAAAAAAGTATA
ACACTTAACACATACTTACAACGATGTAAGTAAATAAA
Found at i:1463527 original size:111 final size:116
Alignment explanation
Indices: 1463379--1463608 Score: 283
Period size: 120 Copynumber: 2.0 Consensus size: 116
1463369 AGGAAGTGGT
* * * * *
1463379 GGAGGTGGTGCAGATTTAGGAGCTGAACTTCTTTTCAAAGGTGGCA-T-CGGAGGA-G-G-TGGT
1 GGAGGAGGTGCAGATTTAGAAGCTCAACTTCTTTTCAAAAGTGGCATTGAGGAGGAGGAGATGGT
* *
1463439 GGAGGGGATACATGAGATCCAGCTCTAATAGGTGTTGGAGGAGGGGGAGGG
66 GGAGGGGATACATGAGATCCAGCTCTAATAGATGCTGGAGGAGGGGGAGGG
* *
1463490 GGAGGAGGTGCAGATTTAGAAGC-CAAGTTTTTCTTCAAAAGTGGCATTGGAGGAGGAGGAGGAG
1 GGAGGAGGTGCAGATTTAGAAGCTCAACTTCTT-TTCAAAAGTGGCATT----GAGGAGGAGGAG
*
1463554 ATGGTGGAGGGGATACATGAGATTCAGCTCTAATAGATGCTGGAGGAGGGGGAGG
61 ATGGTGGAGGGGATACATGAGATCCAGCTCTAATAGATGCTGGAGGAGGGGGAGG
1463609 TGCAGATTTA
Statistics
Matches: 99, Mismatches: 10, Indels: 11
0.82 0.08 0.09
Matches are distributed among these distances:
110 6 0.06
111 33 0.33
112 1 0.01
117 6 0.06
118 1 0.01
119 1 0.01
120 51 0.52
ACGTcount: A:0.26, C:0.10, G:0.42, T:0.22
Consensus pattern (116 bp):
GGAGGAGGTGCAGATTTAGAAGCTCAACTTCTTTTCAAAAGTGGCATTGAGGAGGAGGAGATGGT
GGAGGGGATACATGAGATCCAGCTCTAATAGATGCTGGAGGAGGGGGAGGG
Found at i:1467189 original size:20 final size:20
Alignment explanation
Indices: 1467164--1467236 Score: 119
Period size: 20 Copynumber: 3.6 Consensus size: 20
1467154 TCCATTTTGA
*
1467164 CAGTATCGGTACTGTCTCAG
1 CAGTATCGGTACTGCCTCAG
*
1467184 CAGTATCGATACTGCCTCAG
1 CAGTATCGGTACTGCCTCAG
*
1467204 CAGTATCGGTACTACCTCAG
1 CAGTATCGGTACTGCCTCAG
1467224 CAGTATCGGTACT
1 CAGTATCGGTACT
1467237 ACTTCATTAT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.27
Consensus pattern (20 bp):
CAGTATCGGTACTGCCTCAG
Found at i:1467312 original size:20 final size:20
Alignment explanation
Indices: 1467289--1467326 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1467279 CTTCTTTAAC
*
1467289 AGTATCGGTACTGTTATAGT
1 AGTATCGGTACTATTATAGT
1467309 AGTATCGGTACTATTATA
1 AGTATCGGTACTATTATA
1467327 TTTAAAAATC
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:0.29, C:0.11, G:0.21, T:0.39
Consensus pattern (20 bp):
AGTATCGGTACTATTATAGT
Found at i:1471832 original size:39 final size:38
Alignment explanation
Indices: 1471723--1471832 Score: 107
Period size: 38 Copynumber: 2.9 Consensus size: 38
1471713 ATTTTTCTCG
* *
1471723 AAAC-AAAATTTTATCTCACTTGAGATAGTTTTTCCTCA
1 AAACAAAAATATTATCTCACTTGAGATA-TTTTCCCTCA
* * * * * *
1471761 AAA-ACAATTATTATCTCACTCGAGACAATTTCCCTTA
1 AAACAAAAATATTATCTCACTTGAGATATTTTCCCTCA
*
1471798 AAACAAAAATATTCATCTCCCTTGAGATATTTTCC
1 AAACAAAAATATT-ATCTCACTTGAGATATTTTCC
1471833 TTTGAAATTT
Statistics
Matches: 55, Mismatches: 14, Indels: 5
0.74 0.19 0.07
Matches are distributed among these distances:
37 10 0.18
38 28 0.51
39 17 0.31
ACGTcount: A:0.36, C:0.22, G:0.06, T:0.35
Consensus pattern (38 bp):
AAACAAAAATATTATCTCACTTGAGATATTTTCCCTCA
Found at i:1471936 original size:56 final size:56
Alignment explanation
Indices: 1471834--1471943 Score: 148
Period size: 56 Copynumber: 2.0 Consensus size: 56
1471824 ATATTTTCCT
* * * * **
1471834 TTGAAATTTTTTGTCTCACTTGAGACAGTTTCTCTAGAAATGAAATTTCATCTCCC
1 TTGAAAATTTTTGTCTCACTCGAGACAATTTATCTAGAAACAAAATTTCATCTCCC
* *
1471890 TTGAAAATTTTTGTCTCACTCGAGATAATTTATCTCGAAACAAAATTTCATCTC
1 TTGAAAATTTTTGTCTCACTCGAGACAATTTATCTAGAAACAAAATTTCATCTC
1471944 ACTCGAGATA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
56 46 1.00
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.40
Consensus pattern (56 bp):
TTGAAAATTTTTGTCTCACTCGAGACAATTTATCTAGAAACAAAATTTCATCTCCC
Found at i:1471973 original size:17 final size:17
Alignment explanation
Indices: 1471916--1471975 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
1471906 CACTCGAGAT
*
1471916 AATTTATCTCGAAACAA
1 AATTTCTCTCGAAACAA
**
1471933 AATTTCATCTC-ACTCGAGA
1 AATTTC-TCTCGAAAC-A-A
1471952 TAATTTCTCTCGAAACAA
1 -AATTTCTCTCGAAACAA
1471970 AATTTC
1 AATTTC
1471976 ATCTTACATG
Statistics
Matches: 33, Mismatches: 5, Indels: 10
0.69 0.10 0.21
Matches are distributed among these distances:
17 13 0.39
18 6 0.18
19 6 0.18
20 8 0.24
ACGTcount: A:0.38, C:0.22, G:0.07, T:0.33
Consensus pattern (17 bp):
AATTTCTCTCGAAACAA
Found at i:1471989 original size:37 final size:37
Alignment explanation
Indices: 1471903--1472136 Score: 150
Period size: 37 Copynumber: 6.5 Consensus size: 37
1471893 AAAATTTTTG
*
1471903 TCTCACTCGAGATAATTTATCTCGAAACAAAATTTCA
1 TCTCACTCGAGATAATTTCTCTCGAAACAAAATTTCA
1471940 TCTCACTCGAGATAATTTCTCTCGAAACAAAATTTCA
1 TCTCACTCGAGATAATTTCTCTCGAAACAAAATTTCA
* * * *
1471977 TCTTACAT-GAGATATTTTCCCATGGAAATC----TTT--
1 TCTCAC-TCGAGATAATTTCTC-TCGAAA-CAAAATTTCA
* *
1472010 TCTCACTCGAGAAAATTTCTCTCTAAA-AAAATTTCA
1 TCTCACTCGAGATAATTTCTCTCGAAACAAAATTTCA
* ** * * * *
1472046 TCTCAATTAAGATATGTTTC-CTTG-AA-AAACTATTCC
1 TCTCACTCGAGATA-ATTTCTCTCGAAACAAAAT-TTCA
* * * * *
1472082 TCTCACTCAAGACATTTTCTCTCAAAACAAAATTGCA
1 TCTCACTCGAGATAATTTCTCTCGAAACAAAATTTCA
* *
1472119 TCTCCCTTGAGAT-ATTTC
1 TCTCACTCGAGATAATTTC
1472137 CCTTGAAATT
Statistics
Matches: 148, Mismatches: 34, Indels: 31
0.69 0.16 0.15
Matches are distributed among these distances:
32 5 0.03
33 15 0.10
34 3 0.02
35 13 0.09
36 32 0.22
37 69 0.47
38 10 0.07
39 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.08, T:0.35
Consensus pattern (37 bp):
TCTCACTCGAGATAATTTCTCTCGAAACAAAATTTCA
Found at i:1472016 original size:70 final size:69
Alignment explanation
Indices: 1471940--1472203 Score: 232
Period size: 70 Copynumber: 3.8 Consensus size: 69
1471930 CAAAATTTCA
* * *
1471940 TCTCACTCGAGATAATTTCTCTCGAAACAAAATTTCATCTTACATGAGATATTTTCCCATGGAAA
1 TCTCACTCAAGACAATTTCTCTCGAAACAAAATTTCATCTCACATGAGATATTTTCCC-TGGAAA
1472005 TCTTT
65 TCTTT
* * * * * *
1472010 TCTCACTCGAGAAAATTTCTCTCTAAA-AAAATTTCATCTCA-ATTAAGATATGTTTCCTTGAAA
1 TCTCACTCAAGACAATTTCTCTCGAAACAAAATTTCATCTCACA-TGAGATAT-TTTCCCTGGAA
*
1472073 AACTATT
64 ATCT-TT
* * * * * *
1472080 CCTCTCACTCAAGACATTTTCTCTCAAAACAAAATTGCATCTCCCTTGAGATA-TTTCCCTTGAA
1 --TCTCACTCAAGACAATTTCTCTCGAAACAAAATTTCATCTCACATGAGATATTTTCCCTGGAA
*
1472144 ATTTTT
64 ATCTTT
* * *
1472150 TGTCCTACTCAAAACAGTTTCTCTCGAAAC-AAATTTCATCTCAC-TAGAGATATT
1 TCT-C-ACTCAAGACAATTTCTCTCGAAACAAAATTTCATCTCACAT-GAGATATT
1472204 GTAACACCCC
Statistics
Matches: 157, Mismatches: 26, Indels: 22
0.77 0.13 0.11
Matches are distributed among these distances:
68 4 0.03
69 46 0.29
70 56 0.36
71 10 0.06
72 23 0.15
73 18 0.11
ACGTcount: A:0.33, C:0.23, G:0.08, T:0.36
Consensus pattern (69 bp):
TCTCACTCAAGACAATTTCTCTCGAAACAAAATTTCATCTCACATGAGATATTTTCCCTGGAAAT
CTTT
Found at i:1472101 original size:72 final size:72
Alignment explanation
Indices: 1471940--1472144 Score: 186
Period size: 72 Copynumber: 2.9 Consensus size: 72
1471930 CAAAATTTCA
* * * * * * * *
1471940 TCTCACTCGAGATAATTTCTCTCGAAACAAAATTTCATCTTACA-TGAGATATTTTCCCATGGAA
1 TCTCACTCAAGAAAATTTCTCTCAAAACAAAATTGCATCTCA-ATTAAGATA-TTTCCCTTGAAA
*
1472004 ATCT-TT--
64 AACTATTCC
* * * *
1472010 TCTCACTCGAGAAAATTTCTCTCTAAA-AAAATTTCATCTCAATTAAGATATGTTTCCTTGAAAA
1 TCTCACTCAAGAAAATTTCTCTCAAAACAAAATTGCATCTCAATTAAGATAT-TTCCCTTGAAAA
1472074 ACTATTCC
65 ACTATTCC
* * ** *
1472082 TCTCACTCAAGACATTTTCTCTCAAAACAAAATTGCATCTCCCTTGAGATATTTCCCTTGAAA
1 TCTCACTCAAGAAAATTTCTCTCAAAACAAAATTGCATCTCAATTAAGATATTTCCCTTGAAA
1472145 TTTTTTGTCC
Statistics
Matches: 112, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
68 2 0.02
69 30 0.27
70 27 0.24
72 33 0.29
73 20 0.18
ACGTcount: A:0.33, C:0.23, G:0.08, T:0.36
Consensus pattern (72 bp):
TCTCACTCAAGAAAATTTCTCTCAAAACAAAATTGCATCTCAATTAAGATATTTCCCTTGAAAAA
CTATTCC
Found at i:1472201 original size:142 final size:142
Alignment explanation
Indices: 1471940--1472202 Score: 320
Period size: 142 Copynumber: 1.9 Consensus size: 142
1471930 CAAAATTTCA
* * * * *
1471940 TCTCACTCGAGATAATTTCTCTCGAAACAAAATTTCATCTTACATGAGATATTTTCCCATGGAAA
1 TCTCACTCAAGACAATTTCTCTCAAAACAAAATTGCATCTCACATGAGATATTTTCCCATGGAAA
* *
1472005 TCTTTTCTCACTCGAGAAAATTTCTCTCTAAAAAAATTTCATCTCAATTAAGATATGTTTCCTTG
66 TCTTTTCTCACTCGAGAAAATTTCTCTCGAAAAAAATTTCATCTCAACTAAGATATGTTTCCTTG
1472070 AAAAACTATTCC
131 AAAAACTATTCC
* * * *
1472082 TCTCACTCAAGACATTTTCTCTCAAAACAAAATTGCATCTCCCTTGAGATA-TTTCCC-TTGAAA
1 TCTCACTCAAGACAATTTCTCTCAAAACAAAATTGCATCTCACATGAGATATTTTCCCATGGAAA
* * *
1472145 TTTTTTGTCCTACTC-A-AAACAGTTTCTCTCGAAACAAATTTCATCTC-ACTAGAGATAT
66 TCTTTTCT-C-ACTCGAGAAA-A-TTTCTCTCGAAAAAAATTTCATCTCAACTA-AGATAT
1472203 TGTAACACCC
Statistics
Matches: 102, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
140 14 0.14
141 12 0.12
142 76 0.75
ACGTcount: A:0.33, C:0.23, G:0.08, T:0.36
Consensus pattern (142 bp):
TCTCACTCAAGACAATTTCTCTCAAAACAAAATTGCATCTCACATGAGATATTTTCCCATGGAAA
TCTTTTCTCACTCGAGAAAATTTCTCTCGAAAAAAATTTCATCTCAACTAAGATATGTTTCCTTG
AAAAACTATTCC
Found at i:1473653 original size:18 final size:18
Alignment explanation
Indices: 1473630--1473664 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
1473620 ACTGTATATT
1473630 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
1473648 TGTCCCGAAGGACCACT
1 TGTCCCGAAGGACCACT
1473665 CCTTAAGAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.26, C:0.34, G:0.23, T:0.17
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:1474529 original size:24 final size:20
Alignment explanation
Indices: 1474472--1474534 Score: 63
Period size: 20 Copynumber: 2.9 Consensus size: 20
1474462 TTCCCCTTGA
*
1474472 AGTGCATCGATGCATTCTAC
1 AGTGCATCGATGCATCCTAC
*
1474492 AGTGTATCGATGCATCCCTTAAC
1 AGTGCATCGATGCAT-CC-T-AC
1474515 ATGTGCATCGATGCACTCCT
1 A-GTGCATCGATGCA-TCCT
1474535 TATGCATTGA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
20 14 0.40
21 1 0.03
22 1 0.03
23 4 0.11
24 14 0.40
25 1 0.03
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (20 bp):
AGTGCATCGATGCATCCTAC
Found at i:1474535 original size:24 final size:22
Alignment explanation
Indices: 1474472--1474536 Score: 71
Period size: 24 Copynumber: 2.9 Consensus size: 22
1474462 TTCCCCTTGA
*
1474472 AGTGCATCGATGCATTC-T-AC
1 AGTGCATCGATGCATCCTTAAC
*
1474492 AGTGTATCGATGCATCCCTTAAC
1 AGTGCATCGATGCAT-CCTTAAC
1474515 ATGTGCATCGATGCACTCCTTA
1 A-GTGCATCGATGCA-TCCTTA
1474537 TGCATTGATG
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
20 14 0.38
21 1 0.03
22 1 0.03
23 3 0.08
24 17 0.46
25 1 0.03
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (22 bp):
AGTGCATCGATGCATCCTTAAC
Found at i:1478686 original size:18 final size:18
Alignment explanation
Indices: 1478663--1478697 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1478653 ACTGTATATT
*
1478663 TGTCCCGGAGGACCACTA
1 TGTCCCGAAGGACCACTA
1478681 TGTCCCGAAGGACCACT
1 TGTCCCGAAGGACCACT
1478698 GTTGAGTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.23, C:0.34, G:0.26, T:0.17
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:1479471 original size:64 final size:64
Alignment explanation
Indices: 1479418--1479581 Score: 238
Period size: 65 Copynumber: 2.5 Consensus size: 64
1479408 CGGTACACCA
*
1479418 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGTCTGAGTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGTCAGAGTGCATCGATGCATGG
** * *
1479482 CTTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAGTCAGAGTGCATCGATGCATGG
** * *
1479547 AGAATGCATCGGTGCATGGAATGCATTCGATGTTT
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTT
1479582 CAATTAATTC
Statistics
Matches: 87, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
64 32 0.37
65 55 0.63
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.31
Consensus pattern (64 bp):
AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGTCAGAGTGCATCGATGCATGG
Found at i:1479570 original size:17 final size:19
Alignment explanation
Indices: 1479532--1479578 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
1479522 ATATTCAGAG
1479532 TGCATCGATGCATGGAGAA
1 TGCATCGATGCATGGAGAA
*
1479551 TGCATCGGTGCAT-G-GAA
1 TGCATCGATGCATGGAGAA
1479568 TGCATTCGATG
1 TGCA-TCGATG
1479579 TTTCAATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 7 0.28
18 6 0.24
19 12 0.48
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.26
Consensus pattern (19 bp):
TGCATCGATGCATGGAGAA
Found at i:1479601 original size:65 final size:62
Alignment explanation
Indices: 1479422--1479628 Score: 202
Period size: 65 Copynumber: 3.2 Consensus size: 62
1479412 ACACCAAGTG
*** *
1479422 TGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGTCTGAGTGCATCGATGCATGGCTTG-
1 TGCATCGATGCATGAAATGCATTCGATGTTTGAAAATTCACT-AGTGCATCGATGCATGG--AGA
* *
1479486 TGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCA-GAGTGCATCGATGCATGGAGA
1 TGCATCGATGCATGAAATGCATTCGATG-TTTG-AAA-ATTCACTAGTGCATCGATGCATGGAG-
1479550 A
62 A
* * * * *
1479551 TGCATCGGTGCATGGAATGCATTCGATGTTTCAATTAATTCACTAATGCATCGATGCATGGTTGA
1 TGCATCGATGCATGAAATGCATTCGATGTTTGAA--AATTCACTAGTGCATCGATGCATGG-AGA
*
1479616 TGCATCGGTGCAT
1 TGCATCGATGCAT
1479629 CACCTCAAAT
Statistics
Matches: 121, Mismatches: 13, Indels: 17
0.80 0.09 0.11
Matches are distributed among these distances:
63 3 0.02
64 35 0.29
65 77 0.64
66 4 0.03
67 2 0.02
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (62 bp):
TGCATCGATGCATGAAATGCATTCGATGTTTGAAAATTCACTAGTGCATCGATGCATGGAGA
Found at i:1479821 original size:20 final size:21
Alignment explanation
Indices: 1479798--1479837 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
1479788 GAATCAAATA
1479798 TAAAAT-TGTAAAA-TCATTTG
1 TAAAATCT-TAAAATTCATTTG
1479818 TAAAATCTTAAAATTCATTT
1 TAAAATCTTAAAATTCATTT
1479838 AACTTAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.42
Consensus pattern (21 bp):
TAAAATCTTAAAATTCATTTG
Found at i:1479991 original size:15 final size:16
Alignment explanation
Indices: 1479968--1480000 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
1479958 GAAAAACTTA
*
1479968 CTCCCCCTTACTATAG
1 CTCCCCTTTACTATAG
1479984 CTCCCCTTTACTATAG
1 CTCCCCTTTACTATAG
1480000 C
1 C
1480001 ACATCTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.18, C:0.42, G:0.06, T:0.33
Consensus pattern (16 bp):
CTCCCCTTTACTATAG
Found at i:1481157 original size:44 final size:42
Alignment explanation
Indices: 1481043--1481160 Score: 128
Period size: 44 Copynumber: 2.7 Consensus size: 42
1481033 AAAACCCGAC
* * *
1481043 GGATGCATCGGTGCATGGTCTTATGCATCGATGCATATTCAAG
1 GGATGCATCGGTGCATTGT-TAATGCATCGATACATATTCAAG
* * *
1481086 GCATGCATCGGTGCATCATGGTGATGCATCGATACATATTCAAAG
1 GGATGCATCGGTGCAT--TGTTAATGCATCGATACATATTC-AAG
*
1481131 GGATGCATCGATGCATTGTTAAATGCATCG
1 GGATGCATCGGTGCATTGTT-AATGCATCG
1481161 GTGCATGAAG
Statistics
Matches: 62, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
43 18 0.29
44 26 0.42
45 18 0.29
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (42 bp):
GGATGCATCGGTGCATTGTTAATGCATCGATACATATTCAAG
Found at i:1486957 original size:64 final size:64
Alignment explanation
Indices: 1486887--1487050 Score: 229
Period size: 65 Copynumber: 2.5 Consensus size: 64
1486877 CGGTGCACCA
*
1486887 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCCTGAGTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCCAGAGTGCATCGATGCATGG
** * **
1486951 CTTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAGCCAGAGTGCATCGATGCATGG
** * *
1487016 AGAATGCATCGGTGCATGGAATGCATTCGATGTTT
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTT
1487051 CAATTAATTC
Statistics
Matches: 86, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
64 32 0.37
65 54 0.63
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.30
Consensus pattern (64 bp):
AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCCAGAGTGCATCGATGCATGG
Found at i:1487039 original size:17 final size:19
Alignment explanation
Indices: 1487001--1487047 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
1486991 ATATTCAGAG
1487001 TGCATCGATGCATGGAGAA
1 TGCATCGATGCATGGAGAA
*
1487020 TGCATCGGTGCAT-G-GAA
1 TGCATCGATGCATGGAGAA
1487037 TGCATTCGATG
1 TGCA-TCGATG
1487048 TTTCAATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 7 0.28
18 6 0.24
19 12 0.48
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.26
Consensus pattern (19 bp):
TGCATCGATGCATGGAGAA
Found at i:1487070 original size:65 final size:62
Alignment explanation
Indices: 1486891--1487097 Score: 195
Period size: 65 Copynumber: 3.2 Consensus size: 62
1486881 GCACCAAGTG
* *
1486891 TGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGC-CTGAGTGCATCGATGCATGGCTTG
1 TGCATCGATGCATGAAATGCATTCGATGTTTGAAAAT-TCACT-AGTGCATCGATGCATGG--AG
1486955 -
62 A
* *
1486955 TGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCA-GAGTGCATCGATGCATGGAGA
1 TGCATCGATGCATGAAATGCATTCGATG-TTTG-AAA-ATTCACTAGTGCATCGATGCATGGAG-
1487019 A
62 A
* * * * **
1487020 TGCATCGGTGCATGGAATGCATTCGATGTTTCAATTAATTCACTAATGCATCGATGCATTGTTGA
1 TGCATCGATGCATGAAATGCATTCGATGTTTGAA--AATTCACTAGTGCATCGATGCA-TGGAGA
*
1487085 TGCATCGGTGCAT
1 TGCATCGATGCAT
1487098 CACCTCAAAT
Statistics
Matches: 121, Mismatches: 12, Indels: 19
0.80 0.08 0.12
Matches are distributed among these distances:
63 3 0.02
64 35 0.29
65 74 0.61
66 7 0.06
67 2 0.02
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (62 bp):
TGCATCGATGCATGAAATGCATTCGATGTTTGAAAATTCACTAGTGCATCGATGCATGGAGA
Found at i:1487290 original size:20 final size:21
Alignment explanation
Indices: 1487267--1487306 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
1487257 GAATCGAATA
1487267 TAAAAT-TGTAAAA-TCATTTG
1 TAAAATCT-TAAAATTCATTTG
1487287 TAAAATCTTAAAATTCATTT
1 TAAAATCTTAAAATTCATTT
1487307 AACTTAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.42
Consensus pattern (21 bp):
TAAAATCTTAAAATTCATTTG
Found at i:1487382 original size:21 final size:18
Alignment explanation
Indices: 1487349--1487411 Score: 99
Period size: 18 Copynumber: 3.3 Consensus size: 18
1487339 GTTTTCAACA
1487349 ACCACTATGTCCCGAAGG
1 ACCACTATGTCCCGAAGG
1487367 ACCACTGATTTGTCCCGAAGG
1 ACCACT-A--TGTCCCGAAGG
1487388 ACCACTATGTCCCGAAGG
1 ACCACTATGTCCCGAAGG
1487406 ACCACT
1 ACCACT
1487412 CCTTAAGAAC
Statistics
Matches: 42, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
18 23 0.55
19 1 0.02
20 1 0.02
21 17 0.40
ACGTcount: A:0.27, C:0.33, G:0.21, T:0.19
Consensus pattern (18 bp):
ACCACTATGTCCCGAAGG
Found at i:1490882 original size:21 final size:23
Alignment explanation
Indices: 1490830--1490883 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 23
1490820 ATTTGTTCGC
1490830 TTTATTTTTGTTCTTGTCACTTTGT
1 TTTA-TTTTGTTCTTGT-ACTTTGT
**
1490855 TCAATTTTG-TCTTGT-CTTTGT
1 TTTATTTTGTTCTTGTACTTTGT
1490876 TTTATTTT
1 TTTATTTT
1490884 CTAAAAAACT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 12 0.48
23 6 0.24
24 5 0.20
25 2 0.08
ACGTcount: A:0.09, C:0.11, G:0.11, T:0.69
Consensus pattern (23 bp):
TTTATTTTGTTCTTGTACTTTGT
Done.