Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 ID=Chr06-JGI_221_v2.0
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: 51074515
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 971674 characters in sequence are not A, C, G, or T
File 27 of 168
Found at i:7086496 original size:16 final size:16
Alignment explanation
Indices: 7086475--7086542 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
7086465 TTTGGTTCGC
7086475 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
7086491 TGTATTGGATTGGAGG
1 TGTATTGGATTAGAGG
7086507 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
7086523 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
7086539 TGTA
1 TGTA
7086543 ATAGCAAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.24, C:0.00, G:0.38, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:7088968 original size:17 final size:18
Alignment explanation
Indices: 7088933--7088974 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
7088923 AACATATATG
*
7088933 TAAAGTGTATAATAAAAT
1 TAAAATGTATAATAAAAT
7088951 TAAAATGTATAA-AAAAT
1 TAAAATGTATAATAAAAT
7088968 TCAAAAT
1 T-AAAAT
7088975 AAAGTTTTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.27
18 16 0.73
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.31
Consensus pattern (18 bp):
TAAAATGTATAATAAAAT
Found at i:7095530 original size:29 final size:29
Alignment explanation
Indices: 7095488--7095552 Score: 130
Period size: 29 Copynumber: 2.2 Consensus size: 29
7095478 ACTTTGAAAT
7095488 GAATATGGAATTCCTTGATTCCATTGATA
1 GAATATGGAATTCCTTGATTCCATTGATA
7095517 GAATATGGAATTCCTTGATTCCATTGATA
1 GAATATGGAATTCCTTGATTCCATTGATA
7095546 GAATATG
1 GAATATG
7095553 CTATTTTGAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.37
Consensus pattern (29 bp):
GAATATGGAATTCCTTGATTCCATTGATA
Found at i:7097345 original size:13 final size:13
Alignment explanation
Indices: 7097329--7097354 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7097319 CTTTGCATAT
7097329 TGTCTTCAACAGG
1 TGTCTTCAACAGG
7097342 TGTCTTCAACAGG
1 TGTCTTCAACAGG
7097355 CTCGCACTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (13 bp):
TGTCTTCAACAGG
Found at i:7099159 original size:11 final size:11
Alignment explanation
Indices: 7099143--7099168 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
7099133 TTCTTAGCTA
7099143 AGAACAAGATG
1 AGAACAAGATG
7099154 AGAACAAGATG
1 AGAACAAGATG
7099165 AGAA
1 AGAA
7099169 GGAAAAACAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.58, C:0.08, G:0.27, T:0.08
Consensus pattern (11 bp):
AGAACAAGATG
Found at i:7105932 original size:12 final size:12
Alignment explanation
Indices: 7105915--7105956 Score: 63
Period size: 12 Copynumber: 3.8 Consensus size: 12
7105905 ATTAAATAAG
7105915 ATAATTTAAAAA
1 ATAATTTAAAAA
7105927 ATAATTT---AA
1 ATAATTTAAAAA
7105936 ATAATTTAAAAA
1 ATAATTTAAAAA
7105948 ATAATTTAA
1 ATAATTTAA
7105957 TTTAAATTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
9 9 0.33
12 18 0.67
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
ATAATTTAAAAA
Found at i:7105940 original size:21 final size:21
Alignment explanation
Indices: 7105915--7105956 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
7105905 ATTAAATAAG
7105915 ATAATTTAAAAAATAATTTAA
1 ATAATTTAAAAAATAATTTAA
7105936 ATAATTTAAAAAATAATTTAA
1 ATAATTTAAAAAATAATTTAA
7105957 TTTAAATTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
ATAATTTAAAAAATAATTTAA
Found at i:7109443 original size:26 final size:26
Alignment explanation
Indices: 7109337--7109444 Score: 126
Period size: 26 Copynumber: 4.2 Consensus size: 26
7109327 ATTCTTGTGA
* *
7109337 ACTCATACTTGGAATAGTCCTTGTGG
1 ACTCATACATGGAATAGTCCTTGCGG
* * *
7109363 ACTCATACATGGAACAATCCTTGTGG
1 ACTCATACATGGAATAGTCCTTGCGG
* *
7109389 AATCATACATGGAATAGTCCTTACGG
1 ACTCATACATGGAATAGTCCTTGCGG
* * *
7109415 ACTGATACAGGGAATAGTCCTTGCAG
1 ACTCATACATGGAATAGTCCTTGCGG
7109441 ACTC
1 ACTC
7109445 TTGCTTGAAG
Statistics
Matches: 68, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 68 1.00
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (26 bp):
ACTCATACATGGAATAGTCCTTGCGG
Found at i:7118895 original size:33 final size:31
Alignment explanation
Indices: 7118853--7118931 Score: 86
Period size: 33 Copynumber: 2.5 Consensus size: 31
7118843 TGGACTTACC
* *
7118853 TTGTGTTTACTATCTTAACGGACTTTATATGTT
1 TTGTGTTTACTATCCTAACGGAC--TATATATT
* * *
7118886 TTGTGTTTACTGTCCTAATGGACTATCTATT
1 TTGTGTTTACTATCCTAACGGACTATATATT
*
7118917 ATGTGTTTACTATCC
1 TTGTGTTTACTATCC
7118932 CATTGGACGA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
31 19 0.49
33 20 0.51
ACGTcount: A:0.20, C:0.15, G:0.15, T:0.49
Consensus pattern (31 bp):
TTGTGTTTACTATCCTAACGGACTATATATT
Found at i:7118999 original size:33 final size:33
Alignment explanation
Indices: 7118920--7118999 Score: 97
Period size: 33 Copynumber: 2.4 Consensus size: 33
7118910 ATCTATTATG
* * *
7118920 TGTTTACTATCCCATTGGACGATCTTTGTTCTT
1 TGTTTACTATCCCAGTGAACGATCTTTGTTCTA
* * * *
7118953 TTTTTATTGTCCCAGTGAACTATCTTTGTTCTA
1 TGTTTACTATCCCAGTGAACGATCTTTGTTCTA
7118986 TGTTTACTATCCCA
1 TGTTTACTATCCCA
7119000 ACAGACTTTT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.17, C:0.21, G:0.12, T:0.49
Consensus pattern (33 bp):
TGTTTACTATCCCAGTGAACGATCTTTGTTCTA
Found at i:7130260 original size:20 final size:20
Alignment explanation
Indices: 7130237--7130286 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
7130227 CTTACGTAGT
7130237 AAAAAATCATTTTACTTGTA
1 AAAAAATCATTTTACTTGTA
7130257 AAAAAATCATTTTACTTGTA
1 AAAAAATCATTTTACTTGTA
7130277 AAAAAATCAT
1 AAAAAATCAT
7130287 ACATTCACTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.36
Consensus pattern (20 bp):
AAAAAATCATTTTACTTGTA
Found at i:7131002 original size:28 final size:28
Alignment explanation
Indices: 7130962--7131017 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
7130952 ATAAGTGAAG
*
7130962 GGAGAAGAGAAATCTAGATTAGAAAATA
1 GGAGAAGAGAAATCTAGATCAGAAAATA
7130990 GGAGAAGAGAAATCTAGATCAGAAAATA
1 GGAGAAGAGAAATCTAGATCAGAAAATA
7131018 ATTTGTTGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.54, C:0.05, G:0.25, T:0.16
Consensus pattern (28 bp):
GGAGAAGAGAAATCTAGATCAGAAAATA
Found at i:7136185 original size:26 final size:28
Alignment explanation
Indices: 7136134--7136194 Score: 67
Period size: 26 Copynumber: 2.3 Consensus size: 28
7136124 TCTTCTTTTT
** *
7136134 TTCTC-TTTTTTTTCATTTTCTTCTCC-
1 TTCTCTTTTTTTTTCATTCCCTCCTCCA
7136160 TTCTCTTTTTTTTTCA-TCCCTCCTCCA
1 TTCTCTTTTTTTTTCATTCCCTCCTCCA
7136187 TTC-CTTTT
1 TTCTCTTTT
7136195 AACGTAGTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
26 17 0.57
27 13 0.43
ACGTcount: A:0.05, C:0.31, G:0.00, T:0.64
Consensus pattern (28 bp):
TTCTCTTTTTTTTTCATTCCCTCCTCCA
Found at i:7148267 original size:2 final size:2
Alignment explanation
Indices: 7148260--7148299 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
7148250 CTTTGTTTTA
7148260 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7148300 GGTTGTCATG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7150257 original size:3 final size:3
Alignment explanation
Indices: 7150249--7150304 Score: 67
Period size: 3 Copynumber: 18.7 Consensus size: 3
7150239 AGTGGTAGTA
* * **
7150249 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAC CAT AAT AAT GGT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
7150297 ATT AAT AA
1 AAT AAT AA
7150305 AAATCATAGC
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:7168864 original size:22 final size:22
Alignment explanation
Indices: 7168823--7168876 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 22
7168813 CTTTAACTTT
*
7168823 ATTAATTAAGCTTTAATAAATC
1 ATTAATTAAGCTCTAATAAATC
7168845 ATTAATTAAGC-CTAATTAAATC
1 ATTAATTAAGCTCTAA-TAAATC
*
7168867 ACTTTATTAA
1 A-TTAATTAA
7168877 ACATAACCTC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 3 0.11
22 18 0.64
23 7 0.25
ACGTcount: A:0.44, C:0.11, G:0.04, T:0.41
Consensus pattern (22 bp):
ATTAATTAAGCTCTAATAAATC
Found at i:7170019 original size:5 final size:5
Alignment explanation
Indices: 7170009--7170037 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
7169999 AGATGATTAT
7170009 ATATC ATATC ATATC ATATC ATATC ATAT
1 ATATC ATATC ATATC ATATC ATATC ATAT
7170038 GCATGTATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.41, C:0.17, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATC
Found at i:7174725 original size:19 final size:20
Alignment explanation
Indices: 7174683--7174725 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
7174673 TCATGCTTTC
*
7174683 TATTCACATTTTCATATTCA
1 TATTCACATTTTCAAATTCA
7174703 -ATTCACATTTTCAAATT-A
1 TATTCACATTTTCAAATTCA
7174721 TATTC
1 TATTC
7174726 CACAATCATG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 1 0.05
19 20 0.95
ACGTcount: A:0.33, C:0.19, G:0.00, T:0.49
Consensus pattern (20 bp):
TATTCACATTTTCAAATTCA
Found at i:7174968 original size:23 final size:23
Alignment explanation
Indices: 7174915--7175035 Score: 102
Period size: 23 Copynumber: 5.3 Consensus size: 23
7174905 AGTACTTGAA
* *
7174915 ACGACATACGAGGTGTCTG--AT
1 ACGACACACGAGGTGCCTGAAAT
**
7174936 ACGACACACGAGGTGTTTGAAAT
1 ACGACACACGAGGTGCCTGAAAT
*
7174959 ATGACACACGAGGTGCCTGAAAT
1 ACGACACACGAGGTGCCTGAAAT
** * *
7174982 ACGACACATAAAGTGCTTGAAAT
1 ACGACACACGAGGTGCCTGAAAT
* ** * *
7175005 ATGACACATAAAGTGCCTGATAT
1 ACGACACACGAGGTGCCTGAAAT
7175028 ACGACACA
1 ACGACACA
7175036 TAAAGTGCCT
Statistics
Matches: 84, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
21 17 0.20
23 67 0.80
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.21
Consensus pattern (23 bp):
ACGACACACGAGGTGCCTGAAAT
Found at i:7174987 original size:46 final size:45
Alignment explanation
Indices: 7174917--7175043 Score: 139
Period size: 46 Copynumber: 2.8 Consensus size: 45
7174907 TACTTGAAAC
* * * * *
7174917 GACATACGAGGTGTCTG-ATACGACACACGAGGTGTTTGAAATAT
1 GACACACGAGGTGCCTGAATACGACACACAAAGTGCTTGAAATAT
*
7174961 GACACACGAGGTGCCTGAAATACGACACATAAAGTGCTTGAAATAT
1 GACACACGAGGTGCCTG-AATACGACACACAAAGTGCTTGAAATAT
** * *
7175007 GACACATAAAGTGCCTGATATACGACACATAAAGTGC
1 GACACACGAGGTGCCTGA-ATACGACACACAAAGTGC
7175044 CTGATCGGCT
Statistics
Matches: 71, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
44 15 0.21
45 1 0.01
46 55 0.77
ACGTcount: A:0.37, C:0.19, G:0.23, T:0.21
Consensus pattern (45 bp):
GACACACGAGGTGCCTGAATACGACACACAAAGTGCTTGAAATAT
Found at i:7175048 original size:23 final size:23
Alignment explanation
Indices: 7174953--7175047 Score: 127
Period size: 23 Copynumber: 4.1 Consensus size: 23
7174943 ACGAGGTGTT
* ** *
7174953 TGAAATATGACACACGAGGTGCC
1 TGAAATACGACACATAAAGTGCC
*
7174976 TGAAATACGACACATAAAGTGCT
1 TGAAATACGACACATAAAGTGCC
*
7174999 TGAAATATGACACATAAAGTGCC
1 TGAAATACGACACATAAAGTGCC
*
7175022 TGATATACGACACATAAAGTGCC
1 TGAAATACGACACATAAAGTGCC
7175045 TGA
1 TGA
7175048 TCGGCTTAGC
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 63 1.00
ACGTcount: A:0.40, C:0.19, G:0.20, T:0.21
Consensus pattern (23 bp):
TGAAATACGACACATAAAGTGCC
Found at i:7177486 original size:27 final size:27
Alignment explanation
Indices: 7177448--7177516 Score: 75
Period size: 27 Copynumber: 2.6 Consensus size: 27
7177438 CTGATTTTTG
* *
7177448 CTCACGCAAGCTATAATATTCGGTCTA
1 CTCACACAAGCTATAATATTCGGGCTA
* * * * *
7177475 CTCACACGAGCTGTGATATTGGGGCTG
1 CTCACACAAGCTATAATATTCGGGCTA
7177502 CTCACACAAGCTATA
1 CTCACACAAGCTATA
7177517 GATCAGGATT
Statistics
Matches: 32, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (27 bp):
CTCACACAAGCTATAATATTCGGGCTA
Found at i:7184874 original size:285 final size:285
Alignment explanation
Indices: 7184364--7184924 Score: 1077
Period size: 285 Copynumber: 2.0 Consensus size: 285
7184354 ACCAAGCAAA
7184364 GCTCGAATTGAACTATGCTTCACAACTGGAGAGAACACATCTGTGAAGTCCACTCCTGGAATTTG
1 GCTCGAATTGAACTATGCTTCACAACTGGAGAGAACACATCTGTGAAGTCCACTCCTGGAATTTG
7184429 ACTGTAACCCTTTGTAACAAGCCTTGCTTTATATCTGGGTTCTTCAACTCTTGGAGTCCCTTCTT
66 ACTGTAACCCTTTGTAACAAGCCTTGCTTTATATCTGGGTTCTTCAACTCTTGGAGTCCCTTCTT
* * * *
7184494 TTTTCTTAAACACCTATTTACAATGAATAACTTTTTTACCTTTAGGAAGTTTCACAAGATCCCAT
131 TCTTCTTAAACACCCATTTACAATGAACAACCTTTTTACCTTTAGGAAGTTTCACAAGATCCCAT
*
7184559 GTTTTTTTTTGTGTAGTGATTCCATCTCCTCTTGCATAGCAAACATCCACTTTTCTGAGTTTTCA
196 GTTTTTTTTTGTGTAGTGATTCCATCTCCTCTTGCATAGCAAACATCCACTTTTCTGAGTCTTCA
7184624 CAACTAACCGCCTCAGCAAACATCC
261 CAACTAACCGCCTCAGCAAACATCC
7184649 GCTCGAATTGAACTATGCTTCACAACTGGAGAGAACACATCTGTGAAGTCCACTCCTGGAATTTG
1 GCTCGAATTGAACTATGCTTCACAACTGGAGAGAACACATCTGTGAAGTCCACTCCTGGAATTTG
7184714 ACTGTAACCCTTTGTAACAAGCCTTGCTTTATATCTGGGTTCTTCAACTCTTGGAGTCCCTTCTT
66 ACTGTAACCCTTTGTAACAAGCCTTGCTTTATATCTGGGTTCTTCAACTCTTGGAGTCCCTTCTT
7184779 TCTTCTTAAACACCCATTTACAATGAACAACCTTTTTACCTTTAGGAAGTTTCACAAGATCCCAT
131 TCTTCTTAAACACCCATTTACAATGAACAACCTTTTTACCTTTAGGAAGTTTCACAAGATCCCAT
7184844 GTTTTTTTTTGTGTAGTGATTCCATCTCCTCTTGCATAGCAAACATCCACTTTTCTGAGTCTTCA
196 GTTTTTTTTTGTGTAGTGATTCCATCTCCTCTTGCATAGCAAACATCCACTTTTCTGAGTCTTCA
7184909 CAACTAACCGCCTCAG
261 CAACTAACCGCCTCAG
7184925 AATAATTAGA
Statistics
Matches: 271, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
285 271 1.00
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.35
Consensus pattern (285 bp):
GCTCGAATTGAACTATGCTTCACAACTGGAGAGAACACATCTGTGAAGTCCACTCCTGGAATTTG
ACTGTAACCCTTTGTAACAAGCCTTGCTTTATATCTGGGTTCTTCAACTCTTGGAGTCCCTTCTT
TCTTCTTAAACACCCATTTACAATGAACAACCTTTTTACCTTTAGGAAGTTTCACAAGATCCCAT
GTTTTTTTTTGTGTAGTGATTCCATCTCCTCTTGCATAGCAAACATCCACTTTTCTGAGTCTTCA
CAACTAACCGCCTCAGCAAACATCC
Found at i:7191745 original size:19 final size:21
Alignment explanation
Indices: 7191716--7191761 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
7191706 TATATAAAAA
* *
7191716 TTTTAAGTTTTACA-TAGTTT
1 TTTTAAGTTTTAAATTACTTT
7191736 TTTTAA-TTTTAAATTACTTT
1 TTTTAAGTTTTAAATTACTTT
7191756 TTTTAA
1 TTTTAA
7191762 ATATATTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.63
Consensus pattern (21 bp):
TTTTAAGTTTTAAATTACTTT
Found at i:7196242 original size:15 final size:15
Alignment explanation
Indices: 7196222--7196251 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
7196212 GATCTCGGTG
7196222 GAATCAGCACTTAGC
1 GAATCAGCACTTAGC
7196237 GAATCAGCACTTAGC
1 GAATCAGCACTTAGC
7196252 AACCACCTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.27, G:0.20, T:0.20
Consensus pattern (15 bp):
GAATCAGCACTTAGC
Found at i:7196330 original size:43 final size:42
Alignment explanation
Indices: 7196237--7196527 Score: 337
Period size: 42 Copynumber: 7.0 Consensus size: 42
7196227 AGCACTTAGC
* *
7196237 GAATCAGCACTTAGCAACCACC-TTATAATCAATGATACGGG
1 GAATCAGCACTTAGCAACCACCTTTACAATCAAGGATACGGG
* *
7196278 GAATCAGCACATAGCAACC-CCTTTCACAATCAAGGGTACGGTG
1 GAATCAGCACTTAGCAACCACCTTT-ACAATCAAGGATACGG-G
* *
7196321 GAATCAGCACTTAGCAACCACC-TTATAATCAATGATACGGG
1 GAATCAGCACTTAGCAACCACCTTTACAATCAAGGATACGGG
*
7196362 GAATCAGCACATAGCAACC-CCTTTCACAATCAAGGATACGGTG
1 GAATCAGCACTTAGCAACCACCTTT-ACAATCAAGGATACGG-G
* ** *
7196405 GAATCAGCACTTACCAACCACC-TTATGATCAATGATACGGG
1 GAATCAGCACTTAGCAACCACCTTTACAATCAAGGATACGGG
*
7196446 GAATCAGCA-TATAGCAACC-CCTTTCACAATCAAGGATACAGTG
1 GAATCAGCACT-TAGCAACCACCTTT-ACAATCAAGGATAC-GGG
* *
7196489 GAATCAGCACTTAGCAACCACC-TTATAATCAATGATACG
1 GAATCAGCACTTAGCAACCACCTTTACAATCAAGGATACG
7196528 AGTAATAACA
Statistics
Matches: 213, Mismatches: 23, Indels: 28
0.81 0.09 0.11
Matches are distributed among these distances:
40 7 0.03
41 61 0.29
42 76 0.36
43 62 0.29
44 7 0.03
ACGTcount: A:0.36, C:0.26, G:0.17, T:0.21
Consensus pattern (42 bp):
GAATCAGCACTTAGCAACCACCTTTACAATCAAGGATACGGG
Found at i:7196341 original size:84 final size:84
Alignment explanation
Indices: 7196237--7196527 Score: 537
Period size: 84 Copynumber: 3.5 Consensus size: 84
7196227 AGCACTTAGC
7196237 GAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACCCCTTT
1 GAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACCCCTTT
*
7196302 CACAATCAAGGGTACGGTG
66 CACAATCAAGGATACGGTG
7196321 GAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACCCCTTT
1 GAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACCCCTTT
7196386 CACAATCAAGGATACGGTG
66 CACAATCAAGGATACGGTG
* * *
7196405 GAATCAGCACTTACCAACCACCTTATGATCAATGATACGGGGAATCAGCATATAGCAACCCCTTT
1 GAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACCCCTTT
*
7196470 CACAATCAAGGATACAGTG
66 CACAATCAAGGATACGGTG
7196489 GAATCAGCACTTAGCAACCACCTTATAATCAATGATACG
1 GAATCAGCACTTAGCAACCACCTTATAATCAATGATACG
7196528 AGTAATAACA
Statistics
Matches: 200, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
84 200 1.00
ACGTcount: A:0.36, C:0.26, G:0.17, T:0.21
Consensus pattern (84 bp):
GAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACCCCTTT
CACAATCAAGGATACGGTG
Found at i:7198654 original size:42 final size:41
Alignment explanation
Indices: 7198525--7198699 Score: 181
Period size: 44 Copynumber: 4.1 Consensus size: 41
7198515 TTAACGTTAC
** ** *
7198525 ACGGTGGAATCAGCACTTAGCAACCACCCCATGTTCAAAGGAT
1 ACGG-GGAATCAGCACTTAGCAACCACCTTATAATC-AATGAT
*
7198568 CTCGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGAT
1 -ACGG-GGAATCAGCACTTAGCAACCACCTTATAATCAATGAT
* * * *
7198611 ACGGGGAATCAGCACATAGAAACC-CCTTTCACAATCAAGGAT
1 ACGGGGAATCAGCACTTAGCAACCACC-TT-ATAATCAATGAT
*
7198653 ACGGTGGAATCAACACTTAGCAACCACCTTATAATCAATGAT
1 ACGG-GGAATCAGCACTTAGCAACCACCTTATAATCAATGAT
7198695 ACGGG
1 ACGGG
7198700 TTCACATAGT
Statistics
Matches: 111, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
40 2 0.02
41 21 0.19
42 31 0.28
43 24 0.22
44 33 0.30
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.21
Consensus pattern (41 bp):
ACGGGGAATCAGCACTTAGCAACCACCTTATAATCAATGAT
Found at i:7205478 original size:41 final size:41
Alignment explanation
Indices: 7205409--7205558 Score: 219
Period size: 41 Copynumber: 3.7 Consensus size: 41
7205399 TTTAACATAT
* * *
7205409 TCACCGGCATTTAGCCTGCTAAGCTTATAGCCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
* * * *
7205450 TTACCGACACTTAGCCTGCTAGGTTTATAACCTAATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
*
7205491 TCGCCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
*
7205532 TCACCGGCACTTAGCCTGCTAGACTTA
1 TCACCGGCACTTAGCCTGCTAGGCTTA
7205559 AAGTCCGAAA
Statistics
Matches: 95, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 95 1.00
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.29
Consensus pattern (41 bp):
TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
Found at i:7205992 original size:12 final size:12
Alignment explanation
Indices: 7205964--7205996 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
7205954 AGCTCATCAA
7205964 ATATACA-ATAG
1 ATATACATATAG
*
7205975 ATATACATATAT
1 ATATACATATAG
7205987 ATATACATAT
1 ATATACATAT
7205997 TCGAACTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 7 0.35
12 13 0.65
ACGTcount: A:0.52, C:0.09, G:0.03, T:0.36
Consensus pattern (12 bp):
ATATACATATAG
Found at i:7206106 original size:12 final size:12
Alignment explanation
Indices: 7206078--7206110 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
7206068 AGCTCATCAA
7206078 ATATACA-ATAG
1 ATATACATATAG
*
7206089 ATATACATATAT
1 ATATACATATAG
7206101 ATATACATAT
1 ATATACATAT
7206111 TCGAACTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 7 0.35
12 13 0.65
ACGTcount: A:0.52, C:0.09, G:0.03, T:0.36
Consensus pattern (12 bp):
ATATACATATAG
Found at i:7206180 original size:112 final size:113
Alignment explanation
Indices: 7205898--7206222 Score: 580
Period size: 114 Copynumber: 2.9 Consensus size: 113
7205888 CCTCACACAT
7205898 GTGCATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATCA
1 GTGCATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATCA
7205963 AATATACAATAGATATACATATATATATACATATTCGAACTTCATTTA
66 AATATACAATAGATATACATATATATATACATATTCGAACTTCATTTA
*
7206011 TGTGTATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATC
1 -GTGCATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATC
7206076 AAATATACAATAGATATACATATATATATACATATTCGAACTTCATTTA
65 AAATATACAATAGATATACATATATATATACATATTCGAACTTCATTTA
* *
7206125 -TGCATATATATATCATTCATACTTAACTAATTTCAATTCGTATACTTTTAATTATAGCTCATCA
1 GTGCATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATCA
* * *
7206189 AATGTACAATAGTTATACATATATATATATATAT
66 AATATACAATAGATATACATATATATATACATAT
7206223 GCTGATTTAA
Statistics
Matches: 204, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
112 92 0.45
114 112 0.55
ACGTcount: A:0.40, C:0.14, G:0.05, T:0.41
Consensus pattern (113 bp):
GTGCATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATCA
AATATACAATAGATATACATATATATATACATATTCGAACTTCATTTA
Found at i:7207213 original size:13 final size:13
Alignment explanation
Indices: 7207195--7207219 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7207185 CAATCAAATG
7207195 CACACAAAATAAA
1 CACACAAAATAAA
7207208 CACACAAAATAA
1 CACACAAAATAA
7207220 TATTAAATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (13 bp):
CACACAAAATAAA
Found at i:7212834 original size:44 final size:44
Alignment explanation
Indices: 7212729--7213428 Score: 272
Period size: 44 Copynumber: 15.7 Consensus size: 44
7212719 CATTATGGCA
* * *
7212729 AATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTAAAACTAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAACTAAT
* ** * * ** *
7212773 AATCCTATCTCTATGAAGTTGCACTGGATCAAATTAAAGTTACT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAACTAAT
* * * * * *
7212817 AGTCTTATCTCCCTGAAGTCGCAGTGGAGTAGACTGAAAA-TAGT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCA-AATTAAAACTAAT
* * * * * * *
7212861 GAATCTTAT-TTCCTTAATATTGCAGTGG-G-ATGGATTGAAGTCATTATAGCG
1 -AATCTTATCTCCCTGAA-GTTGCAGTGGAGCA--AATT-AA--AACTA-A--T
* * * * *
7212912 AATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTAAAGCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAACTAAT
* * ** ** *
7212956 AATCCTATCTCTCTGAAGTTGCAGTGGAGCGGATTAAAGTTACT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAACTAAT
* * * * * * *
7213000 AGTCTTATCTCCTTGAA-TTCGCAGTCGAACAGACTGAAGA-TAGCA-
1 AATCTTATCTCCCTGAAGTT-GCAGTGGAGCA-AATTAAAACTA--AT
* * * *
7213045 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCTACT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAACTAAT
* ** ** * * *
7213089 AATCCTATCTCTTTGAAGCCGCAGTGGAGCAGACTGAAGA-TAGCA-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCA-AATTAAAACTA--AT
* * * * *
7213134 AATCTTATCTCCTTGAAGTTGCAATGGAGCAGATTAAAGCTACT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAACTAAT
* * * * **
7213178 AATCCTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCTCCT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAACTAAT
* *** * * * *
7213222 AGTCTTATCTCCCTGAAGTCATAATGGAGCAGATTGAAGA-TAGT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATT-AAAACTAAT
* * * *
7213266 AAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCTACT
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAACTAAT
* ** * * *
7213311 AATCCTATCTCCCTGAAGTCACAGTGGAGCAGACTGAAGA-TAGCA-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCA-AATTAAAACTA--AT
* * * * * *
7213356 AATCTTATCTCCCTAAAGTTGCAATGGAACATATTAAAGCTACT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAACTAAT
* * *
7213400 AATCCTATCTCCCTAAAGTTGTAGTGGAG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAG
7213429 AGGATTAAGA
Statistics
Matches: 476, Mismatches: 146, Indels: 68
0.69 0.21 0.10
Matches are distributed among these distances:
43 3 0.01
44 288 0.61
45 147 0.31
46 3 0.01
47 2 0.00
48 2 0.00
49 2 0.00
50 21 0.04
51 7 0.01
52 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAACTAAT
Found at i:7213005 original size:183 final size:183
Alignment explanation
Indices: 7212691--7213071 Score: 548
Period size: 183 Copynumber: 2.1 Consensus size: 183
7212681 TCCTATACTG
* *
7212691 CTAAAGTTGCAGTGGGATGGATTAAAGTCATTATGGCAAATCTTATCTCCCTAAAGTTGTAGTGG
1 CTAAAGTTGCAGTGGGATGGATTAAAGTCATTATAGCAAATCTTATCTCCCTAAAGTTGCAGTGG
* *
7212756 AGCAGATTAAAACTAATAATCCTATCTCTATGAAGTTGCACTGGATCAAATTAAAGTTACTAGTC
66 AGCAGATTAAAACCAATAATCCTATCTCTATGAAGTTGCACTGGAGCAAATTAAAGTTACTAGTC
* ** ** *
7212821 TTATCTCCCTGAAGTCGCAGTGGAGTAGACTGAAAATAGTGAATCTTATTTCC
131 TTATCTCCCTGAAGTCGCAGTCGAACAGACTGAAAATAGCAAATCTTATCTCC
* * *
7212874 TTAATA-TTGCAGTGGGATGGATTGAAGTCATTATAGCGAATCTTATCTCCCTAAAGTTGCAGTG
1 CTAA-AGTTGCAGTGGGATGGATTAAAGTCATTATAGCAAATCTTATCTCCCTAAAGTTGCAGTG
* * * * **
7212938 GAGTAGATTAAAGCCAATAATCCTATCTCTCTGAAGTTGCAGTGGAGCGGATTAAAGTTACTAGT
65 GAGCAGATTAAAACCAATAATCCTATCTCTATGAAGTTGCACTGGAGCAAATTAAAGTTACTAGT
* * *
7213003 CTTATCTCCTTGAATTCGCAGTCGAACAGACTGAAGATAGCAAATCTTATCTCC
130 CTTATCTCCCTGAAGTCGCAGTCGAACAGACTGAAAATAGCAAATCTTATCTCC
7213057 CTAAAGTTGCAGTGG
1 CTAAAGTTGCAGTGG
7213072 AGCAGATTAA
Statistics
Matches: 173, Mismatches: 23, Indels: 4
0.87 0.12 0.02
Matches are distributed among these distances:
182 1 0.01
183 171 0.99
184 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (183 bp):
CTAAAGTTGCAGTGGGATGGATTAAAGTCATTATAGCAAATCTTATCTCCCTAAAGTTGCAGTGG
AGCAGATTAAAACCAATAATCCTATCTCTATGAAGTTGCACTGGAGCAAATTAAAGTTACTAGTC
TTATCTCCCTGAAGTCGCAGTCGAACAGACTGAAAATAGCAAATCTTATCTCC
Found at i:7213170 original size:222 final size:222
Alignment explanation
Indices: 7212906--7213436 Score: 776
Period size: 222 Copynumber: 2.4 Consensus size: 222
7212896 TGAAGTCATT
* * * * * *
7212906 ATAGCGAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTAAAGCCAATAATCCTATCTCTCTG
1 ATAGCAAATCTTATCTCCCTAAAGTTGCAATGGAGCAGATTAAAGCTACTAATCCTATCTCCCTG
* * * * * *
7212971 AAGTTGCAGTGGAGCGGATTAAAGTTACTAGTCTTATCTCCTTGAATTCGCAGTCGAACAGACTG
66 AAGTTGCAGTGGAGAGGATTAAAGCTACTAGTCTTATCTCCCTGAAGTCACAATCGAACAGACTG
*
7213036 AAGATAGCAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCTACTAATCCTATCTCT
131 AAGATAGCAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCTACTAATCCTATCTCC
* *
7213101 TTGAAGCCGCAGTGGAGCAGACTGAAG
196 CTGAAGCCACAGTGGAGCAGACTGAAG
* *
7213128 ATAGCAAATCTTATCTCCTTGAAGTTGCAATGGAGCAGATTAAAGCTACTAATCCTATCTCCCTG
1 ATAGCAAATCTTATCTCCCTAAAGTTGCAATGGAGCAGATTAAAGCTACTAATCCTATCTCCCTG
* * * * *
7213193 AAGTTGCAGTGGAGTA-GATTAAAGCTCCTAGTCTTATCTCCCTGAAGTCATAATGGAGCAGATT
66 AAGTTGCAGTGGAG-AGGATTAAAGCTACTAGTCTTATCTCCCTGAAGTCACAATCGAACAGACT
* * *
7213257 GAAGATAGTAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCTACTAATCCTATCTC
130 GAAGATAGCAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCTACTAATCCTATCTC
*
7213322 CCTGAAGTCACAGTGGAGCAGACTGAAG
195 CCTGAAGCCACAGTGGAGCAGACTGAAG
* * *
7213350 ATAGCAAATCTTATCTCCCTAAAGTTGCAATGGAACATATTAAAGCTACTAATCCTATCTCCCTA
1 ATAGCAAATCTTATCTCCCTAAAGTTGCAATGGAGCAGATTAAAGCTACTAATCCTATCTCCCTG
*
7213415 AAGTTGTAGTGGAGAGGATTAA
66 AAGTTGCAGTGGAGAGGATTAA
7213437 GATGATGAAT
Statistics
Matches: 275, Mismatches: 32, Indels: 4
0.88 0.10 0.01
Matches are distributed among these distances:
221 1 0.00
222 274 1.00
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (222 bp):
ATAGCAAATCTTATCTCCCTAAAGTTGCAATGGAGCAGATTAAAGCTACTAATCCTATCTCCCTG
AAGTTGCAGTGGAGAGGATTAAAGCTACTAGTCTTATCTCCCTGAAGTCACAATCGAACAGACTG
AAGATAGCAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCTACTAATCCTATCTCC
CTGAAGCCACAGTGGAGCAGACTGAAG
Found at i:7213203 original size:89 final size:89
Alignment explanation
Indices: 7212729--7213436 Score: 463
Period size: 89 Copynumber: 7.9 Consensus size: 89
7212719 CATTATGGCA
* * * * **
7212729 AATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTAAA-ACTA--ATAATCCTATCTCTATGAAG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGA-TAGCA-AATCTTATCTCCCTGAAG
* * * *
7212791 TTGCACTGGATCAAATTAAAGTTACT
64 TTGCAGTGGAGCAGATTAAAGATACT
* * * ** * * *
7212817 AGTCTTATCTCCCTGAAGTCGCAGTGGAGTAGACTGAAA-ATAGTGAATCTTAT-TTCCTTAATA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAAGATAGCAAATCTTATCTCCCTGAA-G
* *
7212880 TTGCAGTGG-G-ATGGATTGAAGTCATTATAGCG
64 TTGCAGTGGAGCA--GATT-AA---A-GATA-CT
* * * ** * *
7212912 AATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTAAAGCCA--ATAATCCTATCTCTCTGAAGT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCA-AATCTTATCTCCCTGAAGT
* *
7212975 TGCAGTGGAGCGGATTAAAGTTACT
65 TGCAGTGGAGCAGATTAAAGATACT
* * * * * *
7213000 AGTCTTATCTCCTTGAA-TTCGCAGTCGAACAGACTGAAGATAGCAAATCTTATCTCCCTAAAGT
1 AATCTTATCTCCCTGAAGTT-GCAGTGGAGCAGACTAAAGATAGCAAATCTTATCTCCCTGAAGT
*
7213064 TGCAGTGGAGCAGATTAAAGCTACT
65 TGCAGTGGAGCAGATTAAAGATACT
* ** ** * *
7213089 AATCCTATCTCTTTGAAGCCGCAGTGGAGCAGACTGAAGATAGCAAATCTTATCTCCTTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCAAATCTTATCTCCCTGAAGTT
* *
7213154 GCAATGGAGCAGATTAAAGCTACT
66 GCAGTGGAGCAGATTAAAGATACT
* * * * * * * *
7213178 AATCCTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCT-CCTAGTCTTATCTCCCTGAAGTC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCAAATCTTATCTCCCTGAAGTT
** * * *
7213242 ATAATGGAGCAGATTGAAGATAGT
66 GCAGTGGAGCAGATTAAAGATACT
* * * * *
7213266 AAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCTA-CTAATCCTATCTCCCTGAAGT
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCAAATCTTATCTCCCTGAAGT
** * * *
7213330 CACAGTGGAGCAGACTGAAGATAGCA
65 TGCAGTGGAGCAGATTAAAGATA-CT
* * * * * * * * *
7213356 AATCTTATCTCCCTAAAGTTGCAATGGAACATATTAAAGCTA-CTAATCCTATCTCCCTAAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCAAATCTTATCTCCCTGAAGTT
*
7213420 GTAGTGGAG-AGGATTAA
66 GCAGTGGAGCA-GATTAA
7213437 GATGATGAAT
Statistics
Matches: 496, Mismatches: 99, Indels: 49
0.77 0.15 0.08
Matches are distributed among these distances:
87 3 0.01
88 103 0.21
89 319 0.64
90 4 0.01
93 3 0.01
94 25 0.05
95 39 0.08
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.30
Consensus pattern (89 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCAAATCTTATCTCCCTGAAGTT
GCAGTGGAGCAGATTAAAGATACT
Found at i:7213295 original size:133 final size:133
Alignment explanation
Indices: 7212728--7213436 Score: 579
Period size: 133 Copynumber: 5.3 Consensus size: 133
7212718 TCATTATGGC
* * * * **
7212728 AAATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTAAAACTAATAATCCTATCTCTATGAAGTT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACTAATCCTATCTCCCTGAAGTT
* * * * * * *
7212793 GCACTGGA-TCAAATTAAAGTTACTAGTCTTATCTCCCTGAAGTCGCAGTGGAGTAGACTGAAAA
66 GCAGTGGAGT-AGATTAAAGCTACTAATCTTATCTCCCTGAAGTCGCAGTGGAGCAGATTGAAGA
7212857 TAGT
130 TAGT
* * * * * * *
7212861 GAATCTTAT-TTCCTTAATATTGCAGTGG-G-ATGGATTGAAGTCATTATAGCGAATCTTATCTC
1 AAATCTTATCTCCCTGAA-GTTGCAGTGGAGCA--GATTAAAG-C----TA-CTAATCCTATCTC
* * * * * * *
7212923 CCTAAAGTTGCAGTGGAGTAGATTAAAGCCAATAATCCTATCTCTCTGAAGTTGCAGTGGAGCGG
57 CCTGAAGTTGCAGTGGAGTAGATTAAAGCTACTAATCTTATCTCCCTGAAGTCGCAGTGGAGCAG
* * *
7212988 ATTAAAGTTACT
122 ATTGAAGATAGT
* * * * * * * * * *
7213000 -AGTCTTATCTCCTTGAA-TTCGCAGTCGAACAGACTGAAGATAGCAAATCTTATCTCCCTAAAG
1 AAATCTTATCTCCCTGAAGTT-GCAGTGGAGCAGATTAAAGCTA-CTAATCCTATCTCCCTGAAG
* * ** * *
7213063 TTGCAGTGGAGCAGATTAAAGCTACTAATCCTATCTCTTTGAAGCCGCAGTGGAGCAGACTGAAG
64 TTGCAGTGGAGTAGATTAAAGCTACTAATCTTATCTCCCTGAAGTCGCAGTGGAGCAGATTGAAG
*
7213128 ATAGC
129 ATAGT
* *
7213133 AAATCTTATCTCCTTGAAGTTGCAATGGAGCAGATTAAAGCTACTAATCCTATCTCCCTGAAGTT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACTAATCCTATCTCCCTGAAGTT
* * ** *
7213198 GCAGTGGAGTAGATTAAAGCTCCTAGTCTTATCTCCCTGAAGTCATAATGGAGCAGATTGAAGAT
66 GCAGTGGAGTAGATTAAAGCTACTAATCTTATCTCCCTGAAGTCGCAGTGGAGCAGATTGAAGAT
7213263 AGT
131 AGT
* *
7213266 AAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCTACTAATCCTATCTCCCTGAAGTC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACTAATCCTATCTCCCTGAAGTT
* * * * * * * * * * * * *
7213331 ACAGTGGAGCAGACTGAAGATAGCAAATCTTATCTCCCTAAAGTTGCAATGGAACATATTAAAGC
66 GCAGTGGAGTAGATTAAAGCTA-CTAATCTTATCTCCCTGAAGTCGCAGTGGAGCAGATTGAAGA
*
7213396 TACT
130 TAGT
* * *
7213400 -AATCCTATCTCCCTAAAGTTGTAGTGGAG-AGGATTAA
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCA-GATTAA
7213437 GATGATGAAT
Statistics
Matches: 463, Mismatches: 95, Indels: 36
0.78 0.16 0.06
Matches are distributed among these distances:
131 1 0.00
132 8 0.02
133 287 0.62
134 68 0.15
135 2 0.00
137 2 0.00
138 22 0.05
139 71 0.15
140 2 0.00
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.30
Consensus pattern (133 bp):
AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACTAATCCTATCTCCCTGAAGTT
GCAGTGGAGTAGATTAAAGCTACTAATCTTATCTCCCTGAAGTCGCAGTGGAGCAGATTGAAGAT
AGT
Found at i:7214076 original size:26 final size:26
Alignment explanation
Indices: 7214036--7214098 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 26
7214026 GAACTAGAAG
*
7214036 AATATAAAAGCAAAAAACAATGTAAAAA
1 AATA-AAAAG-AAAAAACAATATAAAAA
* * *
7214064 AATAAAAAGAAAATAGAATATACAAA
1 AATAAAAAGAAAAAACAATATAAAAA
7214090 AA-AAAAAGA
1 AATAAAAAGA
7214099 TATTTCGGGC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
25 7 0.23
26 15 0.48
27 5 0.16
28 4 0.13
ACGTcount: A:0.75, C:0.05, G:0.08, T:0.13
Consensus pattern (26 bp):
AATAAAAAGAAAAAACAATATAAAAA
Found at i:7214926 original size:8 final size:8
Alignment explanation
Indices: 7214900--7214977 Score: 50
Period size: 8 Copynumber: 9.2 Consensus size: 8
7214890 TTAGTCCCCT
7214900 TTTTATTA
1 TTTTATTA
*
7214908 TTTTTTCTA
1 TTTTAT-TA
7214917 TTTTATTA
1 TTTTATTA
**
7214925 TTAAATTCA
1 TTTTATT-A
*
7214934 -TTAATGTAA
1 TTTTAT-T-A
*
7214943 TATTATTA
1 TTTTATTA
*
7214951 TTACTATTA
1 TT-TTATTA
7214960 TTTTATTA
1 TTTTATTA
7214968 TTTTATTA
1 TTTTATTA
7214976 TT
1 TT
7214978 AAATTCATTA
Statistics
Matches: 54, Mismatches: 11, Indels: 10
0.72 0.15 0.13
Matches are distributed among these distances:
8 33 0.61
9 18 0.33
10 3 0.06
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.65
Consensus pattern (8 bp):
TTTTATTA
Found at i:7215114 original size:3 final size:3
Alignment explanation
Indices: 7215108--7215206 Score: 189
Period size: 3 Copynumber: 33.0 Consensus size: 3
7215098 TTAATAATGA
*
7215108 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAC TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
7215156 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
7215204 TAT
1 TAT
7215207 CATCATAAAC
Statistics
Matches: 94, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
3 94 1.00
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:7216870 original size:15 final size:15
Alignment explanation
Indices: 7216850--7216880 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
7216840 GGATGTTGTA
*
7216850 TGTAATTCGTCTATT
1 TGTAATTCATCTATT
7216865 TGTAATTCATCTATT
1 TGTAATTCATCTATT
7216880 T
1 T
7216881 TGGTAGATGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.13, G:0.10, T:0.55
Consensus pattern (15 bp):
TGTAATTCATCTATT
Found at i:7217851 original size:19 final size:19
Alignment explanation
Indices: 7217827--7217869 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
7217817 TTATCATTTG
7217827 TTGTAATAAACTAAGAATA
1 TTGTAATAAACTAAGAATA
7217846 TTGTAATAAACTAAGAATA
1 TTGTAATAAACTAAGAATA
7217865 TTGTA
1 TTGTA
7217870 TTTAGACATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.49, C:0.05, G:0.12, T:0.35
Consensus pattern (19 bp):
TTGTAATAAACTAAGAATA
Found at i:7224102 original size:2 final size:2
Alignment explanation
Indices: 7224007--7224091 Score: 104
Period size: 2 Copynumber: 42.0 Consensus size: 2
7223997 NNNNNNNNNN
*
7224007 TA TA TA TA TA TA GTA GTA T- TG T- TA TA TA GTA GTA TA TA TA TA
1 TA TA TA TA TA TA -TA -TA TA TA TA TA TA TA -TA -TA TA TA TA TA
7224049 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7224090 TA
1 TA
7224092 ATTGTATATA
Statistics
Matches: 78, Mismatches: 0, Indels: 10
0.89 0.00 0.11
Matches are distributed among these distances:
1 3 0.04
2 65 0.83
3 10 0.13
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (2 bp):
TA
Found at i:7224808 original size:41 final size:41
Alignment explanation
Indices: 7224763--7224877 Score: 149
Period size: 41 Copynumber: 2.8 Consensus size: 41
7224753 CTTATCGTCA
* * *
7224763 GTGAAATGTTTCAGACTTTATGTCTAGCAGGGTTGATGCCG
1 GTGAAATGTTTCAGACTTTACGTCTAGCAGGCTTAATGCCG
* *
7224804 GTGAAATGTTTCAGACTTTACATCTACCAGGCTTAATGCCG
1 GTGAAATGTTTCAGACTTTACGTCTAGCAGGCTTAATGCCG
* * * *
7224845 ATGAAATATCTCGGACTTTACGTCTAGCAGGCT
1 GTGAAATGTTTCAGACTTTACGTCTAGCAGGCT
7224878 AATTACCGGT
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 63 1.00
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.32
Consensus pattern (41 bp):
GTGAAATGTTTCAGACTTTACGTCTAGCAGGCTTAATGCCG
Found at i:7226619 original size:18 final size:18
Alignment explanation
Indices: 7226538--7226621 Score: 62
Period size: 18 Copynumber: 4.2 Consensus size: 18
7226528 TCTCAATTCA
7226538 TCATTTCATATTTCATTTC
1 TCATTTCATA-TTCATTTC
* *
7226557 TCATTTCATAATCATTGC
1 TCATTTCATATTCATTTC
7226575 TCATTTTTTCCAT-TTCCACATTTTC
1 TCA---TTT-CATATT---CA-TTTC
7226600 TCATTTCATATTCATTTC
1 TCATTTCATATTCATTTC
7226618 TCAT
1 TCAT
7226622 CTTTGTCATT
Statistics
Matches: 52, Mismatches: 4, Indels: 19
0.69 0.05 0.25
Matches are distributed among these distances:
18 17 0.33
19 12 0.23
21 7 0.13
22 8 0.15
24 2 0.04
25 6 0.12
ACGTcount: A:0.21, C:0.24, G:0.01, T:0.54
Consensus pattern (18 bp):
TCATTTCATATTCATTTC
Found at i:7227008 original size:22 final size:23
Alignment explanation
Indices: 7226970--7227018 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
7226960 GATTTCATGA
7226970 ATATATATCATTAGAT-ATAAGC
1 ATATATATCATTAGATAATAAGC
* *
7226992 ATATAT-TCAATTTGATAATAATC
1 ATATATATC-ATTAGATAATAAGC
7227015 ATAT
1 ATAT
7227019 TTTTCTCAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 2 0.09
22 12 0.52
23 9 0.39
ACGTcount: A:0.45, C:0.08, G:0.06, T:0.41
Consensus pattern (23 bp):
ATATATATCATTAGATAATAAGC
Found at i:7227059 original size:16 final size:17
Alignment explanation
Indices: 7227026--7227062 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
7227016 TATTTTTCTC
*
7227026 AATACATATATATTCAT
1 AATAAATATATATTCAT
7227043 AATAAATATAT-TTCAT
1 AATAAATATATATTCAT
7227059 AATA
1 AATA
7227063 TACAAAATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (17 bp):
AATAAATATATATTCAT
Found at i:7236970 original size:6 final size:6
Alignment explanation
Indices: 7236959--7237024 Score: 132
Period size: 6 Copynumber: 11.0 Consensus size: 6
7236949 ATATATACAC
7236959 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
7237007 ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT
7237025 CAGTTTATGC
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 60 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (6 bp):
ATGTAT
Found at i:7241495 original size:33 final size:33
Alignment explanation
Indices: 7241453--7241522 Score: 106
Period size: 33 Copynumber: 2.1 Consensus size: 33
7241443 TAGGAGCTGT
*
7241453 TGGTTCATATGG-GAGACTAGGAGCCATGACTGG
1 TGGTTCATATGGAG-GACTAGGAACCATGACTGG
*
7241486 TGGTTCATATGGAGGACTAGGAACCTTGACTGG
1 TGGTTCATATGGAGGACTAGGAACCATGACTGG
7241519 TGGT
1 TGGT
7241523 GGAGCTGGTG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
33 33 0.97
34 1 0.03
ACGTcount: A:0.23, C:0.14, G:0.36, T:0.27
Consensus pattern (33 bp):
TGGTTCATATGGAGGACTAGGAACCATGACTGG
Found at i:7242561 original size:18 final size:19
Alignment explanation
Indices: 7242530--7242579 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 19
7242520 TAAAAAATAA
*
7242530 ATTTTGAAATTTTTATAAA-T
1 ATTTTG-AA-TTTTAAAAATT
7242550 ATTTTGAATTTTAAAAATT
1 ATTTTGAATTTTAAAAATT
7242569 ATTTTG-ATTTT
1 ATTTTGAATTTT
7242580 TTTTTGTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 13 0.46
19 9 0.32
20 6 0.21
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (19 bp):
ATTTTGAATTTTAAAAATT
Found at i:7242561 original size:19 final size:20
Alignment explanation
Indices: 7242530--7242580 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
7242520 TAAAAAATAA
*
7242530 ATTTTGAAATTTTTATAAA-T
1 ATTTTG-AATTTTTAAAAATT
7242550 ATTTTGAA-TTTTAAAAATT
1 ATTTTGAATTTTTAAAAATT
7242569 ATTTTG-ATTTTT
1 ATTTTGAATTTTT
7242581 TTTTGTAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 9 0.32
19 13 0.46
20 6 0.21
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (20 bp):
ATTTTGAATTTTTAAAAATT
Found at i:7242893 original size:23 final size:23
Alignment explanation
Indices: 7242863--7242910 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
7242853 CAACACACTT
7242863 ATGCCTTGTTTGGTTATAATGTA
1 ATGCCTTGTTTGGTTATAATGTA
7242886 ATGCCTTGTTTGGTTATAATGTA
1 ATGCCTTGTTTGGTTATAATGTA
7242909 AT
1 AT
7242911 AACATGAGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.23, C:0.08, G:0.21, T:0.48
Consensus pattern (23 bp):
ATGCCTTGTTTGGTTATAATGTA
Found at i:7245408 original size:18 final size:18
Alignment explanation
Indices: 7245385--7245421 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
7245375 TATTGTGATA
7245385 TATGCCTAAACGAGGATG
1 TATGCCTAAACGAGGATG
7245403 TATGCCTAAACGAGGATG
1 TATGCCTAAACGAGGATG
7245421 T
1 T
7245422 GGTTGCTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.24
Consensus pattern (18 bp):
TATGCCTAAACGAGGATG
Found at i:7247379 original size:17 final size:18
Alignment explanation
Indices: 7247359--7247393 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
7247349 CTAATTGCTA
7247359 TAAGTGTAT-AATATATT
1 TAAGTGTATAAATATATT
7247376 TAAGTGTATAAATATATT
1 TAAGTGTATAAATATATT
7247394 GACTTGTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (18 bp):
TAAGTGTATAAATATATT
Found at i:7261736 original size:27 final size:27
Alignment explanation
Indices: 7261693--7261798 Score: 149
Period size: 27 Copynumber: 3.9 Consensus size: 27
7261683 TAAACATATA
7261693 GTCATTTTATAACATAGGGGTATAACC
1 GTCATTTTATAACATAGGGGTATAACC
** *
7261720 GTTTTTTTATAATATAGGGGTATAACC
1 GTCATTTTATAACATAGGGGTATAACC
* *
7261747 GTCATTTTATAACATAGGGGCATAACT
1 GTCATTTTATAACATAGGGGTATAACC
* *
7261774 GTCATTTTATTACATAGGGGCATAA
1 GTCATTTTATAACATAGGGGTATAA
7261799 TAGTTATTTT
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 70 1.00
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.37
Consensus pattern (27 bp):
GTCATTTTATAACATAGGGGTATAACC
Found at i:7261782 original size:54 final size:54
Alignment explanation
Indices: 7261692--7261841 Score: 151
Period size: 54 Copynumber: 2.8 Consensus size: 54
7261682 TTAAACATAT
* * ** *
7261692 AGTCATTTTATAACATAGGGGTATAACCGTTTTTTTATAATATAGGGGTATAAC
1 AGTCATTTTATAACATAGGGGCATAACAGTCATTTTATAATATAGGGGCATAAC
* * * * *
7261746 CGTCATTTTATAACATAGGGGCATAACTGTCATTTTATTACATAGGGGCATAAT
1 AGTCATTTTATAACATAGGGGCATAACAGTCATTTTATAATATAGGGGCATAAC
* * *
7261800 AGTTA-TTT-TACCATATGAGGGCGTAACAGTCATTTTATAATA
1 AGTCATTTTATAACATA-G-GGGCATAACAGTCATTTTATAATA
7261842 GTTTGGGGGT
Statistics
Matches: 78, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
52 6 0.08
53 4 0.05
54 68 0.87
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (54 bp):
AGTCATTTTATAACATAGGGGCATAACAGTCATTTTATAATATAGGGGCATAAC
Found at i:7261807 original size:27 final size:27
Alignment explanation
Indices: 7261690--7261839 Score: 126
Period size: 27 Copynumber: 5.6 Consensus size: 27
7261680 CATTAAACAT
*
7261690 ATAGTCATTTTATAACATAGGGGTATA
1 ATAGTCATTTTATAACATAGGGGCATA
** ** * *
7261717 ACCGTTTTTTTATAATATAGGGGTATA
1 ATAGTCATTTTATAACATAGGGGCATA
**
7261744 ACCGTCATTTTATAACATAGGGGCATA
1 ATAGTCATTTTATAACATAGGGGCATA
*
7261771 ACT-GTCATTTTATTACATAGGGGCATA
1 A-TAGTCATTTTATAACATAGGGGCATA
* * *
7261798 ATAGTTA-TTT-TACCATATGAGGGCGTA
1 ATAGTCATTTTATAACATA-G-GGGCATA
*
7261825 ACAGTCATTTTATAA
1 ATAGTCATTTTATAA
7261840 TAGTTTGGGG
Statistics
Matches: 99, Mismatches: 18, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
25 5 0.05
26 5 0.05
27 84 0.85
28 3 0.03
29 2 0.02
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (27 bp):
ATAGTCATTTTATAACATAGGGGCATA
Found at i:7270086 original size:24 final size:24
Alignment explanation
Indices: 7270037--7270089 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
7270027 CAATTAGTAT
*
7270037 AAATATATTTTTTTGATATTATAA
1 AAATATATTTTTATGATATTATAA
7270061 AAATATATTATTTAATGA-ATTA-AA
1 AAATATATT-TTT-ATGATATTATAA
7270085 AAATA
1 AAATA
7270090 AATACTTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
24 16 0.62
25 7 0.27
26 3 0.12
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (24 bp):
AAATATATTTTTATGATATTATAA
Found at i:7275152 original size:18 final size:17
Alignment explanation
Indices: 7275125--7275158 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
7275115 AAAGAATCAG
*
7275125 TATTTCAACATAATAAAT
1 TATTTAAACAT-ATAAAT
7275143 TATTTAAACATATAAA
1 TATTTAAACATATAAA
7275159 CAATCGACTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (17 bp):
TATTTAAACATATAAAT
Found at i:7276156 original size:22 final size:22
Alignment explanation
Indices: 7276128--7276194 Score: 79
Period size: 22 Copynumber: 3.1 Consensus size: 22
7276118 AAAATTCAAA
7276128 AAAAATTATAAAAATTATTTTT
1 AAAAATTATAAAAATTATTTTT
7276150 AAAAATTACT-AAAATTA--TTT
1 AAAAATTA-TAAAAATTATTTTT
7276170 AAAAA-TATAAAAATATATCTTTT
1 AAAAATTATAAAAAT-TAT-TTTT
7276193 AA
1 AA
7276195 TATTTTTAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
18 1 0.03
19 7 0.18
20 10 0.26
22 15 0.38
23 6 0.15
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (22 bp):
AAAAATTATAAAAATTATTTTT
Found at i:7276968 original size:20 final size:20
Alignment explanation
Indices: 7276943--7276988 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
7276933 TTTCATTGCC
*
7276943 AGGTTAATTTGATGATTAGG
1 AGGTTAATTTGATGACTAGG
7276963 AGGTTAATTTGATGACTAGG
1 AGGTTAATTTGATGACTAGG
7276983 AGGTTA
1 AGGTTA
7276989 TGATGCAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.30, C:0.02, G:0.30, T:0.37
Consensus pattern (20 bp):
AGGTTAATTTGATGACTAGG
Found at i:7277327 original size:22 final size:22
Alignment explanation
Indices: 7277302--7277352 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
7277292 TTTAAAAAGT
7277302 TTAAAAATTGTTCTAAATTACA-
1 TTAAAAATTGTTCTAAATTA-AG
* *
7277324 TTAAAAATTGTTTTAAGTTAAG
1 TTAAAAATTGTTCTAAATTAAG
7277346 TTAAAAA
1 TTAAAAA
7277353 AAGTTTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 1 0.04
22 25 0.96
ACGTcount: A:0.47, C:0.04, G:0.08, T:0.41
Consensus pattern (22 bp):
TTAAAAATTGTTCTAAATTAAG
Found at i:7284212 original size:20 final size:18
Alignment explanation
Indices: 7284165--7284213 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
7284155 CAAGATAAAC
7284165 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
7284182 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
7284202 ATTAAATTAATA
1 ATTAAATTAATA
7284214 AAAGACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:7290339 original size:19 final size:19
Alignment explanation
Indices: 7290315--7290354 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
7290305 ATTTTTTAAT
7290315 TAATAATTATAATTAAATA
1 TAATAATTATAATTAAATA
**
7290334 TAATAATTATTTTTAAATA
1 TAATAATTATAATTAAATA
7290353 TA
1 TA
7290355 CATTTTACAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
TAATAATTATAATTAAATA
Found at i:7300586 original size:20 final size:20
Alignment explanation
Indices: 7300563--7300659 Score: 65
Period size: 20 Copynumber: 4.5 Consensus size: 20
7300553 TGAAATTTTA
7300563 TTTTATATTTTT-AAAATCAT
1 TTTTATATTTTTAAAAAT-AT
*
7300583 TTTTAT-TTTTTGAATTTTAAAGAGT
1 TTTTATATTTTT-AA----AAATA-T
* *
7300608 TTTTATATTTTTCATAATTAT
1 TTTTATATTTTT-AAAAATAT
7300629 TTTTAT-TTTTTAAAAAATAT
1 TTTTATATTTTT-AAAAATAT
7300649 TTTTATATTTT
1 TTTTATATTTT
7300660 ATTTAAAATA
Statistics
Matches: 60, Mismatches: 8, Indels: 17
0.71 0.09 0.20
Matches are distributed among these distances:
19 5 0.08
20 23 0.38
21 12 0.20
22 3 0.05
24 1 0.02
25 10 0.17
26 6 0.10
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.64
Consensus pattern (20 bp):
TTTTATATTTTTAAAAATAT
Found at i:7300632 original size:21 final size:21
Alignment explanation
Indices: 7300607--7300659 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
7300597 TTTTAAAGAG
* * *
7300607 TTTTTATATTTTTCATAATTA
1 TTTTTATATTTTTAAAAAATA
7300628 TTTTTAT-TTTTTAAAAAATA
1 TTTTTATATTTTTAAAAAATA
7300648 TTTTTATATTTT
1 TTTTTATATTTT
7300660 ATTTAAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (21 bp):
TTTTTATATTTTTAAAAAATA
Found at i:7303538 original size:28 final size:29
Alignment explanation
Indices: 7303480--7303542 Score: 85
Period size: 28 Copynumber: 2.2 Consensus size: 29
7303470 CCTGCCCAAA
7303480 TATATTATGTTATAAAAATATTATATTAAT
1 TATA-TATGTTATAAAAATATTATATTAAT
*
7303510 TATATATGTTA-AATAATAATTATA-TAAT
1 TATATATGTTATAAAAAT-ATTATATTAAT
7303538 TATAT
1 TATAT
7303543 TTATATTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 14 0.45
29 13 0.42
30 4 0.13
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (29 bp):
TATATATGTTATAAAAATATTATATTAAT
Found at i:7305805 original size:16 final size:16
Alignment explanation
Indices: 7305786--7305816 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7305776 AATTCAAATA
7305786 TATTTAAATTAAATTT
1 TATTTAAATTAAATTT
*
7305802 TATTTAGATTAAATT
1 TATTTAAATTAAATT
7305817 ATGATTTCGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
TATTTAAATTAAATTT
Found at i:7306376 original size:21 final size:21
Alignment explanation
Indices: 7306347--7306387 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
7306337 TAAAAATATA
*
7306347 TTATTTTAT-ATTAATATTTAT
1 TTATCTTATAATTAA-ATTTAT
7306368 TTATCTTATAATTAAATTTA
1 TTATCTTATAATTAAATTTA
7306388 AAAGAAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (21 bp):
TTATCTTATAATTAAATTTAT
Found at i:7311014 original size:2 final size:2
Alignment explanation
Indices: 7311007--7311032 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7310997 AAACTTTCCA
7311007 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
7311033 GTACTCCGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7311670 original size:79 final size:79
Alignment explanation
Indices: 7311574--7311732 Score: 209
Period size: 79 Copynumber: 2.0 Consensus size: 79
7311564 TATGTGATGT
7311574 ATTATTCCTATTTAAGTTGTGGAAA-TTAGTGT-TTTTTTCCCCTTTT-GTTTC-TTTTATTTCT
1 ATTATTCCTATTTAAGTTGTGGAAACTT-GT-TCTTTTTT--CCTTTTCGTTTCTTTTTATTTCT
7311635 AATTGATGGAGAGAATAA
62 AATTGATGGAGAGAATAA
* * * *
7311653 ATTATTCTTATTTAAGTTGTGGAAACTTGTTCTTTTTTTCTTTTCTTTTCTTTTTTCTTTCTAAT
1 ATTATTCCTATTTAAGTTGTGGAAACTTGTTCTTTTTTCCTTTTCGTTTC-TTTTTATTTCTAAT
7311718 TGATGGAGAGAATAA
65 TGATGGAGAGAATAA
7311733 TTTGGGAGGT
Statistics
Matches: 71, Mismatches: 4, Indels: 9
0.85 0.05 0.11
Matches are distributed among these distances:
77 5 0.07
78 5 0.07
79 32 0.45
80 29 0.41
ACGTcount: A:0.23, C:0.10, G:0.14, T:0.53
Consensus pattern (79 bp):
ATTATTCCTATTTAAGTTGTGGAAACTTGTTCTTTTTTCCTTTTCGTTTCTTTTTATTTCTAATT
GATGGAGAGAATAA
Found at i:7313527 original size:34 final size:34
Alignment explanation
Indices: 7313489--7313556 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
7313479 ACAGATAATC
*
7313489 TCAGTTTAGGCCTAAGCCCTTTTCAATATCAGTA
1 TCAGTTTAGGCCTAAGCCCATTTCAATATCAGTA
* *
7313523 TCAGTTTAGGCCTAAGTCCATTTCAGTATCAGTA
1 TCAGTTTAGGCCTAAGCCCATTTCAATATCAGTA
7313557 AGCATTAGAG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.35
Consensus pattern (34 bp):
TCAGTTTAGGCCTAAGCCCATTTCAATATCAGTA
Found at i:7315106 original size:38 final size:38
Alignment explanation
Indices: 7315057--7315129 Score: 119
Period size: 38 Copynumber: 1.9 Consensus size: 38
7315047 GATAACTCCA
* *
7315057 CAATCCTATATTCTCCTCCTAAAATTACTCCAACACTC
1 CAATCCCATATTCTCCTCCTAAAATCACTCCAACACTC
*
7315095 CAATCCCATATTTTCCTCCTAAAATCACTCCAACA
1 CAATCCCATATTCTCCTCCTAAAATCACTCCAACA
7315130 TTCCCCCACC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.33, C:0.37, G:0.00, T:0.30
Consensus pattern (38 bp):
CAATCCCATATTCTCCTCCTAAAATCACTCCAACACTC
Found at i:7318571 original size:23 final size:23
Alignment explanation
Indices: 7318541--7318590 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
7318531 ATACAAACTA
7318541 CAGAGAATATTCACTAGTCATGC
1 CAGAGAATATTCACTAGTCATGC
* *
7318564 CAGAGAATATTTACTATTCATGC
1 CAGAGAATATTCACTAGTCATGC
7318587 CAGA
1 CAGA
7318591 AAATCTTACT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (23 bp):
CAGAGAATATTCACTAGTCATGC
Found at i:7328006 original size:27 final size:27
Alignment explanation
Indices: 7327920--7328007 Score: 86
Period size: 27 Copynumber: 3.3 Consensus size: 27
7327910 ACTGTCCTAA
* * *
7327920 CAGACTACCCCGTGTTTATTATCCCAG
1 CAGACTACCTCGTGTTTATTGTACCAG
** **
7327947 TGGACTACCTCGTGTTTATTGTACTGG
1 CAGACTACCTCGTGTTTATTGTACCAG
* * *
7327974 CGGACTACCTCGTGTTTACTGTTCCAG
1 CAGACTACCTCGTGTTTATTGTACCAG
7328001 CAGACTA
1 CAGACTA
7328008 TATTGGTTTC
Statistics
Matches: 48, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.19, C:0.27, G:0.20, T:0.33
Consensus pattern (27 bp):
CAGACTACCTCGTGTTTATTGTACCAG
Found at i:7328903 original size:26 final size:26
Alignment explanation
Indices: 7328869--7328920 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
7328859 CATGCAGAAC
7328869 CCCTCAAAGGTTTTGTAAAATTTTAA
1 CCCTCAAAGGTTTTGTAAAATTTTAA
7328895 CCCTCAAAGGTTTTGTAAAATTTTAA
1 CCCTCAAAGGTTTTGTAAAATTTTAA
7328921 ATTTATATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (26 bp):
CCCTCAAAGGTTTTGTAAAATTTTAA
Found at i:7329177 original size:17 final size:17
Alignment explanation
Indices: 7329147--7329183 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
7329137 AAGTATAAAA
*
7329147 ATTAACTGAGTTAAAGT
1 ATTAACTGAATTAAAGT
*
7329164 ATTAATTGAATTAAAGT
1 ATTAACTGAATTAAAGT
7329181 ATT
1 ATT
7329184 GAATCACTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.43, C:0.03, G:0.14, T:0.41
Consensus pattern (17 bp):
ATTAACTGAATTAAAGT
Found at i:7333100 original size:21 final size:21
Alignment explanation
Indices: 7333076--7333115 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
7333066 ATGCTTGAGT
7333076 TATATA-GTTTTGGTCATGATA
1 TATATATGTTTTGG-CATGATA
7333097 TATATATGTTTTGGCATGA
1 TATATATGTTTTGGCATGA
7333116 AGTAATTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.28, C:0.05, G:0.20, T:0.47
Consensus pattern (21 bp):
TATATATGTTTTGGCATGATA
Found at i:7337800 original size:27 final size:27
Alignment explanation
Indices: 7337770--7337882 Score: 120
Period size: 27 Copynumber: 4.2 Consensus size: 27
7337760 GGGTATAACA
*
7337770 GTCATTTTACCCAATGGGGGTATGTT-G
1 GTCATTTTACCCTATGGGGGTAT-TTCG
* * *
7337797 GTCATTTTACCTTATAGAGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
7337824 GTCATTCTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * ** *
7337851 GTTATTTTACCATATGAAGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
7337878 GTCAT
1 GTCAT
7337883 AATAGTGTAA
Statistics
Matches: 70, Mismatches: 15, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
26 2 0.03
27 68 0.97
ACGTcount: A:0.20, C:0.15, G:0.23, T:0.42
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTATTTCG
Found at i:7337872 original size:54 final size:54
Alignment explanation
Indices: 7337770--7337882 Score: 149
Period size: 54 Copynumber: 2.1 Consensus size: 54
7337760 GGGTATAACA
* *
7337770 GTCATTTTACCCAATGGGGGTATGTTGGTCATTTTACCTTATAGAGGTATTTCG
1 GTCATTCTACCCAATGGGGGTATGTTGGTCATTTTACCATATAGAGGTATTTCG
* * *
7337824 GTCATTCTACCCTATGGGGGTAT-TTCGGTTATTTTACCATAT-GAAGGTATTTTG
1 GTCATTCTACCCAATGGGGGTATGTT-GGTCATTTTACCATATAG-AGGTATTTCG
7337878 GTCAT
1 GTCAT
7337883 AATAGTGTAA
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
53 3 0.06
54 49 0.94
ACGTcount: A:0.20, C:0.15, G:0.23, T:0.42
Consensus pattern (54 bp):
GTCATTCTACCCAATGGGGGTATGTTGGTCATTTTACCATATAGAGGTATTTCG
Found at i:7340070 original size:50 final size:50
Alignment explanation
Indices: 7340016--7340310 Score: 319
Period size: 50 Copynumber: 5.9 Consensus size: 50
7340006 TATTGAGATT
*
7340016 ATGAGAGGTCTCATGTAAGACCATGTCTGGGACATGGCGTTGGCATCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCATCGAG
*
7340066 ATGAGAGATCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCATCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCATCGAG
* * *
7340116 ATGAGAGGTCCCATGTAAGACCATGTCTTGGACATAGCGTTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCATCGAG
* * * * * * *
7340166 ATGAGAGGTCTCC-CGTAAGACCATGTATGGGACATGGCATGGGAACCGAT
1 ATGAGAGGTC-CCATGTAAGACCATGTCTGGGACATGGCGTTGGCATCGAG
** * * * * *
7340216 ATGAGAACTCCCATGTAAGACCATATCTGAGATATGACATTGGCAATAC-A-
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGC-AT-CGAG
* ** * *
7340266 A-GAAACATCCCACGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCAT
7340311 GTTATTATCA
Statistics
Matches: 207, Mismatches: 34, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
48 2 0.01
49 35 0.17
50 165 0.80
51 4 0.02
52 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.22
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCATCGAG
Found at i:7340529 original size:12 final size:12
Alignment explanation
Indices: 7340512--7340562 Score: 52
Period size: 12 Copynumber: 4.3 Consensus size: 12
7340502 ATAAGTTATT
7340512 TAAGTAAGCAAG
1 TAAGTAAGCAAG
*
7340524 TAAGTAAACAAG
1 TAAGTAAGCAAG
* *
7340536 TAAGTGAGTAAG
1 TAAGTAAGCAAG
7340548 TAAAG-AAG-AAG
1 T-AAGTAAGCAAG
7340559 TAAG
1 TAAG
7340563 AACTATGATA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
10 3 0.09
11 4 0.12
12 23 0.70
13 3 0.09
ACGTcount: A:0.53, C:0.04, G:0.25, T:0.18
Consensus pattern (12 bp):
TAAGTAAGCAAG
Found at i:7341796 original size:6 final size:6
Alignment explanation
Indices: 7341785--7341822 Score: 58
Period size: 6 Copynumber: 6.0 Consensus size: 6
7341775 CTGTCGTGAT
7341785 TTTTAG TTTTAG ACTTTTAG TTTTAG TTTTAG TTTTAG
1 TTTTAG TTTTAG --TTTTAG TTTTAG TTTTAG TTTTAG
7341823 GATTGTTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 24 0.80
8 6 0.20
ACGTcount: A:0.18, C:0.03, G:0.16, T:0.63
Consensus pattern (6 bp):
TTTTAG
Found at i:7341902 original size:15 final size:16
Alignment explanation
Indices: 7341882--7341918 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
7341872 GGTTAGGTAC
*
7341882 TTGGGTTTATA-TGTA
1 TTGGGTTTATATTGGA
7341897 TTGGGTTTATATTGGA
1 TTGGGTTTATATTGGA
7341913 TTGGGT
1 TTGGGT
7341919 ATGGGTGGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.16, C:0.00, G:0.32, T:0.51
Consensus pattern (16 bp):
TTGGGTTTATATTGGA
Found at i:7342363 original size:23 final size:24
Alignment explanation
Indices: 7342315--7342363 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 24
7342305 ATGCCTAGGG
* * *
7342315 CCCAACTAACCCTTAGCCCAATAC
1 CCCAACTAAACCTTAACCCAAAAC
7342339 CCCAACTAAACC-TAACCCAAAAC
1 CCCAACTAAACCTTAACCCAAAAC
7342362 CC
1 CC
7342364 AAATTACACC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 11 0.50
24 11 0.50
ACGTcount: A:0.39, C:0.47, G:0.02, T:0.12
Consensus pattern (24 bp):
CCCAACTAAACCTTAACCCAAAAC
Found at i:7343539 original size:21 final size:22
Alignment explanation
Indices: 7343514--7343565 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
7343504 AGAACAAGCT
7343514 TTTAGCGGCG-TTTTTAAGGCC
1 TTTAGCGGCGTTTTTTAAGGCC
7343535 TTTAGCGGCGTTTTTTAAGGCC
1 TTTAGCGGCGTTTTTTAAGGCC
7343557 TTTAGCGGC
1 TTTAGCGGC
7343566 ACTTTTTAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 10 0.33
22 20 0.67
ACGTcount: A:0.13, C:0.19, G:0.29, T:0.38
Consensus pattern (22 bp):
TTTAGCGGCGTTTTTTAAGGCC
Found at i:7343571 original size:22 final size:21
Alignment explanation
Indices: 7343514--7343573 Score: 84
Period size: 22 Copynumber: 2.8 Consensus size: 21
7343504 AGAACAAGCT
*
7343514 TTTAGCGGCGTTTTTAAGGCC
1 TTTAGCGGCCTTTTTAAGGCC
*
7343535 TTTAGCGGCGTTTTTTAAGGCC
1 TTTAGCGGC-CTTTTTAAGGCC
7343557 TTTAGCGGCACTTTTTA
1 TTTAGCGGC-CTTTTTA
7343574 GCGCCACTGA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
21 9 0.26
22 26 0.74
ACGTcount: A:0.15, C:0.18, G:0.25, T:0.42
Consensus pattern (21 bp):
TTTAGCGGCCTTTTTAAGGCC
Found at i:7343717 original size:42 final size:42
Alignment explanation
Indices: 7343661--7343828 Score: 237
Period size: 42 Copynumber: 4.0 Consensus size: 42
7343651 AGTGTTTACA
* *
7343661 AAAATAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTAG
1 AAAA-AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG
* *
7343704 AAAAAAACGCCGCTAAAGATTATGTTCTTTAGCGGCGCTTACA
1 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTA-G
* * **
7343747 AAAAAAACACCGCTAAAGATTATGTTCTTTAGCGGCGCCCAG
1 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG
*
7343789 AAAAAAACGCCGCTGAAGATCATGTTCTTTAGCGGCGCTT
1 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
7343829 TCTTCACAAA
Statistics
Matches: 111, Mismatches: 13, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
42 69 0.62
43 42 0.38
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (42 bp):
AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG
Found at i:7343772 original size:85 final size:86
Alignment explanation
Indices: 7343656--7343828 Score: 267
Period size: 85 Copynumber: 2.0 Consensus size: 86
7343646 TTTGCAGTGT
* * ***
7343656 TTACAAAAATAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTAGAAAAAAACGCCGCTAAA
1 TTACAAAAATAAACACCGCTAAAGATCATGTTCTTTAGCGGCGCCCAGAAAAAAACGCCGCTAAA
*
7343721 GATTATGTTCTTTAGCGGCGC
66 GATCATGTTCTTTAGCGGCGC
* *
7343742 TTACAAAAA-AAACACCGCTAAAGATTATGTTCTTTAGCGGCGCCCAGAAAAAAACGCCGCTGAA
1 TTACAAAAATAAACACCGCTAAAGATCATGTTCTTTAGCGGCGCCCAGAAAAAAACGCCGCTAAA
7343806 GATCATGTTCTTTAGCGGCGC
66 GATCATGTTCTTTAGCGGCGC
7343827 TT
1 TT
7343829 TCTTCACAAA
Statistics
Matches: 79, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
85 70 0.89
86 9 0.11
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.25
Consensus pattern (86 bp):
TTACAAAAATAAACACCGCTAAAGATCATGTTCTTTAGCGGCGCCCAGAAAAAAACGCCGCTAAA
GATCATGTTCTTTAGCGGCGC
Found at i:7344254 original size:21 final size:21
Alignment explanation
Indices: 7344230--7344278 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
7344220 TTTTTTTGAA
* *
7344230 CCTCTGCTTCTCTCGCTGTAG
1 CCTCTGCTTCCCTCGCTGCAG
*
7344251 CCTCTGCTTCCCTCGCTGCCG
1 CCTCTGCTTCCCTCGCTGCAG
7344272 CCTCTGC
1 CCTCTGC
7344279 ATTAAGTTGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.02, C:0.47, G:0.18, T:0.33
Consensus pattern (21 bp):
CCTCTGCTTCCCTCGCTGCAG
Found at i:7347985 original size:9 final size:9
Alignment explanation
Indices: 7347961--7348091 Score: 58
Period size: 9 Copynumber: 14.7 Consensus size: 9
7347951 TGTTCAGTTA
7347961 TAAGTATATG
1 TAAGT-TATG
*
7347971 TGAGTTATG
1 TAAGTTATG
7347980 TAAGTTATG
1 TAAGTTATG
* * *
7347989 ATATGATATA
1 -TAAGTTATG
*
7347999 T-ATTTATG
1 TAAGTTATG
*
7348007 T-A-TTACG
1 TAAGTTATG
* *
7348014 TAAATTACG
1 TAAGTTATG
*
7348023 TAAATTATG
1 TAAGTTATG
7348032 TAAGTTATG
1 TAAGTTATG
* *
7348041 TAAGTAATA
1 TAAGTTATG
7348050 T-A-TTATG
1 TAAGTTATG
*
7348057 TAAGTTGTG
1 TAAGTTATG
*
7348066 TATAATGTAAT-
1 --TAA-GTTATG
7348077 TAAGTTATG
1 TAAGTTATG
7348086 TAAGTT
1 TAAGTT
7348092 GTNNNNNNNN
Statistics
Matches: 92, Mismatches: 20, Indels: 19
0.70 0.15 0.15
Matches are distributed among these distances:
7 9 0.10
8 12 0.13
9 55 0.60
10 10 0.11
11 3 0.03
12 3 0.03
ACGTcount: A:0.37, C:0.02, G:0.18, T:0.44
Consensus pattern (9 bp):
TAAGTTATG
Found at i:7348054 original size:25 final size:25
Alignment explanation
Indices: 7348026--7348090 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 25
7348016 AATTACGTAA
7348026 ATTATGTAAGTTATGTAAGTAATAT
1 ATTATGTAAGTTATGTAAGTAATAT
* *
7348051 ATTATGTAAGTTGTGT-A-TAATGT
1 ATTATGTAAGTTATGTAAGTAATAT
7348074 A--AT-TAAGTTATGTAAGT
1 ATTATGTAAGTTATGTAAGT
7348091 TGTNNNNNNN
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
20 9 0.26
21 3 0.09
22 1 0.03
23 6 0.17
24 1 0.03
25 15 0.43
ACGTcount: A:0.37, C:0.00, G:0.18, T:0.45
Consensus pattern (25 bp):
ATTATGTAAGTTATGTAAGTAATAT
Found at i:7349749 original size:6 final size:6
Alignment explanation
Indices: 7349716--7349747 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
7349706 AGCAGAGAGC
*
7349716 GACGGT GACGGT GACGGT GACGGT GATGGT GA
1 GACGGT GACGGT GACGGT GACGGT GACGGT GA
7349748 TGCAATAGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.19, C:0.12, G:0.50, T:0.19
Consensus pattern (6 bp):
GACGGT
Found at i:7350656 original size:8 final size:8
Alignment explanation
Indices: 7350645--7350675 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
7350635 ATTATATCAA
7350645 TATATTTT
1 TATATTTT
7350653 TATATTTT
1 TATATTTT
7350661 TATATTTT
1 TATATTTT
7350669 TAT-TTTT
1 TATATTTT
7350676 AAGAAATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 4 0.17
8 19 0.83
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (8 bp):
TATATTTT
Found at i:7350918 original size:7 final size:7
Alignment explanation
Indices: 7350902--7350996 Score: 50
Period size: 7 Copynumber: 13.3 Consensus size: 7
7350892 AAACTTAAAT
7350902 TAAACCC
1 TAAACCC
*
7350909 TAAACTC
1 TAAACCC
7350916 TAAACCC
1 TAAACCC
***
7350923 TAAATTA
1 TAAACCC
7350930 TAAA--C
1 TAAACCC
7350935 TATAACCC
1 TA-AACCC
*
7350943 GTAAACCG
1 -TAAACCC
7350951 TAAACCC
1 TAAACCC
**
7350958 TAAACTA
1 TAAACCC
**
7350965 TAAACAA
1 TAAACCC
7350972 TAAACCC
1 TAAACCC
*
7350979 GTAAACCG
1 -TAAACCC
7350987 TAAACACC
1 TAAAC-CC
7350995 TA
1 TA
7350997 CCACCAAACC
Statistics
Matches: 67, Mismatches: 15, Indels: 11
0.72 0.16 0.12
Matches are distributed among these distances:
5 2 0.03
6 2 0.03
7 47 0.70
8 14 0.21
9 2 0.03
ACGTcount: A:0.47, C:0.28, G:0.04, T:0.20
Consensus pattern (7 bp):
TAAACCC
Found at i:7351132 original size:151 final size:150
Alignment explanation
Indices: 7350944--7351214 Score: 434
Period size: 151 Copynumber: 1.8 Consensus size: 150
7350934 CTATAACCCG
* *
7350944 TAAACCGTAAACCCTAAACTATAAACAATAAACCCGTAAACCGTAAACACCTACCACCAAACCTC
1 TAAACCGTAAACCCTAAACTATAAACAATAAACCCGTAAACCATAAACACCAACCACCAAACCTC
*
7351009 AAAATCCAACCCCCCAATATACCATAAACCTTAAACCATAAATCCCAAATCCTAAAAACTAACCC
66 AAAATCCAA-CCCCCAATATACCATAAACCTTAAACCATAAATCCCAAACCCTAAAAACTAACCC
7351074 TAAACCCTAAACTATAAATTA
130 TAAACCCTAAACTATAAATTA
* * * * *
7351095 TAAATCGTAAACCCTAAACTGTAAACATTAAGCCCGTAAACCATAAACACCAACCAGCAAACCTC
1 TAAACCGTAAACCCTAAACTATAAACAATAAACCCGTAAACCATAAACACCAACCACCAAACCTC
* * *
7351160 AAAATCTAACCCCCAATATACCATAAACCTTAAACCCTACATCCCAAACCCTAAA
66 AAAATCCAACCCCCAATATACCATAAACCTTAAACCATAAATCCCAAACCCTAAA
7351215 CTCTAAATTG
Statistics
Matches: 109, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
150 43 0.39
151 66 0.61
ACGTcount: A:0.46, C:0.33, G:0.03, T:0.18
Consensus pattern (150 bp):
TAAACCGTAAACCCTAAACTATAAACAATAAACCCGTAAACCATAAACACCAACCACCAAACCTC
AAAATCCAACCCCCAATATACCATAAACCTTAAACCATAAATCCCAAACCCTAAAAACTAACCCT
AAACCCTAAACTATAAATTA
Found at i:7351773 original size:72 final size:72
Alignment explanation
Indices: 7351656--7352155 Score: 542
Period size: 72 Copynumber: 6.9 Consensus size: 72
7351646 TTTTCAAGAA
* * * * *
7351656 AAGCGCCACTAATACCACTGCATCTCAAATCAAAACGATGCGTTTTGATTATTTTTTGTGGCGGT
1 AAGCGCCGCTAATGCCACTACATCTCAAATCAAAACGATGCGTTTTGGTTATTTTTTGTGGCGCT
7351721 TTTACAG
66 TTTACAG
* *
7351728 AAGCGCCGCTAATGCCACTACATCTGAAACCAAAACGATGCGTTTTGGGTT-TTTTTTGGTGGCG
1 AAGCGCCGCTAATGCCACTACATCTCAAATCAAAACGATGCGTTTT-GGTTATTTTTT-GTGGCG
7351792 CTTTTACAG
64 CTTTTACAG
* * *
7351801 AAGCGCCGCTGATGCCACTACATCTCATATCAAAACGATGCGTTTTGGTTTGTTTTTTGTGGCGC
1 AAGCGCCGCTAATGCCACTACATCTCAAATCAAAACGATGCGTTTTGG-TTATTTTTTGTGGCGC
*
7351866 TTATACAG
65 TTTTACAG
* * * * **
7351874 AAGCGCCGCTAATGCCATTACATCTGAAATCAAAAAGATGTGTTTTGGTTATTCCTTGCT-GCGC
1 AAGCGCCGCTAATGCCACTACATCTCAAATCAAAACGATGCGTTTTGGTTATTTTTTG-TGGCGC
**
7351938 TTTTATGG
65 TTTTACAG
* * * * **
7351946 AAGCGCCGCTAATGCAACTACATCCCAAATCAAAACGATGTGTTTTGATTATTTTTTGCT-ATGC
1 AAGCGCCGCTAATGCCACTACATCTCAAATCAAAACGATGCGTTTTGGTTATTTTTTG-TGGCGC
***
7352010 TTTTGTGG
65 TTTTACAG
* * * * * * *
7352018 AATCGCCGCTAACGCCACAACATCTCAAATCAAAACGAAGCGTTTGGGTTATTTTTTTGCGGCGT
1 AAGCGCCGCTAATGCCACTACATCTCAAATCAAAACGATGCGTTTTGGTTA-TTTTTTGTGGCGC
*
7352083 TTTTACGG
65 TTTTACAG
* * * * *
7352091 AATCGCCACTAATGCCACTACATCTCAAATCAAAACGACGCG-TTTGG-GATTTTTTGCGGCGCT
1 AAGCGCCGCTAATGCCACTACATCTCAAATCAAAACGATGCGTTTTGGTTATTTTTTGTGGCGCT
7352154 TT
66 TT
7352156 ATCGAAAACG
Statistics
Matches: 364, Mismatches: 57, Indels: 16
0.83 0.13 0.04
Matches are distributed among these distances:
70 15 0.04
71 1 0.00
72 172 0.47
73 170 0.47
74 6 0.02
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (72 bp):
AAGCGCCGCTAATGCCACTACATCTCAAATCAAAACGATGCGTTTTGGTTATTTTTTGTGGCGCT
TTTACAG
Found at i:7351949 original size:145 final size:144
Alignment explanation
Indices: 7351656--7352135 Score: 568
Period size: 145 Copynumber: 3.3 Consensus size: 144
7351646 TTTTCAAGAA
* * *
7351656 AAGCGCCACTAATACCACTGCATCTCAAATCAAAACGATGCGTTTTGATTATTTTTTGTGGCGGT
1 AAGCGCCACTAATGCCACTACATCTCAAATCAAAACGATGCGTTTTGATTATTTTTTGTGGCGCT
*
7351721 TTTACAGAAGCGCCGCTAATGCCACTACATCTGAAACCAAAACGATGCGTTTTGGGTT-TTTTTT
66 TTTACAGAAGCGCCGCTAATGCCACTACATCTGAAATCAAAACGATGCGTTTT-GGTTATTTTTT
* *
7351785 GGTGGCGCTTTTACAG
130 GCT-GCGCTTTTACGG
* * * * *
7351801 AAGCGCCGCTGATGCCACTACATCTCATATCAAAACGATGCGTTTTGGTTTGTTTTTTGTGGCGC
1 AAGCGCCACTAATGCCACTACATCTCAAATCAAAACGATGCGTTTT-GATTATTTTTTGTGGCGC
* * * * **
7351866 TTATACAGAAGCGCCGCTAATGCCATTACATCTGAAATCAAAAAGATGTGTTTTGGTTATTCCTT
65 TTTTACAGAAGCGCCGCTAATGCCACTACATCTGAAATCAAAACGATGCGTTTTGGTTATTTTTT
*
7351931 GCTGCGCTTTTATGG
130 GCTGCGCTTTTACGG
* * * * **
7351946 AAGCGCCGCTAATGCAACTACATCCCAAATCAAAACGATGTGTTTTGATTATTTTTTGCT-ATGC
1 AAGCGCCACTAATGCCACTACATCTCAAATCAAAACGATGCGTTTTGATTATTTTTTG-TGGCGC
*** * * * * * *
7352010 TTTTGTGGAATCGCCGCTAACGCCACAACATCTCAAATCAAAACGAAGCGTTTGGGTTATTTTTT
65 TTTTACAGAAGCGCCGCTAATGCCACTACATCTGAAATCAAAACGATGCGTTTTGGTTA-TTTTT
* *
7352075 TGCGGCGTTTTTACGG
129 TGCTGCGCTTTTACGG
* *
7352091 AATCGCCACTAATGCCACTACATCTCAAATCAAAACGACGCGTTT
1 AAGCGCCACTAATGCCACTACATCTCAAATCAAAACGATGCGTTT
7352136 GGGATTTTTT
Statistics
Matches: 280, Mismatches: 51, Indels: 8
0.83 0.15 0.02
Matches are distributed among these distances:
144 58 0.21
145 152 0.54
146 70 0.25
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (144 bp):
AAGCGCCACTAATGCCACTACATCTCAAATCAAAACGATGCGTTTTGATTATTTTTTGTGGCGCT
TTTACAGAAGCGCCGCTAATGCCACTACATCTGAAATCAAAACGATGCGTTTTGGTTATTTTTTG
CTGCGCTTTTACGG
Found at i:7352723 original size:20 final size:20
Alignment explanation
Indices: 7352700--7352737 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
7352690 ATATAAACAC
7352700 TTTCATATATTT-TATATATA
1 TTTCATA-ATTTCTATATATA
7352720 TTTCATAATTTCTATATA
1 TTTCATAATTTCTATATA
7352738 CATATATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.34, C:0.08, G:0.00, T:0.58
Consensus pattern (20 bp):
TTTCATAATTTCTATATATA
Found at i:7353929 original size:16 final size:16
Alignment explanation
Indices: 7353908--7353964 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
7353898 TTTGGTTCGC
*
7353908 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
7353924 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
7353940 TGTAATGGAATAGAGG
1 TGTAATGGATTAGAGG
7353956 TGTAATGGA
1 TGTAATGGA
7353965 AAAGCTGTGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.30, C:0.00, G:0.37, T:0.33
Consensus pattern (16 bp):
TGTAATGGATTAGAGG
Found at i:7354233 original size:18 final size:17
Alignment explanation
Indices: 7354211--7354245 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
7354201 TTATTATTAA
*
7354211 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
7354229 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
7354246 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:7354241 original size:28 final size:28
Alignment explanation
Indices: 7354170--7354241 Score: 65
Period size: 28 Copynumber: 2.6 Consensus size: 28
7354160 TATTATCAAT
* *
7354170 AATAAATAATTTAATCATATTTAAAACAT
1 AATATATAATTTAAT-ATATTTAAAACAA
* * * **
7354199 AAT-TATTATTAAATATATTTTAATTAA
1 AATATATAATTTAATATATTTAAAACAA
7354226 AATATATAATTTAATA
1 AATATATAATTTAATA
7354242 AAATTCTTAA
Statistics
Matches: 33, Mismatches: 9, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
27 12 0.36
28 18 0.55
29 3 0.09
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (28 bp):
AATATATAATTTAATATATTTAAAACAA
Found at i:7354360 original size:16 final size:16
Alignment explanation
Indices: 7354323--7354364 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
7354313 TTAATCATAT
*
7354323 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
7354339 TT-AAATATATTATAA
1 TTAAAATATATTATAA
7354354 TTAAAATATAT
1 TTAAAATATAT
7354365 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:7354371 original size:14 final size:15
Alignment explanation
Indices: 7354332--7354373 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
7354322 TTTAAACATA
*
7354332 ATTATTATTAAATAT
1 ATTATAATTAAATAT
7354347 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
7354361 A-TATAATTTAATA
1 ATTATAATTAAATA
7354374 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:7354371 original size:132 final size:135
Alignment explanation
Indices: 7354138--7354389 Score: 456
Period size: 132 Copynumber: 1.9 Consensus size: 135
7354128 TGTTATTGTT
7354138 ATTTAAATTTTAATAAGATTATTATTATCAATAATAAATAATTTAATCATATTTAAAACATAATT
1 ATTTAAATTTTAATAAGATTA-TATTATCAATAATAAATAATTTAATCATATTTAAAACATAATT
* *
7354203 ATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCATAAATTT
65 ATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAAAAATTAGCATAAATTT
7354268 GTTTTG
130 GTTTTG
7354274 ATTTAAATTTTAATAAGATTA-A-TATCAATAATAAATAATTTAATCATATTT-AAACATAATTA
1 ATTTAAATTTTAATAAGATTATATTATCAATAATAAATAATTTAATCATATTTAAAACATAATTA
7354336 TTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAAAAATTA
66 TTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAAAAATTA
7354390 ATATTCTTAT
Statistics
Matches: 114, Mismatches: 2, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
132 63 0.55
133 29 0.25
134 1 0.01
136 21 0.18
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.45
Consensus pattern (135 bp):
ATTTAAATTTTAATAAGATTATATTATCAATAATAAATAATTTAATCATATTTAAAACATAATTA
TTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAAAAATTAGCATAAATTTG
TTTTG
Found at i:7354455 original size:120 final size:120
Alignment explanation
Indices: 7354329--7354617 Score: 453
Period size: 120 Copynumber: 2.4 Consensus size: 120
7354319 ATATTTAAAC
*
7354329 ATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAA-AAATTAATA
1 ATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAA-TAAAA
* *
7354393 TTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAA-TT-AA
65 TTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGA-AAATTTCAA
7354448 TATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAATAAAA
1 -ATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAATAAAA
*
7354513 TTCTTCTATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAAATTTCAA
65 TTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAAATTTCAA
* *
7354569 ATAATTAATATTAAATATGATT-TAATT-AAATATATGATTTAATAAAATT
1 ATAATTATTATTAAATAT-ATTATAATTAAAATATATAATTTAATAAAATT
7354618 TAAAATTATT
Statistics
Matches: 159, Mismatches: 6, Indels: 9
0.91 0.03 0.05
Matches are distributed among these distances:
119 24 0.15
120 127 0.80
121 8 0.05
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.42
Consensus pattern (120 bp):
ATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAATAAAAT
TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAAATTTCAA
Found at i:7354467 original size:16 final size:17
Alignment explanation
Indices: 7354446--7354483 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
7354436 AATATAAATT
*
7354446 AATATAATTATTATT-A
1 AATATAATTATAATTAA
7354462 AATAT-ATTATAATTAA
1 AATATAATTATAATTAA
7354478 AATATA
1 AATATA
7354484 TAATTTAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
AATATAATTATAATTAA
Found at i:7354491 original size:14 final size:15
Alignment explanation
Indices: 7354442--7354493 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
7354432 GTAAAATATA
7354442 AATT-AATATAATTAT
1 AATTAAATAT-ATTAT
*
7354457 TATTAAATATATTAT
1 AATTAAATATATTAT
7354472 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
7354485 AATTTAATA
1 AATTAAATA
7354494 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 4 0.12
15 14 0.44
16 5 0.16
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:7354492 original size:44 final size:43
Alignment explanation
Indices: 7354419--7354509 Score: 112
Period size: 44 Copynumber: 2.1 Consensus size: 43
7354409 CTCAAATCAT
* * *
7354419 AATATATGATACTGTAAAATATAAATTAATATAATTATTATTA
1 AATATATGATAATGTAAAATATAAATTAATAAAATTATTAATA
* *
7354462 AATATATTATAAT-TAAAATATATAATTTAATAAAATTCTTAATA
1 AATATATGATAATGTAAAATATA-AA-TTAATAAAATTATTAATA
7354506 AATA
1 AATA
7354510 AAATTCTTCT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
42 9 0.22
43 13 0.32
44 19 0.46
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (43 bp):
AATATATGATAATGTAAAATATAAATTAATAAAATTATTAATA
Found at i:7354544 original size:59 final size:59
Alignment explanation
Indices: 7354361--7354544 Score: 144
Period size: 60 Copynumber: 3.1 Consensus size: 59
7354351 TAATTAAAAT
*
7354361 ATATAATTTAATAAAATTCTTAA-AAATTAATATTCTTATATGAATTTACTCAAATCATA
1 ATATAATTTAATAAAATTCTTAATAAA-TAAAATTCTTATATGAATTTACTCAAATCATA
* * * * * * * * * * * *
7354420 ATAT-ATGATACTGTAAAA-TATAAATTAATATAATTATTAT-TAAATATA-TTATAATTAAAA
1 ATATAAT-TTA--ATAAAATTCTTAATAAATAAAATTCTTATATGAATTTACTCA-AA-TCATA
*
7354480 TATATAATTTAATAAAATTCTTAATAAATAAAATTCTTCTATGAATTTACTCAAATCATA
1 -ATATAATTTAATAAAATTCTTAATAAATAAAATTCTTATATGAATTTACTCAAATCATA
7354540 ATATA
1 ATATA
7354545 TGATACTATA
Statistics
Matches: 88, Mismatches: 26, Indels: 22
0.65 0.19 0.16
Matches are distributed among these distances:
58 4 0.05
59 24 0.27
60 35 0.40
61 21 0.24
62 4 0.05
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.42
Consensus pattern (59 bp):
ATATAATTTAATAAAATTCTTAATAAATAAAATTCTTATATGAATTTACTCAAATCATA
Found at i:7354598 original size:15 final size:15
Alignment explanation
Indices: 7354578--7354616 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
7354568 AATAATTAAT
7354578 ATTAAATATGATTTA
1 ATTAAATATGATTTA
7354593 ATTAAATATATGATTTA
1 ATT-AA-ATATGATTTA
*
7354610 ATAAAAT
1 ATTAAAT
7354617 TTAAAATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 5 0.24
16 4 0.19
17 12 0.57
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (15 bp):
ATTAAATATGATTTA
Found at i:7354603 original size:17 final size:17
Alignment explanation
Indices: 7354583--7354616 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
7354573 TTAATATTAA
*
7354583 ATATGATTTAATTAAAT
1 ATATGATTTAATAAAAT
7354600 ATATGATTTAATAAAAT
1 ATATGATTTAATAAAAT
7354617 TTAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
ATATGATTTAATAAAAT
Found at i:7354759 original size:93 final size:92
Alignment explanation
Indices: 7354649--7354843 Score: 270
Period size: 93 Copynumber: 2.1 Consensus size: 92
7354639 GATTATAGTT
* * *
7354649 TATGAATTTGTATAATTTAAAATAA-TAATTATTACATATAATT-TAATCA-TAATATATAATTT
1 TATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTAT-AT-AGTAATATATAATTT
* *
7354711 CATAAAATTCTCGATAATAAAAATTTTCTTA
63 CATAAAATTCTCAATAAT-AAAATGTTCTTA
*
7354742 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAGTGATATATAATTTCAT
1 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAGTAATATATAATTTCAT
*
7354807 AAAATTCTTAATAATAAAATGTTCTTA
66 AAAATTCTCAATAATAAAATGTTCTTA
7354834 TATGAATTTA
1 TATGAATTTA
7354844 CTAAAATCAA
Statistics
Matches: 92, Mismatches: 7, Indels: 7
0.87 0.07 0.07
Matches are distributed among these distances:
92 22 0.24
93 66 0.72
94 4 0.04
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.44
Consensus pattern (92 bp):
TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAGTAATATATAATTTCAT
AAAATTCTCAATAATAAAATGTTCTTA
Found at i:7368927 original size:20 final size:20
Alignment explanation
Indices: 7368899--7368936 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
7368889 TTTTGCATGC
*
7368899 ATAGTAAAATTGTGACAAGT
1 ATAGCAAAATTGTGACAAGT
7368919 ATAGCAAAATTGTGACAA
1 ATAGCAAAATTGTGACAA
7368937 ACAAATATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.08, G:0.18, T:0.26
Consensus pattern (20 bp):
ATAGCAAAATTGTGACAAGT
Found at i:7373361 original size:13 final size:14
Alignment explanation
Indices: 7373332--7373374 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
7373322 ATTTATAAAA
7373332 AAAATAATTTTAC-T
1 AAAATAA-TTTACTT
*
7373346 AAAAT-ATTTAGTT
1 AAAATAATTTACTT
7373359 AAAATAATTTACTT
1 AAAATAATTTACTT
7373373 AA
1 AA
7373375 TAAGTTTGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 4 0.16
13 7 0.28
14 14 0.56
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (14 bp):
AAAATAATTTACTT
Found at i:7374350 original size:2 final size:2
Alignment explanation
Indices: 7374343--7374376 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
7374333 AAATTAAAGC
7374343 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7374377 TAAATCTTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7380819 original size:22 final size:22
Alignment explanation
Indices: 7380788--7380904 Score: 81
Period size: 22 Copynumber: 5.6 Consensus size: 22
7380778 AAGCTTGCTA
7380788 GGCACAAAGCCTGAATAACACT
1 GGCACAAAGCCTGAATAACACT
* *
7380810 GGTACAAAGCCTG-CT---A--
1 GGCACAAAGCCTGAATAACACT
7380826 GG-AGCAAAGCCTGAATAACA-T
1 GGCA-CAAAGCCTGAATAACACT
*
7380847 CGGCACAAAG-CTAGAATAACACC
1 -GGCACAAAGCCT-GAATAACACT
* *
7380870 GGCACAAAGCCTGATTAACACC
1 GGCACAAAGCCTGAATAACACT
* *
7380892 AGCACGAAGCCTG
1 GGCACAAAGCCTG
7380905 CTAGGCACAA
Statistics
Matches: 77, Mismatches: 7, Indels: 22
0.73 0.07 0.21
Matches are distributed among these distances:
15 1 0.01
16 11 0.14
17 1 0.01
18 1 0.01
20 1 0.01
21 3 0.04
22 56 0.73
23 3 0.04
ACGTcount: A:0.38, C:0.27, G:0.21, T:0.13
Consensus pattern (22 bp):
GGCACAAAGCCTGAATAACACT
Found at i:7380825 original size:38 final size:38
Alignment explanation
Indices: 7380764--7380924 Score: 132
Period size: 38 Copynumber: 4.1 Consensus size: 38
7380754 GTTAACTTTT
* * *
7380764 AATAA-ACCGGCACTAAGCTTGCTAGGCACAAAGCCTG
1 AATAACACTGGCACAAAGCCTGCTAGGCACAAAGCCTG
*
7380801 AATAACACTGGTACAAAGCCTGCTAGG-AGCAAAGCCTG
1 AATAACACTGGCACAAAGCCTGCTAGGCA-CAAAGCCTG
*
7380839 AATAACA-TCGGCACAAAG-CTAGAATAACACCGGCACAAAGCCTG
1 AATAACACT-GGCACAAAGCCT-G-CT---A--GGCACAAAGCCTG
* ** *
7380883 ATTAACACCAGCACGAAGCCTGCTAGGCACAAAGCCTG
1 AATAACACTGGCACAAAGCCTGCTAGGCACAAAGCCTG
7380921 AATA
1 AATA
7380925 GCAATATAAT
Statistics
Matches: 99, Mismatches: 12, Indels: 25
0.73 0.09 0.18
Matches are distributed among these distances:
37 9 0.09
38 58 0.59
39 1 0.01
40 1 0.01
42 1 0.01
43 1 0.01
44 25 0.25
45 3 0.03
ACGTcount: A:0.39, C:0.27, G:0.20, T:0.14
Consensus pattern (38 bp):
AATAACACTGGCACAAAGCCTGCTAGGCACAAAGCCTG
Found at i:7388932 original size:50 final size:51
Alignment explanation
Indices: 7388842--7388937 Score: 122
Period size: 50 Copynumber: 1.9 Consensus size: 51
7388832 GCGTGACTTC
* * *
7388842 ATTTAAGATGCAAACTTTAACTATCATGAGGGTTACATAATGCATGTCATA
1 ATTTAAGATGCAAACTTTAACTAACATGAGAGTTACATAATACATGTCATA
* * **
7388893 ATTTATGATGCAATC-TTAACTAACATGAGAGTTTTATAATACATG
1 ATTTAAGATGCAAACTTTAACTAACATGAGAGTTACATAATACATG
7388938 ACTTTATAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
50 25 0.66
51 13 0.34
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (51 bp):
ATTTAAGATGCAAACTTTAACTAACATGAGAGTTACATAATACATGTCATA
Done.