Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032253.1 Gossypioides kirkii chromosome KI_11
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: 55708359
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 174 of 182
Found at i:52743295 original size:51 final size:49
Alignment explanation
Indices: 52743173--52743301 Score: 132
Period size: 51 Copynumber: 2.5 Consensus size: 49
52743163 TGAAAGAATA
* * * * * *
52743173 TGTAAATTTTGCAAGTTAAATTTGTTAAATCAGGATCAAGTTGATAAAATG
1 TGTAAATTTTG--AGTTAAATTTGTTAAATAAAGACCAAATTGACAAAACG
* *
52743224 TATAAATGTTGTGAGCTAAATTTGTTAAATAAAGACCAAATTGACAAAACG
1 TGTAAAT-TT-TGAGTTAAATTTGTTAAATAAAGACCAAATTGACAAAACG
52743275 TGTAAATTTTGAGGATTAAATTTGTTA
1 TGTAAATTTTGA-G-TTAAATTTGTTA
52743302 TTACATGAAT
Statistics
Matches: 64, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
49 3 0.05
50 3 0.05
51 54 0.84
52 2 0.03
53 2 0.03
ACGTcount: A:0.40, C:0.06, G:0.17, T:0.36
Consensus pattern (49 bp):
TGTAAATTTTGAGTTAAATTTGTTAAATAAAGACCAAATTGACAAAACG
Found at i:52748187 original size:51 final size:51
Alignment explanation
Indices: 52748111--52748212 Score: 204
Period size: 51 Copynumber: 2.0 Consensus size: 51
52748101 GAAATCTTGG
52748111 ACCACTCTCCTCCTTTACCCCTACTGCACCCTTCTTCTAGCAACGGGCAAT
1 ACCACTCTCCTCCTTTACCCCTACTGCACCCTTCTTCTAGCAACGGGCAAT
52748162 ACCACTCTCCTCCTTTACCCCTACTGCACCCTTCTTCTAGCAACGGGCAAT
1 ACCACTCTCCTCCTTTACCCCTACTGCACCCTTCTTCTAGCAACGGGCAAT
52748213 CCCAGATACA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.20, C:0.43, G:0.10, T:0.27
Consensus pattern (51 bp):
ACCACTCTCCTCCTTTACCCCTACTGCACCCTTCTTCTAGCAACGGGCAAT
Found at i:52754311 original size:23 final size:23
Alignment explanation
Indices: 52754281--52754326 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
52754271 ACATAATTTC
52754281 TTACAATGCGGTAAATTATTGAA
1 TTACAATGCGGTAAATTATTGAA
**
52754304 TTACAATGTTGTAAATTATTGAA
1 TTACAATGCGGTAAATTATTGAA
52754327 GTTGTTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (23 bp):
TTACAATGCGGTAAATTATTGAA
Found at i:52755456 original size:16 final size:16
Alignment explanation
Indices: 52755435--52755473 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
52755425 TTAAGTCCAA
52755435 TCCAATGTATCATTCT
1 TCCAATGTATCATTCT
52755451 TCCAATGTATCATTCT
1 TCCAATGTATCATTCT
52755467 TCCAATG
1 TCCAATG
52755474 AATACATCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.26, C:0.26, G:0.08, T:0.41
Consensus pattern (16 bp):
TCCAATGTATCATTCT
Found at i:52767829 original size:21 final size:25
Alignment explanation
Indices: 52767805--52767853 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
52767795 AAAATAAAAT
52767805 AAAGATT-AA-GG-TGA-GATGAAA
1 AAAGATTGAATGGATGACGATGAAA
52767826 AAAGATTGAATGGATGACGATGAAA
1 AAAGATTGAATGGATGACGATGAAA
52767851 AAA
1 AAA
52767854 TGATGTCTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.29
22 2 0.08
23 2 0.08
24 3 0.12
25 10 0.42
ACGTcount: A:0.53, C:0.02, G:0.27, T:0.18
Consensus pattern (25 bp):
AAAGATTGAATGGATGACGATGAAA
Found at i:52769993 original size:3 final size:3
Alignment explanation
Indices: 52769985--52770009 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
52769975 GCAGCTTTGG
52769985 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
52770010 CATATCTACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:52770692 original size:25 final size:25
Alignment explanation
Indices: 52770664--52770714 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
52770654 CACTACTGCT
52770664 TGATGTGGATTTGGTAAACCTGAAA
1 TGATGTGGATTTGGTAAACCTGAAA
52770689 TGATGTGGATTTGGTAAACCTGAAA
1 TGATGTGGATTTGGTAAACCTGAAA
52770714 T
1 T
52770715 CTGCATAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.31, C:0.08, G:0.27, T:0.33
Consensus pattern (25 bp):
TGATGTGGATTTGGTAAACCTGAAA
Found at i:52783867 original size:18 final size:17
Alignment explanation
Indices: 52783845--52783891 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 17
52783835 ACGTGAATCA
52783845 ATTTAATTAAAAAATATT
1 ATTTAATTAAAAAA-ATT
*
52783863 TTTTAATATAAAAAAATT
1 ATTTAAT-TAAAAAAATT
*
52783881 ATTAAATTAAA
1 ATTTAATTAAA
52783892 TGATAAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
17 4 0.16
18 14 0.56
19 7 0.28
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
ATTTAATTAAAAAAATT
Found at i:52788718 original size:43 final size:43
Alignment explanation
Indices: 52788658--52788752 Score: 165
Period size: 43 Copynumber: 2.2 Consensus size: 43
52788648 TGGTAATACT
* *
52788658 CTTT-AAAGTTTATTATGATTGAATATATTTATGATTGCAAGA
1 CTTTAAAACTTTATTATGATTAAATATATTTATGATTGCAAGA
52788700 CTTTAAAACTTTATTATGATTAAATATATTTATGATTGCAAGA
1 CTTTAAAACTTTATTATGATTAAATATATTTATGATTGCAAGA
52788743 CTTTAAAACT
1 CTTTAAAACT
52788753 GCAAGATAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
42 4 0.08
43 46 0.92
ACGTcount: A:0.38, C:0.07, G:0.11, T:0.44
Consensus pattern (43 bp):
CTTTAAAACTTTATTATGATTAAATATATTTATGATTGCAAGA
Found at i:52793505 original size:25 final size:25
Alignment explanation
Indices: 52793451--52793509 Score: 59
Period size: 25 Copynumber: 2.4 Consensus size: 25
52793441 TTAATATTTT
*
52793451 AAATATTTATTTTATGAAAAACATAT
1 AAATA-TTATTTTATGAAAAACATAG
* *
52793477 AAATATTATTTT-TTAAACAACTTAG
1 AAATATTATTTTATGAAA-AACATAG
52793502 AAAT-TTAT
1 AAATATTAT
52793510 ATGGATGGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 8 0.28
25 16 0.55
26 5 0.17
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.44
Consensus pattern (25 bp):
AAATATTATTTTATGAAAAACATAG
Found at i:52798024 original size:3 final size:3
Alignment explanation
Indices: 52798016--52798045 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
52798006 AGTTTAGACC
52798016 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
52798046 TTATCTCTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:52799324 original size:18 final size:18
Alignment explanation
Indices: 52799297--52799332 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
52799287 TTAATTAATA
* *
52799297 AAATATAAACATAAACAT
1 AAATAAAAACAAAAACAT
52799315 AAATAAAAACAAAAACAT
1 AAATAAAAACAAAAACAT
52799333 TATTCTTAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.72, C:0.11, G:0.00, T:0.17
Consensus pattern (18 bp):
AAATAAAAACAAAAACAT
Found at i:52810879 original size:99 final size:100
Alignment explanation
Indices: 52810763--52811291 Score: 381
Period size: 123 Copynumber: 5.0 Consensus size: 100
52810753 GTTCAATGTG
*
52810763 TTTTTAACATGACAAGATAATGGCTAAATTTCAATTCTAATCCCTCTAA-TTTTATGGTTAACTT
1 TTTTTAACATGACAAGATAATGGCTAAATTTCAATTCTAATCCCTCTAATTTTTATGGTTAAATT
*
52810827 TCAGTTCTGATCCTTATATTTCACTCAAATTTATT
66 TCAGTTCTGATCCCTATATTTCACTCAAATTTATT
* * * * *
52810862 TTTTTTACATGAGAAGATAATTGCTAAATTTCAATTCTCATGCCTCTAATTTTTATGGTTAAATT
1 TTTTTAACATGACAAGATAATGGCTAAATTTCAATTCTAATCCCTCTAATTTTTATGGTTAAATT
* * *
52810927 TTAGTTTTGATCCCTATATTTCACTCAAATATAGCTCT
66 TCAGTTCTGATCCCTATATTTCACTCAAATTTA--T-T
52810965 AAGGCCTTCCTTATATGACACATGTCCAATGACAAGATAATGGCTAAACTTT-AATTCTAATCCC
1 ------TT--TT-TA--ACA---------TGACAAGATAATGGCTAAA-TTTCAATTCTAATCCC
* * ** *
52811029 TCTAATTTTTATGGTTAAATTTCAATTTTGATCTTTATATTTCACTCAAATTT-CT
45 TCTAATTTTTATGGTTAAATTTCAGTTCTGATCCCTATATTTCACTCAAATTTATT
* * * *
52811084 TTTTTACACA--AGAAGATAATTGCTAAGTTTCAATTCTAATCCCTCAAATTTTTATGGTTAAAT
1 TTTTTA-ACATGACAAGATAATGGCTAAATTTCAATTCTAATCCCTCTAATTTTTATGGTTAAAT
* * * *
52811147 TTTAGTTTTGATCCCTA-AGGCCCTCCTT-ACATGACACATGTCCCATGT
65 TTCAGTTCTGATCCCTATA-----T--TTCAC-T--CAAAT-T--TAT-T
* *
52811195 TCTTTTGACATGACAAGATAATGGCTAAATTTCAATTTTAATCCCTCTAATTTTTATGGTTAAAT
1 T-TTTTAACATGACAAGATAATGGCTAAATTTCAATTCTAATCCCTCTAATTTTTATGGTTAAAT
* * * *
52811260 TTGAGTT-TGATCCTTATGTTTCATTCAAATTT
65 TTCAGTTCTGATCCCTATATTTCACTCAAATTT
52811292 GAGATTTAAT
Statistics
Matches: 339, Mismatches: 45, Indels: 90
0.72 0.09 0.19
Matches are distributed among these distances:
97 4 0.01
98 58 0.17
99 44 0.13
100 43 0.13
102 2 0.01
103 4 0.01
104 7 0.02
106 7 0.02
107 2 0.01
108 1 0.00
109 5 0.01
110 2 0.01
111 9 0.03
112 13 0.04
113 56 0.17
114 3 0.01
119 1 0.00
123 75 0.22
124 3 0.01
ACGTcount: A:0.30, C:0.17, G:0.10, T:0.43
Consensus pattern (100 bp):
TTTTTAACATGACAAGATAATGGCTAAATTTCAATTCTAATCCCTCTAATTTTTATGGTTAAATT
TCAGTTCTGATCCCTATATTTCACTCAAATTTATT
Found at i:52810985 original size:235 final size:222
Alignment explanation
Indices: 52810532--52811163 Score: 783
Period size: 235 Copynumber: 2.8 Consensus size: 222
52810522 TGTCTAATAA
* * * * *
52810532 TAACATGAGAATAAAATGGTTAAATTTCAATACTAATCCCTCTAATTTTTTATGGTTAAATTTCA
1 TAACATGACAAGATAATGGCTAAATTTCAATTCTAATCCCTCTAA-TTTTTATGGTTAAATTTCA
* * * * * *
52810597 ATTTTGATTTTTATATTTCATTCAAATTTA-TTTTTTACCTGAGAAAATAGTGGCTAAATTTCAA
65 ATTTTGATCTTTATATTTCACTCAAATTTATTTTTTTACATGAGAAGATAATTGCTAAATTTCAA
* * * *
52810661 TTCTAATCCCCCTAATTTTTTATGGTTAAATTTCAGTTTTGATCCATGTATTTCACTCAAATTTA
130 TTCTAATCCCTCTAA-TTTTTATGGTTAAATTTTAGTTTTGATCCCTATATTTCACTCAAA-TTA
52810726 TAGCCCTAAGGCCTTCACATGACACATGTTC
193 TAGCCCTAAGGCCTTCACATGACACATG-TC
52810757 AATGTGTTTTTAACATGACAAGATAATGGCTAAATTTCAATTCTAATCCCTCTAA-TTTTATGGT
1 ----------TAACATGACAAGATAATGGCTAAATTTCAATTCTAATCCCTCTAATTTTTATGGT
* * * *
52810821 TAACTTTCAGTTCTGATCCTTATATTTCACTCAAATTTATTTTTTTTACATGAGAAGATAATTGC
56 TAAATTTCAATTTTGATCTTTATATTTCACTCAAATTTA-TTTTTTTACATGAGAAGATAATTGC
* *
52810886 TAAATTTCAATTCTCATGCCTCTAATTTTTATGGTTAAATTTTAGTTTTGATCCCTATATTTCAC
120 TAAATTTCAATTCTAATCCCTCTAATTTTTATGGTTAAATTTTAGTTTTGATCCCTATATTTCAC
* *
52810951 TCAAA-TATAGCTCTAAGGCCTTCCTTATATGACACATGTC
185 TCAAATTATAGCCCTAAGGCCTT-C--ACATGACACATGTC
*
52810991 -CA-ATGACAAGATAATGGCTAAACTTT-AATTCTAATCCCTCTAATTTTTATGGTTAAATTTCA
1 TAACATGACAAGATAATGGCTAAA-TTTCAATTCTAATCCCTCTAATTTTTATGGTTAAATTTCA
* ** *
52811053 ATTTTGATCTTTATATTTCACTCAAATTT-CTTTTTTACACAAGAAGATAATTGCTAAGTTTCAA
65 ATTTTGATCTTTATATTTCACTCAAATTTATTTTTTTACATGAGAAGATAATTGCTAAATTTCAA
*
52811117 TTCTAATCCCTCAAATTTTTATGGTTAAATTTTAGTTTTGATCCCTA
130 TTCTAATCCCTCTAATTTTTATGGTTAAATTTTAGTTTTGATCCCTA
52811164 AGGCCCTCCT
Statistics
Matches: 355, Mismatches: 35, Indels: 28
0.85 0.08 0.07
Matches are distributed among these distances:
221 75 0.21
222 37 0.10
223 47 0.13
232 16 0.05
233 43 0.12
234 44 0.12
235 93 0.26
ACGTcount: A:0.31, C:0.16, G:0.10, T:0.43
Consensus pattern (222 bp):
TAACATGACAAGATAATGGCTAAATTTCAATTCTAATCCCTCTAATTTTTATGGTTAAATTTCAA
TTTTGATCTTTATATTTCACTCAAATTTATTTTTTTACATGAGAAGATAATTGCTAAATTTCAAT
TCTAATCCCTCTAATTTTTATGGTTAAATTTTAGTTTTGATCCCTATATTTCACTCAAATTATAG
CCCTAAGGCCTTCACATGACACATGTC
Found at i:52818875 original size:31 final size:30
Alignment explanation
Indices: 52818851--52818908 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
52818841 TTTAAGGGGC
52818851 TCAAAAATTTTTTTACCAACTTTTAAGACG
1 TCAAAAATTTTTTTACCAACTTTTAAGACG
** *
52818881 TTTAAAATTTTTTTTCCAACTTTTAAGA
1 TCAAAAATTTTTTTACCAACTTTTAAGA
52818909 AATCCAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.34, C:0.14, G:0.05, T:0.47
Consensus pattern (30 bp):
TCAAAAATTTTTTTACCAACTTTTAAGACG
Found at i:52818918 original size:30 final size:30
Alignment explanation
Indices: 52818854--52818918 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 30
52818844 AAGGGGCTCA
** **
52818854 AAAATTTTTTTACCAACTTTTAAGACGTTT
1 AAAATTTTTTTACCAACTTTTAAGAAATCC
*
52818884 AAAATTTTTTTTCCAACTTTTAAGAAATCC
1 AAAATTTTTTTACCAACTTTTAAGAAATCC
52818914 AAAAT
1 AAAAT
52818919 CCCAATTTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.38, C:0.14, G:0.05, T:0.43
Consensus pattern (30 bp):
AAAATTTTTTTACCAACTTTTAAGAAATCC
Found at i:52825664 original size:19 final size:19
Alignment explanation
Indices: 52825640--52825682 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
52825630 AAAATGTAAA
52825640 TATTATGAATTAAATTTGT
1 TATTATGAATTAAATTTGT
** *
52825659 TATTATGTTTTAAATTTTT
1 TATTATGAATTAAATTTGT
52825678 TATTA
1 TATTA
52825683 AAGTGATTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (19 bp):
TATTATGAATTAAATTTGT
Found at i:52826487 original size:81 final size:81
Alignment explanation
Indices: 52826394--52826704 Score: 453
Period size: 81 Copynumber: 3.8 Consensus size: 81
52826384 TGTCATTGTC
* *
52826394 AAGAGAGAAACTCCGGGAAGA-CAAAATCTTCTACATAATTCTAATCCTCTGCAGGCACCTAGTG
1 AAGAGAGAAACTCCGGGAGGATC-AAATCTTCTACATAATTCTAATCCTCCGCAGGCACCTAGTG
52826458 GTTTAAATATCATCGTG
65 GTTTAAATATCATCGTG
*
52826475 AAGAGAGAAACTCCGGGAGGATCAAATCTTCTACATAATTCTAATCCTCCGCAAGCACCTAGTGG
1 AAGAGAGAAACTCCGGGAGGATCAAATCTTCTACATAATTCTAATCCTCCGCAGGCACCTAGTGG
* *
52826540 TTTAAACATCATTGTG
66 TTTAAATATCATCGTG
* * * * *
52826556 AAGAAAGAAACTCCGAGAGGATCAAATCTTCTTCATAATTATAATCCTCCGCAGGCACCTAATGG
1 AAGAGAGAAACTCCGGGAGGATCAAATCTTCTACATAATTCTAATCCTCCGCAGGCACCTAGTGG
*
52826621 TATAAATATCATCGTG
66 TTTAAATATCATCGTG
* * * ** *
52826637 AAGAGAGAAACTTCGGGAGGACCAAATCTTCTTCATAATTCTAATCCTCCATAGACACCTAGTGG
1 AAGAGAGAAACTCCGGGAGGATCAAATCTTCTACATAATTCTAATCCTCCGCAGGCACCTAGTGG
52826702 TTT
66 TTT
52826705 TTCCTCCTTT
Statistics
Matches: 205, Mismatches: 24, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
81 204 1.00
82 1 0.00
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (81 bp):
AAGAGAGAAACTCCGGGAGGATCAAATCTTCTACATAATTCTAATCCTCCGCAGGCACCTAGTGG
TTTAAATATCATCGTG
Found at i:52827936 original size:18 final size:18
Alignment explanation
Indices: 52827913--52827947 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
52827903 TACATGCGCT
*
52827913 ATTTTTTCAACTAAAATA
1 ATTTTTTCAACCAAAATA
*
52827931 ATTTTTTGAACCAAAAT
1 ATTTTTTCAACCAAAAT
52827948 TTTCAAATAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.11, G:0.03, T:0.43
Consensus pattern (18 bp):
ATTTTTTCAACCAAAATA
Found at i:52828600 original size:81 final size:80
Alignment explanation
Indices: 52828465--52829014 Score: 686
Period size: 81 Copynumber: 6.8 Consensus size: 80
52828455 TGCCATTAAA
* *
52828465 AATGTCATCATGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCATAATTCTAGTCCTCCACA
1 AATGTCATCGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCATAATTCTAATCCTCCACA
52828530 GGCATCTAGTGGTTTT
66 GGCA-CTAGTGGTTTT
*
52828546 AATGTCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCATAATTCTAATCCTCCACA
1 AATGTCATCGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCATAATTCTAATCCTCCACA
**
52828611 AACACTCAGTGGTTTT
66 GGCACT-AGTGGTTTT
* * * * *
52828627 AATGTCATTGTGAAGAGAAAAACTCCGGGAGAACGAAATCCTCTTCATAACTCTAATCCTCCACA
1 AATGTCATCGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCATAATTCTAATCCTCCACA
*
52828692 GGCACTTAGTAGTTTT
66 GGCAC-TAGTGGTTTT
* * * * * * **
52828708 AATGTCATTGTGAAGAGAGAAACTCCGGGAGGACTAGATCCTATTCATAATTTTAATTCTCTGCA
1 AATGTCATCGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCATAATTCTAATCCTCCACA
*
52828773 GGCACCTAGTGGTTTA
66 GGCA-CTAGTGGTTTT
** * * * * *** *
52828789 AACATCATCGTGAATAGAGAATCTCCGGGAGGACCAGATCCTATTCATAATTCTAATCCTTTGCT
1 AATGTCATCGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCATAATTCTAATCCTCCACA
* *
52828854 TGCACCAAGTGGTTTT
66 GGCA-CTAGTGGTTTT
* * *
52828870 AATGTCATCGTGAAGCGAGAAACTCCGGGAGGACCAAATCCTCTTCATAATTCTAATTCTCCGCA
1 AATGTCATCGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCATAATTCTAATCCTCCACA
* *
52828935 AGTAGCTAGTGGTTTT
66 GGCA-CTAGTGGTTTT
* * *
52828951 AATGTCATCGTGAAAAGAGAAACTCCGGGAGGACCAAATCCTCTTCATAACTCTAATCTTCCAC
1 AATGTCATCGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCATAATTCTAATCCTCCAC
52829015 TAACTCCGGG
Statistics
Matches: 408, Mismatches: 58, Indels: 6
0.86 0.12 0.01
Matches are distributed among these distances:
80 2 0.00
81 404 0.99
82 2 0.00
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (80 bp):
AATGTCATCGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCATAATTCTAATCCTCCACA
GGCACTAGTGGTTTT
Found at i:52830345 original size:76 final size:76
Alignment explanation
Indices: 52830231--52830597 Score: 522
Period size: 76 Copynumber: 4.8 Consensus size: 76
52830221 GAGCAACGTC
* * * * * *
52830231 ATCCCCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAAATTGAAATAAGAGCAA
1 ATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGAAGTAAGAGCGA
*
52830295 GATCTTTTCAT
66 GATCATTTCAT
*
52830306 ATCCTCTTGAAATTGAAGTAAAGCTGGATATCACGTCTTTATCTCTGAAATTGAAGTAAGAGCGA
1 ATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGAAGTAAGAGCGA
* *
52830371 GATCTTTTCCT
66 GATCATTTCAT
* *
52830382 ATCCTCTTGAAATTGAAGTAAAGCTGGACATCAAGTCTTTATTTCTGAAATTGAAGTAAGAGCGA
1 ATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGAAGTAAGAGCGA
52830447 GATCATTTCAT
66 GATCATTTCAT
* *
52830458 ATTCTCTTGAGATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGAAGTAAGAGCGA
1 ATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGAAGTAAGAGCGA
*
52830523 GATCATTCCAT
66 GATCATTTCAT
* * * *
52830534 ATTCTCTTGAGATTGAAGTAAAGCTGGATGA-CAAGCCTTCATCCATCTGAAATTGAAGTAAGAG
1 ATCCTCTTGAAATTGAAGTAAAGCTGGAT-ATCAAGTCTTTAT-C-TCTGAAATTGAAGTAAGAG
52830598 TAAGATAAAG
Statistics
Matches: 270, Mismatches: 18, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
75 21 0.08
76 228 0.84
77 2 0.01
78 19 0.07
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32
Consensus pattern (76 bp):
ATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGAAGTAAGAGCGA
GATCATTTCAT
Found at i:52830355 original size:38 final size:38
Alignment explanation
Indices: 52830238--52830594 Score: 220
Period size: 38 Copynumber: 9.4 Consensus size: 38
52830228 GTCATCCCCT
* * * *
52830238 TGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTC
1 TGAAATTGAAGTAAAGCTGGAGATCAAGTCTTTATCTC
* * *** *
52830275 TGAAATTGAAATAAGAGC--AAGATCTTTTC-ATATCCTC
1 TGAAATTGAAGTAA-AGCTGGAGATCAAGTCTTTAT-CTC
* *
52830312 TTGAAATTGAAGTAAAGCTGGATATCACGTCTTTATCTC
1 -TGAAATTGAAGTAAAGCTGGAGATCAAGTCTTTATCTC
*** *
52830351 TGAAATTGAAGTAAGAGC--GAGATCTTTTC-CTATCCTC
1 TGAAATTGAAGTAA-AGCTGGAGATCAAGTCTTTAT-CTC
* *
52830388 TTGAAATTGAAGTAAAGCTGGACATCAAGTCTTTATTTC
1 -TGAAATTGAAGTAAAGCTGGAGATCAAGTCTTTATCTC
** *
52830427 TGAAATTGAAGTAAGAGC--GAGATCATTTC-ATATTCTC
1 TGAAATTGAAGTAA-AGCTGGAGATCAAGTCTTTA-TCTC
* *
52830464 TTGAGATTGAAGTAAAGCTGGATATCAAGTCTTTATCTC
1 -TGAAATTGAAGTAAAGCTGGAGATCAAGTCTTTATCTC
* **
52830503 TGAAATTGAAGTAAGAGC--GAGATC-ATTCCATATTCTC
1 TGAAATTGAAGTAA-AGCTGGAGATCAAGTCTTTA-TCTC
* * *
52830540 TTGAGATTGAAGTAAAGCTGGATGA-CAAGCCTTCATCCATC
1 -TGAAATTGAAGTAAAGCTGGA-GATCAAGTCTTTAT-C-TC
52830581 TGAAATTGAAGTAA
1 TGAAATTGAAGTAA
52830595 GAGTAAGATA
Statistics
Matches: 243, Mismatches: 49, Indels: 53
0.70 0.14 0.15
Matches are distributed among these distances:
36 13 0.05
37 62 0.26
38 96 0.40
39 43 0.18
40 27 0.11
41 2 0.01
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (38 bp):
TGAAATTGAAGTAAAGCTGGAGATCAAGTCTTTATCTC
Found at i:52830457 original size:152 final size:149
Alignment explanation
Indices: 52830186--52830603 Score: 533
Period size: 152 Copynumber: 2.8 Consensus size: 149
52830176 GACGTAGAAG
* * *
52830186 TGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGC-A-A-CGT-C-ATCCCCTTGAAATTG
1 TGGATATCACGTCTTTATCTCTGAAATTGAAGTAAGAGCGAGATCTTCCTATCCTCTTGAAATTG
* * * * * *
52830246 AAGTAGAG-TGGATAACACGTCTTTATCTCTGAAATTGAAATAAGAGCAAGATCTTTTCATATCC
66 AAGTAAAGCTGGA-CACAAGTCTTTATATCTGAAATTGAAGTAAGAGCAAGATCATTTCATATCC
52830310 TCTTGAAATTGAAGTAAAGC
130 TCTTGAAATTGAAGTAAAGC
52830330 TGGATATCACGTCTTTATCTCTGAAATTGAAGTAAGAGCGAGATCTTTTCCTATCCTCTTGAAAT
1 TGGATATCACGTCTTTATCTCTGAAATTGAAGTAAGAGCGAGATC--TTCCTATCCTCTTGAAAT
* *
52830395 TGAAGTAAAGCTGGACATCAAGTCTTTATTTCTGAAATTGAAGTAAGAGCGAGATCATTTCATAT
64 TGAAGTAAAGCTGGACA-CAAGTCTTTATATCTGAAATTGAAGTAAGAGCAAGATCATTTCATAT
* *
52830460 TCTCTTGAGATTGAAGTAAAGC
128 CCTCTTGAAATTGAAGTAAAGC
* * *
52830482 TGGATATCAAGTCTTTATCTCTGAAATTGAAGTAAGAGCGAGATCATTCCATATTCTCTTGAGAT
1 TGGATATCACGTCTTTATCTCTGAAATTGAAGTAAGAGCGAGATC-TTCC-TATCCTCTTGAAAT
* * * *
52830547 TGAAGTAAAGCTGGATGACAAGCCTTCATCCATCTGAAATTGAAGTAAGAGTAAGAT
64 TGAAGTAAAGCTGGA-CACAAGTCTTTAT--ATCTGAAATTGAAGTAAGAGCAAGAT
52830604 AAAGCACCAA
Statistics
Matches: 239, Mismatches: 22, Indels: 16
0.86 0.08 0.06
Matches are distributed among these distances:
144 38 0.16
145 1 0.00
146 1 0.00
147 1 0.00
149 1 0.00
150 1 0.00
151 26 0.11
152 146 0.61
153 1 0.00
154 23 0.10
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32
Consensus pattern (149 bp):
TGGATATCACGTCTTTATCTCTGAAATTGAAGTAAGAGCGAGATCTTCCTATCCTCTTGAAATTG
AAGTAAAGCTGGACACAAGTCTTTATATCTGAAATTGAAGTAAGAGCAAGATCATTTCATATCCT
CTTGAAATTGAAGTAAAGC
Found at i:52830969 original size:6 final size:6
Alignment explanation
Indices: 52830941--52831003 Score: 76
Period size: 6 Copynumber: 10.3 Consensus size: 6
52830931 ATTTAAAATG
*
52830941 ATTTAA ATTGAA ATTT-- ATCTTAA ATTTAA ATTTAA TTATTTAA ATTTAA
1 ATTTAA ATTTAA ATTTAA AT-TTAA ATTTAA ATTTAA --ATTTAA ATTTAA
52830990 ATTTAA ATTTAA AT
1 ATTTAA ATTTAA AT
52831004 ACTAAATTCA
Statistics
Matches: 50, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
4 2 0.04
5 2 0.04
6 38 0.76
7 2 0.04
8 6 0.12
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (6 bp):
ATTTAA
Found at i:52831021 original size:26 final size:26
Alignment explanation
Indices: 52830966--52831022 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
52830956 TATCTTAAAT
* * * *
52830966 TTAAATTTAATTATTTAAATTTAAAT
1 TTAAATTTAAATATCTAAATTCAAAA
52830992 TTAAATTTAAATA-CTAAATTCAAACA
1 TTAAATTTAAATATCTAAATTCAAA-A
52831018 TTAAA
1 TTAAA
52831023 AATTAAGAGT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 9 0.35
26 17 0.65
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (26 bp):
TTAAATTTAAATATCTAAATTCAAAA
Found at i:52831700 original size:12 final size:12
Alignment explanation
Indices: 52831685--52831731 Score: 58
Period size: 12 Copynumber: 3.8 Consensus size: 12
52831675 TCATAAATGC
*
52831685 TATTAATAATGA
1 TATTAATAATAA
52831697 TATTAATAATAA
1 TATTAATAATAA
*
52831709 TAATAATAAATAAA
1 TATTAAT-AAT-AA
52831723 TATTAATAA
1 TATTAATAA
52831732 ATAAAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
12 17 0.57
13 5 0.17
14 8 0.27
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (12 bp):
TATTAATAATAA
Found at i:52831729 original size:14 final size:14
Alignment explanation
Indices: 52831696--52831736 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
52831686 ATTAATAATG
52831696 ATATTAAT-AAT-A
1 ATATTAATAAATAA
*
52831708 ATAATAATAAATAA
1 ATATTAATAAATAA
52831722 ATATTAATAAATAA
1 ATATTAATAAATAA
52831736 A
1 A
52831737 AAAGGGAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 7 0.28
13 3 0.12
14 15 0.60
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
ATATTAATAAATAA
Found at i:52832029 original size:21 final size:23
Alignment explanation
Indices: 52831985--52832029 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
52831975 TTTTTTTACT
*
52831985 AAAAAAAACATAAAAGATATAAA
1 AAAAAAAACATAAAAGATAGAAA
52832008 AAAAAAAACA-AAAAGA-AGAAA
1 AAAAAAAACATAAAAGATAGAAA
52832029 A
1 A
52832030 GGAAGGAGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 5 0.24
22 6 0.29
23 10 0.48
ACGTcount: A:0.82, C:0.04, G:0.07, T:0.07
Consensus pattern (23 bp):
AAAAAAAACATAAAAGATAGAAA
Found at i:52832643 original size:162 final size:163
Alignment explanation
Indices: 52832464--52832793 Score: 450
Period size: 162 Copynumber: 2.0 Consensus size: 163
52832454 AATTTTAATT
** * * *
52832464 GGTTTATAATTTAGTCCTTTGACTGTTTGATTACACCAGAGATTGCCACGTGTCATGTTTTGGGA
1 GGTTTATAAACTAGTCCTTTGACTGTTTGACTACACCAAAGATTGCCACGTGTCATCTTTTGGGA
* * * *
52832529 TTATTTGTGCATTTAGTCCTTTTCATTTTTAATTTGTTTTAATTTAATCC-TAGATCAACTTAGT
66 TTATTTCTGCATTTAGTCCTTTTCATTTCTAATTTGTCTTAATTTAATCCTTAAATCAA-TTAGT
* * *
52832593 -TTTAATTTCGAAATTGGGCC-AATAATTTTTCAA
130 ATTTAATTACAAAATTGGCCCTAA-AATTTTTCAA
* * *
52832626 GGTTTATAAACTAGTCCTTTGACTGTTTGACTGCACCAAAGGTTGCCACGTGTCATCTTTTTGGA
1 GGTTTATAAACTAGTCCTTTGACTGTTTGACTACACCAAAGATTGCCACGTGTCATCTTTTGGGA
* * *
52832691 TTATTTCTGTATTTAGTCCTTTTTATTTCTAATTTGTCTTAATTTAATCCTTAAATCAATTATTA
66 TTATTTCTGCATTTAGTCCTTTTCATTTCTAATTTGTCTTAATTTAATCCTTAAATCAATTAGTA
*
52832756 TTTAATTACAAAATTGGCCCTAAGATTTTTCAA
131 TTTAATTACAAAATTGGCCCTAAAATTTTTCAA
52832789 GGTTT
1 GGTTT
52832794 TCAAATGGGT
Statistics
Matches: 146, Mismatches: 19, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
162 106 0.73
163 38 0.26
164 2 0.01
ACGTcount: A:0.25, C:0.15, G:0.14, T:0.46
Consensus pattern (163 bp):
GGTTTATAAACTAGTCCTTTGACTGTTTGACTACACCAAAGATTGCCACGTGTCATCTTTTGGGA
TTATTTCTGCATTTAGTCCTTTTCATTTCTAATTTGTCTTAATTTAATCCTTAAATCAATTAGTA
TTTAATTACAAAATTGGCCCTAAAATTTTTCAA
Found at i:52832993 original size:29 final size:30
Alignment explanation
Indices: 52832872--52833259 Score: 180
Period size: 30 Copynumber: 13.1 Consensus size: 30
52832862 GCTTATAGGT
** *
52832872 CCCAAAACAATCCAGAAATTA-TATTTTAAC
1 CCCAAAACTCTCCA-AAATTACCATTTTAAC
* ** *
52832902 CCCAAAACTTTTCCAAAATTA-TGTTTTGAC
1 CCCAAAAC-TCTCCAAAATTACCATTTTAAC
* * *
52832932 CCCAAAACTTTTCTAAATTTA-CATTTTAAC
1 CCCAAAAC-TCTCCAAAATTACCATTTTAAC
* *
52832962 CCCAAAACTCTCGAAAATTACCATTTTACC
1 CCCAAAACTCTCCAAAATTACCATTTTAAC
* * **
52832992 CCCGAATCT-TTTAAAATT-CCATTTTTAAC
1 CCCAAAACTCTCCAAAATTACCA-TTTTAAC
* ** * *
52833021 CCC-GATTTCACCGAAAATTACCATTTTATC
1 CCCAAAACTCTCC-AAAATTACCATTTTAAC
*
52833051 CCCGAAACT-TCCAAAATT-CCATTTTTAAC
1 CCCAAAACTCTCCAAAATTACCA-TTTTAAC
* ** * *
52833080 CCC-GATTTCACCGAAAATTACCATTTTATC
1 CCCAAAACTCTCC-AAAATTACCATTTTAAC
*
52833110 CCTAAAACT-TCCAAAATT-CCATTTTTAAC
1 CCCAAAACTCTCCAAAATTACCA-TTTTAAC
* ** * *
52833139 CCC-GATTTCACCAAAAATTACCATTTTATC
1 CCCAAAACTCTCC-AAAATTACCATTTTAAC
*
52833169 CCCGAAACT-TCCAAAATT-CCATTGTTAA-
1 CCCAAAACTCTCCAAAATTACCATT-TTAAC
** ** * *
52833197 CCCTGATTTCACCAAAAATTACCATTTTATC
1 CCCAAAACTCTCC-AAAATTACCATTTTAAC
*
52833228 CCCGAAACT-TCCAAAATT-CCATTTTTAAC
1 CCCAAAACTCTCCAAAATTACCA-TTTTAAC
52833257 CCC
1 CCC
52833260 GATTTCACCG
Statistics
Matches: 272, Mismatches: 63, Indels: 47
0.71 0.16 0.12
Matches are distributed among these distances:
28 29 0.11
29 84 0.31
30 130 0.48
31 29 0.11
ACGTcount: A:0.35, C:0.29, G:0.04, T:0.33
Consensus pattern (30 bp):
CCCAAAACTCTCCAAAATTACCATTTTAAC
Found at i:52833018 original size:59 final size:59
Alignment explanation
Indices: 52832973--52833399 Score: 617
Period size: 59 Copynumber: 7.3 Consensus size: 59
52832963 CCAAAACTCT
* * **
52832973 CGAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCCGATTTCAC
1 CGAAAATTACCATTTTATCCCCGAAACTTCCAAAATTCCATTTTTAACCCCGATTTCAC
52833032 CGAAAATTACCATTTTATCCCCGAAACTTCCAAAATTCCATTTTTAACCCCGATTTCAC
1 CGAAAATTACCATTTTATCCCCGAAACTTCCAAAATTCCATTTTTAACCCCGATTTCAC
**
52833091 CGAAAATTACCATTTTATCCCTAAAACTTCCAAAATTCCATTTTTAACCCCGATTTCAC
1 CGAAAATTACCATTTTATCCCCGAAACTTCCAAAATTCCATTTTTAACCCCGATTTCAC
* * *
52833150 CAAAAATTACCATTTTATCCCCGAAACTTCCAAAATTCCATTGTTAACCCTGATTTCAC
1 CGAAAATTACCATTTTATCCCCGAAACTTCCAAAATTCCATTTTTAACCCCGATTTCAC
*
52833209 CAAAAATTACCATTTTATCCCCGAAACTTCCAAAATTCCATTTTTAACCCCGATTTCAC
1 CGAAAATTACCATTTTATCCCCGAAACTTCCAAAATTCCATTTTTAACCCCGATTTCAC
* * *
52833268 CGAAAATTACCATTTTA-CCCTCGAAGCTT-CTAAATTCCGTTTTTAACCCCGATTTCAC
1 CGAAAATTACCATTTTATCCC-CGAAACTTCCAAAATTCCATTTTTAACCCCGATTTCAC
* * * ** * * * **
52833326 CAAAAATTACCATTTTACCCCCGAATCTTTTAAGATTCCATCTTCAACCCCGATCACAC
1 CGAAAATTACCATTTTATCCCCGAAACTTCCAAAATTCCATTTTTAACCCCGATTTCAC
52833385 C-AAAATTACCATTTT
1 CGAAAATTACCATTTT
52833400 GCCCCCCCCG
Statistics
Matches: 338, Mismatches: 27, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
58 67 0.20
59 271 0.80
ACGTcount: A:0.32, C:0.30, G:0.05, T:0.33
Consensus pattern (59 bp):
CGAAAATTACCATTTTATCCCCGAAACTTCCAAAATTCCATTTTTAACCCCGATTTCAC
Found at i:52845471 original size:68 final size:68
Alignment explanation
Indices: 52845362--52846004 Score: 827
Period size: 68 Copynumber: 9.0 Consensus size: 68
52845352 CTGCAGGTCT
52845362 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAA
1 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAA
52845427 GAG
66 GAG
52845430 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAA
1 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAA
52845495 GAG
66 GAG
52845498 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAA
1 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAA
52845563 GAG
66 GAG
*
52845566 CAAGGTCATTTCCTATCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATT
1 CAACGTCA--T-C---CC-CTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATT
52845631 GAAGTAAGAG
59 GAAGTAAGAG
*
52845641 CAACGTCATCCCCTCGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAA
1 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAA
52845706 GAG
66 GAG
*
52845709 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAATAA
1 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAA
52845774 GAG
66 GAG
* * * *
52845777 CAAGATCTTTTCATATCCTCTTGAAATTGAAGTAAAGCTGGATATCACGTCTTTATCTCTGAAAT
1 C-A-A-C--GTC--ATCCCCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAAAT
52845842 TGAAGTAAGAG
58 TGAAGTAAGAG
* * * * * * *
52845853 CGAGATCTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGACATCAAGTCTTTATTTCTGAAATT
1 C-A-A-C-GT-C-ATCCCCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAAATT
52845918 GAAGTAAGAG
59 GAAGTAAGAG
* * * * * * *
52845928 CGAGATCATTTCATATTCTCTTGAGATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAAT
1 C-A-A-C--GTC--ATCCCCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAAAT
52845993 TGAAGTAAGAG
58 TGAAGTAAGAG
52846004 C
1 C
52846005 GAGATCATTC
Statistics
Matches: 539, Mismatches: 18, Indels: 28
0.92 0.03 0.05
Matches are distributed among these distances:
68 265 0.49
69 3 0.01
70 2 0.00
71 2 0.00
72 1 0.00
73 3 0.01
74 2 0.00
75 155 0.29
76 106 0.20
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (68 bp):
CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAA
GAG
Found at i:52845661 original size:143 final size:142
Alignment explanation
Indices: 52845362--52846081 Score: 870
Period size: 143 Copynumber: 5.0 Consensus size: 142
52845352 CTGCAGGTCT
52845362 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAA
1 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAA
*
52845427 GAGCAACGTCA-T-C---CC-CTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAA
66 GAGCAAGGTCATTCCTATCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAA
52845486 TTGAAGTAAGAG
131 TTGAAGTAAGAG
52845498 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAA
1 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAA
52845563 GAGCAAGGTCATTTCCTATCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAA
66 GAGCAAGGTCA-TTCCTATCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAA
52845628 ATTGAAGTAAGAG
130 ATTGAAGTAAGAG
*
52845641 CAACGTCATCCCCTCGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAA
1 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAA
*
52845706 GAGCAACGTCA-T-C---CC-CTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAA
66 GAGCAAGGTCATTCCTATCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAA
*
52845765 TTGAAATAAGAG
131 TTGAAGTAAGAG
* * * *
52845777 CAAGATCTTTTCATATCCTCTTGAAATTGAAGTAAAGCTGGATATCACGTCTTTATCTCTGAAAT
1 C-A-A-C--GTC--ATCCCCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAAAT
* * * * * * *
52845842 TGAAGTAAGAGCGAGATCTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGACATCAAGTCTTTA
58 TGAAGTAAGAGCAAGGTCATTCCTATCCTCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTA
*
52845907 TTTCTGAAATTGAAGTAAGAG
122 TCTCTGAAATTGAAGTAAGAG
* * * * * * *
52845928 CGAGATCATTTCATATTCTCTTGAGATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAAT
1 C-A-A-C--GTC--ATCCCCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAAAT
* * * * * * * * *
52845993 TGAAGTAAGAGCGAGATCATTCCATATTCTCTTGAGATTGAAGTAAAGCTGGATGACAAGCCTTC
58 TGAAGTAAGAGCAAGGTCATTCC-TATCCTCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTT
52846058 ATCCCTCTGAAATTGAAGTAAGAG
121 AT--CTCTGAAATTGAAGTAAGAG
52846082 TAAGATAAAG
Statistics
Matches: 526, Mismatches: 33, Indels: 32
0.89 0.06 0.05
Matches are distributed among these distances:
136 131 0.25
137 3 0.01
138 2 0.00
139 2 0.00
140 1 0.00
141 3 0.01
142 2 0.00
143 150 0.29
144 41 0.08
145 1 0.00
146 1 0.00
149 2 0.00
150 17 0.03
151 115 0.22
152 36 0.07
154 19 0.04
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (142 bp):
CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAA
GAGCAAGGTCATTCCTATCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAA
TTGAAGTAAGAG
Found at i:52845738 original size:211 final size:212
Alignment explanation
Indices: 52845369--52846081 Score: 973
Period size: 211 Copynumber: 3.3 Consensus size: 212
52845359 TCTCAACGTC
* *
52845369 ATCCCCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
1 ATCCTCTTGAAATTGAAGTAAAGCTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
52845433 CGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAG
66 CGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAG
52845498 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAA
131 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAA
*
52845563 GAGCAAGGTCATTTCCT
196 GAGCAAGATCATTTCCT
*
52845580 ATCCTCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
1 ATCCTCTTGAAATTGAAGTAAAGCTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
*
52845644 CGTCATCCCCTCGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAG
66 CGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAG
*
52845709 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAATAA
131 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAA
* *
52845774 GAGCAAGATCTTTTCAT
196 GAGCAAGATCATTTCCT
*
52845791 ATCCTCTTGAAATTGAAGTAAAGCTGGATATCACGTCTTTATCTCTGAAATTGAAGTAAGAGCGA
1 ATCCTCTTGAAATTGAAGTAAAGCTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGC-A
* * * * * * *
52845856 GATCTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGACATCAAGTCTTTATTTCTGAAATTGAA
65 -A-C-GT-C-ATCCCCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAAATTGAA
* * * * * * *
52845921 GTAAGAGCGAGATCATTTCATATTCTCTTGAGATTGAAGTAAAGCTGGATATCAAGTCTTTATCT
124 GTAAGAGC-A-A-C--GTC--ATCCCCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCT
*
52845986 CTGAAATTGAAGTAAGAGCGAGATCA-TTCCAT
181 CTGAAATTGAAGTAAGAGCAAGATCATTTCC-T
* * * * * *
52846018 ATTCTCTTGAGATTGAAGTAAAGCTGGATGACAAGCCTTCATCCCTCTGAAATTGAAGTAAGAG
1 ATCCTCTTGAAATTGAAGTAAAGCTGGATAACACGTCTTTAT--CTCTGAAATTGAAGTAAGAG
52846082 TAAGATAAAG
Statistics
Matches: 449, Mismatches: 34, Indels: 20
0.89 0.07 0.04
Matches are distributed among these distances:
211 227 0.51
212 38 0.08
213 1 0.00
214 1 0.00
215 1 0.00
216 1 0.00
217 1 0.00
218 20 0.04
219 35 0.08
220 1 0.00
221 1 0.00
222 1 0.00
224 2 0.00
226 22 0.05
227 77 0.17
229 20 0.04
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (212 bp):
ATCCTCTTGAAATTGAAGTAAAGCTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
CGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAG
CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAA
GAGCAAGATCATTTCCT
Found at i:52845830 original size:76 final size:74
Alignment explanation
Indices: 52845369--52846087 Score: 820
Period size: 68 Copynumber: 9.9 Consensus size: 74
52845359 TCTCAACGTC
* *
52845369 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGC-A-
1 ATCCTCTTGAAATTGAAGTAAAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAG
*
52845432 A-C-GTC--
66 ATCTTTCAT
* *
52845437 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGC-A-
1 ATCCTCTTGAAATTGAAGTAAAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAG
*
52845500 A-C-GTC--
66 ATCTTTCAT
* *
52845505 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAG
1 ATCCTCTTGAAATTGAAGTAAAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAG
* *
52845570 GTCATTTCCT
66 ATC-TTTCAT
*
52845580 ATCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGC-A-
1 ATCCTCTTGAAATTGAAGTAAAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAG
*
52845643 A-C-GTC--
66 ATCTTTCAT
* * *
52845648 ATCCCCTCGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGC-A-
1 ATCCTCTTGAAATTGAAGTAAAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAG
*
52845711 A-C-GTC--
66 ATCTTTCAT
* * *
52845716 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAATAAGAGCAAG
1 ATCCTCTTGAAATTGAAGTAAAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAG
52845781 ATCTTTTCAT
66 ATC-TTTCAT
* *
52845791 ATCCTCTTGAAATTGAAGTAAAGCTGGATATCACGTCTTTATCTCTGAAATTGAAGTAAGAGCGA
1 ATCCTCTTGAAATTGAAGTAAAG-TGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
*
52845856 GATCTTTCCT
65 GATCTTTCAT
* * * * *
52845866 ATCCTCTTGAAATTGAAGTAAAGCTGGACATCAAGTCTTTATTTCTGAAATTGAAGTAAGAGCGA
1 ATCCTCTTGAAATTGAAGTAAAG-TGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
52845931 GATCATTTCAT
65 GATC-TTTCAT
* * * * *
52845942 ATTCTCTTGAGATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGAAGTAAGAGCGA
1 ATCCTCTTGAAATTGAAGTAAAG-TGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
*
52846007 GATCATTCCAT
65 GATC-TTTCAT
* * * * * * *
52846018 ATTCTCTTGAGATTGAAGTAAAGCTGGATGACAAGCCTTCATCCCTCTGAAATTGAAGTAAGAGT
1 ATCCTCTTGAAATTGAAGTAAAG-TGGATAACACGTCTTTAT--CTCTGAAATTGAAGTAAGAGC
52846083 AAGAT
63 AAGAT
52846088 AAAGCACCAA
Statistics
Matches: 602, Mismatches: 31, Indels: 26
0.91 0.05 0.04
Matches are distributed among these distances:
68 256 0.43
69 2 0.00
70 3 0.00
71 2 0.00
72 1 0.00
73 4 0.01
74 1 0.00
75 153 0.25
76 156 0.26
78 24 0.04
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (74 bp):
ATCCTCTTGAAATTGAAGTAAAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAG
ATCTTTCAT
Found at i:52846449 original size:17 final size:16
Alignment explanation
Indices: 52846427--52846504 Score: 79
Period size: 17 Copynumber: 4.8 Consensus size: 16
52846417 TTAAAATGAT
*
52846427 TTAAATTGAAATTTATC
1 TTAAATTTAAATTTA-C
*
52846444 TTAAATTTAAATTTAA
1 TTAAATTTAAATTTAC
52846460 TT--ATTTAAATTTACC
1 TTAAATTTAAATTTA-C
*
52846475 TTAAATTTAAATTTAAAT
1 TTAAATTTAAATTT--AC
52846493 TTAAATTTAAAT
1 TTAAATTTAAAT
52846505 ACTAAATTCA
Statistics
Matches: 52, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
14 11 0.21
15 2 0.04
16 2 0.04
17 24 0.46
18 12 0.23
19 1 0.02
ACGTcount: A:0.45, C:0.04, G:0.01, T:0.50
Consensus pattern (16 bp):
TTAAATTTAAATTTAC
Found at i:52846453 original size:6 final size:6
Alignment explanation
Indices: 52846425--52846504 Score: 85
Period size: 6 Copynumber: 13.3 Consensus size: 6
52846415 ATTTAAAATG
*
52846425 ATTTAA ATTGAA ATTT-- ATCTTAA ATTTAA ATTTAA TTATTTAA ATTT-A
1 ATTTAA ATTTAA ATTTAA AT-TTAA ATTTAA ATTTAA --ATTTAA ATTTAA
**
52846473 CCTTAA ATTTAA ATTTAA ATTTAA ATTTAA AT
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA AT
52846505 ACTAAATTCA
Statistics
Matches: 62, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
4 2 0.03
5 5 0.08
6 47 0.76
7 2 0.03
8 6 0.10
ACGTcount: A:0.45, C:0.04, G:0.01, T:0.50
Consensus pattern (6 bp):
ATTTAA
Found at i:52846472 original size:31 final size:29
Alignment explanation
Indices: 52846425--52846501 Score: 118
Period size: 31 Copynumber: 2.6 Consensus size: 29
52846415 ATTTAAAATG
* *
52846425 ATTTAAATTGAAATTTATCTTAAATTTAA
1 ATTTAAATTTAAATTTACCTTAAATTTAA
52846454 ATTTAATTATTTAAATTTACCTTAAATTTAA
1 ATTTAA--ATTTAAATTTACCTTAAATTTAA
52846485 ATTTAAATTTAAATTTA
1 ATTTAAATTTAAATTTA
52846502 AATACTAAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
29 17 0.39
31 27 0.61
ACGTcount: A:0.44, C:0.04, G:0.01, T:0.51
Consensus pattern (29 bp):
ATTTAAATTTAAATTTACCTTAAATTTAA
Found at i:52846511 original size:31 final size:29
Alignment explanation
Indices: 52846425--52846512 Score: 90
Period size: 31 Copynumber: 2.9 Consensus size: 29
52846415 ATTTAAAATG
*
52846425 ATTTAAATTGAAATTT-ATCTTAAATTTAA
1 ATTTAAATTTAAATTTAATC-TAAATTTAA
*
52846454 ATTTAATTATTTAAATTT-ACCTTAAATTTAA
1 ATTTAA--ATTTAAATTTAATC-TAAATTTAA
52846485 ATTTAAATTTAAATTTAAATACTAAATT
1 ATTTAAATTTAAATTT-AAT-CTAAATT
52846513 CAAACATTAA
Statistics
Matches: 51, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
29 16 0.31
31 34 0.67
32 1 0.02
ACGTcount: A:0.45, C:0.05, G:0.01, T:0.49
Consensus pattern (29 bp):
ATTTAAATTTAAATTTAATCTAAATTTAA
Found at i:52847201 original size:12 final size:12
Alignment explanation
Indices: 52847186--52847232 Score: 58
Period size: 12 Copynumber: 3.8 Consensus size: 12
52847176 TCATAAATGC
*
52847186 TATTAATAATGA
1 TATTAATAATAA
52847198 TATTAATAATAA
1 TATTAATAATAA
*
52847210 TAATAATAAATAAA
1 TATTAAT-AAT-AA
52847224 TATTAATAA
1 TATTAATAA
52847233 ATAAAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
12 17 0.57
13 5 0.17
14 8 0.27
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (12 bp):
TATTAATAATAA
Found at i:52847230 original size:14 final size:14
Alignment explanation
Indices: 52847197--52847237 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
52847187 ATTAATAATG
52847197 ATATTAAT-AAT-A
1 ATATTAATAAATAA
*
52847209 ATAATAATAAATAA
1 ATATTAATAAATAA
52847223 ATATTAATAAATAA
1 ATATTAATAAATAA
52847237 A
1 A
52847238 AAAGGGAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 7 0.28
13 3 0.12
14 15 0.60
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
ATATTAATAAATAA
Found at i:52847530 original size:21 final size:23
Alignment explanation
Indices: 52847486--52847530 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
52847476 TTTTTTTACT
*
52847486 AAAAAAAACATAAAAGATATAAA
1 AAAAAAAACATAAAAGATAGAAA
52847509 AAAAAAAACA-AAAAGA-AGAAA
1 AAAAAAAACATAAAAGATAGAAA
52847530 A
1 A
52847531 GGAAGGAGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 5 0.24
22 6 0.29
23 10 0.48
ACGTcount: A:0.82, C:0.04, G:0.07, T:0.07
Consensus pattern (23 bp):
AAAAAAAACATAAAAGATAGAAA
Found at i:52848165 original size:162 final size:163
Alignment explanation
Indices: 52847964--52848293 Score: 450
Period size: 162 Copynumber: 2.0 Consensus size: 163
52847954 AATTTTAATT
** * * *
52847964 GGTTTATAATTTAGTCCTTTGACTGTTTGATTACACCAGAGATTGCCACGTGTCATGTTTTGGGA
1 GGTTTATAAACTAGTCCTTTAACTGTTTGACTACACCAGAGATTGCCACGTGTCATCTTTTGGGA
* * *
52848029 TTATTTATGCATTTAGTCCTTTTCATTTTTAATTTGTTTTAATTTAATCC-TAGATCAACTTAGT
66 TTATTTATGCATTTAGTCCTTTTCATTTCTAATTTGTCTTAATTTAATCCTTAAATCAA-TTAGT
* * *
52848093 -TTTAATTTCGAAATTGGGCC-AATAATTTTTCAA
130 ATTTAATTACAAAATTGGCCCTAA-AATTTTTCAA
* * *
52848126 GGTTTATAAACTAGTCCTTTAACTGTTTGACTGCACCAGAGGTTGCCACGTGTCATCTTTTTGGA
1 GGTTTATAAACTAGTCCTTTAACTGTTTGACTACACCAGAGATTGCCACGTGTCATCTTTTGGGA
* * * *
52848191 TTATTTCTGTATTTAGTCCTTTTTATTTCTAATTTGTCTTAATTTAATCCTTAAATCAATTATTA
66 TTATTTATGCATTTAGTCCTTTTCATTTCTAATTTGTCTTAATTTAATCCTTAAATCAATTAGTA
*
52848256 TTTAATTACAAAATTGGCCCTAAGATTTTTCAA
131 TTTAATTACAAAATTGGCCCTAAAATTTTTCAA
52848289 GGTTT
1 GGTTT
52848294 TCAAATGGGT
Statistics
Matches: 146, Mismatches: 19, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
162 106 0.73
163 38 0.26
164 2 0.01
ACGTcount: A:0.25, C:0.15, G:0.14, T:0.46
Consensus pattern (163 bp):
GGTTTATAAACTAGTCCTTTAACTGTTTGACTACACCAGAGATTGCCACGTGTCATCTTTTGGGA
TTATTTATGCATTTAGTCCTTTTCATTTCTAATTTGTCTTAATTTAATCCTTAAATCAATTAGTA
TTTAATTACAAAATTGGCCCTAAAATTTTTCAA
Found at i:52848493 original size:29 final size:30
Alignment explanation
Indices: 52848382--52848523 Score: 128
Period size: 30 Copynumber: 4.7 Consensus size: 30
52848372 CCCCAAACAA
*
52848382 TCCAGAAATTATATTTTAACCCCAAAACTTT
1 TCCA-AAATTACATTTTAACCCCAAAACTTT
** *
52848413 TCCAAAATTATGTTTTGACCCCAAAACTTT
1 TCCAAAATTACATTTTAACCCCAAAACTTT
* * *
52848443 TCTAAATTTACATTTTAACCCCAAAAC-TC
1 TCCAAAATTACATTTTAACCCCAAAACTTT
* * * *
52848472 TCGAAAATTACCATTTTACCCCCGAATCTTT
1 TCCAAAATTA-CATTTTAACCCCAAAACTTT
*
52848503 T--AAAATTCCATTTTTAACCCC
1 TCCAAAATTACA-TTTTAACCCC
52848524 GATTTCACCG
Statistics
Matches: 92, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
28 2 0.02
29 24 0.26
30 60 0.65
31 6 0.07
ACGTcount: A:0.35, C:0.26, G:0.04, T:0.36
Consensus pattern (30 bp):
TCCAAAATTACATTTTAACCCCAAAACTTT
Found at i:52848967 original size:59 final size:59
Alignment explanation
Indices: 52848473--52848964 Score: 700
Period size: 59 Copynumber: 8.4 Consensus size: 59
52848463 CCAAAACTCT
* **
52848473 CGAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCCGATTTCAC
1 CGAAAATTACCATTTTACCCCCGAAACTTCCAAAATTCCATTTTTAACCCCGATTTCAC
* *
52848532 CGAAAATTACCATTTTATCCCTGAAACTTCCAAAATTCCATTTTTAACCCCGATTTCAC
1 CGAAAATTACCATTTTACCCCCGAAACTTCCAAAATTCCATTTTTAACCCCGATTTCAC
* *
52848591 CGAAAATTACCATTTTATCCCCGAAACTTCCAAAATTCCATTTTTAACCTCGATTTCAC
1 CGAAAATTACCATTTTACCCCCGAAACTTCCAAAATTCCATTTTTAACCCCGATTTCAC
* * *
52848650 CAAAAATTACCATTTTATCCCCGAAACTTCCAAAATTCCATTGTTAACCCCGATTTCAC
1 CGAAAATTACCATTTTACCCCCGAAACTTCCAAAATTCCATTTTTAACCCCGATTTCAC
* *
52848709 CAAAAATTACCATTTTATCCCCGAAACTTCCAAAATTCCATTTTTAACCCCGATTTCAC
1 CGAAAATTACCATTTTACCCCCGAAACTTCCAAAATTCCATTTTTAACCCCGATTTCAC
* ** **
52848768 CGAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCTTGATTTCAC
1 CGAAAATTACCATTTTACCCCCGAAACTTCCAAAATTCCATTTTTAACCCCGATTTCAC
* * *
52848827 CGAAAATTACCATTTTACCCTCGAAGCTT-CTAAATTCCATTTTTAACCCCGATTTCAC
1 CGAAAATTACCATTTTACCCCCGAAACTTCCAAAATTCCATTTTTAACCCCGATTTCAC
* * ** * * * **
52848885 CAAAAATTACCATTTTACCCCCGAATCTTTTAAGATTCCATCTTGAACCCCGATCACAC
1 CGAAAATTACCATTTTACCCCCGAAACTTCCAAAATTCCATTTTTAACCCCGATTTCAC
*
52848944 C-AAAATTACCATTTTGCCCCC
1 CGAAAATTACCATTTTACCCCC
52848965 CGAGTATCCA
Statistics
Matches: 397, Mismatches: 35, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
58 70 0.18
59 327 0.82
ACGTcount: A:0.32, C:0.30, G:0.05, T:0.33
Consensus pattern (59 bp):
CGAAAATTACCATTTTACCCCCGAAACTTCCAAAATTCCATTTTTAACCCCGATTTCAC
Found at i:52852048 original size:28 final size:30
Alignment explanation
Indices: 52852008--52852071 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 30
52851998 GAAAATGAAG
*
52852008 TTTTGGAGAG-TTT-GGGGTTAAAATATAA
1 TTTTGGAGAGTTTTAGGGGTAAAAATATAA
* *
52852036 TTTTGGA-ACGTTTTAGGGGTAAAAATGTCA
1 TTTTGGAGA-GTTTTAGGGGTAAAAATATAA
52852066 TTTTGG
1 TTTTGG
52852072 GAAAATTCGA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
27 1 0.03
28 8 0.27
29 3 0.10
30 18 0.60
ACGTcount: A:0.28, C:0.03, G:0.28, T:0.41
Consensus pattern (30 bp):
TTTTGGAGAGTTTTAGGGGTAAAAATATAA
Found at i:52852102 original size:28 final size:28
Alignment explanation
Indices: 52852053--52852128 Score: 91
Period size: 27 Copynumber: 2.7 Consensus size: 28
52852043 ACGTTTTAGG
* *
52852053 GGTAAAAATGTCATTTTGGGAAAATTCGA
1 GGTAAAAATGTAATTTTTGG-AAATTCGA
* *
52852082 GGTAAAAATGT-GTTTTTGGAAGTTCGA
1 GGTAAAAATGTAATTTTTGGAAATTCGA
*
52852109 GATAAAAATGTAATTTTTGG
1 GGTAAAAATGTAATTTTTGG
52852129 GCAAAAATTT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
27 17 0.41
28 13 0.32
29 11 0.27
ACGTcount: A:0.36, C:0.04, G:0.25, T:0.36
Consensus pattern (28 bp):
GGTAAAAATGTAATTTTTGGAAATTCGA
Found at i:52852196 original size:29 final size:29
Alignment explanation
Indices: 52852131--52852232 Score: 97
Period size: 29 Copynumber: 3.6 Consensus size: 29
52852121 ATTTTTGGGC
* *
52852131 AAAAATTTAATTTTTGAGAAGTTCGGGGGT
1 AAAAATGTAATTTTTGAGAAGTT-TGGGGT
* *
52852161 -AATATGTGATTTTTG-GAAGTTTGAGGGT
1 AAAAATGTAATTTTTGAGAAGTTTG-GGGT
52852189 AAAAATGTAATTTTTGAGACA-TTTGGGGT
1 AAAAATGTAATTTTTGAGA-AGTTTGGGGT
52852218 CAAAAATG--ATTTTTG
1 -AAAAATGTAATTTTTG
52852233 GATAATTCAG
Statistics
Matches: 61, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
27 1 0.02
28 17 0.28
29 29 0.48
30 13 0.21
31 1 0.02
ACGTcount: A:0.32, C:0.03, G:0.25, T:0.39
Consensus pattern (29 bp):
AAAAATGTAATTTTTGAGAAGTTTGGGGT
Found at i:52853099 original size:18 final size:18
Alignment explanation
Indices: 52853076--52853112 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
52853066 GTTTTTCTTC
52853076 TATATTATGCCATTTCTA
1 TATATTATGCCATTTCTA
52853094 TATATTATGCCATTTCTA
1 TATATTATGCCATTTCTA
52853112 T
1 T
52853113 GTCCCTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.16, G:0.05, T:0.51
Consensus pattern (18 bp):
TATATTATGCCATTTCTA
Found at i:52854021 original size:17 final size:17
Alignment explanation
Indices: 52853999--52854042 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 17
52853989 TAAATTTAAA
*
52853999 TAAACTTACAATAAATT
1 TAAACTTAAAATAAATT
52854016 TAAACTTAAAATAAATT
1 TAAACTTAAAATAAATT
*
52854033 TAAATTTAAA
1 TAAACTTAAA
52854043 TTCTATTTGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (17 bp):
TAAACTTAAAATAAATT
Found at i:52854226 original size:81 final size:81
Alignment explanation
Indices: 52854099--52854508 Score: 586
Period size: 81 Copynumber: 5.1 Consensus size: 81
52854089 GGCTTCAACA
* * * **
52854099 CTAATCCTCCGCAGGCACCTAGTGGTTTTATTGTCATTGTGAAGAGAGAAACTCTAGGAGGACCA
1 CTAATCTTCCGCAGGCACCTAGTGGTTTTAATGTCATTATGAAGAGAGAAACTCCGGGAGGACCA
52854164 AATCCTCTTCACAATT
66 AATCCTCTTCACAATT
* * * *
52854180 CTAATCTTTCGCAGGCACCTAATGGTTTTAATGTCATTGTGAAGAGAGAAACTCCGGGAAGACCA
1 CTAATCTTCCGCAGGCACCTAGTGGTTTTAATGTCATTATGAAGAGAGAAACTCCGGGAGGACCA
*
52854245 AATCCTCTTTACAATT
66 AATCCTCTTCACAATT
* * * * * **
52854261 CTAATCCTCCGCAAGCAGCTAGTGGTTTTAATGTCATTATCAAGTGAGAAACTCCGGGAGGATTA
1 CTAATCTTCCGCAGGCACCTAGTGGTTTTAATGTCATTATGAAGAGAGAAACTCCGGGAGGACCA
* *
52854326 AATCCTCTTTATAATT
66 AATCCTCTTCACAATT
* *
52854342 CTAATCTTCCGCAGGCACCTAGTGGTCTTAATGTCATTATGAAGAGAGAAACTCCAGGAGGACCA
1 CTAATCTTCCGCAGGCACCTAGTGGTTTTAATGTCATTATGAAGAGAGAAACTCCGGGAGGACCA
*
52854407 AATCTTCTTCACAATT
66 AATCCTCTTCACAATT
*
52854423 CTAATCTTCCGCAGGCACCTAGTGGTCTTAATGTCATTATGAAGAGAGAAACTCCGGGAGGACCA
1 CTAATCTTCCGCAGGCACCTAGTGGTTTTAATGTCATTATGAAGAGAGAAACTCCGGGAGGACCA
* * *
52854488 AATCTTCTTCATAACT
66 AATCCTCTTCACAATT
52854504 CTAAT
1 CTAAT
52854509 ACTCCGTTAG
Statistics
Matches: 294, Mismatches: 35, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 294 1.00
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (81 bp):
CTAATCTTCCGCAGGCACCTAGTGGTTTTAATGTCATTATGAAGAGAGAAACTCCGGGAGGACCA
AATCCTCTTCACAATT
Found at i:52860827 original size:31 final size:31
Alignment explanation
Indices: 52860792--52860859 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
52860782 AAAATGATCG
*
52860792 TTGAATTATTTAAAAG-TTTTCATGTAAGTCA
1 TTGAACTATTTAAAAGCTTTT-ATGTAAGTCA
* *
52860823 TTGAACTATTTTAAAGCTTTTATTTAAGTCA
1 TTGAACTATTTAAAAGCTTTTATGTAAGTCA
52860854 TTGAAC
1 TTGAAC
52860860 AATTAAGTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
31 29 0.88
32 4 0.12
ACGTcount: A:0.34, C:0.09, G:0.12, T:0.46
Consensus pattern (31 bp):
TTGAACTATTTAAAAGCTTTTATGTAAGTCA
Found at i:52861864 original size:22 final size:23
Alignment explanation
Indices: 52861836--52861886 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
52861826 TCTCTAGCAT
52861836 TATTTTA-AT-TTAGCTTCGAATA
1 TATTTTACATATTAG-TTCGAATA
* *
52861858 TATTTTACATATTAGTTTGATTA
1 TATTTTACATATTAGTTCGAATA
52861881 TATTTT
1 TATTTT
52861887 GTAATGCTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 7 0.28
23 14 0.56
24 4 0.16
ACGTcount: A:0.29, C:0.06, G:0.08, T:0.57
Consensus pattern (23 bp):
TATTTTACATATTAGTTCGAATA
Found at i:52863358 original size:17 final size:17
Alignment explanation
Indices: 52863336--52863383 Score: 80
Period size: 17 Copynumber: 2.8 Consensus size: 17
52863326 GTTATTACAC
52863336 TATATTGTTCTTATGCA
1 TATATTGTTCTTATGCA
52863353 TATATTGTTCTTATGCA
1 TATATTGTTCTTATGCA
52863370 TATCATTGTT-TTAT
1 TAT-ATTGTTCTTAT
52863384 TTATCATTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
17 24 0.80
18 6 0.20
ACGTcount: A:0.23, C:0.10, G:0.10, T:0.56
Consensus pattern (17 bp):
TATATTGTTCTTATGCA
Found at i:52867705 original size:17 final size:17
Alignment explanation
Indices: 52867681--52867810 Score: 163
Period size: 17 Copynumber: 7.5 Consensus size: 17
52867671 TGAACATTTG
*
52867681 AATTTAAATTTATAATA
1 AATTTAAATTTAAAATA
*
52867698 ATTTTAAATTTGAAAATA
1 AATTTAAATTT-AAAATA
* *
52867716 AATTTAAACTTAAATTA
1 AATTTAAATTTAAAATA
52867733 AATTTAAATTTAAAAATA
1 AATTTAAATTT-AAAATA
52867751 AATTTAAATTTAAAATA
1 AATTTAAATTTAAAATA
*
52867768 AATTTAAATTTTAAAACA
1 AATTTAAA-TTTAAAATA
*
52867786 AATTT-AATCTTAAGATA
1 AATTTAAAT-TTAAAATA
52867803 AATTTAAA
1 AATTTAAA
52867811 ATGGGTTTGG
Statistics
Matches: 98, Mismatches: 10, Indels: 9
0.84 0.09 0.08
Matches are distributed among these distances:
16 1 0.01
17 52 0.53
18 45 0.46
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (17 bp):
AATTTAAATTTAAAATA
Found at i:52867708 original size:29 final size:29
Alignment explanation
Indices: 52867666--52867746 Score: 76
Period size: 29 Copynumber: 2.8 Consensus size: 29
52867656 GGGTCTTTTG
*
52867666 TAATTTGAACATTTGAATTTAAATTTATAA-
1 TAATTTTAA-ATTTGAATTTAAATTTA-AAC
**
52867696 TAATTTTAAATTTGAAAATAAATTTAAAC
1 TAATTTTAAATTTGAATTTAAATTTAAAC
* *
52867725 TTAA-ATTAAATTTAAATTTAAA
1 -TAATTTTAAATTTGAATTTAAA
52867747 AATAAATTTA
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
28 2 0.05
29 29 0.69
30 11 0.26
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.44
Consensus pattern (29 bp):
TAATTTTAAATTTGAATTTAAATTTAAAC
Found at i:52867723 original size:35 final size:34
Alignment explanation
Indices: 52867681--52867810 Score: 163
Period size: 35 Copynumber: 3.7 Consensus size: 34
52867671 TGAACATTTG
* *
52867681 AATTTAAATTTATAATAATTTTAAATTTGAAAATA
1 AATTTAAATTTA-AATAAATTTAAATTTAAAAATA
*
52867716 AATTTAAACTTAAATTAAATTTAAATTTAAAAATA
1 AATTTAAATTTAAA-TAAATTTAAATTTAAAAATA
* *
52867751 AATTTAAATTTAAAATAAATTTAAATTTTAAAACA
1 AATTTAAATTT-AAATAAATTTAAATTTAAAAATA
52867786 AATTT-AATCTTAAGATAAATTTAAA
1 AATTTAAAT-TTAA-ATAAATTTAAA
52867811 ATGGGTTTGG
Statistics
Matches: 85, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
34 7 0.08
35 75 0.88
36 3 0.04
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (34 bp):
AATTTAAATTTAAATAAATTTAAATTTAAAAATA
Found at i:52867782 original size:7 final size:6
Alignment explanation
Indices: 52867676--52867778 Score: 90
Period size: 6 Copynumber: 17.7 Consensus size: 6
52867666 TAATTTGAAC
* * *
52867676 ATTTGA ATTTAA ATTTATA A--TAA TTTTAA ATTTGAA A-ATAA ATTTAA
1 ATTTAA ATTTAA ATTTA-A ATTTAA ATTTAA ATTT-AA ATTTAA ATTTAA
* ** *
52867723 ACTTAA A-TTAA ATTTAA ATTTAA AAATAA ATTTAA ATTTAA A-ATAA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA
52867769 ATTTAA ATTT
1 ATTTAA ATTT
52867779 TAAAACAAAT
Statistics
Matches: 78, Mismatches: 12, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
4 1 0.01
5 14 0.18
6 58 0.74
7 5 0.06
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.45
Consensus pattern (6 bp):
ATTTAA
Found at i:52868092 original size:40 final size:39
Alignment explanation
Indices: 52868047--52868384 Score: 118
Period size: 40 Copynumber: 7.5 Consensus size: 39
52868037 TTTGCGACTG
52868047 TAACTTCAGAGAGATAAAAATTCGTTATCCAACTTTACTA
1 TAACTTCA-AGAGATAAAAATTCGTTATCCAACTTTACTA
* **
52868087 TAACTTCAAGAGGATAAGAATTGACGTTTGAAGCTTCATCTTGCTCTTACTA
1 TAACTTCAAGA-GATAAAAATT--CG-TT--A---TC--C-AACT-TTACTA
* *
52868139 CAACTTCAGAGAGATAAAGATTCGTTATCCAACTTTACTA
1 TAACTTCA-AGAGATAAAAATTCGTTATCCAACTTTACTA
***
52868179 TAACTTCAAGAGAATAAGAATTGACGTTCGAAGCTTCATCTTGCTCTTACTA
1 TAACTTCAAGAG-ATAA-AA---A--TTC---G-TT-ATCCAACT-TTACTA
* **
52868231 TAACTTCAGAGAGATGAAGGTTCGTTATCCAACTTTACTA
1 TAACTTCA-AGAGATAAAAATTCGTTATCCAACTTTACTA
***
52868271 TAACTTCAAGAGAATAAGAATTGACGTTCGAAGTTTCATCTTGCTCTTACTA
1 TAACTTCAAGAG-ATAA-AA---A--TTC---G-TT-ATCCAACT-TTACTA
* **
52868323 TAACTTCAGAGAGATGAAGGTTCGTTATCCAACTTTACTA
1 TAACTTCA-AGAGATAAAAATTCGTTATCCAACTTTACTA
52868363 TAACTTCAAGAGGATAAGAAAT
1 TAACTTCAAGA-GATAA-AAAT
52868385 GACGTTTGAA
Statistics
Matches: 220, Mismatches: 34, Indels: 87
0.65 0.10 0.26
Matches are distributed among these distances:
39 14 0.06
40 69 0.31
41 16 0.07
42 7 0.03
43 4 0.02
44 3 0.01
45 1 0.00
46 12 0.05
47 1 0.00
48 2 0.01
49 4 0.02
50 7 0.03
51 14 0.06
52 55 0.25
53 11 0.05
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.32
Consensus pattern (39 bp):
TAACTTCAAGAGATAAAAATTCGTTATCCAACTTTACTA
Found at i:52868205 original size:92 final size:92
Alignment explanation
Indices: 52868047--52868626 Score: 962
Period size: 92 Copynumber: 6.3 Consensus size: 92
52868037 TTTGCGACTG
**
52868047 TAACTTCAGAGAGATAAAAATTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGAC
1 TAACTTCAGAGAGATAAAGGTTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGAC
52868112 GTTTGAAGCTTCATCTTGCTCTTACTA
66 GTTTGAAGCTTCATCTTGCTCTTACTA
* * *
52868139 CAACTTCAGAGAGATAAAGATTCGTTATCCAACTTTACTATAACTTCAAGAGAATAAGAATTGAC
1 TAACTTCAGAGAGATAAAGGTTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGAC
*
52868204 GTTCGAAGCTTCATCTTGCTCTTACTA
66 GTTTGAAGCTTCATCTTGCTCTTACTA
* *
52868231 TAACTTCAGAGAGATGAAGGTTCGTTATCCAACTTTACTATAACTTCAAGAGAATAAGAATTGAC
1 TAACTTCAGAGAGATAAAGGTTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGAC
* *
52868296 GTTCGAAGTTTCATCTTGCTCTTACTA
66 GTTTGAAGCTTCATCTTGCTCTTACTA
* *
52868323 TAACTTCAGAGAGATGAAGGTTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAAATGAC
1 TAACTTCAGAGAGATAAAGGTTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGAC
*
52868388 GTTTGAAACTTCATCTTGCTCTTACTA
66 GTTTGAAGCTTCATCTTGCTCTTACTA
**
52868415 TAACTTCAGAGAGATAAAGGTTTATTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGAC
1 TAACTTCAGAGAGATAAAGGTTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGAC
* *
52868480 ATTTGAAACTTCATCTTGCTCTTACTA
66 GTTTGAAGCTTCATCTTGCTCTTACTA
* *
52868507 TAACTTCGGAGAGATAAAGGTTCATTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGAC
1 TAACTTCAGAGAGATAAAGGTTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGAC
52868572 GTTTGAAGCTTCATCTTGCTCTTACTA
66 GTTTGAAGCTTCATCTTGCTCTTACTA
* * *
52868599 AAACTTCAGAGAGATAAAGATTCATTAT
1 TAACTTCAGAGAGATAAAGGTTCGTTAT
52868627 TTTTGATCTG
Statistics
Matches: 463, Mismatches: 25, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
92 463 1.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (92 bp):
TAACTTCAGAGAGATAAAGGTTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGAC
GTTTGAAGCTTCATCTTGCTCTTACTA
Found at i:52868471 original size:40 final size:40
Alignment explanation
Indices: 52868317--52868563 Score: 122
Period size: 40 Copynumber: 5.6 Consensus size: 40
52868307 CATCTTGCTC
* **
52868317 TTACTATAACTTCAGAGAGATGAAGGTTCGTTATCCAACT
1 TTACTATAACTTCAGAGAGATAAAGGTTTATTATCCAACT
***
52868357 TTACTATAACTTCA-AGAGGATAAGAAATGACGTTTGAAACTTCATCTTGCT
1 TTACTATAACTTCAGAGA-GAT---AAA-G--GTTT---A-TT-ATCCAACT
52868408 CTTACTATAACTTCAGAGAGATAAAGGTTTATTATCCAACT
1 -TTACTATAACTTCAGAGAGATAAAGGTTTATTATCCAACT
* ***
52868449 TTACTATAACTTCA-AGAGGATAAGAATTGACATTTGAAACTTCATCTTGCT
1 TTACTATAACTTCAGAGA-GAT-A-AA--G--GTTT---A-TT-ATCCAACT
* *
52868500 CTTACTATAACTTCGGAGAGATAAAGGTTCATTATCCAACT
1 -TTACTATAACTTCAGAGAGATAAAGGTTTATTATCCAACT
52868541 TTACTATAACTTCA-AGAGGATAA
1 TTACTATAACTTCAGAGA-GATAA
52868564 GAATTGACGT
Statistics
Matches: 158, Mismatches: 20, Indels: 58
0.67 0.08 0.25
Matches are distributed among these distances:
39 9 0.06
40 52 0.33
41 11 0.07
42 6 0.04
43 4 0.03
44 2 0.01
46 12 0.08
48 2 0.01
49 4 0.03
50 6 0.04
51 11 0.07
52 33 0.21
53 6 0.04
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.33
Consensus pattern (40 bp):
TTACTATAACTTCAGAGAGATAAAGGTTTATTATCCAACT
Found at i:52870012 original size:15 final size:15
Alignment explanation
Indices: 52869988--52870037 Score: 73
Period size: 15 Copynumber: 3.3 Consensus size: 15
52869978 TCTCCTATTC
*
52869988 TTTTTCTTTTTCTCT
1 TTTTTGTTTTTCTCT
* *
52870003 TTTTTGTTTTTTTGT
1 TTTTTGTTTTTCTCT
52870018 TTTTTGTTTTTCTCT
1 TTTTTGTTTTTCTCT
52870033 TTTTT
1 TTTTT
52870038 ATTTGTTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.00, C:0.10, G:0.06, T:0.84
Consensus pattern (15 bp):
TTTTTGTTTTTCTCT
Found at i:52870022 original size:30 final size:31
Alignment explanation
Indices: 52869988--52870046 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
52869978 TCTCCTATTC
*
52869988 TTTTTCTTTTTCTCTTTTTTGTTT-TTTTGT
1 TTTTTCTTTTTCTCTTTTTTATTTGTTTTGT
*
52870018 TTTTTGTTTTTCTCTTTTTTATTTGTTTT
1 TTTTTCTTTTTCTCTTTTTTATTTGTTTT
52870047 TCTTCATTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.02, C:0.08, G:0.07, T:0.83
Consensus pattern (31 bp):
TTTTTCTTTTTCTCTTTTTTATTTGTTTTGT
Found at i:52870877 original size:10 final size:10
Alignment explanation
Indices: 52870825--52870876 Score: 54
Period size: 10 Copynumber: 5.2 Consensus size: 10
52870815 GTCTTGCCCC
52870825 TTTTTTTGTT
1 TTTTTTTGTT
* *
52870835 TTTTTAAT-AT
1 TTTTT-TTGTT
52870845 TTTTTTTGTT
1 TTTTTTTGTT
52870855 TTTTTTTGTT
1 TTTTTTTGTT
52870865 TTGTTTTT-TT
1 TT-TTTTTGTT
52870875 TT
1 TT
52870877 GATAGCACGT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
9 1 0.03
10 28 0.80
11 6 0.17
ACGTcount: A:0.06, C:0.00, G:0.08, T:0.87
Consensus pattern (10 bp):
TTTTTTTGTT
Found at i:52875521 original size:58 final size:60
Alignment explanation
Indices: 52875457--52875770 Score: 320
Period size: 58 Copynumber: 5.3 Consensus size: 60
52875447 TGGATACCCG
* * * * ** **
52875457 GGGGTAAAACGGTAATTTTGGTTGAAATTG-GGTGAAAACGGGGATTTTGGAAAGTTCGA
1 GGGGTAAAATGGTAATTTTGGGTAAAATTGAGGTAAAAAATGAAATTTTGGAAAGTTCGA
* * * *
52875516 -GGGTAAAATGGTAATTTTGGGTAAAATTGAGGTCAAAAATGAAAATTT-GAAAATTTG-
1 GGGGTAAAATGGTAATTTTGGGTAAAATTGAGGTAAAAAATGAAATTTTGGAAAGTTCGA
* * * *
52875573 GGGGTAAAATGGTAATTTTTGGTGAAATT-AGGGTTAAAAAT-AAGATTTTGGAAAGTT-TA
1 GGGGTAAAATGGTAATTTTGGGTAAAATTGA-GGTAAAAAATGAA-ATTTTGGAAAGTTCGA
* *
52875632 GGGGTAAAATGGTAATTTTGGGTAAAATCGAGGTCAAAAAATGGAATTTTGGAAAGTTCGA
1 GGGGTAAAATGGTAATTTTGGGTAAAATTGAGGT-AAAAAATGAAATTTTGGAAAGTTCGA
* ** * * * *
52875693 GGGGTAAAATGGTAATTTTAGGTAAAATCAAGGTTAAAAATGGAATTTTGGGAAGTTTG-
1 GGGGTAAAATGGTAATTTTGGGTAAAATTGAGGTAAAAAATGAAATTTTGGAAAGTTCGA
52875752 GGGGTAAAATGGTAATTTT
1 GGGGTAAAATGGTAATTTT
52875771 TGAAAGTTTC
Statistics
Matches: 217, Mismatches: 28, Indels: 20
0.82 0.11 0.08
Matches are distributed among these distances:
57 3 0.01
58 72 0.33
59 66 0.30
60 42 0.19
61 34 0.16
ACGTcount: A:0.37, C:0.03, G:0.29, T:0.32
Consensus pattern (60 bp):
GGGGTAAAATGGTAATTTTGGGTAAAATTGAGGTAAAAAATGAAATTTTGGAAAGTTCGA
Found at i:52875532 original size:29 final size:30
Alignment explanation
Indices: 52875500--52875864 Score: 132
Period size: 30 Copynumber: 12.3 Consensus size: 30
52875490 GAAAACGGGG
52875500 ATTTTGGAAAGTTCGAGGGT-AAAATGGTA
1 ATTTTGGAAAGTTCGAGGGTAAAAATGGTA
* *
52875529 ATTTTGGGTAAAATT-GA-GGTCAAAAAT-GAA
1 ATTTT-GG-AAAGTTCGAGGGT-AAAAATGGTA
* * * *
52875559 AATTT-GAAAATTTGGGGGT-AAAATGGTA
1 ATTTTGGAAAGTTCGAGGGTAAAAATGGTA
*
52875587 ATTTTTGGTGAAA-TT--AGGGTTAAAAAT--AA
1 A-TTTT-G-GAAAGTTCGAGGG-TAAAAATGGTA
*
52875616 GATTTTGGAAAGTT-TAGGGGT-AAAATGGTA
1 -ATTTTGGAAAGTTCGA-GGGTAAAAATGGTA
*
52875646 ATTTTGGGTAAA-ATCGA-GGTCAAAAAATGG-A
1 ATTTT-GG-AAAGTTCGAGGGT--AAAAATGGTA
52875677 ATTTTGGAAAGTTCGAGGGGT-AAAATGGTA
1 ATTTTGGAAAGTTCGA-GGGTAAAAATGGTA
* * *
52875707 ATTTTAGGTAAA-ATCAAGGTTAAAAATGG-A
1 ATTTT-GG-AAAGTTCGAGGGTAAAAATGGTA
* * *
52875737 ATTTTGGGAAGTTTGGGGGT-AAAATGGTA
1 ATTTTGGAAAGTTCGAGGGTAAAAATGGTA
* * *
52875766 ATTTTTGAAAGTTTCG-GGGTGAAAAT-CTA
1 ATTTTGGAAAG-TTCGAGGGTAAAAATGGTA
* * *
52875795 ATTTTAGAAAAGTT-TAGGGGTCAAAAT-GTA
1 ATTTT-GGAAAGTTCGA-GGGTAAAAATGGTA
** ** * *
52875825 ATTTTCAAAAAGTTTTAGGGTTAAAAT-ATA
1 ATTTT-GGAAAGTTCGAGGGTAAAAATGGTA
52875855 ATTTTGGAAA
1 ATTTTGGAAA
52875865 AATTTAGGGG
Statistics
Matches: 260, Mismatches: 36, Indels: 80
0.69 0.10 0.21
Matches are distributed among these distances:
27 15 0.06
28 22 0.08
29 74 0.28
30 91 0.35
31 41 0.16
32 17 0.07
ACGTcount: A:0.38, C:0.03, G:0.26, T:0.33
Consensus pattern (30 bp):
ATTTTGGAAAGTTCGAGGGTAAAAATGGTA
Found at i:52875644 original size:59 final size:58
Alignment explanation
Indices: 52875457--52875772 Score: 275
Period size: 59 Copynumber: 5.4 Consensus size: 58
52875447 TGGATACCCG
* * * *** *
52875457 GGGGTAAAACGGTAA-TTTTGGTTGAAATTGGGTGAAAACGGGGATTTTGGAAAG-TTC
1 GGGGTAAAATGGTAATTTTTGG-TAAAATTGGGTCAAAAATAGGATTTTGGAAAGTTTA
* * * * *
52875514 GAGGGTAAAATGGTAATTTTGGGTAAAATTGAGGTCAAAAAT-GAAAATTT-GAAAATTTG
1 G-GGGTAAAATGGTAATTTTTGGTAAAATTG-GGTCAAAAATAG-GATTTTGGAAAGTTTA
* * *
52875573 GGGGTAAAATGGTAATTTTTGGTGAAATTAGGGTTAAAAATAAGATTTTGGAAAGTTTA
1 GGGGTAAAATGGTAATTTTTGGTAAAATT-GGGTCAAAAATAGGATTTTGGAAAGTTTA
* * *
52875632 GGGGTAAAATGGTAATTTTGGGTAAAATCGAGGTCAAAAA-ATGGAATTTTGGAAAGTTCGA
1 GGGGTAAAATGGTAATTTTTGGTAAAATTG-GGTCAAAAATA-GG-ATTTTGGAAAGTT-TA
* ** * * *
52875693 GGGGTAAAATGGTAATTTTAGGTAAAATCAAGGTTAAAAAT-GGAATTTTGGGAAGTTTG
1 GGGGTAAAATGGTAATTTTTGGTAAAAT-TGGGTCAAAAATAGG-ATTTTGGAAAGTTTA
52875752 GGGGTAAAATGGTAATTTTTG
1 GGGGTAAAATGGTAATTTTTG
52875773 AAAGTTTCGG
Statistics
Matches: 213, Mismatches: 32, Indels: 26
0.79 0.12 0.10
Matches are distributed among these distances:
57 1 0.00
58 66 0.31
59 82 0.38
60 28 0.13
61 36 0.17
ACGTcount: A:0.36, C:0.03, G:0.29, T:0.32
Consensus pattern (58 bp):
GGGGTAAAATGGTAATTTTTGGTAAAATTGGGTCAAAAATAGGATTTTGGAAAGTTTA
Found at i:52875732 original size:60 final size:60
Alignment explanation
Indices: 52875500--52875770 Score: 320
Period size: 59 Copynumber: 4.6 Consensus size: 60
52875490 GAAAACGGGG
** *
52875500 ATTTTGGAAAGTTCGA-GGGTAAAATGGTAATTTTGGGTAAAATTGAGGTCAAAAATGAA
1 ATTTTGGAAAGTTCGAGGGGTAAAATGGTAATTTTGGGTAAAATCAAGGTTAAAAATGAA
* * * * * * *
52875559 AATTT-GAAAATTTG-GGGGTAAAATGGTAATTTTTGGTGAAATTAGGGTTAAAAAT-AA
1 ATTTTGGAAAGTTCGAGGGGTAAAATGGTAATTTTGGGTAAAATCAAGGTTAAAAATGAA
* * * *
52875616 GATTTTGGAAAGTT-TAGGGGTAAAATGGTAATTTTGGGTAAAATCGAGGTCAAAAAATGGA
1 -ATTTTGGAAAGTTCGAGGGGTAAAATGGTAATTTTGGGTAAAATCAAGGT-TAAAAATGAA
* *
52875677 ATTTTGGAAAGTTCGAGGGGTAAAATGGTAATTTTAGGTAAAATCAAGGTTAAAAATGGA
1 ATTTTGGAAAGTTCGAGGGGTAAAATGGTAATTTTGGGTAAAATCAAGGTTAAAAATGAA
* *
52875737 ATTTTGGGAAGTTTG-GGGGTAAAATGGTAATTTT
1 ATTTTGGAAAGTTCGAGGGGTAAAATGGTAATTTT
52875771 TGAAAGTTTC
Statistics
Matches: 181, Mismatches: 24, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
57 2 0.01
58 46 0.25
59 58 0.32
60 41 0.23
61 34 0.19
ACGTcount: A:0.38, C:0.02, G:0.28, T:0.32
Consensus pattern (60 bp):
ATTTTGGAAAGTTCGAGGGGTAAAATGGTAATTTTGGGTAAAATCAAGGTTAAAAATGAA
Found at i:52875791 original size:30 final size:29
Alignment explanation
Indices: 52875729--52875963 Score: 195
Period size: 30 Copynumber: 7.9 Consensus size: 29
52875719 ATCAAGGTTA
* * * *
52875729 AAAATGGAATTTTGGGAAGTTTGGGGGT-
1 AAAATGTAATTTTAGAAAGTTTAGGGGTC
* * *
52875757 AAAATGGTAATTTTTGAAAGTTTCGGGGTG
1 AAAAT-GTAATTTTAGAAAGTTTAGGGGTC
*
52875787 AAAATCTAATTTTAGAAAAGTTTAGGGGTC
1 AAAATGTAATTTTAG-AAAGTTTAGGGGTC
* *
52875817 AAAATGTAATTTTCAAAAAGTTTTA-GGGTT
1 AAAATGTAATTTT-AGAAAG-TTTAGGGGTC
* * *
52875847 AAAATATAATTTTGGAAAAATTTAGGGGTC
1 AAAATGTAATTTTAG-AAAGTTTAGGGGTC
* **
52875877 AAAATATAATTGTTAGAAAGTTTTTGGGTC
1 AAAATGTAATT-TTAGAAAGTTTAGGGGTC
* * *
52875907 AAAATATAATTTTGGAAAAGTTTAAGGGTC
1 AAAATGTAATTTTAG-AAAGTTTAGGGGTC
* *
52875937 AAAATGTAATTTTTGAACAGTTCAGGG
1 AAAATGTAATTTTAGAA-AGTTTAGGG
52875964 ACTTTCAGAG
Statistics
Matches: 170, Mismatches: 27, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
28 5 0.03
29 36 0.21
30 121 0.71
31 8 0.05
ACGTcount: A:0.37, C:0.04, G:0.23, T:0.35
Consensus pattern (29 bp):
AAAATGTAATTTTAGAAAGTTTAGGGGTC
Found at i:52875857 original size:60 final size:59
Alignment explanation
Indices: 52875736--52875958 Score: 261
Period size: 60 Copynumber: 3.7 Consensus size: 59
52875726 TTAAAAATGG
* * * ** * *
52875736 AATTTTGG-GAAGTTTGGGGGT-AAAATGGTAATTTTTGAAAGTTTCGGGGTGAAAATCT
1 AATTTTGGAAAAGTTTAGGGGTCAAAAT-GTAATTTTAGAAAGTTTTAGGGTCAAAATAT
* * *
52875794 AATTTTAGAAAAGTTTAGGGGTCAAAATGTAATTTTCAAAAAGTTTTAGGGTTAAAATAT
1 AATTTTGGAAAAGTTTAGGGGTCAAAATGTAATTTT-AGAAAGTTTTAGGGTCAAAATAT
* * *
52875854 AATTTTGGAAAAATTTAGGGGTCAAAATATAATTGTTAGAAAGTTTTTGGGTCAAAATAT
1 AATTTTGGAAAAGTTTAGGGGTCAAAATGTAATT-TTAGAAAGTTTTAGGGTCAAAATAT
* *
52875914 AATTTTGGAAAAGTTTAAGGGTCAAAATGTAATTTTTGAACAGTT
1 AATTTTGGAAAAGTTTAGGGGTCAAAATGTAATTTTAGAA-AGTT
52875959 CAGGGACTTT
Statistics
Matches: 141, Mismatches: 19, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
58 7 0.05
59 24 0.17
60 108 0.77
61 2 0.01
ACGTcount: A:0.37, C:0.04, G:0.22, T:0.37
Consensus pattern (59 bp):
AATTTTGGAAAAGTTTAGGGGTCAAAATGTAATTTTAGAAAGTTTTAGGGTCAAAATAT
Found at i:52875897 original size:90 final size:89
Alignment explanation
Indices: 52875764--52875949 Score: 230
Period size: 90 Copynumber: 2.1 Consensus size: 89
52875754 GGTAAAATGG
* * * * * *
52875764 TAATTTTTGAAAGTTTCGGGGTGAAAATCTAATTTTAGAAAAGTTTAGGGGTCAAAATGTAATTT
1 TAATTTTGGAAAATTTAGGGGTCAAAATATAATTTTAGAAAAGTTTAGGGGTCAAAATATAATTT
* *
52875829 TCAAAAAGTTTTAGGGTTAAAATA
66 TCAAAAAGTTTAAGGGTCAAAATA
**
52875853 TAATTTTGGAAAAATTTAGGGGTCAAAATATAATTGTTAG-AAAGTTTTTGGGTCAAAATATAAT
1 TAATTTTGG-AAAATTTAGGGGTCAAAATATAATT-TTAGAAAAGTTTAGGGGTCAAAATATAAT
** *
52875917 TTTGGAAAAGTTTAAGGGTCAAAATG
64 TTTCAAAAAGTTTAAGGGTCAAAATA
52875943 TAATTTT
1 TAATTTT
52875950 TGAACAGTTC
Statistics
Matches: 82, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
89 8 0.10
90 70 0.85
91 4 0.05
ACGTcount: A:0.39, C:0.04, G:0.20, T:0.38
Consensus pattern (89 bp):
TAATTTTGGAAAATTTAGGGGTCAAAATATAATTTTAGAAAAGTTTAGGGGTCAAAATATAATTT
TCAAAAAGTTTAAGGGTCAAAATA
Found at i:52877131 original size:12 final size:11
Alignment explanation
Indices: 52877116--52877174 Score: 54
Period size: 12 Copynumber: 5.5 Consensus size: 11
52877106 AATACTACCA
52877116 TTATTACTATAT
1 TTATTA-TATAT
*
52877128 TTATTAT-GA-
1 TTATTATATAT
52877137 TTATTAT-TA-
1 TTATTATATAT
*
52877146 TTAATATATAT
1 TTATTATATAT
52877157 TTATTACTATAT
1 TTATTA-TATAT
52877169 TTATTA
1 TTATTA
52877175 GATACATGTT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
9 14 0.35
10 3 0.08
11 6 0.15
12 17 0.43
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.59
Consensus pattern (11 bp):
TTATTATATAT
Found at i:52877801 original size:17 final size:17
Alignment explanation
Indices: 52877777--52877877 Score: 148
Period size: 17 Copynumber: 5.8 Consensus size: 17
52877767 TGGACATTTG
*
52877777 AATTTAAATTTATAATA
1 AATTTAAATTTAAAATA
*
52877794 ATTTTAAATTTGAAAATA
1 AATTTAAATTT-AAAATA
* *
52877812 AATTTAAACTTAAATTA
1 AATTTAAATTTAAAATA
52877829 AATTTAAATTTAAAAATA
1 AATTTAAATTT-AAAATA
52877847 AATTTAAATTTAAAATA
1 AATTTAAATTTAAAATA
52877864 AATTTAAATTTAAA
1 AATTTAAATTTAAA
52877878 TTTTAAAACA
Statistics
Matches: 75, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
17 45 0.60
18 30 0.40
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (17 bp):
AATTTAAATTTAAAATA
Found at i:52877804 original size:29 final size:28
Alignment explanation
Indices: 52877772--52877877 Score: 72
Period size: 29 Copynumber: 3.7 Consensus size: 28
52877762 TAATTTGGAC
*
52877772 ATTTGAATTTAAATTTATAA-TAATTTTAA
1 ATTTGAATTTAAATTTA-AACTAA-ATTAA
**
52877801 ATTTGAAAATAAATTTAAACTTAAATTAA
1 ATTTGAATTTAAATTTAAAC-TAAATTAA
* ** *
52877830 ATTTAAATTTAAAAATAAATTTAAATTTAA
1 ATTTGAATTTAAATTTAAA-CTAAA-TTAA
* *
52877860 A-ATAAATTTAAATTTAAA
1 ATTTGAATTTAAATTTAAA
52877878 TTTTAAAACA
Statistics
Matches: 61, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
28 2 0.03
29 51 0.84
30 8 0.13
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.43
Consensus pattern (28 bp):
ATTTGAATTTAAATTTAAACTAAATTAA
Found at i:52877817 original size:35 final size:34
Alignment explanation
Indices: 52877777--52877877 Score: 148
Period size: 35 Copynumber: 2.9 Consensus size: 34
52877767 TGGACATTTG
* *
52877777 AATTTAAATTTATAATAATTTTAAATTTGAAAATA
1 AATTTAAATTTA-AATAAATTTAAATTTAAAAATA
*
52877812 AATTTAAACTTAAATTAAATTTAAATTTAAAAATA
1 AATTTAAATTTAAA-TAAATTTAAATTTAAAAATA
52877847 AATTTAAATTTAAAATAAATTTAAATTTAAA
1 AATTTAAATTT-AAATAAATTTAAATTTAAA
52877878 TTTTAAAACA
Statistics
Matches: 60, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
34 2 0.03
35 55 0.92
36 3 0.05
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (34 bp):
AATTTAAATTTAAATAAATTTAAATTTAAAAATA
Found at i:52877878 original size:41 final size:41
Alignment explanation
Indices: 52877810--52877912 Score: 138
Period size: 41 Copynumber: 2.5 Consensus size: 41
52877800 AATTTGAAAA
* *
52877810 TAAATTTAAACTTAAA-TTAAATTTAAATTTAAAAATAAATT
1 TAAATTTAAA-ATAAATTTAAATTTAAATTTAAAAACAAATT
*
52877851 TAAATTTAAAATAAATTTAAATTTAAATTTTAAAACAAATT
1 TAAATTTAAAATAAATTTAAATTTAAATTTAAAAACAAATT
*
52877892 T-AATCTTAAGATAAATTTAAA
1 TAAAT-TTAAAATAAATTTAAA
52877913 ATGGGTTTGG
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
40 7 0.12
41 49 0.88
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (41 bp):
TAAATTTAAAATAAATTTAAATTTAAATTTAAAAACAAATT
Found at i:52877884 original size:7 final size:6
Alignment explanation
Indices: 52877772--52877880 Score: 102
Period size: 6 Copynumber: 18.7 Consensus size: 6
52877762 TAATTTGGAC
* * *
52877772 ATTTGA ATTTAA ATTTATA A--TAA TTTTAA ATTTGAA A-ATAA ATTTAA
1 ATTTAA ATTTAA ATTTA-A ATTTAA ATTTAA ATTT-AA ATTTAA ATTTAA
* ** *
52877819 ACTTAA A-TTAA ATTTAA ATTTAA AAATAA ATTTAA ATTTAA A-ATAA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA
52877865 ATTTAA ATTTAA ATTT
1 ATTTAA ATTTAA ATTT
52877881 TAAAACAAAT
Statistics
Matches: 84, Mismatches: 12, Indels: 14
0.76 0.11 0.13
Matches are distributed among these distances:
4 1 0.01
5 14 0.17
6 64 0.76
7 5 0.06
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.45
Consensus pattern (6 bp):
ATTTAA
Found at i:52877891 original size:35 final size:35
Alignment explanation
Indices: 52877782--52877894 Score: 111
Period size: 35 Copynumber: 3.2 Consensus size: 35
52877772 ATTTGAATTT
* * * **
52877782 AAATTTATAATAATTTTAAATTTGAAAATAAATTT
1 AAATTTAAAATAAATTTAAATTTAAAAATAAATAC
* * **
52877817 AAACTTAAATTAAATTTAAATTTAAAAATAAATTT
1 AAATTTAAAATAAATTTAAATTTAAAAATAAATAC
**
52877852 AAATTTAAAATAAATTTAAATTTAAATTTTAAA-AC
1 AAATTTAAAATAAATTTAAATTTAAA-AATAAATAC
52877887 AAATTTAA
1 AAATTTAA
52877895 TCTTAAGATA
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
35 62 0.94
36 4 0.06
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.42
Consensus pattern (35 bp):
AAATTTAAAATAAATTTAAATTTAAAAATAAATAC
Found at i:52879217 original size:6 final size:6
Alignment explanation
Indices: 52879206--52879234 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
52879196 TTGAATTCTG
52879206 TATACA TATACA TATACA TATACA TATAC
1 TATACA TATACA TATACA TATACA TATAC
52879235 TCATACTCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.34
Consensus pattern (6 bp):
TATACA
Found at i:52881584 original size:6 final size:6
Alignment explanation
Indices: 52881566--52881659 Score: 79
Period size: 6 Copynumber: 16.0 Consensus size: 6
52881556 TTAAATTGAT
* * *
52881566 TTTAAA TTT--A TTTAAA TTTAGA TTT-AT TTTAAA TTT-AA TTTGAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
** * *
52881610 TTTAAA TTTAAA TAAAAA TTAAAA TATTAAA TTTAACA TTAAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA TTTAA-A TTTAAA TTTAAA
52881660 AGTCCAAATA
Statistics
Matches: 71, Mismatches: 11, Indels: 12
0.76 0.12 0.13
Matches are distributed among these distances:
4 4 0.06
5 8 0.11
6 49 0.69
7 10 0.14
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.48
Consensus pattern (6 bp):
TTTAAA
Found at i:52881596 original size:17 final size:15
Alignment explanation
Indices: 52881570--52881620 Score: 66
Period size: 17 Copynumber: 3.1 Consensus size: 15
52881560 ATTGATTTTA
52881570 AATTTATTTAAATTT
1 AATTTATTTAAATTT
52881585 AGATTTATTTTAAATTT
1 A-ATTTA-TTTAAATTT
52881602 AATTTGAATTTAAATTT
1 AATTT--ATTTAAATTT
52881619 AA
1 AA
52881621 ATAAAAATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
15 1 0.03
16 9 0.28
17 21 0.66
18 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (15 bp):
AATTTATTTAAATTT
Found at i:52881611 original size:11 final size:11
Alignment explanation
Indices: 52881556--52881620 Score: 55
Period size: 11 Copynumber: 5.9 Consensus size: 11
52881546 GACTTTTGAG
* *
52881556 TTAAATTGATT
1 TTAAATTTAAT
52881567 TTAAATTT-AT
1 TTAAATTTAAT
52881577 TTAAATTTAGAT
1 TTAAATTTA-AT
*
52881589 TT-ATTTTAAAT
1 TTAAATTT-AAT
52881600 TT-AATTTGAAT
1 TTAAATTT-AAT
52881611 TTAAATTTAA
1 TTAAATTTAA
52881621 ATAAAAATTA
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
10 9 0.20
11 26 0.58
12 10 0.22
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (11 bp):
TTAAATTTAAT
Found at i:52881756 original size:14 final size:14
Alignment explanation
Indices: 52881737--52881775 Score: 55
Period size: 12 Copynumber: 2.9 Consensus size: 14
52881727 TTTGGCCCAC
52881737 GGCCCAATTACAAA
1 GGCCCAATTACAAA
*
52881751 GGCCCAATT--AAG
1 GGCCCAATTACAAA
52881763 GGCCCAATTACAA
1 GGCCCAATTACAA
52881776 TAGTCTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
12 11 0.50
14 11 0.50
ACGTcount: A:0.38, C:0.28, G:0.18, T:0.15
Consensus pattern (14 bp):
GGCCCAATTACAAA
Found at i:52883375 original size:161 final size:163
Alignment explanation
Indices: 52883194--52883511 Score: 441
Period size: 162 Copynumber: 2.0 Consensus size: 163
52883184 ATTTTCAATT
** *
52883194 TAGTCCATTGACTGTTTGACTGTACCATGGGC-TACCACGTGTC-TCTTTTTGGATTATTTATGC
1 TAGTCCATTGACTGTTTGACTACACCA-GAGCTTACCACGTGTCATCTTTTTGGATTATTTATGC
*
52883257 ATTTAGTCCTTTTTATCTTTT-ATTTATTTTAATTTAATCC-CAAATCAA-TTTTATTTTAATTA
65 ATTTAGTCCTTTTTAT-TTTTAATTTATTTTAATTTAATCCTCAAATCAACTTTTA-TTTAAATA
*
52883319 CGAAATTGG-CCCAATAATTTTTCAAAGTTTATAAAC
128 CAAAATTGGTCCCAA-AATTTTTCAAAGTTTATAAAC
* * * * *
52883355 TAGTCCTTTGACTTTTTGACTACACCAGAGCTTGCCACGTGTCATCTTTTTGGATTATTTCTGTA
1 TAGTCCATTGACTGTTTGACTACACCAGAGCTTACCACGTGTCATCTTTTTGGATTATTTATGCA
*
52883420 TTTAGTCCTTTTTATTTTTAATTTATTTTAATTTAATCCTTAAATCAACTTTTATTTAAATACAA
66 TTTAGTCCTTTTTATTTTTAATTTATTTTAATTTAATCCTCAAATCAACTTTTATTTAAATACAA
* *
52883485 AATTGGTCCTAAAATTTTTCAAGGTTT
131 AATTGGTCCCAAAATTTTTCAAAGTTT
52883512 TCAAATTGGT
Statistics
Matches: 138, Mismatches: 13, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
160 3 0.02
161 37 0.27
162 53 0.38
163 36 0.26
164 9 0.07
ACGTcount: A:0.26, C:0.16, G:0.11, T:0.47
Consensus pattern (163 bp):
TAGTCCATTGACTGTTTGACTACACCAGAGCTTACCACGTGTCATCTTTTTGGATTATTTATGCA
TTTAGTCCTTTTTATTTTTAATTTATTTTAATTTAATCCTCAAATCAACTTTTATTTAAATACAA
AATTGGTCCCAAAATTTTTCAAAGTTTATAAAC
Found at i:52883641 original size:30 final size:30
Alignment explanation
Indices: 52883600--52883801 Score: 284
Period size: 30 Copynumber: 6.7 Consensus size: 30
52883590 CCCCAAACAA
*
52883600 TCCAGAAATTATATTTTGACCCCAAAACTTT
1 TCCA-AAATTACATTTTGACCCCAAAACTTT
* * *
52883631 TCCAAAATTATATTTTAACCCCAAAAATTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
* * *
52883661 TCCAAAATTACGTCTTAACCCCAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
*
52883691 TCCAAAATTACATTTTGACCCCAAAACATT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
52883721 TCCAAAATTACATTTTGACCCCAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
52883751 TCCAAAATTACATTTTGACCCCAAAAC--T
1 TCCAAAATTACATTTTGACCCCAAAACTTT
52883779 TCCAAAAATTACCATTTT-ACCCC
1 TCC-AAAATTA-CATTTTGACCCC
52883802 CGAAGCTTCT
Statistics
Matches: 158, Mismatches: 11, Indels: 6
0.90 0.06 0.03
Matches are distributed among these distances:
28 4 0.03
29 12 0.08
30 138 0.87
31 4 0.03
ACGTcount: A:0.38, C:0.27, G:0.03, T:0.32
Consensus pattern (30 bp):
TCCAAAATTACATTTTGACCCCAAAACTTT
Found at i:52883815 original size:29 final size:29
Alignment explanation
Indices: 52883783--52884036 Score: 139
Period size: 29 Copynumber: 8.7 Consensus size: 29
52883773 AAAACTTCCA
*
52883783 AAAATTACCATTTTACCCCCGAAGCTTCT
1 AAAATTACCATTTTACCCCCGAATCTTCT
* * * ** *
52883812 AAAAAT-CCATTTTTAAACCCCGATTTCACCA
1 AAAATTACCA-TTTT-ACCCCCGA-ATCTTCT
* *
52883843 AAAATTACCATTTTACCCTCGAAGCTTCT
1 AAAATTACCATTTTACCCCCGAATCTTCT
* *
52883872 -AAA-TACCGTTTTTAACCCCG-AT-TTCAT
1 AAAATTACC-ATTTTACCCCCGAATCTTC-T
* *
52883899 CAAAATTACCATTTTACCCTCGAAACTTCT
1 -AAAATTACCATTTTACCCCCGAATCTTCT
* * * *
52883929 AAAATT-CCGTTTTAACCCCG-ATTTTACCG
1 AAAATTACCATTTTACCCCCGAATCTT--CT
* *
52883958 AAAATTGCCATTTTACCCCCGAATCTTTT
1 AAAATTACCATTTTACCCCCGAATCTTCT
* * * *
52883987 AAAATT-CCATTTTAAACCCCGATTAC-ACC
1 AAAATTACCATTTT-ACCCCCGAAT-CTTCT
*
52884016 AAAATTACCATTTTGCCCCCG
1 AAAATTACCATTTTACCCCCG
52884037 GGTATCCATA
Statistics
Matches: 166, Mismatches: 41, Indels: 36
0.68 0.17 0.15
Matches are distributed among these distances:
26 3 0.02
27 9 0.05
28 33 0.20
29 61 0.37
30 39 0.23
31 18 0.11
32 3 0.02
ACGTcount: A:0.32, C:0.29, G:0.06, T:0.33
Consensus pattern (29 bp):
AAAATTACCATTTTACCCCCGAATCTTCT
Found at i:52883939 original size:58 final size:59
Alignment explanation
Indices: 52883780--52884036 Score: 333
Period size: 58 Copynumber: 4.4 Consensus size: 59
52883770 CCCAAAACTT
*
52883780 CCAAAAATTACCATTTTACCCCCGAAGCTTCTAAAAATCCATTTTTAAACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCATTTTT-AACCCCGATTTCA
* * *
52883840 CCAAAAATTACCATTTTACCCTCGAAGCTTCT-AAATACCGTTTTTAACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCATTTTTAACCCCGATTTCA
* * * * *
52883898 TC-AAAATTACCATTTTACCCTCGAAACTTCTAAAATTCC-GTTTTAACCCCGATTTTA
1 CCAAAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCATTTTTAACCCCGATTTCA
* * * * * *
52883955 CCGAAAATTGCCATTTTACCCCCGAATCTTTTAAAATTCCATTTTAAACCCCGATTACA
1 CCAAAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCATTTTTAACCCCGATTTCA
*
52884014 CC-AAAATTACCATTTTGCCCCCG
1 CCAAAAATTACCATTTTACCCCCG
52884037 GGTATCCATA
Statistics
Matches: 174, Mismatches: 20, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
57 45 0.26
58 72 0.41
59 26 0.15
60 31 0.18
ACGTcount: A:0.32, C:0.30, G:0.06, T:0.32
Consensus pattern (59 bp):
CCAAAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCATTTTTAACCCCGATTTCA
Found at i:52895886 original size:37 final size:38
Alignment explanation
Indices: 52895777--52896085 Score: 246
Period size: 37 Copynumber: 8.7 Consensus size: 38
52895767 GAAGTAGAGT
*
52895777 AAGTAGAGT-AGATAAACACGTCTTCATCTC-TGAAATTG
1 AAGTAGAGTGAG-T-AACACGTCTTCATCCCTTGAAATTG
* * *
52895815 AAGTA-A--GAG-CA-ACGTCATCCTCCCCTTGAAATTG
1 AAGTAGAGTGAGTAACACGTCTTCAT-CCCTTGAAATTG
52895849 AAGTAGAGTGAGTAACACGTC-TCATCCCTTGAAATTG
1 AAGTAGAGTGAGTAACACGTCTTCATCCCTTGAAATTG
*
52895886 AAGTAGTG-GAG-AACACGTCTTCATCCCCTTGAAATTG
1 AAGTAGAGTGAGTAACACGTCTTCAT-CCCTTGAAATTG
*
52895923 AAGTAGAGTG-GATAACACGTCTTCATCTC-TGAAATTG
1 AAGTAGAGTGAG-TAACACGTCTTCATCCCTTGAAATTG
* *
52895960 AAGTA-A--GAG-CA-ACGTCATC--CCCTTGAAATTG
1 AAGTAGAGTGAGTAACACGTCTTCATCCCTTGAAATTG
*
52895991 AAGTAGAGTG-GATAACAC-TCTTCATCTC-TGAAATTG
1 AAGTAGAGTGAG-TAACACGTCTTCATCCCTTGAAATTG
* *
52896027 AAGTA-A--GAG-CA-ACGTCATC--CCCTTTGAAATTG
1 AAGTAGAGTGAGTAACACGTCTTCATCCC-TTGAAATTG
52896059 AAGTAGAGTGA-TAACACGTCTTCATCC
1 AAGTAGAGTGAGTAACACGTCTTCATCC
52896086 NNNNNNNNNN
Statistics
Matches: 217, Mismatches: 20, Indels: 68
0.71 0.07 0.22
Matches are distributed among these distances:
30 4 0.02
31 15 0.07
32 34 0.16
33 7 0.03
34 16 0.07
35 19 0.09
36 32 0.15
37 58 0.27
38 14 0.06
39 18 0.08
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (38 bp):
AAGTAGAGTGAGTAACACGTCTTCATCCCTTGAAATTG
Found at i:52896054 original size:68 final size:67
Alignment explanation
Indices: 52895777--52896084 Score: 431
Period size: 68 Copynumber: 4.4 Consensus size: 67
52895767 GAAGTAGAGT
52895777 AAGTAGAGTAGATAAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAACGTCATCCTCCCCTT
1 AAGTAGAGT-GAT-AACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAACGTCA---TCCCCTT
52895842 GAAATTG
61 GAAATTG
* * *
52895849 AAGTAGAGTGAGTAACACGTC-TCATCCCTTGAAATTGAAGTAGTGGAGAACACGTCTTCATCCC
1 AAGTAGAGTGA-TAACACGTCTTCATCTC-TGAAATTGAAGTA--AGAGCA-ACG---TCATCCC
52895913 CTTGAAATTG
58 CTTGAAATTG
52895923 AAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAAA
1 AAGTAGAGT-GATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAAA
52895988 TTG
65 TTG
52895991 AAGTAGAGTGGATAACAC-TCTTCATCTCTGAAATTGAAGTAAGAGCAACGTCATCCCCTTTGAA
1 AAGTAGAGT-GATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAACGTCATCCCC-TTGAA
52896055 ATTG
64 ATTG
52896059 AAGTAGAGTGATAACACGTCTTCATC
1 AAGTAGAGTGATAACACGTCTTCATC
52896085 CNNNNNNNNN
Statistics
Matches: 218, Mismatches: 6, Indels: 28
0.87 0.02 0.11
Matches are distributed among these distances:
67 48 0.22
68 61 0.28
70 6 0.03
71 26 0.12
72 14 0.06
73 4 0.02
74 48 0.22
75 8 0.04
77 3 0.01
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (67 bp):
AAGTAGAGTGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAAAT
TG
Found at i:52896060 original size:32 final size:32
Alignment explanation
Indices: 52895952--52896063 Score: 118
Period size: 32 Copynumber: 3.4 Consensus size: 32
52895942 TCTTCATCTC
52895952 TGAAATTGAAGTAAGAGCAACGTCATCCCC-T
1 TGAAATTGAAGTAAGAGCAACGTCATCCCCTT
* * * * ** *
52895983 TGAAATTGAAGTAGAGTGGATAACACTCTTCATCTC
1 TGAAATTGAAGTA-AG-AG-CAAC-GTCATCCCCTT
52896019 TGAAATTGAAGTAAGAGCAACGTCATCCCCTT
1 TGAAATTGAAGTAAGAGCAACGTCATCCCCTT
52896051 TGAAATTGAAGTA
1 TGAAATTGAAGTA
52896064 GAGTGATAAC
Statistics
Matches: 62, Mismatches: 14, Indels: 9
0.73 0.16 0.11
Matches are distributed among these distances:
31 13 0.21
32 21 0.34
33 4 0.06
34 4 0.06
35 7 0.11
36 13 0.21
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.27
Consensus pattern (32 bp):
TGAAATTGAAGTAAGAGCAACGTCATCCCCTT
Found at i:52907458 original size:38 final size:38
Alignment explanation
Indices: 52907332--52908309 Score: 824
Period size: 38 Copynumber: 27.6 Consensus size: 38
52907322 AAGAGCAAAG
*
52907332 TCATCCCCTTGAAATTGAAGTAGAGTAGATAACACGTCT
1 TCAT-CCCTTGAAATTGAAGTAGAGTGGATAACACGTCT
* * *
52907371 TCATCTC-TGAAATTGAAGTA-A---G--AGCGACGTCA
1 TCATCCCTTGAAATTGAAGTAGAGTGGATAAC-ACGTCT
* *
52907403 TCCTCCCCTTTGAAATTGAAGAAGAGT-GAGTAACACGTCT
1 TCAT-CCC-TTGAAATTGAAGTAGAGTGGA-TAACACGTCT
52907443 TCATCCCTTGAAATTGAAGTAGAGTGGATAACACGTCT
1 TCATCCCTTGAAATTGAAGTAGAGTGGATAACACGTCT
52907481 TCATCCCTTGAAATTGAAGTAGAGTGGATAACACGTCT
1 TCATCCCTTGAAATTGAAGTAGAGTGGATAACACGTCT
* * * *
52907519 TCATCTC-TGAAATTGAAGTA-AG-AG-CAA-A-GTCA
1 TCATCCCTTGAAATTGAAGTAGAGTGGATAACACGTCT
*
52907551 TC--CCCTTGAAATTGAAGTAGAATGGATAACACGTCT
1 TCATCCCTTGAAATTGAAGTAGAGTGGATAACACGTCT
* * *
52907587 TCATCTC-TGAAATTGAAGTA-A---G--AGCGACGTCA
1 TCATCCCTTGAAATTGAAGTAGAGTGGATAAC-ACGTCT
* *
52907619 TCCTCCCCTTTGAAATTGAAGAAGAGT-GAGTAACACGTCT
1 TCAT-CCC-TTGAAATTGAAGTAGAGTGGA-TAACACGTCT
52907659 TCATCCCTTGAAATTGAAGTAGAGTGGATAACACGTCT
1 TCATCCCTTGAAATTGAAGTAGAGTGGATAACACGTCT
52907697 TCATCCCTTGAAATTGAAGTAGAGTGGATAACACGTCT
1 TCATCCCTTGAAATTGAAGTAGAGTGGATAACACGTCT
* * * *
52907735 TCATCTC-TGAAATTGAAGTA-AG-AG-CAA-A-GTCA
1 TCATCCCTTGAAATTGAAGTAGAGTGGATAACACGTCT
52907767 TC--CCCTTTGAAATTGAAGTAGAGTGGATAACACGTCT
1 TCATCCC-TTGAAATTGAAGTAGAGTGGATAACACGTCT
*
52907804 TCATCCCTTGAAATTGAAGTAGAGTGGATAACACGTCG
1 TCATCCCTTGAAATTGAAGTAGAGTGGATAACACGTCT
*
52907842 TCATCCCTTGAAATTGAAGTAGAGTGGATAACGCGTCT
1 TCATCCCTTGAAATTGAAGTAGAGTGGATAACACGTCT
* * *
52907880 TCATCTC-TGAAATTGAAGTA-AG-AG-CAA-A-G---
1 TCATCCCTTGAAATTGAAGTAGAGTGGATAACACGTCT
52907909 TCATCCCTTGAAATTGAAGTAGAGTGGATAACACGTCT
1 TCATCCCTTGAAATTGAAGTAGAGTGGATAACACGTCT
* * * *
52907947 TCAT-CTTTGAAATTGAAGTA-AG-AG-CAA-A-GTCA
1 TCATCCCTTGAAATTGAAGTAGAGTGGATAACACGTCT
52907979 TC--CCCTTGAAATTGAAGTAGAGTGGATAACACGTCT
1 TCATCCCTTGAAATTGAAGTAGAGTGGATAACACGTCT
* ** *
52908015 TCATCTC-TGAAATTGAAGTA-A---GAGCA-ACGTCA
1 TCATCCCTTGAAATTGAAGTAGAGTGGATAACACGTCT
*
52908047 TC--CCCTTTGAAATTGAAGTAGAGTGGATAACGCGTCT
1 TCATCCC-TTGAAATTGAAGTAGAGTGGATAACACGTCT
* * * *
52908084 TCATCTC-TGAAATTGAAGTA-AG-AG-CAA-A-GTCA
1 TCATCCCTTGAAATTGAAGTAGAGTGGATAACACGTCT
52908116 TC--CCCTTGAAATTGAAGTAGAGTGGATAACACGTCT
1 TCATCCCTTGAAATTGAAGTAGAGTGGATAACACGTCT
* ** *
52908152 TCATCTC-TGAAATTGAAGTA-A---GAGCA-ACGTCA
1 TCATCCCTTGAAATTGAAGTAGAGTGGATAACACGTCT
*
52908184 TC--CCCTTTGAAATTGAAGTAGAGTGGATAACGCGTCT
1 TCATCCC-TTGAAATTGAAGTAGAGTGGATAACACGTCT
* ** *
52908221 TCATCTC-TGAAATTGAAGTA-A---GAGCA-ACGTCA
1 TCATCCCTTGAAATTGAAGTAGAGTGGATAACACGTCT
*
52908253 TC--CCCTTTGAAATTGAAGTAGAGTGGATAACACGTCA
1 TCATCCC-TTGAAATTGAAGTAGAGTGGATAACACGTCT
*
52908290 TCATCTC-TGAAATTGAAGTA
1 TCATCCCTTGAAATTGAAGTA
52908310 AGAGCAACGT
Statistics
Matches: 757, Mismatches: 91, Indels: 184
0.73 0.09 0.18
Matches are distributed among these distances:
29 6 0.01
30 25 0.03
31 47 0.06
32 115 0.15
33 28 0.04
34 18 0.02
35 35 0.05
36 42 0.06
37 170 0.22
38 228 0.30
39 23 0.03
40 16 0.02
41 4 0.01
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (38 bp):
TCATCCCTTGAAATTGAAGTAGAGTGGATAACACGTCT
Found at i:52907671 original size:216 final size:209
Alignment explanation
Indices: 52907297--52908341 Score: 1519
Period size: 216 Copynumber: 4.9 Consensus size: 209
52907287 GCAGGTCTCA
*
52907297 ACGTCTTCATCTCTGAAATTGAAGTAAGAGCAAAGTCATCCCCTTGAAATTGAAGTAGAGTAGAT
1 ACGTCTTCATCTCTGAAATTGAAGTAAGAGCAAAGTCATCCCCTTGAAATTGAAGTAGAGTGGAT
*
52907362 AACACGTCTTCATCTCTGAAATTGAAGTAAGAGCGACGTCATCCTCCCCTTTGAAATTGAAGAAG
66 AACACGTCTTCATCTCTGAAATTGAAGTAAGAGCGACGTCAT-CTCCCCTTTGAAATTGAAGTAG
* * *
52907427 AGT-GAGTAACACGTCTTCATCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCCCTTG
130 AGTGGA-TAACACGTCTTCATCTC-TGAAATTGAAGTA-AG-AG-CAA-A-GTCTTCATCCCTTG
52907491 AAATTGAAGTAGAGTGGATAAC
188 AAATTGAAGTAGAGTGGATAAC
*
52907513 ACGTCTTCATCTCTGAAATTGAAGTAAGAGCAAAGTCATCCCCTTGAAATTGAAGTAGAATGGAT
1 ACGTCTTCATCTCTGAAATTGAAGTAAGAGCAAAGTCATCCCCTTGAAATTGAAGTAGAGTGGAT
*
52907578 AACACGTCTTCATCTCTGAAATTGAAGTAAGAGCGACGTCATCCTCCCCTTTGAAATTGAAGAAG
66 AACACGTCTTCATCTCTGAAATTGAAGTAAGAGCGACGTCAT-CTCCCCTTTGAAATTGAAGTAG
* * *
52907643 AGT-GAGTAACACGTCTTCATCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCCCTTG
130 AGTGGA-TAACACGTCTTCATCTC-TGAAATTGAAGTA-AG-AG-CAA-A-GTCTTCATCCCTTG
52907707 AAATTGAAGTAGAGTGGATAAC
188 AAATTGAAGTAGAGTGGATAAC
52907729 ACGTCTTCATCTCTGAAATTGAAGTAAGAGCAAAGTCATCCCCTTTGAAATTGAAGTAGAGTGGA
1 ACGTCTTCATCTCTGAAATTGAAGTAAGAGCAAAGTCATCCCC-TTGAAATTGAAGTAGAGTGGA
* * *
52907794 TAACACGTCTTCATCCCTTGAAATTGAAGT-AGAGTGGATAACACGTCGTCAT-CCC-TTGAAAT
65 TAACACGTCTTCATCTC-TGAAATTGAAGTAAGAG-CG-----ACGTCATC-TCCCCTTTGAAAT
*
52907856 TGAAGTAGAGTGGATAACGCGTCTTCATCTCTGAAATTGAAGTAAGAGCAAAG---TCATCCCTT
122 TGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAAAGTCTTCATCCCTT
52907918 GAAATTGAAGTAGAGTGGATAAC
187 GAAATTGAAGTAGAGTGGATAAC
*
52907941 ACGTCTTCATCTTTGAAATTGAAGTAAGAGCAAAGTCATCCCCTTGAAATTGAAGTAGAGTGGAT
1 ACGTCTTCATCTCTGAAATTGAAGTAAGAGCAAAGTCATCCCCTTGAAATTGAAGTAGAGTGGAT
*
52908006 AACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAACGTCA--TCCCCTTTGAAATTGAAGTAGA
66 AACACGTCTTCATCTCTGAAATTGAAGTAAGAGCGACGTCATCTCCCCTTTGAAATTGAAGTAGA
* *
52908069 GTGGATAACGCGTCTTCATCTCTGAAATTGAAGTAAGAGCAAAGTCATC--CCCTTGAAATTGAA
131 GTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAAAGTCTTCATCCCTTGAAATTGAA
52908132 GTAGAGTGGATAAC
196 GTAGAGTGGATAAC
*
52908146 ACGTCTTCATCTCTGAAATTGAAGTAAGAGCAACGTCATCCCCTTTGAAATTGAAGTAGAGTGGA
1 ACGTCTTCATCTCTGAAATTGAAGTAAGAGCAAAGTCATCCCC-TTGAAATTGAAGTAGAGTGGA
* *
52908211 TAACGCGTCTTCATCTCTGAAATTGAAGTAAGAGCAACGTCA--TCCCCTTTGAAATTGAAGTAG
65 TAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCGACGTCATCTCCCCTTTGAAATTGAAGTAG
* * *
52908274 AGTGGATAACACGTCATCATCTCTGAAATTGAAGTAAGAGCAACGTCATC--CCCTTTGAAATTG
130 AGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAAAGTCTTCATCCC-TTGAAATTG
52908337 AAGTA
194 AAGTA
52908342 AAGTTGGACA
Statistics
Matches: 789, Mismatches: 22, Indels: 45
0.92 0.03 0.05
Matches are distributed among these distances:
202 1 0.00
203 3 0.00
204 60 0.08
205 74 0.09
206 133 0.17
207 16 0.02
210 12 0.02
211 41 0.05
212 74 0.09
215 1 0.00
216 258 0.33
217 42 0.05
218 14 0.02
219 2 0.00
220 13 0.02
221 32 0.04
222 6 0.01
223 7 0.01
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.27
Consensus pattern (209 bp):
ACGTCTTCATCTCTGAAATTGAAGTAAGAGCAAAGTCATCCCCTTGAAATTGAAGTAGAGTGGAT
AACACGTCTTCATCTCTGAAATTGAAGTAAGAGCGACGTCATCTCCCCTTTGAAATTGAAGTAGA
GTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAAAGTCTTCATCCCTTGAAATTGAA
GTAGAGTGGATAAC
Found at i:52907790 original size:69 final size:68
Alignment explanation
Indices: 52907697--52908341 Score: 1042
Period size: 69 Copynumber: 9.3 Consensus size: 68
52907687 TAACACGTCT
52907697 TCAT-CCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCA
1 TCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCA
52907761 AAG
66 AAG
*
52907764 TCATCCCCTTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCCCTTGAAATTGAAGTAGAGT
1 TCATCCCC-TTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTC-TGAAATTGAAGTA-AG-
* *
52907829 GGATAACACG
62 AG-CAA-A-G
* *
52907839 TCGTCATCCCTTGAAATTGAAGTAGAGTGGATAACGCGTCTTCATCTCTGAAATTGAAGTAAGAG
1 TCATC--CCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAG
52907904 CAAAG
64 CAAAG
*
52907909 TCAT-CCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTTTGAAATTGAAGTAAGAGCA
1 TCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCA
52907973 AAG
66 AAG
52907976 TCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCA
1 TCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCA
*
52908041 ACG
66 AAG
*
52908044 TCATCCCCTTTGAAATTGAAGTAGAGTGGATAACGCGTCTTCATCTCTGAAATTGAAGTAAGAGC
1 TCATCCCC-TTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGC
52908109 AAAG
65 AAAG
52908113 TCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCA
1 TCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCA
*
52908178 ACG
66 AAG
*
52908181 TCATCCCCTTTGAAATTGAAGTAGAGTGGATAACGCGTCTTCATCTCTGAAATTGAAGTAAGAGC
1 TCATCCCC-TTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGC
*
52908246 AACG
65 AAAG
*
52908250 TCATCCCCTTTGAAATTGAAGTAGAGTGGATAACACGTCATCATCTCTGAAATTGAAGTAAGAGC
1 TCATCCCC-TTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGC
*
52908315 AACG
65 AAAG
52908319 TCATCCCCTTTGAAATTGAAGTA
1 TCATCCCC-TTGAAATTGAAGTA
52908342 AAGTTGGACA
Statistics
Matches: 545, Mismatches: 20, Indels: 24
0.93 0.03 0.04
Matches are distributed among these distances:
67 69 0.13
68 138 0.25
69 252 0.46
70 17 0.03
71 3 0.01
72 3 0.01
73 3 0.01
74 3 0.01
75 18 0.03
76 36 0.07
77 3 0.01
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (68 bp):
TCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCA
AAG
Found at i:52908655 original size:6 final size:6
Alignment explanation
Indices: 52908637--52908730 Score: 79
Period size: 6 Copynumber: 16.0 Consensus size: 6
52908627 TTAAATTGAT
* * *
52908637 TTTAAA TTT--A TTTAAA TTTAGA TTT-AT TTTAAA TTT-AA TTTGAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
** * *
52908681 TTTAAA TTTAAA TAAAAA TTAAAA TATTAAA TTTAACA TTAAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA TTTAA-A TTTAAA TTTAAA
52908731 AGTCCAAATA
Statistics
Matches: 71, Mismatches: 11, Indels: 12
0.76 0.12 0.13
Matches are distributed among these distances:
4 4 0.06
5 8 0.11
6 49 0.69
7 10 0.14
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.48
Consensus pattern (6 bp):
TTTAAA
Found at i:52908667 original size:17 final size:15
Alignment explanation
Indices: 52908641--52908691 Score: 66
Period size: 17 Copynumber: 3.1 Consensus size: 15
52908631 ATTGATTTTA
52908641 AATTTATTTAAATTT
1 AATTTATTTAAATTT
52908656 AGATTTATTTTAAATTT
1 A-ATTTA-TTTAAATTT
52908673 AATTTGAATTTAAATTT
1 AATTT--ATTTAAATTT
52908690 AA
1 AA
52908692 ATAAAAATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
15 1 0.03
16 9 0.28
17 21 0.66
18 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (15 bp):
AATTTATTTAAATTT
Found at i:52908682 original size:11 final size:11
Alignment explanation
Indices: 52908627--52908691 Score: 55
Period size: 11 Copynumber: 5.9 Consensus size: 11
52908617 GACTTTTGAG
* *
52908627 TTAAATTGATT
1 TTAAATTTAAT
52908638 TTAAATTT-AT
1 TTAAATTTAAT
52908648 TTAAATTTAGAT
1 TTAAATTTA-AT
*
52908660 TT-ATTTTAAAT
1 TTAAATTT-AAT
52908671 TT-AATTTGAAT
1 TTAAATTT-AAT
52908682 TTAAATTTAA
1 TTAAATTTAA
52908692 ATAAAAATTA
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
10 9 0.20
11 26 0.58
12 10 0.22
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (11 bp):
TTAAATTTAAT
Found at i:52908827 original size:14 final size:14
Alignment explanation
Indices: 52908808--52908846 Score: 55
Period size: 12 Copynumber: 2.9 Consensus size: 14
52908798 TTTGGCCCAC
52908808 GGCCCAATTACAAA
1 GGCCCAATTACAAA
*
52908822 GGCCCAATT--AAG
1 GGCCCAATTACAAA
52908834 GGCCCAATTACAA
1 GGCCCAATTACAA
52908847 TAGTCTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
12 11 0.50
14 11 0.50
ACGTcount: A:0.38, C:0.28, G:0.18, T:0.15
Consensus pattern (14 bp):
GGCCCAATTACAAA
Found at i:52910445 original size:161 final size:163
Alignment explanation
Indices: 52910264--52910581 Score: 450
Period size: 162 Copynumber: 2.0 Consensus size: 163
52910254 ATTTTCAATT
** *
52910264 TAGTCCATTGACTGTTTGACTGTACCATGGGC-TGCCACGTGTC-TCTTTTTGGATTATTTATGC
1 TAGTCCATTGACTGTTTGACTACACCA-GAGCTTGCCACGTGTCATCTTTTTGGATTATTTATGC
*
52910327 ATTTAGTCCTTTTTATCTTTT-ATTTGTTTTAATTTAATCC-CAAATCAA-TTTTATTTTAATTA
65 ATTTAGTCCTTTTTAT-TTTTAATTTGTTTTAATTTAATCCTCAAATCAACTTTTA-TTTAAATA
*
52910389 CGAAATTGG-CCCAATAATTTTTCAAAGTTTATAAAC
128 CAAAATTGGTCCCAA-AATTTTTCAAAGTTTATAAAC
* * * *
52910425 TAGTCCTTTGACTTTTTGACTACACCAGAGCTTGCCACGTGTCATCTTTTTGGATTATTTCTGTA
1 TAGTCCATTGACTGTTTGACTACACCAGAGCTTGCCACGTGTCATCTTTTTGGATTATTTATGCA
*
52910490 TTTAGTCCTTTTTATTTTTAATTTGTTTTAATTTAATCCTTAAATCAACTTTTATTTAAATACAA
66 TTTAGTCCTTTTTATTTTTAATTTGTTTTAATTTAATCCTCAAATCAACTTTTATTTAAATACAA
* *
52910555 AATTGGTCCTAAAATTTTTCAAGGTTT
131 AATTGGTCCCAAAATTTTTCAAAGTTT
52910582 TCAAATTGGT
Statistics
Matches: 139, Mismatches: 12, Indels: 10
0.86 0.07 0.06
Matches are distributed among these distances:
160 3 0.02
161 38 0.27
162 53 0.38
163 36 0.26
164 9 0.06
ACGTcount: A:0.25, C:0.16, G:0.12, T:0.47
Consensus pattern (163 bp):
TAGTCCATTGACTGTTTGACTACACCAGAGCTTGCCACGTGTCATCTTTTTGGATTATTTATGCA
TTTAGTCCTTTTTATTTTTAATTTGTTTTAATTTAATCCTCAAATCAACTTTTATTTAAATACAA
AATTGGTCCCAAAATTTTTCAAAGTTTATAAAC
Found at i:52910711 original size:30 final size:30
Alignment explanation
Indices: 52910670--52910900 Score: 344
Period size: 30 Copynumber: 7.7 Consensus size: 30
52910660 CCCCAAACAA
* *
52910670 TCCAGAAATTATATTTTAACCCCAAAACTTT
1 TCCA-AAATTACATTTTGACCCCAAAACTTT
*
52910701 TCCAAAATTATATTTTGACCCCAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
*
52910731 TCCAAAATTATATTTTGACCCCAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
* *
52910761 TCCAAAATTACATCTTAACCCCAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
*
52910791 TCCAAAATTACA-TTTGACCCCAAAACATT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
52910820 TCCAAAATTACATTTTGACCCCAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
52910850 TCCAAAATTACATTTTGACCCCAAAAC--T
1 TCCAAAATTACATTTTGACCCCAAAACTTT
52910878 TCCAAAAATTACCATTTT-ACCCC
1 TCC-AAAATTA-CATTTTGACCCC
52910901 CGAAGCTTCT
Statistics
Matches: 189, Mismatches: 8, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
28 4 0.02
29 38 0.20
30 143 0.76
31 4 0.02
ACGTcount: A:0.38, C:0.27, G:0.03, T:0.32
Consensus pattern (30 bp):
TCCAAAATTACATTTTGACCCCAAAACTTT
Found at i:52910845 original size:19 final size:19
Alignment explanation
Indices: 52910821--52910875 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 19
52910811 CAAAACATTT
52910821 CCAAAATTACATTTTGACC
1 CCAAAATTACATTTTGACC
52910840 CC-AAA--AC-TTTT----
1 CCAAAATTACATTTTGACC
52910851 CCAAAATTACATTTTGACC
1 CCAAAATTACATTTTGACC
52910870 CCAAAA
1 CCAAAA
52910876 CTTCCAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 16
0.64 0.00 0.36
Matches are distributed among these distances:
11 2 0.07
12 3 0.11
14 2 0.07
15 8 0.29
16 2 0.07
18 3 0.11
19 8 0.29
ACGTcount: A:0.40, C:0.27, G:0.04, T:0.29
Consensus pattern (19 bp):
CCAAAATTACATTTTGACC
Found at i:52910916 original size:59 final size:59
Alignment explanation
Indices: 52910675--52911031 Score: 199
Period size: 59 Copynumber: 6.0 Consensus size: 59
52910665 AACAATCCAG
* * * * * *
52910675 AAATTATATTTTAACCCCAAAACTTTTCC-AAAATTA-TATTTTGA-CCCCAAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAAC--TTCCAAAAATTACCATTTT-ACCCCCGAAACTTCT-AA
* * * * * *
52910735 AAATTATATTTTGACCCCAAAACTTTTCC-AAAATTA-CATCTTAACCCCAAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAAC--TTCCAAAAATTACCATTTTACCCCCGAAACTTCT-AA
* * *
52910795 AAATTACA-TTTGACCCCAAAACATTTCC-AAAATTA-CATTTTGA-CCCCAAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAAC--TTCCAAAAATTACCATTTT-ACCCCCGAAACTTCT-AA
*
52910854 AAATTACATTTTGACCCCAAAACTTCCAAAAATTACCATTTTACCCCCGAAGCTTCTAA
1 AAATTACATTTTGACCCCAAAACTTCCAAAAATTACCATTTTACCCCCGAAACTTCTAA
* * * * * *
52910913 AAA-TCCATTTTAAACCCC--GATTTCACCAAAAATTACCATTTTACCCTCGAAGCTTCT--
1 AAATTACATTTT-GACCCCAAAACTT--CCAAAAATTACCATTTTACCCCCGAAACTTCTAA
* * * *
52910970 AAA-TACCGTTTTTAACCCC--GATTTCATCAAAAATTACCATTTTACCCCCGAAACTTCTAA
1 AAATTA-C-ATTTTGACCCCAAAACTTC--CAAAAATTACCATTTTACCCCCGAAACTTCTAA
52911030 AA
1 AA
52911032 TTCCGTTTTA
Statistics
Matches: 263, Mismatches: 19, Indels: 30
0.84 0.06 0.10
Matches are distributed among these distances:
56 1 0.00
57 7 0.03
58 52 0.20
59 108 0.41
60 95 0.36
ACGTcount: A:0.37, C:0.27, G:0.04, T:0.32
Consensus pattern (59 bp):
AAATTACATTTTGACCCCAAAACTTCCAAAAATTACCATTTTACCCCCGAAACTTCTAA
Found at i:52910916 original size:89 final size:88
Alignment explanation
Indices: 52910670--52910900 Score: 311
Period size: 89 Copynumber: 2.6 Consensus size: 88
52910660 CCCCAAACAA
* * * * *
52910670 TCCAGAAATTATATTTTAACCCCAAAACTTTTCCAAAATTATATTTTGACCCCAAAACTTTTCCA
1 TCCA-AAATTACATCTTAACCCCAAAAC-TTTCCAAAATTACA-TTTGACCCCAAAACATTTCAA
*
52910735 AAATTATATTTTGACCCCAAAACTTT
63 AAATTACATTTTGACCCCAAAACTTT
*
52910761 TCCAAAATTACATCTTAACCCCAAAACTTTTCCAAAATTACATTTGACCCCAAAACATTTCCAAA
1 TCCAAAATTACATCTTAACCCCAAAAC-TTTCCAAAATTACATTTGACCCCAAAACATTTCAAAA
52910826 ATTACATTTTGACCCCAAAACTTT
65 ATTACATTTTGACCCCAAAACTTT
* * *
52910850 TCCAAAATTACATTTTGACCCCAAAAC-TTCCAAAAATTACCATTTTACCCC
1 TCCAAAATTACATCTTAACCCCAAAACTTTCC-AAAATTA-CATTTGACCCC
52910901 CGAAGCTTCT
Statistics
Matches: 130, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
87 4 0.03
88 7 0.05
89 80 0.62
90 35 0.27
91 4 0.03
ACGTcount: A:0.38, C:0.27, G:0.03, T:0.32
Consensus pattern (88 bp):
TCCAAAATTACATCTTAACCCCAAAACTTTCCAAAATTACATTTGACCCCAAAACATTTCAAAAA
TTACATTTTGACCCCAAAACTTT
Found at i:52911015 original size:58 final size:59
Alignment explanation
Indices: 52910879--52911135 Score: 333
Period size: 58 Copynumber: 4.4 Consensus size: 59
52910869 CCCAAAACTT
*
52910879 CCAAAAATTACCATTTTACCCCCGAAGCTTCTAAAA-ATCCATTTTAAACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCTCGAAGCTTCTAAAATA-CCATTTTAAACCCCGATTTCA
* *
52910938 CCAAAAATTACCATTTTACCCTCGAAGCTTCT-AAATACCGTTTTTAACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCTCGAAGCTTCTAAAATACCATTTTAAACCCCGATTTCA
* * * * *
52910996 TCAAAAATTACCATTTTACCCCCGAAACTTCTAAAATTCCGTTTT-AACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCTCGAAGCTTCTAAAATACCATTTTAAACCCCGATTTCA
* * ** * * *
52911054 CCGAAAATTGCCATTTTACCCTCGAATATTTTAAAATTCCATTTTAAACCCCGATTACA
1 CCAAAAATTACCATTTTACCCTCGAAGCTTCTAAAATACCATTTTAAACCCCGATTTCA
*
52911113 CC-AAAATTACCATTTTGCCCTCG
1 CCAAAAATTACCATTTTACCCTCG
52911136 GGTATCCATA
Statistics
Matches: 177, Mismatches: 18, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
58 120 0.68
59 57 0.32
ACGTcount: A:0.33, C:0.29, G:0.06, T:0.32
Consensus pattern (59 bp):
CCAAAAATTACCATTTTACCCTCGAAGCTTCTAAAATACCATTTTAAACCCCGATTTCA
Found at i:52911060 original size:29 final size:30
Alignment explanation
Indices: 52910880--52911128 Score: 125
Period size: 29 Copynumber: 8.5 Consensus size: 30
52910870 CCAAAACTTC
* *
52910880 CAAAAATTACCATTTTACCCCCGAAGCTTC-T
1 CAAAAATTACCATTTTAACCCCG-A-TTTCAT
*
52910911 -AAAAA-T-CCATTTTAAACCCCGATTTCAC
1 CAAAAATTACCATTTT-AACCCCGATTTCAT
** *
52910939 CAAAAATTACCATTTT-ACCCTCGA-AGCTT
1 CAAAAATTACCATTTTAACCC-CGATTTCAT
* *
52910968 C-TAAA-TACCGTTTTTAACCCCGATTTCAT
1 CAAAAATTACC-ATTTTAACCCCGATTTCAT
* ** *
52910997 CAAAAATTACCATTTTACCCCCGA-AACTT
1 CAAAAATTACCATTTTAACCCCGATTTCAT
* * *
52911026 CTAAAATT-CCGTTTTAACCCCGATTTCAC
1 CAAAAATTACCATTTTAACCCCGATTTCAT
* *
52911055 CGAAAATTGCCATTTT-ACCCTCGAATATT--T
1 CAAAAATTACCATTTTAACCC-CG-AT-TTCAT
* *
52911085 -TAAAATT-CCATTTTAAACCCCGATTACA-
1 CAAAAATTACCATTTT-AACCCCGATTTCAT
*
52911113 CCAAAATTACCATTTT
1 CAAAAATTACCATTTT
52911129 GCCCTCGGGT
Statistics
Matches: 165, Mismatches: 31, Indels: 45
0.68 0.13 0.19
Matches are distributed among these distances:
27 8 0.05
28 40 0.24
29 60 0.36
30 42 0.25
31 13 0.08
32 2 0.01
ACGTcount: A:0.34, C:0.28, G:0.06, T:0.33
Consensus pattern (30 bp):
CAAAAATTACCATTTTAACCCCGATTTCAT
Found at i:52911099 original size:116 final size:117
Alignment explanation
Indices: 52910880--52911128 Score: 351
Period size: 117 Copynumber: 2.1 Consensus size: 117
52910870 CCAAAACTTC
*
52910880 CAAAAATTACCATTTTACCCCCGAAGCTTCTAAAAATCCATTTTAAACCCCGATTTCACCAAAAA
1 CAAAAATTACCATTTTACCCCCGAAACTTCTAAAAATCCATTTTAAACCCCGATTTCACCAAAAA
* * *
52910945 TTACCATTTTACCCTCGAAGCTTCTAAATACCG-TTTTTAACCCCGATTTCA
66 TTACCATTTTACCCTCGAAGATTCTAAATACCGATTTTAAACCCCGATTACA
* * *
52910996 TCAAAAATTACCATTTTACCCCCGAAACTTCTAAAATTCCGTTTT-AACCCCGATTTCACCGAAA
1 -CAAAAATTACCATTTTACCCCCGAAACTTCTAAAAATCCATTTTAAACCCCGATTTCACCAAAA
* * * *
52911060 ATTGCCATTTTACCCTCGAATATTTTAAAATTCC-ATTTTAAACCCCGATTACA
65 ATTACCATTTTACCCTCGAAGATTCT-AAATACCGATTTTAAACCCCGATTACA
*
52911113 CCAAAATTACCATTTT
1 CAAAAATTACCATTTT
52911129 GCCCTCGGGT
Statistics
Matches: 118, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
116 55 0.47
117 63 0.53
ACGTcount: A:0.34, C:0.28, G:0.06, T:0.33
Consensus pattern (117 bp):
CAAAAATTACCATTTTACCCCCGAAACTTCTAAAAATCCATTTTAAACCCCGATTTCACCAAAAA
TTACCATTTTACCCTCGAAGATTCTAAATACCGATTTTAAACCCCGATTACA
Found at i:52919329 original size:12 final size:12
Alignment explanation
Indices: 52919312--52919346 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
52919302 AGCAGGAAAC
52919312 AAGGATAATGAT
1 AAGGATAATGAT
*
52919324 AAGGATAAGGAT
1 AAGGATAATGAT
52919336 AAGGATAATGA
1 AAGGATAATGA
52919347 AGATCGTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.51, C:0.00, G:0.29, T:0.20
Consensus pattern (12 bp):
AAGGATAATGAT
Found at i:52919330 original size:6 final size:6
Alignment explanation
Indices: 52919312--52919343 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
52919302 AGCAGGAAAC
*
52919312 AAGGAT AATGAT AAGGAT AAGGAT AAGGAT AA
1 AAGGAT AAGGAT AAGGAT AAGGAT AAGGAT AA
52919344 TGAAGATCGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.53, C:0.00, G:0.28, T:0.19
Consensus pattern (6 bp):
AAGGAT
Found at i:52922411 original size:99 final size:99
Alignment explanation
Indices: 52922300--52922743 Score: 726
Period size: 99 Copynumber: 4.5 Consensus size: 99
52922290 GGAGTGGGCT
** *
52922300 CTCCCTTCGGTAATATCCCAGTGTTCAAACTAGGACCATCTTGACTTACATTAAATGGTGGATTT
1 CTCCCTTCGGTAATATCCCAACGTTCAAACCAGGACCATCTTGACTTACATTAAATGGTGGATTT
*
52922365 CGACCTTTTCCAGGGGAAGATGGTGGAACGAGCC
66 CCACCTTTTCCAGGGGAAGATGGTGGAACGAGCC
*
52922399 CTCCCTTCGGTAATATCCCAACGTTCAAACCAGGACCATCTTGAGTTACATTAAATGGTGGATTT
1 CTCCCTTCGGTAATATCCCAACGTTCAAACCAGGACCATCTTGACTTACATTAAATGGTGGATTT
52922464 CCACCTTTTCCAGGGGAAGATGGTGGAACGAGCC
66 CCACCTTTTCCAGGGGAAGATGGTGGAACGAGCC
* *
52922498 CCCCCTTCGATAATATCCCAACGTTCAAACCAGGACCATCTTGACTTACATTAAATGGTGGATTT
1 CTCCCTTCGGTAATATCCCAACGTTCAAACCAGGACCATCTTGACTTACATTAAATGGTGGATTT
52922563 CCACCTTTTCCAGGGGAAGATGGTGGAACGAGCC
66 CCACCTTTTCCAGGGGAAGATGGTGGAACGAGCC
* * * *
52922597 CCCCCTTCGGTAATATCCCAATGTTCAAACCAGGACCATCTTTACTTACATTAAATGGTAGATTT
1 CTCCCTTCGGTAATATCCCAACGTTCAAACCAGGACCATCTTGACTTACATTAAATGGTGGATTT
* *
52922662 CCACATTTTCCAGGGGAAGATGGTGGAACGGGCC
66 CCACCTTTTCCAGGGGAAGATGGTGGAACGAGCC
* * * * *
52922696 CTCCCTTCGGTAATATCTCAAAGTTCAAAACACGACCAACTTGACTTA
1 CTCCCTTCGGTAATATCCCAACGTTCAAACCAGGACCATCTTGACTTA
52922744 TTGGAGATGG
Statistics
Matches: 324, Mismatches: 21, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
99 324 1.00
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (99 bp):
CTCCCTTCGGTAATATCCCAACGTTCAAACCAGGACCATCTTGACTTACATTAAATGGTGGATTT
CCACCTTTTCCAGGGGAAGATGGTGGAACGAGCC
Found at i:52922754 original size:99 final size:98
Alignment explanation
Indices: 52922300--52922833 Score: 694
Period size: 99 Copynumber: 5.3 Consensus size: 98
52922290 GGAGTGGGCT
** *
52922300 CTCCCTTCGGTAATATCCCAGTGTTCAAACTAGGACCATCTTGACTTACATTAAATGGTGGATTT
1 CTCCCTTCGGTAATATCCCAAAGTTCAAACCAGGACCATCTTGACTTA-ATTAAATGGTGGATTT
*
52922365 CGACCTTTTCCAGGGGAAGATGGTGGAACGAGCC
65 CCACCTTTTCCAGGGGAAGATGGTGGAACGAGCC
* *
52922399 CTCCCTTCGGTAATATCCCAACGTTCAAACCAGGACCATCTTGAGTTACATTAAATGGTGGATTT
1 CTCCCTTCGGTAATATCCCAAAGTTCAAACCAGGACCATCTTGACTTA-ATTAAATGGTGGATTT
52922464 CCACCTTTTCCAGGGGAAGATGGTGGAACGAGCC
65 CCACCTTTTCCAGGGGAAGATGGTGGAACGAGCC
* * *
52922498 CCCCCTTCGATAATATCCCAACGTTCAAACCAGGACCATCTTGACTTACATTAAATGGTGGATTT
1 CTCCCTTCGGTAATATCCCAAAGTTCAAACCAGGACCATCTTGACTTA-ATTAAATGGTGGATTT
52922563 CCACCTTTTCCAGGGGAAGATGGTGGAACGAGCC
65 CCACCTTTTCCAGGGGAAGATGGTGGAACGAGCC
* * * *
52922597 CCCCCTTCGGTAATATCCCAATGTTCAAACCAGGACCATCTTTACTTACATTAAATGGTAGATTT
1 CTCCCTTCGGTAATATCCCAAAGTTCAAACCAGGACCATCTTGACTTA-ATTAAATGGTGGATTT
* *
52922662 CCACATTTTCCAGGGGAAGATGGTGGAACGGGCC
65 CCACCTTTTCCAGGGGAAGATGGTGGAACGAGCC
* * * * *
52922696 CTCCCTTCGGTAATATCTCAAAGTTCAAAACACGACCAACTTGACTT-ATTGGAGATGGTGGAGG
1 CTCCCTTCGGTAATATCCCAAAGTTCAAACCAGGACCATCTTGACTTAATT--AAATGGT----G
**
52922760 AACTTGATTTCCACCTTTTTTAGGGGAAGATGGTGGAACCG-GCC
60 -----GATTTCCACCTTTTCCAGGGGAAGATGGTGGAA-CGAGCC
* *
52922804 CTCCCTTCGGTATTATCCCAAAGTTTAAAC
1 CTCCCTTCGGTAATATCCCAAAGTTCAAAC
52922834 TATCATCAAC
Statistics
Matches: 393, Mismatches: 30, Indels: 15
0.90 0.07 0.03
Matches are distributed among these distances:
97 3 0.01
99 329 0.84
108 59 0.15
109 2 0.01
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (98 bp):
CTCCCTTCGGTAATATCCCAAAGTTCAAACCAGGACCATCTTGACTTAATTAAATGGTGGATTTC
CACCTTTTCCAGGGGAAGATGGTGGAACGAGCC
Found at i:52922846 original size:108 final size:108
Alignment explanation
Indices: 52922657--52922933 Score: 337
Period size: 108 Copynumber: 2.6 Consensus size: 108
52922647 TTAAATGGTA
* * *
52922657 GATTTCCACATTTTCCAGGGGAAGATGGTGGAACGGGCCCTCCCTTCGGTAATATCTCAAAGTTC
1 GATTTCCACCTTTTCCAGGGGAAGATGGTGGAACAGGCCCTCCCTTCGGTAATATCCCAAAGTTC
52922722 AAAACACGACCAACTTGACTTA-TTGGAGATGGTGGAGGAACTT
66 AAAACACGACCAACTTGACTTAGTT-GAGATGGTGGAGGAACTT
** * *
52922765 GATTTCCACCTTTTTTAGGGGAAGATGGTGGAACCGGCCCTCCCTTCGGTATTATCCCAAAGTT-
1 GATTTCCACCTTTTCCAGGGGAAGATGGTGGAACAGGCCCTCCCTTCGGTAATATCCCAAAGTTC
* * * *
52922829 TAAACTATC-ATCAACTTGACTTAGTTTAGATGGTGGTGGAACTT
66 AAAAC-A-CGACCAACTTGACTTAGTTGAGATGGTGGAGGAACTT
* * * ** *
52922873 GATTTTCACCTTTTCCAGGTGCAGATGGTGGAGTAGGCCCTCCCTTCGATAACT-TCCCAAA
1 GATTTCCACCTTTTCCAGGGGAAGATGGTGGAACAGGCCCTCCCTTCGGTAA-TATCCCAAA
52922934 CTCCAAACCG
Statistics
Matches: 145, Mismatches: 20, Indels: 8
0.84 0.12 0.05
Matches are distributed among these distances:
107 4 0.03
108 137 0.94
109 4 0.03
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (108 bp):
GATTTCCACCTTTTCCAGGGGAAGATGGTGGAACAGGCCCTCCCTTCGGTAATATCCCAAAGTTC
AAAACACGACCAACTTGACTTAGTTGAGATGGTGGAGGAACTT
Found at i:52929376 original size:15 final size:15
Alignment explanation
Indices: 52929349--52929385 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
52929339 TATATCGATG
52929349 AATGAAATCAAATCA
1 AATGAAATCAAATCA
* *
52929364 AATCAAATGAAATCA
1 AATGAAATCAAATCA
52929379 AATGAAA
1 AATGAAA
52929386 GAATGGAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.62, C:0.11, G:0.08, T:0.19
Consensus pattern (15 bp):
AATGAAATCAAATCA
Found at i:52929382 original size:10 final size:10
Alignment explanation
Indices: 52929349--52929385 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
52929339 TATATCGATG
52929349 AATGAAATCA
1 AATGAAATCA
*
52929359 AATCAAATCA
1 AATGAAATCA
52929369 AATGAAATCA
1 AATGAAATCA
52929379 AATGAAA
1 AATGAAA
52929386 GAATGGAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.62, C:0.11, G:0.08, T:0.19
Consensus pattern (10 bp):
AATGAAATCA
Found at i:52934845 original size:4 final size:4
Alignment explanation
Indices: 52934817--52934869 Score: 52
Period size: 4 Copynumber: 12.8 Consensus size: 4
52934807 CATTTTCCTT
* * * *
52934817 TTTA TTCTA TTTTA TTGA TTGA TTTA TTTA TTTC TTTA TTTA TTTC TTTA
1 TTTA TT-TA -TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
52934867 TTT
1 TTT
52934870 TAGTTCCATT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
4 35 0.85
5 4 0.10
6 2 0.05
ACGTcount: A:0.19, C:0.06, G:0.04, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:52934854 original size:12 final size:12
Alignment explanation
Indices: 52934839--52934869 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
52934829 TATTGATTGA
52934839 TTTATTTATTTC
1 TTTATTTATTTC
52934851 TTTATTTATTTC
1 TTTATTTATTTC
52934863 TTTATTT
1 TTTATTT
52934870 TAGTTCCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTATTTATTTC
Found at i:52938651 original size:46 final size:46
Alignment explanation
Indices: 52938584--52938676 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
52938574 CTCCGATCCA
52938584 TCCTATCATAAGGGAAATTGATTGTGTTGTTTAAAATAGATAGGTT
1 TCCTATCATAAGGGAAATTGATTGTGTTGTTTAAAATAGATAGGTT
52938630 TCCTATCATAAGGGAAATTGATTGTGTTGTTTAAAATAGATAGGTT
1 TCCTATCATAAGGGAAATTGATTGTGTTGTTTAAAATAGATAGGTT
52938676 T
1 T
52938677 AAATGCAAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.32, C:0.06, G:0.22, T:0.40
Consensus pattern (46 bp):
TCCTATCATAAGGGAAATTGATTGTGTTGTTTAAAATAGATAGGTT
Found at i:52945210 original size:2 final size:2
Alignment explanation
Indices: 52945203--52945227 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
52945193 ACTCAATCCA
52945203 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
52945228 GTTGGAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:52945487 original size:26 final size:26
Alignment explanation
Indices: 52945458--52945516 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
52945448 TTAATTAAAA
*
52945458 TAATTTAATTC-AATTAATTCGAAATT
1 TAATTTAATTCAAATTAAATC-AAATT
**
52945484 TAATTTTTTTCAAATTAAATCAAATT
1 TAATTTAATTCAAATTAAATCAAATT
*
52945510 TTATTTA
1 TAATTTA
52945517 TTCTTACCTT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 19 0.70
27 8 0.30
ACGTcount: A:0.41, C:0.07, G:0.02, T:0.51
Consensus pattern (26 bp):
TAATTTAATTCAAATTAAATCAAATT
Found at i:52953918 original size:24 final size:25
Alignment explanation
Indices: 52953891--52953939 Score: 82
Period size: 24 Copynumber: 2.0 Consensus size: 25
52953881 TTTTTGAAAA
*
52953891 TTTGTATGCTCT-TTGTAGCATTTC
1 TTTGTATGCTCTCTGGTAGCATTTC
52953915 TTTGTATGCTCTCTGGTAGCATTTC
1 TTTGTATGCTCTCTGGTAGCATTTC
52953940 CTGTCCGTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 12 0.52
25 11 0.48
ACGTcount: A:0.12, C:0.18, G:0.18, T:0.51
Consensus pattern (25 bp):
TTTGTATGCTCTCTGGTAGCATTTC
Found at i:52954454 original size:3 final size:3
Alignment explanation
Indices: 52954446--52954497 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
52954436 TACATCCCAA
52954446 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
52954494 AAT A
1 AAT A
52954498 GAATAGAATA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:52955574 original size:13 final size:13
Alignment explanation
Indices: 52955556--52955631 Score: 89
Period size: 13 Copynumber: 5.8 Consensus size: 13
52955546 TTTCGAAAAA
52955556 AAAGTCAACGGTC
1 AAAGTCAACGGTC
52955569 AAAGTCAACGGTC
1 AAAGTCAACGGTC
** *
52955582 AGTGGTTAACGGTC
1 A-AAGTCAACGGTC
52955596 AAAGTCAACGGTC
1 AAAGTCAACGGTC
** *
52955609 ACGGTCAACAGTC
1 AAAGTCAACGGTC
52955622 AAAGTCAACG
1 AAAGTCAACG
52955632 CCGGTCAACA
Statistics
Matches: 50, Mismatches: 12, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
13 40 0.80
14 10 0.20
ACGTcount: A:0.36, C:0.22, G:0.25, T:0.17
Consensus pattern (13 bp):
AAAGTCAACGGTC
Done.