Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 184 of 373
Found at i:61689228 original size:48 final size:48
Alignment explanation
Indices: 61689123--61689295 Score: 217
Period size: 55 Copynumber: 3.5 Consensus size: 48
61689113 TATGTGTGCT
* ** *
61689123 AGTGTAAGACATGTCTGGGACATGCATCAG-CTACAG-TA-TAAGAGCC
1 AGTGTAAGACATGTTTGGGACATGCATCAGCCTTGAGATATTTA-AGCC
61689169 AGTGTAAGACATGTTTGGGACATGCATCAGCCTTGAGATATTTAAGCC
1 AGTGTAAGACATGTTTGGGACATGCATCAGCCTTGAGATATTTAAGCC
61689217 AGTGTAAGACATAAGACATGTTTGGGACATGCATCAGCCTTGAGATATTTAAGCC
1 A--GT--G---TAAGACATGTTTGGGACATGCATCAGCCTTGAGATATTTAAGCC
61689272 AGTGTAAGACATGTTTGGGACATG
1 AGTGTAAGACATGTTTGGGACATG
61689296 TGTAATAGCC
Statistics
Matches: 113, Mismatches: 4, Indels: 18
0.84 0.03 0.13
Matches are distributed among these distances:
46 29 0.26
47 4 0.04
48 27 0.24
49 2 0.02
50 2 0.02
51 1 0.01
52 1 0.01
53 2 0.02
55 45 0.40
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.27
Consensus pattern (48 bp):
AGTGTAAGACATGTTTGGGACATGCATCAGCCTTGAGATATTTAAGCC
Found at i:61689233 original size:55 final size:55
Alignment explanation
Indices: 61689173--61689283 Score: 222
Period size: 55 Copynumber: 2.0 Consensus size: 55
61689163 AGAGCCAGTG
61689173 TAAGACATGTTTGGGACATGCATCAGCCTTGAGATATTTAAGCCAGTGTAAGACA
1 TAAGACATGTTTGGGACATGCATCAGCCTTGAGATATTTAAGCCAGTGTAAGACA
61689228 TAAGACATGTTTGGGACATGCATCAGCCTTGAGATATTTAAGCCAGTGTAAGACA
1 TAAGACATGTTTGGGACATGCATCAGCCTTGAGATATTTAAGCCAGTGTAAGACA
61689283 T
1 T
61689284 GTTTGGGACA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.28
Consensus pattern (55 bp):
TAAGACATGTTTGGGACATGCATCAGCCTTGAGATATTTAAGCCAGTGTAAGACA
Found at i:61692850 original size:49 final size:50
Alignment explanation
Indices: 61692653--61692870 Score: 145
Period size: 49 Copynumber: 4.5 Consensus size: 50
61692643 TGAGACGAGA
* * * *
61692653 GCTAGTGTAAGACATGTCTGGGACAT-GCATCCGCCTCGCGATAT-ACAA
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGCTATATGACAT
* * * * * *
61692701 GCTAGAGTAAGACTTGTCTGGGACATGGCGTCAG-CTTG-T-TGTG---T
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGCTATATGACAT
* * * * * * *
61692745 G-TCAGTGTAAGACCTGTTTAGGACATGGCATTGACAC-CGATAGATGAGA-
1 GCT-AGTGTAAGACCTGTCTGGGACATGGCATCGGC-CTCGCTATATGACAT
* *
61692794 GCCAGTGTAAGACCTGTCTGGGACATGGTATCGGCCTCGCTATATGA-AT
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGCTATATGACAT
*
61692843 GCTAGTGTAAAACCATGTCTGGGACATG
1 GCTAGTGTAAGACC-TGTCTGGGACATG
61692871 ATGTTGGCAT
Statistics
Matches: 127, Mismatches: 29, Indels: 26
0.70 0.16 0.14
Matches are distributed among these distances:
43 1 0.01
44 24 0.19
45 1 0.01
46 4 0.03
47 2 0.02
48 29 0.23
49 53 0.42
50 13 0.10
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (50 bp):
GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGCTATATGACAT
Found at i:61693604 original size:32 final size:32
Alignment explanation
Indices: 61693568--61693633 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
61693558 GTTGGTTAAT
*
61693568 GTTAGATTTTGTTTCAATGTGGCAAAGGCTTG
1 GTTAGATTTTGTTTCAAGGTGGCAAAGGCTTG
61693600 GTTAGATTTTGTTTCAAGGTGGCAAAGGCTTG
1 GTTAGATTTTGTTTCAAGGTGGCAAAGGCTTG
61693632 GT
1 GT
61693634 AAATAGCCTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.21, C:0.09, G:0.30, T:0.39
Consensus pattern (32 bp):
GTTAGATTTTGTTTCAAGGTGGCAAAGGCTTG
Found at i:61710180 original size:27 final size:27
Alignment explanation
Indices: 61710150--61710327 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
61710140 ATATTGAGTC
* * * *
61710150 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* * *
61710177 CGCACACTTAGTGATACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
61710204 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
61710232 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
61710259 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
61710286 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
61710313 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
61710328 GTAAAATTTA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:61710289 original size:82 final size:81
Alignment explanation
Indices: 61710171--61710326 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
61710161 TGCTATATAA
* *
61710171 TCAACTCGCACACTTAGTGATACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGATACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
61710236 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
61710253 TCAATTCGCACACTTAGTGCAT-CATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTG-ATACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
61710317 CACTTAGTGC
65 CACTTAGTGC
61710327 TGTAAAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 50 0.75
83 2 0.03
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGATACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:61710825 original size:12 final size:12
Alignment explanation
Indices: 61710808--61710833 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
61710798 ATGGCATACT
61710808 TATGTATATATA
1 TATGTATATATA
61710820 TATGTATATATA
1 TATGTATATATA
61710832 TA
1 TA
61710834 CTTCGGAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (12 bp):
TATGTATATATA
Found at i:61718276 original size:27 final size:27
Alignment explanation
Indices: 61718246--61718423 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
61718236 ATATTGAGTC
* * * *
61718246 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
61718273 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
61718300 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
61718328 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
61718355 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
61718382 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
61718409 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
61718424 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:61718385 original size:82 final size:81
Alignment explanation
Indices: 61718267--61718422 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
61718257 TGCTATATAA
* *
61718267 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
61718332 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
61718349 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
61718413 CACTTAGTGC
65 CACTTAGTGC
61718423 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:61740634 original size:13 final size:13
Alignment explanation
Indices: 61740616--61740641 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
61740606 ATATTATAAT
61740616 TATTTTATGTTAA
1 TATTTTATGTTAA
61740629 TATTTTATGTTAA
1 TATTTTATGTTAA
61740642 AAATAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (13 bp):
TATTTTATGTTAA
Found at i:61741983 original size:40 final size:40
Alignment explanation
Indices: 61741935--61742140 Score: 326
Period size: 40 Copynumber: 5.2 Consensus size: 40
61741925 GGACTAAGAT
61741935 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* *
61741975 CCGAAGGCATTTGTACTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* *
61742015 CCGAAGGCAGTTGTGCTAGTGACTATATTCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
61742055 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* *
61742095 CCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTC
61742134 CCGAAGG
1 CCGAAGG
61742141 TACTTGGGTT
Statistics
Matches: 153, Mismatches: 12, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 15 0.10
40 136 0.89
41 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
Found at i:61744256 original size:48 final size:48
Alignment explanation
Indices: 61744049--61744408 Score: 216
Period size: 48 Copynumber: 7.6 Consensus size: 48
61744039 TTATGATGCG
* * * * * *
61744049 GATGCCATGCCCCAGACATGGTCTTACACTGGCTCATCCATCAAGT-C-
1 GATGCCATGTCCCAGACATGGTCTTACACTGACACTTCTAT-ACGTGCT
* ** *
61744096 GATGCCATGTCCCAGGCATGGTCTTACACTGACTA-TTGAAATTGAGGT-C-
1 GATGCCATGTCCCAGACATGGTCTTACACTGAC-ACTT-CTA-T-ACGTGCT
** * * *
61744145 GACACCATGTCCCAGACATAGTCTTACACT-AGCTCTCACATATACGTG-T
1 GATGCCATGTCCCAGACATGGTCTTACACTGA-CACT-TC-TATACGTGCT
61744194 CGATGCCATGTCCCAGACATGGTCTTACACTGACACTTCTATACGTGCT
1 -GATGCCATGTCCCAGACATGGTCTTACACTGACACTTCTATACGTGCT
* *
61744243 GATGCCATGTCCCAGACATGGTCTTACACTGACACATC--T-CGTAGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACACTTCTATACGT-GCT
* * * *
61744289 GATG-CATGTCCCAGACAT-GTCTTACACTG--GCTTCTATCTCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACACTTCTAT-ACG-TGCT
* * * * **
61744335 GGTG-CATGTCCCAAACAT-GTCTTACACT-AGCTCTTGTATAAATG-T
1 GATGCCATGTCCCAGACATGGTCTTACACTGA-CACTTCTATACGTGCT
*
61744380 CGATGCCATGTTCCAGACATGGTCTTACA
1 -GATGCCATGTCCCAGACATGGTCTTACA
61744409 TTGGCTCTCT
Statistics
Matches: 249, Mismatches: 40, Indels: 47
0.74 0.12 0.14
Matches are distributed among these distances:
42 3 0.01
44 12 0.05
45 17 0.07
46 42 0.17
47 43 0.17
48 64 0.26
49 36 0.14
50 31 0.12
51 1 0.00
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGACACTTCTATACGTGCT
Found at i:61744345 original size:46 final size:46
Alignment explanation
Indices: 61744049--61744456 Score: 196
Period size: 46 Copynumber: 8.6 Consensus size: 46
61744039 TTATGATGCG
* * * *
61744049 GATGCCATGCCCCAGACATGGTCTTACACTGGC-TC-ATCCATCAAGTC
1 GATG-CATGTCCCAGACATGGTCTTACACTGACTTCTAT-C-TCGAGCC
* ** * *
61744096 GATGCCATGTCCCAGGCATGGTCTTACACTGACTAT-TGAAATTGAGGTC
1 GATG-CATGTCCCAGACATGGTCTTACACTGACT-TCT-ATCTCGA-GCC
** * * * * *
61744145 GACACCATGTCCCAGACATAGTCTTACACT-AGCTCTCACATATACGTGTC
1 GA-TGCATGTCCCAGACATGGTCTTACACTGA-CT-TC-TATCT-CGAGCC
* * *
61744195 GATGCCATGTCCCAGACATGGTCTTACACTGACACTTCTAT-ACGTGCT
1 GATG-CATGTCCCAGACATGGTCTTACACTG--ACTTCTATCTCGAGCC
*
61744243 GATGCCATGTCCCAGACATGGTCTTACACTGAC-AC-ATCTCGTAGCC
1 GATG-CATGTCCCAGACATGGTCTTACACTGACTTCTATCTCG-AGCC
*
61744289 GATGCATGTCCCAGACAT-GTCTTACACTGGCTTCTATCTCGAGGCC
1 GATGCATGTCCCAGACATGGTCTTACACTGACTTCTATCTCGA-GCC
* * * * ** *
61744335 GGTGCATGTCCCAAACAT-GTCTTACACT-AGC-TCTTGTATAAATGTC
1 GATGCATGTCCCAGACATGGTCTTACACTGA-CTTC-TATCTCGA-GCC
* * * *
61744381 GATGCCATGTTCCAGACATGGTCTTACATTGGCTCTCTTAATGT-G-GCC
1 GATG-CATGTCCCAGACATGGTCTTACACTGACT-TC-T-ATCTCGAGCC
*
61744429 GATGCATGTCCCGGACAT-GTCTTACACT
1 GATGCATGTCCCAGACATGGTCTTACACT
61744457 AGCACACAAA
Statistics
Matches: 284, Mismatches: 50, Indels: 55
0.73 0.13 0.14
Matches are distributed among these distances:
44 14 0.05
45 21 0.07
46 62 0.22
47 54 0.19
48 54 0.19
49 32 0.11
50 39 0.14
51 5 0.02
52 2 0.01
53 1 0.00
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGGTCTTACACTGACTTCTATCTCGAGCC
Found at i:61744403 original size:138 final size:140
Alignment explanation
Indices: 61744200--61744456 Score: 335
Period size: 138 Copynumber: 1.8 Consensus size: 140
61744190 GTGTCGATGC
* **
61744200 CATGTCCCAGACATGGTCTTACACTGACACTTCTATACGTGCTGATGCCATGTCCCAGACATGGT
1 CATGTCCCAAACATGGTCTTACACTGACACTTCTATAAATGCTGATGCCATGTCCCAGACATGGT
61744265 CTTACACTGACACATC-T-CGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTCTATCT
66 CTTACACTGACAC-TCTTACGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTCTATCT
61744328 CGAGGCCGGTG
130 CGAGGCCGGTG
* * *
61744339 CATGTCCCAAACAT-GTCTTACACT-AGCTCTTGTATAAATG-TCGATGCCATGTTCCAGACATG
1 CATGTCCCAAACATGGTCTTACACTGA-CACTTCTATAAATGCT-GATGCCATGTCCCAGACATG
* * * * * *
61744401 GTCTTACATTGGCTCTCTTAATGTGGCCGATGCATGTCCCGGACATGTCTTACACT
64 GTCTTACACTGACACTCTT-ACGTAGCCGATGCATGTCCCAGACATGTCTTACACT
61744457 AGCACACAAA
Statistics
Matches: 101, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
137 4 0.04
138 52 0.51
139 13 0.13
140 32 0.32
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (140 bp):
CATGTCCCAAACATGGTCTTACACTGACACTTCTATAAATGCTGATGCCATGTCCCAGACATGGT
CTTACACTGACACTCTTACGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTCTATCTC
GAGGCCGGTG
Found at i:61744429 original size:94 final size:92
Alignment explanation
Indices: 61744150--61744459 Score: 242
Period size: 94 Copynumber: 3.3 Consensus size: 92
61744140 AGGTCGACAC
* ** **
61744150 CATGTCCCAGACATAGTCTTACACTAGCTCTCACATATACGTGTCGATGCCATGTCCCAGACATG
1 CATGTCCCAAACAT-GTCTTACACTAGCTCT--TGTATAAATGTCGATG-CATGTCCCAGACAT-
* * *
61744215 GTCTTACACTGACACTTCTATA-CG-TGCTGATG
61 GTCTTACACTG--GCTTCTATATCGAGGCCGATG
* * * *
61744247 CCATGTCCCAGACATGGTCTTACACTGACACATCTCG--T--A-GCCGATGCATGTCCCAGACAT
1 -CATGTCCCAAACAT-GTCTTACACT-A-GC-TCTTGTATAAATGTCGATGCATGTCCCAGACAT
* *
61744307 GTCTTACACTGGCTTCTATCTCGAGGCCGGTG
61 GTCTTACACTGGCTTCTATATCGAGGCCGATG
*
61744339 CATGTCCCAAACATGTCTTACACTAGCTCTTGTATAAATGTCGATGCCATGTTCCAGACATGGTC
1 CATGTCCCAAACATGTCTTACACTAGCTCTTGTATAAATGTCGATG-CATGTCCCAGACAT-GTC
* *
61744404 TTACATTGGCTCTCT-TAAT-GTGGCCGATG
64 TTACACTGGCT-TCTAT-ATCGAGGCCGATG
**
61744433 CATGTCCCGGACATGTCTTACACTAGC
1 CATGTCCCAAACATGTCTTACACTAGC
61744460 ACACAAATAA
Statistics
Matches: 177, Mismatches: 21, Indels: 32
0.77 0.09 0.14
Matches are distributed among these distances:
87 4 0.02
88 1 0.01
89 2 0.01
90 17 0.10
91 16 0.09
92 22 0.12
93 27 0.15
94 53 0.30
95 4 0.02
97 1 0.01
98 24 0.14
99 2 0.01
100 1 0.01
101 3 0.02
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (92 bp):
CATGTCCCAAACATGTCTTACACTAGCTCTTGTATAAATGTCGATGCATGTCCCAGACATGTCTT
ACACTGGCTTCTATATCGAGGCCGATG
Found at i:61744432 original size:48 final size:45
Alignment explanation
Indices: 61744150--61744456 Score: 189
Period size: 48 Copynumber: 6.5 Consensus size: 45
61744140 AGGTCGACAC
* * * *
61744150 CATGTCCCAGACATAGTCTTACACTAGCTCTCACATATACGTGTCGATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTCT--CTTA-ATGTGCCGATG
* * * *
61744199 CCATGTCCCAGACATGGTCTTACACTGACACT-TCTATACGTGCTGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTCTCT-TA-ATGTGCCGATG
* * *
61744247 CCATGTCCCAGACATGGTCTTACACTGACACATC-T--CGTAGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTC-TCTTAATGT-GCCGATG
* * *
61744293 CATGTCCCAGACATGTCTTACACTGGCT-TC-TATCTCGAGGCCGGTG
1 CATGTCCCAGACATGTCTTACACTGGCTCTCTTA-AT-G-TGCCGATG
* * *
61744339 CATGTCCCAAACATGTCTTACACTAGCTCTTGTATAAATGT--CGATG
1 CATGTCCCAGACATGTCTTACACTGGCTC-TCT-T-AATGTGCCGATG
* *
61744385 CCATGTTCCAGACATGGTCTTACATTGGCTCTCTTAATGTGGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTCTCTTAATGT-GCCGATG
*
61744433 CATGTCCCGGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
61744457 AGCACACAAA
Statistics
Matches: 211, Mismatches: 27, Indels: 42
0.75 0.10 0.15
Matches are distributed among these distances:
42 3 0.01
44 12 0.06
45 22 0.10
46 53 0.25
47 26 0.12
48 63 0.30
49 2 0.01
50 29 0.14
51 1 0.00
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTGGCTCTCTTAATGTGCCGATG
Found at i:61750124 original size:40 final size:40
Alignment explanation
Indices: 61750069--61750260 Score: 330
Period size: 40 Copynumber: 4.8 Consensus size: 40
61750059 TATTCGAATG
* *
61750069 ATATCCGGGCTAAGTCCCGAAGTCTTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
61750109 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
61750149 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
61750189 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
61750229 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
61750261 AAGTTAATAT
Statistics
Matches: 144, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 144 1.00
ACGTcount: A:0.22, C:0.23, G:0.26, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:61761695 original size:12 final size:13
Alignment explanation
Indices: 61761677--61761713 Score: 58
Period size: 12 Copynumber: 2.9 Consensus size: 13
61761667 TTTTTTATCC
61761677 TAATAAAATAAAA
1 TAATAAAATAAAA
61761690 -AATAAAATAAAA
1 TAATAAAATAAAA
*
61761702 TATTAAAATAAA
1 TAATAAAATAAA
61761714 TCGTTTCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 12 0.55
13 10 0.45
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
TAATAAAATAAAA
Found at i:61761700 original size:17 final size:18
Alignment explanation
Indices: 61761678--61761713 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
61761668 TTTTTATCCT
61761678 AATAAAATA-AAAAATAA
1 AATAAAATATAAAAATAA
*
61761695 AATAAAATATTAAAATAA
1 AATAAAATATAAAAATAA
61761713 A
1 A
61761714 TCGTTTCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (18 bp):
AATAAAATATAAAAATAA
Found at i:61763645 original size:17 final size:18
Alignment explanation
Indices: 61763625--61763658 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
61763615 AAGTGAATTG
61763625 AAATTGC-GAAACTAAAT
1 AAATTGCAGAAACTAAAT
*
61763642 AAATTGCAGAAATTAAA
1 AAATTGCAGAAACTAAA
61763659 ATGAGGAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.56, C:0.09, G:0.12, T:0.24
Consensus pattern (18 bp):
AAATTGCAGAAACTAAAT
Found at i:61764407 original size:20 final size:20
Alignment explanation
Indices: 61764378--61764429 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
61764368 AATGAAATTC
61764378 TAAAAGATAAATACAA-ATAAA
1 TAAAA-ATAAATA-AAGATAAA
*
61764399 TAAAAATAATTAAAGATAAA
1 TAAAAATAAATAAAGATAAA
*
61764419 TGAAAATAAAT
1 TAAAAATAAAT
61764430 TTTAAAATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 2 0.07
20 20 0.74
21 5 0.19
ACGTcount: A:0.69, C:0.02, G:0.06, T:0.23
Consensus pattern (20 bp):
TAAAAATAAATAAAGATAAA
Found at i:61766071 original size:29 final size:29
Alignment explanation
Indices: 61766029--61766088 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
61766019 TGCAATGGTT
61766029 AGTTTGGAGTTCAATTCTATACATGCTTG
1 AGTTTGGAGTTCAATTCTATACATGCTTG
61766058 AGTTTGGAGTTCAATTCTATACATGCTTG
1 AGTTTGGAGTTCAATTCTATACATGCTTG
61766087 AG
1 AG
61766089 AAATGTATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.25, C:0.13, G:0.22, T:0.40
Consensus pattern (29 bp):
AGTTTGGAGTTCAATTCTATACATGCTTG
Found at i:61766290 original size:29 final size:29
Alignment explanation
Indices: 61766248--61766310 Score: 117
Period size: 29 Copynumber: 2.2 Consensus size: 29
61766238 GAATATAGCA
61766248 TTATATAATCAATCTTAAAAAGGACAAAG
1 TTATATAATCAATCTTAAAAAGGACAAAG
*
61766277 TTATATAATCAATCTTAAAAAGGATAAAG
1 TTATATAATCAATCTTAAAAAGGACAAAG
61766306 TTATA
1 TTATA
61766311 ACTATGGTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.51, C:0.08, G:0.10, T:0.32
Consensus pattern (29 bp):
TTATATAATCAATCTTAAAAAGGACAAAG
Found at i:61767527 original size:26 final size:26
Alignment explanation
Indices: 61767492--61767545 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
61767482 TATATGATTA
61767492 ACACATGAGATAGTGACAAAACGTTC
1 ACACATGAGATAGTGACAAAACGTTC
61767518 ACACATGAGATAGTGACAAAACGTTC
1 ACACATGAGATAGTGACAAAACGTTC
61767544 AC
1 AC
61767546 TAGTGTTGGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.43, C:0.20, G:0.19, T:0.19
Consensus pattern (26 bp):
ACACATGAGATAGTGACAAAACGTTC
Found at i:61769911 original size:25 final size:24
Alignment explanation
Indices: 61769870--61769917 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
61769860 CTAGGGTTAC
* *
61769870 CGATCTCAGCTCTTATGAGCTTAT
1 CGATCTCAACTCGTATGAGCTTAT
61769894 CGATACTCAACTCGTATGAGCTTA
1 CGAT-CTCAACTCGTATGAGCTTA
61769918 CCATTATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (24 bp):
CGATCTCAACTCGTATGAGCTTAT
Found at i:61771119 original size:56 final size:56
Alignment explanation
Indices: 61771047--61771182 Score: 146
Period size: 56 Copynumber: 2.4 Consensus size: 56
61771037 TTAAAGAGCA
* * ** * *
61771047 CAAGTCAGTATGCTCACACGGTTTAGCATACAGATGTGTAGCTTGGCCGTGTGACC
1 CAAGTCAATATACTCACACGGCATAGCACACAGACGTGTAGCTTGGCCGTGTGACC
* * * *
61771103 CAAGTCAATATACTCACACGGCATAGCACACAGACGTGTGGTTTGGCCGTGTGTCA
1 CAAGTCAATATACTCACACGGCATAGCACACAGACGTGTAGCTTGGCCGTGTGACC
* * *
61771159 CAAGTTAGTATACCCACACAGGCA
1 CAAGTCAATATACTCACAC-GGCA
61771183 CGGACACGGG
Statistics
Matches: 66, Mismatches: 13, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
56 62 0.94
57 4 0.06
ACGTcount: A:0.27, C:0.25, G:0.24, T:0.24
Consensus pattern (56 bp):
CAAGTCAATATACTCACACGGCATAGCACACAGACGTGTAGCTTGGCCGTGTGACC
Found at i:61772957 original size:27 final size:27
Alignment explanation
Indices: 61772910--61772970 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
61772900 ATGACATCGT
* *
61772910 GGATAGTCCACTGGGACAATAAATACG
1 GGATAGTCCACTGAGACAATAAACACG
* *
61772937 GGATAGTCCA-TCGAGATAATAAGCACG
1 GGATAGTCCACT-GAGACAATAAACACG
61772964 GGATAGT
1 GGATAGT
61772971 ATGTTGGGAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 1 0.03
27 28 0.97
ACGTcount: A:0.36, C:0.16, G:0.28, T:0.20
Consensus pattern (27 bp):
GGATAGTCCACTGAGACAATAAACACG
Found at i:61775871 original size:48 final size:48
Alignment explanation
Indices: 61775810--61776036 Score: 225
Period size: 48 Copynumber: 4.8 Consensus size: 48
61775800 CACATGGTAG
* * * *
61775810 GATGCCAATGCCATATCCCGGATATGGTTTTACATGGGATCACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* * ** **
61775858 GATGCCAACGCCATGTCCCAAACATGGTCTTACATGGGATCGTAGGTC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
*
61775906 GATGCCAATGCCATGTCCCAGACATGGTCTTATATGGGATCACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* * * *
61775954 GATGCCGAT---A-G-CCTAG-CTATGGTCTTACAT-GAAGTTACATATC
1 GATGCCAATGCCATGTCCCAGAC-ATGGTCTTACATGGGA-TCACATATC
* * *
61775997 GATGCCAAAGCCATGTTCCAAACATGGTCTTACATGGGAT
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAT
61776037 TGTACATAAC
Statistics
Matches: 142, Mismatches: 28, Indels: 18
0.76 0.15 0.10
Matches are distributed among these distances:
42 3 0.02
43 30 0.21
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 102 0.72
49 3 0.02
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (48 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
Found at i:61778514 original size:12 final size:12
Alignment explanation
Indices: 61778499--61778524 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
61778489 AGCGAAGGGA
61778499 AAAGGGAAAGAG
1 AAAGGGAAAGAG
61778511 AAAGGGAAAGAG
1 AAAGGGAAAGAG
61778523 AA
1 AA
61778525 TTAATGTAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (12 bp):
AAAGGGAAAGAG
Found at i:61783907 original size:30 final size:30
Alignment explanation
Indices: 61783873--61783935 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
61783863 AAATATGGTA
61783873 CTAGAATAAATTTTGAATTGACAATTTATG
1 CTAGAATAAATTTTGAATTGACAATTTATG
61783903 CTAGAATAAATTTTGAATTGACAATTTATG
1 CTAGAATAAATTTTGAATTGACAATTTATG
61783933 CTA
1 CTA
61783936 TTTGAATGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.40
Consensus pattern (30 bp):
CTAGAATAAATTTTGAATTGACAATTTATG
Found at i:61785137 original size:10 final size:10
Alignment explanation
Indices: 61785119--61785170 Score: 52
Period size: 10 Copynumber: 5.1 Consensus size: 10
61785109 ATTATTAACA
*
61785119 TAATGAATTT
1 TAATTAATTT
61785129 TAATTAATTTT
1 TAATTAA-TTT
61785140 ATAATTAATTT
1 -TAATTAATTT
*
61785151 TGATTAATTT
1 TAATTAATTT
*
61785161 TGATT-ATTT
1 TAATTAATTT
61785170 T
1 T
61785171 CGATAGATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
9 5 0.13
10 20 0.53
11 6 0.16
12 7 0.18
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.60
Consensus pattern (10 bp):
TAATTAATTT
Found at i:61785143 original size:22 final size:22
Alignment explanation
Indices: 61785118--61785161 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
61785108 AATTATTAAC
61785118 ATAATGAATTTTAATTAATTTT
1 ATAATGAATTTTAATTAATTTT
* *
61785140 ATAATTAATTTTGATTAATTTT
1 ATAATGAATTTTAATTAATTTT
61785162 GATTATTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.57
Consensus pattern (22 bp):
ATAATGAATTTTAATTAATTTT
Found at i:61795355 original size:41 final size:40
Alignment explanation
Indices: 61795182--61795364 Score: 282
Period size: 40 Copynumber: 4.6 Consensus size: 40
61795172 AACCCAAGTA
*
61795182 CCTTCGGGAT-TTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGG-TCTTAGCCCGGATATAGTC-ACTAGCACAAATG
61795221 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
* *
61795261 CCTTCGGGACTTAGCCCGAATATAGTCACTAGCACAAATG
1 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
*
61795301 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAATG
1 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCAC-AAATG
61795342 CCTTCGGGTCTTAGCCCGGATAT
1 CCTTCGGGTCTTAGCCCGGATAT
61795365 CATCCGAATA
Statistics
Matches: 135, Mismatches: 5, Indels: 6
0.92 0.03 0.04
Matches are distributed among these distances:
38 1 0.01
39 12 0.09
40 94 0.70
41 28 0.21
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:61799990 original size:6 final size:6
Alignment explanation
Indices: 61799981--61800006 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
61799971 TTTATTATTA
61799981 TTAATT TTAATT TTAATT TTAATT TT
1 TTAATT TTAATT TTAATT TTAATT TT
61800007 CCTTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (6 bp):
TTAATT
Found at i:61801573 original size:46 final size:46
Alignment explanation
Indices: 61801521--61801690 Score: 250
Period size: 46 Copynumber: 3.7 Consensus size: 46
61801511 GGATATTTGG
*
61801521 ACATCCGAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCAA
1 ACATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA
* * * *
61801567 ACATCCGGACTCGTTGAGTTGAGTCTGAGTTCACATATGGATGCGA
1 ACATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA
*
61801613 ACATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTA
1 ACATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA
* * * *
61801659 ACGTCCAAAGTCGTTGAGTTGAGTCTGAGTTC
1 ACATCCGAACTCGTTGAGTTGAGTCCGAGTTC
61801691 GTGAAATGTA
Statistics
Matches: 111, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 111 1.00
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (46 bp):
ACATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA
Found at i:61801678 original size:92 final size:92
Alignment explanation
Indices: 61801521--61801690 Score: 286
Period size: 92 Copynumber: 1.8 Consensus size: 92
61801511 GGATATTTGG
**
61801521 ACATCCGAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCAAACATCCGGACTCGTTGAGT
1 ACATCCGAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCAAACATCCAAACTCGTTGAGT
61801586 TGAGTCTGAGTTCACATATGGATGCGA
66 TGAGTCTGAGTTCACATATGGATGCGA
* * * *
61801613 ACATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAACGTCCAAAGTCGTTGAGT
1 ACATCCGAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCAAACATCCAAACTCGTTGAGT
61801678 TGAGTCTGAGTTC
66 TGAGTCTGAGTTC
61801691 GTGAAATGTA
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
92 72 1.00
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (92 bp):
ACATCCGAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCAAACATCCAAACTCGTTGAGT
TGAGTCTGAGTTCACATATGGATGCGA
Found at i:61809737 original size:48 final size:48
Alignment explanation
Indices: 61809680--61809862 Score: 162
Period size: 48 Copynumber: 3.9 Consensus size: 48
61809670 CACATGGTAG
* * *
61809680 GATGCCAATGCCATATCCCGGATATGGTCTTACATGGGATCACATATC
1 GATGCCAATGCCATATCCCAGACATCGTCTTACATGGGATCACATATC
* *
61809728 GATGCCAATGCCATGTCCCAGACATCGTCTTACATGGGATCACATATT
1 GATGCCAATGCCATATCCCAGACATCGTCTTACATGGGATCACATATC
* * * * ** *
61809776 GATGCC---G--ATAGCTCA-ACTATGGTCTTACACGAAATTACATATC
1 GATGCCAATGCCATATCCCAGAC-ATCGTCTTACATGGGATCACATATC
* * * * *
61809819 GATGCCAAAGCCATGTCCCAGACATGGTCTTACTTGGGACCACA
1 GATGCCAATGCCATATCCCAGACATCGTCTTACATGGGATCACA
61809863 CATAACCCTA
Statistics
Matches: 105, Mismatches: 23, Indels: 14
0.74 0.16 0.10
Matches are distributed among these distances:
42 2 0.02
43 30 0.29
45 1 0.01
46 1 0.01
48 69 0.66
49 2 0.02
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (48 bp):
GATGCCAATGCCATATCCCAGACATCGTCTTACATGGGATCACATATC
Found at i:61810143 original size:30 final size:30
Alignment explanation
Indices: 61810107--61810166 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
61810097 ATACTTTTCT
61810107 GTGATAGAGTGATGATATTTAAATTGACTA
1 GTGATAGAGTGATGATATTTAAATTGACTA
61810137 GTGATAGAGTGATGATATTTAAATTGACTA
1 GTGATAGAGTGATGATATTTAAATTGACTA
61810167 TAAAATATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.37, C:0.03, G:0.23, T:0.37
Consensus pattern (30 bp):
GTGATAGAGTGATGATATTTAAATTGACTA
Found at i:61812745 original size:4 final size:4
Alignment explanation
Indices: 61812736--61812775 Score: 62
Period size: 4 Copynumber: 10.0 Consensus size: 4
61812726 AAATATGCCC
* *
61812736 TAGA TAGA TAGA TAGA TAGA TAAA TTGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
61812776 GGTGAAAGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.23, T:0.28
Consensus pattern (4 bp):
TAGA
Found at i:61820277 original size:13 final size:13
Alignment explanation
Indices: 61820259--61820283 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61820249 AACAATGCCA
61820259 GACACGGCCGTGC
1 GACACGGCCGTGC
61820272 GACACGGCCGTG
1 GACACGGCCGTG
61820284 TGCACCCACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.36, G:0.40, T:0.08
Consensus pattern (13 bp):
GACACGGCCGTGC
Found at i:61830788 original size:43 final size:43
Alignment explanation
Indices: 61830710--61830916 Score: 326
Period size: 43 Copynumber: 4.8 Consensus size: 43
61830700 ACTAAGATTA
* * *
61830710 TGTGTAAGACCATATCTGAGATA-TGGCATCGATATGAGACTT
1 TGTGTAAGACCATAGCTGGGCTATTGGCATCGATATGAGACTT
* *
61830752 CGTGTAAGACCATAGCTGGGCTATTGGCATCGATATGAAACTT
1 TGTGTAAGACCATAGCTGGGCTATTGGCATCGATATGAGACTT
*
61830795 TGTGTAAGACCATAGCTGGGCTATTGGCATCGACATGAGACTT
1 TGTGTAAGACCATAGCTGGGCTATTGGCATCGATATGAGACTT
* *
61830838 TGTGTAAGACCATAGCTAGGCTATTGGCATCGACATGAGACTT
1 TGTGTAAGACCATAGCTGGGCTATTGGCATCGATATGAGACTT
*
61830881 TGTGTAAGACCATAGCTAGGCTATTGGCATCGATAT
1 TGTGTAAGACCATAGCTGGGCTATTGGCATCGATAT
61830917 AAGATCCCAT
Statistics
Matches: 154, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
42 19 0.12
43 135 0.88
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (43 bp):
TGTGTAAGACCATAGCTGGGCTATTGGCATCGATATGAGACTT
Found at i:61841227 original size:24 final size:24
Alignment explanation
Indices: 61841195--61841257 Score: 74
Period size: 24 Copynumber: 2.6 Consensus size: 24
61841185 AAAATCCAAT
* * *
61841195 GCACTATGTGTGCG-GTTTACTATG
1 GCACTATGTGTGCGAGTGTAAT-TA
*
61841219 GCACTATGTGTGTGAGTGTAATTA
1 GCACTATGTGTGCGAGTGTAATTA
61841243 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
61841258 ATACGGTTGA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
24 28 0.85
25 5 0.15
ACGTcount: A:0.21, C:0.14, G:0.30, T:0.35
Consensus pattern (24 bp):
GCACTATGTGTGCGAGTGTAATTA
Found at i:61843169 original size:43 final size:43
Alignment explanation
Indices: 61843102--61843272 Score: 188
Period size: 43 Copynumber: 4.0 Consensus size: 43
61843092 AGTCTGTACA
* * *
61843102 ATGCC-ATATCCCAGATATGGTCTTACATGTTATCACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATATCG
* * * * *
61843144 ATGCCATTGTCCTAGACAGGGTCTTATAT-TACATCATATAAT-G
1 ATGCCAATGTCCCAGACATGGTCTTACATGTA-ATCACAT-ATCG
* *
61843187 ATGCCAATGTCCCAAACATGGTCTTACATGTAATCACA-ATACA
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATAT-CG
*
61843230 ATGCCAATGTCCCAGATATGGTCTTACATGTAATCACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATATCG
61843273 GTAATCCTAA
Statistics
Matches: 104, Mismatches: 18, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
41 2 0.02
42 6 0.06
43 90 0.87
44 6 0.06
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.31
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATATCG
Found at i:61845188 original size:93 final size:93
Alignment explanation
Indices: 61845029--61845200 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
61845019 CGCCCATAAG
* *
61845029 CGAACTCGGACTCAACACAACGAGCTCGGGCGTTCACATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACACAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
61845094 ACGAGCTCGGATGCCTAGTTACATTTCA
66 ACGAGCTCGGATGCCTAGTTACATTTCA
* * *
61845122 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACACAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
*
61845187 ACGAGTTCGGATGC
66 ACGAGCTCGGATGC
61845201 TCAACCATCC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (93 bp):
CGAACTCGGACTCAACACAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATTTCA
Found at i:61845197 original size:46 final size:46
Alignment explanation
Indices: 61845022--61845197 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
61845012 TGTAACCCGC
* * *
61845022 CCATAAGCGAACTCGGACTCAACACAACGAGCTCGGGCGTTCACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCACAT
*
61845068 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCACAT
* * * *
61845118 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCACAT
* *
61845161 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
61845198 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 63 0.58
47 28 0.26
48 2 0.02
49 1 0.01
50 4 0.04
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCACAT
Found at i:61860350 original size:27 final size:28
Alignment explanation
Indices: 61860320--61860374 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
61860310 ATGATTTTTC
61860320 TTAGTTTCT-TTCTTCTTCAATTCAAAA
1 TTAGTTTCTATTCTTCTTCAATTCAAAA
*
61860347 TTAGTTTCTATTTTTCTTCAATTCAAAA
1 TTAGTTTCTATTCTTCTTCAATTCAAAA
61860375 CCCTGATGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 9 0.35
28 17 0.65
ACGTcount: A:0.27, C:0.16, G:0.04, T:0.53
Consensus pattern (28 bp):
TTAGTTTCTATTCTTCTTCAATTCAAAA
Found at i:61877887 original size:40 final size:40
Alignment explanation
Indices: 61877827--61878009 Score: 230
Period size: 40 Copynumber: 4.6 Consensus size: 40
61877817 TATTCGAATG
*
61877827 ATATCCGGGCTAAG-TCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
* * *
61877867 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAG-TGACT
* * *
61877907 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
*
61877947 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
*
61877987 ATATCCGGGTTAAGA-CCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
61878010 CTTGTGGAGT
Statistics
Matches: 125, Mismatches: 13, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
39 9 0.07
40 113 0.90
41 3 0.02
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
Found at i:61889328 original size:21 final size:21
Alignment explanation
Indices: 61889295--61889338 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
61889285 AAGAAATTAG
*
61889295 AAGGGATGAAAGT-AGAAAAGA
1 AAGGAATGAAAGTGAG-AAAGA
*
61889316 AAGGAATGGAAGTGAGAAAGA
1 AAGGAATGAAAGTGAGAAAGA
61889337 AA
1 AA
61889339 TAAAAAAAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 18 0.90
22 2 0.10
ACGTcount: A:0.57, C:0.00, G:0.34, T:0.09
Consensus pattern (21 bp):
AAGGAATGAAAGTGAGAAAGA
Found at i:61892255 original size:46 final size:47
Alignment explanation
Indices: 61892187--61892333 Score: 171
Period size: 46 Copynumber: 3.2 Consensus size: 47
61892177 CAAGGATCCG
*
61892187 TGTAAGACCATGTCAAGGCATGGCATCGAAATTGATTAAGGACTCTA
1 TGTAAGACCATGTCAAGACATGGCATCGAAATTGATTAAGGACTCTA
* * * *
61892234 TGTAAGACCAT-TCAAGACATGGCATTGGTAA--G-TCAAGGA-TCCTG
1 TGTAAGACCATGTCAAGACATGGCA-TCGAAATTGATTAAGGACT-CTA
* *
61892278 TGTAAGACCATGTCAAGACAT-GCATCGACATTGATTAAGGACTCCA
1 TGTAAGACCATGTCAAGACATGGCATCGAAATTGATTAAGGACTCTA
61892324 TGTAAGACCA
1 TGTAAGACCA
61892334 CATCAAGATG
Statistics
Matches: 82, Mismatches: 11, Indels: 15
0.76 0.10 0.14
Matches are distributed among these distances:
43 4 0.05
44 22 0.27
45 11 0.13
46 29 0.35
47 16 0.20
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.24
Consensus pattern (47 bp):
TGTAAGACCATGTCAAGACATGGCATCGAAATTGATTAAGGACTCTA
Found at i:61892303 original size:90 final size:91
Alignment explanation
Indices: 61892146--61892384 Score: 320
Period size: 90 Copynumber: 2.6 Consensus size: 91
61892136 GATACCGTGC
*
61892146 AAGACCATGTCAAGACATGGCATTGGTAAGGCAAGGATCCGTGTAAGACCATGTCAAGGCATGGC
1 AAGACCATGTCAAGACATGGCATTGGTAAGGCAAGGATCCGTGTAAGACCATGTCAAGACATGGC
*
61892211 ATCGAAATTGATTAAGGACTCTATGT
66 ATCGAAATTGATTAAGGACTCCATGT
*
61892237 AAGACCAT-TCAAGACATGGCATTGGTAAGTCAAGGATCCTGTGTAAGACCATGTCAAGACAT-G
1 AAGACCATGTCAAGACATGGCATTGGTAAGGCAAGGATCC-GTGTAAGACCATGTCAAGACATGG
*
61892300 CATCGACATTGATTAAGGACTCCATGT
65 CATCGAAATTGATTAAGGACTCCATGT
** ** * * *
61892327 AAGACCACATCAAGATGTGGTATTGGCACTAAGACAAGGATACCATGTAAGACCATGT
1 AAGACCATGTCAAGACATGGCATTGG---TAAGGCAAGGAT-CCGTGTAAGACCATGT
61892385 TTGGAACATG
Statistics
Matches: 132, Mismatches: 10, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
90 63 0.48
91 43 0.33
94 24 0.18
95 2 0.02
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.23
Consensus pattern (91 bp):
AAGACCATGTCAAGACATGGCATTGGTAAGGCAAGGATCCGTGTAAGACCATGTCAAGACATGGC
ATCGAAATTGATTAAGGACTCCATGT
Found at i:61892341 original size:46 final size:46
Alignment explanation
Indices: 61892131--61892333 Score: 170
Period size: 44 Copynumber: 4.5 Consensus size: 46
61892121 GAATTGACGG
* * * *
61892131 TTAAGGATACCGTGCAAGACCATGTCAAGACATGGCATTGGTAA--G-
1 TTAAGGAT-CCATGTAAGACCATGTCAAGACATGGCA-TCGAAATTGA
** * *
61892176 GCAAGGATCCGTGTAAGACCATGTCAAGGCATGGCATCGAAATTGA
1 TTAAGGATCCATGTAAGACCATGTCAAGACATGGCATCGAAATTGA
* * *
61892222 TTAAGGACTCTATGTAAGACCAT-TCAAGACATGGCATTGGTAA--G-
1 TTAAGGA-TCCATGTAAGACCATGTCAAGACATGGCA-TCGAAATTGA
* * *
61892266 TCAAGGATCCTGTGTAAGACCATGTCAAGACAT-GCATCGACATTGA
1 TTAAGGATCC-ATGTAAGACCATGTCAAGACATGGCATCGAAATTGA
61892312 TTAAGGACTCCATGTAAGACCA
1 TTAAGGA-TCCATGTAAGACCA
61892334 CATCAAGATG
Statistics
Matches: 126, Mismatches: 21, Indels: 21
0.75 0.12 0.12
Matches are distributed among these distances:
43 9 0.07
44 46 0.37
45 18 0.14
46 33 0.26
47 20 0.16
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.23
Consensus pattern (46 bp):
TTAAGGATCCATGTAAGACCATGTCAAGACATGGCATCGAAATTGA
Found at i:61892416 original size:47 final size:47
Alignment explanation
Indices: 61892356--61892524 Score: 302
Period size: 47 Copynumber: 3.6 Consensus size: 47
61892346 GTATTGGCAC
61892356 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
*
61892403 TAAGACAAAGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
*
61892450 TAAGACAATGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
* *
61892497 TAAGATAAGGATATCATGTAAGACCATG
1 TAAGACAAGGATACCATGTAAGACCATG
61892525 CCAAGGCATG
Statistics
Matches: 117, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 117 1.00
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
Found at i:61892569 original size:54 final size:54
Alignment explanation
Indices: 61892497--61892764 Score: 268
Period size: 54 Copynumber: 5.0 Consensus size: 54
61892487 TGGCATTTGG
* *
61892497 TAAGATAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
1 TAAGACAAAGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
* * * *
61892551 TAAAATAAAGATATCATGTAAGACCATGCCAAGGCATGACATTGAGAAGTTCTA
1 TAAGACAAAGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
* * * * * *
61892605 TAAGGCAAGGAAATCATGTAAAACCATGTCAAGACATGGCATTGATAAGTTACTA
1 TAAGACAAAGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTT-CTA
* * ** * * *
61892660 TAAGGCAAAGGTCCCATGTAATACCATGCCAAGGCATGGCATTGGTGAGTTC-A
1 TAAGACAAAGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
* * * * * * * * *
61892713 TAAGGCAAGGATACCACGTAAGACCATGTCAAGACATGACAATGGTAAGTTC
1 TAAGACAAAGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTC
61892765 AAAAAGGAAA
Statistics
Matches: 179, Mismatches: 34, Indels: 3
0.83 0.16 0.01
Matches are distributed among these distances:
53 43 0.24
54 92 0.51
55 44 0.25
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (54 bp):
TAAGACAAAGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
Found at i:61892646 original size:108 final size:107
Alignment explanation
Indices: 61892503--61892764 Score: 328
Period size: 108 Copynumber: 2.4 Consensus size: 107
61892493 TTGGTAAGAT
* * * *
61892503 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAAATAAAGATATCAT
1 AAGGATATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTCTATAAAACAAAGATACCAT
61892568 GTAAGACCATGCCAAGGCATGACATTGAG-AAGTTCTATAAGGC
66 GTAAGACCATGCCAAGGCATGACATTG-GTAAGTTC-ATAAGGC
* * ** * *
61892611 AAGGAAATCATGTAAAACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTCCCA
1 AAGGATATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTT-CTATAAAACAAAGATACCA
* * *
61892676 TGTAATACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
65 TGTAAGACCATGCCAAGGCATGACATTGGTAAGTTCATAAGGC
* * * * *
61892719 AAGGATACCACGTAAGACCATGTCAAGACATGACAATGGTAAGTTC
1 AAGGATATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTC
61892765 AAAAAGGAAA
Statistics
Matches: 132, Mismatches: 20, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
107 1 0.01
108 87 0.66
109 44 0.33
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (107 bp):
AAGGATATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTCTATAAAACAAAGATACCAT
GTAAGACCATGCCAAGGCATGACATTGGTAAGTTCATAAGGC
Found at i:61894267 original size:45 final size:45
Alignment explanation
Indices: 61894211--61894298 Score: 140
Period size: 45 Copynumber: 2.0 Consensus size: 45
61894201 GAACTATGTG
* * *
61894211 ATCTGAACTTATTGAGTTGTGGTCTGAGTTCATGATATATGTGGC
1 ATCTGAACTTATTGAGTTATGGTCTAAGTTCATCATATATGTGGC
*
61894256 ATCTGAACTTATTGAGTTATGGTCTAAGTTCATCATGTATGTG
1 ATCTGAACTTATTGAGTTATGGTCTAAGTTCATCATATATGTG
61894299 ACAAATGTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.24, C:0.11, G:0.24, T:0.41
Consensus pattern (45 bp):
ATCTGAACTTATTGAGTTATGGTCTAAGTTCATCATATATGTGGC
Found at i:61896188 original size:23 final size:23
Alignment explanation
Indices: 61896158--61896202 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
61896148 ATGACATAAT
* *
61896158 TAAAAACTTAAA-CTAATTTAAC
1 TAAAAACTAAAACCGAATTTAAC
61896180 TAAATAACTAAAACCGAATTTAA
1 TAAA-AACTAAAACCGAATTTAA
61896203 TTCTTTATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 4 0.21
23 7 0.37
24 8 0.42
ACGTcount: A:0.56, C:0.13, G:0.02, T:0.29
Consensus pattern (23 bp):
TAAAAACTAAAACCGAATTTAAC
Found at i:61898499 original size:24 final size:23
Alignment explanation
Indices: 61898471--61898525 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 23
61898461 TACCAAAAAT
*
61898471 AATAAAAGGAAT-AATAAAATAA
1 AATAAAAGAAATAAATAAAATAA
61898493 CACATAAAAGAAATAAAATAAAATAA
1 -A-ATAAAAGAAAT-AAATAAAATAA
61898519 AATAAAA
1 AATAAAA
61898526 TAAAATGGGA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 1 0.04
24 16 0.57
25 1 0.04
26 10 0.36
ACGTcount: A:0.75, C:0.04, G:0.05, T:0.16
Consensus pattern (23 bp):
AATAAAAGAAATAAATAAAATAA
Found at i:61898511 original size:5 final size:5
Alignment explanation
Indices: 61898483--61898531 Score: 64
Period size: 5 Copynumber: 9.6 Consensus size: 5
61898473 TAAAAGGAAT
*
61898483 AATAA AATAA CACATAA AA-GA AATAA AATAA AATAA AATAA AATAA AAT
1 AATAA AATAA -A-ATAA AATAA AATAA AATAA AATAA AATAA AATAA AAT
61898532 GGGATGACAA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
4 3 0.08
5 30 0.77
6 2 0.05
7 4 0.10
ACGTcount: A:0.76, C:0.04, G:0.02, T:0.18
Consensus pattern (5 bp):
AATAA
Found at i:61899850 original size:12 final size:12
Alignment explanation
Indices: 61899833--61899858 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
61899823 AGTTTCCTTT
61899833 TTAATGTTTTTA
1 TTAATGTTTTTA
61899845 TTAATGTTTTTA
1 TTAATGTTTTTA
61899857 TT
1 TT
61899859 TATTTATTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (12 bp):
TTAATGTTTTTA
Found at i:61921729 original size:53 final size:54
Alignment explanation
Indices: 61921661--61921874 Score: 211
Period size: 54 Copynumber: 4.0 Consensus size: 54
61921651 TTTCCTTTTT
* * *
61921661 GAACTTACCATTGCCATGTCTTGACGTGGT-TTGACGTGGTATCCTTGCCTTAT-
1 GAACTTACCAATGCCATGTCTTGACATGGTCTT-ACATGGTATCCTTGCCTTATA
* * * *
61921714 GAACTCACCAATGCCATG-CATCGGCATGGTCTTACATGGGA-CCTTTGCCTTATA
1 GAACTTACCAATGCCATGTC-TTGACATGGTCTTACATGGTATCC-TTGCCTTATA
* * *
61921768 GTAACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATA
1 G-AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
* * * * * * *
61921823 GAACTTATCAATTCCATGCCTTGGCATGCTCTTACATGATATCCTTACCTTA
1 GAACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTA
61921875 CCAAATGCCA
Statistics
Matches: 134, Mismatches: 20, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
52 3 0.02
53 38 0.28
54 48 0.36
55 42 0.31
56 3 0.02
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (54 bp):
GAACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
Found at i:61921968 original size:47 final size:47
Alignment explanation
Indices: 61921847--61921968 Score: 190
Period size: 47 Copynumber: 2.6 Consensus size: 47
61921837 CATGCCTTGG
* * *
61921847 CATGCTCTTACATGATATCCTTACCTTACCAAATGCCATATTCCAAA
1 CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATATTCCAAA
* *
61921894 CATAGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATATTCCAAA
*
61921941 CATGGTCTTACATGGTATCCTTGTCTTA
1 CATGGTCTTACATGGTATCCTTATCTTA
61921969 GTGCCAATGG
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 68 1.00
ACGTcount: A:0.28, C:0.26, G:0.11, T:0.35
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATATTCCAAA
Found at i:61922157 original size:44 final size:44
Alignment explanation
Indices: 61922108--61922191 Score: 116
Period size: 44 Copynumber: 1.9 Consensus size: 44
61922098 TCCTTAACCG
*
61922108 TCAATTCCTCCTTAAATGCCATGATATGAA-CATGGACTTTTCCA
1 TCAATTCCTCCTTAAATGCCATGATA-CAACCATGGACTTTTCCA
* * *
61922152 TCAATTCTTCCTTAATTGCCATGGTACAACCATGGACTTT
1 TCAATTCCTCCTTAAATGCCATGATACAACCATGGACTTT
61922192 GAGATATCAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
43 2 0.06
44 33 0.94
ACGTcount: A:0.27, C:0.25, G:0.12, T:0.36
Consensus pattern (44 bp):
TCAATTCCTCCTTAAATGCCATGATACAACCATGGACTTTTCCA
Found at i:61938652 original size:40 final size:40
Alignment explanation
Indices: 61938474--61938753 Score: 360
Period size: 40 Copynumber: 7.2 Consensus size: 40
61938464 AAACCAAGTA
* * *
61938474 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
61938512 TCTTC-GGAC-TAGCCCGGTTATAGTAACTCGCAC-AATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
61938549 CCTTAGGGACTTAACCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
61938589 CCTTC-GGACTTAACCCGGTTATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
61938628 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATA
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
61938668 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
61938708 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
61938748 CCTTCG
1 CCTTCG
61938754 TTATCATCCG
Statistics
Matches: 218, Mismatches: 17, Indels: 12
0.88 0.07 0.05
Matches are distributed among these distances:
36 3 0.01
37 26 0.12
38 8 0.04
39 62 0.28
40 119 0.55
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:61947466 original size:21 final size:21
Alignment explanation
Indices: 61947441--61947482 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
61947431 TTTAAGAACA
61947441 CATAATTAAGAACAAATCAAG
1 CATAATTAAGAACAAATCAAG
61947462 CATAATTAAGAACAAATCAAG
1 CATAATTAAGAACAAATCAAG
61947483 TATTTATCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.57, C:0.14, G:0.10, T:0.19
Consensus pattern (21 bp):
CATAATTAAGAACAAATCAAG
Found at i:61952095 original size:46 final size:48
Alignment explanation
Indices: 61951987--61952357 Score: 270
Period size: 46 Copynumber: 7.8 Consensus size: 48
61951977 TCAGGTTATT
* *
61951987 TGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATC-AGCATTGAGA
1 TGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGA-CCTTGAGA
* * *
61952035 CGAGAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGACCTTGAGA
1 TGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCTTGAGA
* *
61952081 TGTGAGCCAATGTAAGA-CATGTTTGGGACAT-GCATCGA-CTATGAGA
1 TGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCT-TGAGA
* * *
61952127 T-T-TGTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTAT-AGA
1 TGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-G-ACCT-TGAGA
* * * * * * *
61952175 -G-GTGTCAGTGTAAGACTATGTCTGGGACATGGCATCGGCATGGATA
1 TGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCTTGAGA
* * * * * * *
61952221 TGTGAGAGCTAGTGTAAGAACATGTCTAGGACATGGCGTTGGCC-TCA-A
1 TGT--GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCTTGAGA
* *
61952269 TTTCAGTAGTCAGTGTAAGACCATGTCTGGGACATGGCATCGA-CTT--GA
1 TGT--G-AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCTTGAGA
* *
61952317 TGGATGAGCCAGTGTAAGACCATGCCTAGGACATGGCATCG
1 T-G-TGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
61952358 GCATCATACC
Statistics
Matches: 260, Mismatches: 44, Indels: 39
0.76 0.13 0.11
Matches are distributed among these distances:
44 10 0.04
45 16 0.06
46 60 0.23
47 50 0.19
48 59 0.23
49 34 0.13
50 31 0.12
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.25
Consensus pattern (48 bp):
TGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCTTGAGA
Found at i:61952190 original size:48 final size:47
Alignment explanation
Indices: 61951994--61952360 Score: 244
Period size: 48 Copynumber: 7.7 Consensus size: 47
61951984 ATTTGTGTGC
*
61951994 CAGTGTAAGACCATGTCTGGGACATGGCATCAGCA-T-TGAGACGAGAG-
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTAT-AGA-G-GAGT
* *
61952041 CTAGTGTAAGA-CATGTCTGGGACAT-GCATCGAC-CT-TGAGATGTGAGC
1 C-AGTGTAAGACCATGTCTGGGACATGGCATCGGCACTAT-AGA-G-GAGT
* * ***
61952088 CAATGTAAGA-CATGTTTGGGACAT-GCATC-G-ACTATGAGATTTGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTAT-AGAGGAGT
*
61952132 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTATAGAGGTGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-TATAGAGGAGT
* *
61952180 CAGTGTAAGACTATGTCTGGGACATGGCATCGGCA-TGGATATGTGAGAG-
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACT--ATA-GAG-GAGT
* * * * ** *
61952229 CTAGTGTAAGAACATGTCTAGGACATGGCGTTGGC-CTCAATTTCAGTAGT
1 C-AGTGTAAGACCATGTCTGGGACATGGCATCGGCACT--A-TAGAGGAGT
* * *
61952279 CAGTGTAAGACCATGTCTGGGACATGGCATC-G-ACTTGATGGATGAGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-T-ATAGAGGAGT
* *
61952326 CAGTGTAAGACCATGCCTAGGACATGGCATCGGCA
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
61952361 TCATACCCTA
Statistics
Matches: 257, Mismatches: 41, Indels: 42
0.76 0.12 0.12
Matches are distributed among these distances:
44 10 0.04
45 15 0.06
46 53 0.21
47 50 0.19
48 58 0.23
49 36 0.14
50 34 0.13
51 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (47 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTATAGAGGAGT
Found at i:61952303 original size:99 final size:96
Alignment explanation
Indices: 61952178--61952353 Score: 255
Period size: 99 Copynumber: 1.8 Consensus size: 96
61952168 GTATAGAGGT
* * *
61952178 GTCAGTGTAAGACTATGTCTGGGACATGGCATCGGCATGGATATGTGA-GAGCTAGTGTAAGAAC
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGAC-TGG--ATG-GATGAGCCAGTGTAAGAAC
*
61952242 ATGTCTAGGACATGGCGTTGGCCTCAATTTCAGTA
62 ATGCCTAGGACATGGCGTTGGCCTCAATTTCAGTA
* *
61952277 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATGGATGAGCCAGTGTAAGACCATGC
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGACTGGATGGATGAGCCAGTGTAAGAACATGC
61952342 CTAGGACATGGC
66 CTAGGACATGGC
61952354 ATCGGCATCA
Statistics
Matches: 70, Mismatches: 6, Indels: 5
0.86 0.07 0.06
Matches are distributed among these distances:
95 2 0.03
96 32 0.46
98 2 0.03
99 34 0.49
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (96 bp):
GTCAGTGTAAGACCATGTCTGGGACATGGCATCGACTGGATGGATGAGCCAGTGTAAGAACATGC
CTAGGACATGGCGTTGGCCTCAATTTCAGTA
Found at i:61956466 original size:48 final size:48
Alignment explanation
Indices: 61956347--61956567 Score: 245
Period size: 48 Copynumber: 4.6 Consensus size: 48
61956337 ATGAGATTCC
* * *
61956347 GTGTAAGACCATGTCTGGGACATGGCATCGACAT-CTGAGATGTGTGCCT
1 GTGTAAGACCATGTCTGGGACATGGCATC-A-GTGATGATATGTGTGCCT
* * *
61956396 GTATAAGACCATGTCTAGGACATGGCATCAGTGATGATATATGTGCCT
1 GTGTAAGACCATGTCTGGGACATGGCATCAGTGATGATATGTGTGCCT
* * *
61956444 GCGTAAGACCATGTCTGTGACATGGCATCAGCGATGATATGTGTG-CT
1 GTGTAAGACCATGTCTGGGACATGGCATCAGTGATGATATGTGTGCCT
**
61956491 AGTGTAAGACCATGTCTGGGACATGGCATC-GATGATGATATGTG-GATT
1 -GTGTAAGACCATGTCTGGGACATGGCATCAG-TGATGATATGTGTGCCT
*
61956539 CATGTAAGACCATGTC-GTGGACATGGCAT
1 -GTGTAAGACCATGTCTG-GGACATGGCAT
61956568 TGGTACTTTA
Statistics
Matches: 149, Mismatches: 18, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
47 6 0.04
48 116 0.78
49 27 0.18
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.28
Consensus pattern (48 bp):
GTGTAAGACCATGTCTGGGACATGGCATCAGTGATGATATGTGTGCCT
Found at i:61956859 original size:17 final size:17
Alignment explanation
Indices: 61956837--61956871 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
61956827 TGGTGAGTTC
61956837 ACGATTAGTTGAAAGTG
1 ACGATTAGTTGAAAGTG
61956854 ACGATTAGTTGAAAGTG
1 ACGATTAGTTGAAAGTG
61956871 A
1 A
61956872 ACTTATGCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.37, C:0.06, G:0.29, T:0.29
Consensus pattern (17 bp):
ACGATTAGTTGAAAGTG
Found at i:61957976 original size:15 final size:15
Alignment explanation
Indices: 61957918--61957982 Score: 67
Period size: 15 Copynumber: 4.3 Consensus size: 15
61957908 TATATTTTAA
* *
61957918 ATTTCTATAACTTGG
1 ATTTCTTTATCTTGG
*
61957933 ATTTCTTTATCATGG
1 ATTTCTTTATCTTGG
*
61957948 ATTTCTTTGTCTTGG
1 ATTTCTTTATCTTGG
* *
61957963 ACTTCTTTACCTTGG
1 ATTTCTTTATCTTGG
*
61957978 TTTTC
1 ATTTC
61957983 ATGTCATCTC
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 40 1.00
ACGTcount: A:0.15, C:0.17, G:0.14, T:0.54
Consensus pattern (15 bp):
ATTTCTTTATCTTGG
Found at i:61963401 original size:48 final size:48
Alignment explanation
Indices: 61963330--61963500 Score: 229
Period size: 48 Copynumber: 3.6 Consensus size: 48
61963320 TGAGATTTCA
*
61963330 TGTAAGACCATGTCTGGGACATGGCATCGACGATGATATATGTGCCTG
1 TGTAAGACCATGTCTGGGACATGGCATCGACGATGATATGTGTGCCTG
*
61963378 TGTAAGACCATGTCTGGGACATGGCATCCG-CGATGATATGTGTGCCAG
1 TGTAAGACCATGTCTGGGACATGGCAT-CGACGATGATATGTGTGCCTG
* * ** *
61963426 TGTTAGACCATGTCTGGGACATGGCATCGACAATGATATGTG-GATTCA
1 TGTAAGACCATGTCTGGGACATGGCATCGACGATGATATGTGTGCCT-G
**
61963474 TGTAAGACCATGTCAAGGACATGGCAT
1 TGTAAGACCATGTCTGGGACATGGCAT
61963501 TGGTACTTTA
Statistics
Matches: 109, Mismatches: 11, Indels: 6
0.87 0.09 0.05
Matches are distributed among these distances:
47 3 0.03
48 104 0.95
49 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (48 bp):
TGTAAGACCATGTCTGGGACATGGCATCGACGATGATATGTGTGCCTG
Found at i:61965245 original size:40 final size:40
Alignment explanation
Indices: 61965190--61965451 Score: 420
Period size: 40 Copynumber: 6.6 Consensus size: 40
61965180 TATTCGAATG
61965190 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
61965230 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
61965270 ATATTCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
61965310 ATATCCGGGCTAAGTCCTGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
61965350 ATATCCGGGCTAAGTCCCAAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
61965390 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-TTGACT
* *
61965430 ATATCC-GGCTAAATCCTGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
61965452 TACTTGGGTT
Statistics
Matches: 206, Mismatches: 15, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
39 13 0.06
40 190 0.92
41 3 0.01
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
Found at i:61973621 original size:46 final size:46
Alignment explanation
Indices: 61973554--61973727 Score: 172
Period size: 46 Copynumber: 3.8 Consensus size: 46
61973544 TTTGGGCATC
* *
61973554 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGAT
*** * * * *
61973600 CGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-AC-TAGGCAT
1 CGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGAACG-AT
* **
61973646 CCAAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCC
1 CGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGAT
* * *
61973693 CGAGCTCGTTGAGTTGAATCCGAGTTCGCTTATGG
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
61973728 GCGGGTTACA
Statistics
Matches: 101, Mismatches: 22, Indels: 10
0.76 0.17 0.08
Matches are distributed among these distances:
45 2 0.02
46 66 0.65
47 31 0.31
48 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGAT
Found at i:61973707 original size:93 final size:93
Alignment explanation
Indices: 61973548--61973720 Score: 285
Period size: 93 Copynumber: 1.9 Consensus size: 93
61973538 GGGATATTTG
* **
61973548 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
*
61973613 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAATCCGAGTTCGAGAGATGTAACTA
*
61973641 GGCATCC-AAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGA
1 GGCATCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGA
61973705 GTTGAATCCGAGTTCG
65 GTTGAATCCGAGTTCG
61973721 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAATCCGAGTTCGAGAGATGTAACTA
Found at i:61976709 original size:15 final size:15
Alignment explanation
Indices: 61976671--61976714 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
61976661 CATAGTATCG
* *
61976671 TATCTTGGGTTTCTT
1 TATCTTGGATTTCTC
61976686 TAT-TCTGGATTTCTC
1 TATCT-TGGATTTCTC
61976701 TATCTTGGATTTCT
1 TATCTTGGATTTCT
61976715 TTATTCGGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
14 1 0.04
15 23 0.92
16 1 0.04
ACGTcount: A:0.11, C:0.16, G:0.16, T:0.57
Consensus pattern (15 bp):
TATCTTGGATTTCTC
Found at i:61979185 original size:47 final size:49
Alignment explanation
Indices: 61979116--61979242 Score: 147
Period size: 46 Copynumber: 2.7 Consensus size: 49
61979106 GGGATATTTG
* * *
61979116 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGACAGATGTA-AC-TA
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCGACAGATGGATACGAA
* ** *
61979163 GGCATCCGAGCTCGTTGAGTTGAGTTCGAGTTC-ACTTATGGATGCGAA
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCGACAGATGGATACGAA
*
61979211 CGC--CCGAGCTCGTTGAGTTGAGTCCGAGTTCG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCG
61979243 CTTATGGGCG
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
46 33 0.49
47 32 0.47
48 3 0.04
ACGTcount: A:0.20, C:0.22, G:0.31, T:0.27
Consensus pattern (49 bp):
GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCGACAGATGGATACGAA
Found at i:61981578 original size:40 final size:40
Alignment explanation
Indices: 61981523--61981784 Score: 429
Period size: 40 Copynumber: 6.6 Consensus size: 40
61981513 TATTCGAATG
61981523 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
61981563 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
61981603 ATATCCGGGCTAAGTCCTGAAGGCATTTGTACTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
61981643 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
61981683 ATATCTGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
61981723 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTT-ACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-TTGACT
*
61981763 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
61981785 TACTTGGGTT
Statistics
Matches: 207, Mismatches: 14, Indels: 3
0.92 0.06 0.01
Matches are distributed among these distances:
39 14 0.07
40 191 0.92
41 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
Found at i:62005824 original size:30 final size:30
Alignment explanation
Indices: 62005789--62005864 Score: 84
Period size: 30 Copynumber: 2.5 Consensus size: 30
62005779 AAAACCGAAA
* *
62005789 AAAGAAATCCAAGATAGAGA-AACCCGGAAT
1 AAAGAAATCCAAGATAAAGAGAACCAGG-AT
*
62005819 AAAGAAATCC-AGAATAAAGAGATCCAGGAT
1 AAAGAAATCCAAG-ATAAAGAGAACCAGGAT
*
62005849 AAAGAAACCCAAGATA
1 AAAGAAATCCAAGATA
62005865 CGATACTATG
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
29 2 0.05
30 30 0.77
31 7 0.18
ACGTcount: A:0.55, C:0.16, G:0.18, T:0.11
Consensus pattern (30 bp):
AAAGAAATCCAAGATAAAGAGAACCAGGAT
Found at i:62005864 original size:15 final size:15
Alignment explanation
Indices: 62005789--62005864 Score: 66
Period size: 15 Copynumber: 5.1 Consensus size: 15
62005779 AAAACCGAAA
62005789 AAAGAAATCCAAGAT
1 AAAGAAATCCAAGAT
* **
62005804 AGAGAAA-CCCGGAAT
1 AAAGAAATCCAAG-AT
62005819 AAAGAAATCC-AGAAT
1 AAAGAAATCCAAG-AT
* *
62005834 AAAGAGATCCAGGAT
1 AAAGAAATCCAAGAT
*
62005849 AAAGAAACCCAAGAT
1 AAAGAAATCCAAGAT
62005864 A
1 A
62005865 CGATACTATG
Statistics
Matches: 48, Mismatches: 10, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
14 3 0.06
15 42 0.88
16 3 0.06
ACGTcount: A:0.55, C:0.16, G:0.18, T:0.11
Consensus pattern (15 bp):
AAAGAAATCCAAGAT
Found at i:62009004 original size:46 final size:46
Alignment explanation
Indices: 62008788--62009009 Score: 281
Period size: 46 Copynumber: 4.8 Consensus size: 46
62008778 TGTAACCCGC
* * * * *
62008788 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCAT
* * *
62008834 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTTGGA---C-A-TTCGCAT
* *
62008884 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCAT
62008927 CCATAAGTGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCAT
62008973 CCATAAGTGAACTCGGACTCAACTCAACGAGTTTGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTTGGA
62009010 TGCCCAAATA
Statistics
Matches: 156, Mismatches: 11, Indels: 18
0.84 0.06 0.10
Matches are distributed among these distances:
42 2 0.01
43 4 0.03
44 2 0.01
45 2 0.01
46 110 0.71
47 27 0.17
48 2 0.01
49 2 0.01
50 3 0.02
51 2 0.01
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCAT
Found at i:62016869 original size:41 final size:41
Alignment explanation
Indices: 62016824--62016902 Score: 131
Period size: 41 Copynumber: 1.9 Consensus size: 41
62016814 AGCCCGATTC
* *
62016824 TTAGCACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTA
1 TTAGCACTGGCTCAAAAGCCCTTCGAAACCAAGCTCGGTTA
*
62016865 TTAGCACTGGCTCAAAGGCCCTTCGAAACCAAGCTCGG
1 TTAGCACTGGCTCAAAAGCCCTTCGAAACCAAGCTCGG
62016903 ATTTAAACCC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
TTAGCACTGGCTCAAAAGCCCTTCGAAACCAAGCTCGGTTA
Found at i:62016946 original size:14 final size:14
Alignment explanation
Indices: 62016926--62016958 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
62016916 TTAGCATTCA
62016926 CACATATATGCATAT
1 CACATATAT-CATAT
62016941 -ACATATATCATAT
1 CACATATATCATAT
62016954 CACAT
1 CACAT
62016959 CTGGATATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 5 0.29
14 12 0.71
ACGTcount: A:0.42, C:0.21, G:0.03, T:0.33
Consensus pattern (14 bp):
CACATATATCATAT
Found at i:62024904 original size:41 final size:39
Alignment explanation
Indices: 62024855--62025017 Score: 145
Period size: 41 Copynumber: 4.1 Consensus size: 39
62024845 AGCCCGATTC
62024855 TTAG-CACTGGCTCAAAAGCCCTTCGATACTAAGCTCGGA
1 TTAGACACTGGCTCAAAAGCCCTTCGA-ACTAAGCTCGGA
* *
62024894 TTAGACCACTGGCTCGAAGGCCCTTCGGAACTAAG-TCCGG-
1 TTAGA-CACTGGCTCAAAAGCCCTTC-GAACTAAGCT-CGGA
** *
62024934 TTATGACACTGGCTCTGAAGCCCTTCGAAACTAAGTTCGGTTA
1 TTA-GACACTGGCTCAAAAGCCCTTCG-AACTAAGCTCGG--A
* * *
62024977 TTAG-CACTGGCTCAAAGGCCCTTTGAAATCAAGCTCGGA
1 TTAGACACTGGCTCAAAAGCCCTTCGAACT-AAGCTCGGA
62025016 TT
1 TT
62025018 TAAACCCTGA
Statistics
Matches: 102, Mismatches: 11, Indels: 22
0.76 0.08 0.16
Matches are distributed among these distances:
39 8 0.08
40 34 0.33
41 54 0.53
42 3 0.03
43 3 0.03
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (39 bp):
TTAGACACTGGCTCAAAAGCCCTTCGAACTAAGCTCGGA
Found at i:62027672 original size:62 final size:63
Alignment explanation
Indices: 62027596--62027724 Score: 242
Period size: 62 Copynumber: 2.1 Consensus size: 63
62027586 TATATAGCTA
*
62027596 AATAGTTTAATAGACATAGATTATGTTTTATATTATGTCAAGTTAAATAAAT-AAATAAAGAT
1 AATAGTTTAATAGACATAGATTATGTTTTATATTATGTCAAGTTAAATAAATAAAAAAAAGAT
62027658 AATAGTTTAATAGACATAGATTATGTTTTATATTATGTCAAGTTAAATAAATAAAAAAAAGAT
1 AATAGTTTAATAGACATAGATTATGTTTTATATTATGTCAAGTTAAATAAATAAAAAAAAGAT
62027721 AATA
1 AATA
62027725 ATACTGAATC
Statistics
Matches: 65, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
62 52 0.80
63 13 0.20
ACGTcount: A:0.49, C:0.03, G:0.11, T:0.37
Consensus pattern (63 bp):
AATAGTTTAATAGACATAGATTATGTTTTATATTATGTCAAGTTAAATAAATAAAAAAAAGAT
Found at i:62029572 original size:18 final size:18
Alignment explanation
Indices: 62029549--62029584 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
62029539 CGACTTAAAC
*
62029549 TCGACTTAAACTCGTCAA
1 TCGACTTAAACTCATCAA
62029567 TCGACTTAAACTCATCAA
1 TCGACTTAAACTCATCAA
62029585 GTTAAATTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.36, C:0.28, G:0.08, T:0.28
Consensus pattern (18 bp):
TCGACTTAAACTCATCAA
Found at i:62034282 original size:46 final size:46
Alignment explanation
Indices: 62034232--62034407 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
62034222 TGGTTGAGCA
62034232 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
62034278 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
62034323 CATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
62034371 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
62034408 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.57
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:62034388 original size:93 final size:93
Alignment explanation
Indices: 62034229--62034400 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
62034219 GGATGGTTGA
* * *
62034229 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
62034294 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
62034322 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
62034387 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
62034401 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:62041856 original size:46 final size:46
Alignment explanation
Indices: 62041806--62041981 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
62041796 TGGTTGAGCA
62041806 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
62041852 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
**
62041897 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACA
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
62041945 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
62041982 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:62041962 original size:93 final size:93
Alignment explanation
Indices: 62041803--62041974 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
62041793 GGATGGTTGA
***
62041803 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAGT
62041868 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
62041896 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAGT
62041961 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
62041975 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:62050463 original size:27 final size:27
Alignment explanation
Indices: 62050432--62050609 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
62050422 TAAATTGTAC
62050432 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
62050459 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
62050485 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
62050513 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
62050541 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
62050568 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
62050595 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
62050610 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:62050546 original size:82 final size:81
Alignment explanation
Indices: 62050433--62050588 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
62050423 AAATTGTACA
* *
62050433 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
62050497 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
62050514 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
62050579 TGCGAGTTGA
65 TGCGAATTGA
62050589 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:62050600 original size:82 final size:81
Alignment explanation
Indices: 62050429--62050609 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
62050419 GATTAAATTG
* *
62050429 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
62050494 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
62050510 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
62050574 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
62050592 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
62050610 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:62061120 original size:24 final size:25
Alignment explanation
Indices: 62061064--62061120 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 25
62061054 CTTGGTGCCG
62061064 ATTTCTTCTTCCTCTCTTTTTCCTT
1 ATTTCTTCTTCCTCTCTTTTTCCTT
* * * *
62061089 AATT-TTCTTTCTTTCTTTTTGCTT
1 ATTTCTTCTTCCTCTCTTTTTCCTT
62061113 -TTTCTTCT
1 ATTTCTTCT
62061121 AGCTGAAACC
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
23 2 0.08
24 21 0.81
25 3 0.12
ACGTcount: A:0.05, C:0.25, G:0.02, T:0.68
Consensus pattern (25 bp):
ATTTCTTCTTCCTCTCTTTTTCCTT
Found at i:62064516 original size:40 final size:40
Alignment explanation
Indices: 62064472--62064655 Score: 171
Period size: 40 Copynumber: 4.6 Consensus size: 40
62064462 GCTACTCGTT
* * *
62064472 CAAATGCCGTCGGGACATAGCCCGGTTATAGTAACTCTCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
62064512 CAAATGCCTTCGGGACTTAACCCGAATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCG-GTTATAGTAACTCGCA
* * *
62064552 CCAATGCCTTCGGG-CTTAGCCCGG-AATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* ** * * *
62064591 CAAATGCCTTC-GGATCTTAGTCCGAATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
62064632 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
62064656 ACATCATTCC
Statistics
Matches: 116, Mismatches: 20, Indels: 16
0.76 0.13 0.11
Matches are distributed among these distances:
38 2 0.02
39 29 0.25
40 71 0.61
41 14 0.12
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:62064572 original size:79 final size:80
Alignment explanation
Indices: 62064474--62064656 Score: 203
Period size: 79 Copynumber: 2.3 Consensus size: 80
62064464 TACTCGTTCA
* * * *
62064474 AATGCCGTCGGGACATAGCCCGG-TTATAGTAACTCTCACAAATGCCTTCGGGA-CTTAACCCGA
1 AATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGA
* *
62064537 ATTTAGTAAC-TCGCACC
64 ATATAGTAACTTAGCA-C
* **
62064554 AATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGAAT
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGAAT
* *
62064618 ATGGTCACTTAGCAC
66 ATAGTAACTTAGCAC
*
62064633 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
62064657 CATCATTCCA
Statistics
Matches: 87, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
78 3 0.03
79 57 0.66
80 27 0.31
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGAAT
ATAGTAACTTAGCAC
Found at i:62072170 original size:39 final size:38
Alignment explanation
Indices: 62072110--62072286 Score: 157
Period size: 39 Copynumber: 4.6 Consensus size: 38
62072100 TACTCGTTCA
*
62072110 AATGCCTTC-GGACATAGCCCGGTTATAGTAACTCGCAC
1 AATGCCTTCGGGACTTAGCCCGGTTATAGTAACTC-CAC
*
62072148 AATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCCACC
1 AATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCCA-C
*
62072187 AATGCCTTCGGG-CTTAGCCCGG-AATTAGTAACTCCAC
1 AATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCCAC
* * * * * *
62072224 AAATGCCTTC-GGATCTTAGTCCGGATATGGTCATTAGCAC
1 -AATGCCTTCGGGA-CTTAGCCCGGTTATAGTAACT-CCAC
* *
62072264 AAAGCCTTCAGGACTTAGCCCGG
1 AATGCCTTCGGGACTTAGCCCGG
62072287 ACATCATTCG
Statistics
Matches: 116, Mismatches: 12, Indels: 21
0.78 0.08 0.14
Matches are distributed among these distances:
37 3 0.03
38 40 0.34
39 64 0.55
40 9 0.08
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (38 bp):
AATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCCAC
Found at i:62072217 original size:38 final size:38
Alignment explanation
Indices: 62072110--62072249 Score: 167
Period size: 38 Copynumber: 3.6 Consensus size: 38
62072100 TACTCGTTCA
* *
62072110 AATGCCTTCGGACATAGCCCGG-TTATAGTAACTCGCA-C
1 AATGCCTTCGGGCTTAGCCCGGATT-TAGTAACTC-CACC
*
62072148 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCCACC
1 AATGCCTTCGGG-CTTAGCCCGGATTTAGTAACTCCACC
* *
62072187 AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCCACA
1 AATGCCTTCGGGCTTAGCCCGGATTTAGTAACTCCACC
* *
62072225 AATGCCTTCGGATCTTAGTCCGGAT
1 AATGCCTTCGG-GCTTAGCCCGGAT
62072250 ATGGTCATTA
Statistics
Matches: 89, Mismatches: 9, Indels: 7
0.85 0.09 0.07
Matches are distributed among these distances:
38 47 0.53
39 40 0.45
40 2 0.02
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.26
Consensus pattern (38 bp):
AATGCCTTCGGGCTTAGCCCGGATTTAGTAACTCCACC
Found at i:62075302 original size:21 final size:21
Alignment explanation
Indices: 62075273--62075342 Score: 70
Period size: 21 Copynumber: 3.2 Consensus size: 21
62075263 CTTATACATC
62075273 ATGAACTCAGACCACAACTCA
1 ATGAACTCAGACCACAACTCA
* * *
62075294 ATGAGCTCAGATGTCACATATATC-
1 ATGAACTCAGA--CCACA-A-CTCA
62075318 ATGAACTCAGACCACAACTCA
1 ATGAACTCAGACCACAACTCA
62075339 ATGA
1 ATGA
62075343 GTTCAGATTA
Statistics
Matches: 38, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
20 2 0.05
21 15 0.39
22 4 0.11
23 4 0.11
24 11 0.29
25 2 0.05
ACGTcount: A:0.40, C:0.27, G:0.13, T:0.20
Consensus pattern (21 bp):
ATGAACTCAGACCACAACTCA
Found at i:62092117 original size:43 final size:42
Alignment explanation
Indices: 62092052--62092218 Score: 178
Period size: 43 Copynumber: 3.9 Consensus size: 42
62092042 AGCTCGTACA
* * *
62092052 ATGCC-ATATCCCAAATATGGTCTTACATGTTATCACATACCG
1 ATGCCAATGTCCCAAACATGGTCTTACATGTAATCACATA-CG
* * * * *
62092094 ATGCCACTGTCCCAGACAGGGTCTTACACT-AAATCGA-ATAATG
1 ATGCCAATGTCCCAAACATGGTCTTACA-TGTAATC-ACAT-ACG
* *
62092137 ATGCCAATGTCCCAAACATGGTCTTACACGTAATCACAATACA
1 ATGCCAATGTCCCAAACATGGTCTTACATGTAATCAC-ATACG
62092180 ATGCCAATGTCCCAAACATGGTCTTACATGTAATCACAT
1 ATGCCAATGTCCCAAACATGGTCTTACATGTAATCACAT
62092219 CTTGGTAATC
Statistics
Matches: 102, Mismatches: 16, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
42 8 0.08
43 89 0.87
44 5 0.05
ACGTcount: A:0.34, C:0.26, G:0.14, T:0.26
Consensus pattern (42 bp):
ATGCCAATGTCCCAAACATGGTCTTACATGTAATCACATACG
Found at i:62098257 original size:42 final size:42
Alignment explanation
Indices: 62098145--62098265 Score: 136
Period size: 44 Copynumber: 2.8 Consensus size: 42
62098135 TACCGTACCA
* *
62098145 ATGCCATATCCCAGATATGGCCTTACATGTAATCTGATATCG
1 ATGCCATATCCCAGATATGGTCTTACACGTAATCTGATATCG
* * * * *
62098187 ATTGCTAATAGCCCAGCTATAGTCTTACACG-AAGTCTTATATCG
1 A-TGC-CATATCCCAGATATGGTCTTACACGTAA-TCTGATATCG
*
62098231 ATGCCATATCCCAGATATGGTCTTACACGTGATCT
1 ATGCCATATCCCAGATATGGTCTTACACGTAATCT
62098266 CAGTAACCCT
Statistics
Matches: 63, Mismatches: 12, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
42 25 0.40
43 9 0.14
44 29 0.46
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGTAATCTGATATCG
Found at i:62105230 original size:48 final size:45
Alignment explanation
Indices: 62105170--62105338 Score: 158
Period size: 48 Copynumber: 3.6 Consensus size: 45
62105160 AGATATGTGT
*
62105170 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATATTTAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATA---AA
* ** * ** * * *
62105218 GCCAGTGTAAGACACATCTGAGACATGCATCAACGTTGAGACAAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATAA-A
* *
62105264 GCTAGTGTAAGACATGTTTGGGACATACATCGGCCTCGAGATAGACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGAT--A-AA
*
62105312 GCTAGTGTAAGACCTGTCTGGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
62105339 GCGTTAGCTT
Statistics
Matches: 93, Mismatches: 24, Indels: 8
0.74 0.19 0.06
Matches are distributed among these distances:
45 1 0.01
46 32 0.34
48 59 0.63
49 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.23
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATAAA
Found at i:62105461 original size:49 final size:49
Alignment explanation
Indices: 62105170--62105465 Score: 154
Period size: 48 Copynumber: 6.2 Consensus size: 49
62105160 AGATATGTGT
* * * **
62105170 GCTAGTGTAAGACATGTCTAGGACAT-GCATCGGCCTCGAGATATTTAA
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATATATGAAA
* * * ** * * * * *
62105218 GCCAGTGTAAGACAC-ATCTGAGACAT-GCATCAACGTTGAGACA--AGA
1 GCTAGTGTAAGAC-CTGTCTGGGACATGGCATCGGCCTCGATATATGAAA
* * * *
62105264 GCTAGTGTAAGACATGTTTGGGACAT-ACATCGGCCTCGAGATA-GACAA
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATATATGA-AA
* ** * * *
62105312 GCTAGTGTAAGACCTGTCTGGGACATGGCGTTAG-CTTG-T-TGTG--T
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATATATGAAA
* ** * * *
62105356 G-TCAGTGTAAAACCTACCTGGGACATGGCATCGACAC-CGATAGATGAGA
1 GCT-AGTGTAAGACCTGTCTGGGACATGGCATCGGC-CTCGATATATGAAA
*
62105405 GCCAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTC-ACTATATGAAA
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGA-TATATGAAA
62105454 GCTAGTGTAAGA
1 GCTAGTGTAAGA
62105466 TTTTCTAGAA
Statistics
Matches: 179, Mismatches: 53, Indels: 31
0.68 0.20 0.12
Matches are distributed among these distances:
43 1 0.01
44 25 0.14
45 1 0.01
46 35 0.20
47 4 0.02
48 62 0.35
49 51 0.28
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (49 bp):
GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATATATGAAA
Found at i:62107992 original size:28 final size:27
Alignment explanation
Indices: 62107934--62108004 Score: 72
Period size: 28 Copynumber: 2.6 Consensus size: 27
62107924 ATCCCAACAA
* *
62107934 ACTTACCCCGTGTTTATTATCCTACCAG
1 ACTTA-CCCGTGTTTACTATCCGACCAG
*
62107962 ACTTACCTCGTGTTTACTATCTCGA-CGG
1 ACTTACC-CGTGTTTACTATC-CGACCAG
*
62107990 ACTTACCCGTATTTA
1 ACTTACCCGTGTTTA
62108005 TTGTCCCAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
27 9 0.24
28 26 0.70
29 2 0.05
ACGTcount: A:0.21, C:0.30, G:0.13, T:0.37
Consensus pattern (27 bp):
ACTTACCCGTGTTTACTATCCGACCAG
Found at i:62108046 original size:27 final size:27
Alignment explanation
Indices: 62107989--62108046 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
62107979 TATCTCGACG
* *
62107989 GACTTACCCGTATTTATTGTCCCAATG
1 GACTTACCCGTATTTACTGTCCCAATA
** * *
62108016 GACTTACTTGTATTTACTGTCTCAGTA
1 GACTTACCCGTATTTACTGTCCCAATA
62108043 GACT
1 GACT
62108047 ATCTCTATTT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.40
Consensus pattern (27 bp):
GACTTACCCGTATTTACTGTCCCAATA
Found at i:62112072 original size:40 final size:40
Alignment explanation
Indices: 62112015--62112270 Score: 351
Period size: 40 Copynumber: 6.4 Consensus size: 40
62112005 GATGATAACG
*
62112015 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATA-TCC
* *
62112055 GAGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATA-TCC
62112095 GGGCTAAGTCCCGAAGGCATTTGTG-TGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCT-AGTTACTATATCC
62112135 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATATCC
* **
62112175 GGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATATCC
* *
62112215 GGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTTA-CTATATCC
* *
62112255 -GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
62112271 TACTTGGTTT
Statistics
Matches: 200, Mismatches: 12, Indels: 9
0.90 0.05 0.04
Matches are distributed among these distances:
39 16 0.08
40 182 0.91
41 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATATCC
Found at i:62120171 original size:40 final size:40
Alignment explanation
Indices: 62120115--62120356 Score: 364
Period size: 40 Copynumber: 6.0 Consensus size: 40
62120105 GATGATAACG
* *
62120115 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCC
*
62120155 GGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCC
62120195 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* *
62120235 GGGCTAAGTCCCAAAGGCATTTGTGCTAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
**
62120275 GGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
*
62120315 GGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCC
62120355 GG
1 GG
62120357 TTAAATCCCA
Statistics
Matches: 188, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
39 2 0.01
40 185 0.98
41 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
Found at i:62126436 original size:34 final size:34
Alignment explanation
Indices: 62126398--62126464 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
62126388 AGTGACAGTC
62126398 CAGTATCAGT-TAGGGCCATAGCCCT-TTACAGTAT
1 CAGTATCAGTGT-GGGCCATAG-CCTATTACAGTAT
*
62126432 CAGTATCAGTGTGGGCCTTAGCCTATTACAGTA
1 CAGTATCAGTGTGGGCCATAGCCTATTACAGTA
62126465 ATAGTAACAG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 3 0.10
34 26 0.87
35 1 0.03
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.30
Consensus pattern (34 bp):
CAGTATCAGTGTGGGCCATAGCCTATTACAGTAT
Found at i:62133848 original size:5 final size:5
Alignment explanation
Indices: 62133838--62133870 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
62133828 AATGCCTATC
62133838 TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTT
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTT
62133871 AGTATTAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTCT
Found at i:62134836 original size:18 final size:19
Alignment explanation
Indices: 62134804--62134866 Score: 58
Period size: 18 Copynumber: 3.3 Consensus size: 19
62134794 ATTTCTTGCT
62134804 AATTTTTTAAACTTTTATC
1 AATTTTTTAAACTTTTATC
*
62134823 AATTTTTT-ATCTTTTAT-
1 AATTTTTTAAACTTTTATC
* * *
62134840 ACATTTTTGAATATTTTTATA
1 A-ATTTTTTAA-ACTTTTATC
62134861 AATTTT
1 AATTTT
62134867 AAATTATTTG
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
17 1 0.03
18 14 0.39
19 9 0.25
20 11 0.31
21 1 0.03
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.62
Consensus pattern (19 bp):
AATTTTTTAAACTTTTATC
Found at i:62134874 original size:20 final size:21
Alignment explanation
Indices: 62134829--62134875 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
62134819 TATCAATTTT
* *
62134829 TTATCTTTTATACATTTTTGAA
1 TTAT-TTTTATACAATTTTAAA
62134851 -TATTTTTATA-AATTTTAAA
1 TTATTTTTATACAATTTTAAA
62134870 TTATTT
1 TTATTT
62134876 GTTGATGCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 7 0.32
20 12 0.55
21 3 0.14
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (21 bp):
TTATTTTTATACAATTTTAAA
Found at i:62135053 original size:23 final size:25
Alignment explanation
Indices: 62135007--62135053 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
62134997 AAAGATTAAT
*
62135007 GATCAAATTTAACTAAAAAGTATAAG
1 GATCAAATTGAAC-AAAAAGTATAAG
62135033 GATCAAATTGAA-AAAAA-TATA
1 GATCAAATTGAACAAAAAGTATA
62135054 TAAATACTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 4 0.20
24 5 0.25
26 11 0.55
ACGTcount: A:0.57, C:0.06, G:0.11, T:0.26
Consensus pattern (25 bp):
GATCAAATTGAACAAAAAGTATAAG
Found at i:62135215 original size:17 final size:17
Alignment explanation
Indices: 62135195--62135228 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
62135185 AATAAGAAAA
62135195 ATTTTAAAAATATTTCT
1 ATTTTAAAAATATTTCT
* *
62135212 ATTTTAATATTATTTCT
1 ATTTTAAAAATATTTCT
62135229 TAAAATATGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTTAAAAATATTTCT
Found at i:62136011 original size:39 final size:41
Alignment explanation
Indices: 62135967--62136058 Score: 116
Period size: 45 Copynumber: 2.2 Consensus size: 41
62135957 GTGTGTATGA
* *
62135967 TATTTCAA-C-TATTTTTATATGTGAAATATTTCAATTAAT
1 TATTTCAATCATATGTTTATATGTGAAATATTTCAAATAAT
62136006 TATTTCAAATATCATTATGTTTATATGTGAAATATTTCAAATAAT
1 TATTTC--A-ATCA-TATGTTTATATGTGAAATATTTCAAATAAT
62136051 TATTTCAA
1 TATTTCAA
62136059 ATATACATAC
Statistics
Matches: 45, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
39 6 0.13
41 1 0.02
42 2 0.04
43 2 0.04
45 34 0.76
ACGTcount: A:0.38, C:0.08, G:0.05, T:0.49
Consensus pattern (41 bp):
TATTTCAATCATATGTTTATATGTGAAATATTTCAAATAAT
Found at i:62136220 original size:13 final size:13
Alignment explanation
Indices: 62136202--62136226 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
62136192 TAAAAGAGTT
62136202 ATTAATTAAAAAG
1 ATTAATTAAAAAG
62136215 ATTAATTAAAAA
1 ATTAATTAAAAA
62136227 CAAAAAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (13 bp):
ATTAATTAAAAAG
Found at i:62138010 original size:6 final size:6
Alignment explanation
Indices: 62137982--62138026 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
62137972 TAGTCTATCT
* * * *
62137982 ACCTGA ACCTGA ACCTGA ACCTAA ACCTAG ACCTAA ACCTAA ACC
1 ACCTAA ACCTAA ACCTAA ACCTAA ACCTAA ACCTAA ACCTAA ACC
62138027 CTTTTGCTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.40, C:0.36, G:0.09, T:0.16
Consensus pattern (6 bp):
ACCTAA
Found at i:62143581 original size:15 final size:15
Alignment explanation
Indices: 62143561--62143616 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
62143551 ATTCAATATT
62143561 AATATTTTAATAATA
1 AATATTTTAATAATA
*
62143576 AATATTTATTAGAATTATA
1 AATA-TT-TT--AATAATA
*
62143595 AATATATTAATAATA
1 AATATTTTAATAATA
62143610 AAT-TTTT
1 AATATTTT
62143617 TGTAGTATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 9
0.72 0.09 0.20
Matches are distributed among these distances:
14 3 0.09
15 13 0.39
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:62143787 original size:15 final size:15
Alignment explanation
Indices: 62143767--62143798 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
62143757 CTATGTACTT
62143767 TTCACAAATTTGCAA
1 TTCACAAATTTGCAA
62143782 TTCACAAATTTGCAA
1 TTCACAAATTTGCAA
62143797 TT
1 TT
62143799 TAGTCTTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.38
Consensus pattern (15 bp):
TTCACAAATTTGCAA
Found at i:62144196 original size:20 final size:19
Alignment explanation
Indices: 62144172--62144214 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
62144162 ATTCAAATAC
*
62144172 TAAAAAAT-ATTTATTTTTT
1 TAAAAAATAAATTA-TTTTT
62144191 TAAAAAATAAATTATTTTT
1 TAAAAAATAAATTATTTTT
62144210 TAAAA
1 TAAAA
62144215 TTATTTTTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TAAAAAATAAATTATTTTT
Found at i:62152102 original size:39 final size:39
Alignment explanation
Indices: 62152059--62152135 Score: 127
Period size: 39 Copynumber: 2.0 Consensus size: 39
62152049 TCTAGCCGAA
* * *
62152059 GCACATAAGTGCTAAACGGAAGCCCGAAGGCTAACTGAT
1 GCACACAAGTGCTAAACAGAAGCCCAAAGGCTAACTGAT
62152098 GCACACAAGTGCTAAACAGAAGCCCAAAGGCTAACTGA
1 GCACACAAGTGCTAAACAGAAGCCCAAAGGCTAACTGA
62152136 AGCTCATCAG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.39, C:0.25, G:0.23, T:0.13
Consensus pattern (39 bp):
GCACACAAGTGCTAAACAGAAGCCCAAAGGCTAACTGAT
Found at i:62152645 original size:40 final size:40
Alignment explanation
Indices: 62152590--62152670 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
62152580 ATCGGGCATG
*
62152590 TGATCAATTTATACACAAGTCATTCATATATATATGTATA
1 TGATCAATTTATACACAAGTCAATCATATATATATGTATA
62152630 TGATCAATTTATACACAAGTCAATCATATATATATGTATA
1 TGATCAATTTATACACAAGTCAATCATATATATATGTATA
62152670 T
1 T
62152671 TTTCCTCCTC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.41, C:0.12, G:0.07, T:0.40
Consensus pattern (40 bp):
TGATCAATTTATACACAAGTCAATCATATATATATGTATA
Done.