Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 24 of 199
Found at i:7835364 original size:20 final size:20
Alignment explanation
Indices: 7835339--7835395 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
7835329 GATACAAGGT
*
7835339 AAGGTATTGATACTTTGT-A
1 AAGGTATTGATACTTTATGA
**
7835358 GAAGGTACCGATACTTTATGA
1 -AAGGTATTGATACTTTATGA
7835379 AAGGTATTGATATCTTT
1 AAGGTATTGATA-CTTT
7835396 TATTTTTGTT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
20 25 0.83
21 5 0.17
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.39
Consensus pattern (20 bp):
AAGGTATTGATACTTTATGA
Found at i:7835861 original size:24 final size:24
Alignment explanation
Indices: 7835831--7835901 Score: 69
Period size: 24 Copynumber: 3.1 Consensus size: 24
7835821 ATAAAAAAAT
7835831 TACAAAAATTATTAAATATTGTCA
1 TACAAAAATTATTAAATATTGTCA
* * *
7835855 TACAAAAATTTATAAAAAAAT-T--
1 TACAAAAA-TTATTAAATATTGTCA
*
7835877 TAC-AAAATAATTAAATATTGTCA
1 TACAAAAATTATTAAATATTGTCA
7835900 TA
1 TA
7835902 TCGTCACGTG
Statistics
Matches: 36, Mismatches: 7, Indels: 9
0.69 0.13 0.17
Matches are distributed among these distances:
20 8 0.22
21 5 0.14
22 3 0.08
23 2 0.06
24 9 0.25
25 9 0.25
ACGTcount: A:0.55, C:0.07, G:0.03, T:0.35
Consensus pattern (24 bp):
TACAAAAATTATTAAATATTGTCA
Found at i:7835865 original size:45 final size:45
Alignment explanation
Indices: 7835814--7835901 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
7835804 TAAAATTTAT
*
7835814 AAAATTTATAAAAAAA-TTACAAAAATTATTAAATATTGTCATACA
1 AAAATTTATAAAAAAATTTAC-AAAATAATTAAATATTGTCATACA
7835859 AAAATTTATAAAAAAATTTACAAAATAATTAAATATTGTCATA
1 AAAATTTATAAAAAAATTTACAAAATAATTAAATATTGTCATA
7835902 TCGTCACGTG
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
45 37 0.90
46 4 0.10
ACGTcount: A:0.58, C:0.06, G:0.02, T:0.34
Consensus pattern (45 bp):
AAAATTTATAAAAAAATTTACAAAATAATTAAATATTGTCATACA
Found at i:7842562 original size:26 final size:26
Alignment explanation
Indices: 7842526--7842610 Score: 134
Period size: 26 Copynumber: 3.3 Consensus size: 26
7842516 TATTTTCTTG
7842526 AAATTTTACCAAGGGCAAAATTGTCA
1 AAATTTTACCAAGGGCAAAATTGTCA
7842552 AAATTTTACCAAGGGCAAAATTGTCA
1 AAATTTTACCAAGGGCAAAATTGTCA
* * *
7842578 AAATTTTACTAGGGGTAAAATTGTCA
1 AAATTTTACCAAGGGCAAAATTGTCA
*
7842604 AACTTTT
1 AAATTTT
7842611 GCTAGGGGTA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.32
Consensus pattern (26 bp):
AAATTTTACCAAGGGCAAAATTGTCA
Found at i:7842615 original size:26 final size:26
Alignment explanation
Indices: 7842526--7842624 Score: 126
Period size: 26 Copynumber: 3.8 Consensus size: 26
7842516 TATTTTCTTG
* * *
7842526 AAATTTTACCAAGGGCAAAATTGTCA
1 AAATTTTACTAGGGGTAAAATTGTCA
* * *
7842552 AAATTTTACCAAGGGCAAAATTGTCA
1 AAATTTTACTAGGGGTAAAATTGTCA
7842578 AAATTTTACTAGGGGTAAAATTGTCA
1 AAATTTTACTAGGGGTAAAATTGTCA
* *
7842604 AACTTTTGCTAGGGGTAAAAT
1 AAATTTTACTAGGGGTAAAAT
7842625 AGGGATGAGA
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 68 1.00
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.30
Consensus pattern (26 bp):
AAATTTTACTAGGGGTAAAATTGTCA
Found at i:7847796 original size:20 final size:20
Alignment explanation
Indices: 7847771--7847811 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
7847761 AACTACTCCA
7847771 TGCCTCACGCCCCAATTTTC
1 TGCCTCACGCCCCAATTTTC
7847791 TGCCTCACGCCCCAATTTTC
1 TGCCTCACGCCCCAATTTTC
7847811 T
1 T
7847812 TTCATTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.15, C:0.44, G:0.10, T:0.32
Consensus pattern (20 bp):
TGCCTCACGCCCCAATTTTC
Found at i:7856693 original size:97 final size:96
Alignment explanation
Indices: 7856526--7856716 Score: 247
Period size: 97 Copynumber: 2.0 Consensus size: 96
7856516 ATTGCTTTGA
* * * * * * * * **
7856526 ACGTTATGAATATGCAAGCCAAAATCCAAACAACTTTTTTTTGCAATCTTTGACACTGACTGTCA
1 ACGTTACGAATATGCAAACCAAAATCAAAACAACCTTTTTCTACAATCTTAGACACTAACCCTCA
*
7856591 TATCAACTTGGATCTAAAGTATGTTCTTTCAC
66 GATCAACTTGGATCTAAAGTATGTT-TTTCAC
* *
7856623 ACGTTACGAATATGCAAACCAAAATCAAAACAACCTTTTTCTACGATCTTAGTCACTAACCCTCA
1 ACGTTACGAATATGCAAACCAAAATCAAAACAACCTTTTTCTACAATCTTAGACACTAACCCTCA
*
7856688 GATCAACTTGGATCTAATGTATGTTTTTC
66 GATCAACTTGGATCTAAAGTATGTTTTTC
7856717 TACTCATCGA
Statistics
Matches: 80, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
96 4 0.05
97 76 0.95
ACGTcount: A:0.33, C:0.22, G:0.12, T:0.34
Consensus pattern (96 bp):
ACGTTACGAATATGCAAACCAAAATCAAAACAACCTTTTTCTACAATCTTAGACACTAACCCTCA
GATCAACTTGGATCTAAAGTATGTTTTTCAC
Found at i:7857316 original size:30 final size:30
Alignment explanation
Indices: 7857280--7857340 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
7857270 CCAAGGATTA
7857280 GTTGGACGTTCTTATCATGTCTAAGAACAC
1 GTTGGACGTTCTTATCATGTCTAAGAACAC
7857310 GTTGGACGTTCTTATCATGTCTAAGAACAC
1 GTTGGACGTTCTTATCATGTCTAAGAACAC
7857340 G
1 G
7857341 AAAACCAGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (30 bp):
GTTGGACGTTCTTATCATGTCTAAGAACAC
Found at i:7862352 original size:6 final size:6
Alignment explanation
Indices: 7862341--7862384 Score: 52
Period size: 6 Copynumber: 7.3 Consensus size: 6
7862331 CCGATTGATA
* * * *
7862341 TAGGAG TAGGAG TAGGTG TAGGAA TAGGAG TATGAG TAGAAG TA
1 TAGGAG TAGGAG TAGGAG TAGGAG TAGGAG TAGGAG TAGGAG TA
7862385 AAAGTAAATT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.36, C:0.00, G:0.41, T:0.23
Consensus pattern (6 bp):
TAGGAG
Found at i:7866917 original size:15 final size:15
Alignment explanation
Indices: 7866897--7866937 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
7866887 ACAGGGAAAA
*
7866897 GATGATGACGAGGAT
1 GATGATGACGAGGAC
*
7866912 GATGATGACGATGAC
1 GATGATGACGAGGAC
*
7866927 GAAGATGACGA
1 GATGATGACGA
7866938 TAATGATAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.37, C:0.10, G:0.37, T:0.17
Consensus pattern (15 bp):
GATGATGACGAGGAC
Found at i:7867774 original size:20 final size:17
Alignment explanation
Indices: 7867737--7867770 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
7867727 AGTTGCTTTG
7867737 ATTTTTTTAATATTTTA
1 ATTTTTTTAATATTTTA
*
7867754 ATTTTTTTAATAATTTA
1 ATTTTTTTAATATTTTA
7867771 TTAAATTGAA
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
ATTTTTTTAATATTTTA
Found at i:7867940 original size:3 final size:3
Alignment explanation
Indices: 7867896--7867921 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
7867886 TTCTCATGAG
7867896 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
7867922 ACAGTGACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:7870012 original size:20 final size:20
Alignment explanation
Indices: 7869989--7870048 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 20
7869979 ATCACACGAG
7869989 TAATTTTAAAAATTTTAAAA
1 TAATTTTAAAAATTTTAAAA
* *
7870009 TAATTTTTAAAA-TTCAAAA
1 TAATTTTAAAAATTTTAAAA
*
7870028 T-ATTTATAAAAATTCTAAAA
1 TAATTT-TAAAAATTTTAAAA
7870048 T
1 T
7870049 TTATATTTTC
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
18 4 0.12
19 12 0.36
20 17 0.52
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (20 bp):
TAATTTTAAAAATTTTAAAA
Found at i:7870037 original size:18 final size:18
Alignment explanation
Indices: 7870005--7870053 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
7869995 TAAAAATTTT
*
7870005 AAAATAATTTTTAAAATTC
1 AAAAT-ATTTATAAAATTC
7870024 AAAATATTTATAAAAATTC
1 AAAATATTTAT-AAAATTC
*
7870043 TAAA-ATTTATA
1 AAAATATTTATA
7870054 TTTTCAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 1 0.04
18 11 0.41
19 15 0.56
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (18 bp):
AAAATATTTATAAAATTC
Found at i:7870083 original size:19 final size:19
Alignment explanation
Indices: 7870059--7870112 Score: 58
Period size: 19 Copynumber: 2.7 Consensus size: 19
7870049 TTATATTTTC
7870059 AAAAAATATAAAAATAT-TA
1 AAAAAAT-TAAAAATATATA
7870078 AAAAAATCTTAAAAGA-ATATA
1 AAAAAA--TTAAAA-ATATATA
7870099 AAAAAATTAAAAAT
1 AAAAAATTAAAAAT
7870113 TAAAAAATCT
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
18 1 0.03
19 12 0.40
20 7 0.23
21 10 0.33
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.24
Consensus pattern (19 bp):
AAAAAATTAAAAATATATA
Found at i:7870084 original size:11 final size:11
Alignment explanation
Indices: 7870068--7870105 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
7870058 CAAAAAATAT
7870068 AAAAATATTAA
1 AAAAATATTAA
*
7870079 AAAAATCTTAA
1 AAAAATATTAA
*
7870090 AAGAATA-TAA
1 AAAAATATTAA
7870100 AAAAAT
1 AAAAAT
7870106 TAAAAATTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
10 8 0.35
11 15 0.65
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.24
Consensus pattern (11 bp):
AAAAATATTAA
Found at i:7870118 original size:8 final size:8
Alignment explanation
Indices: 7870059--7870128 Score: 52
Period size: 9 Copynumber: 7.8 Consensus size: 8
7870049 TTATATTTTC
7870059 AAAAAATAT
1 AAAAAAT-T
7870068 AAAAATATT
1 AAAAA-ATT
7870077 AAAAAAATCTT
1 -AAAAAA--TT
7870088 AAAAGAATAT
1 AAAA-AAT-T
7870098 AAAAAAATT
1 -AAAAAATT
7870107 -AAAAATT
1 AAAAAATT
7870114 AAAAAATCT
1 AAAAAAT-T
7870123 AAAAAA
1 AAAAAA
7870129 AACCCCTAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 18
0.74 0.00 0.26
Matches are distributed among these distances:
7 7 0.13
8 6 0.12
9 16 0.31
10 15 0.29
11 8 0.15
ACGTcount: A:0.73, C:0.03, G:0.01, T:0.23
Consensus pattern (8 bp):
AAAAAATT
Found at i:7870119 original size:9 final size:9
Alignment explanation
Indices: 7870059--7870129 Score: 58
Period size: 10 Copynumber: 7.7 Consensus size: 9
7870049 TTATATTTTC
7870059 AAAAAATATA
1 AAAAAAT-TA
*
7870069 AAAATATTA
1 AAAAAATTA
7870078 AAAAAATCTTA
1 AAAAAA--TTA
*
7870089 AAAGAATATA
1 AAAAAAT-TA
7870099 AAAAAATT-
1 AAAAAATTA
7870107 -AAAAATT-
1 AAAAAATTA
7870114 AAAAAATCTA
1 AAAAAAT-TA
7870124 AAAAAA
1 AAAAAA
7870130 ACCCCTAAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
7 7 0.14
8 6 0.12
9 10 0.20
10 20 0.39
11 8 0.16
ACGTcount: A:0.73, C:0.03, G:0.01, T:0.23
Consensus pattern (9 bp):
AAAAAATTA
Found at i:7872713 original size:13 final size:13
Alignment explanation
Indices: 7872625--7872716 Score: 73
Period size: 13 Copynumber: 6.9 Consensus size: 13
7872615 ATCCAATGTT
*
7872625 CCATTTCATATAT
1 CCATTTCATATAA
*
7872638 CTATTTCCATATAA
1 CCATTT-CATATAA
*
7872652 CCGA-GTCATATAA
1 CC-ATTTCATATAA
7872665 CCATTTCATAT-A
1 CCATTTCATATAA
*
7872677 TCATTTTTCATATAA
1 CCA--TTTCATATAA
*
7872692 CCGA-GTCATATAA
1 CC-ATTTCATATAA
7872705 CCATTTCATATA
1 CCATTTCATATA
7872717 TCATTTTTCA
Statistics
Matches: 62, Mismatches: 9, Indels: 16
0.71 0.10 0.18
Matches are distributed among these distances:
12 5 0.08
13 37 0.60
14 16 0.26
15 3 0.05
16 1 0.02
ACGTcount: A:0.35, C:0.22, G:0.04, T:0.39
Consensus pattern (13 bp):
CCATTTCATATAA
Found at i:7872723 original size:40 final size:40
Alignment explanation
Indices: 7872625--7872730 Score: 187
Period size: 40 Copynumber: 2.6 Consensus size: 40
7872615 ATCCAATGTT
*
7872625 CCATTTCATATATC-TATTTCCATATAACCGAGTCATATAA
1 CCATTTCATATATCAT-TTTTCATATAACCGAGTCATATAA
7872665 CCATTTCATATATCATTTTTCATATAACCGAGTCATATAA
1 CCATTTCATATATCATTTTTCATATAACCGAGTCATATAA
7872705 CCATTTCATATATCATTTTTCATATA
1 CCATTTCATATATCATTTTTCATATA
7872731 TTATTTTTGT
Statistics
Matches: 64, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
40 63 0.98
41 1 0.02
ACGTcount: A:0.34, C:0.21, G:0.04, T:0.42
Consensus pattern (40 bp):
CCATTTCATATATCATTTTTCATATAACCGAGTCATATAA
Found at i:7872884 original size:8 final size:8
Alignment explanation
Indices: 7872873--7872897 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
7872863 CCACCTACCC
7872873 CCCACTTG
1 CCCACTTG
7872881 CCCACTTG
1 CCCACTTG
7872889 CCCACTTG
1 CCCACTTG
7872897 C
1 C
7872898 GCCGAACACC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.52, G:0.12, T:0.24
Consensus pattern (8 bp):
CCCACTTG
Found at i:7873271 original size:9 final size:9
Alignment explanation
Indices: 7873257--7873282 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
7873247 TATTAAGCAA
7873257 AAAAAAAAG
1 AAAAAAAAG
7873266 AAAAAAAAG
1 AAAAAAAAG
7873275 AAAAAAAA
1 AAAAAAAA
7873283 TATTTTTTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:7873415 original size:13 final size:12
Alignment explanation
Indices: 7873379--7873416 Score: 60
Period size: 11 Copynumber: 3.2 Consensus size: 12
7873369 CCTTCCCCCC
7873379 TCCCTTCTCTC-
1 TCCCTTCTCTCT
7873390 TCCCTTCTCTCT
1 TCCCTTCTCTCT
7873402 TCCCTCTCTCTCT
1 TCCCT-TCTCTCT
7873415 TC
1 TC
7873417 TTTTTTCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 11 0.44
12 5 0.20
13 9 0.36
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (12 bp):
TCCCTTCTCTCT
Found at i:7873904 original size:9 final size:9
Alignment explanation
Indices: 7873890--7873943 Score: 63
Period size: 9 Copynumber: 5.8 Consensus size: 9
7873880 GTTATTTTTA
7873890 TATTATTAG
1 TATTATTAG
7873899 TATTATTAG
1 TATTATTAG
* *
7873908 TATTACTAT
1 TATTATTAG
*
7873917 TATTATTAT
1 TATTATTAG
7873926 TATGTATTAG
1 TAT-TATTAG
7873936 TATATATT
1 TAT-TATT
7873944 TTTATAATGT
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
9 27 0.69
10 12 0.31
ACGTcount: A:0.33, C:0.02, G:0.07, T:0.57
Consensus pattern (9 bp):
TATTATTAG
Found at i:7873905 original size:3 final size:3
Alignment explanation
Indices: 7873881--7873948 Score: 57
Period size: 3 Copynumber: 22.3 Consensus size: 3
7873871 AATATCCTTG
* * * *
7873881 TTA TTT TTA -TA TTA TTA GTA TTA TTA GTA TTA CTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
7873928 TGTA TTA GTA TATA TTT TTA T
1 T-TA TTA TTA T-TA TTA TTA T
7873949 AATGTACGCG
Statistics
Matches: 50, Mismatches: 12, Indels: 6
0.74 0.18 0.09
Matches are distributed among these distances:
2 2 0.04
3 42 0.84
4 6 0.12
ACGTcount: A:0.31, C:0.01, G:0.06, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:7877544 original size:13 final size:11
Alignment explanation
Indices: 7877518--7877558 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
7877508 CACGTATCTC
7877518 ATATATTTTAT
1 ATATATTTTAT
7877529 ATATATTTT-T
1 ATATATTTTAT
*
7877539 ATTATACTTTAT
1 A-TATATTTTAT
7877551 ATATATTT
1 ATATATTT
7877559 ACTTTCAAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
10 2 0.08
11 22 0.85
12 2 0.08
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.63
Consensus pattern (11 bp):
ATATATTTTAT
Found at i:7882549 original size:21 final size:21
Alignment explanation
Indices: 7882523--7882563 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
7882513 ATCTGCTCAA
* *
7882523 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
7882544 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
7882564 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:7889268 original size:24 final size:25
Alignment explanation
Indices: 7889206--7889276 Score: 90
Period size: 24 Copynumber: 2.9 Consensus size: 25
7889196 GAGCAGGCCC
*
7889206 ATATTCATAGCTCATGTGAGCACTT
1 ATATTCATAGCTCGTGTGAGCACTT
* * *
7889231 ACATTCACAACTCGTGTGAGCA-TT
1 ATATTCATAGCTCGTGTGAGCACTT
*
7889255 ATATTCATAGCTCGCGTGAGCA
1 ATATTCATAGCTCGTGTGAGCA
7889277 ATTTTTATCC
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
24 20 0.53
25 18 0.47
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (25 bp):
ATATTCATAGCTCGTGTGAGCACTT
Found at i:7894149 original size:24 final size:26
Alignment explanation
Indices: 7894122--7894172 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
7894112 AAGAAATGAA
7894122 GAAAT-GAAAGA-AAG-AAAATTATAT
1 GAAATAGAAAGATAAGTAAAA-TATAT
*
7894146 GAAATAGAAGGATAAGTAAAATATAT
1 GAAATAGAAAGATAAGTAAAATATAT
7894172 G
1 G
7894173 TTCAAGAGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
24 5 0.22
25 5 0.22
26 9 0.39
27 4 0.17
ACGTcount: A:0.59, C:0.00, G:0.20, T:0.22
Consensus pattern (26 bp):
GAAATAGAAAGATAAGTAAAATATAT
Found at i:7897720 original size:3 final size:3
Alignment explanation
Indices: 7897712--7897743 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
7897702 ACTCGAATGG
7897712 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
7897744 CTCAGGCCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:7902469 original size:21 final size:21
Alignment explanation
Indices: 7902443--7902486 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
7902433 GTGCCAAAGA
7902443 ATGGATGAATCTGTAGAAGCC
1 ATGGATGAATCTGTAGAAGCC
7902464 ATGGATGAATCTGTAGAAGCC
1 ATGGATGAATCTGTAGAAGCC
7902485 AT
1 AT
7902487 TGTAACAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.34, C:0.14, G:0.27, T:0.25
Consensus pattern (21 bp):
ATGGATGAATCTGTAGAAGCC
Found at i:7906687 original size:15 final size:16
Alignment explanation
Indices: 7906661--7906690 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
7906651 TCCGTTGAAG
7906661 TGTTTTTAAGTTAGTC
1 TGTTTTTAAGTTAGTC
7906677 TGTTTTT-AGTTAGT
1 TGTTTTTAAGTTAGT
7906691 GACACACCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.17, C:0.03, G:0.20, T:0.60
Consensus pattern (16 bp):
TGTTTTTAAGTTAGTC
Found at i:7910028 original size:21 final size:21
Alignment explanation
Indices: 7909987--7910029 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
7909977 ACCCCAAACT
* *
7909987 CTCAAACCTTTTTACTTTTCC
1 CTCAAAACTTTTTACTCTTCC
7910008 CTCAAAAC-TTTTACTCCTTCC
1 CTCAAAACTTTTTACT-CTTCC
7910029 C
1 C
7910030 ACTTCCCCCC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.21, C:0.37, G:0.00, T:0.42
Consensus pattern (21 bp):
CTCAAAACTTTTTACTCTTCC
Found at i:7910361 original size:19 final size:17
Alignment explanation
Indices: 7910276--7910361 Score: 63
Period size: 16 Copynumber: 5.0 Consensus size: 17
7910266 TTTTTAATAT
*
7910276 TTTCCCTCCAAAATTTTA
1 TTTCCC-CCAAACTTTTA
*
7910294 TTTCCCCC-TA--TTTA
1 TTTCCCCCAAACTTTTA
*
7910308 CTTTCCCTCAAACTTTTA
1 -TTTCCCCCAAACTTTTA
*
7910326 -TTCCCCAAAACTTTTTA
1 TTTCCCCCAAAC-TTTTA
7910343 TTTTCCCCCTAAACTTTTA
1 -TTTCCCCC-AAACTTTTA
7910362 CTTCTCACCC
Statistics
Matches: 54, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
14 4 0.07
15 7 0.13
16 11 0.20
17 7 0.13
18 10 0.19
19 11 0.20
20 4 0.07
ACGTcount: A:0.23, C:0.31, G:0.00, T:0.45
Consensus pattern (17 bp):
TTTCCCCCAAACTTTTA
Found at i:7917781 original size:27 final size:26
Alignment explanation
Indices: 7917743--7917795 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
7917733 AGCATAATCC
* *
7917743 AACTGAACTTTATATTGTTC-TTCATT
1 AACTAAACTTTAT-TGGTTCTTTCATT
7917769 AACTAAACATTTATTGGTTCTTTCATT
1 AACTAAAC-TTTATTGGTTCTTTCATT
7917796 TTCTTGAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 12 0.52
27 11 0.48
ACGTcount: A:0.28, C:0.15, G:0.08, T:0.49
Consensus pattern (26 bp):
AACTAAACTTTATTGGTTCTTTCATT
Found at i:7921332 original size:15 final size:15
Alignment explanation
Indices: 7921287--7921394 Score: 87
Period size: 15 Copynumber: 7.2 Consensus size: 15
7921277 CCAATATCTC
7921287 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
7921302 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
7921317 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
7921332 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
7921347 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
7921362 GACTTTCCAT-TATTT
1 GA-TACCCATATCTTT
7921377 GATACCCATATCTTT
1 GATACCCATATCTTT
7921392 GAT
1 GAT
7921395 TTTCCATAAA
Statistics
Matches: 69, Mismatches: 18, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
14 13 0.19
15 43 0.62
16 13 0.19
ACGTcount: A:0.26, C:0.23, G:0.07, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:7921401 original size:30 final size:30
Alignment explanation
Indices: 7921277--7921400 Score: 212
Period size: 30 Copynumber: 4.1 Consensus size: 30
7921267 TTTTATTATG
*
7921277 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
7921308 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
7921338 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* *
7921368 CCATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
7921398 CCA
1 CCA
7921401 TAAATATGGA
Statistics
Matches: 90, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
30 83 0.92
31 7 0.08
ACGTcount: A:0.26, C:0.25, G:0.06, T:0.43
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:7926019 original size:30 final size:31
Alignment explanation
Indices: 7925973--7926039 Score: 118
Period size: 30 Copynumber: 2.2 Consensus size: 31
7925963 TTTTATTATG
7925973 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATATCTCGATACCCATATCTTTGACTTT
*
7926004 CCAATAT-TTGATACCCATATCTTTGACTTT
1 CCAATATCTCGATACCCATATCTTTGACTTT
7926034 CCAATA
1 CCAATA
7926040 AATATGGATA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
30 28 0.80
31 7 0.20
ACGTcount: A:0.28, C:0.27, G:0.06, T:0.39
Consensus pattern (31 bp):
CCAATATCTCGATACCCATATCTTTGACTTT
Found at i:7926028 original size:15 final size:15
Alignment explanation
Indices: 7925983--7926029 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
7925973 CCAATATCTC
7925983 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
7925998 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
7926013 GATACCCATATCTTT
1 GATACCCATATCTTT
7926028 GA
1 GA
7926030 CTTTCCAATA
Statistics
Matches: 24, Mismatches: 6, Indels: 4
0.71 0.18 0.12
Matches are distributed among these distances:
14 4 0.17
15 16 0.67
16 4 0.17
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:7933653 original size:90 final size:91
Alignment explanation
Indices: 7933550--7933742 Score: 268
Period size: 90 Copynumber: 2.1 Consensus size: 91
7933540 CATTGAGACT
* * *
7933550 TGAA-TTTTTTTTTGTTCAAGTTAA-CCCTTAAATTTGGCAATTGTTCCCACATTGGTGTCTGAA
1 TGAACTTTCTTTTTGTTCAAGTTAATCCCTT-AATTTGACAATTGTTCCCACATTGGAGTCTGAA
7933613 CTAGCCAATTG-TTCTCATATTAAGGTC
65 CTAGCCAATTGTTTC-CATATTAAGGTC
* *
7933640 TGAAC-TTCTTTTTGTTCAAGTTAATCCCTTAGTTTGACAATTGTTCCCACATTGGAGTGTGAAC
1 TGAACTTTCTTTTTGTTCAAGTTAATCCCTTAATTTGACAATTGTTCCCACATTGGAGTCTGAAC
* * *
7933704 TAGCTAATTGTTTCCATATTAGGGTT
66 TAGCCAATTGTTTCCATATTAAGGTC
7933730 TGAACTTTCTTTT
1 TGAACTTTCTTTT
7933743 GGCCCAAATT
Statistics
Matches: 91, Mismatches: 8, Indels: 7
0.86 0.08 0.07
Matches are distributed among these distances:
90 76 0.84
91 15 0.16
ACGTcount: A:0.23, C:0.17, G:0.16, T:0.44
Consensus pattern (91 bp):
TGAACTTTCTTTTTGTTCAAGTTAATCCCTTAATTTGACAATTGTTCCCACATTGGAGTCTGAAC
TAGCCAATTGTTTCCATATTAAGGTC
Found at i:7937891 original size:41 final size:41
Alignment explanation
Indices: 7937846--7938003 Score: 226
Period size: 41 Copynumber: 3.9 Consensus size: 41
7937836 AGATCCAGTA
* * * * * *
7937846 TTAGCAGCGTTTTTAGAGAAGTGCCGCTAATTCTCGGGTCT
1 TTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGGTCT
*
7937887 TTAGCGGCGCTTTTGGAAAAGCGCCGCTAATGCTCAGGTCT
1 TTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGGTCT
*
7937928 TTAGCGGCGTTTTTGGAAAAGCGTCGCTAATGCTCAGGTCT
1 TTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGGTCT
* *
7937969 TTAGCGGCGTTTTTGAAAAAGCACCGCTAATGCTC
1 TTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTC
7938004 GGGTGTTAAA
Statistics
Matches: 105, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 105 1.00
ACGTcount: A:0.21, C:0.22, G:0.27, T:0.30
Consensus pattern (41 bp):
TTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGGTCT
Found at i:7941506 original size:111 final size:110
Alignment explanation
Indices: 7941369--7941670 Score: 507
Period size: 109 Copynumber: 2.7 Consensus size: 110
7941359 TTGTTTAAAT
7941369 GAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCC
1 GAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCC
* *
7941434 TTATTTTGAAATTTTTTTTAAAGGATATTAAGCCATTTGGTTGAAC
66 TTATTTT-AAATATTTTTAAAAGGATATTAAGCCATTTGGTTGAAC
*
7941480 GAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCTAAACGCAAAACATTGCC
1 GAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCC
* *
7941545 TTATTTTAAA-ATTTTTAAAAGGATATTAAGCCCTTTGGTTGTAC
66 TTATTTTAAATATTTTTAAAAGGATATTAAGCCATTTGGTTGAAC
* * *
7941589 GAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGTAAAATATTGTC
1 GAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCC
7941654 TTATTTTAAAATATTTT
66 TTATTTT-AAATATTTT
7941671 CCTTTTTTGA
Statistics
Matches: 180, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
109 98 0.54
110 6 0.03
111 76 0.42
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (110 bp):
GAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCC
TTATTTTAAATATTTTTAAAAGGATATTAAGCCATTTGGTTGAAC
Found at i:7941864 original size:18 final size:19
Alignment explanation
Indices: 7941843--7941892 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
7941833 ACATAAATGA
7941843 ACATAAAAAAATA-AAAAT
1 ACATAAAAAAATATAAAAT
* *
7941861 ACAT-GAAAATTATAAAAT
1 ACATAAAAAAATATAAAAT
*
7941879 ATATAAAAAAATAT
1 ACATAAAAAAATAT
7941893 GTATGTGCAT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
17 6 0.24
18 12 0.48
19 7 0.28
ACGTcount: A:0.70, C:0.04, G:0.02, T:0.24
Consensus pattern (19 bp):
ACATAAAAAAATATAAAAT
Found at i:7942102 original size:34 final size:29
Alignment explanation
Indices: 7942032--7942108 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 29
7942022 ATATGTAACT
7942032 ATCATAAAAAAGTATATATATATATATAAA
1 ATCAT-AAAAAGTATATATATATATATAAA
7942062 AT-ATAAAAAGTATATATATAGGTATATATATGA
1 ATCATAAAAAGTATATATATA--TATATA-A--A
7942095 ATCATAAAAA-TATA
1 ATCATAAAAAGTATA
7942109 AAGAACATAT
Statistics
Matches: 41, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
28 16 0.39
29 2 0.05
30 8 0.20
31 1 0.02
33 7 0.17
34 7 0.17
ACGTcount: A:0.57, C:0.03, G:0.06, T:0.34
Consensus pattern (29 bp):
ATCATAAAAAGTATATATATATATATAAA
Found at i:7942119 original size:40 final size:40
Alignment explanation
Indices: 7942043--7942121 Score: 99
Period size: 40 Copynumber: 2.0 Consensus size: 40
7942033 TCATAAAAAA
* *
7942043 GTATATATATATATATAAAATATAAAAAGTATATATATAG
1 GTATATATATATATATAAAATATAAAAAGAACATATATAG
*
7942083 GTATATATATGA-ATCATAAAA-ATATAAAGAACATATATA
1 GTATATATAT-ATAT-ATAAAATATAAAAAGAACATATATA
7942122 AAATACGTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
40 27 0.79
41 7 0.21
ACGTcount: A:0.56, C:0.03, G:0.08, T:0.34
Consensus pattern (40 bp):
GTATATATATATATATAAAATATAAAAAGAACATATATAG
Found at i:7942119 original size:42 final size:40
Alignment explanation
Indices: 7942043--7942121 Score: 99
Period size: 42 Copynumber: 1.9 Consensus size: 40
7942033 TCATAAAAAA
*
7942043 GTATATATATATATATAAAATATAAAAAGTATATATATAG
1 GTATATATATATATATAAAATATAAAAAGCATATATATAG
7942083 GTATATATATGA-ATCATAAAAATATAAAGAA-CATATATA
1 GTATATATAT-ATAT-AT-AAAATATAAA-AAGCATATATA
7942122 AAATACGTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
40 12 0.35
41 3 0.09
42 17 0.50
43 2 0.06
ACGTcount: A:0.56, C:0.03, G:0.08, T:0.34
Consensus pattern (40 bp):
GTATATATATATATATAAAATATAAAAAGCATATATATAG
Found at i:7944307 original size:25 final size:25
Alignment explanation
Indices: 7944276--7944325 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
7944266 CTTAGGGCGT
* *
7944276 AAGATTCACTGTTGTAGCTTTAATC
1 AAGATTCACCGATGTAGCTTTAATC
*
7944301 AAGATTCACCGATGTGGCTTTAATC
1 AAGATTCACCGATGTAGCTTTAATC
7944326 TTTTTAACTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (25 bp):
AAGATTCACCGATGTAGCTTTAATC
Found at i:7944463 original size:125 final size:125
Alignment explanation
Indices: 7943940--7944448 Score: 860
Period size: 125 Copynumber: 4.1 Consensus size: 125
7943930 GATTCGTCAT
* *
7943940 TGTGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGTTTTAATCTG
1 TGTGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTA
* * *
7944005 TTCCACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGA
66 TTCCACTACATCGCTTGGGGCGTAAGATTCACTATTGTAGCTTTAATCAAGATTCACCGA
* *
7944065 TGTGGATTTAATCTTTTTAACTGTAATGTCGGAGAAACAAGATT--CCAATTTGGCTTTAATCTA
1 TGTGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTA
*
7944128 TTCCACTACATCGCTTGGGGCGTAAAATTCACTATTGTAGCTTTAATCAAGATTCACCGA
66 TTCCACTACATCGCTTGGGGCGTAAGATTCACTATTGTAGCTTTAATCAAGATTCACCGA
*
7944188 TGTGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAAATTCACCAATTTGGCTTTAATCTA
1 TGTGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTA
* * * * *
7944253 TTTCACTGCATTGCTTAGGGCGTAAGATTCACTGTTGTAGCTTTAATCAAGATTCACCGA
66 TTCCACTACATCGCTTGGGGCGTAAGATTCACTATTGTAGCTTTAATCAAGATTCACCGA
*
7944313 TGTGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTTACCAATTTGGCTTTAATCTA
1 TGTGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTA
*
7944378 TTCCACTACATCACTTGGGGCGTAAGATTCACTATTGTAGCTTTAATCAAGATTCACCGA
66 TTCCACTACATCGCTTGGGGCGTAAGATTCACTATTGTAGCTTTAATCAAGATTCACCGA
7944438 TGTGGCTTTAA
1 TGTGGCTTTAA
7944449 CCGTTTGAAT
Statistics
Matches: 357, Mismatches: 25, Indels: 4
0.92 0.06 0.01
Matches are distributed among these distances:
123 114 0.32
125 243 0.68
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (125 bp):
TGTGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTA
TTCCACTACATCGCTTGGGGCGTAAGATTCACTATTGTAGCTTTAATCAAGATTCACCGA
Found at i:7945707 original size:43 final size:42
Alignment explanation
Indices: 7945618--7945719 Score: 109
Period size: 43 Copynumber: 2.4 Consensus size: 42
7945608 TGCCCCGATC
* *
7945618 TGATCAAAATTTGAGCTGCTCTGATCGCCTCATCCCCCAATT
1 TGATCAAAATTTGAGCTGCTCTGATCACCTAATCCCCCAATT
* **
7945660 TGATCCAAAATTTGAG-TCGCTCTGATCACTTAATGTCCC-ATT
1 TGAT-CAAAATTTGAGCT-GCTCTGATCACCTAATCCCCCAATT
7945702 ATGATCAAAATTTTGAGC
1 -TGATCAAAA-TTTGAGC
7945720 CGCCCTTTTC
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
42 13 0.26
43 37 0.74
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (42 bp):
TGATCAAAATTTGAGCTGCTCTGATCACCTAATCCCCCAATT
Found at i:7947008 original size:6 final size:6
Alignment explanation
Indices: 7946993--7947039 Score: 51
Period size: 6 Copynumber: 7.7 Consensus size: 6
7946983 TGACTTCGAT
* *
7946993 TTTTTA TTTTTG TTTTTG TTTTTG TTTTTTT TGTTTTG TTTTT- TTTT
1 TTTTTG TTTTTG TTTTTG TTTTTG -TTTTTG T-TTTTG TTTTTG TTTT
7947040 AGTCTGAACT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
5 4 0.11
6 22 0.61
7 10 0.28
ACGTcount: A:0.02, C:0.00, G:0.11, T:0.87
Consensus pattern (6 bp):
TTTTTG
Found at i:7947009 original size:14 final size:13
Alignment explanation
Indices: 7946992--7947039 Score: 62
Period size: 14 Copynumber: 3.7 Consensus size: 13
7946982 TTGACTTCGA
*
7946992 TTTTTTATTTTTG
1 TTTTTTTTTTTTG
*
7947005 -TTTTTGTTTTTG
1 TTTTTTTTTTTTG
7947017 TTTTTTTTGTTTTG
1 TTTTTTTT-TTTTG
7947031 TTTTTTTTT
1 TTTTTTTTT
7947040 AGTCTGAACT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
12 11 0.35
13 7 0.23
14 13 0.42
ACGTcount: A:0.02, C:0.00, G:0.10, T:0.88
Consensus pattern (13 bp):
TTTTTTTTTTTTG
Found at i:7949113 original size:19 final size:20
Alignment explanation
Indices: 7949079--7949132 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 20
7949069 AGGGTCACTT
* *
7949079 CATGAAAATCTAATGCATATG
1 CATG-AAATGTAATGCAAATG
*
7949100 -ATGCAATGTAATGCAAATG
1 CATGAAATGTAATGCAAATG
7949119 CATGAAATG-AATGC
1 CATGAAATGTAATGC
7949133 CTAAAGAGAC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 18 0.64
20 10 0.36
ACGTcount: A:0.43, C:0.13, G:0.19, T:0.26
Consensus pattern (20 bp):
CATGAAATGTAATGCAAATG
Found at i:7950053 original size:11 final size:11
Alignment explanation
Indices: 7950037--7950072 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
7950027 ATCTCTGGTC
7950037 AATTTATAGTG
1 AATTTATAGTG
*
7950048 AATTTATAGTC
1 AATTTATAGTG
*
7950059 AATTTATAGGG
1 AATTTATAGTG
7950070 AAT
1 AAT
7950073 CCAGAAACTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.39, C:0.03, G:0.17, T:0.42
Consensus pattern (11 bp):
AATTTATAGTG
Found at i:7951205 original size:80 final size:80
Alignment explanation
Indices: 7951053--7951245 Score: 221
Period size: 80 Copynumber: 2.4 Consensus size: 80
7951043 CGGTTTTAGT
* * *
7951053 AACTCACACAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTT
1 AACTCGCACAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGACTT
*
7951118 AACCCGGATTTA-AC
66 AACCCGGATATATAC
** *
7951132 AACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATC
1 AACTCGCAC-AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGA-C
** *
7951196 TTAGTCCGGATATATTC
64 TTAACCCGGATATATAC
* * *
7951213 -ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AAC-TCGCACAATGCCTTCGGGACTTAACCCGGA
7951246 CAGCATTCAA
Statistics
Matches: 97, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
79 11 0.11
80 80 0.82
81 6 0.06
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (80 bp):
AACTCGCACAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGACTT
AACCCGGATATATAC
Found at i:7951206 original size:40 final size:40
Alignment explanation
Indices: 7951023--7951192 Score: 234
Period size: 40 Copynumber: 4.3 Consensus size: 40
7951013 TCCTCGTTCA
* * * ** *
7951023 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
7951062 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
7951102 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
7951142 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
7951182 AAGGCCTTCGG
1 AATGCCTTCGG
7951193 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 33 0.28
40 86 0.72
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:7951245 original size:120 final size:119
Alignment explanation
Indices: 7951023--7951245 Score: 272
Period size: 120 Copynumber: 1.9 Consensus size: 119
7951013 TCCTCGTTCA
* * * *
7951023 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACTTAACCCGGATT
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACTTAACCCGGATA
* *
7951088 TAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
66 TAACAACTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * **
7951142 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAGTCCGGA
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGA-CTTAACCCGGA
* *
7951206 TATATTC-ACTTAGCAC-AAAGCCTTCGGGACTTAGCCCGGA
64 TATA-ACAAC-TAGCACGAAAGCCTTCGGGACTTAACCCGGA
7951246 CAGCATTCAA
Statistics
Matches: 87, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
119 37 0.43
120 44 0.51
121 6 0.07
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACTTAACCCGGATA
TAACAACTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:7951254 original size:41 final size:41
Alignment explanation
Indices: 7951177--7951254 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
7951167 TTAGTATCTC
* * *
7951177 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
7951218 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
7951255 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:7953891 original size:109 final size:110
Alignment explanation
Indices: 7953626--7953927 Score: 525
Period size: 109 Copynumber: 2.7 Consensus size: 110
7953616 TTGTTTAAAT
7953626 GAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCC
1 GAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCC
* *
7953691 TTATTTTGAAAATTTTTTTAAAGGATATTAAGCCATTTGGTTGAAC
66 TTATTTT-AAAATATTTTAAAAGGATATTAAGCCATTTGGTTGAAC
* *
7953737 GAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCAAATTTCTAAACGCAAAACATTGCC
1 GAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCC
*
7953802 TTATTTTAAAA-ATTTTAAAAGGATATTAAGCCCTTTGGTTGAAC
66 TTATTTTAAAATATTTTAAAAGGATATTAAGCCATTTGGTTGAAC
* *
7953846 GAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAATATTGTC
1 GAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCC
7953911 TTATTTTAAAATATTTT
66 TTATTTTAAAATATTTT
7953928 CCTTTTTTGA
Statistics
Matches: 181, Mismatches: 9, Indels: 3
0.94 0.05 0.02
Matches are distributed among these distances:
109 102 0.56
110 9 0.05
111 70 0.39
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.31
Consensus pattern (110 bp):
GAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCC
TTATTTTAAAATATTTTAAAAGGATATTAAGCCATTTGGTTGAAC
Found at i:7956778 original size:7 final size:7
Alignment explanation
Indices: 7956768--7956801 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
7956758 TTAAGGTTTA
7956768 GGTTAGG
1 GGTTAGG
7956775 GGTTAGG
1 GGTTAGG
7956782 GGTTAGG
1 GGTTAGG
7956789 GGTTAGG
1 GGTTAGG
*
7956796 AGTTAG
1 GGTTAG
7956802 AGATCTAGGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.18, C:0.00, G:0.53, T:0.29
Consensus pattern (7 bp):
GGTTAGG
Found at i:7958842 original size:43 final size:42
Alignment explanation
Indices: 7958727--7959034 Score: 244
Period size: 43 Copynumber: 7.4 Consensus size: 42
7958717 TTTTTCAAAA
** *
7958727 GTCAT-GT-TTTAGCGGCGTTTGTTAAAAAGCGCCGCTAAAA
1 GTCATGGTCTTTAGCGGCGTTTGTGGAAAAGCGCCGCTAAAG
** * * * *** *
7958767 GTCATCTTCATT-GTGGCGTTTATTGTCTAAGCGTCGCTAAAG
1 GTCATGGTCTTTAGCGGCGTTT-GTGGAAAAGCGCCGCTAAAG
* *
7958809 GTCGTGGTCTTTAGCGGCGTTT-TCGAGAAAAGCGTCGCT-AA-
1 GTCATGGTCTTTAGCGGCGTTTGT-G-GAAAAGCGCCGCTAAAG
* **
7958850 ---A-GG-CTTTAGCGGCATTT-TTTACAAATGCGCCGCTAAAG
1 GTCATGGTCTTTAGCGGCGTTTGTGGA-AAA-GCGCCGCTAAAG
*
7958888 GTCAGGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAG
1 GTCATGGTCTTTAGCGGCGTTTGT-GGAAAAGCGCCGCTAAAG
* *
7958931 GTCATGATCTTTAGCGGCGTTTATGGAAAAGGCGCCGCTAAAG
1 GTCATGGTCTTTAGCGGCGTTTGTGGAAAA-GCGCCGCTAAAG
*
7958974 GTAATGGTCTTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAG
1 GTCATGGTCTTTAGCGGCGTTTGTGG-AAAAGCGCCGCTAAAG
* **
7959017 ATCATGACCTTTAGCGGC
1 GTCATGGTCTTTAGCGGC
7959035 ATTTTTAGAA
Statistics
Matches: 213, Mismatches: 36, Indels: 35
0.75 0.13 0.12
Matches are distributed among these distances:
34 1 0.00
35 3 0.01
36 21 0.10
37 4 0.02
40 5 0.02
41 11 0.05
42 34 0.16
43 125 0.59
44 8 0.04
45 1 0.00
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (42 bp):
GTCATGGTCTTTAGCGGCGTTTGTGGAAAAGCGCCGCTAAAG
Found at i:7958884 original size:36 final size:36
Alignment explanation
Indices: 7958817--7958888 Score: 90
Period size: 36 Copynumber: 2.0 Consensus size: 36
7958807 AGGTCGTGGT
* * *
7958817 CTTTAGCGGCGTTTTCGAGAAAAGCGTCGCTAAAGG
1 CTTTAGCGGCATTTTCGACAAAAGCGCCGCTAAAGG
** *
7958853 CTTTAGCGGCATTTTTTACAAATGCGCCGCTAAAGG
1 CTTTAGCGGCATTTTCGACAAAAGCGCCGCTAAAGG
7958889 TCAGGGTCTT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (36 bp):
CTTTAGCGGCATTTTCGACAAAAGCGCCGCTAAAGG
Found at i:7959046 original size:86 final size:86
Alignment explanation
Indices: 7958853--7959060 Score: 283
Period size: 86 Copynumber: 2.4 Consensus size: 86
7958843 TCGCTAAAGG
* * *
7958853 CTTTAGCGGCATTTTTTA-CAAATGCGCCGCTAAAGGTCAGGGTCTTTAGCGGCGTTTGTGGGAA
1 CTTTAGCGGCA-TTTTTAGAAAAAGCGCCGCTAAAGGTAAGGGTCTTTAGCGGCGTTTGTGGGAA
* *
7958917 AAGCGCCGCTAAAGGTCATGAT
65 AAGCGCCGCTAAAGATCATGAC
* * * * * *
7958939 CTTTAGCGGCGTTTATGGAAAAGGCGCCGCTAAAGGTAATGGTCTTTAGCGGCGTTTGTGGTAAA
1 CTTTAGCGGCATTTTTAGAAAAAGCGCCGCTAAAGGTAAGGGTCTTTAGCGGCGTTTGTGGGAAA
7959004 AGCGCCGCTAAAGATCATGAC
66 AGCGCCGCTAAAGATCATGAC
*
7959025 CTTTAGCGGCATTTTTAGAAAAAAGTGCCGCTAAAG
1 CTTTAGCGGCATTTTTAG-AAAAAGCGCCGCTAAAG
7959061 TTAACGACGC
Statistics
Matches: 105, Mismatches: 15, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
85 4 0.04
86 86 0.82
87 15 0.14
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (86 bp):
CTTTAGCGGCATTTTTAGAAAAAGCGCCGCTAAAGGTAAGGGTCTTTAGCGGCGTTTGTGGGAAA
AGCGCCGCTAAAGATCATGAC
Found at i:7963614 original size:7 final size:7
Alignment explanation
Indices: 7963602--7963627 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
7963592 GTTTATAGTC
7963602 TCTTTTT
1 TCTTTTT
7963609 TCTTTTT
1 TCTTTTT
7963616 TCTTTTT
1 TCTTTTT
7963623 TCTTT
1 TCTTT
7963628 CTTTTTCCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (7 bp):
TCTTTTT
Found at i:7964297 original size:13 final size:13
Alignment explanation
Indices: 7964281--7964306 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7964271 TTCGTTTAAG
7964281 TTTTTATTTTTAT
1 TTTTTATTTTTAT
7964294 TTTTTATTTTTAT
1 TTTTTATTTTTAT
7964307 ATCTTTTTTT
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:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTATTTTTAT
Found at i:7968236 original size:45 final size:45
Alignment explanation
Indices: 7968152--7968240 Score: 117
Period size: 45 Copynumber: 2.0 Consensus size: 45
7968142 TCTCGACTCA
** *
7968152 TCTTCTCAGTTGAGCTATTTACTGCCACTGCCATTTCTTTCTTCC
1 TCTTCTCAACTGAGCTATTTACTGCCACTGCCATCTCTTTCTTCC
* *
7968197 TCTTCTCAACTGAGCTATTTACTGTCAGC-GCCGTCTCTTTCTTC
1 TCTTCTCAACTGAGCTATTTACTGCCA-CTGCCATCTCTTTCTTC
7968241 ATTTTATTAG
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
45 37 0.97
46 1 0.03
ACGTcount: A:0.13, C:0.31, G:0.12, T:0.43
Consensus pattern (45 bp):
TCTTCTCAACTGAGCTATTTACTGCCACTGCCATCTCTTTCTTCC
Found at i:7976625 original size:24 final size:24
Alignment explanation
Indices: 7976598--7976649 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
7976588 TTAGTAAGTC
*
7976598 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
7976622 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
7976646 AAAT
1 AAAT
7976650 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:7977961 original size:19 final size:19
Alignment explanation
Indices: 7977937--7977974 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
7977927 AAGAGACAAC
7977937 TGTGCTTACTTTCCCACAT
1 TGTGCTTACTTTCCCACAT
7977956 TGTGCTTACTTTCCCACAT
1 TGTGCTTACTTTCCCACAT
7977975 CTTTATCACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.16, C:0.32, G:0.11, T:0.42
Consensus pattern (19 bp):
TGTGCTTACTTTCCCACAT
Found at i:7989424 original size:19 final size:19
Alignment explanation
Indices: 7989392--7989430 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
7989382 GTTAAAAATC
* *
7989392 TTATCTTGAGTGTTTTTAT
1 TTATCTTCAGTGTTGTTAT
*
7989411 TTATCTTCATTGTTGTTAT
1 TTATCTTCAGTGTTGTTAT
7989430 T
1 T
7989431 GTTATGTTAT
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:0.15, C:0.08, G:0.13, T:0.64
Consensus pattern (19 bp):
TTATCTTCAGTGTTGTTAT
Found at i:7999705 original size:6 final size:6
Alignment explanation
Indices: 7999694--7999735 Score: 84
Period size: 6 Copynumber: 7.0 Consensus size: 6
7999684 TTTGGGTGAA
7999694 GAAGAG GAAGAG GAAGAG GAAGAG GAAGAG GAAGAG GAAGAG
1 GAAGAG GAAGAG GAAGAG GAAGAG GAAGAG GAAGAG GAAGAG
7999736 AACCAAAAGG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (6 bp):
GAAGAG
Found at i:8001577 original size:69 final size:71
Alignment explanation
Indices: 8001449--8001579 Score: 176
Period size: 71 Copynumber: 1.9 Consensus size: 71
8001439 GTTCTTGACA
* * *
8001449 TTGTTTTGATAGTCTGCTGGAAAATGTTATTTTAGTTTGTTAGTGAATAGAAGATGAAACTGTTG
1 TTGTTTTGATAGTCTGCTGGAAAATGTTACTTGAGTTTGTTAGTCAATAGAAGATGAAACTGTTG
8001514 TGGCAG
66 TGGCAG
* ** * *
8001520 TTGTTTTGATTGTCTGCTGGAACTTGTT-CTTGA-TTTGTTAGTCAGTAGAATATGAAACTG
1 TTGTTTTGATAGTCTGCTGGAAAATGTTACTTGAGTTTGTTAGTCAATAGAAGATGAAACTG
8001580 GAACTTTATT
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
69 24 0.46
70 3 0.06
71 25 0.48
ACGTcount: A:0.24, C:0.08, G:0.25, T:0.43
Consensus pattern (71 bp):
TTGTTTTGATAGTCTGCTGGAAAATGTTACTTGAGTTTGTTAGTCAATAGAAGATGAAACTGTTG
TGGCAG
Found at i:8002781 original size:18 final size:18
Alignment explanation
Indices: 8002758--8002797 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
8002748 GTTTTTTGGT
8002758 CAATTATACATACACCAA
1 CAATTATACATACACCAA
*
8002776 CAATTATACATAGACCAA
1 CAATTATACATACACCAA
8002794 CAAT
1 CAAT
8002798 GTTTTTTAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.50, C:0.25, G:0.03, T:0.23
Consensus pattern (18 bp):
CAATTATACATACACCAA
Found at i:8002859 original size:33 final size:33
Alignment explanation
Indices: 8002822--8002885 Score: 119
Period size: 33 Copynumber: 1.9 Consensus size: 33
8002812 ATAAAATTAA
8002822 ACCAACAAGTAATTTTAGGTCAATTATACATAC
1 ACCAACAAGTAATTTTAGGTCAATTATACATAC
*
8002855 ACCAACAATTAATTTTAGGTCAATTATACAT
1 ACCAACAAGTAATTTTAGGTCAATTATACAT
8002886 GCTTTATAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.42, C:0.17, G:0.08, T:0.33
Consensus pattern (33 bp):
ACCAACAAGTAATTTTAGGTCAATTATACATAC
Found at i:8005959 original size:26 final size:27
Alignment explanation
Indices: 8005919--8006000 Score: 87
Period size: 26 Copynumber: 3.0 Consensus size: 27
8005909 TAAGAACATT
*
8005919 TTATGAAATTATATTTAATAATAATTA
1 TTATTAAATTATATTTAATAATAATTA
* *
8005946 TT-TTAAATTGTATTTAATCATATATT-
1 TTATTAAATTATATTTAATAATA-ATTA
* *
8005972 TTAATTAAAATATATTTAATATTAATTA
1 TT-ATTAAATTATATTTAATAATAATTA
8006000 T
1 T
8006001 AGTATCATAT
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
26 19 0.43
27 8 0.18
28 17 0.39
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.52
Consensus pattern (27 bp):
TTATTAAATTATATTTAATAATAATTA
Found at i:8006082 original size:18 final size:17
Alignment explanation
Indices: 8006054--8006088 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
8006044 ATTATTAAGA
*
8006054 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
8006071 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
8006089 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:8006179 original size:120 final size:120
Alignment explanation
Indices: 8006001--8006465 Score: 887
Period size: 120 Copynumber: 3.9 Consensus size: 120
8005991 TATTAATTAT
8006001 AGTATCATATATTATGATTTGAGTAAATT-ATATAAGAATATGAATTATTAAGAATTTTATTAAA
1 AGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATGAATTATTAAGAATTTTATTAAA
8006065 TTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTAC
66 TTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTAC
8006120 AGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATGAATTATTAAGAATTTTATTAAA
1 AGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATGAATTATTAAGAATTTTATTAAA
8006185 TTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTAC
66 TTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTAC
*
8006240 AGTATCATATATTATGATTTGACTAAATTAATATAAGAATATGAATTATTAAGAATTTTATTAAA
1 AGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATGAATTATTAAGAATTTTATTAAA
8006305 TTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTAC
66 TTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTAC
* *
8006360 AGTATCATATATTATGATTTGAGTAAATTAATATAAGGATATTAATTATTAAGAATTTTATTAAA
1 AGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATGAATTATTAAGAATTTTATTAAA
*
8006425 TTATATATTTTAATTAAAATATATTTAATAAAAATTATGTT
66 TTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
8006466 TAAATATGAT
Statistics
Matches: 340, Mismatches: 5, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
119 29 0.09
120 311 0.91
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.47
Consensus pattern (120 bp):
AGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATGAATTATTAAGAATTTTATTAAA
TTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTAC
Found at i:8006202 original size:18 final size:17
Alignment explanation
Indices: 8006174--8006208 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
8006164 ATTATTAAGA
*
8006174 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
8006191 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
8006209 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:8006322 original size:18 final size:17
Alignment explanation
Indices: 8006294--8006328 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
8006284 ATTATTAAGA
*
8006294 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
8006311 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
8006329 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:8006442 original size:18 final size:17
Alignment explanation
Indices: 8006414--8006448 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
8006404 ATTATTAAGA
*
8006414 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
8006431 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
8006449 TTAATAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:8006448 original size:16 final size:16
Alignment explanation
Indices: 8006414--8006468 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
8006404 ATTATTAAGA
8006414 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA--ATAT
8006431 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
*
8006447 A-TTTAATAAAAAT-T
1 ATTTTAATTAAAATAT
8006461 ATGTTTAA
1 AT-TTTAA
8006469 ATATGATTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 2 0.06
15 11 0.32
16 10 0.29
17 5 0.15
18 6 0.18
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:8007903 original size:43 final size:43
Alignment explanation
Indices: 8007854--8008124 Score: 262
Period size: 43 Copynumber: 6.3 Consensus size: 43
8007844 GTTTTTAGAA
* *
8007854 ACAAACGCCGCTAGAGACCAGGACCTTTAGCGGCGCTTTTCCC
1 ACAAACGCCGCTAAAGACCAGGACCTTTAGCGACGCTTTTCCC
* *
8007897 ACAAACGCCGCTAGAGACCAGGACCTTTAGCGACACTTTTCCC
1 ACAAACGCCGCTAAAGACCAGGACCTTTAGCGACGCTTTTCCC
* *
8007940 AAAAACGCCGCTAAAAACCAGGACCTTTAGCGACGCTTTTCCC
1 ACAAACGCCGCTAAAGACCAGGACCTTTAGCGACGCTTTTCCC
* * * **
8007983 ACAAACGCCACTAAAGACCAAGACCTTTAGCGGCAATTTT--C
1 ACAAACGCCGCTAAAGACCAGGACCTTTAGCGACGCTTTTCCC
* ** * * * * *
8008024 TCAAGTGCCGCTAAAGACCCA-AACCTATAACGACGTTTTTTCC
1 ACAAACGCCGCTAAAGA-CCAGGACCTTTAGCGACGCTTTTCCC
* * * ****
8008067 ACAAACGCCGCTATAG-CACAAGACCTTTAGCGACACTTTGATT
1 ACAAACGCCGCTAAAGAC-CAGGACCTTTAGCGACGCTTTTCCC
8008110 ACAAACGCCGCTAAA
1 ACAAACGCCGCTAAA
8008125 AGTACTATTA
Statistics
Matches: 186, Mismatches: 37, Indels: 10
0.80 0.16 0.04
Matches are distributed among these distances:
41 28 0.15
42 5 0.03
43 153 0.82
ACGTcount: A:0.31, C:0.32, G:0.17, T:0.20
Consensus pattern (43 bp):
ACAAACGCCGCTAAAGACCAGGACCTTTAGCGACGCTTTTCCC
Found at i:8007960 original size:86 final size:84
Alignment explanation
Indices: 8007855--8008125 Score: 294
Period size: 86 Copynumber: 3.2 Consensus size: 84
8007845 TTTTTAGAAA
* * * * *
8007855 CAAACGCCGCTAGAGACCAGGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAGAGACCAGGA
1 CAAACGCCGCTAAAAACCAGGACCTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAGACCAAGA
8007920 CCTTTAGCGACACTTTTCC
66 CCTTTAGCGACACTTTTCC
*
8007939 CAAAAACGCCGCTAAAAACCAGGACCTTTAGCGACGCTTTTCCCACAAACGCCACTAAAGACCAA
1 C--AAACGCCGCTAAAAACCAGGACCTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAGACCAA
* * *
8008004 GACCTTTAGCGGCAATTTTCT
64 GACCTTTAGCGACACTTTTCC
** * * * * * * *
8008025 CAAGTGCCGCTAAAGACCCA-AACCTATAACGACGTTTTTTCCACAAACGCCGCTATAG-CACAA
1 CAAACGCCGCTAAA-AACCAGGACCTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAGAC-CAA
**
8008088 GACCTTTAGCGACACTTTGATTA
64 GACCTTTAGCGACACTTT--TCC
8008111 CAAACGCCGCTAAAA
1 CAAACGCCGCTAAAA
8008126 GTACTATTAA
Statistics
Matches: 156, Mismatches: 25, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
83 1 0.01
84 62 0.40
85 5 0.03
86 88 0.56
ACGTcount: A:0.31, C:0.32, G:0.17, T:0.20
Consensus pattern (84 bp):
CAAACGCCGCTAAAAACCAGGACCTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAGACCAAGA
CCTTTAGCGACACTTTTCC
Found at i:8008387 original size:15 final size:15
Alignment explanation
Indices: 8008367--8008397 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
8008357 AGGGATATGG
8008367 ATCATCTTCATCTTC
1 ATCATCTTCATCTTC
*
8008382 ATCATCTTCTTCTTC
1 ATCATCTTCATCTTC
8008397 A
1 A
8008398 CTTTCAACTC
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:0.19, C:0.32, G:0.00, T:0.48
Consensus pattern (15 bp):
ATCATCTTCATCTTC
Found at i:8013581 original size:81 final size:83
Alignment explanation
Indices: 8013432--8013588 Score: 255
Period size: 81 Copynumber: 1.9 Consensus size: 83
8013422 CCTCTAACCT
8013432 CTAACCCCTAACCCCTAAACCTTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCCT
1 CTAACCCCTAACCCCTAAACCTTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCCT
*
8013497 AAACTCTAACCCAAATCC
66 AAACCCTAACCCAAATCC
* ** *
8013515 CTAACCCCTAACCCCTAAACCTTATTT-A-ATATAAATTAAAACATGCTAATTAATCTAAACCTT
1 CTAACCCCTAACCCCTAAACCTTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCCT
8013578 AAACCCTAACC
66 AAACCCTAACC
8013589 TAACATCGAA
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
81 41 0.59
82 1 0.01
83 27 0.39
ACGTcount: A:0.43, C:0.29, G:0.01, T:0.27
Consensus pattern (83 bp):
CTAACCCCTAACCCCTAAACCTTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCCT
AAACCCTAACCCAAATCC
Found at i:8013782 original size:14 final size:14
Alignment explanation
Indices: 8013763--8013799 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
8013753 ATCCTAAATT
*
8013763 AACCATATACCTTA
1 AACCATATACCCTA
8013777 AACCATATACCCTA
1 AACCATATACCCTA
*
8013791 AATCATATA
1 AACCATATA
8013800 TATTAAACCC
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:0.27, G:0.00, T:0.27
Consensus pattern (14 bp):
AACCATATACCCTA
Found at i:8014121 original size:41 final size:40
Alignment explanation
Indices: 8014057--8014210 Score: 161
Period size: 41 Copynumber: 3.8 Consensus size: 40
8014047 AAATATTTTT
8014057 GCGGCGCTTTTCTAAAAAG-GCCGCTAAAAGCCCGAGCATTA
1 GCGGCGCTTTT-TAAAAAGCGCCGCT-AAAGCCCGAGCATTA
** *
8014098 GCGGCG-TTTTTGAAAAAGCGCCGCTAAAGATCGAGCACTA
1 GCGGCGCTTTTT-AAAAAGCGCCGCTAAAGCCCGAGCATTA
* * * *
8014138 GCGGCGCTTTTTCAAAAA-TGCCGCTAAAGATCTGAGCATCA
1 GCGGCGCTTTTT-AAAAAGCGCCGCTAAAG-CCCGAGCATTA
* *
8014179 GCGACGCTTTTTAAAAAACGCCGCTAAAGCCC
1 GCGGCGCTTTTTAAAAAGCGCCGCTAAAGCCC
8014211 CGAAAGGTCA
Statistics
Matches: 94, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
39 1 0.01
40 44 0.47
41 49 0.52
ACGTcount: A:0.30, C:0.26, G:0.23, T:0.21
Consensus pattern (40 bp):
GCGGCGCTTTTTAAAAAGCGCCGCTAAAGCCCGAGCATTA
Found at i:8014195 original size:81 final size:81
Alignment explanation
Indices: 8014057--8014207 Score: 200
Period size: 81 Copynumber: 1.9 Consensus size: 81
8014047 AAATATTTTT
* * *
8014057 GCGGCGCTTTTCTAAAAAGGCCGCTAAAAGCCCGAGCATTAGCGGCGTTTTTGAAAAAGCGCCGC
1 GCGGCGCTTTTCTAAAAAGGCCGCTAAAAGCCCGAGCATCAGCGACGTTTTTGAAAAAACGCCGC
8014122 TAAAGATCGAGCACTA
66 TAAAGATCGAGCACTA
* * *
8014138 GCGGCGCTTTT-TCAAAAATGCCGCT-AAAGATCTGAGCATCAGCGACGCTTTTT-AAAAAACGC
1 GCGGCGCTTTTCT-AAAAAGGCCGCTAAAAG-CCCGAGCATCAGCGACG-TTTTTGAAAAAACGC
8014200 CGCTAAAG
63 CGCTAAAG
8014208 CCCCGAAAGG
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
80 5 0.08
81 51 0.84
82 5 0.08
ACGTcount: A:0.30, C:0.25, G:0.24, T:0.21
Consensus pattern (81 bp):
GCGGCGCTTTTCTAAAAAGGCCGCTAAAAGCCCGAGCATCAGCGACGTTTTTGAAAAAACGCCGC
TAAAGATCGAGCACTA
Found at i:8014289 original size:40 final size:41
Alignment explanation
Indices: 8014242--8014381 Score: 160
Period size: 40 Copynumber: 3.5 Consensus size: 41
8014232 GTTGGACTTA
* * * *
8014242 GATTTTTAGCGGTGTTTTTTCAAAAAACGTCACTAATGCTC
1 GATTTTTAGCGGCGTTTTTTCAAAAAGCGCCGCTAATGCTC
* **
8014283 -ATTTTTAGCGGCG-CTTTTCTGAAAGCGCCGCTAATGCTC
1 GATTTTTAGCGGCGTTTTTTCAAAAAGCGCCGCTAATGCTC
* * **
8014322 GATCTTTAGCGGCGTTTTAT-GTAAAGCGCCGCTAATGCTC
1 GATTTTTAGCGGCGTTTTTTCAAAAAGCGCCGCTAATGCTC
8014362 GATTTTTAGCGGCGTTTTTT
1 GATTTTTAGCGGCGTTTTTT
8014382 GTCCAAACGC
Statistics
Matches: 83, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
39 20 0.24
40 60 0.72
41 3 0.04
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.38
Consensus pattern (41 bp):
GATTTTTAGCGGCGTTTTTTCAAAAAGCGCCGCTAATGCTC
Found at i:8014317 original size:39 final size:40
Alignment explanation
Indices: 8014274--8014379 Score: 171
Period size: 40 Copynumber: 2.7 Consensus size: 40
8014264 AAAAACGTCA
*
8014274 CTAATGCTC-ATTTTTAGCGGCGCTTTTCTG-AAAGCGCCG
1 CTAATGCTCGATTTTTAGCGGCG-TTTTATGTAAAGCGCCG
*
8014313 CTAATGCTCGATCTTTAGCGGCGTTTTATGTAAAGCGCCG
1 CTAATGCTCGATTTTTAGCGGCGTTTTATGTAAAGCGCCG
8014353 CTAATGCTCGATTTTTAGCGGCGTTTT
1 CTAATGCTCGATTTTTAGCGGCGTTTT
8014380 TTGTCCAAAC
Statistics
Matches: 62, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
39 15 0.24
40 47 0.76
ACGTcount: A:0.18, C:0.23, G:0.24, T:0.36
Consensus pattern (40 bp):
CTAATGCTCGATTTTTAGCGGCGTTTTATGTAAAGCGCCG
Found at i:8014602 original size:13 final size:13
Alignment explanation
Indices: 8014586--8014631 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
8014576 TACACTAAAA
8014586 TTATATTATGAAT
1 TTATATTATGAAT
8014599 TTATA-TAT-ACAT
1 TTATATTATGA-AT
**
8014611 TTATATTATGCTT
1 TTATATTATGAAT
8014624 TTATATTA
1 TTATATTA
8014632 GTCGTGATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
11 1 0.04
12 10 0.36
13 17 0.61
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (13 bp):
TTATATTATGAAT
Found at i:8014608 original size:30 final size:29
Alignment explanation
Indices: 8014552--8014609 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
8014542 TTTGTGCATT
*
8014552 TAAAATATATTATAAATATTTTTATACAC
1 TAAAATATATTATAAATATTTATATACAC
*
8014581 TAAAATTATATTATGAAT-TTATATATACA
1 TAAAA-TATATTATAAATATT-TATATACA
8014610 TTTATATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 7 0.28
30 18 0.72
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (29 bp):
TAAAATATATTATAAATATTTATATACAC
Found at i:8016862 original size:11 final size:11
Alignment explanation
Indices: 8016811--8016862 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
8016801 TTCATTTGTT
8016811 TTCACCACC-A
1 TTCACCACCAA
*
8016821 TTAACCACCAA
1 TTCACCACCAA
*
8016832 TGCACCACCTAA
1 TTCACCACC-AA
* *
8016844 TACACCACCAC
1 TTCACCACCAA
8016855 TTCACCAC
1 TTCACCAC
8016863 TGTCCCTCCT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
10 8 0.24
11 16 0.47
12 10 0.29
ACGTcount: A:0.35, C:0.46, G:0.02, T:0.17
Consensus pattern (11 bp):
TTCACCACCAA
Found at i:8021916 original size:27 final size:27
Alignment explanation
Indices: 8021850--8021918 Score: 102
Period size: 27 Copynumber: 2.6 Consensus size: 27
8021840 AAACCTAAAT
*
8021850 CTCGGATACCACTTGGTTCGAACTTGG
1 CTCGGATACCACTTGGTTCAAACTTGG
* * *
8021877 CTTGAATATCACTTGGTTCAAACTTGG
1 CTCGGATACCACTTGGTTCAAACTTGG
8021904 CTCGGATACCACTTG
1 CTCGGATACCACTTG
8021919 TCACGGGGCT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.32
Consensus pattern (27 bp):
CTCGGATACCACTTGGTTCAAACTTGG
Found at i:8029969 original size:14 final size:14
Alignment explanation
Indices: 8029950--8029982 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
8029940 TTATAAATTT
8029950 TATATACATACATA
1 TATATACATACATA
*
8029964 TATATACATACTTA
1 TATATACATACATA
8029978 TATAT
1 TATAT
8029983 CTTTTTATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.42
Consensus pattern (14 bp):
TATATACATACATA
Found at i:8033078 original size:23 final size:24
Alignment explanation
Indices: 8033036--8033080 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
8033026 ATACTTATTT
8033036 TTATATCATAAAAAACTAAAATAA
1 TTATATCATAAAAAACTAAAATAA
8033060 TTATAT-ATTAAAAAA-TAAAAT
1 TTATATCA-TAAAAAACTAAAAT
8033081 TTAATTCAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.33
Consensus pattern (24 bp):
TTATATCATAAAAAACTAAAATAA
Found at i:8034314 original size:13 final size:13
Alignment explanation
Indices: 8034296--8034321 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8034286 AATTATCATA
8034296 AATTTAACAATAT
1 AATTTAACAATAT
8034309 AATTTAACAATAT
1 AATTTAACAATAT
8034322 CACGATTAGA
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:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (13 bp):
AATTTAACAATAT
Found at i:8040175 original size:154 final size:147
Alignment explanation
Indices: 8039938--8040279 Score: 470
Period size: 154 Copynumber: 2.3 Consensus size: 147
8039928 AACATGTTCG
* * *
8039938 TATTTCGGCCTTTTGTTCGTATTTTTTTCTGAATTTTATTCCTTTAAAAAAAATACTATTTTCTA
1 TATTTCGGCCATTTGTTCGTATTTTTTTCTAAATTTTATTACTTTAAAAAAAATACTATTTTCTA
* * * *
8040003 ATTTTATTATTTTACATTATTTTTGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTA
66 ATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTATTTTTTA
*
8040068 AATAAATTTAAAAAAACTCT
131 AATAAA-TTAAAAAAA--AT
* * *
8040088 TATTTCGGCCCTTTGTTCGTATTTTTTTCCTAAATTTTATTACTTTCAATAAAAATTTATTATTT
1 TATTTCGGCCATTTGTTCGTATTTTTTT-CTAAATTTTATTACTTT-AA-AAAAA-ATACTATTT
8040153 T-TATATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTATT
62 TCTA-ATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTATT
8040217 TTTTAAATAAATTAAAAAAAAT
126 TTTTAAATAAATTAAAAAAAAT
** *
8040239 TATTTCATCCATTTGTTTGTATTTTTTTTCTAAATTTTATT
1 TATTTCGGCCATTTGTTCGTA-TTTTTTTCTAAATTTTATT
8040280 TAAATAAATT
Statistics
Matches: 172, Mismatches: 14, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
150 27 0.16
151 45 0.26
152 9 0.05
153 16 0.09
154 75 0.44
ACGTcount: A:0.30, C:0.09, G:0.07, T:0.55
Consensus pattern (147 bp):
TATTTCGGCCATTTGTTCGTATTTTTTTCTAAATTTTATTACTTTAAAAAAAATACTATTTTCTA
ATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTATTTTTTA
AATAAATTAAAAAAAAT
Found at i:8041040 original size:106 final size:106
Alignment explanation
Indices: 8040906--8041426 Score: 734
Period size: 106 Copynumber: 5.0 Consensus size: 106
8040896 GTAAAAAAAA
*
8040906 TGGTGGTGGCCTGGCAATGGCCAGCACCACCTTTTGTAAAAAAAAATTTTAC-TTTTTCTGTGTC
1 TGGTGGTGGCCTGGCAATGGCCGGCACCACCTTTTGT-AAAAAAAATTTTACTTTTTTC-GTGTC
*
8040970 AGATGAAGCTATCAGTATACGAAAGAAGTAAAAAAAAAAATTT
64 AGATGAAGCTATCAGTATACGAAAAAAGTAAAAAAAAAAATTT
** *****
8041013 T-GTGGTGGCCTGGCAATGTTCGGCACCACCTTTTGTAAATTTTTTTTTACTTTTTTTCGTGTCA
1 TGGTGGTGGCCTGGCAATGGCCGGCACCACCTTTTGTAAAAAAAATTTTAC-TTTTTTCGTGTCA
*
8041077 GATGAAGCTATCAGTATACGAAAAAAGT-AAAAAAAAATTTT
65 GATGAAGCTATCAGTATACGAAAAAAGTAAAAAAAAAAATTT
* * *
8041118 TGGTAGTGGCCTGACAATGGTCGGCACCACCTTTTGTAAAAAAAA-TTTACTTTTTTCGTGTCAG
1 TGGTGGTGGCCTGGCAATGGCCGGCACCACCTTTTGTAAAAAAAATTTTACTTTTTTCGTGTCAG
* *
8041182 ATGAAGCCATCAATATACGAAAAAAGTAAAAAAAAAAA-TT
66 ATGAAGCTATCAGTATACGAAAAAAGTAAAAAAAAAAATTT
8041222 TGGTGGTGGCCTGGCAATGGCCGGCACCACCTTTTGTAAAAAAAA---TACTTTTTTTCGTGTCA
1 TGGTGGTGGCCTGGCAATGGCCGGCACCACCTTTTGTAAAAAAAATTTTAC-TTTTTTCGTGTCA
*
8041284 GATGAAGCTATTAGTATACGAAAAAAGTAAAAAAAAAAATTT
65 GATGAAGCTATCAGTATACGAAAAAAGTAAAAAAAAAAATTT
* ***** *
8041326 TGGTGGTGGCCTGGCAATGGCCGGTACCACCTTTTGTAAATTTTTTTTTACTTTTTTCGTGTTAG
1 TGGTGGTGGCCTGGCAATGGCCGGCACCACCTTTTGTAAAAAAAATTTTACTTTTTTCGTGTCAG
*
8041391 ATGAAGCTATTAGTATACGAAAAAAGTAAAAAAAAA
66 ATGAAGCTATCAGTATACGAAAAAAGTAAAAAAAAA
8041427 TTTGGTAGCG
Statistics
Matches: 371, Mismatches: 34, Indels: 19
0.88 0.08 0.04
Matches are distributed among these distances:
102 3 0.01
103 49 0.13
104 124 0.33
105 36 0.10
106 149 0.40
107 10 0.03
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.32
Consensus pattern (106 bp):
TGGTGGTGGCCTGGCAATGGCCGGCACCACCTTTTGTAAAAAAAATTTTACTTTTTTCGTGTCAG
ATGAAGCTATCAGTATACGAAAAAAGTAAAAAAAAAAATTT
Found at i:8041429 original size:104 final size:104
Alignment explanation
Indices: 8040884--8041426 Score: 708
Period size: 104 Copynumber: 5.2 Consensus size: 104
8040874 CAATACCAGA
*
8040884 ATACGAGAAAAAGT--AAAAAAAA---TGGTGGTGGCCTGGCAATGGCCAGCACCACCTTTTGTA
1 ATACGA-AAAAAGTAAAAAAAAAATTTTGGTGGTGGCCTGGCAATGGCCGGCACCACCTTTTGT-
8040944 AAAAAAAATTTTAC-TTTTTCTGTGTCAGATGAAGCTATCAGT
64 -AAAAAAATTTTACTTTTTTC-GTGTCAGATGAAGCTATCAGT
* **
8040986 ATACGAAAGAAGTAAAAAAAAAAATTTT-GTGGTGGCCTGGCAATGTTCGGCACCACCTTTTGTA
1 ATACGAAAAAAGT-AAAAAAAAAATTTTGGTGGTGGCCTGGCAATGGCCGGCACCACCTTTTGTA
****
8041050 AATTTTTTTTTACTTTTTTTCGTGTCAGATGAAGCTATCAGT
65 AA-AAAATTTTAC-TTTTTTCGTGTCAGATGAAGCTATCAGT
* * * *
8041092 ATACGAAAAAAGTAAAAAAAAATTTTTGGTAGTGGCCTGACAATGGTCGGCACCACCTTTTGTAA
1 ATACGAAAAAAGTAAAAAAAAAATTTTGGTGGTGGCCTGGCAATGGCCGGCACCACCTTTTGTAA
* * *
8041157 AAAAAATTTACTTTTTTCGTGTCAGATGAAGCCATCAAT
66 AAAAATTTTACTTTTTTCGTGTCAGATGAAGCTATCAGT
*
8041196 ATACGAAAAAAGTAAAAAAAAAAATTTGGTGGTGGCCTGGCAATGGCCGGCACCACCTTTTGTAA
1 ATACGAAAAAAGTAAAAAAAAAATTTTGGTGGTGGCCTGGCAATGGCCGGCACCACCTTTTGTAA
* *
8041261 AAAAA--ATACTTTTTTTCGTGTCAGATGAAGCTATTAGT
66 AAAAATTTTAC-TTTTTTCGTGTCAGATGAAGCTATCAGT
*
8041299 ATACGAAAAAAGTAAAAAAAAAAATTTTGGTGGTGGCCTGGCAATGGCCGGTACCACCTTTTGTA
1 ATACGAAAAAAGT-AAAAAAAAAATTTTGGTGGTGGCCTGGCAATGGCCGGCACCACCTTTTGTA
**** * *
8041364 AATTTTTTTTTACTTTTTTCGTGTTAGATGAAGCTATTAGT
65 AA-AAAATTTTACTTTTTTCGTGTCAGATGAAGCTATCAGT
8041405 ATACGAAAAAAGTAAAAAAAAA
1 ATACGAAAAAAGTAAAAAAAAA
8041427 TTTGGTAGCG
Statistics
Matches: 389, Mismatches: 37, Indels: 27
0.86 0.08 0.06
Matches are distributed among these distances:
101 6 0.02
102 9 0.02
103 38 0.10
104 153 0.39
105 33 0.08
106 140 0.36
107 10 0.03
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31
Consensus pattern (104 bp):
ATACGAAAAAAGTAAAAAAAAAATTTTGGTGGTGGCCTGGCAATGGCCGGCACCACCTTTTGTAA
AAAAATTTTACTTTTTTCGTGTCAGATGAAGCTATCAGT
Found at i:8043255 original size:103 final size:103
Alignment explanation
Indices: 8043021--8043589 Score: 696
Period size: 104 Copynumber: 5.5 Consensus size: 103
8043011 TTTTTTTTTT
* * ** *
8043021 AAAAGGTGGTGTCGGCCATTGCCAGGCCACAACCAAAATTTTTTTTACTTTTTTCGTATACCGAT
1 AAAAGGTGGTGCCGGCCATTGCCAGGCCACCACCAATTTTTTTTTTACTTTTTTCGTATACTGAT
* * *
8043086 AGCTTTATCTGACACG-AAAAAGTAAAAAAAAAAATTTAC
66 AGCTTCATCTGACACGAAAAAAGT--AATATAAAATTTAC
*
8043125 AAAAGGTGGTGCCGGCCATTGCCAGGCCACCACCAATTTTTTTTTTACTTTTTTCGTATATTGAT
1 AAAAGGTGGTGCCGGCCATTGCCAGGCCACCACCAATTTTTTTTTTACTTTTTTCGTATACTGAT
* * ****
8043190 AGCTTCATTTGACACGAAAAAAGTAATTTTTTTTTTAC
66 AGCTTCATCTGACACGAAAAAAGTAATATAAAATTTAC
* * * * *
8043228 AAAATGTGGTGCCGGCCATTGCTAGGCCACAACC-TTTTTTTTTTTATTTTTTTCGTATACTGAT
1 AAAAGGTGGTGCCGGCCATTGCCAGGCCACCACCAATTTTTTTTTTACTTTTTTCGTATACTGAT
* *
8043292 AGCTTCATTTGACACGAAAAAAAGTAA-AAAAAATTTAC
66 AGCTTCATCTGACACG-AAAAAAGTAATATAAAATTTAC
* * ** *
8043330 AAAATGTGGTGCCGGCCATTGCGAGGCCACCA-CAAAATTTTTTTTACTTTTTTCGTATATTGAT
1 AAAAGGTGGTGCCGGCCATTGCCAGGCCACCACCAATTTTTTTTTTACTTTTTTCGTATACTGAT
* * *
8043394 AGCTTTATCTGACACGAAAAAAAGTAAAAGAAAATTTAC
66 AGCTTCATCTGACACG-AAAAAAGTAATATAAAATTTAC
* *
8043433 AGAAGGTGGTGCCGGCCATTGCTAGGCCACCACCAATTTTTTTTTTACTTTTTTCGTATACTGAT
1 AAAAGGTGGTGCCGGCCATTGCCAGGCCACCACCAATTTTTTTTTTACTTTTTTCGTATACTGAT
* * ****
8043498 AGCTTCATCTGACACGAAAAAATTAATTTTTTTTTTAC
66 AGCTTCATCTGACACGAAAAAAGTAATATAAAATTTAC
* **
8043536 AAAAAGTGGTGCCGGCCATTGCCAGGCCACCATAAATTTTTTTTTTTACTTTTT
1 AAAAGGTGGTGCCGGCCATTGCCAGGCCACCACCAA-TTTTTTTTTTACTTTTT
8043590 CTTGTATTCT
Statistics
Matches: 402, Mismatches: 57, Indels: 12
0.85 0.12 0.03
Matches are distributed among these distances:
101 1 0.00
102 128 0.32
103 132 0.33
104 134 0.33
105 7 0.02
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (103 bp):
AAAAGGTGGTGCCGGCCATTGCCAGGCCACCACCAATTTTTTTTTTACTTTTTTCGTATACTGAT
AGCTTCATCTGACACGAAAAAAGTAATATAAAATTTAC
Found at i:8043590 original size:103 final size:103
Alignment explanation
Indices: 8043021--8043589 Score: 680
Period size: 103 Copynumber: 5.5 Consensus size: 103
8043011 TTTTTTTTTT
* * * *
8043021 AAAAGGTGGTGTCGGCCATTGCCAGGCCACAACCAAA-ATTTTTTTTACTTTTTTCGTATACCGA
1 AAAAGGTGGTGCCGGCCATTGCCAGGCCACCA-CAAATTTTTTTTTTACTTTTTTCGTATACTGA
* * *
8043085 TAGCTTTATCTGACACG-AAAAAGTAAAAAAAAAAATTTAC
65 TAGCTTCATCTGACACGAAAAAAGT--AATATAAAATTTAC
* *
8043125 AAAAGGTGGTGCCGGCCATTGCCAGGCCACCACCAATTTTTTTTTTACTTTTTTCGTATATTGAT
1 AAAAGGTGGTGCCGGCCATTGCCAGGCCACCACAAATTTTTTTTTTACTTTTTTCGTATACTGAT
* * ****
8043190 AGCTTCATTTGACACGAAAAAAGTAATTTTTTTTTTAC
66 AGCTTCATCTGACACGAAAAAAGTAATATAAAATTTAC
* * * ** *
8043228 AAAATGTGGTGCCGGCCATTGCTAGGCCACAAC-CTTTTTTTTTTTATTTTTTTCGTATACTGAT
1 AAAAGGTGGTGCCGGCCATTGCCAGGCCACCACAAATTTTTTTTTTACTTTTTTCGTATACTGAT
* *
8043292 AGCTTCATTTGACACGAAAAAAAGTAA-AAAAAATTTAC
66 AGCTTCATCTGACACG-AAAAAAGTAATATAAAATTTAC
* * * *
8043330 AAAATGTGGTGCCGGCCATTGCGAGGCCACCACAAA-ATTTTTTTTACTTTTTTCGTATATTGAT
1 AAAAGGTGGTGCCGGCCATTGCCAGGCCACCACAAATTTTTTTTTTACTTTTTTCGTATACTGAT
* * *
8043394 AGCTTTATCTGACACGAAAAAAAGTAAAAGAAAATTTAC
66 AGCTTCATCTGACACG-AAAAAAGTAATATAAAATTTAC
* * *
8043433 AGAAGGTGGTGCCGGCCATTGCTAGGCCACCACCAATTTTTTTTTTACTTTTTTCGTATACTGAT
1 AAAAGGTGGTGCCGGCCATTGCCAGGCCACCACAAATTTTTTTTTTACTTTTTTCGTATACTGAT
* * ****
8043498 AGCTTCATCTGACACGAAAAAATTAATTTTTTTTTTAC
66 AGCTTCATCTGACACGAAAAAAGTAATATAAAATTTAC
* *
8043536 AAAAAGTGGTGCCGGCCATTGCCAGGCCACCATAAATTTTTTTTTTTACTTTTT
1 AAAAGGTGGTGCCGGCCATTGCCAGGCCACCACAAA-TTTTTTTTTTACTTTTT
8043590 CTTGTATTCT
Statistics
Matches: 400, Mismatches: 58, Indels: 14
0.85 0.12 0.03
Matches are distributed among these distances:
102 129 0.32
103 137 0.34
104 127 0.32
105 7 0.02
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (103 bp):
AAAAGGTGGTGCCGGCCATTGCCAGGCCACCACAAATTTTTTTTTTACTTTTTTCGTATACTGAT
AGCTTCATCTGACACGAAAAAAGTAATATAAAATTTAC
Found at i:8044372 original size:22 final size:24
Alignment explanation
Indices: 8044347--8044390 Score: 56
Period size: 22 Copynumber: 1.9 Consensus size: 24
8044337 GCTTCTTGCA
8044347 ATTTCTTGATTC-AATT-TTTAGG
1 ATTTCTTGATTCTAATTGTTTAGG
* *
8044369 ATTTTTTTATTCTAATTGTTTA
1 ATTTCTTGATTCTAATTGTTTA
8044391 ATTATTAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 10 0.56
23 4 0.22
24 4 0.22
ACGTcount: A:0.23, C:0.07, G:0.09, T:0.61
Consensus pattern (24 bp):
ATTTCTTGATTCTAATTGTTTAGG
Found at i:8045980 original size:23 final size:19
Alignment explanation
Indices: 8045952--8046013 Score: 52
Period size: 23 Copynumber: 2.8 Consensus size: 19
8045942 TTGATATTGT
8045952 TTTTAAACTTATTATTAGTGTAA
1 TTTTAAA-TTATTATTA-T-T-A
8045975 TTTTAAAATATAATATATTATTA
1 TTTT-AAAT-T-AT-TATTATTA
8045998 TTTTAAATTATTATTA
1 TTTTAAATTATTATTA
8046014 ACATTATTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
19 5 0.14
20 2 0.06
21 1 0.03
22 4 0.11
23 10 0.29
24 5 0.14
25 3 0.09
26 5 0.14
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (19 bp):
TTTTAAATTATTATTATTA
Found at i:8046083 original size:24 final size:24
Alignment explanation
Indices: 8046020--8046088 Score: 75
Period size: 24 Copynumber: 2.8 Consensus size: 24
8046010 ATTAACATTA
*
8046020 TTTAAATTTATCATACATTAATGT
1 TTTAAATTTATCATAGATTAATGT
* * **
8046044 TTTAAGTTTATTATAGATTTTTGT
1 TTTAAATTTATCATAGATTAATGT
*
8046068 TTTAAATTTAACATAGTATTA
1 TTTAAATTTATCATAG-ATTA
8046089 TTTACTTCAT
Statistics
Matches: 35, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
24 32 0.91
25 3 0.09
ACGTcount: A:0.35, C:0.04, G:0.07, T:0.54
Consensus pattern (24 bp):
TTTAAATTTATCATAGATTAATGT
Found at i:8046371 original size:31 final size:31
Alignment explanation
Indices: 8046296--8046371 Score: 118
Period size: 30 Copynumber: 2.5 Consensus size: 31
8046286 TAAGTATATA
*
8046296 TTAATATTTTGATTTCACTATGATTAATAATT
1 TTAAGATTTT-ATTTCACTATGATTAATAATT
*
8046328 TTAAG-TTTTATTTCATTATGATTAATAATT
1 TTAAGATTTTATTTCACTATGATTAATAATT
8046358 TTAAGATTTTATTT
1 TTAAGATTTTATTT
8046372 ATATATGTAT
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
30 25 0.61
31 12 0.29
32 4 0.10
ACGTcount: A:0.33, C:0.04, G:0.07, T:0.57
Consensus pattern (31 bp):
TTAAGATTTTATTTCACTATGATTAATAATT
Found at i:8047932 original size:24 final size:23
Alignment explanation
Indices: 8047889--8047933 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
8047879 TACATACATA
*
8047889 TACATTTTTATAATATATATACT
1 TACATTTTTATAATAAATATACT
*
8047912 TACATTTTTTATTATAAATATA
1 TACA-TTTTTATAATAAATATA
8047934 TACTTTTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (23 bp):
TACATTTTTATAATAAATATACT
Found at i:8047941 original size:22 final size:23
Alignment explanation
Indices: 8047889--8047941 Score: 58
Period size: 24 Copynumber: 2.4 Consensus size: 23
8047879 TACATACATA
*
8047889 TACA-TTTTTATAATATATATAC
1 TACATTTTTTATAATAAATATAC
*
8047911 TTACATTTTTTATTATAAATATA-
1 -TACATTTTTTATAATAAATATAC
8047934 TAC-TTTTT
1 TACATTTTT
8047942 ATGTTTCACA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 5 0.19
22 3 0.11
23 4 0.15
24 15 0.56
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.57
Consensus pattern (23 bp):
TACATTTTTTATAATAAATATAC
Found at i:8049340 original size:11 final size:11
Alignment explanation
Indices: 8049324--8049357 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
8049314 TCAATTATTT
8049324 TCTCAATTTCC
1 TCTCAATTTCC
*
8049335 TCTCAATTTGC
1 TCTCAATTTCC
8049346 TCTCAATTTCC
1 TCTCAATTTCC
8049357 T
1 T
8049358 TCCAAAATTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.18, C:0.32, G:0.03, T:0.47
Consensus pattern (11 bp):
TCTCAATTTCC
Found at i:8049370 original size:22 final size:22
Alignment explanation
Indices: 8049324--8049373 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
8049314 TCAATTATTT
*
8049324 TCTCAATTTCCTCTCAATTTGC
1 TCTCAATTTCCTCTCAAATTGC
8049346 TCTCAATTTCCT-TCCAAAATT-C
1 TCTCAATTTCCTCT-C-AAATTGC
8049368 TCTCAA
1 TCTCAA
8049374 ATTCATATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 1 0.04
22 20 0.80
23 4 0.16
ACGTcount: A:0.24, C:0.32, G:0.02, T:0.42
Consensus pattern (22 bp):
TCTCAATTTCCTCTCAAATTGC
Found at i:8049921 original size:112 final size:112
Alignment explanation
Indices: 8049724--8049937 Score: 365
Period size: 112 Copynumber: 1.9 Consensus size: 112
8049714 ATATTTTTTT
* *
8049724 GTACCAATCAAAACATTTTGTAAAATCTAACATTTTTTTAGTAAAATTATTAATTGTTAATTGTA
1 GTACCAATCAAAACATTTTGTAAAATCTAACATTTTGTTAGTAAAATTATTAATTGTTAATTATA
*
8049789 TTATTTGTTAGTAAATTTATCAAATTATATCAAATTATTAATTATTA
66 TTAATTGTTAGTAAATTTATCAAATTATATCAAATTATTAATTATTA
* * *
8049836 GTACCAGTCAAAATATTTTGTAAAATCTAACATTTTGTTAGTCAAATTATTAATTGTTAATTATA
1 GTACCAATCAAAACATTTTGTAAAATCTAACATTTTGTTAGTAAAATTATTAATTGTTAATTATA
*
8049901 TTAATTGTTAGTAAATTTATCAAATTATATCATATTA
66 TTAATTGTTAGTAAATTTATCAAATTATATCAAATTA
8049938 GGGTTAGGTT
Statistics
Matches: 95, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
112 95 1.00
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.46
Consensus pattern (112 bp):
GTACCAATCAAAACATTTTGTAAAATCTAACATTTTGTTAGTAAAATTATTAATTGTTAATTATA
TTAATTGTTAGTAAATTTATCAAATTATATCAAATTATTAATTATTA
Found at i:8050019 original size:11 final size:11
Alignment explanation
Indices: 8050003--8050033 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
8049993 ATTTGGAAGG
8050003 AAATTGAGAGC
1 AAATTGAGAGC
*
8050014 AAATTGAGAGG
1 AAATTGAGAGC
8050025 AAATTGAGA
1 AAATTGAGA
8050034 AAATAATTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.48, C:0.03, G:0.29, T:0.19
Consensus pattern (11 bp):
AAATTGAGAGC
Found at i:8056255 original size:11 final size:11
Alignment explanation
Indices: 8056239--8056272 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
8056229 ATGTATATTG
8056239 TTTATTTCAAA
1 TTTATTTCAAA
*
8056250 TTTATTTCCAA
1 TTTATTTCAAA
8056261 TTTATTTCAAA
1 TTTATTTCAAA
8056272 T
1 T
8056273 ACTAATTATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.32, C:0.12, G:0.00, T:0.56
Consensus pattern (11 bp):
TTTATTTCAAA
Found at i:8056291 original size:25 final size:22
Alignment explanation
Indices: 8056241--8056291 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 22
8056231 GTATATTGTT
* *
8056241 TATTTCAAATTTATTTCCAATT
1 TATTTCAAATTAATTTCCAATG
8056263 TATTTCAAATACTAATTATCCAATG
1 TATTTCAAAT--TAATT-TCCAATG
8056288 TATT
1 TATT
8056292 ATTATTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 10 0.42
24 4 0.17
25 10 0.42
ACGTcount: A:0.35, C:0.14, G:0.02, T:0.49
Consensus pattern (22 bp):
TATTTCAAATTAATTTCCAATG
Found at i:8059838 original size:29 final size:30
Alignment explanation
Indices: 8059779--8059836 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
8059769 TCCGAGCCTT
*
8059779 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
8059809 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
8059837 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:8060066 original size:13 final size:13
Alignment explanation
Indices: 8060048--8060079 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
8060038 TTTCCAGCAA
8060048 TTATGAATTTATT
1 TTATGAATTTATT
8060061 TTATGAATTTATT
1 TTATGAATTTATT
*
8060074 TGATGA
1 TTATGA
8060080 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:8060287 original size:50 final size:50
Alignment explanation
Indices: 8060174--8060415 Score: 279
Period size: 50 Copynumber: 4.7 Consensus size: 50
8060164 ATTTGGGTAA
* * * **
8060174 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCTTTAAGATCATG
1 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCA-C--CGAGA-C--G
8060230 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * * *
8060280 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* *
8060330 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
***
8060380 AGAACACCCCATGTAAGACCATGTCTGGGACATGGC
1 AGAGGTCCCC-TGTAAGACCATGTCTGGGACATGGC
8060416 TTTGGCATGT
Statistics
Matches: 165, Mismatches: 19, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 96 0.58
51 24 0.15
52 1 0.01
53 3 0.02
55 1 0.01
56 39 0.24
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:8060363 original size:100 final size:103
Alignment explanation
Indices: 8060174--8060423 Score: 346
Period size: 100 Copynumber: 2.4 Consensus size: 103
8060164 ATTTGGGTAA
8060174 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCTTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC--T-AGATCATGAGAGGTCCC
* *
8060239 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * * *
8060280 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-C-CGA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCTAGATCATGAGAGGTCCCCTA
8060342 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* * *
8060380 AGAACACCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
8060424 GTTATTATCA
Statistics
Matches: 131, Mismatches: 10, Indels: 10
0.87 0.07 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.39
101 38 0.29
105 1 0.01
106 40 0.31
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCTAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:8061868 original size:42 final size:42
Alignment explanation
Indices: 8061821--8061948 Score: 116
Period size: 42 Copynumber: 3.0 Consensus size: 42
8061811 CGAAGGCTAT
* *
8061821 ACAGAAGCACAT-GAGTGCTAAACAGAAACCCATAAGGGTTGA
1 ACAGAAGCACATAG-GAGCTAAACAGAAACCCATAAGGGTTAA
** **
8061863 ACAGAAGTTCATAGGAGCTAAATGGAAACCCATAAGGGTTAA
1 ACAGAAGCACATAGGAGCTAAACAGAAACCCATAAGGGTTAA
* * * * * *
8061905 ACTGAAGCTCAAAAGAGCTAAACGGAAACCTACT-AGGGTTAA
1 ACAGAAGCACATAGGAGCTAAACAGAAACCCA-TAAGGGTTAA
8061947 AC
1 AC
8061949 GGAAACTCAT
Statistics
Matches: 72, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
42 70 0.97
43 2 0.03
ACGTcount: A:0.43, C:0.18, G:0.23, T:0.16
Consensus pattern (42 bp):
ACAGAAGCACATAGGAGCTAAACAGAAACCCATAAGGGTTAA
Found at i:8061966 original size:21 final size:21
Alignment explanation
Indices: 8061871--8061994 Score: 74
Period size: 21 Copynumber: 6.0 Consensus size: 21
8061861 GAACAGAAGT
* *
8061871 TCATAGGAGCTAAATGGAAAC
1 TCATAAGAGCTAAACGGAAAC
* * * * *
8061892 CCATAAGGGTTAAACTGAAGC
1 TCATAAGAGCTAAACGGAAAC
*
8061913 TCAAAAGAGCTAAACGGAAAC
1 TCATAAGAGCTAAACGGAAAC
* *
8061934 -C-TACTAGGGTTAAACGGAAAC
1 TCATA--AGAGCTAAACGGAAAC
* * * *
8061955 TCATATGAG-TTAACTGAAGC
1 TCATAAGAGCTAAACGGAAAC
*
8061975 TCATGAGAGCTAAACGGAAA
1 TCATAAGAGCTAAACGGAAA
8061995 GTAAACACGA
Statistics
Matches: 72, Mismatches: 26, Indels: 10
0.67 0.24 0.09
Matches are distributed among these distances:
19 1 0.01
20 16 0.22
21 52 0.72
22 1 0.01
23 2 0.03
ACGTcount: A:0.42, C:0.17, G:0.23, T:0.19
Consensus pattern (21 bp):
TCATAAGAGCTAAACGGAAAC
Found at i:8067389 original size:20 final size:20
Alignment explanation
Indices: 8067365--8067413 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
8067355 TTAAAAATAT
8067365 TTAAAAAAATTCA-AAAAAC
1 TTAAAAAAATTCATAAAAAC
** *
8067384 TATAAAAATTTTCATAAAATC
1 T-TAAAAAAATTCATAAAAAC
8067405 TTAAAAAAA
1 TTAAAAAAA
8067414 AAAGAATGAA
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
19 1 0.04
20 16 0.70
21 6 0.26
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (20 bp):
TTAAAAAAATTCATAAAAAC
Found at i:8077174 original size:23 final size:23
Alignment explanation
Indices: 8077148--8077202 Score: 83
Period size: 23 Copynumber: 2.4 Consensus size: 23
8077138 AGGGCTTGTT
8077148 TAAAAATAATATAGTGAGTTGAA
1 TAAAAATAATATAGTGAGTTGAA
*
8077171 TAAAAATAGTATAGTGAGTTGAA
1 TAAAAATAATATAGTGAGTTGAA
* *
8077194 GAGAAATAA
1 TAAAAATAA
8077203 AAAAAAAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.20, T:0.27
Consensus pattern (23 bp):
TAAAAATAATATAGTGAGTTGAA
Done.