Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 29 of 410
Found at i:7260860 original size:8 final size:8
Alignment explanation
Indices: 7260847--7260874 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
7260837 TGAATATATA
7260847 TGTGGAAT
1 TGTGGAAT
7260855 TGTGGAAT
1 TGTGGAAT
7260863 TGTGGAAT
1 TGTGGAAT
7260871 TGTG
1 TGTG
7260875 CAAATATGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.21, C:0.00, G:0.39, T:0.39
Consensus pattern (8 bp):
TGTGGAAT
Found at i:7261031 original size:25 final size:24
Alignment explanation
Indices: 7260991--7261091 Score: 93
Period size: 22 Copynumber: 4.3 Consensus size: 24
7260981 CTCTAGCGCA
* *
7260991 CTCTCTGATAATTAGCACGTTAGTG
1 CTCTCTGATTA-TAGCACATTAGTG
7261016 CTCTCTGATTACTAGCACATTAGTG
1 CTCTCTGATTA-TAGCACATTAGTG
* *
7261041 CTTTCTG-TT-TAGCACATTCGTG
1 CTCTCTGATTATAGCACATTAGTG
* *
7261063 CTCTCTG--TATAGTACTTTAGTG
1 CTCTCTGATTATAGCACATTAGTG
*
7261085 TTCTCTG
1 CTCTCTG
7261092 TTCATTAGTG
Statistics
Matches: 65, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
21 1 0.02
22 34 0.52
24 2 0.03
25 28 0.43
ACGTcount: A:0.19, C:0.22, G:0.18, T:0.42
Consensus pattern (24 bp):
CTCTCTGATTATAGCACATTAGTG
Found at i:7261056 original size:22 final size:22
Alignment explanation
Indices: 7261002--7261093 Score: 94
Period size: 22 Copynumber: 4.0 Consensus size: 22
7260992 TCTCTGATAA
*
7261002 TTAGCACGTTAGTGCTCTCTGAT
1 TTAGCACATTAGTGCTCTCTG-T
*
7261025 TACTAGCACATTAGTGCTTTCTGT
1 T--TAGCACATTAGTGCTCTCTGT
*
7261049 TTAGCACATTCGTGCTCTCTGT
1 TTAGCACATTAGTGCTCTCTGT
* * * *
7261071 ATAGTACTTTAGTGTTCTCTGT
1 TTAGCACATTAGTGCTCTCTGT
7261093 T
1 T
7261094 CATTAGTGCA
Statistics
Matches: 57, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
22 36 0.63
23 1 0.02
24 2 0.04
25 18 0.32
ACGTcount: A:0.17, C:0.21, G:0.18, T:0.43
Consensus pattern (22 bp):
TTAGCACATTAGTGCTCTCTGT
Found at i:7264662 original size:25 final size:26
Alignment explanation
Indices: 7264625--7264675 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
7264615 ATTGAGGCAG
*
7264625 TTTAACATTAAAATATCTAATATATT
1 TTTAACATTAAAATATATAATATATT
*
7264651 TTTAAC-TTAAAATATATATTATATT
1 TTTAACATTAAAATATATAATATATT
7264676 ATATTTACTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 17 0.74
26 6 0.26
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.49
Consensus pattern (26 bp):
TTTAACATTAAAATATATAATATATT
Found at i:7264794 original size:11 final size:11
Alignment explanation
Indices: 7264780--7264812 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
7264770 GAGAATAGGG
7264780 AGAAAGAAAGA
1 AGAAAGAAAGA
*
7264791 AGAAAGAAAAA
1 AGAAAGAAAGA
7264802 AGAAA-AAAGA
1 AGAAAGAAAGA
7264812 A
1 A
7264813 AATTTGAGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
10 5 0.25
11 15 0.75
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (11 bp):
AGAAAGAAAGA
Found at i:7264795 original size:7 final size:7
Alignment explanation
Indices: 7264780--7264814 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
7264770 GAGAATAGGG
7264780 AGAAAGAA
1 AGAAA-AA
*
7264788 AGAAGAA
1 AGAAAAA
7264795 AGAAAAA
1 AGAAAAA
7264802 AGAAAAA
1 AGAAAAA
7264809 AGAAAA
1 AGAAAA
7264815 TTTGAGATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
7 21 0.84
8 4 0.16
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (7 bp):
AGAAAAA
Found at i:7275271 original size:25 final size:27
Alignment explanation
Indices: 7275234--7275286 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
7275224 TCAAACATGC
7275234 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
7275260 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
7275286 A
1 A
7275287 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:7276823 original size:42 final size:42
Alignment explanation
Indices: 7276776--7276886 Score: 204
Period size: 42 Copynumber: 2.6 Consensus size: 42
7276766 TACCATGCCC
* *
7276776 ATCATCCGTTAACTATTAAAATGTTAATGCCCATCATCCATT
1 ATCATCCATTAACTATTAAAATGCTAATGCCCATCATCCATT
7276818 ATCATCCATTAACTATTAAAATGCTAATGCCCATCATCCATT
1 ATCATCCATTAACTATTAAAATGCTAATGCCCATCATCCATT
7276860 ATCATCCATTAACTATTAAAATGCTAA
1 ATCATCCATTAACTATTAAAATGCTAA
7276887 AATGCATACA
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 67 1.00
ACGTcount: A:0.37, C:0.23, G:0.05, T:0.34
Consensus pattern (42 bp):
ATCATCCATTAACTATTAAAATGCTAATGCCCATCATCCATT
Found at i:7277274 original size:22 final size:22
Alignment explanation
Indices: 7277248--7277291 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
7277238 CACCGATTAC
7277248 TAGCACATTAGTGCTCTCTGTT
1 TAGCACATTAGTGCTCTCTGTT
*
7277270 TAGCACATTCGTGCTCTCTGTT
1 TAGCACATTAGTGCTCTCTGTT
7277292 CATTAGAGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.16, C:0.25, G:0.18, T:0.41
Consensus pattern (22 bp):
TAGCACATTAGTGCTCTCTGTT
Found at i:7280705 original size:92 final size:93
Alignment explanation
Indices: 7280573--7280745 Score: 208
Period size: 92 Copynumber: 1.9 Consensus size: 93
7280563 TAATAATATG
** * *
7280573 TCACACGGCCAGGGTACACGCCCATGTGCCTTGCCCGTGTGG-TTTCAAAG-CATAAACAGTAAG
1 TCACACGGCCAGGACACACGCCCATGTGCCCTGCCCGTGTGGCTTT--AAGCCACAAACAGTAAG
7280636 TTACACAGCCTGGACACAAGCCCGTATGAC
64 TTACACAGCCTGGACACAAGCCCGTATGAC
* * * ** *
7280666 TCACACGGCCTGGACACACGCCCGTGT-CCCTGGCCGTGTGGCTTTGTGCCACAAACAGTGAGTT
1 TCACACGGCCAGGACACACGCCCATGTGCCCTGCCCGTGTGGCTTTAAGCCACAAACAGTAAGTT
*
7280730 ACACAGCCTGGGCACA
66 ACACAGCCTGGACACA
7280746 CGCTCGTGTC
Statistics
Matches: 67, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
91 1 0.01
92 40 0.60
93 26 0.39
ACGTcount: A:0.24, C:0.32, G:0.25, T:0.19
Consensus pattern (93 bp):
TCACACGGCCAGGACACACGCCCATGTGCCCTGCCCGTGTGGCTTTAAGCCACAAACAGTAAGTT
ACACAGCCTGGACACAAGCCCGTATGAC
Found at i:7280925 original size:13 final size:13
Alignment explanation
Indices: 7280899--7280934 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
7280889 CACGACAGTG
*
7280899 TGGCTCACATGGCC
1 TGGC-CACACGGCC
7280913 TGGCCACACGGCC
1 TGGCCACACGGCC
7280926 TGGCCACAC
1 TGGCCACAC
7280935 ACCCGTGTGC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 17 0.81
14 4 0.19
ACGTcount: A:0.17, C:0.42, G:0.28, T:0.14
Consensus pattern (13 bp):
TGGCCACACGGCC
Found at i:7281513 original size:12 final size:11
Alignment explanation
Indices: 7281496--7281531 Score: 54
Period size: 12 Copynumber: 3.1 Consensus size: 11
7281486 AAAAGAAGGG
7281496 AAAAAAATAAA
1 AAAAAAATAAA
7281507 AACAAAAATAAA
1 AA-AAAAATAAA
7281519 AAAAAAAGTAAA
1 AAAAAAA-TAAA
7281531 A
1 A
7281532 GAAACTAAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 7 0.30
12 16 0.70
ACGTcount: A:0.86, C:0.03, G:0.03, T:0.08
Consensus pattern (11 bp):
AAAAAAATAAA
Found at i:7282691 original size:15 final size:15
Alignment explanation
Indices: 7282671--7282700 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
7282661 CCTTGTTTAG
7282671 AATACATATATTCAA
1 AATACATATATTCAA
*
7282686 AATACATATGTTCAA
1 AATACATATATTCAA
7282701 TGTTAATATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.13, G:0.03, T:0.33
Consensus pattern (15 bp):
AATACATATATTCAA
Found at i:7283665 original size:16 final size:16
Alignment explanation
Indices: 7283644--7283675 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
7283634 GCCCAATAAC
*
7283644 CTAAACTACCAGCCCA
1 CTAAACTAACAGCCCA
7283660 CTAAACTAACAGCCCA
1 CTAAACTAACAGCCCA
7283676 TTACACAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.41, G:0.06, T:0.12
Consensus pattern (16 bp):
CTAAACTAACAGCCCA
Found at i:7284823 original size:3 final size:3
Alignment explanation
Indices: 7284817--7284890 Score: 139
Period size: 3 Copynumber: 24.3 Consensus size: 3
7284807 ATTTTTTTAC
7284817 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
7284865 ATT ATT ATT ATT ATT ATT ATGT ATT A
1 ATT ATT ATT ATT ATT ATT AT-T ATT A
7284891 GTTTATGTTT
Statistics
Matches: 70, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 67 0.96
4 3 0.04
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:7285367 original size:21 final size:20
Alignment explanation
Indices: 7285317--7285372 Score: 53
Period size: 21 Copynumber: 2.7 Consensus size: 20
7285307 ATTATGTATG
7285317 TATATATATTTTCA-ATATTA
1 TATATATATTTT-ATATATTA
7285337 T-TAGTCATATTTTATATATATA
1 TATA-T-ATATTTTATATAT-TA
*
7285359 TATATATATATTAT
1 TATATATATTTTAT
7285373 TCCATGTCCA
Statistics
Matches: 30, Mismatches: 1, Indels: 9
0.75 0.03 0.22
Matches are distributed among these distances:
19 2 0.07
20 3 0.10
21 19 0.63
22 4 0.13
23 2 0.07
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.55
Consensus pattern (20 bp):
TATATATATTTTATATATTA
Found at i:7297985 original size:70 final size:71
Alignment explanation
Indices: 7297707--7298059 Score: 377
Period size: 74 Copynumber: 4.9 Consensus size: 71
7297697 TTTGGGTACT
* * * **
7297707 CTGAGGTATCTTTAATTCATGTTTTCAAAAATCAACTCATATTGCAAGAAATGAGTTGAGCCTCA
1 CTGAGGTATTTTTAATTTATG-TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
7297772 GGTCACACG
65 GG--ACACG
* ** **
7297781 CTGAGGTATTTTTAGTTTATGTTTCAAAAAAATTGACTCATATTGCGAGAGGTGAGTCAAGCCTC
1 CTGAGGTATTTTTAATTTATGTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
*
7297846 AGGTCACG
64 AGGACACG
* * *
7297854 CTGAGGTATTTTTAATTCCTGTTGTTTCAAAAATCAGCTCATATTGCGAGAGGTGATTTGAGCCT
1 CTGAGGTATTTTTAATT--T-ATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
*
7297919 CAAGACACG
63 CAGGACACG
* * * *
7297928 TTGAGGTAATTTCAATTTATG-TTCCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
1 CTGAGGTATTTTTAATTTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
*
7297992 GGCACG
66 GACACG
* ** * * *
7297998 CTGAGGTATTTTTAGTTTATGTTT-AGAAAATTGACTCATCTTGCGAAAGGTGAGTTAAGCCT
1 CTGAGGTATTTTTAATTTATGTTTCA-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
7298060 TTTAATTTCT
Statistics
Matches: 232, Mismatches: 40, Indels: 17
0.80 0.14 0.06
Matches are distributed among these distances:
70 61 0.26
71 35 0.15
72 1 0.00
73 24 0.10
74 70 0.30
75 35 0.15
76 6 0.03
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (71 bp):
CTGAGGTATTTTTAATTTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
GACACG
Found at i:7297999 original size:144 final size:145
Alignment explanation
Indices: 7297707--7298021 Score: 393
Period size: 144 Copynumber: 2.2 Consensus size: 145
7297697 TTTGGGTACT
*
7297707 CTGAGGTATCTTTAATTCATGTTTTCAAAAATCAACTCATATTGCAAGAAATGAGTTGAGCCTCA
1 CTGAGGTATTTTTAATTCATGTTTTCAAAAATCAACTCATATTGCAAGAAATGAGTTGAGCCTCA
* * * * **
7297772 GGTCACACGCTGAGGTATTTTTAGTTTATGTTTCAAAAAAATTGACTCATATTGCGAGAGGTGAG
66 AG-CACACGCTGAGGTAATTTCAATTTATGTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAG
*
7297837 TCAAGCCTCAGGTCACG
129 TCAAGCCTCAGGGCACG
* * * ** *
7297854 CTGAGGTATTTTTAATTCCTGTTGTTTCAAAAATCAGCTCATATTGCGAGAGGTGATTTGAGCCT
1 CTGAGGTATTTTTAATTCATG-T-TTTCAAAAATCAACTCATATTGCAAGAAATGAGTTGAGCCT
* *
7297919 CAAG-ACACGTTGAGGTAATTTCAATTTATG-TTC-CAAAATCAACTCATATTGCGAGAGGTGAG
64 CAAGCACACGCTGAGGTAATTTCAATTTATGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAG
**
7297981 TTGAGCCTCAGGGCACG
129 TCAAGCCTCAGGGCACG
* *
7297998 CTGAGGTATTTTTAGTTTATGTTT
1 CTGAGGTATTTTTAATTCATGTTT
7298022 AGAAAATTGA
Statistics
Matches: 145, Mismatches: 21, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
142 2 0.01
143 1 0.01
144 58 0.40
146 3 0.02
147 41 0.28
148 1 0.01
149 39 0.27
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (145 bp):
CTGAGGTATTTTTAATTCATGTTTTCAAAAATCAACTCATATTGCAAGAAATGAGTTGAGCCTCA
AGCACACGCTGAGGTAATTTCAATTTATGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTC
AAGCCTCAGGGCACG
Found at i:7298227 original size:88 final size:88
Alignment explanation
Indices: 7298078--7298245 Score: 250
Period size: 88 Copynumber: 1.9 Consensus size: 88
7298068 CTGTTTTTCA
* * * *
7298078 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAATTT
1 AAAATCAACTCATATTGCAAGAGATGAGTTGAGCCTAGGCTCACATGCTGAGCTATTTTCAAATT
*
7298143 CTGTTTTTCAAATTCCGTTCGTC
66 CTGTTATTCAAATTCCGTTCGTC
*
7298166 AAAATCAACTCATATTGCAAGAGATGAGTTGAGCCTCAGG-TCACATG-TCGAGGTATTTTCAAA
1 AAAATCAACTCATATTGCAAGAGATGAGTTGAGCCT-AGGCTCACATGCT-GAGCTATTTTCAAA
7298229 TTCTGTTATTCAAATTC
64 TTCTGTTATTCAAATTC
7298246 TGTTTTTAAT
Statistics
Matches: 72, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
87 1 0.01
88 69 0.96
89 2 0.03
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (88 bp):
AAAATCAACTCATATTGCAAGAGATGAGTTGAGCCTAGGCTCACATGCTGAGCTATTTTCAAATT
CTGTTATTCAAATTCCGTTCGTC
Found at i:7298242 original size:14 final size:14
Alignment explanation
Indices: 7298223--7298249 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
7298213 TCGAGGTATT
7298223 TTCAAATTCTGTTA
1 TTCAAATTCTGTTA
7298237 TTCAAATTCTGTT
1 TTCAAATTCTGTT
7298250 TTTAATTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.15, G:0.07, T:0.52
Consensus pattern (14 bp):
TTCAAATTCTGTTA
Found at i:7298340 original size:14 final size:14
Alignment explanation
Indices: 7298321--7298355 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
7298311 CGCTGAGGTA
* *
7298321 TTTTCAATTTCTGC
1 TTTTCAATTCCTAC
7298335 TTTTCAATTCCTAC
1 TTTTCAATTCCTAC
7298349 TTTTCAA
1 TTTTCAA
7298356 AAAAATCAGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.20, C:0.23, G:0.03, T:0.54
Consensus pattern (14 bp):
TTTTCAATTCCTAC
Found at i:7298385 original size:89 final size:86
Alignment explanation
Indices: 7298237--7298468 Score: 272
Period size: 89 Copynumber: 2.7 Consensus size: 86
7298227 AATTCTGTTA
* * * * * *
7298237 TTCAAATTCTGTTTTTAATTTTTACTT-TCCTAAAACCAACTCATATTGCGAGAGGTGAGTCAAG
1 TTCAATTTCTGTTTTCAATTTAT-CTTGTTCAAAAATCAACTCATATTGCGAGAGGTGAGTCAAG
*
7298301 CCTCGGGGCACGCTGAGGTATT
65 CCTCAGGGCACGCTGAGGTATT
*
7298323 TTCAATTTCTGCTTTTCAATTCCTA-CTT-TTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGT
1 TTCAATTTCTG-TTTTCAATT--TATCTTGTTC--AAAAATCAACTCATATTGCGAGAGGTGAGT
** *
7298386 TGAGCCTCAGGTCACGCTGAGGTATT
61 CAAGCCTCAGGGCACGCTGAGGTATT
* *
7298412 TTCAATTTCTGTTTTCAATTTATGTTGTTCAAGAATCAACTCATATTGCGAGAGGTG
1 TTCAATTTCTGTTTTCAATTTATCTTGTTCAAAAATCAACTCATATTGCGAGAGGTG
7298469 GGTTGAACCT
Statistics
Matches: 125, Mismatches: 14, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
86 37 0.30
87 15 0.12
88 12 0.10
89 61 0.49
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.37
Consensus pattern (86 bp):
TTCAATTTCTGTTTTCAATTTATCTTGTTCAAAAATCAACTCATATTGCGAGAGGTGAGTCAAGC
CTCAGGGCACGCTGAGGTATT
Found at i:7298428 original size:13 final size:13
Alignment explanation
Indices: 7298410--7298443 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
7298400 CGCTGAGGTA
*
7298410 TTTTCAATTTCTG
1 TTTTCAATTTATG
7298423 TTTTCAATTTATG
1 TTTTCAATTTATG
7298436 TTGTTCAA
1 TT-TTCAA
7298444 GAATCAACTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.59
Consensus pattern (13 bp):
TTTTCAATTTATG
Found at i:7299366 original size:16 final size:16
Alignment explanation
Indices: 7299345--7299392 Score: 78
Period size: 16 Copynumber: 3.0 Consensus size: 16
7299335 GCCCAATAAC
7299345 CTAAACTACCAGCCCA
1 CTAAACTACCAGCCCA
*
7299361 CTAAACTACCAACCCA
1 CTAAACTACCAGCCCA
*
7299377 CTAAACTAACAGCCCA
1 CTAAACTACCAGCCCA
7299393 TTACACAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.42, C:0.42, G:0.04, T:0.12
Consensus pattern (16 bp):
CTAAACTACCAGCCCA
Found at i:7300083 original size:16 final size:16
Alignment explanation
Indices: 7300038--7300081 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
7300028 CACGCCGGAA
**
7300038 CCCCTCTCTCCCTTCT
1 CCCCTCTCTCTTTTCT
7300054 CCCCTCTCTCTTTTCT
1 CCCCTCTCTCTTTTCT
7300070 -CCCT-TCTCTTTT
1 CCCCTCTCTCTTTT
7300082 TTTTCTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
14 8 0.31
15 4 0.15
16 14 0.54
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (16 bp):
CCCCTCTCTCTTTTCT
Found at i:7300542 original size:3 final size:3
Alignment explanation
Indices: 7300534--7300601 Score: 127
Period size: 3 Copynumber: 22.3 Consensus size: 3
7300524 TCATTTTTAC
7300534 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
7300582 ATT ATT ATT ATT ATGT ATT A
1 ATT ATT ATT ATT AT-T ATT A
7300602 GTTTATGTTT
Statistics
Matches: 64, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 61 0.95
4 3 0.05
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:7301067 original size:2 final size:2
Alignment explanation
Indices: 7301060--7301084 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7301050 GTCATATTTT
7301060 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
7301085 TATTCCATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7303736 original size:18 final size:20
Alignment explanation
Indices: 7303713--7303751 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
7303703 TTCAAATATT
7303713 ATAATAA-AAAA-ATTTTAA
1 ATAATAATAAAATATTTTAA
7303731 ATAATAATTAAAATATTTTAA
1 ATAATAA-TAAAATATTTTAA
7303752 TATATTCAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.39
20 4 0.22
21 7 0.39
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
ATAATAATAAAATATTTTAA
Found at i:7307588 original size:26 final size:26
Alignment explanation
Indices: 7307552--7307604 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
7307542 TGTTAAATCC
7307552 GAGTATGAGCCTCACAAGTAGAACGG
1 GAGTATGAGCCTCACAAGTAGAACGG
7307578 GAGTATGAGCCTCACAAGTAGAACGG
1 GAGTATGAGCCTCACAAGTAGAACGG
7307604 G
1 G
7307605 TGTACCAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.34, C:0.19, G:0.32, T:0.15
Consensus pattern (26 bp):
GAGTATGAGCCTCACAAGTAGAACGG
Found at i:7308245 original size:17 final size:17
Alignment explanation
Indices: 7308223--7308256 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
7308213 CATTTCGAGA
*
7308223 CATCCAATGGTGGATAC
1 CATCCAATAGTGGATAC
*
7308240 CATCCACTAGTGGATAC
1 CATCCAATAGTGGATAC
7308257 AGTTCAATAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (17 bp):
CATCCAATAGTGGATAC
Found at i:7318165 original size:18 final size:17
Alignment explanation
Indices: 7318132--7318179 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 17
7318122 ATTAAATTTG
7318132 TAATATTAAT-TTTATT
1 TAATATTAATATTTATT
7318148 TAATATTAATATTATATT
1 TAATATTAATATT-TATT
* *
7318166 TACTATTATTATTT
1 TAATATTAATATTT
7318180 TTAAAAATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 10 0.36
17 3 0.11
18 15 0.54
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (17 bp):
TAATATTAATATTTATT
Found at i:7318234 original size:15 final size:15
Alignment explanation
Indices: 7318199--7318242 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
7318189 AGTGTACTTT
7318199 GTATGTATA-TATTA
1 GTATGTATATTATTA
* *
7318213 TTATGTATATTTTTA
1 GTATGTATATTATTA
7318228 GTATGTATATATATT
1 GTATGTATAT-TATT
7318243 TATGAAGTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
14 8 0.33
15 13 0.54
16 3 0.12
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (15 bp):
GTATGTATATTATTA
Found at i:7318364 original size:20 final size:21
Alignment explanation
Indices: 7318318--7318365 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
7318308 ATATTATATT
*
7318318 ATAT-ATATACATTCTTTATA
1 ATATCATATACATACTTTATA
*
7318338 CTA-CATATACATACTTT-TA
1 ATATCATATACATACTTTATA
7318357 ATATCATAT
1 ATATCATAT
7318366 TTCATATGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 4 0.17
20 19 0.83
ACGTcount: A:0.40, C:0.15, G:0.00, T:0.46
Consensus pattern (21 bp):
ATATCATATACATACTTTATA
Found at i:7318693 original size:23 final size:25
Alignment explanation
Indices: 7318667--7318720 Score: 62
Period size: 23 Copynumber: 2.3 Consensus size: 25
7318657 ATATTTCTTA
7318667 TTATATTA-TTCTGCA-TATTATT-T
1 TTATATTATTTCTGCATTATT-TTAT
*
7318690 TTAT-TCATTTCTGCATTATTTTAT
1 TTATATTATTTCTGCATTATTTTAT
7318714 TTATATT
1 TTATATT
7318721 TTTAATACTC
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
22 2 0.08
23 13 0.52
24 9 0.36
25 1 0.04
ACGTcount: A:0.24, C:0.09, G:0.04, T:0.63
Consensus pattern (25 bp):
TTATATTATTTCTGCATTATTTTAT
Found at i:7318864 original size:2 final size:2
Alignment explanation
Indices: 7318853--7318895 Score: 52
Period size: 2 Copynumber: 22.0 Consensus size: 2
7318843 TTCATTTTAA
* * *
7318853 AT AT AT -T AT AT AT AT GT GT GT 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 AT
7318894 AT
1 AT
7318896 CAGTACCTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (2 bp):
AT
Found at i:7321777 original size:27 final size:27
Alignment explanation
Indices: 7321746--7321906 Score: 223
Period size: 27 Copynumber: 6.0 Consensus size: 27
7321736 TTCTACCCTA
*
7321746 CAAGGGTATTTCGGTAATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
7321773 AAAGGGTATTTTAGTAATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
7321800 CAGGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
7321827 CAAGGGTATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * *
7321854 TAGGGGTATTTTGGTGATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
*
7321881 CAAGGGTATTTTGGTAATTCTATAAA
1 CAAGGGTATTTTGGTAATTTTATAAA
7321907 TTGAAGGTAA
Statistics
Matches: 114, Mismatches: 20, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 114 1.00
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTATAAAC
Found at i:7321925 original size:81 final size:81
Alignment explanation
Indices: 7321757--7321926 Score: 189
Period size: 81 Copynumber: 2.1 Consensus size: 81
7321747 AAGGGTATTT
* * * *
7321757 CGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTATAAACCAGGGGTATTTTGGTAATTTTG
1 CGGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTATAAACCAAGGGTATTTTGGTAATTCTA
***
7321822 TAAACCAAGGGTATTT
66 TAAACCAAGGGTAAAA
** * * * *
7321838 TAGTAATTTTACAAACTAGGGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTGGTAATTCTA
1 CGGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTATAAACCAAGGGTATTTTGGTAATTCTA
**
7321903 TAAATTGAA-GGTAAAA
66 TAAA-CCAAGGGTAAAA
7321919 CGGTAATT
1 CGGTAATT
7321927 CTGTAAACTG
Statistics
Matches: 71, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
81 69 0.97
82 2 0.03
ACGTcount: A:0.34, C:0.07, G:0.20, T:0.39
Consensus pattern (81 bp):
CGGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTATAAACCAAGGGTATTTTGGTAATTCTA
TAAACCAAGGGTAAAA
Found at i:7322156 original size:27 final size:28
Alignment explanation
Indices: 7321892--7322142 Score: 322
Period size: 27 Copynumber: 9.3 Consensus size: 28
7321882 AAGGGTATTT
* * *
7321892 TGGTAATTCTATAAA-TTGAAGGTAAAA
1 TGGTAATTCTGTAAACTCGAGGGTAAAA
*
7321919 CGGTAATTCTGTAAACT-GAGGGTAAAA
1 TGGTAATTCTGTAAACTCGAGGGTAAAA
* *
7321946 CGGTAATTCTATAAA-TCGAGGGTAAAA
1 TGGTAATTCTGTAAACTCGAGGGTAAAA
*
7321973 TAGTAATTCTGTAAACT-GAGGGTAAAA
1 TGGTAATTCTGTAAACTCGAGGGTAAAA
*
7322000 TGGTAATTCTGTAAA-TCGAGGATAAAA
1 TGGTAATTCTGTAAACTCGAGGGTAAAA
*
7322027 TAGTAATTCTGTAAACT-GAGGGTAAAA
1 TGGTAATTCTGTAAACTCGAGGGTAAAA
*
7322054 CGGTAATTCTGTAAA-TCGAGGGTAAAA
1 TGGTAATTCTGTAAACTCGAGGGTAAAA
**
7322081 CAGTAATTCTGTAAACT-GAGGGTAAAA
1 TGGTAATTCTGTAAACTCGAGGGTAAAA
*
7322108 TGGTAATTTTGTAAA-TCGAGGGTAAAA
1 TGGTAATTCTGTAAACTCGAGGGTAAAA
7322135 TGGTAATT
1 TGGTAATT
7322143 TTACAAGTCG
Statistics
Matches: 199, Mismatches: 17, Indels: 16
0.86 0.07 0.07
Matches are distributed among these distances:
26 4 0.02
27 191 0.96
28 4 0.02
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.29
Consensus pattern (28 bp):
TGGTAATTCTGTAAACTCGAGGGTAAAA
Found at i:7322156 original size:54 final size:54
Alignment explanation
Indices: 7321892--7322142 Score: 394
Period size: 54 Copynumber: 4.6 Consensus size: 54
7321882 AAGGGTATTT
* * * **
7321892 TGGTAATTCTATAAATTGAAGGTAAAACGGTAATTCTGTAAACTGAGGGTAAAA
1 TGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAA
* *
7321946 CGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAA
1 TGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAA
*
7322000 TGGTAATTCTGTAAATCGAGGATAAAATAGTAATTCTGTAAACTGAGGGTAAAA
1 TGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAA
* *
7322054 CGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAACTGAGGGTAAAA
1 TGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAA
* *
7322108 TGGTAATTTTGTAAATCGAGGGTAAAATGGTAATT
1 TGGTAATTCTGTAAATCGAGGGTAAAATAGTAATT
7322143 TTACAAGTCG
Statistics
Matches: 182, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 182 1.00
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.29
Consensus pattern (54 bp):
TGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAA
Found at i:7326811 original size:27 final size:26
Alignment explanation
Indices: 7326749--7326863 Score: 140
Period size: 27 Copynumber: 4.3 Consensus size: 26
7326739 AGCATGGTTG
* *
7326749 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
7326775 CTAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
7326803 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
7326830 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
7326857 CCAGAAC
1 CCAGAAC
7326864 GCTTCCTCCA
Statistics
Matches: 78, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
26 4 0.05
27 58 0.74
28 16 0.21
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:7326813 original size:54 final size:54
Alignment explanation
Indices: 7326749--7326863 Score: 160
Period size: 54 Copynumber: 2.1 Consensus size: 54
7326739 AGCATGGTTG
* *
7326749 CCAGAACAGATA-ATGTGACAGAGTCACTAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
7326803 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
7326857 CCAGAAC
1 CCAGAAC
7326864 GCTTCCTCCA
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 37 0.69
55 17 0.31
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:7327301 original size:8 final size:8
Alignment explanation
Indices: 7327274--7327304 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
7327264 CCAAAATACT
7327274 GGCTTTTC
1 GGCTTTTC
*
7327282 GGCATTTC
1 GGCTTTTC
7327290 GGCTTTTC
1 GGCTTTTC
7327298 GGCTTTT
1 GGCTTTT
7327305 GCCAATCTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.03, C:0.23, G:0.26, T:0.48
Consensus pattern (8 bp):
GGCTTTTC
Found at i:7328515 original size:26 final size:26
Alignment explanation
Indices: 7328479--7328614 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
7328469 CATGAAATTC
7328479 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
7328505 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
7328531 TTATCATGGAACATTTACCTAACCGA
1 TTATCATGAAACATTTACCTAACCCA
* *
7328557 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
7328583 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
7328609 TTATCA
1 TTATCA
7328615 ATTTGTATCA
Statistics
Matches: 106, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 106 1.00
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:7331448 original size:22 final size:20
Alignment explanation
Indices: 7331408--7331448 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
7331398 CATGTCTTAA
*
7331408 TTTTTGAATTTGTTGATGAT
1 TTTTTGAATTTATTGATGAT
7331428 TTTTTGAAATTCTATTGATGA
1 TTTTTG-AATT-TATTGATGA
7331449 ATGCTTGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 4 0.22
22 8 0.44
ACGTcount: A:0.24, C:0.02, G:0.17, T:0.56
Consensus pattern (20 bp):
TTTTTGAATTTATTGATGAT
Found at i:7331783 original size:21 final size:20
Alignment explanation
Indices: 7331745--7331790 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
7331735 AAATTGTGTG
* *
7331745 TTTTGGATGAAATTGATTGA
1 TTTTGGATGAAATGGATTAA
*
7331765 TTTTGTGATTAAATGGATTAA
1 TTTTG-GATGAAATGGATTAA
7331786 TTTTG
1 TTTTG
7331791 AATATATATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 5 0.23
21 17 0.77
ACGTcount: A:0.28, C:0.00, G:0.22, T:0.50
Consensus pattern (20 bp):
TTTTGGATGAAATGGATTAA
Found at i:7332119 original size:43 final size:44
Alignment explanation
Indices: 7332070--7332263 Score: 236
Period size: 43 Copynumber: 4.5 Consensus size: 44
7332060 GGATATTGAA
*
7332070 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
1 ATGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATTGTAT
*
7332114 -TGTGATTACGTGTAAGACCATATCTGGGACATTGGCATTGTAT
1 ATGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATTGTAT
*
7332157 -TGTGATTACGTGTAAGACCATGTCTGGGACATTGGTATTGT-T
1 ATGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATTGTAT
* ** * * *
7332199 ATATGATTTTGTGTAAAATCC-TGTCTGGGACAGTGGCATCG-AT
1 ATGTGATTACGTGTAAGA-CCATGTCTGGGACATTGGCATTGTAT
* * *
7332242 ATATGATAACATGTAAGACCAT
1 ATGTGATTACGTGTAAGACCAT
7332264 ATATGGTATA
Statistics
Matches: 130, Mismatches: 16, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
42 3 0.02
43 125 0.96
44 2 0.02
ACGTcount: A:0.27, C:0.13, G:0.25, T:0.35
Consensus pattern (44 bp):
ATGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATTGTAT
Found at i:7343706 original size:26 final size:26
Alignment explanation
Indices: 7343675--7343752 Score: 147
Period size: 26 Copynumber: 3.0 Consensus size: 26
7343665 TGAAATTTCC
7343675 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
7343701 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
7343727 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
7343753 TCAATTTGTA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 51 1.00
ACGTcount: A:0.36, C:0.27, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:7349511 original size:26 final size:26
Alignment explanation
Indices: 7349480--7349561 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
7349470 TGAAATTTCC
*
7349480 ATCATGGAGCATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
7349506 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
7349532 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
7349558 ATCA
1 ATCA
7349562 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.35, C:0.27, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:7352738 original size:43 final size:43
Alignment explanation
Indices: 7352585--7352740 Score: 172
Period size: 43 Copynumber: 3.6 Consensus size: 43
7352575 CAATGCTATA
* ** * * *
7352585 TCCCAGATATGGTCTTACGTGTTATCAC-ATATCGATGCCACTG
1 TCCCAGACATGGTCTTACACGTAATCACAATA-CAATGCCAATG
* * * *
7352628 TCCCAGATAGGGTCTTACACGAAATC-GAATAACAATGCCAATG
1 TCCCAGACATGGTCTTACACGTAATCACAAT-ACAATGCCAATG
*
7352671 TCCAAGACATGGTCTTACACGTAATCACAATACAATGCCAATG
1 TCCCAGACATGGTCTTACACGTAATCACAATACAATGCCAATG
*
7352714 TCCCAGACATGGTCTTACATGTAATCA
1 TCCCAGACATGGTCTTACACGTAATCA
7352741 TATCTCGGTA
Statistics
Matches: 95, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
43 91 0.96
44 4 0.04
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACACGTAATCACAATACAATGCCAATG
Found at i:7357622 original size:39 final size:39
Alignment explanation
Indices: 7357558--7357697 Score: 208
Period size: 39 Copynumber: 3.6 Consensus size: 39
7357548 ATCGTAATCT
* * *
7357558 GAAGCCCAAAGTCTAGCTGAAGCACATAAGTGCTAAACG
1 GAAGCCCAAAGGCTAACTGAAGCACACAAGTGCTAAACG
* * *
7357597 GAAGCCCGAAGGCTAACTGAGGCACACAAGTGTTAAACG
1 GAAGCCCAAAGGCTAACTGAAGCACACAAGTGCTAAACG
* *
7357636 GAAGCCCGAAGGCTTACTGAAGCACACAAGTGCTAAACG
1 GAAGCCCAAAGGCTAACTGAAGCACACAAGTGCTAAACG
7357675 GAAGCCCAAAGGCTAACTGAAGC
1 GAAGCCCAAAGGCTAACTGAAGC
7357698 TCATCAGAGC
Statistics
Matches: 90, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 90 1.00
ACGTcount: A:0.37, C:0.24, G:0.26, T:0.13
Consensus pattern (39 bp):
GAAGCCCAAAGGCTAACTGAAGCACACAAGTGCTAAACG
Found at i:7365331 original size:19 final size:19
Alignment explanation
Indices: 7365307--7365344 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
7365297 TCTTTAATCG
*
7365307 AGAGAAAAGATGAGTAAAA
1 AGAGAAAAGAAGAGTAAAA
*
7365326 AGAGAAGAGAAGAGTAAAA
1 AGAGAAAAGAAGAGTAAAA
7365345 GAAGATAGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.63, C:0.00, G:0.29, T:0.08
Consensus pattern (19 bp):
AGAGAAAAGAAGAGTAAAA
Found at i:7376930 original size:2 final size:2
Alignment explanation
Indices: 7376923--7376955 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
7376913 AATGGTATGC
7376923 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7376956 GTGTAAATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7378491 original size:2 final size:2
Alignment explanation
Indices: 7378484--7378521 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
7378474 ATTGAAAGGG
* *
7378484 AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7378522 GTGTTAAAGT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:7381223 original size:13 final size:13
Alignment explanation
Indices: 7381205--7381229 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7381195 ATATGTTATT
7381205 CTGTATCTGTATA
1 CTGTATCTGTATA
7381218 CTGTATCTGTAT
1 CTGTATCTGTAT
7381230 TTTTATATCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.16, G:0.16, T:0.48
Consensus pattern (13 bp):
CTGTATCTGTATA
Found at i:7381228 original size:19 final size:20
Alignment explanation
Indices: 7381204--7381243 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
7381194 AATATGTTAT
7381204 TCTGTATCTGTATA-CTGTA
1 TCTGTATCTGTATATCTGTA
* *
7381223 TCTGTATTTTTATATCTGTA
1 TCTGTATCTGTATATCTGTA
7381243 T
1 T
7381244 TTGGGGTGGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.20, C:0.12, G:0.12, T:0.55
Consensus pattern (20 bp):
TCTGTATCTGTATATCTGTA
Found at i:7381471 original size:6 final size:6
Alignment explanation
Indices: 7381460--7381485 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
7381450 GTTTATCTAT
7381460 TATCTG TATCTG TATCTG TATCTG TA
1 TATCTG TATCTG TATCTG TATCTG TA
7381486 AAGGACTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.15, G:0.15, T:0.50
Consensus pattern (6 bp):
TATCTG
Found at i:7382496 original size:28 final size:28
Alignment explanation
Indices: 7382461--7382530 Score: 115
Period size: 28 Copynumber: 2.5 Consensus size: 28
7382451 ACAAAAAATT
7382461 ATAAAAATTATAAAATTAT-AAAATTTTA
1 ATAAAAA-TATAAAATTATAAAAATTTTA
*
7382489 ATAAAAATAAAAAATTATAAAAATTTTA
1 ATAAAAATATAAAATTATAAAAATTTTA
7382517 ATAAAAATATAAAA
1 ATAAAAATATAAAA
7382531 ATATTTAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
27 10 0.26
28 29 0.74
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (28 bp):
ATAAAAATATAAAATTATAAAAATTTTA
Found at i:7382510 original size:10 final size:10
Alignment explanation
Indices: 7382453--7382599 Score: 84
Period size: 10 Copynumber: 15.4 Consensus size: 10
7382443 GACATATGAC
7382453 AAAAAATTAT
1 AAAAAATTAT
7382463 -AAAAATTAT
1 AAAAAATTAT
7382472 --AAAATTAT
1 AAAAAATTAT
*
7382480 --AAAATTTT
1 AAAAAATTAT
7382488 AATAAAA--AT
1 AA-AAAATTAT
7382497 AAAAAATTAT
1 AAAAAATTAT
*
7382507 -AAAAATTTT
1 AAAAAATTAT
*
7382516 AATAAAAATAT
1 AA-AAAATTAT
7382527 AAAAATATT-T
1 AAAAA-ATTAT
*
7382537 --AAAATTAG
1 AAAAAATTAT
7382545 AAAAAATTAT
1 AAAAAATTAT
7382555 AAAAAAATT-T
1 -AAAAAATTAT
** * *
7382565 GTAACATTTT
1 AAAAAATTAT
*
7382575 ATAAAAATCAT
1 A-AAAAATTAT
7382586 AAAAAATTAT
1 AAAAAATTAT
7382596 AAAA
1 AAAA
7382600 TGCATCAAAA
Statistics
Matches: 106, Mismatches: 17, Indels: 28
0.70 0.11 0.19
Matches are distributed among these distances:
7 3 0.03
8 22 0.21
9 25 0.24
10 28 0.26
11 28 0.26
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.33
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:7382527 original size:20 final size:22
Alignment explanation
Indices: 7382498--7382538 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
7382488 AATAAAAATA
7382498 AAAAATTATAAAAAT-TTTAAT
1 AAAAATTATAAAAATATTTAAT
7382519 AAAAA-TATAAAAATATTTAA
1 AAAAATTATAAAAATATTTAA
7382539 AATTAGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (22 bp):
AAAAATTATAAAAATATTTAAT
Found at i:7382558 original size:8 final size:8
Alignment explanation
Indices: 7382455--7382510 Score: 58
Period size: 8 Copynumber: 6.5 Consensus size: 8
7382445 CATATGACAA
7382455 AAAATTAT
1 AAAATTAT
7382463 AAAAATTAT
1 -AAAATTAT
7382472 AAAATTAT
1 AAAATTAT
7382480 AAAATTTTAAT
1 AAAA--TT-AT
* *
7382491 AAAAATAA
1 AAAATTAT
7382499 AAAATTAT
1 AAAATTAT
7382507 AAAA
1 AAAA
7382511 ATTTTAATAA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
8 23 0.57
9 9 0.22
10 2 0.05
11 6 0.15
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (8 bp):
AAAATTAT
Found at i:7382599 original size:9 final size:9
Alignment explanation
Indices: 7382454--7382559 Score: 87
Period size: 9 Copynumber: 11.6 Consensus size: 9
7382444 ACATATGACA
7382454 AAAAATTAT
1 AAAAATTAT
7382463 AAAAATTAT
1 AAAAATTAT
7382472 -AAAATTAT
1 AAAAATTAT
*
7382480 AAAATTTTAAT
1 AAAA-ATT-AT
7382491 AAAAA-TA-
1 AAAAATTAT
7382498 AAAAATTAT
1 AAAAATTAT
7382507 AAAAATTTTAAT
1 AAAAA--TT-AT
7382519 AAAAA-TAT
1 AAAAATTAT
7382527 AAAAA-TATT
1 AAAAATTA-T
* *
7382536 TAAAATTAGA
1 AAAAATTA-T
7382546 AAAAATTAT
1 AAAAATTAT
7382555 AAAAA
1 AAAAA
7382560 AATTTGTAAC
Statistics
Matches: 80, Mismatches: 7, Indels: 20
0.75 0.07 0.19
Matches are distributed among these distances:
7 5 0.06
8 20 0.25
9 29 0.36
10 11 0.14
11 8 0.10
12 7 0.09
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.32
Consensus pattern (9 bp):
AAAAATTAT
Found at i:7382610 original size:19 final size:19
Alignment explanation
Indices: 7382453--7382599 Score: 65
Period size: 19 Copynumber: 7.7 Consensus size: 19
7382443 GACATATGAC
7382453 AAAAAATTATAAAAAT--T
1 AAAAAATTATAAAAATCAT
* **
7382470 ATAAAATTAT-AAAATTTT
1 AAAAAATTATAAAAATCAT
* *
7382488 AATAAAAATA-AAAAATTAT
1 AA-AAAATTATAAAAATCAT
*
7382507 AAAAATTTTAATAAAAAT-AT
1 AAAAA-ATT-ATAAAAATCAT
* *
7382527 AAAAATATT-T-AAAATTAG
1 AAAAA-ATTATAAAAATCAT
**
7382545 AAAAAATTATAAAAAAATTTGT
1 AAAAAATTAT--AAAAA-TCAT
* **
7382567 AACATTTTATAAAAATCAT
1 AAAAAATTATAAAAATCAT
7382586 AAAAAATTATAAAA
1 AAAAAATTATAAAA
7382600 TGCATCAAAA
Statistics
Matches: 99, Mismatches: 18, Indels: 24
0.70 0.13 0.17
Matches are distributed among these distances:
16 5 0.05
17 17 0.17
18 13 0.13
19 29 0.29
20 16 0.16
21 10 0.10
22 9 0.09
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.33
Consensus pattern (19 bp):
AAAAAATTATAAAAATCAT
Found at i:7382834 original size:10 final size:10
Alignment explanation
Indices: 7382821--7383037 Score: 70
Period size: 9 Copynumber: 22.7 Consensus size: 10
7382811 ATTTGTTTAC
7382821 ATTTTTTATA
1 ATTTTTTATA
**
7382831 ATTTTCTTACG
1 ATTTT-TTATA
* *
7382842 ACTTTATA-A
1 ATTTTTTATA
*
7382851 AATTT-TATA
1 ATTTTTTATA
*
7382860 ATTTTTTCT-
1 ATTTTTTATA
*
7382869 ATATTTCTAT-
1 AT-TTTTTATA
*
7382879 ATATTTTATA
1 ATTTTTTATA
*
7382889 A-TTTTTA-C
1 ATTTTTTATA
*
7382897 ACTTTTTATA
1 ATTTTTTATA
**
7382907 AAATTTTATA
1 ATTTTTTATA
*
7382917 GTTTTTTTATA
1 -ATTTTTTATA
*
7382928 ATTTTTTATG
1 ATTTTTTATA
7382938 A-TTTTTAT-
1 ATTTTTTATA
*
7382946 ATTTTTTCTA
1 ATTTTTTATA
**
7382956 ATTTTCAATA
1 ATTTTTTATA
*
7382966 A-ATTTTA-A
1 ATTTTTTATA
7382974 ATATTTTTATTA
1 AT-TTTTTA-TA
** *
7382986 AAATTTAATA
1 ATTTTTTATA
7382996 A-TTTTTATA
1 ATTTTTTATA
*
7383005 A-CTTTTAT-
1 ATTTTTTATA
7383013 -TTATTTT-T-
1 ATT-TTTTATA
7383021 ATTTTTTATA
1 ATTTTTTATA
7383031 ATTTTTT
1 ATTTTTT
7383038 GTCACATGCC
Statistics
Matches: 151, Mismatches: 37, Indels: 38
0.67 0.16 0.17
Matches are distributed among these distances:
8 11 0.07
9 63 0.42
10 57 0.38
11 18 0.12
12 2 0.01
ACGTcount: A:0.31, C:0.05, G:0.01, T:0.63
Consensus pattern (10 bp):
ATTTTTTATA
Found at i:7382884 original size:29 final size:28
Alignment explanation
Indices: 7382844--7383037 Score: 102
Period size: 29 Copynumber: 6.8 Consensus size: 28
7382834 TTCTTACGAC
7382844 TTTATAAAATTTTATAATTTTTTCTATAT
1 TTTAT-AAATTTTATAATTTTTTCTATAT
* *
7382873 TTCTATATATTTTATAATTTTTAC-ACT-T
1 TT-TATAAATTTTATAATTTTTTCTA-TAT
*
7382901 TTTATAAAATTTTATAGTTTTTT-TATAAT
1 TTTAT-AAATTTTATAATTTTTTCTAT-AT
* *
7382930 TTTTTATGATTTT-TATATTTTTTCTA-AT
1 TTTATA-AATTTTATA-ATTTTTTCTATAT
* *
7382958 TTTCAATAAATTTTA-AATATTTTTATTAAAAT
1 TTT--ATAAATTTTATAAT-TTTTT-CT-ATAT
* *
7382990 TTAATAATTTTTATAACTTTTATT-TAT-T
1 TTTATAAATTTTATAA-TTTT-TTCTATAT
*
7383018 TTTAT--TTTTTATAATTTTTT
1 TTTATAAATTTTATAATTTTTT
7383038 GTCACATGCC
Statistics
Matches: 131, Mismatches: 15, Indels: 43
0.69 0.08 0.23
Matches are distributed among these distances:
24 2 0.02
25 4 0.03
26 9 0.07
27 4 0.03
28 34 0.26
29 47 0.36
30 18 0.14
31 6 0.05
32 7 0.05
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (28 bp):
TTTATAAATTTTATAATTTTTTCTATAT
Found at i:7382894 original size:9 final size:9
Alignment explanation
Indices: 7382853--7383036 Score: 95
Period size: 9 Copynumber: 19.4 Consensus size: 9
7382843 CTTTATAAAA
7382853 TTTTATAATT
1 TTTTATAA-T
*
7382863 TTTTCTATAT
1 TTTTATA-AT
*
7382873 TTCTAT-AT
1 TTTTATAAT
7382881 ATTTTATAAT
1 -TTTTATAAT
* *
7382891 TTTTACACT
1 TTTTATAAT
*
7382900 TTTTATAAAA
1 TTTTAT-AAT
*
7382910 TTTTATAGTTT
1 TTTTATA--AT
7382921 TTTTATAATT
1 TTTTATAA-T
*
7382931 TTTTATGAT
1 TTTTATAAT
*
7382940 TTTTATATT
1 TTTTATAAT
*
7382949 TTTTCTAAT
1 TTTTATAAT
* *
7382958 TTTCAATAAA
1 TTT-TATAAT
*
7382968 TTTTAAATAT
1 TTTTATA-AT
*
7382978 TTTTATTAAAA
1 TTTTA-T-AAT
*
7382989 TTTAATAAT
1 TTTTATAAT
*
7382998 TTTTATAAC
1 TTTTATAAT
*
7383007 TTTTATTTAT
1 TTTTA-TAAT
7383017 TTTTAT--T
1 TTTTATAAT
7383024 TTTTATAAT
1 TTTTATAAT
7383033 TTTT
1 TTTT
7383037 TGTCACATGC
Statistics
Matches: 129, Mismatches: 31, Indels: 29
0.68 0.16 0.15
Matches are distributed among these distances:
7 7 0.05
8 2 0.02
9 58 0.45
10 48 0.37
11 13 0.10
12 1 0.01
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (9 bp):
TTTTATAAT
Found at i:7382921 original size:19 final size:19
Alignment explanation
Indices: 7382844--7382946 Score: 59
Period size: 19 Copynumber: 5.3 Consensus size: 19
7382834 TTCTTACGAC
*
7382844 TTTATAAAATTTTATAATT
1 TTTATAAAATTTTATAGTT
* *
7382863 TTT-TCTATATTTCTATA-TAT
1 TTTAT-AAAATTT-TATAGT-T
* * *
7382883 TTTAT-AATTTTTACACTT
1 TTTATAAAATTTTATAGTT
7382901 TTTATAAAATTTTATAGTT
1 TTTATAAAATTTTATAGTT
* * *
7382920 TTTTTATAATTTTTTATGATT
1 TTTATAAAATTTTATA-G-TT
7382941 TTTATA
1 TTTATA
7382947 TTTTTTCTAA
Statistics
Matches: 64, Mismatches: 12, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
18 10 0.16
19 37 0.58
20 9 0.14
21 8 0.12
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (19 bp):
TTTATAAAATTTTATAGTT
Found at i:7382942 original size:57 final size:58
Alignment explanation
Indices: 7382823--7382952 Score: 153
Period size: 57 Copynumber: 2.2 Consensus size: 58
7382813 TTGTTTACAT
7382823 TTTTTATAATTTTCTTACGAC--TTTATAAAATTTTATAATTTTTTCTATATTTCTATATA
1 TTTTTATAA-TTT-TTAC-ACTTTTTATAAAATTTTATAATTTTTTCTATATTTCTATATA
* *
7382882 -TTTTATAATTTTTACACTTTTTATAAAATTTTATAGTTTTTT-TATAATTT-TTTATGA
1 TTTTTATAATTTTTACACTTTTTATAAAATTTTATAATTTTTTCTAT-ATTTCTATAT-A
*
7382939 TTTTTATATTTTTT
1 TTTTTATAATTTTT
7382953 CTAATTTTCA
Statistics
Matches: 63, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
55 2 0.03
56 11 0.17
57 30 0.48
58 20 0.32
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.64
Consensus pattern (58 bp):
TTTTTATAATTTTTACACTTTTTATAAAATTTTATAATTTTTTCTATATTTCTATATA
Found at i:7383011 original size:19 final size:19
Alignment explanation
Indices: 7382920--7383022 Score: 66
Period size: 19 Copynumber: 5.4 Consensus size: 19
7382910 TTTTATAGTT
* * *
7382920 TTTTTATAATTTTTTATGA
1 TTTTTATAAATTTTAATAA
* **
7382939 TTTTTAT-ATTTTTTCTAA
1 TTTTTATAAATTTTAATAA
*
7382957 TTTTCAATAAATTTTAA-ATA
1 TTTT-TATAAATTTTAATA-A
*
7382977 TTTTTATTAAAATTTAATAA
1 TTTTTA-TAAATTTTAATAA
* * *
7382997 TTTTTATAACTTTTATTTA
1 TTTTTATAAATTTTAATAA
7383016 TTTTTAT
1 TTTTTAT
7383023 TTTTTATAAT
Statistics
Matches: 67, Mismatches: 12, Indels: 10
0.75 0.13 0.11
Matches are distributed among these distances:
18 13 0.19
19 27 0.40
20 26 0.39
21 1 0.01
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (19 bp):
TTTTTATAAATTTTAATAA
Found at i:7383497 original size:16 final size:15
Alignment explanation
Indices: 7383476--7383515 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
7383466 GGTAAAAGAC
7383476 ATAAAATTAATAGAAA
1 ATAAAATTAATA-AAA
*
7383492 ATAAAAATAATAAAA
1 ATAAAATTAATAAAA
7383507 AT-AAATTAA
1 ATAAAATTAA
7383516 AAACAAAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 6 0.27
15 5 0.23
16 11 0.50
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (15 bp):
ATAAAATTAATAAAA
Found at i:7383915 original size:6 final size:6
Alignment explanation
Indices: 7383904--7383943 Score: 73
Period size: 6 Copynumber: 6.8 Consensus size: 6
7383894 GGTCAATTTT
7383904 TTATAA TTATAA TTATAA TTATAA TTATAA TTAT-A TTATA
1 TTATAA TTATAA TTATAA TTATAA TTATAA TTATAA TTATA
7383944 TTAAATTTCA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 5 0.15
6 28 0.85
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (6 bp):
TTATAA
Found at i:7385575 original size:14 final size:15
Alignment explanation
Indices: 7385551--7385579 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
7385541 GGCTTTTGGT
7385551 TTTCTTTCCTTTTTG
1 TTTCTTTCCTTTTTG
7385566 TTTC-TTCCTTTTTG
1 TTTCTTTCCTTTTTG
7385580 GAATCGGTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.00, C:0.21, G:0.07, T:0.72
Consensus pattern (15 bp):
TTTCTTTCCTTTTTG
Found at i:7386260 original size:21 final size:22
Alignment explanation
Indices: 7386236--7386292 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
7386226 TGTCCTTGGT
7386236 TCACACGAGCGTGTGCCT-TAG
1 TCACACGAGCGTGTGCCTCTAG
* **
7386257 TCACATG-GCCGTGTGCCTCTCT
1 TCACACGAG-CGTGTGCCTCTAG
7386279 TCACACGAGCGTGT
1 TCACACGAGCGTGT
7386293 ACCGTTGCCA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
20 1 0.03
21 15 0.52
22 12 0.41
23 1 0.03
ACGTcount: A:0.16, C:0.32, G:0.26, T:0.26
Consensus pattern (22 bp):
TCACACGAGCGTGTGCCTCTAG
Found at i:7389392 original size:13 final size:13
Alignment explanation
Indices: 7389376--7389402 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
7389366 ATTTAATCTA
7389376 AAACACATCAATG
1 AAACACATCAATG
7389389 AAACACATCAATG
1 AAACACATCAATG
7389402 A
1 A
7389403 TAATCACAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.22, G:0.07, T:0.15
Consensus pattern (13 bp):
AAACACATCAATG
Found at i:7396315 original size:29 final size:30
Alignment explanation
Indices: 7396283--7396359 Score: 102
Period size: 30 Copynumber: 2.6 Consensus size: 30
7396273 ATTAGTAATA
*
7396283 ATAAAACTATATTTTAATT-TTTAAAAAAT
1 ATAAAAATATATTTTAATTATTTAAAAAAT
* *
7396312 ATAAAAATTTATTTTAATTATTTAAAAATT
1 ATAAAAATATATTTTAATTATTTAAAAAAT
*
7396342 ATAAAAATAAATTATTAA
1 ATAAAAATATATT-TTAA
7396360 AATAATAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
29 17 0.41
30 20 0.49
31 4 0.10
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (30 bp):
ATAAAAATATATTTTAATTATTTAAAAAAT
Found at i:7396725 original size:15 final size:15
Alignment explanation
Indices: 7396705--7396754 Score: 75
Period size: 15 Copynumber: 3.3 Consensus size: 15
7396695 CCCACCATTG
7396705 CCATCATTCCCTAAA
1 CCATCATTCCCTAAA
*
7396720 CCATCATTCCCTAGA
1 CCATCATTCCCTAAA
7396735 CCATCATTCCC-AAA
1 CCATCATTCCCTAAA
7396749 GCCATC
1 -CCATC
7396755 CATACCATCA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
14 2 0.06
15 30 0.94
ACGTcount: A:0.30, C:0.42, G:0.04, T:0.24
Consensus pattern (15 bp):
CCATCATTCCCTAAA
Found at i:7396766 original size:24 final size:24
Alignment explanation
Indices: 7396734--7396795 Score: 124
Period size: 24 Copynumber: 2.6 Consensus size: 24
7396724 CATTCCCTAG
7396734 ACCATCATTCCCAAAGCCATCCAT
1 ACCATCATTCCCAAAGCCATCCAT
7396758 ACCATCATTCCCAAAGCCATCCAT
1 ACCATCATTCCCAAAGCCATCCAT
7396782 ACCATCATTCCCAA
1 ACCATCATTCCCAA
7396796 GGCGTGGGGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.34, C:0.42, G:0.03, T:0.21
Consensus pattern (24 bp):
ACCATCATTCCCAAAGCCATCCAT
Found at i:7397467 original size:15 final size:17
Alignment explanation
Indices: 7397433--7397470 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
7397423 AGTAAAAAAG
7397433 TAATTTCATCATTTTAA
1 TAATTTCATCATTTTAA
*
7397450 TAATTT-AT-ATTTTTA
1 TAATTTCATCATTTTAA
7397465 TAATTT
1 TAATTT
7397471 TTAAAGGACT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 12 0.60
16 2 0.10
17 6 0.30
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (17 bp):
TAATTTCATCATTTTAA
Found at i:7397522 original size:30 final size:29
Alignment explanation
Indices: 7397455--7397529 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 29
7397445 TTTAATAATT
*
7397455 TATATTTTTATAATTTTTAAAGGACTAAA
1 TATATTTTTATATTTTTTAAAGGACTAAA
* * *
7397484 TCAAATTTTTATATTTTTTAAGGGGCTAAA
1 T-ATATTTTTATATTTTTTAAAGGACTAAA
*
7397514 GTATATTTTTACATTT
1 -TATATTTTTATATTT
7397530 ACTAATTATT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
29 1 0.03
30 36 0.95
31 1 0.03
ACGTcount: A:0.35, C:0.05, G:0.09, T:0.51
Consensus pattern (29 bp):
TATATTTTTATATTTTTTAAAGGACTAAA
Found at i:7398609 original size:20 final size:20
Alignment explanation
Indices: 7398584--7398622 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
7398574 TGTTGAGTTT
*
7398584 ATTAATGAGTAATTTATATA
1 ATTAATGAATAATTTATATA
*
7398604 ATTAATGAATATTTTATAT
1 ATTAATGAATAATTTATAT
7398623 TTGAAATTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.49
Consensus pattern (20 bp):
ATTAATGAATAATTTATATA
Found at i:7398672 original size:2 final size:2
Alignment explanation
Indices: 7398660--7398699 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
7398650 GATATTTGTA
*
7398660 AT AT AT TT 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
7398700 TTTGAGTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:7402184 original size:12 final size:12
Alignment explanation
Indices: 7402167--7402191 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7402157 TTTTAAAATT
7402167 ATGAATAATATA
1 ATGAATAATATA
7402179 ATGAATAATATA
1 ATGAATAATATA
7402191 A
1 A
7402192 AACATAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (12 bp):
ATGAATAATATA
Found at i:7402265 original size:11 final size:11
Alignment explanation
Indices: 7402249--7402299 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
7402239 AAAAAGTAAT
7402249 ATATAATAAAA
1 ATATAATAAAA
*
7402260 ATATAATAAATTTT
1 ATATAATAAA---A
7402274 ATATAAT-AAA
1 ATATAATAAAA
*
7402284 ATATAATAAAT
1 ATATAATAAAA
7402295 ATATA
1 ATATA
7402300 TAGGAAAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
10 7 0.21
11 17 0.52
13 2 0.06
14 7 0.21
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (11 bp):
ATATAATAAAA
Found at i:7402301 original size:25 final size:25
Alignment explanation
Indices: 7402247--7402301 Score: 87
Period size: 24 Copynumber: 2.3 Consensus size: 25
7402237 AAAAAAAGTA
7402247 ATATATAATAAAAATATAATAAATT
1 ATATATAATAAAAATATAATAAATT
*
7402272 TTATATAAT-AAAATATAATAAA-T
1 ATATATAATAAAAATATAATAAATT
7402295 ATATATA
1 ATATATA
7402302 GGAAAATAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 7 0.25
24 13 0.46
25 8 0.29
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (25 bp):
ATATATAATAAAAATATAATAAATT
Found at i:7403962 original size:43 final size:44
Alignment explanation
Indices: 7403888--7403970 Score: 132
Period size: 43 Copynumber: 1.9 Consensus size: 44
7403878 CTTGTTGATA
*
7403888 TCTTCGATTTGCTCTCCGCCGAATACAGAGATGCCAAATCTGTT
1 TCTTCGATTTGCTCTCCGACGAATACAGAGATGCCAAATCTGTT
* *
7403932 TCTTCGATTTGTTCTCTGAC-AATACAGAGATGCCAAATC
1 TCTTCGATTTGCTCTCCGACGAATACAGAGATGCCAAATC
7403971 ATCTTAGATT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
43 19 0.53
44 17 0.47
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (44 bp):
TCTTCGATTTGCTCTCCGACGAATACAGAGATGCCAAATCTGTT
Found at i:7404285 original size:205 final size:205
Alignment explanation
Indices: 7403933--7404310 Score: 702
Period size: 205 Copynumber: 1.8 Consensus size: 205
7403923 AAATCTGTTT
7403933 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
7403998 GTGAAAACCAAATCAACTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAACCAAATCAACTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
*
7404063 GGATCTACTTTAGTATAAACATCTGAAGGTTAGATCTGCTATGTATTTGCTCTCCATCGAAATGG
131 GGATCTACTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATTTGCTCTCCATCGAAATGG
7404128 AGATGCCAAA
196 AGATGCCAAA
*
7404138 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
* *
7404203 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAACCAAATCAACTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* *
7404268 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGTTATG
131 GGATCTACTTCAGTATAAACATCTGAAGGTTAGATCTGCTATG
7404311 CTGCAGCCTA
Statistics
Matches: 167, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
205 167 1.00
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (205 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
GTGAAAACCAAATCAACTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTACTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATTTGCTCTCCATCGAAATGG
AGATGCCAAA
Found at i:7416491 original size:12 final size:12
Alignment explanation
Indices: 7416474--7416498 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7416464 TTTTAAAATT
7416474 ATGAATAATATA
1 ATGAATAATATA
7416486 ATGAATAATATA
1 ATGAATAATATA
7416498 A
1 A
7416499 AACATAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (12 bp):
ATGAATAATATA
Found at i:7416555 original size:11 final size:11
Alignment explanation
Indices: 7416539--7416584 Score: 56
Period size: 11 Copynumber: 3.9 Consensus size: 11
7416529 TATACATAAC
7416539 ATATAATAAAA
1 ATATAATAAAA
*
7416550 AAATAATAAGTAA
1 ATATAATAA--AA
7416563 TATATAATAAAA
1 -ATATAATAAAA
7416575 ATATAATAAA
1 ATATAATAAA
7416585 TGTTATATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
11 18 0.60
12 2 0.07
13 2 0.07
14 8 0.27
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (11 bp):
ATATAATAAAA
Found at i:7416569 original size:14 final size:13
Alignment explanation
Indices: 7416481--7416637 Score: 53
Period size: 14 Copynumber: 11.7 Consensus size: 13
7416471 ATTATGAATA
7416481 ATATAATGAATAAT
1 ATATAAT-AATAAT
7416495 ATA-AA-ACATAAAT
1 ATATAATA-AT-AAT
*
7416508 AATATAACAGATAAT
1 -ATATAATA-ATAAT
* *
7416523 ATACGATATACATAAC
1 ATA-TA-ATA-ATAAT
7416539 ATATAATAA-AA-
1 ATATAATAATAAT
*
7416550 AAATAATAAGTAAT
1 ATATAATAA-TAAT
7416564 ATATAATAA-AA-
1 ATATAATAATAAT
**
7416575 ATATAATAAATGTT
1 ATATAAT-AATAAT
7416589 ATATAATAA-AAT
1 ATATAATAATAAT
7416601 ATGAT-ATAA-ATAT
1 AT-ATAATAATA-AT
*
7416614 ATATAGGAAAATAAT
1 ATATA--ATAATAAT
*
7416629 ATATGATAA
1 ATATAATAA
7416638 ATAAAAATTT
Statistics
Matches: 109, Mismatches: 15, Indels: 39
0.67 0.09 0.24
Matches are distributed among these distances:
11 16 0.15
12 18 0.17
13 19 0.17
14 27 0.25
15 16 0.15
16 13 0.12
ACGTcount: A:0.61, C:0.03, G:0.06, T:0.31
Consensus pattern (13 bp):
ATATAATAATAAT
Found at i:7416616 original size:25 final size:25
Alignment explanation
Indices: 7416539--7416618 Score: 92
Period size: 25 Copynumber: 3.2 Consensus size: 25
7416529 TATACATAAC
* * *
7416539 ATATAATAAAAAAATAATAAGTAAT
1 ATATAATAAAAATATAATAAATGAT
*
7416564 ATATAATAAAAATATAATAAATGTT
1 ATATAATAAAAATATAATAAATGAT
7416589 ATATAAT-AAAATATGATATAAAT-AT
1 ATATAATAAAAATAT-A-ATAAATGAT
7416614 ATATA
1 ATATA
7416619 GGAAAATAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
24 7 0.15
25 35 0.73
26 6 0.12
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (25 bp):
ATATAATAAAAATATAATAAATGAT
Found at i:7416709 original size:26 final size:27
Alignment explanation
Indices: 7416645--7416709 Score: 73
Period size: 26 Copynumber: 2.5 Consensus size: 27
7416635 TAAATAAAAA
7416645 TTTTAT-ATAAATATATAAATAGTACT
1 TTTTATAATAAATATATAAATAGTACT
* ** *
7416671 TTTAATAAT-AATATATGTATAGT-TT
1 TTTTATAATAAATATATAAATAGTACT
7416696 TTTTATAATAAATA
1 TTTTATAATAAATA
7416710 AATTATATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
25 9 0.28
26 21 0.66
27 2 0.06
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.49
Consensus pattern (27 bp):
TTTTATAATAAATATATAAATAGTACT
Found at i:7418674 original size:26 final size:26
Alignment explanation
Indices: 7418645--7418752 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
7418635 TGGTACAAAT
7418645 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
7418671 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
7418697 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
7418723 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
7418749 TGAT
1 TGAT
7418753 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:7423603 original size:37 final size:37
Alignment explanation
Indices: 7423561--7423637 Score: 154
Period size: 37 Copynumber: 2.1 Consensus size: 37
7423551 TGTGGAATTA
7423561 TAAATGCTAGTCGTAGGAAGTTCGATTTTTGAAAAGC
1 TAAATGCTAGTCGTAGGAAGTTCGATTTTTGAAAAGC
7423598 TAAATGCTAGTCGTAGGAAGTTCGATTTTTGAAAAGC
1 TAAATGCTAGTCGTAGGAAGTTCGATTTTTGAAAAGC
7423635 TAA
1 TAA
7423638 CGTATTTTCT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.34, C:0.10, G:0.23, T:0.32
Consensus pattern (37 bp):
TAAATGCTAGTCGTAGGAAGTTCGATTTTTGAAAAGC
Found at i:7425173 original size:16 final size:16
Alignment explanation
Indices: 7425139--7425174 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
7425129 AATATTTAAA
7425139 ATTG-GTTTGCTTTTT
1 ATTGTGTTTGCTTTTT
7425154 -TTGTGTTTGCTTTTT
1 ATTGTGTTTGCTTTTT
7425169 ATTGTG
1 ATTGTG
7425175 CATTTATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 3 0.16
15 11 0.58
16 5 0.26
ACGTcount: A:0.06, C:0.06, G:0.22, T:0.67
Consensus pattern (16 bp):
ATTGTGTTTGCTTTTT
Found at i:7425304 original size:3 final size:3
Alignment explanation
Indices: 7425296--7425364 Score: 138
Period size: 3 Copynumber: 23.0 Consensus size: 3
7425286 TTGCACTTTT
7425296 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
7425344 TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA
7425365 CTACTACTTA
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 66 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:7425378 original size:4 final size:4
Alignment explanation
Indices: 7425369--7425427 Score: 118
Period size: 4 Copynumber: 14.8 Consensus size: 4
7425359 TTATTACTAC
7425369 TACT TACT TACT TACT TACT TACT TACT TACT TACT TACT TACT TACT
1 TACT TACT TACT TACT TACT TACT TACT TACT TACT TACT TACT TACT
7425417 TACT TACT TAC
1 TACT TACT TAC
7425428 CTTTCTTCGA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 55 1.00
ACGTcount: A:0.25, C:0.25, G:0.00, T:0.49
Consensus pattern (4 bp):
TACT
Found at i:7436721 original size:44 final size:44
Alignment explanation
Indices: 7436655--7436773 Score: 139
Period size: 44 Copynumber: 2.7 Consensus size: 44
7436645 ATGGTGAATT
* * *
7436655 TTATCTCCCTCAAGTTGTAGTGGAGTAGATTAAAGCCATAAATC
1 TTATCTCCCTAAAGTTGCAGTGGAGTAGATTAAAGCCACAAATC
* * * **
7436699 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTTAAGTTACAAATC
1 TTATCTCCCTAAAGTTGCAGTGGAGTAGATTAAAGCCACAAATC
* * *
7436743 TTATCTCCCTAAAATTGCAATGAAGTAGATT
1 TTATCTCCCTAAAGTTGCAGTGGAGTAGATT
7436774 GAAGTTATGT
Statistics
Matches: 63, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 63 1.00
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Consensus pattern (44 bp):
TTATCTCCCTAAAGTTGCAGTGGAGTAGATTAAAGCCACAAATC
Found at i:7439188 original size:30 final size:30
Alignment explanation
Indices: 7439154--7439222 Score: 120
Period size: 30 Copynumber: 2.3 Consensus size: 30
7439144 TACGAGATTT
7439154 GGGGCAAAAGTATAAATATGTGAAAGTTTA
1 GGGGCAAAAGTATAAATATGTGAAAGTTTA
* *
7439184 GGGGCAAAAGTGTAAGTATGTGAAAGTTTA
1 GGGGCAAAAGTATAAATATGTGAAAGTTTA
7439214 GGGGCAAAA
1 GGGGCAAAA
7439223 TTTTAATTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.41, C:0.04, G:0.32, T:0.23
Consensus pattern (30 bp):
GGGGCAAAAGTATAAATATGTGAAAGTTTA
Found at i:7440962 original size:6 final size:6
Alignment explanation
Indices: 7440951--7440975 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
7440941 TAAGGCCCGA
7440951 ATCTGT ATCTGT ATCTGT ATCTGT A
1 ATCTGT ATCTGT ATCTGT ATCTGT A
7440976 ATGGGCTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.20, C:0.16, G:0.16, T:0.48
Consensus pattern (6 bp):
ATCTGT
Found at i:7442462 original size:36 final size:34
Alignment explanation
Indices: 7442411--7442496 Score: 102
Period size: 36 Copynumber: 2.5 Consensus size: 34
7442401 TACTTTTGTA
* *
7442411 TTCCTACTTCAATTTGAAATTGGATTATTCTCTCTT
1 TTCCTATTTCAATTTGAAATTGAATTATT-T-TCTT
* *
7442447 TTCCTATTTCTATTTGGAATTGAATTATTTTCTT
1 TTCCTATTTCAATTTGAAATTGAATTATTTTCTT
*
7442481 TT-CTCTTTCAATTTGA
1 TTCCTATTTCAATTTGA
7442497 CGTGGGAATT
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
33 11 0.26
34 6 0.14
35 1 0.02
36 25 0.58
ACGTcount: A:0.21, C:0.16, G:0.08, T:0.55
Consensus pattern (34 bp):
TTCCTATTTCAATTTGAAATTGAATTATTTTCTT
Found at i:7462497 original size:34 final size:34
Alignment explanation
Indices: 7462452--7462525 Score: 132
Period size: 34 Copynumber: 2.2 Consensus size: 34
7462442 TTTGACATAA
*
7462452 GTGTGT-ATCTGCTTTAGTGGTTTTGTGTTCTGG
1 GTGTGTGATCTGCTTTAGTGGTTATGTGTTCTGG
7462485 GTGTGTGATCTGCTTTAGTGGTTATGTGTTCTGG
1 GTGTGTGATCTGCTTTAGTGGTTATGTGTTCTGG
7462519 GTGTGTG
1 GTGTGTG
7462526 TGTGAGGTCC
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
33 6 0.15
34 33 0.85
ACGTcount: A:0.07, C:0.08, G:0.36, T:0.49
Consensus pattern (34 bp):
GTGTGTGATCTGCTTTAGTGGTTATGTGTTCTGG
Found at i:7464149 original size:44 final size:42
Alignment explanation
Indices: 7464086--7464255 Score: 162
Period size: 44 Copynumber: 3.9 Consensus size: 42
7464076 ACAAGTTTCA
* * *
7464086 AATCTTATATCCCTTAAGTTGCAGTGGAGCAGATTGAAATTAC
1 AATCTCATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAA-TAC
** *
7464129 TAATCTCATCTCCCTAAAGTTGTTGTGGAGTAGATTGAAGATAC
1 -AATCTCATCTCCCTAAAGTTGCAGTGGAGCAGATTGAA-ATAC
*
7464173 GAGTCTCATCTCCCTAAAGTTGCAGTGGAGCAGATT-AAAGCTAC
1 -AATCTCATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAA--TAC
* * * **
7464217 AAGTCTAATCACCCTAAAGTTGTAGTGGAATAGATTGAA
1 AA-TCTCATCTCCCTAAAGTTGCAGTGGAGCAGATTGAA
7464256 GCAACAAATC
Statistics
Matches: 104, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
42 1 0.01
43 3 0.03
44 97 0.93
45 3 0.03
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (42 bp):
AATCTCATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAATAC
Found at i:7464245 original size:88 final size:88
Alignment explanation
Indices: 7464095--7464256 Score: 238
Period size: 88 Copynumber: 1.8 Consensus size: 88
7464085 AAATCTTATA
* * * * * *
7464095 TCCCTTAAGTTGCAGTGGAGCAGATTGAAATTACTAATCTCATCTCCCTAAAGTTGTTGTGGAGT
1 TCCCTAAAGTTGCAGTGGAGCAGATTGAAACTACTAATCTAATCACCCTAAAGTTGTAGTGGAAT
7464160 AGATTGAAGATACGAGTCTCATC
66 AGATTGAAGATACGAGTCTCATC
7464183 TCCCTAAAGTTGCAGTGGAGCAGATT-AAAGCTAC-AAGTCTAATCACCCTAAAGTTGTAGTGGA
1 TCCCTAAAGTTGCAGTGGAGCAGATTGAAA-CTACTAA-TCTAATCACCCTAAAGTTGTAGTGGA
7464246 ATAGATTGAAG
64 ATAGATTGAAG
7464257 CAACAAATCC
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
87 5 0.08
88 61 0.92
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.29
Consensus pattern (88 bp):
TCCCTAAAGTTGCAGTGGAGCAGATTGAAACTACTAATCTAATCACCCTAAAGTTGTAGTGGAAT
AGATTGAAGATACGAGTCTCATC
Found at i:7464288 original size:88 final size:88
Alignment explanation
Indices: 7464084--7464265 Score: 226
Period size: 88 Copynumber: 2.1 Consensus size: 88
7464074 TTACAAGTTT
* * * * * *
7464084 CAAATCTTATATCCCTTAAGTTGCAGTGGAGCAGATTGAAATTACTAATCTCATCTCCCTAAAGT
1 CAAATCTCATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAACTACTAATCTAATCACCCTAAAGT
* *
7464149 TGTTGTGGAGTAGATTGAAGATA
66 TGTAGTGGAATAGATTGAAGATA
* *
7464172 CGAGTCTCATCTCCCTAAAGTTGCAGTGGAGCAGATT-AAAGCTAC-AAGTCTAATCACCCTAAA
1 CAAATCTCATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAA-CTACTAA-TCTAATCACCCTAAA
7464235 GTTGTAGTGGAATAGATTGAAGCA-A
64 GTTGTAGTGGAATAGATTGAAG-ATA
7464260 CAAATC
1 CAAATC
7464266 CTATACTTCT
Statistics
Matches: 79, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
87 5 0.06
88 73 0.92
89 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.29
Consensus pattern (88 bp):
CAAATCTCATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAACTACTAATCTAATCACCCTAAAGT
TGTAGTGGAATAGATTGAAGATA
Found at i:7464592 original size:33 final size:33
Alignment explanation
Indices: 7464555--7464622 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
7464545 CCCCAAATGA
7464555 CCCAAATACAAAAAATCCTAAAGGCCCGATAGG
1 CCCAAATACAAAAAATCCTAAAGGCCCGATAGG
7464588 CCCAAATACAAAAAATCCTAAAGGCCCGATAGG
1 CCCAAATACAAAAAATCCTAAAGGCCCGATAGG
7464621 CC
1 CC
7464623 TAACACCTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.44, C:0.29, G:0.15, T:0.12
Consensus pattern (33 bp):
CCCAAATACAAAAAATCCTAAAGGCCCGATAGG
Found at i:7465735 original size:26 final size:26
Alignment explanation
Indices: 7465698--7465755 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
7465688 TGATACAAAT
7465698 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
7465724 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
7465750 TGATAA
1 TGATAA
7465756 GAATTTCATG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:7467326 original size:22 final size:21
Alignment explanation
Indices: 7467299--7467339 Score: 73
Period size: 22 Copynumber: 1.9 Consensus size: 21
7467289 CATGTTTGAC
7467299 TGTTGTTATTTACTGCATGCCA
1 TGTTGTTATTTACTG-ATGCCA
7467321 TGTTGTTATTTACTGATGC
1 TGTTGTTATTTACTGATGC
7467340 ATGGGATTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.17, C:0.15, G:0.20, T:0.49
Consensus pattern (21 bp):
TGTTGTTATTTACTGATGCCA
Found at i:7468963 original size:16 final size:17
Alignment explanation
Indices: 7468935--7468972 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
7468925 TACCGGGGAT
7468935 GATGCCTTGTCACAGGC
1 GATGCCTTGTCACAGGC
7468952 GATGCC-TGTCACAGGC
1 GATGCCTTGTCACAGGC
*
7468968 AATGC
1 GATGC
7468973 TTCGTGCTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.21, C:0.29, G:0.29, T:0.21
Consensus pattern (17 bp):
GATGCCTTGTCACAGGC
Found at i:7471413 original size:26 final size:26
Alignment explanation
Indices: 7471376--7471459 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
7471366 TGATACAAAT
* *
7471376 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
7471402 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
7471428 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
7471454 TGATAA
1 TGATAA
7471460 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:7478271 original size:13 final size:13
Alignment explanation
Indices: 7478253--7478305 Score: 53
Period size: 13 Copynumber: 4.4 Consensus size: 13
7478243 TATAACATAT
*
7478253 AATAAAATTTATA
1 AATAAAATGTATA
7478266 AATAAAATGTAT-
1 AATAAAATGTATA
7478278 AAT--AA--TATA
1 AATAAAATGTATA
7478287 AATAATAATGTATA
1 AATAA-AATGTATA
7478301 AATAA
1 AATAA
7478306 TGTAAAAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 11
0.73 0.02 0.24
Matches are distributed among these distances:
8 3 0.09
9 3 0.09
10 2 0.06
12 5 0.15
13 11 0.33
14 9 0.27
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (13 bp):
AATAAAATGTATA
Found at i:7478296 original size:22 final size:22
Alignment explanation
Indices: 7478262--7478323 Score: 83
Period size: 22 Copynumber: 2.9 Consensus size: 22
7478252 TAATAAAATT
7478262 TATAAATAA-AATGTATAATAA
1 TATAAATAATAATGTATAATAA
7478283 TATAAATAATAATGTATAAATAA
1 TATAAATAATAATGTAT-AATAA
* *
7478306 TGTAAA-AATAATATATAA
1 TATAAATAATAATGTATAA
7478324 ATATTATTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
21 11 0.30
22 16 0.43
23 10 0.27
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (22 bp):
TATAAATAATAATGTATAATAA
Found at i:7478305 original size:35 final size:32
Alignment explanation
Indices: 7478236--7478305 Score: 86
Period size: 35 Copynumber: 2.1 Consensus size: 32
7478226 ATATTTATAG
* *
7478236 TAAAATATATAACATATAATAAAATTTATAAA
1 TAAAATATATAAAATATAATAAAATGTATAAA
*
7478268 TAAAATGTATAATAATATAAATAATAATGTATAAA
1 TAAAATATATAA-AATAT-AATAA-AATGTATAAA
7478303 TAA
1 TAA
7478306 TGTAAAAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
32 11 0.34
33 4 0.12
34 5 0.16
35 12 0.38
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.34
Consensus pattern (32 bp):
TAAAATATATAAAATATAATAAAATGTATAAA
Found at i:7478306 original size:11 final size:11
Alignment explanation
Indices: 7478271--7478326 Score: 60
Period size: 11 Copynumber: 5.1 Consensus size: 11
7478261 TTATAAATAA
7478271 AATGTAT-AAT
1 AATGTATAAAT
* *
7478281 AATATAAATAAT
1 AATGTATA-AAT
7478293 AATGTATAAAT
1 AATGTATAAAT
*
7478304 AATGTAAAAAT
1 AATGTATAAAT
*
7478315 AATATATAAAT
1 AATGTATAAAT
7478326 A
1 A
7478327 TTATTTTTAA
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
10 5 0.14
11 23 0.62
12 9 0.24
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (11 bp):
AATGTATAAAT
Found at i:7480124 original size:44 final size:44
Alignment explanation
Indices: 7480067--7480558 Score: 639
Period size: 44 Copynumber: 11.2 Consensus size: 44
7480057 CAAATGTCAG
* * *
7480067 ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAAACACCAA
1 ATCTGTTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
**
7480111 ATCTGTTATCTTCGATCTGCTCTCTACCAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
* * * * *
7480155 ATCTGCTATCTTTGATCTGCTTTCTGTCAATACAGAAATGCC-A
1 ATCTGTTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
* **** *
7480198 AGCCAAAATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
* *
7480242 ATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
* * *
7480286 ATCGGCTATCTTCGATCTGCTCTCTGTCAATACAGAGGCGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
* * *
7480330 ATCTGTCATCTTCGATCTGTTTTCTGTCAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
* *
7480374 ATTTGTCATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
* ** *
7480418 ATCTGTTATCTTTGATCTGCTCTCTCACAATACAGA-AAGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
* * * *
7480461 ATCTGTCATATTTGATCTGCTCTCTGTCAATACAGAGACACCAA
1 ATCTGTTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
7480505 ATCTGTTATCTTCGATCTGCTCTCTGAT-AATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCTG-TCAATACAGAGACGCCAA
*
7480549 ATCTGCTATC
1 ATCTGTTATC
7480559 GGTGATCTAC
Statistics
Matches: 389, Mismatches: 56, Indels: 6
0.86 0.12 0.01
Matches are distributed among these distances:
43 71 0.18
44 317 0.81
45 1 0.00
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.30
Consensus pattern (44 bp):
ATCTGTTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
Found at i:7480317 original size:219 final size:219
Alignment explanation
Indices: 7480071--7480558 Score: 662
Period size: 219 Copynumber: 2.2 Consensus size: 219
7480061 TGTCAGATCT
* *
7480071 GCTATCTTCGATCTGCTCTCTGTCAATACAGAAACACCAAATCTGTTATCTTCGATCTGCTCTCT
1 GCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCT
* * *
7480136 ACCAATACAGAGACGCCAAATCTG-CTATCTTTGATCTGCTTTCTGTCAATACAGAAATGCC-AA
66 ACCAATACAGAGACGCCAAATCTGTC-ATCTTCGATCTGCTCTCTGTCAATACAGAAACGCCAAA
* *
7480199 GCCAAAATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTG-C-TATCTTCGATCTGC
130 GCCAAAATCTTCGATCTGCTCTCTCACAATACAGA-AAGCCAAATCTGTCATAT-TT-GATCTGC
*
7480262 TCTCTGACAATACAGAGACGCCAAATCG
192 TCTCTGACAATACAGAGACACCAAATCG
* * * *
7480290 GCTATCTTCGATCTGCTCTCTGTCAATACAGAGGCGCCAAATCTGTCATCTTCGATCTGTTTTCT
1 GCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCT
** * * *
7480355 GTCAATACAGAGACGCCAAATTTGTCATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAAT
66 ACCAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTCTCTGTCAATACAGAAACGCCAAAG
**** *
7480420 CTGTTATCTTTGATCTGCTCTCTCACAATACAGAAAGCCAAATCTGTCATATTTGATCTGCTCTC
131 CCAAAATCTTCGATCTGCTCTCTCACAATACAGAAAGCCAAATCTGTCATATTTGATCTGCTCTC
* *
7480485 TGTCAATACAGAGACACCAAATCT
196 TGACAATACAGAGACACCAAATCG
* *
7480509 GTTATCTTCGATCTGCTCTCTGAT-AATACAGAGACGCCAAATCTGCTATC
1 GCTATCTTCGATCTGCTCTCTG-TCAATACAGAGACGCCAAATCTGTTATC
7480559 GGTGATCTAC
Statistics
Matches: 236, Mismatches: 28, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
219 198 0.84
220 35 0.15
221 3 0.01
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.30
Consensus pattern (219 bp):
GCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCT
ACCAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTCTCTGTCAATACAGAAACGCCAAAG
CCAAAATCTTCGATCTGCTCTCTCACAATACAGAAAGCCAAATCTGTCATATTTGATCTGCTCTC
TGACAATACAGAGACACCAAATCG
Found at i:7480541 original size:263 final size:263
Alignment explanation
Indices: 7480074--7480558 Score: 738
Period size: 263 Copynumber: 1.8 Consensus size: 263
7480064 CAGATCTGCT
*
7480074 ATCTTCGATCTGCTCTCTGTCAATACAGAAACACCAAATCTGTTATCTTCGATCTGCTCTCTACC
1 ATCTTCGATCTGCTCTCTGTCAATACAGAAACACCAAATCTGTCATCTTCGATCTGCTCTCTACC
* **
7480139 AATACAGAGACGCCAAATCTGCTATCTTTGATCTGCTTTCTGTCAATACAGAAATGCCAAGCCAA
66 AATACAGAGACGCCAAATCTGCTATCTTTGATCTGCTCTCTCACAATACAGAAATGCCAAGCCAA
* *
7480204 AATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGA
131 AATATTCGATCTGCTCTCTGACAATACAGAGACACCAAATCTGCTATCTTCGATCTGCTCTCTGA
7480269 CAATACAGAGACGCCAAATCGGCTATCTTCGATCTGCTCTCTGTCAATACAGAGGCGCCAAATCT
196 CAATACAGAGACGCCAAATCGGCTATCTTCGATCTGCTCTCTGTCAATACAGAGGCGCCAAATCT
7480334 GTC
261 GTC
* * * * * **
7480337 ATCTTCGATCTGTTTTCTGTCAATACAGAGACGCCAAATTTGTCATCTTCGATCTGCTCTCTGTC
1 ATCTTCGATCTGCTCTCTGTCAATACAGAAACACCAAATCTGTCATCTTCGATCTGCTCTCTACC
* * **
7480402 AATACAGAGACGCCAAATCTGTTATCTTTGATCTGCTCTCTCACAATACAGAAA-GCCAAATCTG
66 AATACAGAGACGCCAAATCTGCTATCTTTGATCTGCTCTCTCACAATACAGAAATGCC-AAGCCA
** * * *
7480466 TCATATTTGATCTGCTCTCTGTCAATACAGAGACACCAAATCTGTTATCTTCGATCTGCTCTCTG
130 AAATATTCGATCTGCTCTCTGACAATACAGAGACACCAAATCTGCTATCTTCGATCTGCTCTCTG
* *
7480531 ATAATACAGAGACGCCAAATCTGCTATC
195 ACAATACAGAGACGCCAAATCGGCTATC
7480559 GGTGATCTAC
Statistics
Matches: 197, Mismatches: 24, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
262 3 0.02
263 194 0.98
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (263 bp):
ATCTTCGATCTGCTCTCTGTCAATACAGAAACACCAAATCTGTCATCTTCGATCTGCTCTCTACC
AATACAGAGACGCCAAATCTGCTATCTTTGATCTGCTCTCTCACAATACAGAAATGCCAAGCCAA
AATATTCGATCTGCTCTCTGACAATACAGAGACACCAAATCTGCTATCTTCGATCTGCTCTCTGA
CAATACAGAGACGCCAAATCGGCTATCTTCGATCTGCTCTCTGTCAATACAGAGGCGCCAAATCT
GTC
Found at i:7480566 original size:131 final size:131
Alignment explanation
Indices: 7480074--7480558 Score: 695
Period size: 131 Copynumber: 3.7 Consensus size: 131
7480064 CAGATCTGCT
*
7480074 ATCTTCGATCTGCTCTCTGTCAATACAGAAACACCAAATCTGTTATCTTCGATCTGCTCTCT-AC
1 ATCTTCGATCTGCTCTCTGTCAATACAGAGACACCAAATCTGTTATCTTCGATCTGCTCTCTGA-
* * *
7480138 CAATACAGAGACGCCAAATCTGCTATCTTTGATCTGCTTTCTGTCAATACAGAAATGCC-AAGCC
65 CAATACAGAGACGCCAAATCTGCTATCTTTGATCTGCTCTCTGTCAATACAGAAA-GCCAAATCT
***
7480202 AAA
129 GTC
* * *
7480205 ATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGAC
1 ATCTTCGATCTGCTCTCTGTCAATACAGAGACACCAAATCTGTTATCTTCGATCTGCTCTCTGAC
* * **
7480270 AATACAGAGACGCCAAATCGGCTATCTTCGATCTGCTCTCTGTCAATACAGAGGCGCCAAATCTG
66 AATACAGAGACGCCAAATCTGCTATCTTTGATCTGCTCTCTGTCAATACAGA-AAGCCAAATCTG
7480335 TC
130 TC
* * * * * *
7480337 ATCTTCGATCTGTTTTCTGTCAATACAGAGACGCCAAATTTGTCATCTTCGATCTGCTCTCTGTC
1 ATCTTCGATCTGCTCTCTGTCAATACAGAGACACCAAATCTGTTATCTTCGATCTGCTCTCTGAC
* **
7480402 AATACAGAGACGCCAAATCTGTTATCTTTGATCTGCTCTCTCACAATACAGAAAGCCAAATCTGT
66 AATACAGAGACGCCAAATCTGCTATCTTTGATCTGCTCTCTGTCAATACAGAAAGCCAAATCTGT
7480467 C
131 C
* * *
7480468 ATATTTGATCTGCTCTCTGTCAATACAGAGACACCAAATCTGTTATCTTCGATCTGCTCTCTGAT
1 ATCTTCGATCTGCTCTCTGTCAATACAGAGACACCAAATCTGTTATCTTCGATCTGCTCTCTGAC
7480533 AATACAGAGACGCCAAATCTGCTATC
66 AATACAGAGACGCCAAATCTGCTATC
7480559 GGTGATCTAC
Statistics
Matches: 313, Mismatches: 38, Indels: 6
0.88 0.11 0.02
Matches are distributed among these distances:
131 204 0.65
132 109 0.35
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (131 bp):
ATCTTCGATCTGCTCTCTGTCAATACAGAGACACCAAATCTGTTATCTTCGATCTGCTCTCTGAC
AATACAGAGACGCCAAATCTGCTATCTTTGATCTGCTCTCTGTCAATACAGAAAGCCAAATCTGT
C
Found at i:7492627 original size:23 final size:22
Alignment explanation
Indices: 7492577--7492629 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 22
7492567 CGTAATTAAT
*
7492577 GAATAATAAAATAAAATATAAT
1 GAATAATAAAATAAAATATAAG
** *
7492599 TTATAATAAAATAAAAATGTAAG
1 GAATAATAAAAT-AAAATATAAG
7492622 GAATAATA
1 GAATAATA
7492630 TTTATAGTAA
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
22 10 0.42
23 14 0.58
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (22 bp):
GAATAATAAAATAAAATATAAG
Found at i:7492672 original size:13 final size:13
Alignment explanation
Indices: 7492654--7492706 Score: 53
Period size: 13 Copynumber: 4.4 Consensus size: 13
7492644 TATAACATAT
*
7492654 AATAAAATTTATA
1 AATAAAATGTATA
7492667 AATAAAATGTAT-
1 AATAAAATGTATA
7492679 AAT--AA--TATA
1 AATAAAATGTATA
7492688 AATAATAATGTATA
1 AATAA-AATGTATA
7492702 AATAA
1 AATAA
7492707 TGTAAAAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 11
0.73 0.02 0.24
Matches are distributed among these distances:
8 3 0.09
9 3 0.09
10 2 0.06
12 5 0.15
13 11 0.33
14 9 0.27
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (13 bp):
AATAAAATGTATA
Found at i:7492697 original size:22 final size:22
Alignment explanation
Indices: 7492663--7492723 Score: 81
Period size: 22 Copynumber: 2.8 Consensus size: 22
7492653 TAATAAAATT
7492663 TATAAATAA-AATGTATAATAA
1 TATAAATAATAATGTATAATAA
7492684 TATAAATAATAATGTATAAATAA
1 TATAAATAATAATGTAT-AATAA
* *
7492707 TGTAAA-AATAATATATA
1 TATAAATAATAATGTATA
7492724 TTATTTTTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
21 10 0.28
22 16 0.44
23 10 0.28
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (22 bp):
TATAAATAATAATGTATAATAA
Found at i:7492706 original size:35 final size:32
Alignment explanation
Indices: 7492637--7492706 Score: 86
Period size: 35 Copynumber: 2.1 Consensus size: 32
7492627 ATATTTATAG
* *
7492637 TAAAATATATAACATATAATAAAATTTATAAA
1 TAAAATATATAAAATATAATAAAATGTATAAA
*
7492669 TAAAATGTATAATAATATAAATAATAATGTATAAA
1 TAAAATATATAA-AATAT-AATAA-AATGTATAAA
7492704 TAA
1 TAA
7492707 TGTAAAAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
32 11 0.34
33 4 0.12
34 5 0.16
35 12 0.38
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.34
Consensus pattern (32 bp):
TAAAATATATAAAATATAATAAAATGTATAAA
Done.