Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008280.1 Hibiscus syriacus cultivar Beakdansim tig00110940_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: 3557051
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 16 of 17
Found at i:3350079 original size:209 final size:208
Alignment explanation
Indices: 3349719--3350137 Score: 829
Period size: 209 Copynumber: 2.0 Consensus size: 208
3349709 GTTACATCTG
3349719 TTGAAACCAAAACACATTTCAGTACCCTGAATTGCCTTTCCTTTGCTTCCCATTAGTGTCCTCAT
1 TTGAAACCAAAACACATTTCAGTACCCTGAATTGCCTTTCCTTTGCTTCCCATTAGTGTCCTCAT
3349784 AGAATAGCAATTACACTGGAGCCAAAAGATCCCATAAAACTTGTTTAGGTGAAAAGTGATTCAAC
66 AGAATAGCAATTACACTGGAGCCAAAAGATCCCATAAAACTTGTTTAGGTGAAAAGTGATTCAAC
3349849 TCAACTAACGGTGAATTTAGTATAACTTTTGAAAAGTATGGTAAAAAATATTTTTTAAAAGTGAC
131 TCAACTAACGGTGAATTTAGTATAACTTTTGAAAAGTATGGTAAAAAATA-TTTTTAAAAGTGAC
3349914 TTTTAAAAATACTT
195 TTTTAAAAATACTT
3349928 TTGAAACCAAAACACATTTCAGTACCCTGAATTGCCTTTCCTTTGCTTCCCATTAGTGTCCTCAT
1 TTGAAACCAAAACACATTTCAGTACCCTGAATTGCCTTTCCTTTGCTTCCCATTAGTGTCCTCAT
3349993 AGAATAGCAATTACACTGGAGCCAAAAGATCCCATAAAACTTGTTTAGGTGAAAAGTGATTCAAC
66 AGAATAGCAATTACACTGGAGCCAAAAGATCCCATAAAACTTGTTTAGGTGAAAAGTGATTCAAC
3350058 TCAACTAACGGTGAATTTAGTATAACTTTTGAAAAGTATGGTAAAAAATATTTTTAAAAGTGACT
131 TCAACTAACGGTGAATTTAGTATAACTTTTGAAAAGTATGGTAAAAAATATTTTTAAAAGTGACT
3350123 TTTAAAAATACTT
196 TTTAAAAATACTT
3350136 TT
1 TT
3350138 ATTTGTTGAA
Statistics
Matches: 210, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
208 30 0.14
209 180 0.86
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (208 bp):
TTGAAACCAAAACACATTTCAGTACCCTGAATTGCCTTTCCTTTGCTTCCCATTAGTGTCCTCAT
AGAATAGCAATTACACTGGAGCCAAAAGATCCCATAAAACTTGTTTAGGTGAAAAGTGATTCAAC
TCAACTAACGGTGAATTTAGTATAACTTTTGAAAAGTATGGTAAAAAATATTTTTAAAAGTGACT
TTTAAAAATACTT
Found at i:3356761 original size:33 final size:31
Alignment explanation
Indices: 3356717--3356797 Score: 99
Period size: 33 Copynumber: 2.5 Consensus size: 31
3356707 CCGAACTGAG
3356717 AATAACTCGAACCGAAATTAACCCAAATCAAAA
1 AATAAC-CGAACCGAAATTAACCC-AATCAAAA
* * *
3356750 AATAAACCGAACCGAATTTAACCCGATCCAAA
1 AAT-AACCGAACCGAAATTAACCCAATCAAAA
*
3356782 AGTAACCGAACCGAAA
1 AATAACCGAACCGAAA
3356798 GCAATCCAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
31 12 0.29
32 8 0.19
33 19 0.45
34 3 0.07
ACGTcount: A:0.51, C:0.26, G:0.10, T:0.14
Consensus pattern (31 bp):
AATAACCGAACCGAAATTAACCCAATCAAAA
Found at i:3357236 original size:22 final size:20
Alignment explanation
Indices: 3357203--3357244 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
3357193 ACATATTTGT
*
3357203 TTATAATAATATATTATTAA
1 TTATAATAATATATGATTAA
3357223 TTATATATATATATATGATTAA
1 TTATA-ATA-ATATATGATTAA
3357245 ACTCATAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 5 0.26
21 3 0.16
22 11 0.58
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (20 bp):
TTATAATAATATATGATTAA
Found at i:3357963 original size:3 final size:3
Alignment explanation
Indices: 3357955--3357995 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
3357945 CTTTTAACTC
3357955 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
3357996 ACTTTTACTC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:3358236 original size:3 final size:3
Alignment explanation
Indices: 3358228--3358296 Score: 57
Period size: 3 Copynumber: 22.0 Consensus size: 3
3358218 TTACCCATTT
* * * *
3358228 TTA TTA TTA TTTA TTA TAA TTA TAA TAA TAA TTA TTA TTA TTA TTA
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
3358274 ATA TATA TTA TTTA TTA ATA TTA
1 TTA T-TA TTA -TTA TTA TTA TTA
3358297 CAAAACCCAA
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
3 46 0.84
4 9 0.16
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:3358290 original size:17 final size:16
Alignment explanation
Indices: 3358263--3358294 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
3358253 TAATAATTAT
3358263 TATTATTATTAATATA
1 TATTATTATTAATATA
3358279 TATTATTTATTAATAT
1 TATTA-TTATTAATAT
3358295 TACAAAACCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTATTAATATA
Found at i:3360391 original size:23 final size:20
Alignment explanation
Indices: 3360363--3360416 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 20
3360353 TAATTTTTAA
*
3360363 TTATTTTCTTTCAAATTATTTTT
1 TTATTTTATTT-AAA-TA-TTTT
*
3360386 TTATTTTATTTAGATATTTT
1 TTATTTTATTTAAATATTTT
3360406 TTATTTTATTT
1 TTATTTTATTT
3360417 TTCTGTTTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 15 0.52
21 2 0.07
22 2 0.07
23 10 0.34
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.72
Consensus pattern (20 bp):
TTATTTTATTTAAATATTTT
Found at i:3371030 original size:10 final size:10
Alignment explanation
Indices: 3371015--3371049 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
3371005 ATTATGCTTA
3371015 AAAAAAAGAG
1 AAAAAAAGAG
*
3371025 AAAAAAAAAG
1 AAAAAAAGAG
3371035 AAAAAAAGA-
1 AAAAAAAGAG
3371044 AAAAAA
1 AAAAAA
3371050 GGGGGTCAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 6 0.26
10 17 0.74
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (10 bp):
AAAAAAAGAG
Found at i:3372619 original size:82 final size:83
Alignment explanation
Indices: 3372413--3372887 Score: 756
Period size: 82 Copynumber: 5.6 Consensus size: 83
3372403 AACAAATGCC
*
3372413 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAATCAATC
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAATCAGTC
3372478 ATTGAATTTGGAAGAGGA
66 ATTGAATTTGGAAGAGGA
* *
3372496 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAGAACCAGTC
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAATCAGTC
*
3372561 ATT-AATTTTGAAGAGGA
66 ATTGAATTTGGAAGAGGA
3372578 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAATCAGTC
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAATCAGTC
*
3372643 ATT-AATTTTGAAGAGGA
66 ATTGAATTTGGAAGAGGA
*
3372660 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAATCAATC
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAATCAGTC
3372725 ATTGAATTTGGAAGAGGA
66 ATTGAATTTGGAAGAGGA
3372743 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACA
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG--T-----A-A
* *
3372808 GAACCAGTTATTGAATTTGGAAGAGGA
58 -AATCAGTCATTGAATTTGGAAGAGGA
* * *
3372835 ATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTCTCTGATTTGGTTTG
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTG
3372888 ATATAAAACC
Statistics
Matches: 368, Mismatches: 14, Indels: 11
0.94 0.04 0.03
Matches are distributed among these distances:
82 160 0.43
83 132 0.36
85 1 0.00
90 1 0.00
91 1 0.00
92 73 0.20
ACGTcount: A:0.25, C:0.13, G:0.24, T:0.38
Consensus pattern (83 bp):
ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAATCAGTC
ATTGAATTTGGAAGAGGA
Found at i:3372741 original size:165 final size:165
Alignment explanation
Indices: 3372413--3372887 Score: 754
Period size: 165 Copynumber: 2.8 Consensus size: 165
3372403 AACAAATGCC
*
3372413 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAATCAATC
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAATCAGTC
3372478 ATTGAATTTGGAAGAGGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCT
66 ATTGAATTTGGAAGAGGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCT
* * *
3372543 GGTTTGGTAGAACCAGTCATTAATTTTGAAGAGGA
131 GGTTTGGTAAAACCAATCATTAATTTGGAAGAGGA
3372578 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAATCAGTC
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAATCAGTC
*
3372643 ATT-AATTTTGAAGAGGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCT
66 ATTGAATTTGGAAGAGGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCT
*
3372707 GGTTTGGTAAAATCAATCATTGAATTTGGAAGAGGA
131 GGTTTGGTAAAACCAATCATT-AATTTGGAAGAGGA
3372743 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACA
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG--T-----A-A
* * *
3372808 GAACCAGTTATTGAATTTGGAAGAGGAATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTT
58 -AATCAGTCATTGAATTTGGAAGAGGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTT
* *
3372873 CTCTGATTTGGTTTG
122 ATCTGATCTGGTTTG
3372888 ATATAAAACC
Statistics
Matches: 287, Mismatches: 12, Indels: 12
0.92 0.04 0.04
Matches are distributed among these distances:
164 78 0.27
165 134 0.47
167 1 0.00
172 1 0.00
173 1 0.00
174 9 0.03
175 63 0.22
ACGTcount: A:0.25, C:0.13, G:0.24, T:0.38
Consensus pattern (165 bp):
ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAATCAGTC
ATTGAATTTGGAAGAGGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCT
GGTTTGGTAAAACCAATCATTAATTTGGAAGAGGA
Found at i:3372902 original size:92 final size:92
Alignment explanation
Indices: 3372725--3372905 Score: 301
Period size: 92 Copynumber: 2.0 Consensus size: 92
3372715 AAAATCAATC
*
3372725 ATTGAATTTGGAAGAGGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCT
1 ATTGAATTTGGAAGAGGAATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCT
* *
3372790 GGTTTGGTATGAACCACAGAACCAGTT
66 GGTTTGATATAAACCACAGAACCAGTT
* *
3372817 ATTGAATTTGGAAGAGGAATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTCTCTGATTT
1 ATTGAATTTGGAAGAGGAATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCT
3372882 GGTTTGATATAAAACC-CAGAACCA
66 GGTTTGATAT-AAACCACAGAACCA
3372906 ATCATTGGAA
Statistics
Matches: 83, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
92 79 0.95
93 4 0.05
ACGTcount: A:0.28, C:0.14, G:0.24, T:0.35
Consensus pattern (92 bp):
ATTGAATTTGGAAGAGGAATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCT
GGTTTGATATAAACCACAGAACCAGTT
Found at i:3373377 original size:95 final size:95
Alignment explanation
Indices: 3373214--3373413 Score: 373
Period size: 95 Copynumber: 2.1 Consensus size: 95
3373204 TATTCTCCTC
*
3373214 ATCAGAATCAGAATTCAAGATTTCTCGATATTAAAAGAACTATCGATATCTGTGAAATCATCTTG
1 ATCAGAATCAGAAATCAAGATTTCTCGATATTAAAAGAACTATCGATATCTGTGAAATCATCTTG
3373279 AAAGGTCACTTCATAATCAGATGAGTTGTT
66 AAAGGTCACTTCATAATCAGATGAGTTGTT
* *
3373309 ATCAGAATCGGAAATCAAGATTTCTCGGTATTAAAAGAACTATCGATATCTGTGAAATCATCTTG
1 ATCAGAATCAGAAATCAAGATTTCTCGATATTAAAAGAACTATCGATATCTGTGAAATCATCTTG
3373374 AAAGGTCACTTCATAATCAGATGAGTTGTT
66 AAAGGTCACTTCATAATCAGATGAGTTGTT
3373404 ATCAGAATCA
1 ATCAGAATCA
3373414 ACATGTTGCA
Statistics
Matches: 101, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
95 101 1.00
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.32
Consensus pattern (95 bp):
ATCAGAATCAGAAATCAAGATTTCTCGATATTAAAAGAACTATCGATATCTGTGAAATCATCTTG
AAAGGTCACTTCATAATCAGATGAGTTGTT
Found at i:3373988 original size:123 final size:121
Alignment explanation
Indices: 3373851--3374731 Score: 891
Period size: 123 Copynumber: 7.3 Consensus size: 121
3373841 TGGATTAACA
* * *
3373851 TTTCCAGAGAAAGTTCATAATAAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATAAGAA
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAA
*
3373916 TAGCTTGTTCAACCTTTTGCATAATTCTATCACAGAAGCAGATAGATTAGCATTAGCT
66 GAGCTTGTTCAACCTTTTGCATAATTCTATCACAGAAGCAGATAGATTAGCA-TA-CT
3373974 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAGTTCATAATGAGA
* ** *** * *
3374039 AGAACTTGTTCAACCTTTTGGTTAAATTC-AT--C---ATTTGATGGATT-G---ACA
65 AGAGCTTGTTCAACCTTTTGCAT-AATTCTATCACAGAAGCAGATAGATTAGCATACT
* * * *
3374087 TTTCCAGAGAAAGTTCATAATAAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCACAATAAGAA
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAA
3374152 GAGCTTGTTCAACCTTTTGCATAATTCTATCACAGAAGCAGATAGATTAGCATTAGCT
66 GAGCTTGTTCAACCTTTTGCATAATTCTATCACAGAAGCAGATAGATTAGCA-TA-CT
**
3374210 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAATAAAGAAGAAGTTCATAATGAGA
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAGTTCATAATGAGA
* * * ** *
3374275 AGAACTTGTTCAACTTTTTGC-TCGAATTC-ATCTC-----TTGATGGA-T--CA-ACAT
65 AGAGCTTGTTCAACCTTTTGCAT--AATTCTATCACAGAAGCAGATAGATTAGCATAC-T
**
3374324 TTTCCAGA-AGTGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAGTTCATAATGAGA
* * * * ** ** *
3374388 AGAACTTGTTTAATCTTTTGC-TCGACGCTATCACAGAATG-AGATAGATCGGCACCAACT
65 AGAGCTTGTTCAACCTTTTGCAT-AATTCTATCACAGAA-GCAGATAGATTAGCA--TACT
* *
3374447 TTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCACAATGAGAA
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAA
*
3374512 GAGCTTGTTCAACCTTTTGCATAATTCTATCACAGAAGCAGATAGATTAGCATAAACC
66 GAGCTTGTTCAACCTTTTGCATAATTCTATCACAGAAGCAGATAGATTAGCAT--ACT
** *
3374570 TTTCCAGA-AGTGTTCATAATGAGAAGAACTCATCTGAAGGAGAAAGAAGAAGTTCATAATGAGA
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAA-GAGGAAGAAGAAGTTCATAATGAGA
* * * * * * * * * *
3374634 AGAGCTTATTTAACATTTTGAATGACTCTATCACAGAAGGAAATAGGTCCA-CAT--T
65 AGAGCTTGTTCAACCTTTTGCATAATTCTATCACAGAAGCAGATAGAT-TAGCATACT
** *
3374689 ATCCCCAGCAGAAAGTTCATAATGAGAAGAACTCATCTAAAGA
1 -TTTCCAG-AGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
3374732 AAGAGAAGAA
Statistics
Matches: 631, Mismatches: 86, Indels: 84
0.79 0.11 0.10
Matches are distributed among these distances:
111 5 0.01
112 46 0.07
113 115 0.18
114 12 0.02
116 2 0.00
117 8 0.01
118 8 0.01
119 13 0.02
120 5 0.01
121 5 0.01
122 57 0.09
123 226 0.36
124 119 0.19
125 10 0.02
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.27
Consensus pattern (121 bp):
TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAA
GAGCTTGTTCAACCTTTTGCATAATTCTATCACAGAAGCAGATAGATTAGCATACT
Found at i:3374107 original size:113 final size:113
Alignment explanation
Indices: 3373716--3374531 Score: 750
Period size: 123 Copynumber: 6.9 Consensus size: 113
3373706 ATTCAAATAT
* **
3373716 ATCATTTGATGGATTGACATTGCCAG-GTCGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAA
1 ATCATTTGATGGATTGACATTTCCAGAG-AAAGTTCATAATGAGAAGAA--C-TCATCTGAAGAA
*
3373780 GGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGGTTAAATTC
62 GGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTAAATTC
* * *
3373832 ATCATTTGATGGATTAACATTTCCAGAGAAAGTTCATAATAAGAAGAACTTATCTGAAG-AGGAA
1 ATCATTTGATGGATTGACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
* * * *
3373896 GAAGAAGTTCATAATAAGAATAGCTTGTTCAACCTTTTGCAT-AATTC
66 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTAAATTC
*** * *
3373943 TATCACAGAAGCAGATAGATTAGCATTAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCAT
1 -AT--C---ATTTGATGGATT-G----A-CATTTCCAGAGAAAGTTCATAATGAGAAGAACTCAT
*
3374008 CTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGGTTAAATTC
54 CTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTAAATTC
* *
3374068 ATCATTTGATGGATTGACATTTCCAGAGAAAGTTCATAATAAGAAGAACTTATCTGAAG-AGGAA
1 ATCATTTGATGGATTGACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
* * * *
3374132 GAAGAAGTTCACAATAAGAAGAGCTTGTTCAACCTTTTGCAT-AATTC
66 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTAAATTC
*** * *
3374179 TATCACAGAAGCAGATAGATTAGCATTAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCAT
1 -AT--C---ATTTGATGGATT-G----A-CATTTCCAGAGAAAGTTCATAATGAGAAGAACTCAT
** * **
3374244 CTGAAGAATAAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTCGAATTC
54 CTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTAAATTC
** **
3374304 ATC-TCTTGATGGATCAACATTTTCCAGA-AGTGTTCATAATGAGAAGAACTCATCTGAAGAAGG
1 ATCAT-TTGATGGATTGACA-TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
* * * **
3374367 AAGAAGAAGTTCATAATGAGAAGAACTTGTTTAATCTTTTGCTCGACGCTATC
64 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCT-TA-AAT-TC
** * * *
3374420 A-CAGAATGAGATAGATCGGCACCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTG
1 ATC---ATTTGATGGAT-TG-A-C-A--TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTG
* *
3374484 AAG-AGGAAGAAGAAGTTCACAATGAGAAGAGCTTGTTCAACCTTTTGC
57 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
3374532 ATAATTCTAT
Statistics
Matches: 575, Mismatches: 81, Indels: 81
0.78 0.11 0.11
Matches are distributed among these distances:
111 10 0.02
112 88 0.15
113 120 0.21
114 13 0.02
115 2 0.00
116 44 0.08
117 17 0.03
118 8 0.01
119 15 0.03
120 1 0.00
121 1 0.00
122 5 0.01
123 128 0.22
124 113 0.20
125 10 0.02
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (113 bp):
ATCATTTGATGGATTGACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
GAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTAAATTC
Found at i:3374162 original size:236 final size:236
Alignment explanation
Indices: 3373746--3374530 Score: 1202
Period size: 236 Copynumber: 3.3 Consensus size: 236
3373736 TGCCAGGTCG
3373746 AGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTG
1 AGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTG
3373811 TTCAACCTTTTGGTTAAATTCATCATTTGATGGATTAACATTTCCAGAGAAAGTTCATAATAAGA
63 TTCAACCTTTTGGTTAAATTCATCATTTGATGGATTAACATTTCCAGAGAAAGTTCATAATAAGA
*
3373876 AGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATAAGAATAGCTTGTTCAACCTTTTGCATAAT
128 AGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATAAGAAGAGCTTGTTCAACCTTTTGCATAAT
3373941 TCTATCACAGAAGCAGATAGATTAGCATTAGCTTTTCCAGAGAA
193 TCTATCACAGAAGCAGATAGATTAGCATTAGCTTTTCCAGAGAA
3373985 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
*
3374050 AACCTTTTGGTTAAATTCATCATTTGATGGATTGACATTTCCAGAGAAAGTTCATAATAAGAAGA
66 AACCTTTTGGTTAAATTCATCATTTGATGGATTAACATTTCCAGAGAAAGTTCATAATAAGAAGA
*
3374115 ACTTATCTGAAGAGGAAGAAGAAGTTCACAATAAGAAGAGCTTGTTCAACCTTTTGCATAATTCT
131 ACTTATCTGAAGAGGAAGAAGAAGTTCATAATAAGAAGAGCTTGTTCAACCTTTTGCATAATTCT
3374180 ATCACAGAAGCAGATAGATTAGCATTAGCTTTTCCAGAGAA
196 ATCACAGAAGCAGATAGATTAGCATTAGCTTTTCCAGAGAA
**
3374221 AGTTCATAATGAGAAGAACTCATCTGAAGAATAAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* * ** * ** *
3374286 AACTTTTTGCTCGAATTCATC-TCTTGATGGATCAACATTTTCCAGA-AGTGTTCATAATGAGAA
66 AACCTTTTGGTTAAATTCATCAT-TTGATGGATTAACA-TTTCCAGAGAAAGTTCATAATAAGAA
* * * * * *
3374349 GAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTTAATCTTTTGC-TCGA
129 GAACTTATCTGAAG-AGGAAGAAGAAGTTCATAATAAGAAGAGCTTGTTCAACCTTTTGCAT-AA
** ** ** *
3374413 CGCTATCACAGAATG-AGATAGATCGGCACCAACTTTTCCAGAGAA
192 TTCTATCACAGAA-GCAGATAGATTAGCATTAGCTTTTCCAGAGAA
* * *
3374458 AGTTCATAATGAGAAGAACTTATCTGAAG-AGGAAGAAGAAGTTCACAATGAGAAGAGCTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
3374522 AACCTTTTG
66 AACCTTTTG
3374531 CATAATTCTA
Statistics
Matches: 507, Mismatches: 34, Indels: 13
0.92 0.06 0.02
Matches are distributed among these distances:
235 1 0.00
236 373 0.74
237 114 0.22
238 1 0.00
239 18 0.04
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (236 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
AACCTTTTGGTTAAATTCATCATTTGATGGATTAACATTTCCAGAGAAAGTTCATAATAAGAAGA
ACTTATCTGAAGAGGAAGAAGAAGTTCATAATAAGAAGAGCTTGTTCAACCTTTTGCATAATTCT
ATCACAGAAGCAGATAGATTAGCATTAGCTTTTCCAGAGAA
Found at i:3374483 original size:360 final size:348
Alignment explanation
Indices: 3373986--3374636 Score: 1007
Period size: 360 Copynumber: 1.8 Consensus size: 348
3373976 TCCAGAGAAA
3373986 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
1 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
* * ** * *
3374051 ACCTTTTGGTTAAATTCATCATTTGATGGATTGACATTTCCAGAGAAAGTTCATAATAAGAAGAA
66 ACCTTTTGCTGAAATTCATCATGAGATAGATGGACATTTCCAGAGAAAGTTCATAATAAGAAGAA
3374116 CTTATCTGAAGAGGAAGAAGAAGTTCACAATAAGAAGAGCTTGTTCAACCTTTTGCATAATTCTA
131 CTTATCTGAAGAGGAAGAAGAAGTTCACAATAAGAAGAGCTTGTTCAACCTTTTGCATAATTCTA
* * *
3374181 TCACAGAAGCAGATAGATTAGCATTAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCT
196 TCACAGAAGCAGATAGATTAGCATAAACCTTTCCAGA-AAAGTTCATAATGAGAAGAACTCATCT
*
3374246 GAAGAATAAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTCGAATTCATCTCTT
260 GAAGAAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTCGAATTCATCTCTT
3374311 GATGGATCAACATTTTCCAGAAGT
325 GATGGATCAACATTTTCCAGAAGT
*
3374335 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTTA
1 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
* **
3374400 ATCTTTTGCTCGACGCTATCA-CAGAATGAGATAGATCGGCACCAACTTTTCCAGAGAAAGTTCA
66 ACCTTTTGCT-GA-AAT-TCATC---ATGAGATAGAT-GG-A-C-A--TTTCCAGAGAAAGTTCA
* *
3374464 TAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCACAATGAGAAGAGCTTGTTCAACCTTT
119 TAATAAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCACAATAAGAAGAGCTTGTTCAACCTTT
**
3374529 TGCATAATTCTATCACAGAAGCAGATAGATTAGCATAAACCTTTCCAGAAGTGTTCATAATGAGA
184 TGCATAATTCTATCACAGAAGCAGATAGATTAGCATAAACCTTTCCAGAAAAGTTCATAATGAGA
*
3374594 AGAACTCATCTGAAGGAGAAAGAAGAAGTTCATAATGAGAAGA
249 AGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGA
3374637 GCTTATTTAA
Statistics
Matches: 271, Mismatches: 19, Indels: 14
0.89 0.06 0.05
Matches are distributed among these distances:
349 72 0.27
350 1 0.00
351 2 0.01
352 3 0.01
354 8 0.03
355 1 0.00
356 1 0.00
357 1 0.00
358 1 0.00
359 55 0.20
360 126 0.46
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.27
Consensus pattern (348 bp):
GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
ACCTTTTGCTGAAATTCATCATGAGATAGATGGACATTTCCAGAGAAAGTTCATAATAAGAAGAA
CTTATCTGAAGAGGAAGAAGAAGTTCACAATAAGAAGAGCTTGTTCAACCTTTTGCATAATTCTA
TCACAGAAGCAGATAGATTAGCATAAACCTTTCCAGAAAAGTTCATAATGAGAAGAACTCATCTG
AAGAAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTCGAATTCATCTCTTG
ATGGATCAACATTTTCCAGAAGT
Found at i:3374884 original size:3 final size:3
Alignment explanation
Indices: 3374878--3374953 Score: 71
Period size: 3 Copynumber: 24.3 Consensus size: 3
3374868 TTTTTTACCC
* * * *
3374878 ATT ATT ATT ATT ATTT ATT ATA ATT ATA ATT ATA ATT ATA ATT ATT
1 ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
3374924 ATT ATT AAT ATAT ATT ATTT ATT AAT ATT A
1 ATT ATT ATT AT-T ATT A-TT ATT ATT ATT A
3374954 CAAAACCCAA
Statistics
Matches: 58, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
3 49 0.84
4 9 0.16
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (3 bp):
ATT
Found at i:3376358 original size:24 final size:22
Alignment explanation
Indices: 3376331--3376380 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
3376321 ATATATATAT
3376331 AATAAATAATAATTTATATTTTTC
1 AATAAAT--TAATTTATATTTTTC
* *
3376355 AATAAATTATTTTTTATTTTTC
1 AATAAATTAATTTATATTTTTC
3376377 AATA
1 AATA
3376381 TCGAAGAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 17 0.71
24 7 0.29
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (22 bp):
AATAAATTAATTTATATTTTTC
Found at i:3384596 original size:18 final size:18
Alignment explanation
Indices: 3384573--3384608 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
3384563 ATAATATATC
*
3384573 AAAAAAAATTATTTTTTA
1 AAAAAAAATTATATTTTA
*
3384591 AAAAAATATTATATTTTA
1 AAAAAAAATTATATTTTA
3384609 TAAACCAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
AAAAAAAATTATATTTTA
Found at i:3389628 original size:21 final size:21
Alignment explanation
Indices: 3389576--3389629 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
3389566 CGGTAAAGTG
*
3389576 CTACCTAAAATGTTATTTTTT
1 CTACCTAAAATGTTATTTTGT
* **
3389597 CTATCGGAAATGTTAATTTTGT
1 CTACCTAAAATGTT-ATTTTGT
3389619 -TACCTAAAATG
1 CTACCTAAAATG
3389630 AATATTTTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
21 19 0.76
22 6 0.24
ACGTcount: A:0.31, C:0.13, G:0.11, T:0.44
Consensus pattern (21 bp):
CTACCTAAAATGTTATTTTGT
Found at i:3390669 original size:23 final size:21
Alignment explanation
Indices: 3390634--3390678 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 21
3390624 AAAACAAGGT
*
3390634 GGAGAAGAGGAAGAAGAGAGA
1 GGAGAAGAGGAAGAAGAAAGA
3390655 GGAGAGAGAGAGAAGAAGAAAGA
1 GGAGA-AGAG-GAAGAAGAAAGA
3390678 G
1 G
3390679 AACATATTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 5 0.24
22 4 0.19
23 12 0.57
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (21 bp):
GGAGAAGAGGAAGAAGAAAGA
Found at i:3393615 original size:33 final size:33
Alignment explanation
Indices: 3393568--3393664 Score: 167
Period size: 33 Copynumber: 2.9 Consensus size: 33
3393558 AGTGTATATA
3393568 GTGGACACGACCTTATGTGTCATACGGATTATG
1 GTGGACACGACCTTATGTGTCATACGGATTATG
* *
3393601 GTGGACACGGCCTTATGTGTCATACAGATTATG
1 GTGGACACGACCTTATGTGTCATACGGATTATG
*
3393634 GTGGACACGACCTTATGTGTCATACGAATTA
1 GTGGACACGACCTTATGTGTCATACGGATTA
3393665 GCATTACGAT
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 59 1.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.30
Consensus pattern (33 bp):
GTGGACACGACCTTATGTGTCATACGGATTATG
Found at i:3393660 original size:17 final size:17
Alignment explanation
Indices: 3393574--3393660 Score: 51
Period size: 17 Copynumber: 5.2 Consensus size: 17
3393564 TATAGTGGAC
3393574 ACGACCTTATGTGTCAT
1 ACGACCTTATGTGTCAT
* *
3393591 ACGGA--TTATG-GTGGAC
1 AC-GACCTTATGTGT-CAT
*
3393607 ACGGCCTTATGTGTCAT
1 ACGACCTTATGTGTCAT
* *
3393624 ACAGA--TTATG-GTGGAC
1 AC-GACCTTATGTGT-CAT
3393640 ACGACCTTATGTGTCAT
1 ACGACCTTATGTGTCAT
3393657 ACGA
1 ACGA
3393661 ATTAGCATTA
Statistics
Matches: 50, Mismatches: 10, Indels: 20
0.62 0.12 0.25
Matches are distributed among these distances:
15 7 0.14
16 16 0.32
17 20 0.40
18 7 0.14
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (17 bp):
ACGACCTTATGTGTCAT
Found at i:3393750 original size:14 final size:15
Alignment explanation
Indices: 3393731--3393759 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
3393721 GGCTATTGTC
3393731 TATGGTTTA-TGGTT
1 TATGGTTTATTGGTT
3393745 TATGGTTTATTGGTT
1 TATGGTTTATTGGTT
3393760 AATAAATGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.14, C:0.00, G:0.28, T:0.59
Consensus pattern (15 bp):
TATGGTTTATTGGTT
Found at i:3394206 original size:10 final size:10
Alignment explanation
Indices: 3394191--3394251 Score: 59
Period size: 10 Copynumber: 5.7 Consensus size: 10
3394181 ATTTTCGGAG
3394191 TACTGTAACT
1 TACTGTAACT
*
3394201 TACTGTAGCAAT
1 TACTGTA--ACT
*
3394213 TACTGTAGCT
1 TACTGTAACT
*
3394223 TACTGTAGCAGT
1 TACTGTA--ACT
3394235 TACTGTAACT
1 TACTGTAACT
3394245 TACTGTA
1 TACTGTA
3394252 CCAGTTACTA
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
10 24 0.59
12 17 0.41
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.38
Consensus pattern (10 bp):
TACTGTAACT
Found at i:3394217 original size:12 final size:12
Alignment explanation
Indices: 3394200--3394268 Score: 65
Period size: 12 Copynumber: 6.1 Consensus size: 12
3394190 GTACTGTAAC
3394200 TTACTGTAGCAA
1 TTACTGTAGCAA
3394212 TTACTGTAGC--
1 TTACTGTAGCAA
*
3394222 TTACTGTAGCAG
1 TTACTGTAGCAA
*
3394234 TTACTGTA--AC
1 TTACTGTAGCAA
* *
3394244 TTACTGTACCAG
1 TTACTGTAGCAA
*
3394256 TTACTATAGCAA
1 TTACTGTAGCAA
3394268 T
1 T
3394269 GAACAACAAC
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
10 19 0.40
12 29 0.60
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.36
Consensus pattern (12 bp):
TTACTGTAGCAA
Found at i:3394219 original size:22 final size:22
Alignment explanation
Indices: 3394191--3394260 Score: 113
Period size: 22 Copynumber: 3.2 Consensus size: 22
3394181 ATTTTCGGAG
*
3394191 TACTGTAACTTACTGTAGCAAT
1 TACTGTAACTTACTGTAGCAGT
*
3394213 TACTGTAGCTTACTGTAGCAGT
1 TACTGTAACTTACTGTAGCAGT
*
3394235 TACTGTAACTTACTGTACCAGT
1 TACTGTAACTTACTGTAGCAGT
3394257 TACT
1 TACT
3394261 ATAGCAATGA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 44 1.00
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.37
Consensus pattern (22 bp):
TACTGTAACTTACTGTAGCAGT
Found at i:3395397 original size:20 final size:20
Alignment explanation
Indices: 3395374--3395443 Score: 104
Period size: 20 Copynumber: 3.5 Consensus size: 20
3395364 ATATAGGCAG
*
3395374 GGTATCTATACCATAGGTAT
1 GGTATCTATACCATAGGTAA
* *
3395394 GGTATCTATACTATAGGCAA
1 GGTATCTATACCATAGGTAA
*
3395414 GGTATCTATACCATAGGTAG
1 GGTATCTATACCATAGGTAA
3395434 GGTATCTATA
1 GGTATCTATA
3395444 TCTCAATTAG
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.33
Consensus pattern (20 bp):
GGTATCTATACCATAGGTAA
Found at i:3395411 original size:40 final size:40
Alignment explanation
Indices: 3395365--3395443 Score: 140
Period size: 40 Copynumber: 2.0 Consensus size: 40
3395355 ATTTCCAGAA
* *
3395365 TATAGGCAGGGTATCTATACCATAGGTATGGTATCTATAC
1 TATAGGCAAGGTATCTATACCATAGGTAGGGTATCTATAC
3395405 TATAGGCAAGGTATCTATACCATAGGTAGGGTATCTATA
1 TATAGGCAAGGTATCTATACCATAGGTAGGGTATCTATA
3395444 TCTCAATTAG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.32
Consensus pattern (40 bp):
TATAGGCAAGGTATCTATACCATAGGTAGGGTATCTATAC
Found at i:3396034 original size:22 final size:22
Alignment explanation
Indices: 3395974--3396036 Score: 99
Period size: 22 Copynumber: 2.9 Consensus size: 22
3395964 AAGGGTTTAT
*
3395974 AGCGGTCCTTCGGGACATATCC
1 AGCGGTCCTTCGGGACGTATCC
* *
3395996 AGTGGTTCTTCGGGACGTATCC
1 AGCGGTCCTTCGGGACGTATCC
3396018 AGCGGTCCTTCGGGACGTA
1 AGCGGTCCTTCGGGACGTA
3396037 GTGGTCCTTC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.16, C:0.27, G:0.32, T:0.25
Consensus pattern (22 bp):
AGCGGTCCTTCGGGACGTATCC
Found at i:3400506 original size:21 final size:21
Alignment explanation
Indices: 3400480--3400524 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
3400470 GATTTCTGGG
* *
3400480 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
3400501 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
3400522 CAA
1 CAA
3400525 ACGAACAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:3401818 original size:14 final size:14
Alignment explanation
Indices: 3401799--3401826 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
3401789 GAAAAGAAGC
3401799 TATGTGATACGTGA
1 TATGTGATACGTGA
3401813 TATGTGATACGTGA
1 TATGTGATACGTGA
3401827 ATTACAAGTT
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:0.29, C:0.07, G:0.29, T:0.36
Consensus pattern (14 bp):
TATGTGATACGTGA
Found at i:3402118 original size:147 final size:148
Alignment explanation
Indices: 3401927--3402239 Score: 542
Period size: 147 Copynumber: 2.1 Consensus size: 148
3401917 GAGTCGAGGG
* * *
3401927 TCTACGCGATCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTCCTTCGGGA-ATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
3401992 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATCAT-T
65 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACAT-ATGT
3402056 ATATGGCACTACGGTGCAAT
129 ATATGGCACTACGGTGCAAT
3402076 TCTACGCGGTCCTTCGGG-ATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACATA
1 TCTACGCGGTCCTTCGGGAATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACATA
*
3402140 CTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTTGTAT
66 CTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATATGTAT
3402205 ATGGCACTACGGTGCAAT
131 ATGGCACTACGGTGCAAT
3402223 TCTACGCGG-CACTTCGG
1 TCTACGCGGTC-CTTCGG
3402240 TGCAATTATA
Statistics
Matches: 158, Mismatches: 4, Indels: 6
0.94 0.02 0.04
Matches are distributed among these distances:
146 2 0.01
147 139 0.88
149 17 0.11
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.34
Consensus pattern (148 bp):
TCTACGCGGTCCTTCGGGAATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACATA
CTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATATGTAT
ATGGCACTACGGTGCAAT
Found at i:3402240 original size:23 final size:23
Alignment explanation
Indices: 3402207--3402251 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
3402197 ATTTGTATAT
*
3402207 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
*
3402230 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTATACG
3402252 AGCTGTGGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.22, C:0.27, G:0.27, T:0.24
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:3405416 original size:21 final size:21
Alignment explanation
Indices: 3405390--3405434 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
3405380 GATTTCTGGG
* *
3405390 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
3405411 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
3405432 CAA
1 CAA
3405435 ACGAACAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:3406731 original size:14 final size:14
Alignment explanation
Indices: 3406712--3406739 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
3406702 GAAAAGAAGC
3406712 TATGTGATACGTGA
1 TATGTGATACGTGA
3406726 TATGTGATACGTGA
1 TATGTGATACGTGA
3406740 ATTACAAGTT
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:0.29, C:0.07, G:0.29, T:0.36
Consensus pattern (14 bp):
TATGTGATACGTGA
Found at i:3407031 original size:147 final size:148
Alignment explanation
Indices: 3406840--3407152 Score: 558
Period size: 147 Copynumber: 2.1 Consensus size: 148
3406830 GAGTCGAGGG
* *
3406840 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTCCTTCGGGA-ATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
3406905 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATCATTA
65 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATCATTA
3406970 TATGGCACTACGGTGCAAT
130 TATGGCACTACGGTGCAAT
3406989 TCTACGCGGTCCTTCGGG-ATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACATA
1 TCTACGCGGTCCTTCGGGAATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACATA
**
3407053 CTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTTTTAT
66 CTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATCATTAT
3407118 ATGGCACTACGGTGCAAT
131 ATGGCACTACGGTGCAAT
3407136 TCTACGCGG-CACTTCGG
1 TCTACGCGGTC-CTTCGG
3407153 TGCAATTATA
Statistics
Matches: 159, Mismatches: 4, Indels: 4
0.95 0.02 0.02
Matches are distributed among these distances:
146 1 0.01
147 140 0.88
149 18 0.11
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.34
Consensus pattern (148 bp):
TCTACGCGGTCCTTCGGGAATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACATA
CTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATCATTAT
ATGGCACTACGGTGCAAT
Found at i:3407153 original size:23 final size:23
Alignment explanation
Indices: 3407120--3407164 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
3407110 ATTTTTATAT
*
3407120 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
*
3407143 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTATACG
3407165 AGCTGTGGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.22, C:0.27, G:0.27, T:0.24
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:3410043 original size:19 final size:19
Alignment explanation
Indices: 3410005--3410043 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
3409995 ATTAATGAGT
* *
3410005 TTAAGTATAAGTAGATGAG
1 TTAAGTATAAGTAAAAGAG
*
3410024 TTAAGTATATGTAAAAGAG
1 TTAAGTATAAGTAAAAGAG
3410043 T
1 T
3410044 GAAATAAGAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.44, C:0.00, G:0.23, T:0.33
Consensus pattern (19 bp):
TTAAGTATAAGTAAAAGAG
Found at i:3410323 original size:24 final size:20
Alignment explanation
Indices: 3410236--3410312 Score: 136
Period size: 20 Copynumber: 3.9 Consensus size: 20
3410226 TTCCATAATG
*
3410236 TAGGCAGGGTGTCTATACCA
1 TAGGCAGGGTATCTATACCA
3410256 TAGGCAGGGTATCTATACCA
1 TAGGCAGGGTATCTATACCA
3410276 TAGGCAGGGTATCTATACCA
1 TAGGCAGGGTATCTATACCA
*
3410296 TAGGTAGGGTATCTATA
1 TAGGCAGGGTATCTATA
3410313 TCTCAATTAG
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 55 1.00
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.27
Consensus pattern (20 bp):
TAGGCAGGGTATCTATACCA
Found at i:3411811 original size:20 final size:20
Alignment explanation
Indices: 3411788--3411834 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
3411778 GTTTCCAAAT
3411788 TCGCAACGCGAATCTGTAAA
1 TCGCAACGCGAATCTGTAAA
*
3411808 TCGCAACGCGAATTTGTAAA
1 TCGCAACGCGAATCTGTAAA
*
3411828 TCACAAC
1 TCGCAAC
3411835 TTAGAAGTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.36, C:0.26, G:0.17, T:0.21
Consensus pattern (20 bp):
TCGCAACGCGAATCTGTAAA
Found at i:3411852 original size:40 final size:40
Alignment explanation
Indices: 3411808--3411893 Score: 127
Period size: 40 Copynumber: 2.1 Consensus size: 40
3411798 AATCTGTAAA
* **
3411808 TCGCAACGCGAATTTGTAAATCACAACTTAGAAGTCAAAT
1 TCGCAACGCAAATTTGTAAATCACAACACAGAAGTCAAAT
* *
3411848 TCGCAACGCAAATTTGTAAATCGCAACACATAAGTCAAAT
1 TCGCAACGCAAATTTGTAAATCACAACACAGAAGTCAAAT
3411888 TCGCAA
1 TCGCAA
3411894 TTCGATGGCC
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.41, C:0.22, G:0.14, T:0.23
Consensus pattern (40 bp):
TCGCAACGCAAATTTGTAAATCACAACACAGAAGTCAAAT
Found at i:3411871 original size:20 final size:20
Alignment explanation
Indices: 3411788--3411874 Score: 72
Period size: 20 Copynumber: 4.3 Consensus size: 20
3411778 GTTTCCAAAT
* *
3411788 TCGCAACGCGAATCTGTAAA
1 TCGCAACGCAAATTTGTAAA
*
3411808 TCGCAACGCGAATTTGTAAA
1 TCGCAACGCAAATTTGTAAA
* **
3411828 TCACAACTTAGAA---GTCAAA
1 TCGCAACGCA-AATTTGT-AAA
3411847 TTCGCAACGCAAATTTGTAAA
1 -TCGCAACGCAAATTTGTAAA
3411868 TCGCAAC
1 TCGCAAC
3411875 ACATAAGTCA
Statistics
Matches: 53, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
18 2 0.04
19 5 0.09
20 39 0.74
21 5 0.09
22 2 0.04
ACGTcount: A:0.38, C:0.23, G:0.16, T:0.23
Consensus pattern (20 bp):
TCGCAACGCAAATTTGTAAA
Found at i:3411891 original size:20 final size:19
Alignment explanation
Indices: 3411839--3411954 Score: 65
Period size: 20 Copynumber: 5.8 Consensus size: 19
3411829 CACAACTTAG
*
3411839 AAGTCAAATTCGCAACGCA
1 AAGTCAAATTCGCAACACA
3411858 AATTTGT-AAA-TCGCAACACA
1 AA---GTCAAATTCGCAACACA
**
3411878 TAAGTCAAATTCGCAATTCGA
1 -AAGTCAAATTCGCAACAC-A
** * *
3411899 TGGCCAAATTCACAACACAA
1 AAGTCAAATTCGCAACAC-A
* *
3411919 AAATCAAATTCGCAACGCGA
1 AAGTCAAATTCGCAACAC-A
*
3411939 AAGTCAAATTCACAAC
1 AAGTCAAATTCGCAAC
3411955 GCGAAACACT
Statistics
Matches: 71, Mismatches: 19, Indels: 13
0.69 0.18 0.13
Matches are distributed among these distances:
18 2 0.03
19 5 0.07
20 56 0.79
21 6 0.08
22 2 0.03
ACGTcount: A:0.44, C:0.24, G:0.12, T:0.20
Consensus pattern (19 bp):
AAGTCAAATTCGCAACACA
Found at i:3411947 original size:40 final size:40
Alignment explanation
Indices: 3411842--3411954 Score: 106
Period size: 40 Copynumber: 2.8 Consensus size: 40
3411832 AACTTAGAAG
* * *
3411842 TCAAATTCGCAACGC-AAATTTGT-AAA-TCGCAACACATAAG
1 TCAAATTCGCAACGCGAAA---GTCAAATTCACAACACAAAAA
** ** *
3411882 TCAAATTCGCAATTCGATGGCCAAATTCACAACACAAAAA
1 TCAAATTCGCAACGCGAAAGTCAAATTCACAACACAAAAA
3411922 TCAAATTCGCAACGCGAAAGTCAAATTCACAAC
1 TCAAATTCGCAACGCGAAAGTCAAATTCACAAC
3411955 GCGAAACACT
Statistics
Matches: 57, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
38 1 0.02
39 3 0.05
40 52 0.91
41 1 0.02
ACGTcount: A:0.43, C:0.25, G:0.12, T:0.20
Consensus pattern (40 bp):
TCAAATTCGCAACGCGAAAGTCAAATTCACAACACAAAAA
Found at i:3411955 original size:20 final size:20
Alignment explanation
Indices: 3411903--3411960 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
3411893 ATTCGATGGC
* *
3411903 CAAATTCACAACACAAAAAT
1 CAAATTCACAACGCGAAAAT
* *
3411923 CAAATTCGCAACGCGAAAGT
1 CAAATTCACAACGCGAAAAT
3411943 CAAATTCACAACGCGAAA
1 CAAATTCACAACGCGAAA
3411961 CACTATTAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.50, C:0.26, G:0.10, T:0.14
Consensus pattern (20 bp):
CAAATTCACAACGCGAAAAT
Found at i:3412511 original size:14 final size:14
Alignment explanation
Indices: 3412512--3412545 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
3412502 TGCGATTTTC
3412512 ATTTTCGCGTTGCG
1 ATTTTCGCGTTGCG
*
3412526 ATTTTCTCGTTGCG
1 ATTTTCGCGTTGCG
3412540 ATTTTC
1 ATTTTC
3412546 ATTTTCGCGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.09, C:0.21, G:0.21, T:0.50
Consensus pattern (14 bp):
ATTTTCGCGTTGCG
Found at i:3412519 original size:20 final size:20
Alignment explanation
Indices: 3412484--3412560 Score: 96
Period size: 20 Copynumber: 4.2 Consensus size: 20
3412474 AAATCGCAAC
*
3412484 GCGATTTT-AGTTTCGCGTT
1 GCGATTTTCATTTTCGCGTT
3412503 GCGATTTTCATTTTCGCGTT
1 GCGATTTTCATTTTCGCGTT
3412523 GCGATTTTC----T--CGTT
1 GCGATTTTCATTTTCGCGTT
3412537 GCGATTTTCATTTTCGCGTT
1 GCGATTTTCATTTTCGCGTT
3412557 GCGA
1 GCGA
3412561 ATTCAAGTTT
Statistics
Matches: 50, Mismatches: 1, Indels: 13
0.78 0.02 0.20
Matches are distributed among these distances:
14 13 0.26
16 1 0.02
18 1 0.02
19 8 0.16
20 27 0.54
ACGTcount: A:0.10, C:0.19, G:0.23, T:0.47
Consensus pattern (20 bp):
GCGATTTTCATTTTCGCGTT
Found at i:3412542 original size:34 final size:34
Alignment explanation
Indices: 3412494--3412560 Score: 125
Period size: 34 Copynumber: 2.0 Consensus size: 34
3412484 GCGATTTTAG
3412494 TTTCGCGTTGCGATTTTCATTTTCGCGTTGCGAT
1 TTTCGCGTTGCGATTTTCATTTTCGCGTTGCGAT
*
3412528 TTTCTCGTTGCGATTTTCATTTTCGCGTTGCGA
1 TTTCGCGTTGCGATTTTCATTTTCGCGTTGCGA
3412561 ATTCAAGTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.09, C:0.21, G:0.22, T:0.48
Consensus pattern (34 bp):
TTTCGCGTTGCGATTTTCATTTTCGCGTTGCGAT
Found at i:3414457 original size:21 final size:21
Alignment explanation
Indices: 3414411--3414457 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
3414401 CAATGGTGCG
* *
3414411 CTACGTGGTGAGGTATCTACT
1 CTACGTGATGAGGTATCCACT
*
3414432 TTACGTGATGAGGT-TGCCACT
1 CTACGTGATGAGGTAT-CCACT
3414453 CTACG
1 CTACG
3414458 CGAGATTGTT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
20 1 0.05
21 20 0.95
ACGTcount: A:0.19, C:0.21, G:0.28, T:0.32
Consensus pattern (21 bp):
CTACGTGATGAGGTATCCACT
Found at i:3414566 original size:4 final size:4
Alignment explanation
Indices: 3414557--3414602 Score: 56
Period size: 4 Copynumber: 11.5 Consensus size: 4
3414547 TTTTTCAGTA
* * * *
3414557 TTAT TTAT TTAT TTAT TTAT TTAC TGAT TTAT GTAT TAAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
3414603 TCAGCGGCCC
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.67
Consensus pattern (4 bp):
TTAT
Found at i:3414778 original size:21 final size:21
Alignment explanation
Indices: 3414752--3414822 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 21
3414742 CCGATCATCA
*
3414752 TTCAAGAGGCGCCTCCCACCG
1 TTCAAGAGGCCCCTCCCACCG
** *
3414773 TTCAAGAGGCCCCTGTCATCG
1 TTCAAGAGGCCCCTCCCACCG
* * * *
3414794 TTCAAGAGGTCTCGCCCGCCG
1 TTCAAGAGGCCCCTCCCACCG
3414815 TTCAAGAG
1 TTCAAGAG
3414823 CCCGATTCAT
Statistics
Matches: 39, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.20, C:0.35, G:0.25, T:0.20
Consensus pattern (21 bp):
TTCAAGAGGCCCCTCCCACCG
Found at i:3416227 original size:69 final size:67
Alignment explanation
Indices: 3416151--3416322 Score: 237
Period size: 66 Copynumber: 2.6 Consensus size: 67
3416141 GTACACTTTG
3416151 TTTGCTTGTTTAATTGAATTT-TACATTGAAAGTTGATTTGTTTAA-TTGATGAGGAAATAAGAA
1 TTTGCTTGTTTAATTGAATTTGT--A---AAAGTTGATTTGTTTAATTTGATGAGGAAATAAGAA
*
3416214 TTA-TTT
61 ATATTTT
* *
3416220 TTTGCTTGTTTAATTG-ATTTGTAAAAGTTGATTTGTTTAATTTGATGTGTAAATAAGAAATATT
1 TTTGCTTGTTTAATTGAATTTGTAAAAGTTGATTTGTTTAATTTGATGAGGAAATAAGAAATATT
3416284 TT
66 TT
3416286 TTTGCTTGTTTAATTG-ATTTGTAAAAGTTGATTTGTT
1 TTTGCTTGTTTAATTGAATTTGTAAAAGTTGATTTGTT
3416323 GTTTTAAATC
Statistics
Matches: 97, Mismatches: 3, Indels: 9
0.89 0.03 0.08
Matches are distributed among these distances:
64 17 0.18
65 18 0.19
66 40 0.41
67 1 0.01
68 4 0.04
69 17 0.18
ACGTcount: A:0.29, C:0.02, G:0.17, T:0.51
Consensus pattern (67 bp):
TTTGCTTGTTTAATTGAATTTGTAAAAGTTGATTTGTTTAATTTGATGAGGAAATAAGAAATATT
TT
Found at i:3416284 original size:65 final size:65
Alignment explanation
Indices: 3416179--3416322 Score: 245
Period size: 66 Copynumber: 2.2 Consensus size: 65
3416169 TTTTACATTG
*
3416179 AAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTA-TTTTTTGCTTGTTTAATTGATTTGTA
1 AAAGTTGATTTGTTTAATTGATGAGGAAATAAGAAATATTTTTTTGCTTGTTTAATTGATTTGTA
* *
3416243 AAAGTTGATTTGTTTAATTTGATGTGTAAATAAGAAATATTTTTTTGCTTGTTTAATTGATTTGT
1 AAAGTTGATTTGTTTAA-TTGATGAGGAAATAAGAAATATTTTTTTGCTTGTTTAATTGATTTGT
3416308 A
65 A
3416309 AAAGTTGATTTGTT
1 AAAGTTGATTTGTT
3416323 GTTTTAAATC
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
64 17 0.23
65 18 0.24
66 40 0.53
ACGTcount: A:0.31, C:0.01, G:0.18, T:0.50
Consensus pattern (65 bp):
AAAGTTGATTTGTTTAATTGATGAGGAAATAAGAAATATTTTTTTGCTTGTTTAATTGATTTGTA
Found at i:3417756 original size:18 final size:18
Alignment explanation
Indices: 3417733--3417769 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
3417723 CGAAATTTAT
3417733 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
3417751 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
3417769 A
1 A
3417770 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:3418284 original size:20 final size:20
Alignment explanation
Indices: 3418240--3418299 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 20
3418230 AGACCTGTTG
*
3418240 AAGGTAAACTTTCGTAACGCAA
1 AAGGTAAA--TTCGCAACGCAA
* *
3418262 AA-GTCAAATTTGCAACGCTA
1 AAGGT-AAATTCGCAACGCAA
3418282 AAGGTAAATTCGCAACGC
1 AAGGTAAATTCGCAACGC
3418300 GAAATAAGCA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
20 23 0.72
21 4 0.12
22 5 0.16
ACGTcount: A:0.40, C:0.20, G:0.18, T:0.22
Consensus pattern (20 bp):
AAGGTAAATTCGCAACGCAA
Found at i:3418355 original size:20 final size:20
Alignment explanation
Indices: 3418307--3418355 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
3418297 CGCGAAATAA
*
3418307 GCATTGCGATAGTCAAATTC
1 GCATTGCGAAAGTCAAATTC
**
3418327 GCAACGCGAAAGTCAAATTC
1 GCATTGCGAAAGTCAAATTC
*
3418347 GCGTTGCGA
1 GCATTGCGA
3418356 TTTTCGGTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.22
Consensus pattern (20 bp):
GCATTGCGAAAGTCAAATTC
Found at i:3418708 original size:18 final size:18
Alignment explanation
Indices: 3418685--3418720 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
3418675 AAGCCGGTTG
*
3418685 TGATTGGGATTTTAATTT
1 TGATTGCGATTTTAATTT
*
3418703 TGATTGCGATTTTGATTT
1 TGATTGCGATTTTAATTT
3418721 CCTTTTGCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.19, C:0.03, G:0.22, T:0.56
Consensus pattern (18 bp):
TGATTGCGATTTTAATTT
Found at i:3421016 original size:24 final size:24
Alignment explanation
Indices: 3420982--3421035 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
3420972 CCATCACATC
3420982 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* * *
3421006 ATCAAAGTCCGGGTATTGACTAAG
1 ATCAAAATCCGAGTATTGACCAAG
3421030 ATCAAA
1 ATCAAA
3421036 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:3422004 original size:19 final size:18
Alignment explanation
Indices: 3421961--3422007 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
3421951 CCCAAAACAT
3421961 GTGTTGCGAAACTAAAAC
1 GTGTTGCGAAACTAAAAC
* * *
3421979 CTGTTGCGAAATTAAATTC
1 GTGTTGCGAAACTAAA-AC
3421998 GTGTTGCGAA
1 GTGTTGCGAA
3422008 TTCGAAAATC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 14 0.58
19 10 0.42
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (18 bp):
GTGTTGCGAAACTAAAAC
Found at i:3422025 original size:20 final size:19
Alignment explanation
Indices: 3422000--3422072 Score: 83
Period size: 19 Copynumber: 3.7 Consensus size: 19
3421990 TTAAATTCGT
*
3422000 GTTGCGAATTCGAAAATCTA
1 GTTGCGAATTTGAAAATC-A
*
3422020 GTTGCGAATTTGAAATTCA
1 GTTGCGAATTTGAAAATCA
* *
3422039 GTTGCGAATTTGAAATTCC
1 GTTGCGAATTTGAAAATCA
3422058 GCATTGCGAATTTGA
1 G--TTGCGAATTTGA
3422073 CTTTTGTGTT
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
19 20 0.42
20 16 0.33
21 12 0.25
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.34
Consensus pattern (19 bp):
GTTGCGAATTTGAAAATCA
Found at i:3422041 original size:19 final size:20
Alignment explanation
Indices: 3421981--3422152 Score: 113
Period size: 20 Copynumber: 8.7 Consensus size: 20
3421971 ACTAAAACCT
* *
3421981 GTTGCGAAATT-AAATTCGT
1 GTTGCGAATTTGAAATTCGA
* * *
3422000 GTTGCGAATTCGAAAATCTA
1 GTTGCGAATTTGAAATTCGA
3422020 GTTGCGAATTTGAAATTC-A
1 GTTGCGAATTTGAAATTCGA
3422039 GTTGCGAATTTGAAATTCCGCA
1 GTTGCGAATTTGAAATT-CG-A
** * *
3422061 -TTGCGAATTTGACTTTTGT
1 GTTGCGAATTTGAAATTCGA
* *
3422080 GTTGCGAATTTG-ACTATCGC
1 GTTGCGAATTTGAAAT-TCGA
* * *
3422100 GTTGCGAATTTG-ACTTATGT
1 GTTGCGAATTTGAAATT-CGA
* *
3422120 GTTGCG-ATTTACAAATTCGC
1 GTTGCGAATTT-GAAATTCGA
3422140 GTTGCGAATTTGA
1 GTTGCGAATTTGA
3422153 CTTTTTTGTT
Statistics
Matches: 121, Mismatches: 22, Indels: 19
0.75 0.14 0.12
Matches are distributed among these distances:
19 33 0.27
20 66 0.55
21 21 0.17
22 1 0.01
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.38
Consensus pattern (20 bp):
GTTGCGAATTTGAAATTCGA
Found at i:3422086 original size:20 final size:20
Alignment explanation
Indices: 3422061--3422206 Score: 116
Period size: 20 Copynumber: 7.3 Consensus size: 20
3422051 AAATTCCGCA
3422061 TTGCGAATTTGACTTTTGTG
1 TTGCGAATTTGACTTTTGTG
* * *
3422081 TTGCGAATTTGACTATCGCG
1 TTGCGAATTTGACTTTTGTG
*
3422101 TTGCGAATTTGACTTATGTG
1 TTGCGAATTTGACTTTTGTG
* * *
3422121 TTGCG-ATTT-ACAAATTCGCG
1 TTGCGAATTTGAC--TTTTGTG
*
3422141 TTGCGAATTTGACTTTTTTG
1 TTGCGAATTTGACTTTTGTG
* * * *
3422161 TTGTGAATTTGACTATCGCG
1 TTGCGAATTTGACTTTTGTG
* * **
3422181 TTACGAATTTAACTCATGTG
1 TTGCGAATTTGACTTTTGTG
3422201 TTGCGA
1 TTGCGA
3422207 TTTACAGATT
Statistics
Matches: 94, Mismatches: 28, Indels: 8
0.72 0.22 0.06
Matches are distributed among these distances:
18 2 0.02
19 4 0.04
20 82 0.87
21 4 0.04
22 2 0.02
ACGTcount: A:0.21, C:0.14, G:0.23, T:0.42
Consensus pattern (20 bp):
TTGCGAATTTGACTTTTGTG
Found at i:3422104 original size:80 final size:80
Alignment explanation
Indices: 3422020--3422231 Score: 250
Period size: 80 Copynumber: 2.6 Consensus size: 80
3422010 CGAAAATCTA
*
3422020 GTTGCGAATTTGAAAT-TCAGTTGCGAATTT-GAAATTCCGCATTGCGAATTTGACTTTTGTGTT
1 GTTGCGAATTTGAAATATCAGTTGCG-ATTTACAAATT-CGCATTGCGAATTTGACTTTTGTGTT
3422083 GCGAATTTGACTATCGC
64 GCGAATTTGACTATCGC
** ** * * *
3422100 GTTGCGAATTTGACTTATGTGTTGCGATTTACAAATTCGCGTTGCGAATTTGACTTTTTTGTTGT
1 GTTGCGAATTTGAAATATCAGTTGCGATTTACAAATTCGCATTGCGAATTTGACTTTTGTGTTGC
3422165 GAATTTGACTATCGC
66 GAATTTGACTATCGC
* * ** * *
3422180 GTTACGAATTT-AACTCATGTGTTGCGATTTACAGATTCGCGTTGCGAATTTG
1 GTTGCGAATTTGAAAT-ATCAGTTGCGATTTACAAATTCGCATTGCGAATTTG
3422232 GAGTTCGCGT
Statistics
Matches: 117, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
79 2 0.02
80 103 0.88
81 12 0.10
ACGTcount: A:0.22, C:0.15, G:0.23, T:0.41
Consensus pattern (80 bp):
GTTGCGAATTTGAAATATCAGTTGCGATTTACAAATTCGCATTGCGAATTTGACTTTTGTGTTGC
GAATTTGACTATCGC
Found at i:3422105 original size:40 final size:41
Alignment explanation
Indices: 3422039--3422231 Score: 220
Period size: 40 Copynumber: 4.8 Consensus size: 41
3422029 TTGAAATTCA
* *
3422039 GTTGCGAATTTGA-AATTCCGCATTGCGAATTTGACTTTTGT
1 GTTGCGAATTTGACAATT-CGCGTTGCGAATTTGACTTATGT
*
3422080 GTTGCGAATTTGACTA-TCGCGTTGCGAATTTGACTTATGT
1 GTTGCGAATTTGACAATTCGCGTTGCGAATTTGACTTATGT
* *
3422120 GTTGCG-ATTT-ACAAATTCGCGTTGCGAATTTGACTTTTTT
1 GTTGCGAATTTGAC-AATTCGCGTTGCGAATTTGACTTATGT
* * * * *
3422160 GTTGTGAATTTGACTA-TCGCGTTACGAATTTAACTCATGT
1 GTTGCGAATTTGACAATTCGCGTTGCGAATTTGACTTATGT
3422200 GTTGCG-ATTT-ACAGATTCGCGTTGCGAATTTG
1 GTTGCGAATTTGACA-ATTCGCGTTGCGAATTTG
3422232 GAGTTCGCGT
Statistics
Matches: 128, Mismatches: 17, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
38 4 0.03
39 10 0.08
40 92 0.72
41 19 0.15
42 3 0.02
ACGTcount: A:0.21, C:0.15, G:0.23, T:0.41
Consensus pattern (41 bp):
GTTGCGAATTTGACAATTCGCGTTGCGAATTTGACTTATGT
Found at i:3422225 original size:20 final size:19
Alignment explanation
Indices: 3422200--3422246 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
3422190 TAACTCATGT
3422200 GTTGCGATTTACAGATTCGC
1 GTTGCGATTTACAG-TTCGC
**
3422220 GTTGCGAATTTGGAGTTCGC
1 GTTGCG-ATTTACAGTTCGC
3422240 GTTGCGA
1 GTTGCGA
3422247 ATTTGTTGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 1 0.04
20 17 0.71
21 6 0.25
ACGTcount: A:0.17, C:0.17, G:0.32, T:0.34
Consensus pattern (19 bp):
GTTGCGATTTACAGTTCGC
Found at i:3422249 original size:80 final size:80
Alignment explanation
Indices: 3422051--3422251 Score: 260
Period size: 80 Copynumber: 2.5 Consensus size: 80
3422041 TGCGAATTTG
* * * * * * *
3422051 AAATTCCGCATTGCGAATTTGACTTTTGTGTTGCGAATTTGACTATCGCGTTGCGAATTTGACTT
1 AAATT-CGCGTTGCGAATTTGACGTTCGCGTTGCGAATTTGACTATCGCGTTACGAATTTAACTC
3422116 ATGTGTTGCGATTTAC
65 ATGTGTTGCGATTTAC
* *** *
3422132 AAATTCGCGTTGCGAATTTGACTTTTTTGTTGTGAATTTGACTATCGCGTTACGAATTTAACTCA
1 AAATTCGCGTTGCGAATTTGACGTTCGCGTTGCGAATTTGACTATCGCGTTACGAATTTAACTCA
3422197 TGTGTTGCGATTTAC
66 TGTGTTGCGATTTAC
*
3422212 AGATTCGCGTTGCGAATTTGGA-GTTCGCGTTGCGAATTTG
1 AAATTCGCGTTGCGAATTT-GACGTTCGCGTTGCGAATTTG
3422252 TTGGTCATTT
Statistics
Matches: 107, Mismatches: 12, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
80 100 0.93
81 7 0.07
ACGTcount: A:0.21, C:0.15, G:0.23, T:0.40
Consensus pattern (80 bp):
AAATTCGCGTTGCGAATTTGACGTTCGCGTTGCGAATTTGACTATCGCGTTACGAATTTAACTCA
TGTGTTGCGATTTAC
Found at i:3425816 original size:2 final size:2
Alignment explanation
Indices: 3425804--3425833 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
3425794 ATACCTATTG
*
3425804 AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3425834 CAATGGTGGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3430797 original size:21 final size:21
Alignment explanation
Indices: 3430755--3430797 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
3430745 TTTCTGGGCT
*
3430755 AGGGGAATCGATACCCATTCA
1 AGGGGAATCGATACCCACTCA
*
3430776 AGGGGAATCGATACCCCCTCA
1 AGGGGAATCGATACCCACTCA
3430797 A
1 A
3430798 ACGAATATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.28, G:0.23, T:0.16
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:3430849 original size:19 final size:19
Alignment explanation
Indices: 3430825--3430861 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
3430815 GAACGCTAGA
*
3430825 GGGGAATCGATACCCCCAG
1 GGGGAACCGATACCCCCAG
*
3430844 GGGGAACCGATTCCCCCA
1 GGGGAACCGATACCCCCA
3430862 TAATAAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.35, G:0.30, T:0.11
Consensus pattern (19 bp):
GGGGAACCGATACCCCCAG
Found at i:3431523 original size:103 final size:104
Alignment explanation
Indices: 3431344--3431557 Score: 387
Period size: 103 Copynumber: 2.1 Consensus size: 104
3431334 GTAGAGGGTC
3431344 TATGTGG-TCTTTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATA
1 TATGTGGTTCTTTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATA
*
3431408 CTTGATCCTTGGTATATGTATATGATTCTTAAGGAATGA
66 CTTGATCCTTGGTATATGTATATGATTCTTAAGGAATAA
3431447 TATGTGGTTC-TTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATA
1 TATGTGGTTCTTTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATA
*
3431511 CTTGATCTTTGGTATATGTATATGATTCTTAAGGAATAA
66 CTTGATCCTTGGTATATGTATATGATTCTTAAGGAATAA
*
3431550 TATATGGT
1 TATGTGGT
3431558 CCTTATGGAC
Statistics
Matches: 107, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
103 105 0.98
104 2 0.02
ACGTcount: A:0.26, C:0.11, G:0.25, T:0.39
Consensus pattern (104 bp):
TATGTGGTTCTTTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATA
CTTGATCCTTGGTATATGTATATGATTCTTAAGGAATAA
Found at i:3431608 original size:23 final size:23
Alignment explanation
Indices: 3431578--3431663 Score: 120
Period size: 23 Copynumber: 3.7 Consensus size: 23
3431568 ATTATTATAT
3431578 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* *
3431601 GGCACTACGGTGTAATTTTACGC
1 GGCACTACGGTGCAATTCTACGC
* *
3431624 GGCACTCCGGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
3431647 GGCACTTA-GGTGCAATT
1 GGCAC-TACGGTGCAATT
3431664 ATATGAGTTG
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
23 54 0.98
24 1 0.02
ACGTcount: A:0.21, C:0.26, G:0.27, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:3434717 original size:13 final size:13
Alignment explanation
Indices: 3434682--3434708 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3434672 AGCAAAATAC
3434682 TCCTTGTTCACAT
1 TCCTTGTTCACAT
3434695 TCCTTGTTCACAT
1 TCCTTGTTCACAT
3434708 T
1 T
3434709 ATCTTTTCAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.30, G:0.07, T:0.48
Consensus pattern (13 bp):
TCCTTGTTCACAT
Found at i:3447609 original size:113 final size:113
Alignment explanation
Indices: 3447484--3448025 Score: 772
Period size: 113 Copynumber: 4.8 Consensus size: 113
3447474 AGGGTCATGC
3447484 AAAAGTTCGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGTT-GAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
3447549 TATGAACTTTCTCTGGAAAAGTTGATCCATCGAGTGATGAATTCAAACA
65 TATGAACTTTCTCTGGAAAAGTTGATCCATCAAGTGATGAATTCAAACA
** * * * *
3447598 AAAAGTTGAACAAATTCTTCTCATTATGAATTTCTTATTTCTTCTTCAGATAAGTTCTTCTCATT
1 AAAAGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * ** *
3447663 ATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCA
66 ATGAACTTTCTCTGGAAAAGTTGATCCATCAAGTGATGAATTCAAACA
* *
3447711 AAAGGTTGAACAAGCTCTTCTCATTATGAACTTC-T-TTCCTTCTTCAGAAGAGTTCTTCTCATT
1 AAAAGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * ** *
3447774 ATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCA
66 ATGAACTTTCTCTGGAAAAGTTGATCCATCAAGTGATGAATTCAAACA
* *
3447822 AAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTTAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
*
3447887 ATGAACTTTCTCTGGAAAAGTTGATCCATCAAATGATGAATTCAAAC-
66 ATGAACTTTCTCTGGAAAAGTTGATCCATCAAGTGATGAATTCAAACA
* ** * * *
3447934 AAAAGTTGAATAAATTTTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTATTCTCATT
1 AAAAGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
3447999 ATGAAC-TT-TCT-GAAAATGTTGATCCAT
66 ATGAACTTTCTCTGGAAAA-GTTGATCCAT
3448026 TGTGATGGAT
Statistics
Matches: 390, Mismatches: 35, Indels: 10
0.90 0.08 0.02
Matches are distributed among these distances:
109 5 0.01
110 13 0.03
111 109 0.28
112 65 0.17
113 191 0.49
114 7 0.02
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (113 bp):
AAAAGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
ATGAACTTTCTCTGGAAAAGTTGATCCATCAAGTGATGAATTCAAACA
Found at i:3447880 original size:224 final size:225
Alignment explanation
Indices: 3447482--3448009 Score: 781
Period size: 224 Copynumber: 2.3 Consensus size: 225
3447472 ATAGGGTCAT
3447482 GCAAAAGTTCGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGTT-GAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* *
3447547 ATTATGAACTTTCTCTGGAAAAGTTGATCCATCGAGTGATGAATTCAAACAAAAAGTTGAACAAA
65 ATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGAATTCAAACAAAAAGTTGAACAAA
* * *
3447612 TTCTTCTCATTATGAATTTCTTATTTCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTG
130 CTCTTCTCATTATGAACTTCTTATTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTG
* * **
3447677 GAAAAGCTGATCCATCAAGTGATGGATTTGA
195 GAAAAGCTGATCCATCAAATGATGAATTCAA
*
3447708 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTC-T-TTCCTTCTTCAGAAGAGTTCTTCTC
1 GCAAAA-GTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* ** * * *
3447771 ATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAG
65 ATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGAATTCAAACAAAAAGTTGAACAAA
* * *
3447836 CTCTTCTCATTATGAACTTCTTCTTCCTTCTTTAGATGAGTTCTTCTCATTATGAACTTTCTCTG
130 CTCTTCTCATTATGAACTTCTTATTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTG
*
3447901 GAAAAGTTGATCCATCAAATGATGAATTCAA
195 GAAAAGCTGATCCATCAAATGATGAATTCAA
* * ** * * *
3447932 ACAAAAGTTGAATAAATTTTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTATTCTCA
1 GCAAAAGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
3447997 TTATGAACTTTCT
66 TTATGAACTTTCT
3448010 GAAAATGTTG
Statistics
Matches: 271, Mismatches: 28, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
223 25 0.09
224 172 0.63
225 38 0.14
226 33 0.12
227 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (225 bp):
GCAAAAGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
TTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGAATTCAAACAAAAAGTTGAACAAAC
TCTTCTCATTATGAACTTCTTATTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGG
AAAAGCTGATCCATCAAATGATGAATTCAA
Found at i:3449228 original size:20 final size:18
Alignment explanation
Indices: 3449183--3449232 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
3449173 CAAATAAAAG
* *
3449183 AATAAATTGAATTTCGAA
1 AATAAATTGAATCTCAAA
3449201 AATAAATTGAATCTCAAAA
1 AATAAATTGAATCTC-AAA
3449220 AATTAAATTGAAT
1 AA-TAAATTGAAT
3449233 TTAGAGAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 14 0.50
19 4 0.14
20 10 0.36
ACGTcount: A:0.54, C:0.06, G:0.08, T:0.32
Consensus pattern (18 bp):
AATAAATTGAATCTCAAA
Found at i:3449246 original size:20 final size:19
Alignment explanation
Indices: 3449183--3449257 Score: 73
Period size: 20 Copynumber: 3.8 Consensus size: 19
3449173 CAAATAAAAG
*
3449183 AATAAATTGAATTT-CGAA
1 AATAAATTGAATTTAAGAA
*
3449201 AATAAATTGAATCTCAA-AA
1 AATAAATTGAAT-TTAAGAA
3449220 AATTAAATTGAATTTAGAGAA
1 AA-TAAATTGAATTTA-AGAA
3449241 AATAAACTTAGAATTTA
1 AATAAA-TT-GAATTTA
3449258 TTAATAAATA
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
18 12 0.26
19 7 0.15
20 15 0.32
21 6 0.13
22 7 0.15
ACGTcount: A:0.53, C:0.05, G:0.09, T:0.32
Consensus pattern (19 bp):
AATAAATTGAATTTAAGAA
Found at i:3460312 original size:28 final size:27
Alignment explanation
Indices: 3460261--3460314 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
3460251 ATATTAATAA
*
3460261 AATAATATATATAAATACTATGAAAAT
1 AATAATATATATAAAAACTATGAAAAT
* *
3460288 AATAAGTATATATAAAAATTTTGAAAA
1 AATAA-TATATATAAAAACTATGAAAA
3460315 GAAAGAATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.59, C:0.02, G:0.06, T:0.33
Consensus pattern (27 bp):
AATAATATATATAAAAACTATGAAAAT
Found at i:3461126 original size:26 final size:26
Alignment explanation
Indices: 3461075--3461126 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 26
3461065 TTATATATAT
*
3461075 ATATGATTAAGTAATAATAATAAAAA
1 ATATGATTAAATAATAATAATAAAAA
*
3461101 ATATGA-TAAATAACTAA-AATATAAA
1 ATATGATTAAATAA-TAATAATAAAAA
3461126 A
1 A
3461127 GAAATTACAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 14 0.61
26 9 0.39
ACGTcount: A:0.63, C:0.02, G:0.06, T:0.29
Consensus pattern (26 bp):
ATATGATTAAATAATAATAATAAAAA
Found at i:3467475 original size:55 final size:55
Alignment explanation
Indices: 3467444--3467858 Score: 426
Period size: 51 Copynumber: 7.7 Consensus size: 55
3467434 AATCCTTGGC
* * * *
3467444 AAACGTGTCTGCTCCCTATTCATTCAGGGAGTATA-AGACTCAAACAATCTTCAATA
1 AAACGTGTCCGCTCCCTATTCCTTCAGAGAGTATAGA-ACTCGAACAATCTTCAA-A
* * *
3467500 AAACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGGAA-AATCTTCAAT
1 AAACGTGTCCGCTCCCTATTCCTTCAGAGAGTATAGAACTC-GAACAATCTTCAAA
* * * *
3467555 AAACGGGTCCGCTCCCTATTCGTTCAGGGAGTATAGAACTCGAACAATCTTCATA
1 AAACGTGTCCGCTCCCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAAA
* * *
3467610 AAACGTGTTCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAAC
1 AAACGTGTCCGCTCCCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAAA
* * * *
3467665 GAACTTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACT----CAATCTTCAAC
1 AAACGTGTCCGCTCCCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAAA
* * * *
3467716 GAACTTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACT----CAATCTTCAAC
1 AAACGTGTCCGCTCCCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAAA
* * * * * *
3467767 GAACTTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACT----TAATCTTTAAC
1 AAACGTGTCCGCTCCCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAAA
* * *
3467818 GAACTTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTC
1 AAACGTGTCCGCTCCCTATTCCTTCAGAGAGTATAGAACTC
3467859 AATCTTCAAC
Statistics
Matches: 329, Mismatches: 26, Indels: 12
0.90 0.07 0.03
Matches are distributed among these distances:
51 151 0.46
54 3 0.01
55 129 0.39
56 43 0.13
57 3 0.01
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (55 bp):
AAACGTGTCCGCTCCCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAAA
Found at i:3467730 original size:51 final size:51
Alignment explanation
Indices: 3467506--3467868 Score: 458
Period size: 51 Copynumber: 6.9 Consensus size: 51
3467496 AATAAAACGG
* * ** **
3467506 GTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGGAAAATCTTCAATAAACGG
1 GTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTC----AATCTTCAACGAACTT
* * * * *
3467561 GTCCGCTCCCTATTCGTTCAGGGAGTATAGAACTCGAACAATCTTCATA-AAACGT
1 GTCCGCTCCCTATTCCTTCAGAGAGTATAGGACT----CAATCTTCA-ACGAACTT
* * *
3467616 GTTCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAACGAACTT
1 GTCCGCTCCCTATTCCTTCAGAGAGTATAGGACT----CAATCTTCAACGAACTT
3467671 GTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACGAACTT
1 GTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACGAACTT
3467722 GTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACGAACTT
1 GTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACGAACTT
* *
3467773 GTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTTAATCTTTAACGAACTT
1 GTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACGAACTT
3467824 GTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAAC
1 GTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAAC
3467869 AAACGAGTTT
Statistics
Matches: 285, Mismatches: 17, Indels: 16
0.90 0.05 0.05
Matches are distributed among these distances:
51 160 0.56
54 1 0.00
55 122 0.43
56 1 0.00
59 1 0.00
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.29
Consensus pattern (51 bp):
GTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACGAACTT
Found at i:3469281 original size:18 final size:18
Alignment explanation
Indices: 3469260--3469311 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 18
3469250 CTTTTTTCTT
3469260 TTTTTTAAC-CATTTTTCA
1 TTTTTT-ACTCATTTTTCA
*
3469278 TTTTTTTCTCATTTTTCA
1 TTTTTTACTCATTTTTCA
3469296 TTTTCTT--TCATTTTTC
1 TTTT-TTACTCATTTTTC
3469312 CTCCTTTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
17 10 0.32
18 19 0.61
19 2 0.06
ACGTcount: A:0.13, C:0.17, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTTTTACTCATTTTTCA
Found at i:3469333 original size:13 final size:13
Alignment explanation
Indices: 3469315--3469356 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
3469305 ATTTTTCCTC
3469315 CTTTTTTCTTTTT
1 CTTTTTTCTTTTT
*
3469328 CTTTTTTCTTTCT
1 CTTTTTTCTTTTT
3469341 CTTTTTT-TTATTT
1 CTTTTTTCTT-TTT
3469354 CTT
1 CTT
3469357 CTTCAAGCGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
12 2 0.08
13 24 0.92
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (13 bp):
CTTTTTTCTTTTT
Found at i:3469335 original size:35 final size:35
Alignment explanation
Indices: 3469245--3469339 Score: 88
Period size: 35 Copynumber: 2.7 Consensus size: 35
3469235 ACATTTTATA
* * *
3469245 TTTTTCTTTTTTCTTTTTT-TTAACCATTTTTCATTT
1 TTTTTCATTTTTCTTTTTTCTT--TCATTTTTCATCT
* *
3469281 TTTTCTCATTTTTC-ATTTTCTTTCATTTTTCCTCCT
1 TTTT-TCATTTTTCTTTTTTCTTTCATTTTTCAT-CT
3469317 TTTTTC-TTTTTCTTTTTTCTTTC
1 TTTTTCATTTTTCTTTTTTCTTTC
3469340 TCTTTTTTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
34 6 0.12
35 20 0.41
36 13 0.27
37 10 0.20
ACGTcount: A:0.07, C:0.19, G:0.00, T:0.74
Consensus pattern (35 bp):
TTTTTCATTTTTCTTTTTTCTTTCATTTTTCATCT
Found at i:3472858 original size:10 final size:10
Alignment explanation
Indices: 3472843--3472874 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
3472833 GAAAGAGAAG
3472843 ATATATATAC
1 ATATATATAC
3472853 --ATATATAC
1 ATATATATAC
3472861 ATATATATAC
1 ATATATATAC
3472871 ATAT
1 ATAT
3472875 GGGAGGATCT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
8 8 0.40
10 12 0.60
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (10 bp):
ATATATATAC
Found at i:3479031 original size:45 final size:47
Alignment explanation
Indices: 3478960--3479048 Score: 137
Period size: 45 Copynumber: 1.9 Consensus size: 47
3478950 CATGCTGTTA
*
3478960 TTCACAAAAATAAATCATAACTGCATGATATCTAATTCGCATGCTTG
1 TTCACAAAAATAAATCATAACCGCATGATATCTAATTCGCATGCTTG
* *
3479007 TTCA-AAAAATAAA-CCTAACCGCATGATATCTAGTTCGCATGC
1 TTCACAAAAATAAATCATAACCGCATGATATCTAATTCGCATGC
3479049 ATTTATTCGA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
45 26 0.67
46 9 0.23
47 4 0.10
ACGTcount: A:0.38, C:0.21, G:0.11, T:0.29
Consensus pattern (47 bp):
TTCACAAAAATAAATCATAACCGCATGATATCTAATTCGCATGCTTG
Found at i:3482547 original size:21 final size:20
Alignment explanation
Indices: 3482509--3482547 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
3482499 GTTATTCTCG
3482509 TAAAAATTTTATTTAATATA
1 TAAAAATTTTATTTAATATA
3482529 TAAAATATATTTA-TTAATA
1 TAAAA-AT-TTTATTTAATA
3482548 ATTTTAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 5 0.29
21 8 0.47
22 4 0.24
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
TAAAAATTTTATTTAATATA
Found at i:3483183 original size:2 final size:2
Alignment explanation
Indices: 3483176--3483206 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
3483166 TGGAAAGTAA
3483176 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3483207 CTAAAATATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3485897 original size:23 final size:23
Alignment explanation
Indices: 3485829--3485889 Score: 104
Period size: 23 Copynumber: 2.7 Consensus size: 23
3485819 ACATTTTATA
3485829 TGGCACTTCGATGCAATTCTACG
1 TGGCACTTCGATGCAATTCTACG
*
3485852 CGGCACTTCGATGCAATTCTACG
1 TGGCACTTCGATGCAATTCTACG
*
3485875 TGGCACTTCGGTGCA
1 TGGCACTTCGATGCA
3485890 TTTATACGAG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.20, C:0.28, G:0.25, T:0.28
Consensus pattern (23 bp):
TGGCACTTCGATGCAATTCTACG
Found at i:3496530 original size:21 final size:20
Alignment explanation
Indices: 3496481--3496531 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 20
3496471 TAACAATGGT
*
3496481 TGTAGGACTTTCAGCAGTGG
1 TGTAGGATTTTCAGCAGTGG
*
3496501 CTGTAGGATTTTCAGTAGTGG
1 -TGTAGGATTTTCAGCAGTGG
3496522 TGGTAGGATT
1 T-GTAGGATT
3496532 GATAGAGTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 1 0.04
21 26 0.96
ACGTcount: A:0.20, C:0.10, G:0.35, T:0.35
Consensus pattern (20 bp):
TGTAGGATTTTCAGCAGTGG
Found at i:3499074 original size:23 final size:23
Alignment explanation
Indices: 3499048--3499114 Score: 98
Period size: 23 Copynumber: 2.9 Consensus size: 23
3499038 TCACAGCTCA
3499048 TATAATTGCACCGAAGTGCCACG
1 TATAATTGCACCGAAGTGCCACG
* *
3499071 TATAATTGCACCGGAGTGCCGCG
1 TATAATTGCACCGAAGTGCCACG
* *
3499094 TAGAATTGCACCGTAGTGCCA
1 TATAATTGCACCGAAGTGCCA
3499115 TATAATAATG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.27, C:0.25, G:0.25, T:0.22
Consensus pattern (23 bp):
TATAATTGCACCGAAGTGCCACG
Found at i:3499305 original size:103 final size:99
Alignment explanation
Indices: 3499118--3499343 Score: 321
Period size: 103 Copynumber: 2.3 Consensus size: 99
3499108 AGTGCCATAT
* * *
3499118 AATA-ATGTCCAT-AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAG
1 AATATATGTCC-TGAAGGACCACATATCATTCCTTAAGAATAATATACATATACCAAGGATCAAG
*
3499181 AATGTGTCTCACCAGACTTCACACATGTTCCAAAGAA
65 AATGTATCTCACCAGACTTCACACATGTTCC-AA-AA
*
3499218 TACATATATGTCCTGAAGGACCACATATCATTCCTTAAGAATAATATACATATGCCAAGGATCAA
1 -A-ATATATGTCCTGAAGGACCACATATCATTCCTTAAGAATAATATACATATACCAAGGATCAA
* *
3499283 GTATGTATCTCACCAGATTTCACACATGTTCCAAAA
64 GAATGTATCTCACCAGACTTCACACATGTTCCAAAA
*
3499319 AATATATGTCCCGAAGGACCACATA
1 AATATATGTCCTGAAGGACCACATA
3499344 GACCCTCGAC
Statistics
Matches: 114, Mismatches: 8, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
99 23 0.20
100 1 0.01
101 3 0.03
102 6 0.05
103 81 0.71
ACGTcount: A:0.38, C:0.22, G:0.13, T:0.27
Consensus pattern (99 bp):
AATATATGTCCTGAAGGACCACATATCATTCCTTAAGAATAATATACATATACCAAGGATCAAGA
ATGTATCTCACCAGACTTCACACATGTTCCAAAA
Found at i:3500123 original size:64 final size:64
Alignment explanation
Indices: 3500047--3500203 Score: 158
Period size: 64 Copynumber: 2.5 Consensus size: 64
3500037 TTCCCTATCG
* * * * **
3500047 GTGCATCAATGCACTACTTGTGCATCGGTGCATAAAATACATTCGATGTTTGTT-TATTACTAG-
1 GTGCATCGATGCACTACTTGTGCATCGATGCACAAAATACATTCGATGTTT-TTAGATTAAAAGA
* * * * *
3500110 GATGCATCGATGCA-TGCCTTATGCATCGATGCACCAATTGCATTCGATGTTTTTAGATTAAAAG
1 G-TGCATCGATGCACT-ACTTGTGCATCGATGCACAAAATACATTCGATGTTTTTAGATTAAAAG
3500174 A
64 A
*
3500175 GTGTATCGATGCACTACTTGTGCATCGAT
1 GTGCATCGATGCACTACTTGTGCATCGAT
3500204 ACACCTTCAA
Statistics
Matches: 75, Mismatches: 14, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
63 4 0.05
64 69 0.92
65 2 0.03
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.34
Consensus pattern (64 bp):
GTGCATCGATGCACTACTTGTGCATCGATGCACAAAATACATTCGATGTTTTTAGATTAAAAGA
Found at i:3506682 original size:12 final size:12
Alignment explanation
Indices: 3506667--3506701 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
3506657 CGATTCTCGG
3506667 CCCAATACCCGA
1 CCCAATACCCGA
*
3506679 CCCAATACCCGG
1 CCCAATACCCGA
3506691 CCCAATACCCG
1 CCCAATACCCG
3506702 TTTAAATAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.29, C:0.51, G:0.11, T:0.09
Consensus pattern (12 bp):
CCCAATACCCGA
Found at i:3507292 original size:27 final size:27
Alignment explanation
Indices: 3507262--3507319 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
3507252 AAAAGGCTAA
3507262 TATTACAAATTAGCACCTAAAGTATAT
1 TATTACAAATTAGCACCTAAAGTATAT
**
3507289 TATTTTAAATTAGCACCTAAAGTATAT
1 TATTACAAATTAGCACCTAAAGTATAT
3507316 TATT
1 TATT
3507320 TTTTCATCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.41, C:0.12, G:0.07, T:0.40
Consensus pattern (27 bp):
TATTACAAATTAGCACCTAAAGTATAT
Found at i:3507320 original size:27 final size:27
Alignment explanation
Indices: 3507268--3507321 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
3507258 CTAATATTAC
3507268 AAATTAGCACCTAAAGTATATTATTTT
1 AAATTAGCACCTAAAGTATATTATTTT
3507295 AAATTAGCACCTAAAGTATATTATTTT
1 AAATTAGCACCTAAAGTATATTATTTT
3507322 TTCATCTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.41, C:0.11, G:0.07, T:0.41
Consensus pattern (27 bp):
AAATTAGCACCTAAAGTATATTATTTT
Found at i:3507411 original size:31 final size:31
Alignment explanation
Indices: 3507376--3507434 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
3507366 TAAGCCTATC
*
3507376 TTTTTGGCCAAACTAGATACCTAAAGTATTT
1 TTTTTGGCCAAAATAGATACCTAAAGTATTT
* **
3507407 TTTTTGGTCAAAATAGATATTTAAAGTA
1 TTTTTGGCCAAAATAGATACCTAAAGTA
3507435 GAGAAAATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.36, C:0.10, G:0.14, T:0.41
Consensus pattern (31 bp):
TTTTTGGCCAAAATAGATACCTAAAGTATTT
Found at i:3507669 original size:20 final size:21
Alignment explanation
Indices: 3507644--3507736 Score: 100
Period size: 21 Copynumber: 4.5 Consensus size: 21
3507634 TTTTCACAAT
*
3507644 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
3507664 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
3507685 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
3507705 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
3507726 TCGCAATGCGA
1 TCGCAATGCGA
3507737 TACTTACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:3507689 original size:41 final size:41
Alignment explanation
Indices: 3507644--3507736 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
3507634 TTTTCACAAT
3507644 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
3507685 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
3507726 TCGCAATGCGA
1 TCGCAATGCGA
3507737 TACTTACTAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:3507749 original size:41 final size:41
Alignment explanation
Indices: 3507663--3507797 Score: 148
Period size: 41 Copynumber: 3.3 Consensus size: 41
3507653 GAATAAGTAA
** *
3507663 ATCGCAACGCGAATTGGGAAAATCGCAATGCGAATAAGTA-A
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCG-ATACTTACT
3507704 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTTACT
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTTACT
* * ** * *
3507745 ATCGCAATGCGATAAT-ACAAAATCGCAACGAGATACTTACT
1 ATCGCAACGCGA-ATTGGGAAAATCGCAATGCGATACTTACT
*
3507786 TTCGCAACGCGA
1 ATCGCAACGCGA
3507798 TACTGACTTT
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
40 5 0.06
41 74 0.91
42 2 0.02
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.20
Consensus pattern (41 bp):
ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTTACT
Found at i:3507750 original size:20 final size:20
Alignment explanation
Indices: 3507725--3507818 Score: 91
Period size: 20 Copynumber: 4.7 Consensus size: 20
3507715 AATTGGGAAA
*
3507725 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTTACT
* * *
3507745 ATCGCAATGCGATA-ATACAAA
1 ATCGCAACGCGATACTTAC--T
*
3507766 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTTACT
* *
3507786 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTTACT
*
3507806 TTCGCAACGCGAT
1 ATCGCAACGCGAT
3507819 TTACATAATC
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
19 3 0.05
20 44 0.71
21 12 0.19
22 3 0.05
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATACTTACT
Found at i:3508034 original size:22 final size:22
Alignment explanation
Indices: 3508006--3508049 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
3507996 CACTCTCTCA
3508006 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
3508028 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
3508050 TATCTAAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:3508337 original size:20 final size:20
Alignment explanation
Indices: 3508312--3508349 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
3508302 CGATTCTCTC
3508312 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
**
3508332 GTTGCGATTTTCATTTTC
1 GTTGCGATAGTCATTTTC
3508350 AGAAACTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.16, G:0.21, T:0.50
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGT
Found at i:3509675 original size:18 final size:18
Alignment explanation
Indices: 3509654--3509698 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
3509644 TCCACTTCGG
* *
3509654 GAGCCATCACCTCGCCCA
1 GAGCCATCACCCCACCCA
*
3509672 GAGCTATCACCCCACCCA
1 GAGCCATCACCCCACCCA
3509690 GAGCCATCA
1 GAGCCATCA
3509699 TCTGATCGAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.27, C:0.47, G:0.16, T:0.11
Consensus pattern (18 bp):
GAGCCATCACCCCACCCA
Found at i:3510203 original size:20 final size:19
Alignment explanation
Indices: 3510169--3510234 Score: 78
Period size: 19 Copynumber: 3.4 Consensus size: 19
3510159 TAGTTTACTT
*
3510169 TCGCAACACGAAATGACTA
1 TCGCAACGCGAAATGACTA
*
3510188 TCGCAACGCGGAAATGGCTA
1 TCGCAACGC-GAAATGACTA
* **
3510208 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGACTA
3510227 TCGCAACG
1 TCGCAACG
3510235 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
19 22 0.56
20 17 0.44
ACGTcount: A:0.38, C:0.24, G:0.23, T:0.15
Consensus pattern (19 bp):
TCGCAACGCGAAATGACTA
Found at i:3510242 original size:14 final size:14
Alignment explanation
Indices: 3510223--3510280 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
3510213 ATGCGAAATG
3510223 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
3510237 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
3510253 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
3510269 AAAATCGCAACG
1 AAAATCGCAACG
3510281 CGAAAAAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.26, G:0.17, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:3510252 original size:33 final size:33
Alignment explanation
Indices: 3510207--3510295 Score: 148
Period size: 32 Copynumber: 2.8 Consensus size: 33
3510197 GGAAATGGCT
*
3510207 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
3510240 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
3510272 ATCGCAACGCGAAA--AAAATCGCAA
1 ATCGCAACGCGAAATGAAAATCGCAA
3510296 TGCGATTTGT
Statistics
Matches: 54, Mismatches: 1, Indels: 4
0.92 0.02 0.07
Matches are distributed among these distances:
31 9 0.17
32 30 0.56
33 15 0.28
ACGTcount: A:0.48, C:0.24, G:0.18, T:0.10
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:3510286 original size:14 final size:15
Alignment explanation
Indices: 3510222--3510286 Score: 66
Period size: 14 Copynumber: 4.3 Consensus size: 15
3510212 AATGCGAAAT
3510222 GAAAATCGCAACGAC
1 GAAAATCGCAACGAC
3510237 -AAAATCGCAACG-C
1 GAAAATCGCAACGAC
3510250 GAAATGAAATCGCAACGAC
1 G--A--AAATCGCAACGAC
3510269 -AAAATCGCAACG-C
1 GAAAATCGCAACGAC
3510282 GAAAA
1 GAAAA
3510287 AAATCGCAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 15
0.74 0.00 0.26
Matches are distributed among these distances:
13 2 0.05
14 27 0.63
16 2 0.05
18 11 0.26
19 1 0.02
ACGTcount: A:0.49, C:0.25, G:0.18, T:0.08
Consensus pattern (15 bp):
GAAAATCGCAACGAC
Found at i:3510341 original size:19 final size:19
Alignment explanation
Indices: 3510326--3510413 Score: 106
Period size: 19 Copynumber: 4.6 Consensus size: 19
3510316 GCGATTTTGT
3510326 CGTTGCGA-TTTCATTTCG
1 CGTTGCGATTTTCATTTCG
3510344 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
* ***
3510363 CATTGCGATAGCCATTTCCG
1 CGTTGCGATTTTCATTT-CG
**
3510383 CGTTGCGATAGTCATTTCG
1 CGTTGCGATTTTCATTTCG
3510402 CGTTGCGATTTT
1 CGTTGCGATTTT
3510414 AAGTTTTGTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
18 8 0.13
19 35 0.58
20 17 0.28
ACGTcount: A:0.14, C:0.23, G:0.23, T:0.41
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:3510387 original size:39 final size:38
Alignment explanation
Indices: 3510337--3510410 Score: 112
Period size: 39 Copynumber: 1.9 Consensus size: 38
3510327 GTTGCGATTT
**
3510337 CATTTCGCGTTGCGATTTTCATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGTCATTTCGCATTGCGATAGC
*
3510375 CATTTCCGCGTTGCGATAGTCATTTCGCGTTGCGAT
1 CATTT-CGCGTTGCGATAGTCATTTCGCATTGCGAT
3510411 TTTAAGTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
38 5 0.16
39 27 0.84
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (38 bp):
CATTTCGCGTTGCGATAGTCATTTCGCATTGCGATAGC
Found at i:3512303 original size:14 final size:14
Alignment explanation
Indices: 3512271--3512309 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
3512261 GATTGTTTAA
*
3512271 TTGATTTGTAAAAG
1 TTGATTTGTAAAAC
* *
3512285 ATGATTTGTAAATC
1 TTGATTTGTAAAAC
3512299 TTGATTTGTAA
1 TTGATTTGTAA
3512310 TTGATGTGTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.03, G:0.18, T:0.46
Consensus pattern (14 bp):
TTGATTTGTAAAAC
Found at i:3512415 original size:19 final size:19
Alignment explanation
Indices: 3512391--3512492 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
3512381 AAAACAGACT
* *
3512391 ATCGCAACGCGAAATGGAA
1 ATCGCAATGCGAAATGAAA
3512410 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
3512429 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
3512448 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
3512467 ATCGCAA--CG--A-GAAA
1 ATCGCAATGCGAAATGAAA
3512481 ATCGCAATGCGA
1 ATCGCAATGCGA
3512493 TTTTCATTTC
Statistics
Matches: 78, Mismatches: 2, Indels: 8
0.89 0.02 0.09
Matches are distributed among these distances:
14 11 0.14
15 1 0.01
16 2 0.03
17 2 0.03
19 62 0.79
ACGTcount: A:0.45, C:0.19, G:0.23, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:3512568 original size:20 final size:20
Alignment explanation
Indices: 3512511--3512568 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
3512501 TCGCATTGCG
* *
3512511 ATTTTCTCGTTGCGATAACC
1 ATTTTCGCGTTGCGATAGCC
3512531 ATTTTCGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
3512551 ATTTTCGCGTTGCGATAG
1 ATTTTCGCGTTGCGATAG
3512569 TCAAATGAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.38
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:3513651 original size:24 final size:24
Alignment explanation
Indices: 3513624--3513677 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
3513614 GTATTCGAAA
* *
3513624 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACACGGAC
*
3513648 TTTGATATTGGTCAATACACGGAT
1 TTTGATATTGGTCAATACACGGAC
3513672 TTTGAT
1 TTTGAT
3513678 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (24 bp):
TTTGATATTGGTCAATACACGGAC
Found at i:3516181 original size:39 final size:36
Alignment explanation
Indices: 3516138--3516285 Score: 136
Period size: 33 Copynumber: 4.3 Consensus size: 36
3516128 CTTAATGTCC
*
3516138 ATCGCAACGCGGAAATTACTATCGCAATGCGAAATGAAA
1 ATCGCAACGCGGAAA-GA--ATCGCAATGCGAAATGAAA
*
3516177 ATCGCAA--C-GAGAGAATCGCAATGCGAAATGAAA
1 ATCGCAACGCGGAAAGAATCGCAATGCGAAATGAAA
* ** *
3516210 ATCGCAACGC--TAA-TTTCGCAATGCGAAATAAAA
1 ATCGCAACGCGGAAAGAATCGCAATGCGAAATGAAA
*
3516243 ATCGCAACGAGG---GAATCGCAATGCGAAATG-AA
1 ATCGCAACGCGGAAAGAATCGCAATGCGAAATGAAA
3516275 ATCGCAACGCG
1 ATCGCAACGCG
3516286 AATTTAATTT
Statistics
Matches: 92, Mismatches: 12, Indels: 17
0.76 0.10 0.14
Matches are distributed among these distances:
32 12 0.13
33 66 0.72
34 1 0.01
35 2 0.02
36 3 0.03
37 1 0.01
39 7 0.08
ACGTcount: A:0.41, C:0.21, G:0.22, T:0.16
Consensus pattern (36 bp):
ATCGCAACGCGGAAAGAATCGCAATGCGAAATGAAA
Found at i:3516200 original size:33 final size:33
Alignment explanation
Indices: 3516158--3516283 Score: 184
Period size: 33 Copynumber: 3.8 Consensus size: 33
3516148 GGAAATTACT
3516158 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
**
3516191 ATCGCAATGCGAAATGAAAATCGCAACGCTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* * *
3516223 TTTCGCAATGCGAAATAAAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
3516257 ATCGCAATGCGAAATG-AAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
3516284 CGAATTTAAT
Statistics
Matches: 82, Mismatches: 9, Indels: 5
0.85 0.09 0.05
Matches are distributed among these distances:
32 12 0.15
33 69 0.84
34 1 0.01
ACGTcount: A:0.43, C:0.20, G:0.22, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:3516265 original size:66 final size:65
Alignment explanation
Indices: 3516159--3516290 Score: 228
Period size: 66 Copynumber: 2.0 Consensus size: 65
3516149 GAAATTACTA
* *
3516159 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCTAAT
1 TCGCAATGCGAAATAAAAATCGCAACGAGAGAATCGCAATGCGAAATG-AAATCGCAACGCGAAT
3516224 T
65 T
*
3516225 TCGCAATGCGAAATAAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAATCGCAACGCGAATT
1 TCGCAATGCGAAATAAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAATCGCAACGCGAATT
3516290 T
1 T
3516291 AATTTCGCGT
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
65 17 0.27
66 46 0.73
ACGTcount: A:0.42, C:0.20, G:0.22, T:0.17
Consensus pattern (65 bp):
TCGCAATGCGAAATAAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAATCGCAACGCGAATT
Found at i:3516464 original size:14 final size:14
Alignment explanation
Indices: 3516445--3516481 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
3516435 CATCAATTAA
3516445 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
3516459 ACAAATCACCTTTT
1 ACAAATCAACTTTT
3516473 ACAAATCAA
1 ACAAATCAA
3516482 TTAAACAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:3517886 original size:21 final size:21
Alignment explanation
Indices: 3517820--3517886 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
3517810 GTGAATCGGG
*
3517820 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
3517840 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
3517862 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
3517883 CTCT
1 CTCT
3517887 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:3517905 original size:42 final size:41
Alignment explanation
Indices: 3517820--3517942 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
3517810 GTGAATCGGG
* * * * *
3517820 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGATAGGGGC
3517862 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGATAGGGGC
* * * * *
3517904 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGATAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGATAGG
3517943 CGAGTCGGGC
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
41 4 0.06
42 58 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.18, G:0.37, T:0.23
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGATAGGGGC
Done.