Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 39 of 228
Found at i:11797726 original size:100 final size:103
Alignment explanation
Indices: 11797537--11797778 Score: 357
Period size: 100 Copynumber: 2.3 Consensus size: 103
11797527 ATTTGGGTAA
11797537 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
11797602 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
11797643 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
11797705 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
*
11797743 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGC
11797779 TTTCGCATGT
Statistics
Matches: 127, Mismatches: 7, Indels: 9
0.89 0.05 0.06
Matches are distributed among these distances:
99 1 0.01
100 51 0.40
101 33 0.26
105 2 0.02
106 40 0.31
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:11802893 original size:23 final size:23
Alignment explanation
Indices: 11802867--11802939 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
11802857 AGTGCCACAT
11802867 TGATATGTAGCCGAAGCTACCAC
1 TGATATGTAGCCGAAGCTACCAC
*
11802890 TGATATGTAGCCGTAGCTACCAC
1 TGATATGTAGCCGAAGCTACCAC
* *
11802913 AGAAATGTAGCCGAAGCTACCAC
1 TGATATGTAGCCGAAGCTACCAC
11802936 TGAT
1 TGAT
11802940 CAATAACACT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.32, C:0.25, G:0.22, T:0.22
Consensus pattern (23 bp):
TGATATGTAGCCGAAGCTACCAC
Found at i:11803039 original size:8 final size:8
Alignment explanation
Indices: 11803026--11803054 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
11803016 ACCCGGGACT
11803026 CACTGTAA
1 CACTGTAA
11803034 CACTGTAA
1 CACTGTAA
11803042 CACTGTAA
1 CACTGTAA
11803050 CACTG
1 CACTG
11803055 GTCTCTAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (8 bp):
CACTGTAA
Found at i:11803199 original size:18 final size:17
Alignment explanation
Indices: 11803173--11803211 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
11803163 ATTTTCCTTC
11803173 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
11803190 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
11803208 CACA
1 CACA
11803212 ATTTATACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:11807228 original size:87 final size:87
Alignment explanation
Indices: 11807120--11807296 Score: 354
Period size: 87 Copynumber: 2.0 Consensus size: 87
11807110 TGATATTGTC
11807120 TCACAAAATTCAATATATCTCATAATTTACAATTTCATTTCTTACACTGTTTCTTCCATGAAAAA
1 TCACAAAATTCAATATATCTCATAATTTACAATTTCATTTCTTACACTGTTTCTTCCATGAAAAA
11807185 CTAGACTCAATAAAATTTAATT
66 CTAGACTCAATAAAATTTAATT
11807207 TCACAAAATTCAATATATCTCATAATTTACAATTTCATTTCTTACACTGTTTCTTCCATGAAAAA
1 TCACAAAATTCAATATATCTCATAATTTACAATTTCATTTCTTACACTGTTTCTTCCATGAAAAA
11807272 CTAGACTCAATAAAATTTAATT
66 CTAGACTCAATAAAATTTAATT
11807294 TCA
1 TCA
11807297 TAATTTATTC
Statistics
Matches: 90, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
87 90 1.00
ACGTcount: A:0.39, C:0.19, G:0.03, T:0.39
Consensus pattern (87 bp):
TCACAAAATTCAATATATCTCATAATTTACAATTTCATTTCTTACACTGTTTCTTCCATGAAAAA
CTAGACTCAATAAAATTTAATT
Found at i:11813330 original size:26 final size:27
Alignment explanation
Indices: 11813300--11813362 Score: 69
Period size: 26 Copynumber: 2.4 Consensus size: 27
11813290 CTACCTACAG
*
11813300 CAGTTTCT-GAATATCATAACATTTAT
1 CAGTTTCTAGAATATCATAACATGTAT
* * *
11813326 TAGTTT-TAGATTATCATAGCATGTAT
1 CAGTTTCTAGAATATCATAACATGTAT
11813352 CAGTTTC-AGAA
1 CAGTTTCTAGAA
11813363 CACTTACAGG
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
25 1 0.03
26 28 0.97
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (27 bp):
CAGTTTCTAGAATATCATAACATGTAT
Found at i:11822142 original size:49 final size:50
Alignment explanation
Indices: 11822050--11822147 Score: 144
Period size: 49 Copynumber: 2.0 Consensus size: 50
11822040 ATCTATTTAT
* * * * *
11822050 AGGTTGAAAAAGCCTTATTCTGATCAATGTCAAATAGATGAAGTGTAGTA
1 AGGTTGAAAAAGCCTTATTCTAATCAATGTAAAATAAAAGAAGTATAGTA
11822100 AGGTTGAAAAA-CCTTATTCTAATCAATGTAAAATAAAAGAAGTATAGT
1 AGGTTGAAAAAGCCTTATTCTAATCAATGTAAAATAAAAGAAGTATAGT
11822148 TCTATATGGA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
49 32 0.74
50 11 0.26
ACGTcount: A:0.43, C:0.09, G:0.18, T:0.30
Consensus pattern (50 bp):
AGGTTGAAAAAGCCTTATTCTAATCAATGTAAAATAAAAGAAGTATAGTA
Found at i:11824975 original size:10 final size:10
Alignment explanation
Indices: 11824960--11824984 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
11824950 ATAAGTCCTC
11824960 TTTTGCTTAA
1 TTTTGCTTAA
11824970 TTTTGCTTAA
1 TTTTGCTTAA
11824980 TTTTG
1 TTTTG
11824985 TCATATCATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.16, C:0.08, G:0.12, T:0.64
Consensus pattern (10 bp):
TTTTGCTTAA
Found at i:11826650 original size:49 final size:50
Alignment explanation
Indices: 11826558--11826655 Score: 135
Period size: 49 Copynumber: 2.0 Consensus size: 50
11826548 ATATATTTAT
* ** * * *
11826558 AGGTTGAAAAAACCTTATTCTAATCAATGTTCAATAGATGAAGTGTAGTA
1 AGGTTGAAAAAACATTATTCTAATCAATGTAAAATAAAAGAAGTATAGTA
11826608 AGGTTG-AAAAACATTATTCTAATCAATGTAAAATAAAAGAAGTATAGT
1 AGGTTGAAAAAACATTATTCTAATCAATGTAAAATAAAAGAAGTATAGT
11826656 TTTGTATGAA
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
49 36 0.86
50 6 0.14
ACGTcount: A:0.45, C:0.08, G:0.16, T:0.31
Consensus pattern (50 bp):
AGGTTGAAAAAACATTATTCTAATCAATGTAAAATAAAAGAAGTATAGTA
Found at i:11826682 original size:5 final size:5
Alignment explanation
Indices: 11826665--11826709 Score: 54
Period size: 5 Copynumber: 8.2 Consensus size: 5
11826655 TTTTGTATGA
11826665 ATTTT ACTTTT ATTTT ATTTT ACCATTTT ATTTT ATTTT ATTTT A
1 ATTTT A-TTTT ATTTT ATTTT ---ATTTT ATTTT ATTTT ATTTT A
11826710 ACAAGGACTC
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
5 26 0.72
6 5 0.14
8 5 0.14
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.71
Consensus pattern (5 bp):
ATTTT
Found at i:11826700 original size:23 final size:24
Alignment explanation
Indices: 11826665--11826709 Score: 83
Period size: 23 Copynumber: 1.9 Consensus size: 24
11826655 TTTTGTATGA
11826665 ATTTTACTTTTATTTTATTTTACC
1 ATTTTACTTTTATTTTATTTTACC
11826689 ATTTTA-TTTTATTTTATTTTA
1 ATTTTACTTTTATTTTATTTTA
11826710 ACAAGGACTC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
23 15 0.71
24 6 0.29
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.71
Consensus pattern (24 bp):
ATTTTACTTTTATTTTATTTTACC
Found at i:11854821 original size:36 final size:35
Alignment explanation
Indices: 11854752--11854822 Score: 97
Period size: 36 Copynumber: 2.0 Consensus size: 35
11854742 AGTCAAGGAT
*
11854752 TGTTGGGCACATTATTTGCCAATTATACTGACCAA
1 TGTTGGGCACATTATTTGCCAATTATACCGACCAA
* * *
11854787 TGTTGGGCACATTTATTTGTCGATTTTACCGACCAA
1 TGTTGGGCACA-TTATTTGCCAATTATACCGACCAA
11854823 CACAAGGCGC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
35 11 0.35
36 20 0.65
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (35 bp):
TGTTGGGCACATTATTTGCCAATTATACCGACCAA
Found at i:11856601 original size:25 final size:25
Alignment explanation
Indices: 11856565--11856622 Score: 89
Period size: 25 Copynumber: 2.3 Consensus size: 25
11856555 GTTCTGACCC
*
11856565 ATAGCTCTTGAGAGCATACCGATCT
1 ATAGCTCGTGAGAGCATACCGATCT
*
11856590 ATAGCTCGTGAGAGCATATCGATCT
1 ATAGCTCGTGAGAGCATACCGATCT
*
11856615 ACAGCTCG
1 ATAGCTCG
11856623 AATGAGCATA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (25 bp):
ATAGCTCGTGAGAGCATACCGATCT
Found at i:11856629 original size:25 final size:25
Alignment explanation
Indices: 11856575--11856658 Score: 91
Period size: 25 Copynumber: 3.4 Consensus size: 25
11856565 ATAGCTCTTG
* *
11856575 AGAGCATACCGATCTATAGCTCGTG
1 AGAGCATACCGATCTACAGCTCGTA
*
11856600 AGAGCATATCGATCTACAGCTCG-A
1 AGAGCATACCGATCTACAGCTCGTA
* *
11856624 ATGAGCATACTGAT-TCACAACTCGTA
1 A-GAGCATACCGATCT-ACAGCTCGTA
11856650 AGAGCATAC
1 AGAGCATAC
11856659 ATGTACATGA
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
24 2 0.04
25 46 0.92
26 2 0.04
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.23
Consensus pattern (25 bp):
AGAGCATACCGATCTACAGCTCGTA
Found at i:11867070 original size:244 final size:243
Alignment explanation
Indices: 11866633--11867126 Score: 837
Period size: 244 Copynumber: 2.0 Consensus size: 243
11866623 TATTTCTCCT
* *
11866633 TCTAGTATTAGAGATTGTATGGGGTGGTGAGATGTGCTTGGTAACTCTAGATTTGAGATAACTTC
1 TCTAGTGTTAGAGATTGAATGGGGTGGTGAGATGTGCTTGGTAACTCTAGATTTGAGATAACTTC
* * * *
11866698 ACCAGTCTTATTATGTTTTCTATTTTATGAGTTGCATGTATTCATACATTTGCTTTTGAGTGAGA
66 ACCAGTCTTATCATGTTCTCTATTTTATGAGCTGCATGTATGCATACATTTGCTTTTGAGTGAGA
11866763 AAACCTTATGAAGTTATTTCTTGTTTTACCTGAGATATACTGCAATGTTCCTATGCAATTAATAC
131 AAACCTTATGAAGTTATTTCTTGTTTTACCTGAGATATACTGCAATGTTCCTATGCAATTAAT--
*
11866828 ACTCATTGCAGATGGATCCACCTTTCTTACATCATCCTGTCTAAGATTGG
194 ACTCATTGCAGATGGATCCACCTTTCTTACATCATCCCGTCTAAGATTGG
*
11866878 TCTAGTGTTAGAGATTGAATGGGGTGGTGAGATGTGCTTGGTAACTCTAGATTTGAG-TAACTTT
1 TCTAGTGTTAGAGATTGAATGGGGTGGTGAGATGTGCTTGGTAACTCTAGATTTGAGATAACTTC
11866942 ACCAGTCTTATCATGTTCTCTATTTTATGAGCTGCATGTATGCATACATTTGCTTTTGAGTGAGA
66 ACCAGTCTTATCATGTTCTCTATTTTATGAGCTGCATGTATGCATACATTTGCTTTTGAGTGAGA
* * * *
11867007 AAGCCTTATGATGTTATTTCTTGTTTTACCTGAGATATACTGCCATGTTCCTTTGCAATTAATAC
131 AAACCTTATGAAGTTATTTCTTGTTTTACCTGAGATATACTGCAATGTTCCTATGCAATTAATAC
* *
11867072 TCATTGCAGATTGATCCACCTTTCTTACATCATCCCGTCTAAGATTGT
196 TCATTGCAGATGGATCCACCTTTCTTACATCATCCCGTCTAAGATTGG
11867120 TCTAGTG
1 TCTAGTG
11867127 AAATTTATGC
Statistics
Matches: 235, Mismatches: 14, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
242 54 0.23
244 126 0.54
245 55 0.23
ACGTcount: A:0.24, C:0.16, G:0.19, T:0.40
Consensus pattern (243 bp):
TCTAGTGTTAGAGATTGAATGGGGTGGTGAGATGTGCTTGGTAACTCTAGATTTGAGATAACTTC
ACCAGTCTTATCATGTTCTCTATTTTATGAGCTGCATGTATGCATACATTTGCTTTTGAGTGAGA
AAACCTTATGAAGTTATTTCTTGTTTTACCTGAGATATACTGCAATGTTCCTATGCAATTAATAC
TCATTGCAGATGGATCCACCTTTCTTACATCATCCCGTCTAAGATTGG
Found at i:11878362 original size:31 final size:31
Alignment explanation
Indices: 11878326--11878393 Score: 109
Period size: 31 Copynumber: 2.2 Consensus size: 31
11878316 TTAATAACCT
11878326 AGTGACTTAAATAAAAACTTTTGAATAGTTC
1 AGTGACTTAAATAAAAACTTTTGAATAGTTC
* * *
11878357 GGTGACTTAAATGAGAACTTTTGAATAGTTC
1 AGTGACTTAAATAAAAACTTTTGAATAGTTC
11878388 AGTGAC
1 AGTGAC
11878394 CATTTTGTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.37, C:0.10, G:0.19, T:0.34
Consensus pattern (31 bp):
AGTGACTTAAATAAAAACTTTTGAATAGTTC
Found at i:11879590 original size:16 final size:16
Alignment explanation
Indices: 11879569--11879600 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
11879559 TATATGTAAG
11879569 TACATAATGTTTTAAT
1 TACATAATGTTTTAAT
11879585 TACATAATGTTTTAAT
1 TACATAATGTTTTAAT
11879601 AAAAAAGTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (16 bp):
TACATAATGTTTTAAT
Found at i:11880046 original size:29 final size:29
Alignment explanation
Indices: 11880013--11880068 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
11880003 ACCTTGACAT
* *
11880013 GAATTCTCAATGAACAAGTTTTTCACCCC
1 GAATTCTCAACGAACAAGTTTTCCACCCC
11880042 GAATTCTCAACGAACAAGTTTTCCACC
1 GAATTCTCAACGAACAAGTTTTCCACC
11880069 TCTTCCATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.32, C:0.29, G:0.11, T:0.29
Consensus pattern (29 bp):
GAATTCTCAACGAACAAGTTTTCCACCCC
Found at i:11883759 original size:18 final size:19
Alignment explanation
Indices: 11883736--11883774 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
11883726 GGTTTTTTAT
*
11883736 TAAAATATTA-CAAAAAAA
1 TAAAATAATATCAAAAAAA
*
11883754 TAAAATAATATCAAAATAA
1 TAAAATAATATCAAAAAAA
11883773 TA
1 TA
11883775 TACAAAAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (19 bp):
TAAAATAATATCAAAAAAA
Found at i:11883869 original size:27 final size:27
Alignment explanation
Indices: 11883839--11883904 Score: 105
Period size: 27 Copynumber: 2.4 Consensus size: 27
11883829 GGTCTGCCAC
11883839 AGGCGGCACCAATGGCGCCTGTGGCAA
1 AGGCGGCACCAATGGCGCCTGTGGCAA
* * *
11883866 AGGCGACACCAATGGTGCCTGTGGCAG
1 AGGCGGCACCAATGGCGCCTGTGGCAA
11883893 AGGCGGCACCAA
1 AGGCGGCACCAA
11883905 AATGTTCGTA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.24, C:0.29, G:0.36, T:0.11
Consensus pattern (27 bp):
AGGCGGCACCAATGGCGCCTGTGGCAA
Found at i:11884323 original size:152 final size:153
Alignment explanation
Indices: 11883913--11884413 Score: 709
Period size: 149 Copynumber: 3.3 Consensus size: 153
11883903 AAAATGTTCG
* * * * *
11883913 TATTTCAGCCCTTTGTTCCTATTTTTTTCCCCGGATTTTATTAC--TTAAAAAATATACTATTTT
1 TATTTCGGCCCTTTGTTCGTATTTTTTTCCCCAGATTTTATTACTTTTTAAAAATATAATATTTT
11883976 CTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTT
66 CTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTT
* *
11884041 TTAAATAAATTAAAAAAAATCCT
131 TTAAATAAATTTAAAAAAACCCT
* * * ** *
11884064 TATTTCGG-CC-AT-TT-GT-TTTTTCT-CCCAAATTTTATTACTCTCAATAAAAATATATTATT
1 TATTTCGGCCCTTTGTTCGTATTTTTTTCCCCAGATTTTATTACT-T-TTTAAAAATATAATATT
*
11884123 TTCGT-ATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTT-GCTGTG
64 TTC-TAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAG-TGTG
11884186 TTTTTTAAATAAATTTAAAAAAACCCT
127 TTTTTTAAATAAATTTAAAAAAACCCT
* *
11884213 TATTTCGGCCCTTTGTTCGTA-TTTTTTCTCCGGATTTTATTACTTTTTAAAAATATAATATTTT
1 TATTTCGGCCCTTTGTTCGTATTTTTTTCCCCAGATTTTATTACTTTTTAAAAATATAATATTTT
11884277 CTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTT
66 CTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTT
*
11884342 TTAAATAAAATTTTATAAAAACCCT
131 TTAAAT-AAA-TTTAAAAAAACCCT
*
11884367 TATTTTGGCCCTTTGTTCGTATTTTTTTCCCCAGATTTTATTACTTT
1 TATTTCGGCCCTTTGTTCGTATTTTTTTCCCCAGATTTTATTACTTT
11884414 CAATAAAAAA
Statistics
Matches: 307, Mismatches: 26, Indels: 30
0.85 0.07 0.08
Matches are distributed among these distances:
145 13 0.04
146 6 0.02
147 1 0.00
148 3 0.01
149 105 0.34
150 5 0.02
151 9 0.03
152 84 0.27
153 12 0.04
154 46 0.15
155 23 0.07
ACGTcount: A:0.28, C:0.12, G:0.08, T:0.52
Consensus pattern (153 bp):
TATTTCGGCCCTTTGTTCGTATTTTTTTCCCCAGATTTTATTACTTTTTAAAAATATAATATTTT
CTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTT
TTAAATAAATTTAAAAAAACCCT
Found at i:11884596 original size:27 final size:27
Alignment explanation
Indices: 11884557--11884622 Score: 114
Period size: 27 Copynumber: 2.4 Consensus size: 27
11884547 TACGAACATG
11884557 TTGGTGCCGCCTCTGCCACAAGCACCA
1 TTGGTGCCGCCTCTGCCACAAGCACCA
* *
11884584 TTGTTGCCGCCTCTGCCACAGGCACCA
1 TTGGTGCCGCCTCTGCCACAAGCACCA
11884611 TTGGTGCCGCCT
1 TTGGTGCCGCCT
11884623 GTGGCAGACC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.14, C:0.39, G:0.24, T:0.23
Consensus pattern (27 bp):
TTGGTGCCGCCTCTGCCACAAGCACCA
Found at i:11884701 original size:11 final size:12
Alignment explanation
Indices: 11884679--11884722 Score: 51
Period size: 11 Copynumber: 3.9 Consensus size: 12
11884669 AAATAAACTT
11884679 TTTTGTATATTA
1 TTTTGTATATTA
11884691 TTTTG-ATATTA
1 TTTTGTATATTA
11884702 TTTT-TAT-TT-
1 TTTTGTATATTA
11884711 TTTTGTAATATT
1 TTTTGT-ATATT
11884723 TTAATAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
9 4 0.14
10 3 0.11
11 14 0.50
12 7 0.25
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (12 bp):
TTTTGTATATTA
Found at i:11884714 original size:20 final size:19
Alignment explanation
Indices: 11884686--11884724 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
11884676 CTTTTTTGTA
*
11884686 TATTATTTTGATATTATTTT
1 TATTATTTTG-TAATATTTT
*
11884706 TATTTTTTTGTAATATTTT
1 TATTATTTTGTAATATTTT
11884725 AATAAAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (19 bp):
TATTATTTTGTAATATTTT
Found at i:11891243 original size:15 final size:15
Alignment explanation
Indices: 11891223--11891252 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11891213 CTCGAATTCA
*
11891223 ATTTAATAATTAAAT
1 ATTTAAAAATTAAAT
11891238 ATTTAAAAATTAAAT
1 ATTTAAAAATTAAAT
11891253 TAAATTATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
ATTTAAAAATTAAAT
Found at i:11891272 original size:20 final size:20
Alignment explanation
Indices: 11891230--11891285 Score: 53
Period size: 20 Copynumber: 2.8 Consensus size: 20
11891220 TCAATTTAAT
* *
11891230 AATTAAATATTTAAAAATTA
1 AATTAAATATATAAAAATAA
11891250 AATTAAAT-TATAAAATATAA
1 AATTAAATATATAAAA-ATAA
*
11891270 AATATTAATAT-TAAAA
1 AAT-TAAATATATAAAA
11891286 TATATTTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
19 6 0.20
20 14 0.47
21 9 0.30
22 1 0.03
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
AATTAAATATATAAAAATAA
Found at i:11892881 original size:6 final size:5
Alignment explanation
Indices: 11892856--11892886 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
11892846 ATATAATCTT
11892856 AAATA AAATA AAATA AAATAA AAATA AAATA
1 AAATA AAATA AAATA AAAT-A AAATA AAATA
11892887 CAATTTATCC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:11892881 original size:11 final size:11
Alignment explanation
Indices: 11892856--11892886 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
11892846 ATATAATCTT
11892856 AAATAAAAT-A
1 AAATAAAATAA
11892866 AAATAAAATAA
1 AAATAAAATAA
11892877 AAATAAAATA
1 AAATAAAATA
11892887 CAATTTATCC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (11 bp):
AAATAAAATAA
Found at i:11901183 original size:19 final size:19
Alignment explanation
Indices: 11901143--11901197 Score: 51
Period size: 19 Copynumber: 2.8 Consensus size: 19
11901133 ATGTAAAAGG
*
11901143 AAAAATGAAATAAAATAGA
1 AAAAATGAAATAAAATACA
*
11901162 AAAAATGAAA-AAAGATTCA
1 AAAAATGAAATAAA-ATACA
11901181 AAACAA-GAAAATAAAAT
1 AAA-AATG-AAATAAAAT
11901198 CCTCTCAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
18 3 0.10
19 17 0.57
20 7 0.23
21 3 0.10
ACGTcount: A:0.73, C:0.04, G:0.09, T:0.15
Consensus pattern (19 bp):
AAAAATGAAATAAAATACA
Found at i:11901395 original size:13 final size:13
Alignment explanation
Indices: 11901377--11901401 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11901367 TATTACATCG
11901377 TTTTTCTTTCTCC
1 TTTTTCTTTCTCC
11901390 TTTTTCTTTCTC
1 TTTTTCTTTCTC
11901402 ATTCCTGGTG
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:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTTCTTTCTCC
Found at i:11902259 original size:87 final size:87
Alignment explanation
Indices: 11902001--11902732 Score: 315
Period size: 87 Copynumber: 8.3 Consensus size: 87
11901991 ATCTACTCTA
* *
11902001 CTGTAACTTCAGAGAGATAAGATCTTTTATTTTAATCCGCTCCACTGTAATTTCAGGGAGATAGG
1 CTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGG
* *
11902066 GTTACTATCTTCAATCTGCTCCG
66 ATTA-TGTCTTCAATCTGCTCCG
* * ** *** ** *
11902089 CTGATATC-TCAGGGAGATAAGAT-CTGAAAGTCTTCGGTCTACTCCACTGTAACCTCAGGGAGA
1 CTG-TAACTTCAGAGAGATAAGATCCT-TTA-T-TTTAATCCGCTCCACTGTAACTTCAGGGAGA
* ** * * * *
11902152 TAAGA-CCTG-GTGCGATCTGCTCTG
62 TAGGATTATGTCTTCAATCTGCTCCG
*
11902176 CTGTAACTTCAGAGAAATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGG
1 CTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGG
11902241 ATTATGTCTTCAATCTGCTCCG
66 ATTATGTCTTCAATCTGCTCCG
* * * ** *** ** *
11902263 ATGTAACCTCAGGGAGATAAGAT-CTGAAAGTCTTCGGTCTACTCCACTGTAACCTCAGGGAGAT
1 CTGTAACTTCAGAGAGATAAGATCCT-TTA-T-TTTAATCCGCTCCACTGTAACTTCAGGGAGAT
* ** * * * **
11902327 AAGA-CCTG-GTGCGATCTGCTCTA
63 AGGATTATGTCTTCAATCTGCTCCG
* * * *
11902350 CTGTAACTTCAGAGAGATAAGATCCTTGGTTTTAATTTGATGCGATCTACTCTGCTGTAACTTCA
1 CTGTAACTTCAGAGAGATAAGATCC-----TTTATTTTAATCCG--CT-C-C-ACTGTAACTTCA
* * * * * *
11902415 GAGAGATAAGATCT-TTTATTTCAATCCGCTCCA
56 GGGAGATAGGAT-TATGT-CTTCAATCTGCTCCG
* * ** * * * * * * *
11902448 CTGTAACTTCAGGGAGATAGGATAGTGT-CTTTGATCTGCTCCGCTGCAA-TCTCAGGGAGATAA
1 CTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACT-TCAGGGAGATAG
* * *
11902511 GATCTCTGGCTTCAATCTGCTCCA
65 GAT-TATGTCTTCAATCTGCTCCG
* * ** ** ** * *
11902535 CTGTAACCTCAGGGAGATAAGAT-CTGAAATTCTTCGGTCTACTCCACTGTAACCTCAAGGAGAT
1 CTGTAACTTCAGAGAGATAAGATCCT-TTATT-TT-AATCCGCTCCACTGTAACTTCAGGGAGAT
* ** * * * * *
11902599 AAGA-CCTG-ATGCGATCTACTCTG
63 AGGATTATGTCTTCAATCTGCTCCG
* * *
11902622 CTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAACTTTAGGGAAATAGG
1 CTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGG
*
11902687 A-TAGTGTCTTTAATCTGCTCCG
66 ATTA-TGTCTTCAATCTGCTCCG
* *
11902709 CTGCAA-TCTCAGGGAGATAAGATC
1 CTGTAACT-TCAGAGAGATAAGATC
11902733 TCTGGCTTCA
Statistics
Matches: 472, Mismatches: 135, Indels: 75
0.69 0.20 0.11
Matches are distributed among these distances:
85 54 0.11
86 15 0.03
87 208 0.44
88 33 0.07
89 36 0.08
90 59 0.12
92 10 0.02
93 4 0.01
94 1 0.00
95 20 0.04
96 1 0.00
98 31 0.07
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.31
Consensus pattern (87 bp):
CTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGG
ATTATGTCTTCAATCTGCTCCG
Found at i:11902275 original size:43 final size:45
Alignment explanation
Indices: 11902215--11902760 Score: 173
Period size: 44 Copynumber: 12.3 Consensus size: 45
11902205 TTTTAATCCG
* * * *
11902215 CTCCACTGTAACTTCAGGGAGATAGGAT-T-ATGTCTTCAATCTG
1 CTCCACTGTAACCTCAGGGAGATAAGATCTAAAGTCTTCAATCTA
**
11902258 CTCCGA-TGTAACCTCAGGGAGATAAGATCTGAAAGTCTTCGGTCTA
1 CTCC-ACTGTAACCTCAGGGAGATAAGATCT-AAAGTCTTCAATCTA
* * * * *
11902304 CTCCACTGTAACCTCAGGGAGATAAGACCT---G-GTGCGATCTG
1 CTCCACTGTAACCTCAGGGAGATAAGATCTAAAGTCTTCAATCTA
* * * * * *
11902345 CTCTACTGTAACTTCAGAGAGATAAGATCCTTGGTTTTAA-TTTGATGCGATCTA
1 CTCCACTGTAACCTCAGGGAGATAAGAT-C------TAAAGTCT--T-CAATCTA
** * * ** **
11902399 CTCTGCTGTAACTTCAGAGAGATAAGATCTTTTA-T-TTCAATCCG
1 CTCCACTGTAACCTCAGGGAGATAAGATC-TAAAGTCTTCAATCTA
* * ** ** *
11902443 CTCCACTGTAACTTCAGGGAGATAGGA--TAGTGTCTTTGATCTG
1 CTCCACTGTAACCTCAGGGAGATAAGATCTAAAGTCTTCAATCTA
* * * ** * *
11902486 CTCCGCTGCAATCTCAGGGAGATAAGATCT-CTGGCTTCAATCTG
1 CTCCACTGTAACCTCAGGGAGATAAGATCTAAAGTCTTCAATCTA
* **
11902530 CTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTA
1 CTCCACTGTAACCTCAGGGAGATAAGATCT-AAAGTCTTCAATCTA
* * * * *
11902576 CTCCACTGTAACCTCAAGGAGATAAGACCT---G-ATGCGATCTA
1 CTCCACTGTAACCTCAGGGAGATAAGATCTAAAGTCTTCAATCTA
** * * ** * *
11902617 CTCTGCTGTAACTTCAGAGAGATAAGATCCTTTA-T-TTTAATCCA
1 CTCCACTGTAACCTCAGGGAGATAAGAT-CTAAAGTCTTCAATCTA
* * * * ** * *
11902661 CTCCACTGTAACTTTAGGGAAATAGGA--TAGTGTCTTTAATCTG
1 CTCCACTGTAACCTCAGGGAGATAAGATCTAAAGTCTTCAATCTA
* * * ** *
11902704 CTCCGCTGCAATCTCAGGGAGATAAGATCT-CTGGCTTCAATCTA
1 CTCCACTGTAACCTCAGGGAGATAAGATCTAAAGTCTTCAATCTA
*
11902748 CTCCACTGCAACC
1 CTCCACTGTAACC
11902761 GATGGATGCA
Statistics
Matches: 377, Mismatches: 92, Indels: 67
0.70 0.17 0.12
Matches are distributed among these distances:
41 61 0.16
42 6 0.02
43 79 0.21
44 113 0.30
45 4 0.01
46 72 0.19
47 1 0.00
48 6 0.02
51 1 0.00
53 1 0.00
54 33 0.09
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (45 bp):
CTCCACTGTAACCTCAGGGAGATAAGATCTAAAGTCTTCAATCTA
Found at i:11902315 original size:174 final size:175
Alignment explanation
Indices: 11901990--11902385 Score: 670
Period size: 174 Copynumber: 2.3 Consensus size: 175
11901980 AATGTGATGT
* * *
11901990 GATCTACTCTACTGTAACTTCAGAGAGATAAGATCTTTTATTTTAATCCGCTCCACTGTAATTTC
1 GATCTGCTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTC
* * *
11902055 AGGGAGATAGGGTTACTATCTTCAATCTGCTCCGCTGATATCTCAGGGAGATAAGATCTGAAAGT
66 AGGGAGATAGGATTACTATCTTCAATCTGCTCCGATGATACCTCAGGGAGATAAGATCTGAAAGT
11902120 CTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGGTGC
131 CTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGGTGC
* *
11902165 GATCTGCTCTGCTGTAACTTCAGAGAAATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTC
1 GATCTGCTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTC
*
11902230 AGGGAGATAGGATTA-TGTCTTCAATCTGCTCCGATG-TAACCTCAGGGAGATAAGATCTGAAAG
66 AGGGAGATAGGATTACTATCTTCAATCTGCTCCGATGAT-ACCTCAGGGAGATAAGATCTGAAAG
11902293 TCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGGTGC
130 TCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGGTGC
**
11902339 GATCTGCTCTACTGTAACTTCAGAGAGATAAGATCCTTGGTTTTAAT
1 GATCTGCTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAAT
11902386 TTGATGCGAT
Statistics
Matches: 207, Mismatches: 13, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
173 1 0.00
174 132 0.64
175 74 0.36
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (175 bp):
GATCTGCTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTC
AGGGAGATAGGATTACTATCTTCAATCTGCTCCGATGATACCTCAGGGAGATAAGATCTGAAAGT
CTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGGTGC
Found at i:11902674 original size:44 final size:44
Alignment explanation
Indices: 11901991--11902674 Score: 206
Period size: 44 Copynumber: 15.4 Consensus size: 44
11901981 ATGTGATGTG
* * *
11901991 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCTTTTATTTTA
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCCTTTATTTCA
** * * * * *
11902035 ATCCGCTCCACTGTAATTTCAGGGAGATAGGGT--TACTATCTTCA
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCCT-TTAT-TTCA
* * * * ** *
11902079 ATCTGCTCCGCTGATATC-TCAGGGAGATAAGAT-CTGAAAGTCTTCG
1 ATCTACTCCACTG-TAACTTCAGAGAGATAAGATCCT-TTA-T-TTCA
* * * ** * *
11902125 GTCTACTCCACTGTAACCTCAGGGAGATAAGA-CC--TGGTGCG
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCCTTTATTTCA
* ** * *
11902166 ATCTGCTCTGCTGTAACTTCAGAGAAATAAGATCCTTTATTTTA
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCCTTTATTTCA
** * * * *
11902210 ATCCGCTCCACTGTAACTTCAGGGAGATAGGAT--TATGTCTTCA
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCCTTTAT-TTCA
* * * ** *
11902253 ATCTGCTCCGA-TGTAACCTCAGGGAGATAAGAT-CTGAAAGTCTTCG
1 ATCTACTCC-ACTGTAACTTCAGAGAGATAAGATCCT-TTA-T-TTCA
* * * ** * *
11902299 GTCTACTCCACTGTAACCTCAGGGAGATAAGA-CC--TGGTGCG
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCCTTTATTTCA
* * *
11902340 ATCTGCTCTACTGTAACTTCAGAGAGATAAGATCCTTGGTTTTAATTTGATGCG
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCC-----TTT-A-TT--T-CA
** *
11902394 ATCTACTCTGCTGTAACTTCAGAGAGATAAGATCTTTTATTTCA
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCCTTTATTTCA
** * * ** * * *
11902438 ATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTT-G
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCCTTTATTTCA
* * * * ***
11902481 ATCTGCTCCGCTGCAA-TCTCAGGGAGATAAGAT-CTCTGGCTTCA
1 ATCTACTCCACTGTAACT-TCAGAGAGATAAGATCCT-TTATTTCA
* * * ** *
11902525 ATCTGCTCCACTGTAACCTCAGGGAGATAAGAT-CTGAAATTCTTCG
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCCT-TTA-T-TTCA
* * * * *
11902571 GTCTACTCCACTGTAACCTCA-AGGAGATAAGA-CC-TGA-TGCG
1 ATCTACTCCACTGTAACTTCAGA-GAGATAAGATCCTTTATTTCA
** *
11902612 ATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTA
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCCTTTATTTCA
*
11902656 ATCCACTCCACTGTAACTT
1 ATCTACTCCACTGTAACTT
11902675 TAGGGAAATA
Statistics
Matches: 479, Mismatches: 119, Indels: 84
0.70 0.17 0.12
Matches are distributed among these distances:
41 87 0.18
42 13 0.03
43 65 0.14
44 166 0.35
45 10 0.02
46 96 0.20
47 2 0.00
48 1 0.00
49 4 0.01
51 1 0.00
54 34 0.07
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (44 bp):
ATCTACTCCACTGTAACTTCAGAGAGATAAGATCCTTTATTTCA
Found at i:11902988 original size:44 final size:44
Alignment explanation
Indices: 11902852--11903018 Score: 124
Period size: 45 Copynumber: 3.8 Consensus size: 44
11902842 CAACCGAGAG
* *
11902852 AGGCAAGGTTTGTGTCTTCGACCTGCTTCACTGTCAATGCAGGA
1 AGGCAAGGTTTGTGTCTTCAACCTGCTTCACTGTCAATGAAGGA
* * * ** * *
11902896 AGGCAAGATCTTTTGTCTTCAACCAGC-TCTA-TCACAACCGAAAG-
1 AGGCAAGGT-TTGTGTCTTCAACCTGCTTC-ACTGTCAA-TGAAGGA
* * *
11902940 AGGCAAGGTTTGTGTCTTCAATCTGCTTCGCTGTCAATGTAGGA
1 AGGCAAGGTTTGTGTCTTCAACCTGCTTCACTGTCAATGAAGGA
* * * * *
11902984 AGGCAAGATCTTTTGTCTTTAACCAGCTCCACTGT
1 AGGCAAGGT-TTGTGTCTTCAACCTGCTTCACTGT
11903019 AACCAATGAA
Statistics
Matches: 90, Mismatches: 26, Indels: 13
0.70 0.20 0.10
Matches are distributed among these distances:
43 17 0.19
44 36 0.40
45 37 0.41
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.31
Consensus pattern (44 bp):
AGGCAAGGTTTGTGTCTTCAACCTGCTTCACTGTCAATGAAGGA
Found at i:11903075 original size:42 final size:42
Alignment explanation
Indices: 11903026--11903160 Score: 139
Period size: 42 Copynumber: 3.2 Consensus size: 42
11903016 TGTAACCAAT
*
11903026 GAAGGCAAAGCTTGTTTTCGATCTGCTTCGCTGTTAACGCAG
1 GAAGGCAAAGCTTGTTTTCGATCTGCTTCACTGTTAACGCAG
* ** ** * * * *
11903068 GAAGGCAAGATCTACTTCTTTAACCAGCTCCACTG-TAAC-CAAT
1 GAAGGCAA-AGCTTGTT-TTCGATCTGCTTCACTGTTAACGC-AG
11903111 GAAGGCAAAGCTTGTTTTCGATCTGCTTCACTGTTAACGCAG
1 GAAGGCAAAGCTTGTTTTCGATCTGCTTCACTGTTAACGCAG
11903153 GAAGGCAA
1 GAAGGCAA
11903161 GATCTGCTGT
Statistics
Matches: 69, Mismatches: 19, Indels: 10
0.70 0.19 0.10
Matches are distributed among these distances:
41 12 0.17
42 27 0.39
43 19 0.28
44 11 0.16
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.27
Consensus pattern (42 bp):
GAAGGCAAAGCTTGTTTTCGATCTGCTTCACTGTTAACGCAG
Found at i:11903099 original size:85 final size:86
Alignment explanation
Indices: 11902748--11903173 Score: 475
Period size: 88 Copynumber: 4.9 Consensus size: 86
11902738 CTTCAATCTA
* * * *
11902748 CTCCACTGCAACCGATGGATGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGTAGGAAGGC
1 CTCCACTGCAACCAATGAAGGCAAGGC-TTGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGC
*
11902813 AAGATCTGCT-TCTTTAACCAG
65 AAGATCTTCTGTCTTTAACCAG
* * * * * *
11902834 CTCCACTACAACCGA-GAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCACTGTCAATGCAGGAAG
1 CTCCACTGCAACCAATGA-AGGCAAGGCTTGT-T-TTCGATCTGCTTCGCTGTTAATGCAGGAAG
* *
11902898 GCAAGATCTTTTGTCTTCAACCAG
63 GCAAGATCTTCTGTCTTTAACCAG
* * * * * * *
11902922 CTCTA-TCACAACCGAAAG-AGGCAAGGTTTGTGTCTTCAATCTGCTTCGCTGTCAATGTAGGAA
1 CTCCACT-GCAACC-AATGAAGGCAAGGCTTGT-T-TTCGATCTGCTTCGCTGTTAATGCAGGAA
*
11902985 GGCAAGATCTTTTGTCTTTAACCAG
62 GGCAAGATCTTCTGTCTTTAACCAG
* * *
11903010 CTCCACTGTAACCAATGAAGGCAAAGCTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCA
1 CTCCACTGCAACCAATGAAGGCAAGGCTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCA
*
11903075 AGATCTACT-TCTTTAACCAG
66 AGATCTTCTGTCTTTAACCAG
* * * *
11903095 CTCCACTGTAACCAATGAAGGCAAAGCTTGTTTTCGATCTGCTTCACTGTTAACGCAGGAAGGCA
1 CTCCACTGCAACCAATGAAGGCAAGGCTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCA
*
11903160 AGATCTGCTGTCTT
66 AGATCTTCTGTCTT
11903174 CACTGATCTG
Statistics
Matches: 298, Mismatches: 32, Indels: 20
0.85 0.09 0.06
Matches are distributed among these distances:
85 88 0.30
86 62 0.21
87 41 0.14
88 104 0.35
89 2 0.01
90 1 0.00
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (86 bp):
CTCCACTGCAACCAATGAAGGCAAGGCTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCA
AGATCTTCTGTCTTTAACCAG
Found at i:11907932 original size:19 final size:20
Alignment explanation
Indices: 11907903--11907951 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
11907893 CACTTCGTGA
* *
11907903 AAATCTAATGCATATG-ATG
1 AAATGTAATGCAGATGCATG
*
11907922 CAATGTAATGCAGATGCATG
1 AAATGTAATGCAGATGCATG
11907942 AAATG-AATGC
1 AAATGTAATGC
11907952 CTAAAGAGAC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.41, C:0.12, G:0.20, T:0.27
Consensus pattern (20 bp):
AAATGTAATGCAGATGCATG
Found at i:11912395 original size:88 final size:88
Alignment explanation
Indices: 11912081--11912658 Score: 660
Period size: 88 Copynumber: 6.6 Consensus size: 88
11912071 CCCCAGAAAA
* * * * ** *
11912081 CAGATCAAAGAAACAGATCCTTGCCTCTATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCT
1 CAGATCGAAGACACA-AACCTTGCCTCTCTCGGTTGTAGCAGAGCTGGTTAAAGACAGCAGATCT
* * *
11912146 TGCCTTCCTACATTAATAGCGAAG
65 TGCCTTCCTGCATTGACAGCGAAG
* * *
11912170 CAGATCGAAAACA-AAACCTTGCCTCTCTCAGTTGTAGCAGAGCTGGTTAAAGATAGCAGATCTT
1 CAGATCGAAGACACAAACCTTGCCTCTCTCGGTTGTAGCAGAGCTGGTTAAAGACAGCAGATCTT
* * *
11912234 GCATTCCTGCGTTAACAGCGAAG
66 GCCTTCCTGCATTGACAGCGAAG
* * * * *
11912257 CAGATCGAAAACA-AAACCTTACCTCTCTCGGTTGTAGCAGAGCTGTTTGAAGACAACAGATCTT
1 CAGATCGAAGACACAAACCTTGCCTCTCTCGGTTGTAGCAGAGCTGGTTAAAGACAGCAGATCTT
**
11912321 GCCTTCCTGCCCTGACAGCGAAG
66 GCCTTCCTGCATTGACAGCGAAG
*
11912344 CAGATCGAAGACACAAACCTTGCCTCTCTCGGTTGTAGCAGAGCTGGTTGAAGACAGCAGATCTT
1 CAGATCGAAGACACAAACCTTGCCTCTCTCGGTTGTAGCAGAGCTGGTTAAAGACAGCAGATCTT
* *
11912409 GCCTTCTTGCATTGACAGTGAAG
66 GCCTTCCTGCATTGACAGCGAAG
* * * * * **
11912432 TAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTGTAGTAGAGCTGGTTGAGGACAATAGATCTT
1 CAGATCGAAGACACAAACCTTGCCTCTCTCGGTTGTAGCAGAGCTGGTTAAAGACAGCAGATCTT
* *
11912497 GCCTTCCTACATTGACAGAGAA-
66 GCCTTCCTGCATTGACAGCGAAG
* * * * * ** * *
11912519 CAGATCAAAGAAATAGAAAACATTGCCTC-CATCGGTTGCAGTGGAGCTGGTCAAAGATAGCAGA
1 CAGATCGAAG--ACA-CAAACCTTGCCTCTC-TCGGTTGTAGCAGAGCTGGTTAAAGACAGCAGA
11912583 TCTTGCCTTCCTGCATTGACAGCGAAG
62 TCTTGCCTTCCTGCATTGACAGCGAAG
* * *
11912610 TAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTGTAGCGGAGCTGGTT
1 CAGATCGAAGACACAAACCTTGCCTCTCTCGGTTGTAGCAGAGCTGGTT
11912659 NNNNNNNNNN
Statistics
Matches: 418, Mismatches: 64, Indels: 15
0.84 0.13 0.03
Matches are distributed among these distances:
87 160 0.38
88 175 0.42
89 16 0.04
90 60 0.14
91 7 0.02
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.25
Consensus pattern (88 bp):
CAGATCGAAGACACAAACCTTGCCTCTCTCGGTTGTAGCAGAGCTGGTTAAAGACAGCAGATCTT
GCCTTCCTGCATTGACAGCGAAG
Found at i:11912410 original size:44 final size:43
Alignment explanation
Indices: 11912278--11912500 Score: 136
Period size: 44 Copynumber: 5.1 Consensus size: 43
11912268 CAAAACCTTA
*
11912278 CCTCTCTCGGTTGTAGCAGAGCTGTTTGAAGACAACAGATCTTG
1 CCTCTCTCGGTTGTAGCAGAGCTGGTTGAAGAC-ACAGATCTTG
** * * * * * *
11912322 CCT-TC-CTGCCCTGACAGC-GAAGCAGATCGAAGACACAAACCTTG
1 CCTCTCTC-G-GTTG-TAGCAG-AGCTGGTTGAAGACACAGATCTTG
11912366 CCTCTCTCGGTTGTAGCAGAGCTGGTTGAAGACAGCAGATCTTG
1 CCTCTCTCGGTTGTAGCAGAGCTGGTTGAAGACA-CAGATCTTG
* * * * *
11912410 CCT-TCTTGCATTG-A-CAGTGAAG-TAGGTCGAAGACACAAACCTTG
1 CCTCTCTCG-GTTGTAGCA--G-AGCT-GGTTGAAGACACAGATCTTG
* * *
11912454 CCTCTCTCGGTTGTAGTAGAGCTGGTTGAGGACAATAGATCTTG
1 CCTCTCTCGGTTGTAGCAGAGCTGGTTGAAGAC-ACAGATCTTG
11912498 CCT
1 CCT
11912501 TCCTACATTG
Statistics
Matches: 132, Mismatches: 29, Indels: 36
0.67 0.15 0.18
Matches are distributed among these distances:
42 3 0.02
43 33 0.25
44 60 0.45
45 34 0.26
46 2 0.02
ACGTcount: A:0.24, C:0.25, G:0.25, T:0.26
Consensus pattern (43 bp):
CCTCTCTCGGTTGTAGCAGAGCTGGTTGAAGACACAGATCTTG
Found at i:11912600 original size:178 final size:176
Alignment explanation
Indices: 11912099--11912658 Score: 700
Period size: 178 Copynumber: 3.2 Consensus size: 176
11912089 AGAAACAGAT
* ** * * * * *
11912099 CCTTGCCTCTATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTACATTAATA
1 CCTTGCCTCTCTCGGTTGTAGCAGAGCTGGTTGAAGACAACAGATCTTGCCTTCCTACATTGACA
*
11912164 GCGAAGCAGATC--GAAAACAAAACCTTGCCTCTCTCAGTTGTAGCAGAGCTGGTTAAAGATAGC
66 GCGAAGCAGATCAAGAAAA-AAAACCTTGCCTCTCTCGGTTGTAGCAGAGCTGGTTAAAGATAGC
* * * * * *
11912227 AGATCTTGCATTCCTGCGTTAACAGCGAAGCAGATCGAAAACA-AAA
130 AGATCTTGCCTTCCTGCATTGACAGCGAAGTAGGTCGAAGACACAAA
* * * **
11912273 CCTTACCTCTCTCGGTTGTAGCAGAGCTGTTTGAAGACAACAGATCTTGCCTTCCTGCCCTGACA
1 CCTTGCCTCTCTCGGTTGTAGCAGAGCTGGTTGAAGACAACAGATCTTGCCTTCCTACATTGACA
* * * *
11912338 GCGAAGCAGATCGAAG-ACACAAACCTTGCCTCTCTCGGTTGTAGCAGAGCTGGTTGAAGACAGC
66 GCGAAGCAGATC-AAGAAAAAAAACCTTGCCTCTCTCGGTTGTAGCAGAGCTGGTTAAAGATAGC
* *
11912402 AGATCTTGCCTTCTTGCATTGACAGTGAAGTAGGTCGAAGACACAAA
130 AGATCTTGCCTTCCTGCATTGACAGCGAAGTAGGTCGAAGACACAAA
* * *
11912449 CCTTGCCTCTCTCGGTTGTAGTAGAGCTGGTTGAGGACAATAGATCTTGCCTTCCTACATTGACA
1 CCTTGCCTCTCTCGGTTGTAGCAGAGCTGGTTGAAGACAACAGATCTTGCCTTCCTACATTGACA
* * * ** *
11912514 GAGAA-CAGATCAAAGAAATAGAAAACATTGCCTC-CATCGGTTGCAGTGGAGCTGGTCAAAGAT
66 GCGAAGCAGATC-AAGAAA-A-AAAACCTTGCCTCTC-TCGGTTGTAGCAGAGCTGGTTAAAGAT
11912577 AGCAGATCTTGCCTTCCTGCATTGACAGCGAAGTAGGTCGAAGACACAAA
127 AGCAGATCTTGCCTTCCTGCATTGACAGCGAAGTAGGTCGAAGACACAAA
*
11912627 CCTTGCCTCTCTCGGTTGTAGCGGAGCTGGTT
1 CCTTGCCTCTCTCGGTTGTAGCAGAGCTGGTT
11912659 NNNNNNNNNN
Statistics
Matches: 329, Mismatches: 49, Indels: 12
0.84 0.13 0.03
Matches are distributed among these distances:
174 64 0.19
175 85 0.26
176 67 0.20
177 3 0.01
178 110 0.33
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.25
Consensus pattern (176 bp):
CCTTGCCTCTCTCGGTTGTAGCAGAGCTGGTTGAAGACAACAGATCTTGCCTTCCTACATTGACA
GCGAAGCAGATCAAGAAAAAAAACCTTGCCTCTCTCGGTTGTAGCAGAGCTGGTTAAAGATAGCA
GATCTTGCCTTCCTGCATTGACAGCGAAGTAGGTCGAAGACACAAA
Found at i:11931587 original size:172 final size:172
Alignment explanation
Indices: 11931295--11931629 Score: 580
Period size: 172 Copynumber: 1.9 Consensus size: 172
11931285 GACTCGATGG
* ** *
11931295 ATGTAACATCCTAAACCTGGCCTAGACGGAAAACTATGTTTAGAATGTTACATTGTCTTACCAAA
1 ATGTAACACCCTAAACCCAGCCTAGACGGAAAACTAAGTTTAGAATGTTACATTGTCTTACCAAA
11931360 ACCCAGTCATACTTAACCATTGTTAAATTATAAAACAACCAATATCCAAAATATAGTCATGTCAT
66 ACCCAGTCATACTTAACCATTGTTAAATTATAAAACAACCAATATCCAAAATATAGTCATGTCAT
* *
11931425 ACAAGTTTAAATAATACAAACTAATCATAGGTTTAACACTAA
131 ACAAGTTTAAACAATACAAACTAAACATAGGTTTAACACTAA
* *
11931467 ATGTAACACCCTAAACCCAGCCTAGATGGAAAACTAAGTTTAGAATGTTACATTGTCTTACCAGA
1 ATGTAACACCCTAAACCCAGCCTAGACGGAAAACTAAGTTTAGAATGTTACATTGTCTTACCAAA
*
11931532 ACCCAGTCATACTTAACCATTGTTAAATTATAAAACAACCAATATCCAGAATATAGTCATGTCAT
66 ACCCAGTCATACTTAACCATTGTTAAATTATAAAACAACCAATATCCAAAATATAGTCATGTCAT
*
11931597 ACAAGTTTAAACAATACGAACTAAACATAGGTT
131 ACAAGTTTAAACAATACAAACTAAACATAGGTT
11931630 CACACACATT
Statistics
Matches: 153, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
172 153 1.00
ACGTcount: A:0.41, C:0.20, G:0.11, T:0.28
Consensus pattern (172 bp):
ATGTAACACCCTAAACCCAGCCTAGACGGAAAACTAAGTTTAGAATGTTACATTGTCTTACCAAA
ACCCAGTCATACTTAACCATTGTTAAATTATAAAACAACCAATATCCAAAATATAGTCATGTCAT
ACAAGTTTAAACAATACAAACTAAACATAGGTTTAACACTAA
Found at i:11934564 original size:51 final size:50
Alignment explanation
Indices: 11934502--11934688 Score: 214
Period size: 51 Copynumber: 3.7 Consensus size: 50
11934492 TTGGTTCACA
11934502 TAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATCCGATACATG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCA-TACCATCCGATACATG
* * * * * ***
11934553 TAGTAGTCTGCACATAGTACTACACATGTGATCGAAACTATCCAATACGCA
1 TAGTAGCCTGCACATAGTACTACACATGTGA-CCATACCATCCGATACATG
** * *
11934604 TAGTAGCCTGCACATAGTACTACACATACGACC-TATCATTCCGGTACATG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATACCA-TCCGATACATG
* *
11934654 TAGTAGCCTACACATAGTACTAAACATGTGACCAT
1 TAGTAGCCTGCACATAGTACTACACATGTGACCAT
11934689 CACTTTCACT
Statistics
Matches: 109, Mismatches: 24, Indels: 6
0.78 0.17 0.04
Matches are distributed among these distances:
49 2 0.02
50 36 0.33
51 69 0.63
52 2 0.02
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACATGTGACCATACCATCCGATACATG
Found at i:11934681 original size:101 final size:101
Alignment explanation
Indices: 11934500--11934684 Score: 282
Period size: 101 Copynumber: 1.8 Consensus size: 101
11934490 GTTTGGTTCA
** * *
11934500 CATAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATCCGATACATGTAGTAGTCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATACGACCA-TACCATCCGATACATGTAGTAGCCTACA
*
11934565 CATAGTACTACACATGTGATCGAAACTATCCAATACG
65 CATAGTACTAAACATGTGATCGAAACTATCCAATACG
* *
11934602 CATAGTAGCCTGCACATAGTACTACACATACGACC-TATCATTCCGGTACATGTAGTAGCCTACA
1 CATAGTAGCCTGCACATAGTACTACACATACGACCATACCA-TCCGATACATGTAGTAGCCTACA
11934666 CATAGTACTAAACATGTGA
65 CATAGTACTAAACATGTGA
11934685 CCATCACTTT
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
100 4 0.05
101 38 0.51
102 33 0.44
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACACATACGACCATACCATCCGATACATGTAGTAGCCTACAC
ATAGTACTAAACATGTGATCGAAACTATCCAATACG
Found at i:11937091 original size:55 final size:55
Alignment explanation
Indices: 11937025--11937130 Score: 203
Period size: 55 Copynumber: 1.9 Consensus size: 55
11937015 GGCACTAAGT
11937025 GTGCGAAACTAAAATATCGATGTTGAATAACGGGCACTAAGTGTGCGAAACTTTA
1 GTGCGAAACTAAAATATCGATGTTGAATAACGGGCACTAAGTGTGCGAAACTTTA
*
11937080 GTGCGAAACTAAAATATCGATGTTGAATAACGGGTACTAAGTGTGCGAAAC
1 GTGCGAAACTAAAATATCGATGTTGAATAACGGGCACTAAGTGTGCGAAAC
11937131 AAAAATGACG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 50 1.00
ACGTcount: A:0.37, C:0.14, G:0.25, T:0.25
Consensus pattern (55 bp):
GTGCGAAACTAAAATATCGATGTTGAATAACGGGCACTAAGTGTGCGAAACTTTA
Found at i:11937143 original size:42 final size:42
Alignment explanation
Indices: 11937080--11937169 Score: 128
Period size: 42 Copynumber: 2.1 Consensus size: 42
11937070 CGAAACTTTA
* ** *
11937080 GTGCGAAACTAAAATATCGATGTTGAATAACGGGTACTAAGT
1 GTGCGAAACAAAAATATCGATGTCAAATAACGGGAACTAAGT
11937122 GTGCGAAACAAAAATGA-CGATGTCAAATAACGGGAACTAAGT
1 GTGCGAAACAAAAAT-ATCGATGTCAAATAACGGGAACTAAGT
11937164 GTGCGA
1 GTGCGA
11937170 TACCAAGATC
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
42 42 0.98
43 1 0.02
ACGTcount: A:0.40, C:0.13, G:0.26, T:0.21
Consensus pattern (42 bp):
GTGCGAAACAAAAATATCGATGTCAAATAACGGGAACTAAGT
Found at i:11947704 original size:6 final size:6
Alignment explanation
Indices: 11947695--11947742 Score: 69
Period size: 6 Copynumber: 8.0 Consensus size: 6
11947685 CATGCGCATG
* * *
11947695 AAAATA AAAATA AAAATA AAAATA AAAATA ATAATA ATAATA ATAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
11947743 CAAGATTAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (6 bp):
AAAATA
Found at i:11947933 original size:15 final size:16
Alignment explanation
Indices: 11947915--11947947 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
11947905 AAATGTAAAC
11947915 AAATTTGAAAAT-AAT
1 AAATTTGAAAATGAAT
11947930 AAATTTGAAAATGAAT
1 AAATTTGAAAATGAAT
11947946 AA
1 AA
11947948 TAAGGGAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.61, C:0.00, G:0.09, T:0.30
Consensus pattern (16 bp):
AAATTTGAAAATGAAT
Found at i:11951656 original size:61 final size:62
Alignment explanation
Indices: 11951580--11951742 Score: 210
Period size: 61 Copynumber: 2.6 Consensus size: 62
11951570 TTGTTATTAA
*
11951580 ATTTTAATA-AGATTATTATTAAATGTAATTTAATAAAAATAAAAATAAATAATTTAAT-CAT
1 ATTTTAATATA-ATTATTATTAAATATAATTTAATAAAAATAAAAATAAATAATTTAATACAT
* * *
11951641 ATTTTAATATAATTATTATTAAATATAATTTAAT-AAAACAATAATATATAATTTAATAACAT
1 ATTTTAATATAATTATTATTAAATATAATTTAATAAAAATAAAAATAAATAATTTAAT-ACAT
*
11951703 -TTTTAATATAATTATTATAAAAATATGAA-TTAATAAAAAT
1 ATTTTAATATAATTATTAT-TAAATAT-AATTTAATAAAAAT
11951743 CATAACATAA
Statistics
Matches: 90, Mismatches: 6, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
60 20 0.22
61 49 0.54
62 15 0.17
63 6 0.07
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (62 bp):
ATTTTAATATAATTATTATTAAATATAATTTAATAAAAATAAAAATAAATAATTTAATACAT
Found at i:11955152 original size:35 final size:36
Alignment explanation
Indices: 11955081--11955152 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
11955071 ATTTAATACA
11955081 TAAATATATTTTATAGTAAATTTATTATGGAAGTCT
1 TAAATATATTTTATAGTAAATTTATTATGGAAGTCT
11955117 TAAATATATTTTATAGTAAATTTA-TATGGAAGTCT
1 TAAATATATTTTATAGTAAATTTATTATGGAAGTCT
11955152 T
1 T
11955153 TGTATCAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 12 0.33
36 24 0.67
ACGTcount: A:0.39, C:0.03, G:0.11, T:0.47
Consensus pattern (36 bp):
TAAATATATTTTATAGTAAATTTATTATGGAAGTCT
Found at i:11964281 original size:16 final size:17
Alignment explanation
Indices: 11964260--11964297 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
11964250 GTTGGAAAAT
*
11964260 AATTT-TAAAATATAAA
1 AATTTATAAAATAGAAA
11964276 AATTTTATAAAATAGAAA
1 AA-TTTATAAAATAGAAA
11964294 AATT
1 AATT
11964298 GGTCTTCTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 2 0.11
17 5 0.26
18 12 0.63
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (17 bp):
AATTTATAAAATAGAAA
Found at i:11975203 original size:5 final size:5
Alignment explanation
Indices: 11975195--11975220 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
11975185 GTAAACTAAA
11975195 CGCAC CGCAC CGCAC CGCAC CGCAC C
1 CGCAC CGCAC CGCAC CGCAC CGCAC C
11975221 CAATCGCCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.62, G:0.19, T:0.00
Consensus pattern (5 bp):
CGCAC
Found at i:11977529 original size:3 final size:3
Alignment explanation
Indices: 11977523--11977557 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
11977513 CTACTACTAC
11977523 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
11977558 AAAACTAGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:11979135 original size:41 final size:41
Alignment explanation
Indices: 11979082--11979175 Score: 143
Period size: 41 Copynumber: 2.3 Consensus size: 41
11979072 CGAATCTATG
11979082 AAAGGTTGAAAAGAAAGTTATCCGAAAAAGATAACAAATGA
1 AAAGGTTGAAAAGAAAGTTATCCGAAAAAGATAACAAATGA
* * * * *
11979123 AAATGTTGAAAAGGATGTTATTCGAAAAGGATAACAAATGA
1 AAAGGTTGAAAAGAAAGTTATCCGAAAAAGATAACAAATGA
11979164 AAAGGTTGAAAA
1 AAAGGTTGAAAA
11979176 TATATCAATG
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 47 1.00
ACGTcount: A:0.53, C:0.05, G:0.21, T:0.20
Consensus pattern (41 bp):
AAAGGTTGAAAAGAAAGTTATCCGAAAAAGATAACAAATGA
Found at i:11979209 original size:24 final size:24
Alignment explanation
Indices: 11979144--11979240 Score: 115
Period size: 24 Copynumber: 4.0 Consensus size: 24
11979134 AGGATGTTAT
*
11979144 TCGAAAAGGATAACAAATGAAAAGG
1 TCGAAAAGGATATC-AATGAAAAGG
* * *
11979169 TTGAAAA-TATATCAATGAAAAGA
1 TCGAAAAGGATATCAATGAAAAGG
11979192 TCGAAAAGGATATCAATGAAAAGG
1 TCGAAAAGGATATCAATGAAAAGG
* * *
11979216 TTGAAAAGAATAGCAATGAAAAGG
1 TCGAAAAGGATATCAATGAAAAGG
11979240 T
1 T
11979241 TGGTATCTCA
Statistics
Matches: 61, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
23 15 0.25
24 40 0.66
25 6 0.10
ACGTcount: A:0.54, C:0.06, G:0.22, T:0.19
Consensus pattern (24 bp):
TCGAAAAGGATATCAATGAAAAGG
Found at i:11979217 original size:47 final size:49
Alignment explanation
Indices: 11979144--11979238 Score: 149
Period size: 48 Copynumber: 2.0 Consensus size: 49
11979134 AGGATGTTAT
* *
11979144 TCGAAAAGGATAACAAATGAAAAGGTTGAAAA-TATATCAATGAAAAGA
1 TCGAAAAGGATAACAAATGAAAAGGTTGAAAAGAATAGCAATGAAAAGA
*
11979192 TCGAAAAGGATATC-AATGAAAAGGTTGAAAAGAATAGCAATGAAAAG
1 TCGAAAAGGATAACAAATGAAAAGGTTGAAAAGAATAGCAATGAAAAG
11979239 GTTGGTATCT
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
47 17 0.40
48 26 0.60
ACGTcount: A:0.55, C:0.06, G:0.21, T:0.18
Consensus pattern (49 bp):
TCGAAAAGGATAACAAATGAAAAGGTTGAAAAGAATAGCAATGAAAAGA
Found at i:11979241 original size:24 final size:24
Alignment explanation
Indices: 11979159--11979242 Score: 116
Period size: 24 Copynumber: 3.5 Consensus size: 24
11979149 AAGGATAACA
*
11979159 AATGAAAAGGTTGAAAA-TATATC
1 AATGAAAAGGTTGAAAAGAATATC
* * *
11979182 AATGAAAAGATCGAAAAGGATATC
1 AATGAAAAGGTTGAAAAGAATATC
*
11979206 AATGAAAAGGTTGAAAAGAATAGC
1 AATGAAAAGGTTGAAAAGAATATC
11979230 AATGAAAAGGTTG
1 AATGAAAAGGTTG
11979243 GTATCTCATC
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
23 15 0.28
24 38 0.72
ACGTcount: A:0.52, C:0.05, G:0.23, T:0.20
Consensus pattern (24 bp):
AATGAAAAGGTTGAAAAGAATATC
Found at i:11980868 original size:42 final size:42
Alignment explanation
Indices: 11980789--11980870 Score: 101
Period size: 42 Copynumber: 2.0 Consensus size: 42
11980779 ATCAAATGCA
* * * *
11980789 CACACGGGTTGGCACACGGTCGTGTAACCCTATTTCGAATAC
1 CACACGGGCTGGCACACGATCGTGTAACCATACTTCGAATAC
* **
11980831 CACACGGGCTGGGACACGATCGTGTGTCCATACTTCGAAT
1 CACACGGGCTGGCACACGATCGTGTAACCATACTTCGAAT
11980871 GTCCACAGGG
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.23, C:0.28, G:0.26, T:0.23
Consensus pattern (42 bp):
CACACGGGCTGGCACACGATCGTGTAACCATACTTCGAATAC
Found at i:11981082 original size:21 final size:21
Alignment explanation
Indices: 11981056--11981100 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
11981046 TGAATGTTAG
11981056 TATTTAATTTGAATATTTGTT
1 TATTTAATTTGAATATTTGTT
11981077 TATTTAATTTGAATATTTGTT
1 TATTTAATTTGAATATTTGTT
11981098 TAT
1 TAT
11981101 GTTTGAAGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.29, C:0.00, G:0.09, T:0.62
Consensus pattern (21 bp):
TATTTAATTTGAATATTTGTT
Found at i:11984195 original size:11 final size:11
Alignment explanation
Indices: 11984175--11984203 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
11984165 TATTAAACAC
11984175 TTTT-TTTTCA
1 TTTTCTTTTCA
11984185 TTTTCTTTTCA
1 TTTTCTTTTCA
11984196 TTTTCTTT
1 TTTTCTTT
11984204 CTTCTTCTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.22
11 14 0.78
ACGTcount: A:0.07, C:0.14, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTCTTTTCA
Found at i:11985478 original size:36 final size:36
Alignment explanation
Indices: 11985431--11985500 Score: 140
Period size: 36 Copynumber: 1.9 Consensus size: 36
11985421 TCGTGCTTCA
11985431 CATTAGGCTATTTCATTAACCTGCCGTTTGACTGTC
1 CATTAGGCTATTTCATTAACCTGCCGTTTGACTGTC
11985467 CATTAGGCTATTTCATTAACCTGCCGTTTGACTG
1 CATTAGGCTATTTCATTAACCTGCCGTTTGACTG
11985501 ACGGTCAACT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.20, C:0.24, G:0.17, T:0.39
Consensus pattern (36 bp):
CATTAGGCTATTTCATTAACCTGCCGTTTGACTGTC
Found at i:11985849 original size:30 final size:30
Alignment explanation
Indices: 11985806--11985903 Score: 119
Period size: 30 Copynumber: 3.3 Consensus size: 30
11985796 TAGATAGTAA
*
11985806 CAAATACAGATACAAATTCAGACACAGATG
1 CAAATACAAATACAAATTCAGACACAGATG
*
11985836 CATATACAAATACAAATTCAGACACAGATG
1 CAAATACAAATACAAATTCAGACACAGATG
* *
11985866 CAAAAATAGAAAT--AAATTCAGACACAAATG
1 C--AAATACAAATACAAATTCAGACACAGATG
*
11985896 CAGATACA
1 CAAATACA
11985904 GAATTAGACA
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
28 5 0.08
30 46 0.78
32 8 0.14
ACGTcount: A:0.53, C:0.18, G:0.11, T:0.17
Consensus pattern (30 bp):
CAAATACAAATACAAATTCAGACACAGATG
Found at i:11985869 original size:24 final size:24
Alignment explanation
Indices: 11985815--11985929 Score: 70
Period size: 30 Copynumber: 4.3 Consensus size: 24
11985805 ACAAATACAG
11985815 ATACAAATTCAGACACAGATGCATATACAA
1 ATACAAATTCAGACACAGATG------CAA
11985845 ATACAAATTCAGACACAGATGCAAAA
1 ATACAAATTCAGACACAGATGC--AA
* * *
11985871 ATAGAAATAAATTCAGACACAAATGCAG
1 AT----ACAAATTCAGACACAGATGCAA
11985899 ATACAGAATT-AGACACAGATGCAA
1 ATACA-AATTCAGACACAGATGCAA
*
11985923 AAACAAA
1 ATACAAA
11985930 AATAGAAATA
Statistics
Matches: 71, Mismatches: 7, Indels: 21
0.72 0.07 0.21
Matches are distributed among these distances:
23 2 0.03
24 19 0.27
25 4 0.06
26 4 0.06
28 3 0.04
30 39 0.55
ACGTcount: A:0.54, C:0.17, G:0.12, T:0.17
Consensus pattern (24 bp):
ATACAAATTCAGACACAGATGCAA
Found at i:11985935 original size:24 final size:24
Alignment explanation
Indices: 11985885--11985935 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
11985875 AAATAAATTC
* * * *
11985885 AGACACAAATGCAGATACAGAATT
1 AGACACAAATGCAAAAACAAAAAT
*
11985909 AGACACAGATGCAAAAACAAAAAT
1 AGACACAAATGCAAAAACAAAAAT
11985933 AGA
1 AGA
11985936 AATAGATACT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.57, C:0.16, G:0.16, T:0.12
Consensus pattern (24 bp):
AGACACAAATGCAAAAACAAAAAT
Found at i:11993081 original size:26 final size:25
Alignment explanation
Indices: 11993046--11993094 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
11993036 GATAGATAAA
**
11993046 AAAATAAAATGTTAATAAATAAATGT
1 AAAATAAAATCATAATAAA-AAATGT
*
11993072 AAAATTAAATCATAATAAAAAAT
1 AAAATAAAATCATAATAAAAAAT
11993095 AAATACATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 4 0.20
26 16 0.80
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (25 bp):
AAAATAAAATCATAATAAAAAATGT
Found at i:11993090 original size:16 final size:17
Alignment explanation
Indices: 11993071--11993113 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
11993061 TAAATAAATG
11993071 TAAAATTAAAT-CATAA
1 TAAAATTAAATACATAA
*
11993087 TAAAAAATAAATACATAA
1 T-AAAATTAAATACATAA
11993105 -AAAATTAAA
1 TAAAATTAAA
11993114 ACAAAGAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 9 0.39
17 9 0.39
18 5 0.22
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.26
Consensus pattern (17 bp):
TAAAATTAAATACATAA
Found at i:11996544 original size:26 final size:26
Alignment explanation
Indices: 11996509--11996663 Score: 112
Period size: 26 Copynumber: 6.3 Consensus size: 26
11996499 TGGCTATCCG
*
11996509 GAGC-TCCTGATTAATGGCTCTTCGT
1 GAGCTTCCTGATTAATGGCTCTTTGT
** *
11996534 GAGCTTCCTGATTAAAAGTTCTTTGT
1 GAGCTTCCTGATTAATGGCTCTTTGT
* *
11996560 GAACTTCCTGATT-ATGGCTC--TAT
1 GAGCTTCCTGATTAATGGCTCTTTGT
* ****
11996583 GAGCTTCCTG-TTATATAGC-CCGAAT
1 GAGCTTCCTGATTA-ATGGCTCTTTGT
*
11996608 AAGCTTCCTGA-T-A-GGCTCTTTGT
1 GAGCTTCCTGATTAATGGCTCTTTGT
* *
11996631 GAGCTTCCCGATTAATGGCTTTTTGT
1 GAGCTTCCTGATTAATGGCTCTTTGT
11996657 GAGCTTC
1 GAGCTTC
11996664 ATATTATATG
Statistics
Matches: 99, Mismatches: 21, Indels: 19
0.71 0.15 0.14
Matches are distributed among these distances:
22 4 0.04
23 24 0.24
24 5 0.05
25 21 0.21
26 45 0.45
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.38
Consensus pattern (26 bp):
GAGCTTCCTGATTAATGGCTCTTTGT
Found at i:11999566 original size:19 final size:20
Alignment explanation
Indices: 11999522--11999566 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
11999512 AAAATAAAAA
11999522 TCAAAATAATTTTCAAGATT
1 TCAAAATAATTTTCAAGATT
* *
11999542 TTAAAATAATTTTTAA-ATT
1 TCAAAATAATTTTCAAGATT
11999561 TCAAAA
1 TCAAAA
11999567 CATTTATAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.42
Consensus pattern (20 bp):
TCAAAATAATTTTCAAGATT
Found at i:12005263 original size:27 final size:26
Alignment explanation
Indices: 12005215--12005265 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
12005205 ATCTCTTATT
* **
12005215 AATTATTTTTAATTGATTTAAAATCA
1 AATTATTTTTAATTCAAGTAAAATCA
12005241 AATTATATTTTAATTCAAGTAAAAT
1 AATTAT-TTTTAATTCAAGTAAAAT
12005266 TTAATATTCT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (26 bp):
AATTATTTTTAATTCAAGTAAAATCA
Found at i:12006927 original size:24 final size:23
Alignment explanation
Indices: 12006900--12006945 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 23
12006890 TTAGATTTTA
12006900 TTAGAAATAAACTATATATTAACT
1 TTAGAAATAAACTATAT-TTAACT
*
12006924 TTAGAAATAAATTATATTTAAC
1 TTAGAAATAAACTATATTTAAC
12006946 ATATACTAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 5 0.24
24 16 0.76
ACGTcount: A:0.50, C:0.07, G:0.04, T:0.39
Consensus pattern (23 bp):
TTAGAAATAAACTATATTTAACT
Found at i:12006950 original size:33 final size:33
Alignment explanation
Indices: 12006913--12006975 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
12006903 GAAATAAACT
* *
12006913 ATATATTAACTTTAGAA-ATAAATTATATTTAAC
1 ATATACTAACATTAGAATATAAATTA-ATTTAAC
*
12006946 ATATACTAACATTAGAATATAATTTAATTT
1 ATATACTAACATTAGAATATAAATTAATTT
12006976 GATAATAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
33 19 0.73
34 7 0.27
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.43
Consensus pattern (33 bp):
ATATACTAACATTAGAATATAAATTAATTTAAC
Found at i:12017416 original size:43 final size:43
Alignment explanation
Indices: 12017351--12017441 Score: 157
Period size: 43 Copynumber: 2.1 Consensus size: 43
12017341 ATGACATATC
12017351 TGGA-GTGATTGCAAGCACCTATCATGATAAGGAAACCAACAT
1 TGGATGTGATTGCAAGCACCTATCATGATAAGGAAACCAACAT
* *
12017393 TGGATGTGATTGGAAGCACCTATCATGATAATGAAACCAACAT
1 TGGATGTGATTGCAAGCACCTATCATGATAAGGAAACCAACAT
12017436 TGGATG
1 TGGATG
12017442 GTCCAAAGAG
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
42 4 0.09
43 42 0.91
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.24
Consensus pattern (43 bp):
TGGATGTGATTGCAAGCACCTATCATGATAAGGAAACCAACAT
Found at i:12023747 original size:16 final size:16
Alignment explanation
Indices: 12023721--12023758 Score: 67
Period size: 16 Copynumber: 2.3 Consensus size: 16
12023711 TCCTTCCACT
12023721 ATTTCTCTTGATATGAA
1 ATTT-TCTTGATATGAA
12023738 ATTTTCTTGATATGAA
1 ATTTTCTTGATATGAA
12023754 ATTTT
1 ATTTT
12023759 AACAACATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.29, C:0.08, G:0.11, T:0.53
Consensus pattern (16 bp):
ATTTTCTTGATATGAA
Found at i:12027158 original size:22 final size:23
Alignment explanation
Indices: 12027111--12027165 Score: 69
Period size: 22 Copynumber: 2.4 Consensus size: 23
12027101 TGAGGTTATG
* *
12027111 CTTAATTAAGTGGTTTAATTAGA
1 CTTAATTAAGTGATTTAATTAAA
12027134 CTTAATTAA-TGATTT-ATTAAAA
1 CTTAATTAAGTGATTTAATT-AAA
12027156 CTTAATTAAG
1 CTTAATTAAG
12027166 AAAGTTTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 3 0.11
22 16 0.57
23 9 0.32
ACGTcount: A:0.40, C:0.05, G:0.11, T:0.44
Consensus pattern (23 bp):
CTTAATTAAGTGATTTAATTAAA
Found at i:12028037 original size:37 final size:37
Alignment explanation
Indices: 12027991--12028075 Score: 125
Period size: 37 Copynumber: 2.3 Consensus size: 37
12027981 CTATTGATCC
*
12027991 TACTAAATGAAGCTCAATCGAGCAAATCTTACCATTA
1 TACTAAATGAAGCTCAATCGAGAAAATCTTACCATTA
* **
12028028 TACTGAATGAAGCTCAATCGAGAAAATCTTACTGTTA
1 TACTAAATGAAGCTCAATCGAGAAAATCTTACCATTA
*
12028065 TACTAAGTGAA
1 TACTAAATGAA
12028076 ACTCGAACGA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28
Consensus pattern (37 bp):
TACTAAATGAAGCTCAATCGAGAAAATCTTACCATTA
Found at i:12033403 original size:24 final size:24
Alignment explanation
Indices: 12033375--12033425 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
12033365 TATGTTAGAT
12033375 TTAAAAAGTGAACTGGTCATTCTA
1 TTAAAAAGTGAACTGGTCATTCTA
*
12033399 TTAAAAAGTGAACTGGTCCTTCTA
1 TTAAAAAGTGAACTGGTCATTCTA
12033423 TTA
1 TTA
12033426 CAATTTAGTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (24 bp):
TTAAAAAGTGAACTGGTCATTCTA
Found at i:12041639 original size:27 final size:28
Alignment explanation
Indices: 12041587--12041640 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
12041577 TTTGCCAATG
**
12041587 TTTAGTGAATTTAGGGTTCATTAGTTGC
1 TTTAGTGAATTTAGGGTTCACCAGTTGC
*
12041615 TTTAGTGAA-TTAGGGTTCGCCAGTTG
1 TTTAGTGAATTTAGGGTTCACCAGTTG
12041641 GTTGGTGAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 14 0.61
28 9 0.39
ACGTcount: A:0.20, C:0.09, G:0.28, T:0.43
Consensus pattern (28 bp):
TTTAGTGAATTTAGGGTTCACCAGTTGC
Found at i:12041656 original size:26 final size:27
Alignment explanation
Indices: 12041627--12041691 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
12041617 TAGTGAATTA
* *
12041627 GGGTTCGCCAGTTGG-TTGGTGAGCTG
1 GGGTTCGCCAGTTGGTTTGGCGAACTG
*
12041653 GGGTTCGCTAGTTGGTTTGGCGAACTG
1 GGGTTCGCCAGTTGGTTTGGCGAACTG
12041680 GGGTTCGCCAGT
1 GGGTTCGCCAGT
12041692 ACAAGTCAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 14 0.41
27 20 0.59
ACGTcount: A:0.09, C:0.17, G:0.43, T:0.31
Consensus pattern (27 bp):
GGGTTCGCCAGTTGGTTTGGCGAACTG
Found at i:12046858 original size:134 final size:134
Alignment explanation
Indices: 12046686--12047269 Score: 652
Period size: 134 Copynumber: 4.4 Consensus size: 134
12046676 CAGTTTGTTG
* * *
12046686 ATTTGCGATCACGACTGATATTATTAAGGCTCGTTGATTTATGATTACAACCTAAGTGT-ATTGA
1 ATTTACGATCACGACTAATATTATTAAGGCTCGTTGATTTATGATCACAACCTAAGT-TCATTGA
* * * *
12046750 TTTACGATCATAAACAA-TTATATCTGAGTTAGTTGATTTACAATCACAACTCCATTCAAACAGT
65 TTTACAATCATGAACAAGTTCT-TCTGAGTTAGTTGATTTACAATCGCAACTCCATTCAAACAGT
*
12046814 TCGCTG
129 TCGCTA
* ** *
12046820 ATTTATGATCATAACTAATATTATTAAGGCTCGTTGATTTATGATCACAACCTAAGTTCATTTAT
1 ATTTACGATCACGACTAATATTATTAAGGCTCGTTGATTTATGATCACAACCTAAGTTCATTGAT
* * * ** * * *
12046885 TTATAATTATGAACAAGTTCTTCTGAATTAGTTGATTTATGATCGCAACTCCATTCCAATAGTTT
66 TTACAATCATGAACAAGTTCTTCTGAGTTAGTTGATTTACAATCGCAACTCCATTCAAACAGTTC
* *
12046950 GTTG
131 GCTA
* * * * *
12046954 ATTTACGATTACGACTGATATTGTTAAGGCTCGCTAATTTATGATCACAACCTAAGTTCATTGAT
1 ATTTACGATCACGACTAATATTATTAAGGCTCGTTGATTTATGATCACAACCTAAGTTCATTGAT
*** * * * * * * *
12047019 TTTTGACCATGAACAAGTTCTTCTAAGCTAGTTGATTTACGATCGCAACTTCATTTAAACAGTTT
66 TTACAATCATGAACAAGTTCTTCTGAGTTAGTTGATTTACAATCGCAACTCCATTCAAACAGTTC
12047084 GCTA
131 GCTA
* * ** **
12047088 ATTTATGATCATGACTAATATTATTAAGGCTTATTGATTTACAATCACAACCTAAGTTCATTGAT
1 ATTTACGATCACGACTAATATTATTAAGGCTCGTTGATTTATGATCACAACCTAAGTTCATTGAT
* * * *
12047153 TAACAATCATGAACAAGTTCTTCTGAGTAAGCTT-ATTTACAATCTCAACTCTATTCAAACAGTT
66 TTACAATCATGAACAAGTTCTTCTGAGTTAG-TTGATTTACAATCGCAACTCCATTCAAACAGTT
*
12047217 CACTA
130 CGCTA
* ** *
12047222 ATTTACGATCACGACTGATGCTATTAAGGCTCGTTGATTTACGATCAC
1 ATTTACGATCACGACTAATATTATTAAGGCTCGTTGATTTATGATCAC
12047270 GACTAATATT
Statistics
Matches: 370, Mismatches: 77, Indels: 6
0.82 0.17 0.01
Matches are distributed among these distances:
133 1 0.00
134 364 0.98
135 5 0.01
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.38
Consensus pattern (134 bp):
ATTTACGATCACGACTAATATTATTAAGGCTCGTTGATTTATGATCACAACCTAAGTTCATTGAT
TTACAATCATGAACAAGTTCTTCTGAGTTAGTTGATTTACAATCGCAACTCCATTCAAACAGTTC
GCTA
Found at i:12047167 original size:268 final size:268
Alignment explanation
Indices: 12046677--12047269 Score: 733
Period size: 268 Copynumber: 2.2 Consensus size: 268
12046667 TATATTAAAC
* * * *
12046677 AGTTTGTTGATTTGCGATCACGACTGATATTATTAAGGCTCGTTGATTTATGATTACAACCTAAG
1 AGTTTGTTGATTTACGATCACGACTGATATTATTAAGGCTCGCTAATTTATGATCACAACCTAAG
* * *
12046742 TGTATTGATTTACGATCATAAACAATTATATCTGAGTTAGTTGATTTACAATCACAACTCCATTC
66 TGTATTGATTTACGACCATAAACAATTATATCTAAGCTAGTTGATTTACAATCACAACTCCATTC
* * **
12046807 AAACAGTTCGCTGATTTATGATCATAACTAATATTATTAAGGCTCGTTGATTTATGATCACAACC
131 AAACAGTTCGCTAATTTATGATCATAACTAATATTATTAAGGCTCATTGATTTACAATCACAACC
* * * *
12046872 TAAGTTCATTTATTTATAATTATGAACAAGTTCTTCTGAATTAGTTGATTTATGATCGCAACTCC
196 TAAGTTCATTGATTAACAATCATGAACAAGTTCTTCTGAATTAGTTGATTTATGATCGCAACTCC
12046937 ATTCCAAT
261 ATTCCAAT
* *
12046945 AGTTTGTTGATTTACGATTACGACTGATATTGTTAAGGCTCGCTAATTTATGATCACAACCTAAG
1 AGTTTGTTGATTTACGATCACGACTGATATTATTAAGGCTCGCTAATTTATGATCACAACCTAAG
** * * * * *
12047010 T-TCATTGATTTTTGACCATGAACAAGTTCT-TCTAAGCTAGTTGATTTACGATCGCAACTTCAT
66 TGT-ATTGATTTACGACCATAAACAA-TTATATCTAAGCTAGTTGATTTACAATCACAACTCCAT
* * * *
12047073 TTAAACAGTTTGCTAATTTATGATCATGACTAATATTATTAAGGCTTATTGATTTACAATCACAA
129 TCAAACAGTTCGCTAATTTATGATCATAACTAATATTATTAAGGCTCATTGATTTACAATCACAA
* * ** *
12047138 CCTAAGTTCATTGATTAACAATCATGAACAAGTTCTTCTGAGTAAGCTT-ATTTACAATCTCAAC
194 CCTAAGTTCATTGATTAACAATCATGAACAAGTTCTTCTGAATTAG-TTGATTTATGATCGCAAC
* * *
12047202 TCTATTCAAAC
258 TCCATTCCAAT
*** * ** * * *
12047213 AGTTCACTAATTTACGATCACGACTGATGCTATTAAGGCTCGTTGATTTACGATCAC
1 AGTTTGTTGATTTACGATCACGACTGATATTATTAAGGCTCGCTAATTTATGATCAC
12047270 GACTAATATT
Statistics
Matches: 275, Mismatches: 47, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
267 1 0.00
268 269 0.98
269 5 0.02
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.38
Consensus pattern (268 bp):
AGTTTGTTGATTTACGATCACGACTGATATTATTAAGGCTCGCTAATTTATGATCACAACCTAAG
TGTATTGATTTACGACCATAAACAATTATATCTAAGCTAGTTGATTTACAATCACAACTCCATTC
AAACAGTTCGCTAATTTATGATCATAACTAATATTATTAAGGCTCATTGATTTACAATCACAACC
TAAGTTCATTGATTAACAATCATGAACAAGTTCTTCTGAATTAGTTGATTTATGATCGCAACTCC
ATTCCAAT
Found at i:12047262 original size:36 final size:36
Alignment explanation
Indices: 12047222--12047305 Score: 132
Period size: 36 Copynumber: 2.3 Consensus size: 36
12047212 CAGTTCACTA
* * *
12047222 ATTTACGATCACGACTGATGCTATTAAGGCTCGTTG
1 ATTTACGATCACGACTAATACTATTAAGGCTAGTTG
*
12047258 ATTTACGATCACGACTAATATTATTAAGGCTAGTTG
1 ATTTACGATCACGACTAATACTATTAAGGCTAGTTG
12047294 ATTTACGATCAC
1 ATTTACGATCAC
12047306 AACCTAAGTT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 44 1.00
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.35
Consensus pattern (36 bp):
ATTTACGATCACGACTAATACTATTAAGGCTAGTTG
Found at i:12055452 original size:17 final size:18
Alignment explanation
Indices: 12055414--12055454 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
12055404 GAAAAGATGA
12055414 TATTT-TCATCATTTCAT
1 TATTTATCATCATTTCAT
* *
12055431 CATTTATCATC-TTTTAT
1 TATTTATCATCATTTCAT
12055448 TATTTAT
1 TATTTAT
12055455 TCCTTCCAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.24, C:0.15, G:0.00, T:0.61
Consensus pattern (18 bp):
TATTTATCATCATTTCAT
Found at i:12068891 original size:133 final size:133
Alignment explanation
Indices: 12068638--12069030 Score: 671
Period size: 133 Copynumber: 3.0 Consensus size: 133
12068628 CATCTGCAAC
12068638 TTCAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCACC
1 TTCAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCACC
* *
12068703 GTCT-TTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTATAATATTCAACCTACTCCACTA
66 GTCTCTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTA
12068767 CTG
131 CTG
* * * *
12068770 TTCAAGGAGATAGGACTGGTGGTTTAAATCTACTTCCCTACTACCTTGGGAAGATAAGATTCACT
1 TTCAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCACC
* *
12068835 GTCTCTTGATCTGCTCCACTATTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCATTA
66 GTCTCTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTA
12068900 CTG
131 CTG
* *
12068903 CTCAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCTTACTACCTTGGGAAGATAAGATTCACC
1 TTCAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCACC
* *
12068968 GTCTCTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTTCAATCTTTAACCTACTCCAC
66 GTCTCTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCAC
12069031 CGTTGCTCAG
Statistics
Matches: 242, Mismatches: 18, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
132 65 0.27
133 177 0.73
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.30
Consensus pattern (133 bp):
TTCAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCACC
GTCTCTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTA
CTG
Found at i:12069373 original size:89 final size:89
Alignment explanation
Indices: 12069047--12069373 Score: 383
Period size: 89 Copynumber: 3.7 Consensus size: 89
12069037 TCAGTGAGAT
* * * * * * * *
12069047 AAGGCTGGTGTTTTCAATCTACTTCACTGCTAGTACAGGAATACAAGATAT-AT-TGCTTTCATT
1 AAGGCTGGTGTATTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTAT-C-TTCATT
*
12069110 CTGCTCCGCTGTAAACTCAGGGAGGC
64 CTGCTCCGCTGCAAACTCAGGGAGGC
* * * * *
12069136 AAGGCTGGTGTATTTGATCTACTTCACTGCCAATACAGGAAGACAAGATCTACTATCTTTATTTT
1 AAGGCTGGTGTATTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCATTCT
12069201 GCTCCG-TCGCAAACTCAGGGAGGC
66 GCTCCGCT-GCAAACTCAGGGAGGC
* *
12069225 AAGGCTGGTGTATTCGATCTACTTCGCTGCCAATACAGGAAGGCAAGATCTGCTATCTTCAGTCT
1 AAGGCTGGTGTATTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCATTCT
* * *
12069290 GCTCAGCTACAAACTCAAGGAGGTC
66 GCTCCGCTGCAAACTCAGGGAGG-C
* * * *
12069315 -AGGCTGGTGTCTTCGATCTGCTTCGCTACCAGTACAGGAAGACAAGATCTGCTATCTTC
1 AAGGCTGGTGTATTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTC
12069374 TTCAATCCAT
Statistics
Matches: 207, Mismatches: 26, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
88 1 0.00
89 201 0.97
90 4 0.02
91 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (89 bp):
AAGGCTGGTGTATTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCATTCT
GCTCCGCTGCAAACTCAGGGAGGC
Found at i:12071546 original size:28 final size:28
Alignment explanation
Indices: 12071509--12071578 Score: 124
Period size: 28 Copynumber: 2.5 Consensus size: 28
12071499 ACAAAGAATG
12071509 TATGAATTTATGAATAATTATTTGCACAA
1 TATG-ATTTATGAATAATTATTTGCACAA
12071538 TATGATTTATGAATAATTATTTGCACAA
1 TATGATTTATGAATAATTATTTGCACAA
12071566 TATGA-TTATGAAT
1 TATGATTTATGAAT
12071579 GAAAGAATAT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
27 8 0.20
28 29 0.71
29 4 0.10
ACGTcount: A:0.40, C:0.06, G:0.11, T:0.43
Consensus pattern (28 bp):
TATGATTTATGAATAATTATTTGCACAA
Found at i:12073166 original size:28 final size:26
Alignment explanation
Indices: 12073104--12073178 Score: 88
Period size: 28 Copynumber: 3.0 Consensus size: 26
12073094 CAAAGGGTTT
12073104 TTTACCAAAAT-AT-TACAAAAAAAA
1 TTTACCAAAATAATATACAAAAAAAA
12073128 --TACCAAAATAATATACAAAAAAATTA
1 TTTACCAAAATAATATACAAAAAAA--A
*
12073154 TTTACCAAAATAATACA-AAAAAAAA
1 TTTACCAAAATAATATACAAAAAAAA
12073179 CAAATACGGC
Statistics
Matches: 44, Mismatches: 1, Indels: 11
0.79 0.02 0.20
Matches are distributed among these distances:
22 9 0.20
23 2 0.05
24 10 0.23
25 1 0.02
26 1 0.02
27 7 0.16
28 14 0.32
ACGTcount: A:0.65, C:0.12, G:0.00, T:0.23
Consensus pattern (26 bp):
TTTACCAAAATAATATACAAAAAAAA
Found at i:12074234 original size:150 final size:151
Alignment explanation
Indices: 12073956--12074453 Score: 820
Period size: 150 Copynumber: 3.3 Consensus size: 151
12073946 GTAGAACTCT
*
12073956 AAATTAAAAAAATAGTATATTTTTTAAAAGTAATAAAATCTGAAAAAAAAAATACGAACATAGGG
1 AAATT-AAAAAATAGTATATTTTTTAAAAGTAATAAAATCCG---AAAAAAATACGAACATAGGG
*
12074021 CCGAAATAAGGGTTTTTTTAAAATTTATTTAAAAAACACACTAAATTAATACATTTCAAATATAA
62 CCGAAATAAGGGTTTTTTTAAAATTTATTTAAAAAAGACACTAAATTAATACATTTCAAATATAA
*
12074086 TATACTAAAATAATGTAAAATAAAA
127 TATACTAAAATAATATAAAATAAAA
12074111 AAATTAAAAAATAGTATATTTTTTAAAAGTAATAAAATCCGAAAAAAATACGAACATAGGGCCGA
1 AAATTAAAAAATAGTATATTTTTTAAAAGTAATAAAATCCGAAAAAAATACGAACATAGGGCCGA
* *
12074176 AATAAGGG-TTTTTTAAAATTTATTTAAGAAAGACACTAAATTAATACATTTCAAATATAATTTA
66 AATAAGGGTTTTTTTAAAATTTATTTAAAAAAGACACTAAATTAATACATTTCAAATATAATATA
*
12074240 CTAAAATAATATAAAATTAAA
131 CTAAAATAATATAAAATAAAA
* *
12074261 AAATTAAAAAATAGTATATTTTTTAAAAGTAATAAAATCTGGAAAAAAATACGAACATAGGACCG
1 AAATTAAAAAATAGTATATTTTTTAAAAGTAATAAAATC-CGAAAAAAATACGAACATAGGGCCG
* * *
12074326 AAATAAGGGTTTTTTTAAAATTTATTTAAAAAAGATACTAAATTACTACATTTCAAATATAATGT
65 AAATAAGGGTTTTTTTAAAATTTATTTAAAAAAGACACTAAATTAATACATTTCAAATATAATAT
12074391 ACTAAAATAATATAAAATAAAA
130 ACTAAAATAATATAAAATAAAA
* *
12074413 ATATT-AAAAATGGTATATTTTTTAAAAGTAATAAAATCCGA
1 AAATTAAAAAATAGTATATTTTTTAAAAGTAATAAAATCCGA
12074454 GGAAAAAAAA
Statistics
Matches: 325, Mismatches: 16, Indels: 9
0.93 0.05 0.03
Matches are distributed among these distances:
150 113 0.35
151 96 0.30
152 76 0.23
154 35 0.11
155 5 0.02
ACGTcount: A:0.53, C:0.07, G:0.08, T:0.32
Consensus pattern (151 bp):
AAATTAAAAAATAGTATATTTTTTAAAAGTAATAAAATCCGAAAAAAATACGAACATAGGGCCGA
AATAAGGGTTTTTTTAAAATTTATTTAAAAAAGACACTAAATTAATACATTTCAAATATAATATA
CTAAAATAATATAAAATAAAA
Found at i:12076835 original size:9 final size:9
Alignment explanation
Indices: 12076821--12076845 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
12076811 TAAAATTGTG
12076821 AAATATAAC
1 AAATATAAC
12076830 AAATATAAC
1 AAATATAAC
12076839 AAATATA
1 AAATATA
12076846 TATGTATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (9 bp):
AAATATAAC
Found at i:12076872 original size:26 final size:26
Alignment explanation
Indices: 12076843--12076896 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
12076833 TATAACAAAT
*
12076843 ATATATGTATATATATAAATTATAAA
1 ATATATGTACATATATAAATTATAAA
* **
12076869 ATATATGTACATCTATGTATTATAAA
1 ATATATGTACATATATAAATTATAAA
12076895 AT
1 AT
12076897 GTATATAAGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.48, C:0.04, G:0.06, T:0.43
Consensus pattern (26 bp):
ATATATGTACATATATAAATTATAAA
Found at i:12081727 original size:27 final size:27
Alignment explanation
Indices: 12081692--12081744 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
12081682 AAGATTAAGA
12081692 TATGAAAACAAAATTAAAAAACGAAAC
1 TATGAAAACAAAATTAAAAAACGAAAC
* * *
12081719 TATGGAAACAAGATTAACAAACGAAA
1 TATGAAAACAAAATTAAAAAACGAAA
12081745 ATCTTTTGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.62, C:0.11, G:0.11, T:0.15
Consensus pattern (27 bp):
TATGAAAACAAAATTAAAAAACGAAAC
Found at i:12096896 original size:58 final size:58
Alignment explanation
Indices: 12096785--12096898 Score: 140
Period size: 58 Copynumber: 2.0 Consensus size: 58
12096775 TTTTCTTTTA
*
12096785 TTTTGAACCGGTGCTGACCACTTCAACACCGACACCAAAAAAATAGTTTTTTTTTAAG
1 TTTTGAACCGGTGCTGACCACTTCAACACCGACACCAAAAAAATAGTTATTTTTTAAG
* * * * * **
12096843 TTTTGAATCGGTGTTGGCCACTTCAACGCCGGCACCTATTAAAATA-TTATTTTTTA
1 TTTTGAACCGGTGCTGACCACTTCAACACCGACACC-AAAAAAATAGTTATTTTTTA
12096899 TTTTTCTTTT
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
58 40 0.85
59 7 0.15
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (58 bp):
TTTTGAACCGGTGCTGACCACTTCAACACCGACACCAAAAAAATAGTTATTTTTTAAG
Found at i:12098796 original size:35 final size:35
Alignment explanation
Indices: 12098750--12098819 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
12098740 TCGTATTATA
*
12098750 TAATACTATCAAACCCATGGTTCACCTCATGAATG
1 TAATACCATCAAACCCATGGTTCACCTCATGAATG
*
12098785 TAATACCATCAAACCCGTGGTTCACCTCATGAATG
1 TAATACCATCAAACCCATGGTTCACCTCATGAATG
12098820 GACTGACACC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (35 bp):
TAATACCATCAAACCCATGGTTCACCTCATGAATG
Found at i:12103855 original size:16 final size:16
Alignment explanation
Indices: 12103834--12103901 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
12103824 TTTGGTTCGA
12103834 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
12103850 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
12103866 TGTAATAGATTAGAGG
1 TGTATTGGATTAGAGG
12103882 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
12103898 TGTA
1 TGTA
12103902 ATAGCAAATC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.28, C:0.00, G:0.35, T:0.37
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:12103877 original size:32 final size:32
Alignment explanation
Indices: 12103841--12103905 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
12103831 CGATGTATTG
12103841 GATTAGAGGTGTATTGGATTAGAGGTGTAATA
1 GATTAGAGGTGTATTGGATTAGAGGTGTAATA
12103873 GATTAGAGGTGTATTGGATTAGAGGTGTAATA
1 GATTAGAGGTGTATTGGATTAGAGGTGTAATA
12103905 G
1 G
12103906 CAAATCAACT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.31, C:0.00, G:0.35, T:0.34
Consensus pattern (32 bp):
GATTAGAGGTGTATTGGATTAGAGGTGTAATA
Found at i:12104155 original size:16 final size:16
Alignment explanation
Indices: 12104118--12104159 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
12104108 TTAATCATAT
*
12104118 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
12104134 TT-AAATATATTATAA
1 TTAAAATATATTATAA
12104149 TTAAAATATAT
1 TTAAAATATAT
12104160 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:12104166 original size:14 final size:15
Alignment explanation
Indices: 12104127--12104168 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
12104117 TTTAAACATA
*
12104127 ATTATTATTAAATAT
1 ATTATAATTAAATAT
12104142 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
12104156 A-TATAATTTAATA
1 ATTATAATTAAATA
12104169 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:12104286 original size:14 final size:15
Alignment explanation
Indices: 12104237--12104288 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
12104227 ATAAAATATA
12104237 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
12104252 TATTAAATATATTAT
1 AATTAAATATATTAT
12104267 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
12104280 AATTTAATA
1 AATTAAATA
12104289 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:12104356 original size:119 final size:120
Alignment explanation
Indices: 12104121--12104441 Score: 619
Period size: 119 Copynumber: 2.7 Consensus size: 120
12104111 ATCATATTTA
12104121 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
12104186 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
12104241 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAA-AATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
12104305 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
*
12104360 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
12104425 TATTCTTATAT-AATTTA
66 TATTCTTATATGAATTTA
12104442 ATAAAACAAT
Statistics
Matches: 199, Mismatches: 1, Indels: 3
0.98 0.00 0.01
Matches are distributed among these distances:
119 124 0.62
120 75 0.38
ACGTcount: A:0.50, C:0.05, G:0.01, T:0.43
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
Found at i:12104398 original size:18 final size:18
Alignment explanation
Indices: 12104377--12104424 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
12104367 TTATTATTAA
12104377 ATATATTATAATTAAAAT
1 ATATATTATAATTAAAAT
12104395 ATATAATT-TAA-TAAAAT
1 ATAT-ATTATAATTAAAAT
*
12104412 -TAT-TAATAATTAA
1 ATATATTATAATTAA
12104425 TATTCTTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
14 1 0.04
15 3 0.12
16 6 0.23
17 6 0.23
18 7 0.27
19 3 0.12
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
ATATATTATAATTAAAAT
Found at i:12104405 original size:14 final size:15
Alignment explanation
Indices: 12104356--12104407 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
12104346 ATAAAATATA
12104356 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
12104371 TATTAAATATATTAT
1 AATTAAATATATTAT
12104386 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
12104399 AATTTAATA
1 AATTAAATA
12104408 AAATTATTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:12104414 original size:44 final size:43
Alignment explanation
Indices: 12104333--12104416 Score: 107
Period size: 43 Copynumber: 1.9 Consensus size: 43
12104323 CTCAAATCAT
* *
12104333 AATATATGATACTATAAAATATAAATTAACATAATTATTATTA
1 AATATATGATAATATAAAATATAAATTAACAAAATTATTATTA
* *
12104376 AATATATTATAAT-TAAAATATATAATTTAATAAAATTATTA
1 AATATATGATAATATAAAATATA-AA-TTAACAAAATTATTA
12104417 ATAATTAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
42 9 0.26
43 13 0.37
44 13 0.37
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (43 bp):
AATATATGATAATATAAAATATAAATTAACAAAATTATTATTA
Found at i:12106745 original size:12 final size:13
Alignment explanation
Indices: 12106717--12106750 Score: 61
Period size: 12 Copynumber: 2.7 Consensus size: 13
12106707 TGGAGAAAGC
12106717 AAAGCAAAGGAAG
1 AAAGCAAAGGAAG
12106730 AAAGCAAAGG-AG
1 AAAGCAAAGGAAG
12106742 AAAGCAAAG
1 AAAGCAAAG
12106751 CAAAGAAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 11 0.52
13 10 0.48
ACGTcount: A:0.62, C:0.09, G:0.29, T:0.00
Consensus pattern (13 bp):
AAAGCAAAGGAAG
Found at i:12106760 original size:10 final size:10
Alignment explanation
Indices: 12106712--12106775 Score: 51
Period size: 10 Copynumber: 6.4 Consensus size: 10
12106702 TCGACTGGAG
*
12106712 AAAGCAAAGC
1 AAAGCAAAGA
*
12106722 AAAG-GAAG-
1 AAAGCAAAGA
12106730 AAAGCAAAGGA
1 AAAGCAAA-GA
*
12106741 GAAAGCAAAGC
1 -AAAGCAAAGA
*
12106752 AAAGAAAAGA
1 AAAGCAAAGA
*
12106762 AAAGAAAAGA
1 AAAGCAAAGA
12106772 AAAG
1 AAAG
12106776 AAACGGAGGG
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
8 4 0.09
9 5 0.11
10 27 0.60
11 1 0.02
12 8 0.18
ACGTcount: A:0.67, C:0.08, G:0.25, T:0.00
Consensus pattern (10 bp):
AAAGCAAAGA
Found at i:12106776 original size:5 final size:5
Alignment explanation
Indices: 12106742--12106778 Score: 56
Period size: 5 Copynumber: 7.4 Consensus size: 5
12106732 AGCAAAGGAG
* *
12106742 AAAGC AAAGC AAAGA AAAGA AAAGA AAAGA AAAGA AA
1 AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AA
12106779 CGGAGGGAGC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.76, C:0.05, G:0.19, T:0.00
Consensus pattern (5 bp):
AAAGA
Found at i:12106824 original size:19 final size:19
Alignment explanation
Indices: 12106800--12106836 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
12106790 AATCGGGCGA
12106800 AACAGAAGAGGCAAAGGGG
1 AACAGAAGAGGCAAAGGGG
*
12106819 AACAGAAGAGGCAGAGGG
1 AACAGAAGAGGCAAAGGG
12106837 TAAAACAGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.46, C:0.11, G:0.43, T:0.00
Consensus pattern (19 bp):
AACAGAAGAGGCAAAGGGG
Found at i:12117635 original size:17 final size:19
Alignment explanation
Indices: 12117605--12117639 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
12117595 TGTTCGAACC
12117605 ATATATACTCCACATTCAA
1 ATATATACTCCACATTCAA
12117624 ATATATA-T-CACATTCA
1 ATATATACTCCACATTCA
12117640 GTCATACAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 1 0.06
19 7 0.44
ACGTcount: A:0.43, C:0.23, G:0.00, T:0.34
Consensus pattern (19 bp):
ATATATACTCCACATTCAA
Found at i:12118526 original size:12 final size:14
Alignment explanation
Indices: 12118487--12118522 Score: 63
Period size: 15 Copynumber: 2.5 Consensus size: 14
12118477 GACTCTATTT
12118487 TAATTATATTAAGA
1 TAATTATATTAAGA
12118501 TAATTAATATTAAGA
1 TAATT-ATATTAAGA
12118516 TAATTAT
1 TAATTAT
12118523 TAAGGATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (14 bp):
TAATTATATTAAGA
Found at i:12120737 original size:13 final size:13
Alignment explanation
Indices: 12120719--12120743 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12120709 ACAAACGATA
12120719 AAATTTTCACACG
1 AAATTTTCACACG
12120732 AAATTTTCACAC
1 AAATTTTCACAC
12120744 ATATAAATCA
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:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:12121069 original size:25 final size:25
Alignment explanation
Indices: 12121025--12121218 Score: 143
Period size: 25 Copynumber: 8.0 Consensus size: 25
12121015 GTCCTCTTTC
*
12121025 GAGCCATATAACGTGG-AGCTCATGT
1 GAGCCATATAACG-GGAAGCTCATAT
* *
12121050 GAGCCATGTAACGGGAAGCTTATAT
1 GAGCCATATAACGGGAAGCTCATAT
* **
12121075 GGGCTGTATAACGGGAAGCTCATAAT
1 GAGCCATATAACGGGAAGCTCAT-AT
* * *
12121101 -AGCCATA-ATCAGAAAGCTCATAT
1 GAGCCATATAACGGGAAGCTCATAT
* ** *
12121124 GAGCCA-ATAACGGGTAGCTCCGAA
1 GAGCCATATAACGGGAAGCTCATAT
*
12121148 GAGCCAT-TAACGGGAAGCTCCAAAT
1 GAGCCATATAACGGGAAGCT-CATAT
* * * *
12121173 -AGCCATATATCGGGAAGTTCAAAC
1 GAGCCATATAACGGGAAGCTCATAT
12121197 GAGCCATAT--CGGGAAGCTCATA
1 GAGCCATATAACGGGAAGCTCATA
12121219 AAGAGACTTT
Statistics
Matches: 131, Mismatches: 30, Indels: 18
0.73 0.17 0.10
Matches are distributed among these distances:
23 14 0.11
24 54 0.41
25 61 0.47
26 2 0.02
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.20
Consensus pattern (25 bp):
GAGCCATATAACGGGAAGCTCATAT
Found at i:12121166 original size:48 final size:47
Alignment explanation
Indices: 12121058--12121218 Score: 121
Period size: 48 Copynumber: 3.3 Consensus size: 47
12121048 GTGAGCCATG
* * ** *
12121058 TAACGGGAAGCTTATATGGGCTGTATAACGGGAAGCT-CATAATAGCCA
1 TAACGGGAAGCTCATATGAGC-CAATAACGGGAAGCTCCA-AAGAGCCA
* * * *
12121106 TAATCAGAAAGCTCATATGAGCCAATAACGGGTAGCTCCGAAGAGCCA
1 TAA-CGGGAAGCTCATATGAGCCAATAACGGGAAGCTCCAAAGAGCCA
* * *
12121154 TTAACGGGAAGCTCCAAAT-AGCCATATATCGGGAAG-TTCAAACGAGCCA
1 -TAACGGGAAGCT-CATATGAGCCA-ATAACGGGAAGCTCCAAA-GAGCCA
*
12121203 TATCGGGAAGCTCATA
1 TAACGGGAAGCTCATA
12121219 AAGAGACTTT
Statistics
Matches: 89, Mismatches: 18, Indels: 13
0.74 0.15 0.11
Matches are distributed among these distances:
47 3 0.03
48 49 0.55
49 37 0.42
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.20
Consensus pattern (47 bp):
TAACGGGAAGCTCATATGAGCCAATAACGGGAAGCTCCAAAGAGCCA
Found at i:12127700 original size:22 final size:21
Alignment explanation
Indices: 12127675--12127723 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 21
12127665 TTATATTAAA
*
12127675 TTATAAATATTGAAAAAT-TATT
1 TTATAAATA-T-AAAAATACATT
12127697 TTATTAAATATAAAAATACATT
1 TTA-TAAATATAAAAATACATT
12127719 TTATA
1 TTATA
12127724 TCCAATATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
21 8 0.33
22 10 0.42
23 6 0.25
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (21 bp):
TTATAAATATAAAAATACATT
Found at i:12134589 original size:21 final size:21
Alignment explanation
Indices: 12134560--12134599 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
12134550 TATTTAAGCT
12134560 TTTACAATCCAATTAGTATGAG
1 TTTACAATCCAATTA-TATGAG
*
12134582 TTTA-AATCTAATTATATG
1 TTTACAATCCAATTATATG
12134600 CATATTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 9 0.53
22 4 0.24
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.42
Consensus pattern (21 bp):
TTTACAATCCAATTATATGAG
Found at i:12152014 original size:5 final size:5
Alignment explanation
Indices: 12152004--12152050 Score: 85
Period size: 5 Copynumber: 9.4 Consensus size: 5
12151994 AGAGTTGCCC
*
12152004 ATAAT ATAAT ATAGT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT AT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT AT
12152051 TGCAACTGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 40 1.00
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (5 bp):
ATAAT
Found at i:12154739 original size:22 final size:24
Alignment explanation
Indices: 12154715--12154759 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
12154705 ATTTAAACTT
*
12154715 AAATTTACATG-TATTTAAAAATA
1 AAATTCACATGCTATTTAAAAATA
12154738 AAATTCACATGCTA-TTAAAAAT
1 AAATTCACATGCTATTTAAAAAT
12154760 TCATATCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 18 0.90
24 2 0.10
ACGTcount: A:0.51, C:0.09, G:0.04, T:0.36
Consensus pattern (24 bp):
AAATTCACATGCTATTTAAAAATA
Found at i:12155330 original size:31 final size:29
Alignment explanation
Indices: 12155295--12155365 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 29
12155285 TTAAATTAGT
* *
12155295 AATGATAAAATTGTACTTTAGTCTCCTTAAA
1 AATGATAAAATT-TAATTTAATC-CCTTAAA
*
12155326 AATGATAAAAATTTAATTTAATCCTTTAAA
1 AATGAT-AAAATTTAATTTAATCCCTTAAA
*
12155356 AATTATAAAA
1 AATGATAAAA
12155366 ATATAGACTA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
29 4 0.11
30 11 0.31
31 14 0.40
32 6 0.17
ACGTcount: A:0.48, C:0.08, G:0.06, T:0.38
Consensus pattern (29 bp):
AATGATAAAATTTAATTTAATCCCTTAAA
Found at i:12155357 original size:30 final size:32
Alignment explanation
Indices: 12155295--12155367 Score: 89
Period size: 30 Copynumber: 2.4 Consensus size: 32
12155285 TTAAATTAGT
* *
12155295 AATGAT-AAAATTGTACTTTAGTCTCCTTAAA
1 AATGATAAAAATTGTAATTTAATCTCCTTAAA
*
12155326 AATGATAAAAATT-TAATTTAATC-CTTTAAA
1 AATGATAAAAATTGTAATTTAATCTCCTTAAA
*
12155356 AATTATAAAAAT
1 AATGATAAAAAT
12155368 ATAGACTATT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
30 17 0.46
31 14 0.38
32 6 0.16
ACGTcount: A:0.48, C:0.08, G:0.05, T:0.38
Consensus pattern (32 bp):
AATGATAAAAATTGTAATTTAATCTCCTTAAA
Found at i:12186388 original size:21 final size:21
Alignment explanation
Indices: 12186359--12186398 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
12186349 TATTTAAGCT
12186359 TTTACAATCCAATTAGTATGAG
1 TTTACAATCCAATTA-TATGAG
*
12186381 TTTA-AATCTAATTATATG
1 TTTACAATCCAATTATATG
12186399 CATATTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 9 0.53
22 4 0.24
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.42
Consensus pattern (21 bp):
TTTACAATCCAATTATATGAG
Found at i:12186923 original size:27 final size:27
Alignment explanation
Indices: 12186872--12186944 Score: 73
Period size: 27 Copynumber: 2.7 Consensus size: 27
12186862 TATAAATCCA
* *
12186872 ATATAAAAATTTATAATCTACAAAAAT
1 ATATAAAAATTTAAAATATACAAAAAT
12186899 ATATAAAAATTTTAAAATATA-AAAAGA-
1 ATATAAAAA-TTTAAAATATACAAAA-AT
12186926 A-AT-AAAATTTAAATATATA
1 ATATAAAAATTTAAA-ATATA
12186945 GAAACTGTAA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
24 6 0.15
25 9 0.22
26 2 0.05
27 14 0.34
28 10 0.24
ACGTcount: A:0.63, C:0.03, G:0.01, T:0.33
Consensus pattern (27 bp):
ATATAAAAATTTAAAATATACAAAAAT
Found at i:12191395 original size:5 final size:6
Alignment explanation
Indices: 12191368--12191394 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
12191358 TGGTTTTTAT
12191368 AAAATA AAAATA AAAATA AAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAA
12191395 TCATCAATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:12193390 original size:148 final size:148
Alignment explanation
Indices: 12193122--12193418 Score: 594
Period size: 148 Copynumber: 2.0 Consensus size: 148
12193112 AGAAAGATAA
12193122 GCCTATGCATGTCTGCATTAGGTCATTTATAGACAACCCAAGCTCTATTATGAATTTATTTATTG
1 GCCTATGCATGTCTGCATTAGGTCATTTATAGACAACCCAAGCTCTATTATGAATTTATTTATTG
12193187 TTTGTGATTATTTGCAGTATCTTGATCAACCTGCATATATGTATTAATAACCCTCAAAGTTCAGC
66 TTTGTGATTATTTGCAGTATCTTGATCAACCTGCATATATGTATTAATAACCCTCAAAGTTCAGC
12193252 AGCTTAGGATTTAAAGAG
131 AGCTTAGGATTTAAAGAG
12193270 GCCTATGCATGTCTGCATTAGGTCATTTATAGACAACCCAAGCTCTATTATGAATTTATTTATTG
1 GCCTATGCATGTCTGCATTAGGTCATTTATAGACAACCCAAGCTCTATTATGAATTTATTTATTG
12193335 TTTGTGATTATTTGCAGTATCTTGATCAACCTGCATATATGTATTAATAACCCTCAAAGTTCAGC
66 TTTGTGATTATTTGCAGTATCTTGATCAACCTGCATATATGTATTAATAACCCTCAAAGTTCAGC
12193400 AGCTTAGGATTTAAAGAG
131 AGCTTAGGATTTAAAGAG
12193418 G
1 G
12193419 TCTTTTTTTT
Statistics
Matches: 149, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
148 149 1.00
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.37
Consensus pattern (148 bp):
GCCTATGCATGTCTGCATTAGGTCATTTATAGACAACCCAAGCTCTATTATGAATTTATTTATTG
TTTGTGATTATTTGCAGTATCTTGATCAACCTGCATATATGTATTAATAACCCTCAAAGTTCAGC
AGCTTAGGATTTAAAGAG
Done.