Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 95 of 352
Found at i:30123789 original size:8 final size:8
Alignment explanation
Indices: 30123778--30123807 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
30123768 ACAAATGCCA
30123778 GCTTTTCG
1 GCTTTTCG
30123786 GCTTTTCG
1 GCTTTTCG
*
30123794 GCATTTCG
1 GCTTTTCG
30123802 GCTTTT
1 GCTTTT
30123808 GCCGATCTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.03, C:0.23, G:0.23, T:0.50
Consensus pattern (8 bp):
GCTTTTCG
Found at i:30135240 original size:19 final size:19
Alignment explanation
Indices: 30135216--30135252 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
30135206 GGCCAAAGTG
30135216 CAAATTGGATAAAATTAAA
1 CAAATTGGATAAAATTAAA
30135235 CAAATTGGATAAAATTAA
1 CAAATTGGATAAAATTAA
30135253 GTGTTTGTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.57, C:0.05, G:0.11, T:0.27
Consensus pattern (19 bp):
CAAATTGGATAAAATTAAA
Found at i:30135604 original size:40 final size:41
Alignment explanation
Indices: 30135498--30135655 Score: 115
Period size: 41 Copynumber: 3.8 Consensus size: 41
30135488 CGACAACAAA
* * * *
30135498 TCGACTATGTTTGGCACTTAGTGTGCGA-TTCGAGATAGCT
1 TCGACTATATATGGCACTTAGTGTGCGAGATAGAGATAGCT
*
30135538 TCGGCTATATATATATGTGGCACTTAGTGTGCGA-ATA-AGAATAGCT
1 TC-G--A-CTATATA--TGGCACTTAGTGTGCGAGATAGAG-ATAGCT
* * * *
30135584 TCGACTATATATGGCACTTAGTATGTGAGGTTGAGATAGCT
1 TCGACTATATATGGCACTTAGTGTGCGAGATAGAGATAGCT
* * * *
30135625 TCGGCTATAAAAGGCACTTAGTGTGCAAGAT
1 TCGACTATATATGGCACTTAGTGTGCGAGAT
30135656 TTTATTAGCT
Statistics
Matches: 92, Mismatches: 17, Indels: 17
0.73 0.13 0.13
Matches are distributed among these distances:
40 17 0.18
41 32 0.35
42 8 0.09
43 2 0.02
44 4 0.04
45 3 0.03
46 26 0.28
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.32
Consensus pattern (41 bp):
TCGACTATATATGGCACTTAGTGTGCGAGATAGAGATAGCT
Found at i:30143087 original size:15 final size:15
Alignment explanation
Indices: 30143067--30143100 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
30143057 AGATTTGACG
*
30143067 TAGCAAACACGAGTT
1 TAGCAAACACAAGTT
30143082 TAGCAAACACAAGTT
1 TAGCAAACACAAGTT
30143097 TAGC
1 TAGC
30143101 TATACATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.21
Consensus pattern (15 bp):
TAGCAAACACAAGTT
Found at i:30148329 original size:24 final size:23
Alignment explanation
Indices: 30148282--30148349 Score: 93
Period size: 23 Copynumber: 2.9 Consensus size: 23
30148272 TATCGATGTG
*
30148282 TCAGCTCATAAAGCTTACTATTT
1 TCAGCTCATAGAGCTTACTATTT
*
30148305 TCAGCTCATCAGAGCTTACTGTTT
1 TCAGCTCAT-AGAGCTTACTATTT
30148329 T-AGCTCAATAGAGCTTACTAT
1 TCAGCTC-ATAGAGCTTACTAT
30148350 CCATCAGTTC
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
23 25 0.62
24 15 0.38
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.37
Consensus pattern (23 bp):
TCAGCTCATAGAGCTTACTATTT
Found at i:30148532 original size:13 final size:13
Alignment explanation
Indices: 30148501--30148525 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30148491 TGTTATTTTG
30148501 CTATGTGAAAAAA
1 CTATGTGAAAAAA
30148514 CTATGTGAAAAA
1 CTATGTGAAAAA
30148526 GTCATGTTAC
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:0.52, C:0.08, G:0.16, T:0.24
Consensus pattern (13 bp):
CTATGTGAAAAAA
Found at i:30150154 original size:10 final size:10
Alignment explanation
Indices: 30150130--30150176 Score: 55
Period size: 10 Copynumber: 4.8 Consensus size: 10
30150120 TCTATCAACT
30150130 AACATT-AAA
1 AACATTCAAA
30150139 ATACATTCAAA
1 A-ACATTCAAA
30150150 AACA-T-AAA
1 AACATTCAAA
30150158 ATACATTCAAA
1 A-ACATTCAAA
30150169 AACATTCA
1 AACATTCA
30150177 TGGAAAGTCC
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
8 4 0.12
9 5 0.15
10 16 0.48
11 8 0.24
ACGTcount: A:0.60, C:0.17, G:0.00, T:0.23
Consensus pattern (10 bp):
AACATTCAAA
Found at i:30150170 original size:20 final size:20
Alignment explanation
Indices: 30150130--30150174 Score: 83
Period size: 19 Copynumber: 2.3 Consensus size: 20
30150120 TCTATCAACT
30150130 AACATTAAAATACATTCAAA
1 AACATTAAAATACATTCAAA
30150150 AACA-TAAAATACATTCAAA
1 AACATTAAAATACATTCAAA
30150169 AACATT
1 AACATT
30150175 CATGGAAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 19 0.79
20 5 0.21
ACGTcount: A:0.60, C:0.16, G:0.00, T:0.24
Consensus pattern (20 bp):
AACATTAAAATACATTCAAA
Found at i:30151240 original size:19 final size:20
Alignment explanation
Indices: 30151208--30151246 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
30151198 GATGAAACGA
30151208 AAAACTTCAGAAATTTTTAC
1 AAAACTTCAGAAATTTTTAC
30151228 AAAACTT-AGAAATTTTTAC
1 AAAACTTCAGAAATTTTTAC
30151247 CATGTACAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.46, C:0.13, G:0.05, T:0.36
Consensus pattern (20 bp):
AAAACTTCAGAAATTTTTAC
Found at i:30155536 original size:154 final size:154
Alignment explanation
Indices: 30155247--30155554 Score: 544
Period size: 154 Copynumber: 2.0 Consensus size: 154
30155237 AGTGGGGAGA
* * *
30155247 GACTGCTACTCATGTCGCTATCTGAGGAAAAGAGGTGTTGATTAAGCCTCGAGAAGTATATCGAT
1 GACTACTACTCATGTCACTATCTGAGGAAAAGAGGTGTCGATTAAGCCTCGAGAAGTATATCGAT
*
30155312 ATTACGATGCCTCGTACTATACCCACGATTATCTAGAGAATTTAGTTTTGTTCATATTTGAGGAA
66 ATTACGATGCCTCGTACTATACCCACGATTATCTAGAGAATTTAGTTTTGTTCATATTCGAGGAA
30155377 ATAGATATGGAAGGGATAATTAAT
131 ATAGATATGGAAGGGATAATTAAT
30155401 GACTACTACTCATGTCACTATCTGAGGAAAAGAGGTGTCGATTAAGCCTCGAGAAGTATATCGAT
1 GACTACTACTCATGTCACTATCTGAGGAAAAGAGGTGTCGATTAAGCCTCGAGAAGTATATCGAT
* * *
30155466 ATTACGATGCCTCGTACTATACCTACGATTATTTGGAGAATTTAGTTTTGTTCATATTCGAGGAA
66 ATTACGATGCCTCGTACTATACCCACGATTATCTAGAGAATTTAGTTTTGTTCATATTCGAGGAA
*
30155531 TTAGATATGGAAGGGATAATTAAT
131 ATAGATATGGAAGGGATAATTAAT
30155555 TATTTGACAG
Statistics
Matches: 146, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
154 146 1.00
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.32
Consensus pattern (154 bp):
GACTACTACTCATGTCACTATCTGAGGAAAAGAGGTGTCGATTAAGCCTCGAGAAGTATATCGAT
ATTACGATGCCTCGTACTATACCCACGATTATCTAGAGAATTTAGTTTTGTTCATATTCGAGGAA
ATAGATATGGAAGGGATAATTAAT
Found at i:30156286 original size:133 final size:133
Alignment explanation
Indices: 30156048--30156310 Score: 472
Period size: 133 Copynumber: 2.0 Consensus size: 133
30156038 GGGAGTAGAC
* * *
30156048 TTTGAATTTGTCGTGGAACGATTGTAGGAGGGAGTTGAGGAGAGATATGAGGAGAGATTTTAGGA
1 TTTGAATTGGTCATGGAACGATTGTAAGAGGGAGTTGAGGAGAGATATGAGGAGAGATTTTAGGA
*
30156113 GGATATCAAGGGGATTTGAAGTGGAGGAGGTGTTGGTGCCGAATTAGGATTGTAGGCACCTAGTG
66 GGATATCAAGGGGATTTGAAGTGGAGGAGGTGTTGGTGCCGAATTAGGATTGTAAGCACCTAGTG
30156178 GAG
131 GAG
**
30156181 TTTGAATTGGTCATGGAGGGATTGTAAGAGGGAGTTGAGGAGAGATATGAGGAGAGATTTTAGGA
1 TTTGAATTGGTCATGGAACGATTGTAAGAGGGAGTTGAGGAGAGATATGAGGAGAGATTTTAGGA
30156246 GGATATCAAGGGGATTTGAAGTGGAGGAGGTGTTGGTGCCGAATTAGGATTGTAAGCACCTAGTG
66 GGATATCAAGGGGATTTGAAGTGGAGGAGGTGTTGGTGCCGAATTAGGATTGTAAGCACCTAGTG
30156311 ATTTCGATTT
Statistics
Matches: 124, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
133 124 1.00
ACGTcount: A:0.28, C:0.06, G:0.40, T:0.27
Consensus pattern (133 bp):
TTTGAATTGGTCATGGAACGATTGTAAGAGGGAGTTGAGGAGAGATATGAGGAGAGATTTTAGGA
GGATATCAAGGGGATTTGAAGTGGAGGAGGTGTTGGTGCCGAATTAGGATTGTAAGCACCTAGTG
GAG
Found at i:30157682 original size:27 final size:27
Alignment explanation
Indices: 30157630--30158012 Score: 348
Period size: 27 Copynumber: 14.4 Consensus size: 27
30157620 ACACTAGACC
*
30157630 CCCTTATGTGAT-AAATGACTATTTTG
1 CCCTTATGTGGTAAAATGACTATTTTG
* *
30157656 CCCTTACGTGGTAAAAAGACTATTTTG
1 CCCTTATGTGGTAAAATGACTATTTTG
* * *
30157683 CCCTTTTGTGAT-AAATAACTATTTTG
1 CCCTTATGTGGTAAAATGACTATTTTG
* ** * *
30157709 CCTTTACATGGCAAAAAGACTATTTTG
1 CCCTTATGTGGTAAAATGACTATTTTG
*
30157736 CCCTTATGTGAT-AAATGACTATTTTG
1 CCCTTATGTGGTAAAATGACTATTTTG
** *
30157762 CCCTTACATGGTAAAAAGACTATTTTG
1 CCCTTATGTGGTAAAATGACTATTTTG
* *
30157789 CCCTTATGTGAT-AAATGACTATTTTT
1 CCCTTATGTGGTAAAATGACTATTTTG
* *
30157815 CCCTTACGTGGTAAAAAGACTATTTTG
1 CCCTTATGTGGTAAAATGACTATTTTG
* *
30157842 CCCTTATATGAT-AAATGACTATTTTG
1 CCCTTATGTGGTAAAATGACTATTTTG
* *
30157868 CCCGTATGTCGTAAAATGAC-AGTTTTG
1 CCCTTATGTGGTAAAATGACTA-TTTTG
* * *
30157895 CTCC-TACGTGGTAAAATGATTATTTTT
1 C-CCTTATGTGGTAAAATGACTATTTTG
* *
30157922 CCCTTATGAGGTAAAATGATTATTTTG
1 CCCTTATGTGGTAAAATGACTATTTTG
* * * ***
30157949 CCTTTATATCGTAAAATGACTAAAATG
1 CCCTTATGTGGTAAAATGACTATTTTG
** * *
30157976 CCCTTACATGGTAAATTGACTGTTTTG
1 CCCTTATGTGGTAAAATGACTATTTTG
*
30158003 CCCCTATGTG
1 CCCTTATGTG
30158013 AGTTATTTAT
Statistics
Matches: 279, Mismatches: 69, Indels: 17
0.76 0.19 0.05
Matches are distributed among these distances:
26 96 0.34
27 180 0.65
28 3 0.01
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.39
Consensus pattern (27 bp):
CCCTTATGTGGTAAAATGACTATTTTG
Found at i:30157693 original size:53 final size:53
Alignment explanation
Indices: 30157630--30158013 Score: 432
Period size: 53 Copynumber: 7.2 Consensus size: 53
30157620 ACACTAGACC
30157630 CCCTTATGTGATAAATGACTATTTTGCCCTTACGTGGTAAAAAGACTATTTTG
1 CCCTTATGTGATAAATGACTATTTTGCCCTTACGTGGTAAAAAGACTATTTTG
* * * * *
30157683 CCCTTTTGTGATAAATAACTATTTTGCCTTTACATGGCAAAAAGACTATTTTG
1 CCCTTATGTGATAAATGACTATTTTGCCCTTACGTGGTAAAAAGACTATTTTG
*
30157736 CCCTTATGTGATAAATGACTATTTTGCCCTTACATGGTAAAAAGACTATTTTG
1 CCCTTATGTGATAAATGACTATTTTGCCCTTACGTGGTAAAAAGACTATTTTG
*
30157789 CCCTTATGTGATAAATGACTATTTTTCCCTTACGTGGTAAAAAGACTATTTTG
1 CCCTTATGTGATAAATGACTATTTTGCCCTTACGTGGTAAAAAGACTATTTTG
* * * * *
30157842 CCCTTATATGATAAATGACTATTTTGCCCGTATGTCGTAAAATGAC-AGTTTTG
1 CCCTTATGTGATAAATGACTATTTTGCCCTTACGTGGTAAAAAGACTA-TTTTG
* * * * * * * *
30157895 CTCC-TACGTGGTAAAATGATTATTTTTCCCTTATGAGGTAAAATGATTATTTTG
1 C-CCTTATGTGAT-AAATGACTATTTTGCCCTTACGTGGTAAAAAGACTATTTTG
* * *** * ** *
30157949 CCTTTATATCG-TAAAATGACTAAAATGCCCTTACATGGTAAATTGACTGTTTTG
1 CCCTTATGT-GAT-AAATGACTATTTTGCCCTTACGTGGTAAAAAGACTATTTTG
*
30158003 CCCCTATGTGA
1 CCCTTATGTGA
30158014 GTTATTTATA
Statistics
Matches: 281, Mismatches: 43, Indels: 13
0.83 0.13 0.04
Matches are distributed among these distances:
52 1 0.00
53 201 0.72
54 77 0.27
55 2 0.01
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.39
Consensus pattern (53 bp):
CCCTTATGTGATAAATGACTATTTTGCCCTTACGTGGTAAAAAGACTATTTTG
Found at i:30157988 original size:81 final size:80
Alignment explanation
Indices: 30157654--30158005 Score: 213
Period size: 80 Copynumber: 4.4 Consensus size: 80
30157644 ATGACTATTT
* * ** *
30157654 TGCCCTTACGTGGTAAAAAGACTATTTTGCCCTT-TTGTGATAAATAACTATTTTGCCTTTACAT
1 TGCCCTTACGTGGTAAAAAGACTATTTTGCCCTTATAG-GATAAATGACTATTTTGCCCGTATAT
* * * ***
30157718 GGCAAAAAGACTA-TTT
65 CGTAAAATGAC-AGAAA
* * * * *
30157734 TGCCCTTATGTGAT-AAATGACTATTTTGCCCTTACATGG-TAAAAAGACTATTTTGCCC-T-TA
1 TGCCCTTACGTGGTAAAAAGACTATTTTGCCCTTATA-GGAT-AAATGACTATTTTGCCCGTATA
***
30157795 T-GTGATAAATGACTA-TTT
64 TCGT-A-AAATGAC-AGAAA
* * *
30157813 TTCCCTTACGTGGTAAAAAGACTATTTTGCCCTTATATGATAAATGACTATTTTGCCCGTATGTC
1 TGCCCTTACGTGGTAAAAAGACTATTTTGCCCTTATAGGATAAATGACTATTTTGCCCGTATATC
***
30157878 GTAAAATGACAGTTT
66 GTAAAATGACAGAAA
* * * * **
30157893 TGCTCC-TACGTGGTAAAATGATTATTTTTCCCTTATGAGG-TAAAATGATTATTTTGCCTTTAT
1 TGC-CCTTACGTGGTAAAAAGACTATTTTGCCCTTAT-AGGAT-AAATGACTATTTTGCCCGTAT
30157956 ATCGTAAAATGACTA-AAA
63 ATCGTAAAATGAC-AGAAA
* ** *
30157974 TGCCCTTACATGGTAAATTGACTGTTTTGCCC
1 TGCCCTTACGTGGTAAAAAGACTATTTTGCCC
30158006 CTATGTGAGT
Statistics
Matches: 220, Mismatches: 36, Indels: 31
0.77 0.13 0.11
Matches are distributed among these distances:
77 1 0.00
78 3 0.01
79 60 0.27
80 91 0.41
81 62 0.28
82 3 0.01
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.38
Consensus pattern (80 bp):
TGCCCTTACGTGGTAAAAAGACTATTTTGCCCTTATAGGATAAATGACTATTTTGCCCGTATATC
GTAAAATGACAGAAA
Found at i:30161060 original size:43 final size:42
Alignment explanation
Indices: 30160994--30161111 Score: 139
Period size: 43 Copynumber: 2.8 Consensus size: 42
30160984 AGCTTGTACA
* ** *
30160994 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAAACAAGGTCTTACACGTAATCAAATA-CG
**
30161037 ATGCC-ACTGTCCCAAACAAGGTCTTACACAAAATCAAATACG
1 ATGCCAAC-GTCCCAAACAAGGTCTTACACGTAATCAAATACG
* *
30161079 ATGCCAACGTCCCAGACATGGTCTTACACGTAA
1 ATGCCAACGTCCCAAACAAGGTCTTACACGTAA
30161112 AACATAAGTT
Statistics
Matches: 63, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
42 30 0.48
43 33 0.52
ACGTcount: A:0.34, C:0.28, G:0.16, T:0.22
Consensus pattern (42 bp):
ATGCCAACGTCCCAAACAAGGTCTTACACGTAATCAAATACG
Found at i:30161135 original size:44 final size:43
Alignment explanation
Indices: 30160994--30161162 Score: 161
Period size: 44 Copynumber: 3.9 Consensus size: 43
30160984 AGCTTGTACA
* *
30160994 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAA-AT-ATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAA--AACATAATCG
* *
30161037 ATGCC-ACTGTCCCAAACAAGGTCTTACAC--AAAATCA-AATACG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGTAAAA-CATAAT-CG
*
30161079 ATGCCAACGTCCCAGACATGGTCTTACACGTAAAACATAAGTTG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAAACATAA-TCG
* * *
30161123 ATGCCAATGTCCCAGACGTGGTCTTACACGATAACACATA
1 ATGCCAACGTCCCAGACATGGTCTTACACG-TAAAACATA
30161163 TCGGATCCTA
Statistics
Matches: 105, Mismatches: 10, Indels: 20
0.78 0.07 0.15
Matches are distributed among these distances:
39 2 0.02
41 5 0.05
42 28 0.27
43 26 0.25
44 35 0.33
45 9 0.09
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.22
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAAAACATAATCG
Found at i:30163239 original size:25 final size:27
Alignment explanation
Indices: 30163202--30163254 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
30163192 TCAAACATGC
30163202 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
30163228 ATTTCGGT-AATTTACCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
30163254 A
1 A
30163255 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:0.17, G:0.23, T:0.36
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:30164778 original size:32 final size:32
Alignment explanation
Indices: 30164736--30164832 Score: 185
Period size: 32 Copynumber: 3.0 Consensus size: 32
30164726 AATGCTTACC
30164736 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
*
30164768 ATGCTCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
30164800 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
30164832 A
1 A
30164833 AATGCATACA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 63 1.00
ACGTcount: A:0.38, C:0.24, G:0.06, T:0.32
Consensus pattern (32 bp):
ATGCCCATCATCCATTAACTATTAAAATGCTA
Found at i:30168783 original size:16 final size:16
Alignment explanation
Indices: 30168764--30168820 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 16
30168754 TCCTTGTGTC
30168764 TATTTCCTATTGTGAT
1 TATTTCCTATTGTGAT
*
30168780 TATTTCATGCACTTGTG-T
1 TATTTCCT--A-TTGTGAT
*
30168798 CTATTTTCTATTGTGAT
1 -TATTTCCTATTGTGAT
30168815 TATTTC
1 TATTTC
30168821 ATGCAAGGCA
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
16 17 0.53
17 2 0.06
18 2 0.06
19 11 0.34
ACGTcount: A:0.18, C:0.14, G:0.12, T:0.56
Consensus pattern (16 bp):
TATTTCCTATTGTGAT
Found at i:30168797 original size:35 final size:35
Alignment explanation
Indices: 30168756--30168825 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
30168746 TACATTATTC
30168756 CTTGTGTCTATTTCCTATTGTGATTATTTCATGCA
1 CTTGTGTCTATTTCCTATTGTGATTATTTCATGCA
*
30168791 CTTGTGTCTATTTTCTATTGTGATTATTTCATGCA
1 CTTGTGTCTATTTCCTATTGTGATTATTTCATGCA
30168826 AGGCATGTTG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.17, C:0.16, G:0.14, T:0.53
Consensus pattern (35 bp):
CTTGTGTCTATTTCCTATTGTGATTATTTCATGCA
Found at i:30169294 original size:6 final size:6
Alignment explanation
Indices: 30169285--30169310 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
30169275 TTTAGTTCTA
30169285 TTTTGT TTTTGT TTTTGT TTTTGT TT
1 TTTTGT TTTTGT TTTTGT TTTTGT TT
30169311 AGTTTGCTTG
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:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (6 bp):
TTTTGT
Found at i:30173980 original size:43 final size:41
Alignment explanation
Indices: 30173890--30174037 Score: 131
Period size: 43 Copynumber: 3.5 Consensus size: 41
30173880 ATCCGATATG
* * * *
30173890 TGATTTCGTGTAAGACCACGTCTGGGACGTTGGTATCG-ACTT
1 TGATTTCATGTAAGACCACATCT-GGAAGTTGGCATCGTA-TT
30173932 ATGATTTACATGTAAGACCACATCTGGAATGTTGGCATCGTATT
1 -TGATTT-CATGTAAGACCACATCTGGAA-GTTGGCATCGTATT
* *
30173976 TGATTTCGTGTAAGACC-CTATCTGGGACAG-TGGCACCGGTATT
1 TGATTTCATGTAAGACCAC-ATCT-GGA-AGTTGGCATC-GTATT
*
30174019 TGATTACATGTAAGACCAC
1 TGATTTCATGTAAGACCAC
30174038 GTTTGGGACA
Statistics
Matches: 89, Mismatches: 8, Indels: 15
0.79 0.07 0.13
Matches are distributed among these distances:
41 1 0.01
42 20 0.22
43 39 0.44
44 28 0.31
45 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (41 bp):
TGATTTCATGTAAGACCACATCTGGAAGTTGGCATCGTATT
Found at i:30174045 original size:43 final size:41
Alignment explanation
Indices: 30173937--30174053 Score: 105
Period size: 43 Copynumber: 2.8 Consensus size: 41
30173927 GACTTATGAT
* *
30173937 TTACATGTAAGACCACATCT-GGA-ATGTTGGCATCGTATTTGA
1 TTACATGTAAGACCAC-TTTGGGACA-G-TGGCACCGTATTTGA
* *
30173979 TTTCGTGTAAGACC-CTATCTGGGACAGTGGCACCGGTATTTGA
1 TTACATGTAAGACCACT-T-TGGGACAGTGGCACC-GTATTTGA
*
30174022 TTACATGTAAGACCACGTTTGGGACATTGGCA
1 TTACATGTAAGACCAC-TTTGGGACAGTGGCA
30174054 TTGTACGATT
Statistics
Matches: 61, Mismatches: 7, Indels: 13
0.75 0.09 0.16
Matches are distributed among these distances:
40 1 0.02
41 1 0.02
42 19 0.31
43 36 0.59
44 3 0.05
45 1 0.02
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.31
Consensus pattern (41 bp):
TTACATGTAAGACCACTTTGGGACAGTGGCACCGTATTTGA
Found at i:30176042 original size:19 final size:20
Alignment explanation
Indices: 30176018--30176057 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
30176008 CTCCAAAGTG
30176018 TTAG-TTTTTTTTACTTTAC
1 TTAGTTTTTTTTTACTTTAC
30176037 TTAGTTTTTTTTTACTTTAC
1 TTAGTTTTTTTTTACTTTAC
30176057 T
1 T
30176058 ATTTTTCTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.70
Consensus pattern (20 bp):
TTAGTTTTTTTTTACTTTAC
Found at i:30176241 original size:4 final size:4
Alignment explanation
Indices: 30176228--30176261 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
30176218 TTATTTGTGC
30176228 ATTT ATTTT ATTT ATTT ATTTT ATTT ATTT ATTT
1 ATTT A-TTT ATTT ATTT A-TTT ATTT ATTT ATTT
30176262 TTCTATGTGC
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
ATTT
Found at i:30176246 original size:13 final size:13
Alignment explanation
Indices: 30176228--30176262 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
30176218 TTATTTGTGC
30176228 ATTTATTTTATTT
1 ATTTATTTTATTT
30176241 ATTTATTTTATTT
1 ATTTATTTTATTT
30176254 ATTTATTTT
1 ATTTATTTT
30176263 TCTATGTGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
ATTTATTTTATTT
Found at i:30178030 original size:19 final size:18
Alignment explanation
Indices: 30178006--30178052 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 18
30177996 CTTTGTTTCT
30178006 TTTGCATTCATTCCATGCA
1 TTTGCATTCATTCCAT-CA
*
30178025 TTTGCATTGCATTGCATCA
1 TTTGCATT-CATTCCATCA
30178044 TTTGCATTC
1 TTTGCATTC
30178053 GATTTTCACA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 1 0.04
19 18 0.69
20 7 0.27
ACGTcount: A:0.19, C:0.23, G:0.13, T:0.45
Consensus pattern (18 bp):
TTTGCATTCATTCCATCA
Found at i:30180086 original size:81 final size:79
Alignment explanation
Indices: 30179953--30180103 Score: 171
Period size: 81 Copynumber: 1.9 Consensus size: 79
30179943 TCTTTTGAGC
* * ** * * * *
30179953 AAATATTCTTTTATTTTTTTCCATTTCATACTGTACAAATAATTATTCTTAG-ATTCTTTTGTTC
1 AAATATTCTTTTATTTTATTCCATATCATACCATACAAATAATCATCCTTAGAATT-ATTTATTC
30180017 TTTGGACTTTCTTTA
65 TTTGGACTTTCTTTA
*
30180032 AAATATTCTTTTATTCTTCATT-CATGATCATACCATACAAATAGTCATCCTTAGAATTATTTAT
1 AAATATTCTTTTATT-TT-ATTCCAT-ATCATACCATACAAATAATCATCCTTAGAATTATTTAT
30180096 TCTTTGGA
63 TCTTTGGA
30180104 ATCTGCCTTC
Statistics
Matches: 59, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
79 15 0.25
80 5 0.08
81 36 0.61
82 3 0.05
ACGTcount: A:0.28, C:0.15, G:0.07, T:0.50
Consensus pattern (79 bp):
AAATATTCTTTTATTTTATTCCATATCATACCATACAAATAATCATCCTTAGAATTATTTATTCT
TTGGACTTTCTTTA
Found at i:30183045 original size:178 final size:178
Alignment explanation
Indices: 30182750--30183847 Score: 1312
Period size: 178 Copynumber: 6.2 Consensus size: 178
30182740 TCTTCCTGAA
* * ** * *
30182750 ATAGCAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTCCCAAGGTATCAGGGGAGCAGATTTT
1 ATAGCAGTGGGGCAGATCAAAGACGGTGAATCTTATCTTCCCGAGGTAGCAGGGGAGCAGATTTT
** * *
30182815 AGCCACTAGCCTTATCTCTTTGAGGTAGCAAAGGAGCAGGCTGAAGATTGTAGTCTTATCTTCCC
66 AGCCACTAGCCTTATCTCCCTGAGGTAGCAAGGGAGCAGGCTGAAGATTGTAGTCTTATCTTCCT
* *
30182880 GAGGTAGCAAGGGAGCAGACTGAAGATTGTAGATCTTGTCTCCCTGAA
131 GAGGTAGCAAGGGAGCAGACTGAAGATTGTAGATCTTGTCTCCTTGAG
* * * *
30182928 ATAACAGTGGAGCAAATCAAAGACGATGAATCTTATCTTCCCGAGGTAGCAGGGGAGCAGATTTT
1 ATAGCAGTGGGGCAGATCAAAGACGGTGAATCTTATCTTCCCGAGGTAGCAGGGGAGCAGATTTT
* * *
30182993 AGCCACTAGCCTTATCTCTCTGAGGTAGCAAGGGAGCATGCTGAAAATTGTAGTCTTATCTTCCT
66 AGCCACTAGCCTTATCTCCCTGAGGTAGCAAGGGAGCAGGCTGAAGATTGTAGTCTTATCTTCCT
* *
30183058 GAGGTAGCAAGGGAACAGACTGAAGATTGTAGATTTTGTCTCCTTGAG
131 GAGGTAGCAAGGGAGCAGACTGAAGATTGTAGATCTTGTCTCCTTGAG
* * *
30183106 ATAGCAGTGGGGCAGATCAAA-AGCTGTGAATCTTATCTTCCCGAGGTAGCAAGGGAGCAAATTT
1 ATAGCAGTGGGGCAGATCAAAGA-CGGTGAATCTTATCTTCCCGAGGTAGCAGGGGAGCAGATTT
* * * * * * *
30183170 TAGCCACCATCCTTATCTCTCTAAGGCAGCAAGGGAGTAGGCTGAAGATTGTAGTCTTATCTTCT
65 TAGCCACTAGCCTTATCTCCCTGAGGTAGCAAGGGAGCAGGCTGAAGATTGTAGTCTTATCTTCC
*
30183235 TGAGGTAGCAAGGGAGAAGACTGAAGATTGTAGATCTTGTCTCCTTGAG
130 TGAGGTAGCAAGGGAGCAGACTGAAGATTGTAGATCTTGTCTCCTTGAG
* * * * * *
30183284 ATAGCAGTGGGGCAGATAAAAAATGGTGAATCTTATCTTCTCGAGGTAGTAGGGGAGTAGATTTT
1 ATAGCAGTGGGGCAGATCAAAGACGGTGAATCTTATCTTCCCGAGGTAGCAGGGGAGCAGATTTT
* * **
30183349 AGCCATTGGCCTTATCTCCCTGAGGTAGCAAGGGAGCAGGCTGAAGATTGTAGTCTTATCTTTTT
66 AGCCACTAGCCTTATCTCCCTGAGGTAGCAAGGGAGCAGGCTGAAGATTGTAGTCTTATCTTCCT
* * * * *
30183414 GAGGTAGCAAGGGAGCAAACTGATGACT-CAGATTTTGTCT-CTTCGAG
131 GAGGTAGCAAGGGAGCAGACTGAAGATTGTAGATCTTGTCTCCTT-GAG
* * * * * * * *
30183461 ATAGCAGTAGGGTAGATTAAAAATGGTGAATCTTTTCTTCCTGAGGTAGCAGAGGAGCAGATTTT
1 ATAGCAGTGGGGCAGATCAAAGACGGTGAATCTTATCTTCCCGAGGTAGCAGGGGAGCAGATTTT
* * *
30183526 AGCCACTAGCCTTATCTCCCTAAGGTAGCAAGGGAGCAGGCTGAAGATTGTAGTATTATCTTCTT
66 AGCCACTAGCCTTATCTCCCTGAGGTAGCAAGGGAGCAGGCTGAAGATTGTAGTCTTATCTTCCT
* * * * * *
30183591 GAGGTAACAAGGGAGAAGACTGATGACTCG--GATTTTGTCTCCTTGGG
131 GAGGTAGCAAGGGAGCAGACTGAAGA-TTGTAGATCTTGTCTCCTTGAG
* *** * *
30183638 ATAGAAGTGGGGCAGATCGAAAG-CGACAAATCTTATCTTCCTGAGGTAGTAGGGGAGCAGATTT
1 ATAGCAGTGGGGCAGATC-AAAGACGGTGAATCTTATCTTCCCGAGGTAGCAGGGGAGCAGATTT
* * * ** * *
30183702 CAGCAACCAATCTTATCTCCCTGGGGTAGCAAGGGAGCAGGCTGAAGATTGTAGTCTCATCTTCC
65 TAGCCACTAGCCTTATCTCCCTGAGGTAGCAAGGGAGCAGGCTGAAGATTGTAGTCTTATCTTCC
* * * * * *
30183767 TGAGGTAGTAAGGGAGCAGACTGAAGACTGGAGATCTTATATCCCTGAG
130 TGAGGTAGCAAGGGAGCAGACTGAAGATTGTAGATCTTGTCTCCTTGAG
** * * *
30183816 -TAATAG-GGAGCAGATCGAAGACGGCGAATCTT
1 ATAGCAGTGGGGCAGATCAAAGACGGTGAATCTT
30183848 GTCTCCTTAA
Statistics
Matches: 793, Mismatches: 117, Indels: 22
0.85 0.13 0.02
Matches are distributed among these distances:
175 3 0.00
176 22 0.03
177 295 0.37
178 472 0.60
179 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.27
Consensus pattern (178 bp):
ATAGCAGTGGGGCAGATCAAAGACGGTGAATCTTATCTTCCCGAGGTAGCAGGGGAGCAGATTTT
AGCCACTAGCCTTATCTCCCTGAGGTAGCAAGGGAGCAGGCTGAAGATTGTAGTCTTATCTTCCT
GAGGTAGCAAGGGAGCAGACTGAAGATTGTAGATCTTGTCTCCTTGAG
Found at i:30183407 original size:44 final size:44
Alignment explanation
Indices: 30182825--30183815 Score: 306
Period size: 44 Copynumber: 22.3 Consensus size: 44
30182815 AGCCACTAGC
** * *
30182825 CTTATCTCTTTGAGGTAGCAAAGGAGCAGGCTGAAGATTGTAGT
1 CTTATCTCCCTGAGGTAGCAAGGGAGCAGACTGAAGATTGTAGT
30182869 CTTATCTTCCC-GAGGTAGCAAGGGAGCAGACTGAAGATTGTAGAT
1 CTTATC-TCCCTGAGGTAGCAAGGGAGCAGACTGAAGATTGTAG-T
* ** * * * * *
30182914 CTTGTCTCCCTGAAATAAC-AGTGGAGCA-AATCAAAGA-CGATGAAT
1 CTTATCTCCCTGAGGTAGCAAG-GGAGCAGACT-GAAGATTG-T-AGT
* * ** **** *
30182959 CTTATCTTCCC-GAGGTAGCAGGGGAGCAGATTTTAGCCACTAGC
1 CTTATC-TCCCTGAGGTAGCAAGGGAGCAGACTGAAGATTGTAGT
* *
30183003 CTTATCTCTCTGAGGTAGCAAGGGAGCATG-CTGAAAATTGTAGT
1 CTTATCTCCCTGAGGTAGCAAGGGAGCA-GACTGAAGATTGTAGT
* *
30183047 CTTATCTTCCTGAGGTAGCAAGGGAACAGACTGAAGATTGTAGAT
1 CTTATCTCCCTGAGGTAGCAAGGGAGCAGACTGAAGATTGTAG-T
* * * * * * * * *
30183092 TTTGTCTCCTTGAGATAGC-AGTGGGGCAGA-TCAAAAGCTGTGAAT
1 CTTATCTCCCTGAGGTAGCAAG-GGAGCAGACTGAAGA-TTGT-AGT
* * ** *****
30183137 CTTATCTTCCC-GAGGTAGCAAGGGAGCAAATTTTAGCCACCA-T
1 CTTATC-TCCCTGAGGTAGCAAGGGAGCAGACTGAAGATTGTAGT
* * * * *
30183180 CCTTATCTCTCTAAGGCAGCAAGGGAGTAGGCTGAAGATTGTAGT
1 -CTTATCTCCCTGAGGTAGCAAGGGAGCAGACTGAAGATTGTAGT
* * *
30183225 CTTATCTTCTTGAGGTAGCAAGGGAGAAGACTGAAGATTGTAGAT
1 CTTATCTCCCTGAGGTAGCAAGGGAGCAGACTGAAGATTGTAG-T
* * * * * * * *
30183270 CTTGTCTCCTTGAGATAGC-AGTGGGGCAGA-TAAAAAATGGTGAAT
1 CTTATCTCCCTGAGGTAGCAAG-GGAGCAGACT-GAAGATTGT-AGT
* * * * * ** *
30183315 CTTATCT-TCTCGAGGTAGTAGGGGAGTAGATTTTAGCCATTG--GC
1 CTTATCTCCCT-GAGGTAGCAAGGGAGCAGACTGAAG--ATTGTAGT
*
30183359 CTTATCTCCCTGAGGTAGCAAGGGAGCAGGCTGAAGATTGTAGT
1 CTTATCTCCCTGAGGTAGCAAGGGAGCAGACTGAAGATTGTAGT
*** * * * *
30183403 CTTATCTTTTTGAGGTAGCAAGGGAGCAAACTGATGACT-CAGAT
1 CTTATCTCCCTGAGGTAGCAAGGGAGCAGACTGAAGATTGTAG-T
* * * * * * * * * *
30183447 TTTGTCT-CTTCGAGATAGC-AGTAGG-GTAGATTAAAAATGGTGAAT
1 CTTATCTCCCT-GAGGTAGCAAG--GGAGCAGACTGAAGATTGT-AGT
* * * ** **** *
30183492 CTTTTCTTCCTGAGGTAGC-AGAGGAGCAGATTTTAGCCACTAGC
1 CTTATCTCCCTGAGGTAGCAAG-GGAGCAGACTGAAGATTGTAGT
* *
30183536 CTTATCTCCCTAAGGTAGCAAGGGAGCAGGCTGAAGATTGTAGT
1 CTTATCTCCCTGAGGTAGCAAGGGAGCAGACTGAAGATTGTAGT
* * * * * * * *
30183580 ATTATCTTCTTGAGGTAACAAGGGAGAAGACTGATGACTCGGA-T
1 CTTATCTCCCTGAGGTAGCAAGGGAGCAGACTGAAGA-TTGTAGT
* * * * ** * *
30183624 TTTGTCTCCTTG-GGATAG-AAGTGGGGCAGA-TCGAA-AGCGACAAAT
1 CTTATCTCCCTGAGG-TAGCAAG-GGAGCAGACT-GAAGATTG--TAGT
* * * * ** *** *
30183669 CTTATCTTCCTGAGGTAGTAGGGGAGCAGATTTCAGCA-ACCAAT
1 CTTATCTCCCTGAGGTAGCAAGGGAGCAGACTGAAG-ATTGTAGT
* *
30183713 CTTATCTCCCTGGGGTAGCAAGGGAGCAGGCTGAAGATTGTAGT
1 CTTATCTCCCTGAGGTAGCAAGGGAGCAGACTGAAGATTGTAGT
* * * * *
30183757 CTCATCTTCCTGAGGTAGTAAGGGAGCAGACTGAAGACTGGAGAT
1 CTTATCTCCCTGAGGTAGCAAGGGAGCAGACTGAAGATTGTAG-T
*
30183802 CTTATATCCCTGAG
1 CTTATCTCCCTGAG
30183816 TAATAGGGAG
Statistics
Matches: 671, Mismatches: 217, Indels: 117
0.67 0.22 0.12
Matches are distributed among these distances:
42 6 0.01
43 22 0.03
44 410 0.61
45 202 0.30
46 27 0.04
47 4 0.01
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.27
Consensus pattern (44 bp):
CTTATCTCCCTGAGGTAGCAAGGGAGCAGACTGAAGATTGTAGT
Found at i:30183825 original size:43 final size:44
Alignment explanation
Indices: 30183732--30183837 Score: 110
Period size: 44 Copynumber: 2.4 Consensus size: 44
30183722 CTGGGGTAGC
* * * * * *
30183732 AAGGGAGCAGGCTGAAGATTGTAGTCTCATCTTCCTGAGGTAGT
1 AAGGGAGCAGACTGAAGACTGGAGTCTCATATCCCTGAGGTAAT
*
30183776 AAGGGAGCAGACTGAAGACTGGAGATCTTATATCCCTGA-GTAAT
1 AAGGGAGCAGACTGAAGACTGGAG-TCTCATATCCCTGAGGTAAT
30183820 -AGGGAGCAGA-TCGAAGAC
1 AAGGGAGCAGACT-GAAGAC
30183838 GGCGAATCTT
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
42 1 0.02
43 16 0.30
44 25 0.47
45 11 0.21
ACGTcount: A:0.31, C:0.16, G:0.31, T:0.22
Consensus pattern (44 bp):
AAGGGAGCAGACTGAAGACTGGAGTCTCATATCCCTGAGGTAAT
Found at i:30185490 original size:15 final size:13
Alignment explanation
Indices: 30185461--30185506 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
30185451 ATTCAATTAG
30185461 TTATTTATCTTTT
1 TTATTTATCTTTT
30185474 TTATTTAATCTTTT
1 TTATTT-ATCTTTT
30185488 TT-TATT-TCATTTT
1 TTAT-TTATC-TTTT
30185501 TTATTT
1 TTATTT
30185507 CATTTTTTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
12 2 0.07
13 15 0.52
14 12 0.41
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (13 bp):
TTATTTATCTTTT
Found at i:30185492 original size:24 final size:23
Alignment explanation
Indices: 30185464--30185525 Score: 61
Period size: 27 Copynumber: 2.5 Consensus size: 23
30185454 CAATTAGTTA
30185464 TTTATCTTTTTTATTTAATCTTTT
1 TTTATCTTTTTTATTTAAT-TTTT
*
30185488 TTTATTTCATTTTTTATTTCATTTTT
1 TTTA--TC-TTTTTTATTTAATTTTT
* *
30185514 TATATATTTTTT
1 TTTATCTTTTTT
30185526 CTTTTCTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
23 6 0.19
24 5 0.16
26 9 0.28
27 12 0.38
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (23 bp):
TTTATCTTTTTTATTTAATTTTT
Found at i:30185500 original size:12 final size:12
Alignment explanation
Indices: 30185485--30185525 Score: 66
Period size: 12 Copynumber: 3.5 Consensus size: 12
30185475 TATTTAATCT
30185485 TTTTTTATTTCA
1 TTTTTTATTTCA
30185497 TTTTTTATTTCA
1 TTTTTTATTTCA
*
30185509 TTTTTTATAT-A
1 TTTTTTATTTCA
30185520 TTTTTT
1 TTTTTT
30185526 CTTTTCTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
11 7 0.25
12 21 0.75
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTTTTATTTCA
Found at i:30185513 original size:13 final size:13
Alignment explanation
Indices: 30185461--30185514 Score: 58
Period size: 12 Copynumber: 4.1 Consensus size: 13
30185451 ATTCAATTAG
30185461 TTATTT-ATCTTTT
1 TTATTTCAT-TTTT
*
30185474 TTATTTAATCTTTTT
1 TTATTTCA--TTTTT
30185489 TTATTTCA-TTTT
1 TTATTTCATTTTT
30185501 TTATTTCATTTTT
1 TTATTTCATTTTT
30185514 T
1 T
30185515 ATATATTTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
12 12 0.33
13 11 0.31
14 1 0.03
15 11 0.31
16 1 0.03
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (13 bp):
TTATTTCATTTTT
Found at i:30185531 original size:24 final size:23
Alignment explanation
Indices: 30185485--30185536 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
30185475 TATTTAATCT
*
30185485 TTTTTTATTTCATTTTTTATTTC
1 TTTTTTATATCATTTTTTATTTC
*
30185508 ATTTTTTATAT-ATTTTTTCTTTTC
1 -TTTTTTATATCATTTTTT-ATTTC
30185532 TTTTT
1 TTTTT
30185537 ACCTTTGTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 12 0.48
24 13 0.52
ACGTcount: A:0.13, C:0.08, G:0.00, T:0.79
Consensus pattern (23 bp):
TTTTTTATATCATTTTTTATTTC
Found at i:30185592 original size:3 final size:3
Alignment explanation
Indices: 30185584--30185626 Score: 50
Period size: 3 Copynumber: 14.3 Consensus size: 3
30185574 TTTTTCATTC
* * * *
30185584 TAT TAT TAT TAC TAC TAT TAT TCT TCT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
30185627 TTAAAATTTG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.28, C:0.09, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:30193521 original size:39 final size:39
Alignment explanation
Indices: 30193295--30193510 Score: 342
Period size: 39 Copynumber: 5.5 Consensus size: 39
30193285 ACAAAGCATG
30193295 CGGGACTTTAAGCCCGGATATAATACCAGCACGAATGCCTT
1 CGGGAC-TT-AGCCCGGATATAATACCAGCACGAATGCCTT
* **
30193336 CGGGACTTAGCCTGGATATAACGCCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
**
30193375 CGGGACTTAGCCCGGATATAGCACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
*
30193414 CGGGACTTAGCCTGGATATAATACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
* *
30193453 CAGGATTTAGCCCGGATATAATACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
30193492 CGGGACTTAGCCCGGATAT
1 CGGGACTTAGCCCGGATAT
30193511 TTTTCCAGCA
Statistics
Matches: 161, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
39 153 0.95
40 2 0.01
41 6 0.04
ACGTcount: A:0.27, C:0.27, G:0.24, T:0.21
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
Found at i:30193546 original size:39 final size:39
Alignment explanation
Indices: 30193503--30193634 Score: 203
Period size: 39 Copynumber: 3.4 Consensus size: 39
30193493 GGGACTTAGC
* * *
30193503 CCGGATATTTTTCCAGCACT-TAGCCTGCGGACTTTAAGT
1 CCGGATATATTTCCAGCA-TAAAGCCTGCGGACTTCAAGT
30193542 CCGGATATATTTCCAGCATAAAGCCTGCGGACTTCAAGT
1 CCGGATATATTTCCAGCATAAAGCCTGCGGACTTCAAGT
*
30193581 CCGGATATATTTCCAGCATAAAGCCTGTGGACTTCAAGT
1 CCGGATATATTTCCAGCATAAAGCCTGCGGACTTCAAGT
*
30193620 CCGGATATTTTTCCA
1 CCGGATATATTTCCA
30193635 ATACCATGCA
Statistics
Matches: 87, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
38 1 0.01
39 86 0.99
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (39 bp):
CCGGATATATTTCCAGCATAAAGCCTGCGGACTTCAAGT
Found at i:30193546 original size:78 final size:80
Alignment explanation
Indices: 30193297--30193598 Score: 332
Period size: 78 Copynumber: 3.9 Consensus size: 80
30193287 AAAGCATGCG
* **
30193297 GGACTTTAAGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTTAGCCTGGATATAACGCCA
1 GGACTTTAAGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAATTCCA
* *
30193362 GCACGAATGCCTTCG
66 GCACGAATGCCTGCA
** * *
30193377 GGAC-TT-AGCCCGGATATAGCACCAGCACGAATGCCTTCGGGACTTAGCCTGGATATAATACCA
1 GGACTTTAAGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAATTCCA
*
30193440 GCACGAATGCCTTCA
66 GCACGAATGCCTGCA
**
30193455 GGA-TTT-AGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATTTTTCCA
1 GGACTTTAAGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAATTCCA
**
30193518 GCACTTA-GCCTGC-
66 GCACGAATGCCTGCA
* * * * * * * *
30193531 GGACTTTAAGTCCGGATATATTTCCAGCA-TAAAGCCTGC-GGACTTCAAGTCCGGATATATTTC
1 GGACTTTAAGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTT--AGCCCGGATATAATTC
30193594 CAGCA
64 CAGCA
30193599 TAAAGCCTGT
Statistics
Matches: 195, Mismatches: 22, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
76 9 0.05
77 15 0.08
78 165 0.85
79 2 0.01
80 4 0.02
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.24
Consensus pattern (80 bp):
GGACTTTAAGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAATTCCA
GCACGAATGCCTGCA
Found at i:30193548 original size:117 final size:118
Alignment explanation
Indices: 30193293--30193559 Score: 353
Period size: 117 Copynumber: 2.3 Consensus size: 118
30193283 CCACAAAGCA
* *
30193293 TGCGGGACTTTAAGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTTAGCCTGGATATAAC
1 TGCGGGACTTTAAG-CCGGATATAATACCAGCACGAATGCCTTCAGGACTTAGCCCGGATATAAC
*
30193358 GCCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAGCACCAGCACGAATGCC
65 ACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAGCACCAGCACGAATGCC
* * *
30193412 TTCGGGAC-TT-AGCCTGGATATAATACCAGCACGAATGCCTTCAGGATTTAGCCCGGATATAAT
1 TGCGGGACTTTAAGCC-GGATATAATACCAGCACGAATGCCTTCAGGACTTAGCCCGGATATAAC
**** **
30193475 ACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATTTTTCCAGCACTTA-GCC
65 ACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAGCACCAGCACGAATGCC
* *
30193528 TGC-GGACTTTAAGTCCGGATATATTTCCAGCA
1 TGCGGGACTTTAAG-CCGGATATAATACCAGCA
30193560 TAAAGCCTGC
Statistics
Matches: 129, Mismatches: 15, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
115 4 0.03
116 9 0.07
117 105 0.81
118 4 0.03
119 7 0.05
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (118 bp):
TGCGGGACTTTAAGCCGGATATAATACCAGCACGAATGCCTTCAGGACTTAGCCCGGATATAACA
CCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAGCACCAGCACGAATGCC
Found at i:30199028 original size:21 final size:21
Alignment explanation
Indices: 30199002--30199042 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
30198992 ACAAGAGACA
30199002 AGGTTTATTCATATTAAAAAT
1 AGGTTTATTCATATTAAAAAT
30199023 AGGTTTATTCATATTAAAAA
1 AGGTTTATTCATATTAAAAA
30199043 CAAAACTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.41
Consensus pattern (21 bp):
AGGTTTATTCATATTAAAAAT
Found at i:30204315 original size:22 final size:22
Alignment explanation
Indices: 30204266--30204308 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
30204256 TAACATATGT
30204266 CACATATA-TCATGAGCTCAGAC
1 CACATA-ACTCATGAGCTCAGAC
30204288 CACATAACTCATGAGCTCAGA
1 CACATAACTCATGAGCTCAGA
30204309 TTGCATAGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 1 0.05
22 19 0.95
ACGTcount: A:0.37, C:0.28, G:0.14, T:0.21
Consensus pattern (22 bp):
CACATAACTCATGAGCTCAGAC
Found at i:30206398 original size:27 final size:27
Alignment explanation
Indices: 30206356--30206409 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
30206346 GTGTCATGTG
* *
30206356 AAATTGAATGGCAAATTATTGTTACAT
1 AAATTGAATGGCAAATTACTATTACAT
**
30206383 AAATTGAATGTTAAATTACTATTACAT
1 AAATTGAATGGCAAATTACTATTACAT
30206410 GGGTTGTATG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.43, C:0.07, G:0.11, T:0.39
Consensus pattern (27 bp):
AAATTGAATGGCAAATTACTATTACAT
Found at i:30206845 original size:101 final size:95
Alignment explanation
Indices: 30206659--30206878 Score: 287
Period size: 101 Copynumber: 2.3 Consensus size: 95
30206649 TTGTGAGGTC
* *
30206659 ACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACTAA
1 ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACTAA
*
30206724 GTGCAGGCTACTATGCGTACCCGATAACTTTG
66 GCGCAGGCTACTATGCGTACCCGATAA--TTG
* * *
30206756 ATTACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAGTTAGGTCGCGTGTGTAGTA
1 ---ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCGCATGTGTAGTA
* * *
30206821 CTAAGCGTAGGCTACTATGTGTACCGGATAATTG
62 CTAAGCGCAGGCTACTATGCGTACCCGATAATTG
* *
30206855 GCATGTGTAGTACTAAGTGCAGGC
1 ACGTGTGTAGTACTAAGTGCAGGC
30206879 AACTGAGTAT
Statistics
Matches: 108, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
96 22 0.20
99 3 0.03
100 41 0.38
101 42 0.39
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (95 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACTAA
GCGCAGGCTACTATGCGTACCCGATAATTG
Found at i:30214189 original size:24 final size:24
Alignment explanation
Indices: 30214155--30214247 Score: 109
Period size: 24 Copynumber: 3.9 Consensus size: 24
30214145 TACCAATATA
*
30214155 TCAGCTCGTAAGAGCTTACTTTTT
1 TCAGCTCGTAAGAGCTTACTGTTT
* *
30214179 TTAGCTTGTAAGAGCTTACTGTTT
1 TCAGCTCGTAAGAGCTTACTGTTT
* *
30214203 TCAGCTCGTCAGAGCTTACCG-TT
1 TCAGCTCGTAAGAGCTTACTGTTT
*
30214226 TCAGCTC-AATAGAGCTTACTGT
1 TCAGCTCGTA-AGAGCTTACTGT
30214248 CCATCAGCTT
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
23 19 0.33
24 38 0.67
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.38
Consensus pattern (24 bp):
TCAGCTCGTAAGAGCTTACTGTTT
Found at i:30214239 original size:23 final size:24
Alignment explanation
Indices: 30214189--30214244 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 24
30214179 TTAGCTTGTA
* *
30214189 AGAGCTTACTGTTTTCAGCTCGTC
1 AGAGCTTACCGTTTTCAGCTCATC
30214213 AGAGCTTACCG-TTTCAGCTCAAT-
1 AGAGCTTACCGTTTTCAGCTC-ATC
30214236 AGAGCTTAC
1 AGAGCTTAC
30214245 TGTCCATCAG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 18 0.62
24 11 0.38
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (24 bp):
AGAGCTTACCGTTTTCAGCTCATC
Found at i:30216072 original size:56 final size:56
Alignment explanation
Indices: 30216005--30216117 Score: 217
Period size: 56 Copynumber: 2.0 Consensus size: 56
30215995 CTAATTTCAT
30216005 ATTTGAAGATGTAAATTTAAAACCATATATGTTTGAAAACTCTTTCGAAGAAAAAA
1 ATTTGAAGATGTAAATTTAAAACCATATATGTTTGAAAACTCTTTCGAAGAAAAAA
*
30216061 ATTTGAAGATGTAAATTTAAAACCTTATATGTTTGAAAACTCTTTCGAAGAAAAAA
1 ATTTGAAGATGTAAATTTAAAACCATATATGTTTGAAAACTCTTTCGAAGAAAAAA
30216117 A
1 A
30216118 ATACTTTAAT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.46, C:0.09, G:0.12, T:0.33
Consensus pattern (56 bp):
ATTTGAAGATGTAAATTTAAAACCATATATGTTTGAAAACTCTTTCGAAGAAAAAA
Found at i:30216180 original size:22 final size:21
Alignment explanation
Indices: 30216155--30216219 Score: 66
Period size: 22 Copynumber: 3.1 Consensus size: 21
30216145 TCCTAAAAAT
30216155 TATTATTTTAATTTTGTTTATA
1 TATTATTTTAATTTT-TTTATA
30216177 TATTA-TTTAGATTTTTTTA-A
1 TATTATTTTA-ATTTTTTTATA
30216197 -A-TATTTATAATTTTATTTATA
1 TATTATTT-TAATTTT-TTTATA
30216218 TA
1 TA
30216220 CTTTAGAATT
Statistics
Matches: 37, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
18 2 0.05
19 8 0.22
20 7 0.19
21 9 0.24
22 11 0.30
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (21 bp):
TATTATTTTAATTTTTTTATA
Found at i:30216229 original size:21 final size:20
Alignment explanation
Indices: 30216171--30216236 Score: 66
Period size: 18 Copynumber: 3.4 Consensus size: 20
30216161 TTTAATTTTG
*
30216171 TTTATATAT-TATTTAG-AT
1 TTTATTTATATATTTAGAAT
* *
30216189 TTT-TTTAAATATTTATAAT
1 TTTATTTATATATTTAGAAT
30216208 TTTATTTATATACTTTAGAATT
1 TTTATTTATATA-TTTAGAA-T
30216230 TTTATTT
1 TTTATTT
30216237 TTTTAATAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
17 3 0.08
18 9 0.24
19 5 0.13
20 7 0.18
21 6 0.16
22 8 0.21
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.64
Consensus pattern (20 bp):
TTTATTTATATATTTAGAAT
Found at i:30230602 original size:40 final size:42
Alignment explanation
Indices: 30230477--30230610 Score: 159
Period size: 42 Copynumber: 3.2 Consensus size: 42
30230467 TTGCTGATCA
* * *
30230477 CATGCACTGATTGTTAGAAAGCTATTGACT-TTTTTTAATATG
1 CATGCAATGATTGTT-GGAAGCTGTTGACTATTTTTTAATATG
* *
30230519 TATGCAATGATTTTTGGAAAGCTGTTGACTA-TTTTTAATATG
1 CATGCAATGATTGTTGG-AAGCTGTTGACTATTTTTTAATATG
* *
30230561 CATGCAATGATTGTTGG-TG-TGTTGCCTATTTTTTAATATG
1 CATGCAATGATTGTTGGAAGCTGTTGACTATTTTTTAATATG
30230601 CATGCAATGA
1 CATGCAATGA
30230611 GTTTTTTTAT
Statistics
Matches: 80, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
39 8 0.10
40 22 0.28
41 1 0.01
42 49 0.61
ACGTcount: A:0.27, C:0.10, G:0.19, T:0.43
Consensus pattern (42 bp):
CATGCAATGATTGTTGGAAGCTGTTGACTATTTTTTAATATG
Found at i:30231845 original size:59 final size:59
Alignment explanation
Indices: 30231753--30231891 Score: 224
Period size: 59 Copynumber: 2.4 Consensus size: 59
30231743 TATTTGTTAT
*
30231753 CCAACTGTTAAGCAATTTGTATACCAACTGTTATCTTTTCTAACTAGCAGCCATGTATA
1 CCAACTGTTAAGCAATTTGTATACCAACTGTTATCTTTTCTAACCAGCAGCCATGTATA
* * * *
30231812 CCAACTGTTAAGCAATTTGTATATCAATTGTTATCTTTTCTAGCCAGCAGGCATGTATA
1 CCAACTGTTAAGCAATTTGTATACCAACTGTTATCTTTTCTAACCAGCAGCCATGTATA
*
30231871 CCAAGTGTTAAGCAATTTGTA
1 CCAACTGTTAAGCAATTTGTA
30231892 AACAACAACA
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
59 74 1.00
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.36
Consensus pattern (59 bp):
CCAACTGTTAAGCAATTTGTATACCAACTGTTATCTTTTCTAACCAGCAGCCATGTATA
Found at i:30238175 original size:22 final size:23
Alignment explanation
Indices: 30238150--30238194 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
30238140 AAATAGGGAG
*
30238150 AAAACAAC-AAGAAAATAACATT
1 AAAACAACAAAAAAAATAACATT
30238172 AAAACAACAAAAAAAATAACATT
1 AAAACAACAAAAAAAATAACATT
30238195 TTTTCTTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.71, C:0.13, G:0.02, T:0.13
Consensus pattern (23 bp):
AAAACAACAAAAAAAATAACATT
Found at i:30241558 original size:71 final size:71
Alignment explanation
Indices: 30241442--30241595 Score: 254
Period size: 71 Copynumber: 2.2 Consensus size: 71
30241432 CTAGCCAGTA
* *
30241442 GATGGCCGGCACTAAGTACATTTTTTGGCTCTCAATGCACTTTTTATTTTTTATTTTTACTTTGG
1 GATGGCCGGCACTAAGTACATTTTTCGGCTCTCAATGCACTTTTTATTTTCTATTTTTACTTTGG
30241507 GACACT
66 GACACT
* * *
30241513 GATGGTCGGTACTAAGTACATTTTTCGTCTCTCAATGCACTTTTTATTTTCTATTTTTACTTTGG
1 GATGGCCGGCACTAAGTACATTTTTCGGCTCTCAATGCACTTTTTATTTTCTATTTTTACTTTGG
30241578 GACACT
66 GACACT
*
30241584 GATGGCCAGCAC
1 GATGGCCGGCAC
30241596 CATCTTTTTC
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
71 75 1.00
ACGTcount: A:0.20, C:0.19, G:0.18, T:0.43
Consensus pattern (71 bp):
GATGGCCGGCACTAAGTACATTTTTCGGCTCTCAATGCACTTTTTATTTTCTATTTTTACTTTGG
GACACT
Found at i:30242369 original size:89 final size:89
Alignment explanation
Indices: 30242276--30242692 Score: 405
Period size: 90 Copynumber: 4.7 Consensus size: 89
30242266 TCATTTTTAT
* * *
30242276 ATTTTCGTGTATTAATTTCTTAGAATGTTTGTATTTTTTTGTATCTGTT-AATTTAATTTAGTCC
1 ATTTTCGTGTATTAATTTCTTAGAATGTTTGTAGTTTGTTGGATCT-TTAAATTTAATTTAGTCC
30242340 GTATTATATGTAGTTTGAATTTAAA
65 GTATTATATGTAGTTTGAATTTAAA
* * * *
30242365 ATTTTCGTGTATTAA-TT-TTACCAATCTGTTTATAGTTTGTTGGGTGTTTAAATTTAATTTAGT
1 ATTTTCGTGTATTAATTTCTTA-GAA--TGTTTGTAGTTTGTTGGATCTTTAAATTTAATTTAGT
* *
30242428 CTGTATTATATATAGTTTGAATTTAAA
63 CCGTATTATATGTAGTTTGAATTTAAA
* * * * ** * * *
30242455 AATTTCGTGCACTAATTTTTTCCATCTGTTTGTAGTTTGTTGGGTGTTTAAATTTAATTTAGTCC
1 ATTTTCGTGTATTAATTTCTTAGA-ATGTTTGTAGTTTGTTGGATCTTTAAATTTAATTTAGTCC
30242520 GTATTATATGTAGTTTGAATTTAAA
65 GTATTATATGTAGTTTGAATTTAAA
* * ** * * *
30242545 ATTTTTGTGTATTAATTTTACCTA-TCTGTTTGTAGTTTGTTGGGTGTTTAAATTTAATTTAGTG
1 ATTTTCGTGTATTAA-TTT-CTTAGAATGTTTGTAGTTTGTTGGATCTTTAAATTTAATTTAGTC
* * * * *
30242609 CATATTAT-TTTTGTTTGAATTTTAT
64 CGTATTATATGTAGTTTGAATTTAAA
* * * * *
30242634 ATTTTTGTGTATTAATATTC-TAGAATGTTTGTATTTTATTGTATCTGTAAATTTAATTT
1 ATTTTCGTGTATTAAT-TTCTTAGAATGTTTGTAGTTTGTTGGATCTTTAAATTTAATTT
30242693 GTTGTGTACT
Statistics
Matches: 278, Mismatches: 39, Indels: 23
0.82 0.11 0.07
Matches are distributed among these distances:
87 5 0.02
88 34 0.12
89 47 0.17
90 182 0.65
91 7 0.03
92 3 0.01
ACGTcount: A:0.25, C:0.06, G:0.15, T:0.54
Consensus pattern (89 bp):
ATTTTCGTGTATTAATTTCTTAGAATGTTTGTAGTTTGTTGGATCTTTAAATTTAATTTAGTCCG
TATTATATGTAGTTTGAATTTAAA
Found at i:30242419 original size:90 final size:89
Alignment explanation
Indices: 30242325--30242649 Score: 481
Period size: 90 Copynumber: 3.6 Consensus size: 89
30242315 TGTATCTGTT
30242325 AATTTAATTTAGTCCGTATTATATGTAGTTTGAATTTAAAATTTTCGTGTATTAATTTTACCAAT
1 AATTTAATTTAGTCCGTATTATATGTAGTTTGAATTTAAAATTTTCGTGTATTAATTTTACC-AT
*
30242390 CTGTTTATAGTTTGTTGGGTGTTTA
65 CTGTTTGTAGTTTGTTGGGTGTTTA
* * * * * *
30242415 AATTTAATTTAGTCTGTATTATATATAGTTTGAATTTAAAAATTTCGTGCACTAATTTTTTCCAT
1 AATTTAATTTAGTCCGTATTATATGTAGTTTGAATTTAAAATTTTCGTGTATTAA-TTTTACCAT
30242480 CTGTTTGTAGTTTGTTGGGTGTTTA
65 CTGTTTGTAGTTTGTTGGGTGTTTA
*
30242505 AATTTAATTTAGTCCGTATTATATGTAGTTTGAATTTAAAATTTTTGTGTATTAATTTTACCTAT
1 AATTTAATTTAGTCCGTATTATATGTAGTTTGAATTTAAAATTTTCGTGTATTAATTTTACC-AT
30242570 CTGTTTGTAGTTTGTTGGGTGTTTA
65 CTGTTTGTAGTTTGTTGGGTGTTTA
* * * * * * *
30242595 AATTTAATTTAGTGCATATTAT-TTTTGTTTGAATTTTATATTTTTGTGTATTAAT
1 AATTTAATTTAGTCCGTATTATATGTAGTTTGAATTTAAAATTTTCGTGTATTAAT
30242650 ATTCTAGAAT
Statistics
Matches: 213, Mismatches: 20, Indels: 5
0.89 0.08 0.02
Matches are distributed among these distances:
89 35 0.16
90 172 0.81
91 6 0.03
ACGTcount: A:0.26, C:0.06, G:0.15, T:0.53
Consensus pattern (89 bp):
AATTTAATTTAGTCCGTATTATATGTAGTTTGAATTTAAAATTTTCGTGTATTAATTTTACCATC
TGTTTGTAGTTTGTTGGGTGTTTA
Found at i:30245244 original size:6 final size:6
Alignment explanation
Indices: 30245237--30245271 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
30245227 TTCAACTTTT
*
30245237 CATTTT CATTTC CATTTC CATTTC CATTTC CATTT
1 CATTTC CATTTC CATTTC CATTTC CATTTC CATTT
30245272 AAATTTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.17, C:0.29, G:0.00, T:0.54
Consensus pattern (6 bp):
CATTTC
Found at i:30245277 original size:18 final size:18
Alignment explanation
Indices: 30245238--30245277 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
30245228 TCAACTTTTC
* **
30245238 ATTTTCATTTCCATTTCC
1 ATTTCCATTTCCATTTAA
30245256 ATTTCCATTTCCATTTAA
1 ATTTCCATTTCCATTTAA
30245274 ATTT
1 ATTT
30245278 TTTTTTCTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.23, C:0.23, G:0.00, T:0.55
Consensus pattern (18 bp):
ATTTCCATTTCCATTTAA
Found at i:30249074 original size:177 final size:177
Alignment explanation
Indices: 30248729--30249521 Score: 952
Period size: 177 Copynumber: 4.5 Consensus size: 177
30248719 AATATGACTA
* * ** * * **
30248729 GCTTAAATCTGCTCCATTGCCAATATC-TAGAGATAAGATTCGCCATCTTCGATCTGTTCCACCA
1 GCTTAAATCTGCTCCATTGCCGATA-CATGGAGATAAGATTTACCATCTTCGATCTGCTCCGCTG
* * * * * * * * * *
30248793 CTACTTGA-GGAAATAAAATCTTTAATCTTCAGTCCGCTGCCTTGCTACCTCAGAAATATAAGAC
65 CAACTTCAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTACTACTTCAGAAAGATAAGAC
* *
30248857 TCA-TTCTTCAACTTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTG
130 -CACTTCTTCAACTTGCTCTCCTGCTACCTCAGAGAGATAAGGCTAGTG
*
30248905 GCTTAAATTTGCTCCATTGCCGATACATGGAGATAAGATTTACCATCTTCGATCTGCTCCGCTGC
1 GCTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTTACCATCTTCGATCTGCTCCGCTGC
* *
30248970 AACTTCAGGGAGATAAGATCTTCAATCTTTAGTCTGCTTTCTTACTACCTT-AGAAAGATAAGAC
66 AACTTCAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTACTA-CTTCAGAAAGATAAGAC
* * *
30249034 TCA-TTCTTCAACTTGCTCTCTTGCTACTTTAGAGAGATAAGGCTAGTG
130 -CACTTCTTCAACTTGCTCTCCTGCTACCTCAGAGAGATAAGGCTAGTG
* ** **
30249082 GCTT-AATCTGTTCCATTTTCGATACATGGAGATAAGATTCGCCATCTTCGATCTGCTCCGCTGC
1 GCTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTTACCATCTTCGATCTGCTCCGCTGC
* * * * * *
30249146 AACTTTAGGGAGATAAGATTTTCAATCTTCATTCTGCTTCCTTGCTACTTCAGGAAGATAATACC
66 AACTTCAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTACTACTTCAGAAAGATAAGACC
* * * *
30249211 ACCATCTTCAACATGCTCTCCTACTACCTCAGAGAGATAAGGTTAGTG
131 A-CTTCTTCAACTTGCTCTCCTGCTACCTCAGAGAGATAAGGCTAGTG
* * * * * * *
30249259 ACTTAAATCTGCTCCATTGCCGGTACATGGAGATAAGATTTATCGTCTTTGATCTGCTCCACTAC
1 GCTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTTACCATCTTCGATCTGCTCCGCTGC
* * *
30249324 TACTT-AGAGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTACTACTTCAGGAAGATAAGACC
66 AACTTCAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTACTACTTCAGAAAGATAAGACC
* *
30249388 ACTATCTTCAACCTGCTCTCCTGCTACCTCAGAGAGATAAGGTTAGTG
131 ACT-TCTTCAACTTGCTCTCCTGCTACCTCAGAGAGATAAGGCTAGTG
* * * * *
30249436 ACTTAAATCTGCTCCATTGCCAATACATGGAGATAAGATTTATCATCTTTGATATGCTCCGCTGC
1 GCTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTTACCATCTTCGATCTGCTCCGCTGC
*
30249501 AACTTCAGGGAGATAAAATCT
66 AACTTCAGGGAGATAAGATCT
30249522 GACTTCACCA
Statistics
Matches: 533, Mismatches: 75, Indels: 16
0.85 0.12 0.03
Matches are distributed among these distances:
175 6 0.01
176 166 0.31
177 293 0.55
178 68 0.13
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (177 bp):
GCTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTTACCATCTTCGATCTGCTCCGCTGC
AACTTCAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTACTACTTCAGAAAGATAAGACC
ACTTCTTCAACTTGCTCTCCTGCTACCTCAGAGAGATAAGGCTAGTG
Found at i:30250722 original size:54 final size:54
Alignment explanation
Indices: 30250654--30250815 Score: 186
Period size: 54 Copynumber: 3.0 Consensus size: 54
30250644 CTCTTTTTTA
*
30250654 TTTTTTCATTTTTATTGAGTCTCAAAGCGCTCTTTGCGGGTTTTCACTTTGGCTC
1 TTTTTT-ATTTTTATTGAGTCTCAAAGCGCCCTTTGCGGGTTTTCACTTTGGCTC
* * *
30250709 TTTTTTATTTTTATT-AGGTCTCAAAGCGCCCATTGCGGGTTTTCACTTTGCCCC
1 TTTTTTATTTTTATTGA-GTCTCAAAGCGCCCTTTGCGGGTTTTCACTTTGGCTC
*** * *
30250763 CCCTTT-TTTTTA-AGAAAGTCTCAAAGTGCCCTTTGCGGGTTTTCACTTTGGCT
1 TTTTTTATTTTTATTG--AGTCTCAAAGCGCCCTTTGCGGGTTTTCACTTTGGCT
30250816 TCTTCCCCTC
Statistics
Matches: 91, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
53 7 0.08
54 77 0.85
55 7 0.08
ACGTcount: A:0.15, C:0.22, G:0.18, T:0.45
Consensus pattern (54 bp):
TTTTTTATTTTTATTGAGTCTCAAAGCGCCCTTTGCGGGTTTTCACTTTGGCTC
Found at i:30259010 original size:42 final size:42
Alignment explanation
Indices: 30258947--30259073 Score: 170
Period size: 42 Copynumber: 3.0 Consensus size: 42
30258937 CTTCGTTTTC
** *
30258947 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACAT-A
* *
30258990 T-GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACATA
30259031 TCGATGCCATAGCCCAACTATGGTCTTACACGA-A-TCACATA
1 TCGATGCCATAGCCCAACTATGGTCTTACAC-ATATTCACATA
30259072 TC
1 TC
30259074 TCACTGATGC
Statistics
Matches: 75, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
41 10 0.13
42 63 0.84
43 2 0.03
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.30
Consensus pattern (42 bp):
TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACATA
Found at i:30259099 original size:46 final size:47
Alignment explanation
Indices: 30259032--30259151 Score: 145
Period size: 47 Copynumber: 2.6 Consensus size: 47
30259022 ATTCATATAT
* * *
30259032 CGATGCCATAGCCCA-ACTATGGTCTTACAC-GAATCACATATCTCAC
1 CGATGCCATATCCCAGA-TATGGTCTTACACAGAAGCACATATCACAC
* * * *
30259078 TGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 CGATGCCATATCCCAGATATGGTCTTACACAGAAGCACATATCACAC
*
30259125 CGATGCCGTATCCCAGATATGGTCTTA
1 CGATGCCATATCCCAGATATGGTCTTA
30259152 TACGGAAATC
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
46 25 0.40
47 38 0.60
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (47 bp):
CGATGCCATATCCCAGATATGGTCTTACACAGAAGCACATATCACAC
Found at i:30259215 original size:31 final size:31
Alignment explanation
Indices: 30259180--30259359 Score: 281
Period size: 31 Copynumber: 5.8 Consensus size: 31
30259170 CTTGTCACTT
* *
30259180 GTAGCTGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
30259211 GTAGCCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
30259242 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
30259273 GTAGCCGGAA-CTACCACTTTTCACTGATCAG
1 GTAGCC-GAAGCTACCACTTTTCACTGATCAG
*
30259304 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
30259335 GTAGCTGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
30259360 TGTCATTTGT
Statistics
Matches: 139, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
30 3 0.02
31 134 0.96
32 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:30259437 original size:50 final size:51
Alignment explanation
Indices: 30259335--30259463 Score: 206
Period size: 50 Copynumber: 2.5 Consensus size: 51
30259325 CACTGATCAG
* * * *
30259335 GTAGCTGAAGCTACCACTTTTCACTTGTCATTTGTCGTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCCTTGATCAGATAAGT
*
30259386 GTAGCCGAAGCTATCACTTATCACTT-TCATTTTTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCCTTGATCAGATAAGT
30259436 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
30259464 TGCCATGGTC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
50 48 0.67
51 24 0.33
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCCTTGATCAGATAAGT
Found at i:30261662 original size:30 final size:30
Alignment explanation
Indices: 30261628--30261688 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
30261618 TTCCCGAGCC
30261628 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
* * * * *
30261658 TAGGGGGAAAATTGTAATTTTGCCAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
30261688 T
1 T
30261689 GAATTAAGGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.39, C:0.05, G:0.26, T:0.30
Consensus pattern (30 bp):
TAGGGGAAAAAGTGTAAATATGCAAAAGTT
Found at i:30266597 original size:21 final size:21
Alignment explanation
Indices: 30266567--30266606 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
30266557 TTTCAATTAC
*
30266567 ATTTTATTTAATTTTTTTCAT
1 ATTTTATTTAAATTTTTTCAT
*
30266588 ATTTTGTTTAAATTTTTTC
1 ATTTTATTTAAATTTTTTC
30266607 TCAATTTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.70
Consensus pattern (21 bp):
ATTTTATTTAAATTTTTTCAT
Found at i:30266604 original size:22 final size:21
Alignment explanation
Indices: 30266567--30266613 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
30266557 TTTCAATTAC
30266567 ATTTTATTTAATTTTTT-TCA
1 ATTTTATTTAATTTTTTCTCA
*
30266587 TATTTTGTTTAAATTTTTTCTCA
1 -ATTTTATTT-AATTTTTTCTCA
30266610 ATTT
1 ATTT
30266614 AAAAATCATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 8 0.35
22 12 0.52
23 3 0.13
ACGTcount: A:0.23, C:0.06, G:0.02, T:0.68
Consensus pattern (21 bp):
ATTTTATTTAATTTTTTCTCA
Found at i:30266879 original size:27 final size:27
Alignment explanation
Indices: 30266849--30266936 Score: 83
Period size: 27 Copynumber: 3.3 Consensus size: 27
30266839 TTATTTCATT
*
30266849 TCCATTTCATTTAAATCATCTTTTTTC
1 TCCATTTCATTTAAATAATCTTTTTTC
* *
30266876 TCCATTTAAATTTAAATTTAATC-TTTTCC
1 TCCATTT-CATTTAAA--TAATCTTTTTTC
* *
30266905 T-CATTTCATTTAAATTATCTTTCTT-
1 TCCATTTCATTTAAATAATCTTTTTTC
30266930 TCCATTT
1 TCCATTT
30266937 TAATTTACGT
Statistics
Matches: 49, Mismatches: 7, Indels: 11
0.73 0.10 0.16
Matches are distributed among these distances:
25 5 0.10
26 8 0.16
27 14 0.29
28 12 0.24
29 6 0.12
30 4 0.08
ACGTcount: A:0.25, C:0.19, G:0.00, T:0.56
Consensus pattern (27 bp):
TCCATTTCATTTAAATAATCTTTTTTC
Found at i:30266942 original size:27 final size:26
Alignment explanation
Indices: 30266842--30266943 Score: 82
Period size: 27 Copynumber: 3.7 Consensus size: 26
30266832 TTTCATTTTA
* *
30266842 TTTCATTTCCATTTCATTTAAATCATC
1 TTTC-TTTCCATTTAATTTAAATTATC
*
30266869 TTTTTTCTCCATTTAAATTTAAATTTAATC
1 TTTCTT-TCCATTT-AATTTAAA-TT-ATC
* *
30266899 -TT-TTCCTCATTTCATTTAAATTATC
1 TTTCTTTC-CATTTAATTTAAATTATC
30266924 TTTCTTTCCATTTTAATTTA
1 TTTCTTTCCA-TTTAATTTA
30266944 CGTTTTTTTC
Statistics
Matches: 60, Mismatches: 7, Indels: 16
0.72 0.08 0.19
Matches are distributed among these distances:
25 3 0.05
26 8 0.13
27 29 0.48
28 14 0.23
29 3 0.05
30 3 0.05
ACGTcount: A:0.25, C:0.18, G:0.00, T:0.57
Consensus pattern (26 bp):
TTTCTTTCCATTTAATTTAAATTATC
Found at i:30267027 original size:22 final size:22
Alignment explanation
Indices: 30267002--30267115 Score: 74
Period size: 22 Copynumber: 5.2 Consensus size: 22
30266992 TGTGTTTCAA
30267002 ATTAAATATGTATGTATATTGT
1 ATTAAATATGTATGTATATTGT
** * * **
30267024 ATTATAAT-TCAATGCATTTTAA
1 ATTA-AATATGTATGTATATTGT
30267046 ATTAAATATGTATGTATATTGT
1 ATTAAATATGTATGTATATTGT
* * **
30267068 ATTATAAT-TCAATACGT-T-TTAA
1 ATTA-AATAT--GTATGTATATTGT
30267090 ATTAAATATGTATGTATATTGT
1 ATTAAATATGTATGTATATTGT
30267112 ATTA
1 ATTA
30267116 TAATTTAATG
Statistics
Matches: 64, Mismatches: 20, Indels: 16
0.64 0.20 0.16
Matches are distributed among these distances:
20 4 0.06
21 7 0.11
22 42 0.66
23 7 0.11
24 4 0.06
ACGTcount: A:0.39, C:0.04, G:0.10, T:0.48
Consensus pattern (22 bp):
ATTAAATATGTATGTATATTGT
Found at i:30267049 original size:44 final size:44
Alignment explanation
Indices: 30266990--30267181 Score: 276
Period size: 44 Copynumber: 4.4 Consensus size: 44
30266980 TATTTCATTT
* *
30266990 AATGTGTTTCAAATTAAATATGTATGTATATTGTATTATAATTC
1 AATGCGTTTTAAATTAAATATGTATGTATATTGTATTATAATTC
*
30267034 AATGCATTTTAAATTAAATATGTATGTATATTGTATTATAATTC
1 AATGCGTTTTAAATTAAATATGTATGTATATTGTATTATAATTC
* *
30267078 AATACGTTTTAAATTAAATATGTATGTATATTGTATTATAATTT
1 AATGCGTTTTAAATTAAATATGTATGTATATTGTATTATAATTC
* * * * *
30267122 AATGTGCTTTAAATTAAATATGCATGTATATTATATTATAATTT
1 AATGCGTTTTAAATTAAATATGTATGTATATTGTATTATAATTC
* *
30267166 AACGTGTTTTAAATTA
1 AATGCGTTTTAAATTA
30267182 GGAATAAGAA
Statistics
Matches: 135, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 135 1.00
ACGTcount: A:0.38, C:0.04, G:0.10, T:0.48
Consensus pattern (44 bp):
AATGCGTTTTAAATTAAATATGTATGTATATTGTATTATAATTC
Found at i:30267137 original size:22 final size:22
Alignment explanation
Indices: 30267112--30267181 Score: 54
Period size: 22 Copynumber: 3.2 Consensus size: 22
30267102 TGTATATTGT
*
30267112 ATTATAATTTAATGTGCTTTAA
1 ATTATAATTTAATGTGATTTAA
** *
30267134 ATTA-AATATGCATGT-ATATTAT
1 ATTATAAT-TTAATGTGAT-TTAA
* *
30267156 ATTATAATTTAACGTGTTTTAA
1 ATTATAATTTAATGTGATTTAA
30267178 ATTA
1 ATTA
30267182 GGAATAAGAA
Statistics
Matches: 35, Mismatches: 9, Indels: 8
0.67 0.17 0.15
Matches are distributed among these distances:
21 4 0.11
22 27 0.77
23 4 0.11
ACGTcount: A:0.39, C:0.04, G:0.09, T:0.49
Consensus pattern (22 bp):
ATTATAATTTAATGTGATTTAA
Found at i:30269810 original size:51 final size:50
Alignment explanation
Indices: 30269745--30269841 Score: 126
Period size: 51 Copynumber: 1.9 Consensus size: 50
30269735 TCTGATAAAA
* *
30269745 TTGGTGCCGGCCATC-TGATTCCCAAAATTAA-GAAAACTAATTTTTTAATAC
1 TTGGTGCCGACCATCATG-TT-CCAAAA-TAAGGAAAAATAATTTTTTAATAC
30269796 TTGGTGCCGACCATCAGTGTTCCAAAATAAGGAAAAATAATTTTTT
1 TTGGTGCCGACCATCA-TGTTCCAAAATAAGGAAAAATAATTTTTT
30269842 TAATGTGATA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
50 3 0.07
51 34 0.83
52 2 0.05
53 2 0.05
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33
Consensus pattern (50 bp):
TTGGTGCCGACCATCATGTTCCAAAATAAGGAAAAATAATTTTTTAATAC
Found at i:30270159 original size:113 final size:110
Alignment explanation
Indices: 30269909--30270219 Score: 304
Period size: 111 Copynumber: 2.8 Consensus size: 110
30269899 ATGAAAAAGG
* * * * * *
30269909 TGGTGCTGGCCATCAGTGTCTTATAGTAAAAAAAAAAGTGCATTGGGAGCCAAAAAATGTATTTG
1 TGGTGCTGGCCATCAGTGTCTCAAAGTAAAAAAAAAAGTACATTAGGAGCCAAAAAATATACTTG
* *
30269974 GTGTCGACCATCTACTTGCCAACACCCAATTTTTTTTAAATGACA
66 GTGTAGACCATCTACTGGCCAACACCCAATTTTTTTTAAATGACA
* * * * *
30270019 TCGGTGTTGGCCATCAATGTCCCAAAGTAAAAAAAAAA-TACATTAGGAGTC-GAAAATATACTT
1 T-GGTGCTGGCCATCAGTGTCTCAAAGTAAAAAAAAAAGTACATTAGGAGCCAAAAAATATACTT
* * *
30270082 GGTGCTAG-CCATTTACTGGGCAGCACCCAATTTTTTTTTTAAAAATGACA
65 GGTG-TAGACCATCTACTGGCCAACACCCAA--TTTTTTTT--AAATGACA
* * * * * * *
30270132 CTGGTGCAGGCCATTAGTGTCTCAAAGTAAAAAAAAAAGTGCATTGGGACCCGAAAAATGTACTT
1 -TGGTGCTGGCCATCAGTGTCTCAAAGTAAAAAAAAAAGTACATTAGGAGCCAAAAAATATACTT
* **
30270197 GGTGTCGGTCATCTACTGGCCAA
65 GGTGTAGACCATCTACTGGCCAA
30270220 TATTAAAACT
Statistics
Matches: 159, Mismatches: 32, Indels: 15
0.77 0.16 0.07
Matches are distributed among these distances:
109 31 0.19
110 13 0.08
111 39 0.25
113 39 0.25
114 12 0.08
115 25 0.16
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.28
Consensus pattern (110 bp):
TGGTGCTGGCCATCAGTGTCTCAAAGTAAAAAAAAAAGTACATTAGGAGCCAAAAAATATACTTG
GTGTAGACCATCTACTGGCCAACACCCAATTTTTTTTAAATGACA
Found at i:30270339 original size:12 final size:12
Alignment explanation
Indices: 30270322--30270346 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
30270312 GGTGTTCATT
30270322 CGGTTAACCGAC
1 CGGTTAACCGAC
30270334 CGGTTAACCGAC
1 CGGTTAACCGAC
30270346 C
1 C
30270347 CGAAATTACT
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:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:30270520 original size:9 final size:9
Alignment explanation
Indices: 30270506--30270557 Score: 86
Period size: 9 Copynumber: 5.8 Consensus size: 9
30270496 TTTGGTTAAA
30270506 AATTACCCG
1 AATTACCCG
30270515 AATTACCCG
1 AATTACCCG
30270524 AATTACCCG
1 AATTACCCG
*
30270533 AATTAACCG
1 AATTACCCG
*
30270542 AATTAACCG
1 AATTACCCG
30270551 AATTACC
1 AATTACC
30270558 GAAAAATACC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 41 1.00
ACGTcount: A:0.38, C:0.29, G:0.10, T:0.23
Consensus pattern (9 bp):
AATTACCCG
Found at i:30271971 original size:21 final size:20
Alignment explanation
Indices: 30271925--30271979 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 20
30271915 TGACAATTAC
*
30271925 TTATTTTATAAT-TTTAATT
1 TTATTTTATAATATTTAATA
*
30271944 TTAATTTATATAATATTTTATA
1 TT-ATTT-TATAATATTTAATA
30271966 TTATTTTAATAATA
1 TTATTTT-ATAATA
30271980 AATATGATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
19 2 0.07
20 5 0.17
21 16 0.53
22 7 0.23
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TTATTTTATAATATTTAATA
Found at i:30272401 original size:21 final size:21
Alignment explanation
Indices: 30272357--30272398 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
30272347 AGGAAATAAC
30272357 TGAAAATCAAGAGAAAAAAAT
1 TGAAAATCAAGAGAAAAAAAT
*
30272378 TGAAAATCAGGA-AAAAAAAT
1 TGAAAATCAAGAGAAAAAAAT
30272398 T
1 T
30272399 TGATTTGTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.64, C:0.05, G:0.14, T:0.17
Consensus pattern (21 bp):
TGAAAATCAAGAGAAAAAAAT
Found at i:30277901 original size:38 final size:35
Alignment explanation
Indices: 30277853--30277923 Score: 106
Period size: 38 Copynumber: 1.9 Consensus size: 35
30277843 TTAATATAAA
*
30277853 AATAATTATATTAAGAATATTATTAAATTATATTTAAT
1 AATAAATATATTAA-AATATTATTAAA--ATATTTAAT
30277891 AATAAATATATTAAAATATTATTAAAATATTTA
1 AATAAATATATTAAAATATTATTAAAATATTTA
30277924 TTTTTATTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
35 7 0.22
37 12 0.38
38 13 0.41
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (35 bp):
AATAAATATATTAAAATATTATTAAAATATTTAAT
Found at i:30277915 original size:11 final size:11
Alignment explanation
Indices: 30277861--30277921 Score: 52
Period size: 11 Copynumber: 5.1 Consensus size: 11
30277851 AAAATAATTA
30277861 TATTAAGAATAT
1 TATTAA-AATAT
*
30277873 TATTAAATTA-
1 TATTAAAATAT
30277883 TATTTAATAATAAAT
1 TA-TTAA-AAT--AT
30277898 ATATTAAAATAT
1 -TATTAAAATAT
30277910 TATTAAAATAT
1 TATTAAAATAT
30277921 T
1 T
30277922 TATTTTTATT
Statistics
Matches: 41, Mismatches: 2, Indels: 13
0.73 0.04 0.23
Matches are distributed among these distances:
10 2 0.05
11 19 0.46
12 10 0.24
14 4 0.10
15 4 0.10
16 2 0.05
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (11 bp):
TATTAAAATAT
Found at i:30278127 original size:16 final size:16
Alignment explanation
Indices: 30278106--30278140 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
30278096 TGAATTACTG
*
30278106 ATTACAGCTCTATTCC
1 ATTACAGCCCTATTCC
30278122 ATTACAGCCCTATTCC
1 ATTACAGCCCTATTCC
30278138 ATT
1 ATT
30278141 CCAGTAAACC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.26, C:0.31, G:0.06, T:0.37
Consensus pattern (16 bp):
ATTACAGCCCTATTCC
Found at i:30280121 original size:21 final size:22
Alignment explanation
Indices: 30280095--30280141 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
30280085 CTCTGCTCAA
*
30280095 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
30280116 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
30280138 ACTC
1 ACTC
30280142 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:30284077 original size:42 final size:42
Alignment explanation
Indices: 30284018--30284114 Score: 160
Period size: 42 Copynumber: 2.3 Consensus size: 42
30284008 AATCCTAATT
30284018 GAGAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAA
1 GAGAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAA
*
30284060 GAGAAAATAGTTCCCTTATTCTAATAAACTACTAAAAGATAA
1 GAGAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAA
* *
30284102 AATAAAATA-TTCC
1 GAGAAAATAGTTCC
30284115 TAGAATATGA
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
41 4 0.08
42 48 0.92
ACGTcount: A:0.48, C:0.15, G:0.07, T:0.29
Consensus pattern (42 bp):
GAGAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAA
Found at i:30284156 original size:19 final size:18
Alignment explanation
Indices: 30284132--30284171 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
30284122 TGAAAAAAAC
30284132 TTATCTACCTAAATAAGAT
1 TTATCTACCTAAATAA-AT
30284151 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
30284169 TTA
1 TTA
30284172 AAATATATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:30288752 original size:42 final size:42
Alignment explanation
Indices: 30288693--30288776 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 42
30288683 AATCCTAATT
*
30288693 GGGAAAATAGTTCCCTTATTCTAATAAACTACTGAAACATAA
1 GGGAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAA
* *
30288735 GGGAAAATAGTTCCCTTATTTTAATAAACTACTAAAAGATAA
1 GGGAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAA
30288777 AATAAAATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.44, C:0.14, G:0.12, T:0.30
Consensus pattern (42 bp):
GGGAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAA
Found at i:30288784 original size:42 final size:42
Alignment explanation
Indices: 30288695--30288789 Score: 129
Period size: 42 Copynumber: 2.3 Consensus size: 42
30288685 TCCTAATTGG
* **
30288695 GAAAATAGTTCCCTTATTCTAATAAACTACTGAAACATAAGG
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA
* *
30288737 GAAAATAGTTCCCTTATTTTAATAAACTACTAAAAGATAAAA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA
*
30288779 TAAAATA-TTCC
1 GAAAATAGTTCC
30288790 TAGAATATGA
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
41 4 0.09
42 43 0.91
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (42 bp):
GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA
Found at i:30288829 original size:19 final size:18
Alignment explanation
Indices: 30288807--30288846 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
30288797 TGAATAAAAC
*
30288807 TTATCTACCTATATAAGAT
1 TTATCTACCTAAATAA-AT
30288826 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
30288844 TTA
1 TTA
30288847 AAATATATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.40, C:0.15, G:0.03, T:0.42
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:30297549 original size:28 final size:29
Alignment explanation
Indices: 30297484--30297554 Score: 76
Period size: 28 Copynumber: 2.5 Consensus size: 29
30297474 ATAAATAAAA
*
30297484 AATATAAA-AATACATAATTTATTAATATT
1 AATA-AAATAATATATAATTTATTAATATT
* *
30297513 AAT-ATATAATATATAATTTA-TAATTTT
1 AATAAAATAATATATAATTTATTAATATT
*
30297540 AATAAAATAAAATAT
1 AATAAAATAATATAT
30297555 CTATATAATT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
27 11 0.31
28 21 0.60
29 3 0.09
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.42
Consensus pattern (29 bp):
AATAAAATAATATATAATTTATTAATATT
Found at i:30307091 original size:16 final size:15
Alignment explanation
Indices: 30307048--30307095 Score: 55
Period size: 16 Copynumber: 3.3 Consensus size: 15
30307038 AAATCCTCTT
30307048 TCTC-TTTCTTTTT-
1 TCTCATTTCTTTTTC
* *
30307061 TCTCTTTTCTATTTC
1 TCTCATTTCTTTTTC
30307076 TCTCAATTTCTTTTTC
1 TCTC-ATTTCTTTTTC
30307092 TCTC
1 TCTC
30307096 TCTCTTTGGG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
13 4 0.14
14 8 0.28
15 4 0.14
16 13 0.45
ACGTcount: A:0.06, C:0.27, G:0.00, T:0.67
Consensus pattern (15 bp):
TCTCATTTCTTTTTC
Found at i:30309198 original size:12 final size:12
Alignment explanation
Indices: 30309183--30309213 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
30309173 GTTTTTTTTC
30309183 TTATTTTTATGT
1 TTATTTTTATGT
*
30309195 TTATTTTTGTGT
1 TTATTTTTATGT
30309207 TTATTTT
1 TTATTTT
30309214 AGTTTTTATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.13, C:0.00, G:0.10, T:0.77
Consensus pattern (12 bp):
TTATTTTTATGT
Found at i:30309198 original size:30 final size:30
Alignment explanation
Indices: 30309164--30309226 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
30309154 GCACATTAAC
* *
30309164 TTTATGTGTGTTTTTTTTCTTA-TTTTTATG
1 TTTATGTGTGTGTTTATT-TTAGTTTTTATG
* *
30309194 TTTATTTTTGTGTTTATTTTAGTTTTTATG
1 TTTATGTGTGTGTTTATTTTAGTTTTTATG
30309224 TTT
1 TTT
30309227 TTTTTATGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 3 0.11
30 25 0.89
ACGTcount: A:0.11, C:0.02, G:0.13, T:0.75
Consensus pattern (30 bp):
TTTATGTGTGTGTTTATTTTAGTTTTTATG
Found at i:30309219 original size:18 final size:17
Alignment explanation
Indices: 30309164--30309233 Score: 59
Period size: 18 Copynumber: 3.9 Consensus size: 17
30309154 GCACATTAAC
* * *
30309164 TTTATGTGTGTTTTTTT
1 TTTATGTTTATTTTATT
*
30309181 TCTTATTTTTATGTTTATT
1 T-TTATGTTTAT-TTTATT
*
30309200 TTTGTGTTTATTTTAGTT
1 TTTATGTTTATTTTA-TT
*
30309218 TTTATGTTTTTTTTAT
1 TTTATGTTTATTTTAT
30309234 GAAAAATAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
17 6 0.14
18 30 0.71
19 6 0.14
ACGTcount: A:0.11, C:0.01, G:0.11, T:0.76
Consensus pattern (17 bp):
TTTATGTTTATTTTATT
Found at i:30311321 original size:19 final size:18
Alignment explanation
Indices: 30311283--30311322 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
30311273 TAGTTTTAGG
**
30311283 TTTAGTTTTTTCTAGTTT
1 TTTAGTTTTTTCTACATT
30311301 TTTAGTTTTTTTCTACATT
1 TTTAG-TTTTTTCTACATT
30311320 TTT
1 TTT
30311323 CTAGGGCTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.12, C:0.07, G:0.07, T:0.72
Consensus pattern (18 bp):
TTTAGTTTTTTCTACATT
Found at i:30319310 original size:20 final size:21
Alignment explanation
Indices: 30319285--30319325 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
30319275 CGAGACTTAA
*
30319285 TCGGAAACTTT-AAGAATTTT
1 TCGGAAACTTTCAAAAATTTT
*
30319305 TCGGAAAGTTTCAAAAATTTT
1 TCGGAAACTTTCAAAAATTTT
30319326 CCAAGTTACA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.39
Consensus pattern (21 bp):
TCGGAAACTTTCAAAAATTTT
Found at i:30324026 original size:124 final size:124
Alignment explanation
Indices: 30323806--30324054 Score: 489
Period size: 124 Copynumber: 2.0 Consensus size: 124
30323796 ATCATATGAC
30323806 CCGTAATATGTTAGAAATGATATGTGAAAATTTTGATATGAAAATTTTATTGATTAAGTGTTTAA
1 CCGTAATATGTTAGAAATGATATGTGAAAATTTTGATATGAAAATTTTATTGATTAAGTGTTTAA
30323871 TTACGAAAAGGACTAAATCGCATAAAATGAGAAAGTCAAATTCTAGTAGCTATAAGGAT
66 TTACGAAAAGGACTAAATCGCATAAAATGAGAAAGTCAAATTCTAGTAGCTATAAGGAT
30323930 CCGTAATATGTTAGAAATGATATGTGAAAATTTTGATATGAAAATTTTATTGATTAAGTGTTTAA
1 CCGTAATATGTTAGAAATGATATGTGAAAATTTTGATATGAAAATTTTATTGATTAAGTGTTTAA
*
30323995 TTACGAAAAGGACTAAATCGTATAAAATGAGAAAGTCAAATTCTAGTAGCTATAAGGAT
66 TTACGAAAAGGACTAAATCGCATAAAATGAGAAAGTCAAATTCTAGTAGCTATAAGGAT
30324054 C
1 C
30324055 AAATAGCCAT
Statistics
Matches: 124, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
124 124 1.00
ACGTcount: A:0.42, C:0.07, G:0.18, T:0.33
Consensus pattern (124 bp):
CCGTAATATGTTAGAAATGATATGTGAAAATTTTGATATGAAAATTTTATTGATTAAGTGTTTAA
TTACGAAAAGGACTAAATCGCATAAAATGAGAAAGTCAAATTCTAGTAGCTATAAGGAT
Found at i:30337204 original size:55 final size:55
Alignment explanation
Indices: 30337137--30337269 Score: 187
Period size: 55 Copynumber: 2.4 Consensus size: 55
30337127 TGCCCTTAGT
* * * * *
30337137 CCGTGTATAACACTGACTTTAAAACATGGTCATGGCACACGCCTGTGTGGCCGGC
1 CCGTGTACAACACTGACTTTAAAACACGGCCATCGCACACGCCCGTGTGGCCGGC
* *
30337192 CCGTGTACAACACTGACTTTAAAACACGGCCATCGTACACGCCCGTGTGGCCTGC
1 CCGTGTACAACACTGACTTTAAAACACGGCCATCGCACACGCCCGTGTGGCCGGC
*
30337247 CCGTGTACAACATTGAC-TTAAAA
1 CCGTGTACAACACTGACTTTAAAA
30337270 TTTTAAGTGC
Statistics
Matches: 70, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
54 6 0.09
55 64 0.91
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (55 bp):
CCGTGTACAACACTGACTTTAAAACACGGCCATCGCACACGCCCGTGTGGCCGGC
Found at i:30341624 original size:66 final size:66
Alignment explanation
Indices: 30341544--30341675 Score: 264
Period size: 66 Copynumber: 2.0 Consensus size: 66
30341534 AAGCAATTTC
30341544 ATACAAATTGGTTCTAGAATCCAAGTTTTTTAATTTATTCAATTTAGTCCCTAATTTCCAATTGG
1 ATACAAATTGGTTCTAGAATCCAAGTTTTTTAATTTATTCAATTTAGTCCCTAATTTCCAATTGG
30341609 A
66 A
30341610 ATACAAATTGGTTCTAGAATCCAAGTTTTTTAATTTATTCAATTTAGTCCCTAATTTCCAATTGG
1 ATACAAATTGGTTCTAGAATCCAAGTTTTTTAATTTATTCAATTTAGTCCCTAATTTCCAATTGG
30341675 A
66 A
30341676 CACCTTACTC
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 66 1.00
ACGTcount: A:0.32, C:0.15, G:0.11, T:0.42
Consensus pattern (66 bp):
ATACAAATTGGTTCTAGAATCCAAGTTTTTTAATTTATTCAATTTAGTCCCTAATTTCCAATTGG
A
Found at i:30342817 original size:23 final size:23
Alignment explanation
Indices: 30342791--30342835 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
30342781 TTAAATTAGA
30342791 AATTAGAAATTA-GAAAAATAAAT
1 AATTA-AAATTATGAAAAATAAAT
**
30342814 AATTATTATTATGAAAAATAAA
1 AATTAAAATTATGAAAAATAAA
30342836 ATTTCTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (23 bp):
AATTAAAATTATGAAAAATAAAT
Found at i:30343075 original size:23 final size:23
Alignment explanation
Indices: 30343045--30343093 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
30343035 TATTGAAGTC
*
30343045 TTTTTATATGTATATCTTGATAA
1 TTTTTATATGTATATCTTAATAA
30343068 TTTTTATATGTATATCTTAATAA
1 TTTTTATATGTATATCTTAATAA
30343091 TTT
1 TTT
30343094 ATACATTTGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.31, C:0.04, G:0.06, T:0.59
Consensus pattern (23 bp):
TTTTTATATGTATATCTTAATAA
Found at i:30344119 original size:78 final size:78
Alignment explanation
Indices: 30343997--30344142 Score: 283
Period size: 78 Copynumber: 1.9 Consensus size: 78
30343987 TTTGTGCAAC
*
30343997 CCAAAGAAAATAAGGACTTAACCCTGGTACAGTCCAAAGAGTCAGACCTGGAGGAGCAACCTCAA
1 CCAAAGAAAATAAGGACTCAACCCTGGTACAGTCCAAAGAGTCAGACCTGGAGGAGCAACCTCAA
30344062 CAAGCGGTGCAGG
66 CAAGCGGTGCAGG
30344075 CCAAAGAAAATAAGGACTCAACCCTGGTACAGTCCAAAGAGTCAGACCTGGAGGAGCAACCTCAA
1 CCAAAGAAAATAAGGACTCAACCCTGGTACAGTCCAAAGAGTCAGACCTGGAGGAGCAACCTCAA
30344140 CAA
66 CAA
30344143 TCGGAAGACT
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 67 1.00
ACGTcount: A:0.39, C:0.25, G:0.23, T:0.12
Consensus pattern (78 bp):
CCAAAGAAAATAAGGACTCAACCCTGGTACAGTCCAAAGAGTCAGACCTGGAGGAGCAACCTCAA
CAAGCGGTGCAGG
Found at i:30349794 original size:21 final size:21
Alignment explanation
Indices: 30349761--30349809 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
30349751 ATAAATAAAA
*
30349761 TCATTCA-TGTCAATTCCCTG
1 TCATTCACTGTCAATTCACTG
*
30349781 TCATTCACTGTCAATTTACTG
1 TCATTCACTGTCAATTCACTG
30349802 TCATTCAC
1 TCATTCAC
30349810 AACTTCTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 7 0.27
21 19 0.73
ACGTcount: A:0.22, C:0.29, G:0.08, T:0.41
Consensus pattern (21 bp):
TCATTCACTGTCAATTCACTG
Found at i:30349801 original size:11 final size:11
Alignment explanation
Indices: 30349763--30349809 Score: 55
Period size: 10 Copynumber: 4.5 Consensus size: 11
30349753 AAATAAAATC
30349763 ATTCA-TGTCA
1 ATTCACTGTCA
*
30349773 ATTCCCTGTC-
1 ATTCACTGTCA
30349783 ATTCACTGTCA
1 ATTCACTGTCA
*
30349794 ATTTACTGTC-
1 ATTCACTGTCA
30349804 ATTCAC
1 ATTCAC
30349810 AACTTCTATT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
10 18 0.58
11 13 0.42
ACGTcount: A:0.23, C:0.28, G:0.09, T:0.40
Consensus pattern (11 bp):
ATTCACTGTCA
Found at i:30350020 original size:21 final size:19
Alignment explanation
Indices: 30349983--30350053 Score: 106
Period size: 19 Copynumber: 3.6 Consensus size: 19
30349973 TGATTAAGCC
30349983 AACAGAAGCTCGAAAGCTG
1 AACAGAAGCTCGAAAGCTG
30350002 AACAGAAGCTCGTGAAAGCTG
1 AACAGAAGCTC--GAAAGCTG
* *
30350023 AATAGAAGCTCGAAAGCTA
1 AACAGAAGCTCGAAAGCTG
30350042 AACAGAAGCTCG
1 AACAGAAGCTCG
30350054 TGAGAGCTGA
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
19 29 0.62
21 18 0.38
ACGTcount: A:0.42, C:0.20, G:0.25, T:0.13
Consensus pattern (19 bp):
AACAGAAGCTCGAAAGCTG
Found at i:30350046 original size:40 final size:40
Alignment explanation
Indices: 30349986--30350064 Score: 140
Period size: 40 Copynumber: 2.0 Consensus size: 40
30349976 TTAAGCCAAC
*
30349986 AGAAGCTCGAAAGCTGAACAGAAGCTCGTGAAAGCTGAAT
1 AGAAGCTCGAAAGCTAAACAGAAGCTCGTGAAAGCTGAAT
*
30350026 AGAAGCTCGAAAGCTAAACAGAAGCTCGTGAGAGCTGAA
1 AGAAGCTCGAAAGCTAAACAGAAGCTCGTGAAAGCTGAA
30350065 AGTAAAACAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.41, C:0.18, G:0.28, T:0.14
Consensus pattern (40 bp):
AGAAGCTCGAAAGCTAAACAGAAGCTCGTGAAAGCTGAAT
Found at i:30350098 original size:27 final size:27
Alignment explanation
Indices: 30350067--30350124 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
30350057 GAGCTGAAAG
* *
30350067 TAAAACATGAGAGTTCGTAACAAATCC
1 TAAAACACGAGAGTTCGCAACAAATCC
*
30350094 TAAAACACGAGAGTTTGCAACAAATCC
1 TAAAACACGAGAGTTCGCAACAAATCC
30350121 TAAA
1 TAAA
30350125 CCCTAATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.47, C:0.19, G:0.14, T:0.21
Consensus pattern (27 bp):
TAAAACACGAGAGTTCGCAACAAATCC
Found at i:30350250 original size:17 final size:17
Alignment explanation
Indices: 30350230--30350268 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
30350220 AAATCCAATT
30350230 CAATATTAT-AATTCCAA
1 CAATATT-TCAATTCCAA
*
30350247 CAATATTTCATTTCCAA
1 CAATATTTCAATTCCAA
30350264 CAATA
1 CAATA
30350269 GAATAAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 1 0.05
17 19 0.95
ACGTcount: A:0.44, C:0.21, G:0.00, T:0.36
Consensus pattern (17 bp):
CAATATTTCAATTCCAA
Found at i:30353423 original size:43 final size:43
Alignment explanation
Indices: 30353321--30353408 Score: 176
Period size: 43 Copynumber: 2.0 Consensus size: 43
30353311 CCGAACTGGT
30353321 TCACGTAGAACAATGGAATATAGTAGATGAAATGCTTACTTCA
1 TCACGTAGAACAATGGAATATAGTAGATGAAATGCTTACTTCA
30353364 TCACGTAGAACAATGGAATATAGTAGATGAAATGCTTACTTCA
1 TCACGTAGAACAATGGAATATAGTAGATGAAATGCTTACTTCA
30353407 TC
1 TC
30353409 TAGACTATAC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.28
Consensus pattern (43 bp):
TCACGTAGAACAATGGAATATAGTAGATGAAATGCTTACTTCA
Found at i:30355279 original size:19 final size:19
Alignment explanation
Indices: 30355233--30355279 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
30355223 TATACAAAGT
*
30355233 TAAATATATCAATAATATA
1 TAAATATATCAATAATACA
*
30355252 T-AATAATATTAATAATACA
1 TAAAT-ATATCAATAATACA
30355271 TAAATATAT
1 TAAATATAT
30355280 AAAGGAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 3 0.12
19 18 0.75
20 3 0.12
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.38
Consensus pattern (19 bp):
TAAATATATCAATAATACA
Found at i:30355349 original size:14 final size:15
Alignment explanation
Indices: 30355320--30355352 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
30355310 ATTATATACT
30355320 TATACTTAATAAATTA
1 TATACTTAAT-AATTA
30355336 TATACTTAAT-ATTA
1 TATACTTAATAATTA
30355350 TAT
1 TAT
30355353 TTTTATATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.41
16 10 0.59
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (15 bp):
TATACTTAATAATTA
Found at i:30376028 original size:16 final size:16
Alignment explanation
Indices: 30376007--30376039 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
30375997 CATCAATGTT
30376007 AGGAATGGTGAAATGG
1 AGGAATGGTGAAATGG
30376023 AGGAATGGTGAAATGG
1 AGGAATGGTGAAATGG
30376039 A
1 A
30376040 ATAGGGAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.42, T:0.18
Consensus pattern (16 bp):
AGGAATGGTGAAATGG
Found at i:30376299 original size:27 final size:27
Alignment explanation
Indices: 30376269--30376349 Score: 101
Period size: 27 Copynumber: 3.0 Consensus size: 27
30376259 AATATAGCCT
*
30376269 ATCAGGATAGTAAACACGAGGTAGTCC
1 ATCAGGACAGTAAACACGAGGTAGTCC
* *
30376296 ATCAGGACAGTAAATACGAGGTAGTCT
1 ATCAGGACAGTAAACACGAGGTAGTCC
* *
30376323 A-CTGGGACAATAAACACGAGGTAGTCC
1 ATC-AGGACAGTAAACACGAGGTAGTCC
30376350 GCAGGGAGAT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
26 1 0.02
27 45 0.98
ACGTcount: A:0.37, C:0.19, G:0.26, T:0.19
Consensus pattern (27 bp):
ATCAGGACAGTAAACACGAGGTAGTCC
Found at i:30376356 original size:27 final size:27
Alignment explanation
Indices: 30376279--30376365 Score: 95
Period size: 27 Copynumber: 3.2 Consensus size: 27
30376269 ATCAGGATAG
*
30376279 TAAACACGAGGTAGTCCATCA-GGACAG
1 TAAACACGAGGTAGTCCA-CAGGGACAA
* * *
30376306 TAAATACGAGGTAGTCTACTGGGACAA
1 TAAACACGAGGTAGTCCACAGGGACAA
* * *
30376333 TAAACACGAGGTAGTCCGCAGGGAGAT
1 TAAACACGAGGTAGTCCACAGGGACAA
30376360 TAAACA
1 TAAACA
30376366 TAGGGTAAAA
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
26 1 0.02
27 48 0.98
ACGTcount: A:0.38, C:0.18, G:0.26, T:0.17
Consensus pattern (27 bp):
TAAACACGAGGTAGTCCACAGGGACAA
Found at i:30379549 original size:47 final size:46
Alignment explanation
Indices: 30379481--30379631 Score: 182
Period size: 47 Copynumber: 3.3 Consensus size: 46
30379471 AGCTTAAGAT
*
30379481 CGAATGGCCAATGTGATGAATGTGAAAGGGTGTATATGTGATAAGGT
1 CGAATGGCCAATGTGATGAATGTGAAA-GGTGTATATGTGATAAGGC
*
30379528 CGAATGGCCAATGTGATGAATGTGAAA-GTGCATACATGTGATAAGGC
1 CGAATGGCCAATGTGATGAATGTGAAAGGTG--TATATGTGATAAGGC
** * *
30379575 CGAATGGTTAATGTGAT-ATATGTGTAA-GTGAATATGTGATAAGGC
1 CGAATGGCCAATGTGATGA-ATGTGAAAGGTGTATATGTGATAAGGC
*
30379620 CGAATGACCAAT
1 CGAATGGCCAAT
30379632 TGTTAAAAGT
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
45 25 0.27
46 1 0.01
47 65 0.71
ACGTcount: A:0.34, C:0.09, G:0.30, T:0.27
Consensus pattern (46 bp):
CGAATGGCCAATGTGATGAATGTGAAAGGTGTATATGTGATAAGGC
Found at i:30379761 original size:39 final size:40
Alignment explanation
Indices: 30379707--30379791 Score: 118
Period size: 40 Copynumber: 2.1 Consensus size: 40
30379697 AAATGAATTG
* * * *
30379707 TGCTGAGATTGTATCCGGG-TTAGAGACCCGCTGGCTTCA
1 TGCTGGGATTGTATCCGGGTTTAAAGACCCGCAGGCTTAA
*
30379746 TGCTGGGATTGTATCCGGGTTTAAAGTCCCGCAGGCTTAA
1 TGCTGGGATTGTATCCGGGTTTAAAGACCCGCAGGCTTAA
30379786 TGCTGG
1 TGCTGG
30379792 TGAATTAAGT
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
39 18 0.45
40 22 0.55
ACGTcount: A:0.18, C:0.21, G:0.32, T:0.29
Consensus pattern (40 bp):
TGCTGGGATTGTATCCGGGTTTAAAGACCCGCAGGCTTAA
Found at i:30382382 original size:40 final size:40
Alignment explanation
Indices: 30382327--30382682 Score: 568
Period size: 40 Copynumber: 8.9 Consensus size: 40
30382317 CTCGCCGATG
* **
30382327 ATCCGGGCTAAGTCCCAAAGAGCATTCGTGCTGAAGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
*
30382367 ATCCGGGCTAAGTCCCGAAGAGCATACGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
* *
30382407 ATCCGGGCTAAGTCCCAAAGAGCATACGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
30382447 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
30382487 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
**
30382527 ATCTAGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
* * *
30382567 ATCCGGGCTAAGTCTCAAAGAGCATTCGTGCTGGAGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
* *
30382607 ATCAGGGTTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
* * *
30382647 ATTCGGGCTAGGTCCCGAAGAGCATTCATGCTGGTG
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
30382683 ATGTGTATTC
Statistics
Matches: 292, Mismatches: 24, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 292 1.00
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
Found at i:30382896 original size:25 final size:25
Alignment explanation
Indices: 30382846--30382896 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
30382836 TGTGTAACAA
* *
30382846 CAAATGAATAGGGGCACTATGTGTG
1 CAAATGAATAGAGGCACTATGAGTG
*
30382871 CAAATGATTAGAGGCACTGA-GAGTG
1 CAAATGAATAGAGGCACT-ATGAGTG
30382896 C
1 C
30382897 GAGTTCTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.33, C:0.14, G:0.31, T:0.22
Consensus pattern (25 bp):
CAAATGAATAGAGGCACTATGAGTG
Found at i:30386452 original size:47 final size:46
Alignment explanation
Indices: 30386383--30386538 Score: 192
Period size: 47 Copynumber: 3.3 Consensus size: 46
30386373 AGCTTAAGAT
30386383 CGAATGGCCAATGTGATGAATGTGAAAGGGTGTATATGTGATAAGGC
1 CGAATGGCCAATGTGATGAATGTGAAA-GGTGTATATGTGATAAGGC
*
30386430 CGAATGGCCAATGTGATGAATGTGAAA-GTGCATACATGTGATAAGGC
1 CGAATGGCCAATGTGATGAATGTGAAAGGTG--TATATGTGATAAGGC
** * *
30386477 CGAATGGTTAATGTGAT-ATATGTGTAA-GTGAATATGTGATAAGGC
1 CGAATGGCCAATGTGATGA-ATGTGAAAGGTGTATATGTGATAAGGC
*
30386522 CGAATGACCAATTGTGA
1 CGAATGGCCAA-TGTGA
30386539 AAAGTGTGCA
Statistics
Matches: 96, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
45 24 0.25
46 6 0.06
47 66 0.69
ACGTcount: A:0.33, C:0.10, G:0.30, T:0.27
Consensus pattern (46 bp):
CGAATGGCCAATGTGATGAATGTGAAAGGTGTATATGTGATAAGGC
Found at i:30386691 original size:40 final size:39
Alignment explanation
Indices: 30386615--30386693 Score: 113
Period size: 40 Copynumber: 2.0 Consensus size: 39
30386605 ATTATACTGA
* * *
30386615 GATTGTATCCGGGTTAGAGACCCGCTGGCTTCATGCTGG
1 GATTGTATCCGGGTTAAAGACCCGCAGGCTTAATGCTGG
*
30386654 GATTGTATCCGGGTTTAAAGTCCCGCAGGCTTAATGCTGG
1 GATTGTATCCGGG-TTAAAGACCCGCAGGCTTAATGCTGG
30386694 TGAATTAAGT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
39 13 0.37
40 22 0.63
ACGTcount: A:0.18, C:0.22, G:0.32, T:0.29
Consensus pattern (39 bp):
GATTGTATCCGGGTTAAAGACCCGCAGGCTTAATGCTGG
Found at i:30391458 original size:38 final size:37
Alignment explanation
Indices: 30391409--30391536 Score: 89
Period size: 38 Copynumber: 3.3 Consensus size: 37
30391399 TTTAAGATTT
30391409 AATTTATATAATTTAATTTTGACATAATTTGATACCTC
1 AATTT-TATAATTTAATTTTGACATAATTTGATACCTC
* * * * * * *
30391447 AATCTTTATAATATCATTAGTTAGTC-TAAATTTAAGA-TTT
1 AAT-TTTATAATTTAATT--TT-GACAT-AATTTGATACCTC
* *
30391487 AATTTATATAATTTAATTTTAACATAATTTGATGCCTC
1 AATTT-TATAATTTAATTTTGACATAATTTGATACCTC
30391525 AATTTTTATAAT
1 AA-TTTTATAAT
30391537 ATCATTAGTT
Statistics
Matches: 65, Mismatches: 16, Indels: 18
0.66 0.16 0.18
Matches are distributed among these distances:
37 7 0.11
38 25 0.38
39 7 0.11
40 17 0.26
41 9 0.14
ACGTcount: A:0.38, C:0.09, G:0.05, T:0.48
Consensus pattern (37 bp):
AATTTTATAATTTAATTTTGACATAATTTGATACCTC
Found at i:30391568 original size:78 final size:78
Alignment explanation
Indices: 30391396--30391554 Score: 284
Period size: 78 Copynumber: 2.1 Consensus size: 78
30391386 ATATTTGCTC
*
30391396 AAATTTAAGATTTAATTTATATAATTTAATTTTGACATAATTTGATACCTCAATCTTTATAATAT
1 AAATTTAAGATTTAATTTATATAATTTAATTTTAACATAATTTGATACCTCAATCTTTATAATAT
30391461 CATTAGTTAGTCT
66 CATTAGTTAGTCT
* *
30391474 AAATTTAAGATTTAATTTATATAATTTAATTTTAACATAATTTGATGCCTCAATTTTTATAATAT
1 AAATTTAAGATTTAATTTATATAATTTAATTTTAACATAATTTGATACCTCAATCTTTATAATAT
30391539 CATTAGTT-GTCT
66 CATTAGTTAGTCT
30391551 AAAT
1 AAAT
30391555 ATTTTATTCT
Statistics
Matches: 78, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
77 8 0.10
78 70 0.90
ACGTcount: A:0.38, C:0.08, G:0.06, T:0.48
Consensus pattern (78 bp):
AAATTTAAGATTTAATTTATATAATTTAATTTTAACATAATTTGATACCTCAATCTTTATAATAT
CATTAGTTAGTCT
Done.