Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 178 of 433
Found at i:55663424 original size:14 final size:14
Alignment explanation
Indices: 55663393--55663431 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
55663383 AATAATAAAT
55663393 AATAAAAT-AATAA
1 AATAAAATAAATAA
*
55663406 GATAAAATAAATAA
1 AATAAAATAAATAA
55663420 AATAAAAATAAA
1 AAT-AAAATAAA
55663432 AATTGGGTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 7 0.32
14 7 0.32
15 8 0.36
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.21
Consensus pattern (14 bp):
AATAAAATAAATAA
Found at i:55667176 original size:27 final size:26
Alignment explanation
Indices: 55667146--55667208 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
55667136 AGATAATTAA
55667146 AATAAAATCCTAAAATTAAATAATCCT
1 AATAAAATCCTAAAATT-AATAATCCT
* * * *
55667173 AATAATTATCTTAATATTAATTATCCT
1 AATAA-AATCCTAAAATTAATAATCCT
55667200 AATATAAAT
1 AATA-AAAT
55667209 AAAATGGAGT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 19 0.66
28 10 0.34
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (26 bp):
AATAAAATCCTAAAATTAATAATCCT
Found at i:55667195 original size:15 final size:15
Alignment explanation
Indices: 55667175--55667204 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
55667165 ATAATCCTAA
*
55667175 TAATTATCTTAATAT
1 TAATTATCCTAATAT
55667190 TAATTATCCTAATAT
1 TAATTATCCTAATAT
55667205 AAATAAAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:55672682 original size:23 final size:23
Alignment explanation
Indices: 55672652--55672696 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
55672642 AAACACTTAG
55672652 ATTCTTATCTTATCTCTTTAACC
1 ATTCTTATCTTATCTCTTTAACC
55672675 ATTCTTATCTTATCTCTTTAAC
1 ATTCTTATCTTATCTCTTTAAC
55672697 TTCTTCACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.22, C:0.24, G:0.00, T:0.53
Consensus pattern (23 bp):
ATTCTTATCTTATCTCTTTAACC
Found at i:55685477 original size:18 final size:18
Alignment explanation
Indices: 55685454--55685492 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
55685444 GAGAAAATTA
55685454 ATTTGGTGAACTTTTTAT
1 ATTTGGTGAACTTTTTAT
55685472 ATTTGGTGAACTTTTTAT
1 ATTTGGTGAACTTTTTAT
55685490 ATT
1 ATT
55685493 GTTTTACCAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.23, C:0.05, G:0.15, T:0.56
Consensus pattern (18 bp):
ATTTGGTGAACTTTTTAT
Found at i:55693282 original size:107 final size:107
Alignment explanation
Indices: 55693096--55693311 Score: 414
Period size: 107 Copynumber: 2.0 Consensus size: 107
55693086 ATGGTGAGAC
55693096 AAATTTCAATCTGTGGCAAGTTCGGATAATGGCAATTCTAGTTTAATCTGGTTTGAAAAAGGTTA
1 AAATTTCAATCTGTGGCAAGTTCGGATAATGGCAATTCTAGTTTAATCTGGTTTGAAAAAGGTTA
55693161 TTACCAAGGAAAAGCCTAAGAATCTAAATAAAACAGAATGGG
66 TTACCAAGGAAAAGCCTAAGAATCTAAATAAAACAGAATGGG
55693203 AAATTTCAATCTGTGGCAAGTTCGGATAATGGCAATTCTAGTTTAATCTGGTTTGAAAAAGGTTA
1 AAATTTCAATCTGTGGCAAGTTCGGATAATGGCAATTCTAGTTTAATCTGGTTTGAAAAAGGTTA
* *
55693268 TTACCAGGGAAAAGCCTAAGAATCTAAATAAAATAGAATGGG
66 TTACCAAGGAAAAGCCTAAGAATCTAAATAAAACAGAATGGG
55693310 AA
1 AA
55693312 GAGCTTGATG
Statistics
Matches: 107, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
107 107 1.00
ACGTcount: A:0.39, C:0.12, G:0.21, T:0.28
Consensus pattern (107 bp):
AAATTTCAATCTGTGGCAAGTTCGGATAATGGCAATTCTAGTTTAATCTGGTTTGAAAAAGGTTA
TTACCAAGGAAAAGCCTAAGAATCTAAATAAAACAGAATGGG
Found at i:55698533 original size:40 final size:40
Alignment explanation
Indices: 55698416--55698553 Score: 161
Period size: 40 Copynumber: 3.5 Consensus size: 40
55698406 CTCGATAATA
* ** *
55698416 TAAAGTGAATAGGATTCGTTCCTGATTCACTATAATACCT
1 TAAAGTGAATAGGATTTGTTCCTGATTCACTATGGTAACT
* * * *
55698456 CAAAGTGGATAGGATTTGTTCCTAATTCACTATGGTAATT
1 TAAAGTGAATAGGATTTGTTCCTGATTCACTATGGTAACT
* *
55698496 TAAAGTGAATAGGATTTATTCCTGATTCACTACGGTAACT
1 TAAAGTGAATAGGATTTGTTCCTGATTCACTATGGTAACT
*
55698536 TAAGGCTG-ATAGGATTTG
1 TAAAG-TGAATAGGATTTG
55698554 ACCTGAAAAG
Statistics
Matches: 81, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
40 79 0.98
41 2 0.02
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.36
Consensus pattern (40 bp):
TAAAGTGAATAGGATTTGTTCCTGATTCACTATGGTAACT
Found at i:55701923 original size:17 final size:17
Alignment explanation
Indices: 55701898--55701936 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
55701888 CTTTCACTTT
* *
55701898 TCCAATCTTTCCTTACA
1 TCCATTCTTGCCTTACA
*
55701915 TCCATTCTTGCCTTTCA
1 TCCATTCTTGCCTTACA
55701932 TCCAT
1 TCCAT
55701937 CTACTTTTCC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.18, C:0.36, G:0.03, T:0.44
Consensus pattern (17 bp):
TCCATTCTTGCCTTACA
Found at i:55704387 original size:62 final size:64
Alignment explanation
Indices: 55704310--55704432 Score: 223
Period size: 62 Copynumber: 2.0 Consensus size: 64
55704300 ACTAGTTAAT
55704310 TTTCTTTTTTATTTTAAATTCAAATAAACTTGGCTTTATTAAAACATAAACTAGAATACATTTC
1 TTTCTTTTTTATTTTAAATTCAAATAAACTTGGCTTTATTAAAACATAAACTAGAATACATTTC
*
55704374 TTTC-TTTTT-TTTTAAATTCAAATAGACTTGGCTTTATTAAAACATAAACTAGAATACAT
1 TTTCTTTTTTATTTTAAATTCAAATAAACTTGGCTTTATTAAAACATAAACTAGAATACAT
55704433 ATCACTAAGC
Statistics
Matches: 58, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
62 49 0.84
63 5 0.09
64 4 0.07
ACGTcount: A:0.37, C:0.12, G:0.06, T:0.45
Consensus pattern (64 bp):
TTTCTTTTTTATTTTAAATTCAAATAAACTTGGCTTTATTAAAACATAAACTAGAATACATTTC
Found at i:55718261 original size:51 final size:51
Alignment explanation
Indices: 55718184--55718323 Score: 158
Period size: 51 Copynumber: 2.7 Consensus size: 51
55718174 CGGATGCCCG
* *
55718184 GTGGCCTGCACATAGTACAACCCTTGT-AGTCAAAGCTACCTTCTT-CACAAA
1 GTGGCCTGCACATAGTACCACACTTGTGA-TCAAAGCTACCTT-TTACACAAA
* * * *
55718235 GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTTTACACATA
1 GTGGCCTGCACATAGTACCACACTTGTGATCAAAGCTACCTTTTACACAAA
* * * *
55718286 TTGGCCTGCACTTAGTAGCACACATGTGATCAAAGCTA
1 GTGGCCTGCACATAGTACCACACTTGTGATCAAAGCTA
55718324 TCGGGTACGC
Statistics
Matches: 75, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
50 2 0.03
51 72 0.96
52 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.27
Consensus pattern (51 bp):
GTGGCCTGCACATAGTACCACACTTGTGATCAAAGCTACCTTTTACACAAA
Found at i:55718324 original size:51 final size:50
Alignment explanation
Indices: 55718184--55718362 Score: 155
Period size: 51 Copynumber: 3.5 Consensus size: 50
55718174 CGGATGCCCG
* * * * *
55718184 GTGGCCTGCACATAGTACAACCCTTGT-AGTCAAAGCTACCTTCTT-CACAAA
1 GTGGCCTGCACTTAGTAC-ACACATGTGA-TCAAAGCTATCTT-TTACACATA
* * * *
55718235 GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTTTACACATA
1 GTGGCCTGCACTTAGTA-CACACATGTGATCAAAGCTATCTTTTACACATA
* *** *
55718286 TTGGCCTGCACTTAGTAGCACACATGTGATCAAAGCTATCGGGTACGCATA
1 GTGGCCTGCACTTAGTA-CACACATGTGATCAAAGCTATCTTTTACACATA
*
55718337 GTAGCCTGCACTTAGTACTACACATG
1 GTGGCCTGCACTTAGTAC-ACACATG
55718363 CGACCTAACC
Statistics
Matches: 107, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
50 3 0.03
51 102 0.95
52 2 0.02
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.27
Consensus pattern (50 bp):
GTGGCCTGCACTTAGTACACACATGTGATCAAAGCTATCTTTTACACATA
Found at i:55723583 original size:3 final size:3
Alignment explanation
Indices: 55723470--55723534 Score: 121
Period size: 3 Copynumber: 21.7 Consensus size: 3
55723460 TTTTTGTTTT
*
55723470 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TGA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
55723518 TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TT
55723535 TATTTCTTAA
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:55725194 original size:6 final size:6
Alignment explanation
Indices: 55725173--55725235 Score: 74
Period size: 6 Copynumber: 10.7 Consensus size: 6
55725163 AGTCCATTTG
* * * *
55725173 TTTTTA TGTCTA TTTTTA -TTTTA TTTTTA TTTTTC TGTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
*
55725220 TTTTTA TGTTTA TTTT
1 TTTTTA TTTTTA TTTT
55725236 GTCTTTATAC
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
5 5 0.11
6 41 0.89
ACGTcount: A:0.14, C:0.03, G:0.05, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:55726584 original size:39 final size:39
Alignment explanation
Indices: 55726540--55726774 Score: 319
Period size: 39 Copynumber: 6.0 Consensus size: 39
55726530 GATGTGTATG
* * *
55726540 AATGTGCGAATTGTGATATCCAGGCTAAACCCGAAGGCA
1 AATGTGCGAATTATGATATCCGGGCTAAGCCCGAAGGCA
*
55726579 AATGTGCGAATTATGATATCCGGGCTAAACCCGAAGGCA
1 AATGTGCGAATTATGATATCCGGGCTAAGCCCGAAGGCA
55726618 AATGTGCGAATTATGATATCCGGGCTAAGCCCGAAGGCA
1 AATGTGCGAATTATGATATCCGGGCTAAGCCCGAAGGCA
* * * *
55726657 ATTGTGCGAGTTGTGATATCCGGGCTAAGCTCGAAGGC-
1 AATGTGCGAATTATGATATCCGGGCTAAGCCCGAAGGCA
**
55726695 AATGGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCA
1 AAT-GTGCGAATTATGATATCCGGGCTAAGCCCGAAGGCA
* * * *
55726735 ATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCA
1 AATGTGCGAATTATGATATCCGGGCTAAG-CCCGAAGGCA
55726775 TTTGTGCGGG
Statistics
Matches: 178, Mismatches: 15, Indels: 5
0.90 0.08 0.03
Matches are distributed among these distances:
38 2 0.01
39 164 0.92
40 12 0.07
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (39 bp):
AATGTGCGAATTATGATATCCGGGCTAAGCCCGAAGGCA
Found at i:55726752 original size:117 final size:118
Alignment explanation
Indices: 55726542--55726782 Score: 351
Period size: 117 Copynumber: 2.1 Consensus size: 118
55726532 TGTGTATGAA
*
55726542 TGTGCGAATTGTGATATCCAGGCTAAACCCGAAGGCAAATGTGCGAATTATGATATCCGGGCTAA
1 TGTGCGAATTGTGATATCCAGGCTAAACCCGAAGGCAAATGTGCGAACTATGATATCCGGGCTAA
55726607 ACCCGAAGGCAAATGTGCGAATTATGATATCCGGGCTAAG-CCCGAAGGCAAT
66 ACCCGAAGGCAAATGTGCGAATTATGATATCCGGGCTAAGTCCCGAAGGCAAT
* * * * *
55726659 TGTGCGAGTTGTGATATCCGGGCTAAGCTCGAAGGC-AATGGTGCGAGCTATGATATCCGGGCTA
1 TGTGCGAATTGTGATATCCAGGCTAAACCCGAAGGCAAAT-GTGCGAACTATGATATCCGGGCTA
* * * * * *
55726723 AGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
65 AACCCGAAGGCAAATGTGCGAATTATGATATCCGGGCTAAGTCCCGAAGGCAAT
55726777 TGTGCG
1 TGTGCG
55726783 GGTTACCATA
Statistics
Matches: 110, Mismatches: 12, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
116 3 0.03
117 90 0.82
118 17 0.15
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (118 bp):
TGTGCGAATTGTGATATCCAGGCTAAACCCGAAGGCAAATGTGCGAACTATGATATCCGGGCTAA
ACCCGAAGGCAAATGTGCGAATTATGATATCCGGGCTAAGTCCCGAAGGCAAT
Found at i:55733676 original size:39 final size:39
Alignment explanation
Indices: 55733632--55733866 Score: 319
Period size: 39 Copynumber: 6.0 Consensus size: 39
55733622 GATGTGTATG
* *
55733632 AATGTGCGAATTGTGATATCCGGGCTAAACCCGAAGGCA
1 AATGTGCGAATTATGATATCCGGGCTAAGCCCGAAGGCA
*
55733671 AATGTGCGAATTATGATATCCGGGCTAAACCCGAAGGCA
1 AATGTGCGAATTATGATATCCGGGCTAAGCCCGAAGGCA
55733710 AATGTGCGAATTATGATATCCGGGCTAAGCCCGAAGGCA
1 AATGTGCGAATTATGATATCCGGGCTAAGCCCGAAGGCA
* * * *
55733749 ATTGTGTGAGTTGTGATATCCGGGCTAAGCCCGAAGGC-
1 AATGTGCGAATTATGATATCCGGGCTAAGCCCGAAGGCA
** *
55733787 AATGGTGCGAGCTATGATATCCAGGCTAAGCCCGAAGGCA
1 AAT-GTGCGAATTATGATATCCGGGCTAAGCCCGAAGGCA
* * * *
55733827 ATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCA
1 AATGTGCGAATTATGATATCCGGGCTAAG-CCCGAAGGCA
55733867 TTTGTGCGGG
Statistics
Matches: 177, Mismatches: 16, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
38 2 0.01
39 163 0.92
40 12 0.07
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (39 bp):
AATGTGCGAATTATGATATCCGGGCTAAGCCCGAAGGCA
Found at i:55733890 original size:40 final size:40
Alignment explanation
Indices: 55733651--55733910 Score: 152
Period size: 39 Copynumber: 6.6 Consensus size: 40
55733641 ATTGTGATAT
* ** * ** *
55733651 CCGGGCTAA-ACCCGAAGGCAAATGTGCGAATTATGATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* ** * ** *
55733690 CCGGGCTAA-ACCCGAAGGCAAATGTGCGAATTATGATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* * *** *
55733729 CCGGGCTAAG-CCCGAAGGCAATTGTGTGAGTTGTGATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* * * ** *
55733768 CCGGGCTAAG-CCCGAAGGCAATGGTGCGAGCTATGATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* * *** *
55733807 CCAGGCTAAG-CCCGAAGGCAATTGTGCGAGTTGTGATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* *
55733846 CCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTACCATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* * *
55733886 CCGGGCTATGTCCTGAAGGCGTTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
55733911 AACGAGTAGC
Statistics
Matches: 195, Mismatches: 24, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
39 151 0.77
40 44 0.23
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
Found at i:55739167 original size:19 final size:18
Alignment explanation
Indices: 55739140--55739175 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
55739130 CTCTGGGCTT
*
55739140 TCTTTTTTTGTGATTATTC
1 TCTTGTTTTGTG-TTATTC
55739159 TCTTGTTTTGTGTTATT
1 TCTTGTTTTGTGTTATT
55739176 TTTTTATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.08, C:0.08, G:0.14, T:0.69
Consensus pattern (18 bp):
TCTTGTTTTGTGTTATTC
Found at i:55740549 original size:2 final size:2
Alignment explanation
Indices: 55740544--55740579 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
55740534 GTTTTCCTTT
55740544 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
55740580 AAAGCACATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:55753137 original size:45 final size:45
Alignment explanation
Indices: 55753068--55753722 Score: 187
Period size: 45 Copynumber: 14.7 Consensus size: 45
55753058 GATTCTACAG
* *
55753068 ATCTTGTCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGACGGTAA
1 ATCTTGTCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGATGGCAA
* * * * *
55753113 ATCTCGTCTTCCTGAAGTTGCAGTGAAGCAGATT-TA-A-GCCACC
1 ATCTTGTCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGATGGCA-A
* * * * * * * * * * *
55753156 ACCCTATCTCCCTAAAGTTGTAGTGGAGTAGGTTGAAGATTGTAG
1 ATCTTGTCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGATGGCAA
* * * *
55753201 ATCTTGT-TTCCCTGAAATTGCAGTGGAGCAGATCGAAGATTGCGA
1 ATCTTGTCTT-CCTGAAGTTGCAGTGGAGCAGATTGAAGATGGCAA
* * * * * * * * * *
55753246 ATCTCGCCTTTCTAAAGTTGTAGTGAAGCAAATT-TA-A-GCCACC
1 ATCTTGTCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGATGGCA-A
* * * * * * * *** *
55753289 ACCCTATC-TCCTTAAAGTTGTAGTGGAGTAGGTTGAAGATTATAG
1 ATCTTGTCTTCC-TGAAGTTGCAGTGGAGCAGATTGAAGATGGCAA
* * *
55753334 ATCTTGT-TTCCCTGAAATTGCAGTGGAGCAGATCGAAGATGACAA
1 ATCTTGTCTT-CCTGAAGTTGCAGTGGAGCAGATTGAAGATGGCAA
* * * * * * * *
55753379 ATCTCGCCTTCCTAAAGTTACAGTGAAGCAGATT-CA-A-GCCACC
1 ATCTTGTCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGATGGCA-A
* * * * * * * ** * * *
55753422 ACCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGATTGTAG
1 ATCTTGTCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGATGGCAA
* * * *
55753467 ATCTTGT-TTCCCTGAACTTGCAGTGGAGAAGATCGAAGATGGCGA
1 ATCTTGTCTT-CCTGAAGTTGCAGTGGAGCAGATTGAAGATGGCAA
* * * * * *
55753512 ATCTCGCCTTCCTGAAGTTGCAGTGAAGCAGATT-TA-A-GCCACC
1 ATCTTGTCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGATGGCA-A
* * * * * * ** ** * * *
55753555 ACCCTATCTCCCTAAAGTTGTAGTGGAATAGGCTGAAGATTGTAG
1 ATCTTGTCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGATGGCAA
* *
55753600 ATCTTGT-TTCCCTGAAGTTGCAGTGGAGCAGATCGAAGATGGTAA
1 ATCTTGTCTT-CCTGAAGTTGCAGTGGAGCAGATTGAAGATGGCAA
* * * *
55753645 ATCTCG-CATTCCTGAAGTTGCAGTGGAGCAGATCGAAGA-GTGTAG
1 ATCTTGTC-TTCCTGAAGTTGCAGTGGAGCAGATTGAAGATG-GCAA
* * **
55753690 ATCTTATCTCCCTGAAGTTATAGTGGAGCAGAT
1 ATCTTGTCTTCCTGAAGTTGCAGTGGAGCAGAT
55753723 CGATGTCACA
Statistics
Matches: 416, Mismatches: 165, Indels: 58
0.65 0.26 0.09
Matches are distributed among these distances:
42 10 0.02
43 92 0.22
44 12 0.03
45 287 0.69
46 15 0.04
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (45 bp):
ATCTTGTCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGATGGCAA
Found at i:55753305 original size:133 final size:133
Alignment explanation
Indices: 55753066--55753677 Score: 956
Period size: 133 Copynumber: 4.6 Consensus size: 133
55753056 CCGATTCTAC
* * * * * *
55753066 AGATCTTGTCTT-CCTGAAGTTGCAGTGGAGCAGATTGAAGACGGTAAATCTCGTCTTCCTGAAG
1 AGATCTTGT-TTCCCTGAAATTGCAGTGGAGCAGATCGAAGATGGCAAATCTCGCCTTCCTAAAG
*
55753130 TTGCAGTGAAGCAGATTTAAGCCACCACCCTATCTCCCTAAAGTTGTAGTGGAGTAGGTTGAAGA
65 TTGCAGTGAAGCAGATTTAAGCCACCACCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGA
55753195 TTGT
130 TTGT
* * *
55753199 AGATCTTGTTTCCCTGAAATTGCAGTGGAGCAGATCGAAGATTGCGAATCTCGCCTTTCTAAAGT
1 AGATCTTGTTTCCCTGAAATTGCAGTGGAGCAGATCGAAGATGGCAAATCTCGCCTTCCTAAAGT
* * * *
55753264 TGTAGTGAAGCAAATTTAAGCCACCACCCTATCTCCTTAAAGTTGTAGTGGAGTAGGTTGAAGAT
66 TGCAGTGAAGCAGATTTAAGCCACCACCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGAT
*
55753329 TAT
131 TGT
*
55753332 AGATCTTGTTTCCCTGAAATTGCAGTGGAGCAGATCGAAGATGACAAATCTCGCCTTCCTAAAGT
1 AGATCTTGTTTCCCTGAAATTGCAGTGGAGCAGATCGAAGATGGCAAATCTCGCCTTCCTAAAGT
* *
55753397 TACAGTGAAGCAGATTCAAGCCACCACCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGAT
66 TGCAGTGAAGCAGATTTAAGCCACCACCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGAT
55753462 TGT
131 TGT
* * * *
55753465 AGATCTTGTTTCCCTGAACTTGCAGTGGAGAAGATCGAAGATGGCGAATCTCGCCTTCCTGAAGT
1 AGATCTTGTTTCCCTGAAATTGCAGTGGAGCAGATCGAAGATGGCAAATCTCGCCTTCCTAAAGT
*
55753530 TGCAGTGAAGCAGATTTAAGCCACCACCCTATCTCCCTAAAGTTGTAGTGGAATAGGCTGAAGAT
66 TGCAGTGAAGCAGATTTAAGCCACCACCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGAT
55753595 TGT
131 TGT
* * * *
55753598 AGATCTTGTTTCCCTGAAGTTGCAGTGGAGCAGATCGAAGATGGTAAATCTCGCATTCCTGAAGT
1 AGATCTTGTTTCCCTGAAATTGCAGTGGAGCAGATCGAAGATGGCAAATCTCGCCTTCCTAAAGT
*
55753663 TGCAGTGGAGCAGAT
66 TGCAGTGAAGCAGAT
55753678 CGAAGAGTGT
Statistics
Matches: 440, Mismatches: 38, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
132 2 0.00
133 438 1.00
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.28
Consensus pattern (133 bp):
AGATCTTGTTTCCCTGAAATTGCAGTGGAGCAGATCGAAGATGGCAAATCTCGCCTTCCTAAAGT
TGCAGTGAAGCAGATTTAAGCCACCACCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGAT
TGT
Found at i:55754117 original size:12 final size:12
Alignment explanation
Indices: 55754100--55754129 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
55754090 AACCCAATAG
55754100 CCCAAACTTAAA
1 CCCAAACTTAAA
55754112 CCCAAACTTAAA
1 CCCAAACTTAAA
55754124 CCCAAA
1 CCCAAA
55754130 ACCCAATACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.50, C:0.37, G:0.00, T:0.13
Consensus pattern (12 bp):
CCCAAACTTAAA
Found at i:55754509 original size:19 final size:18
Alignment explanation
Indices: 55754482--55754517 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
55754472 CTCTGGGCTT
*
55754482 TCTTTTTTTGTGATTATTC
1 TCTTGTTTTGTG-TTATTC
55754501 TCTTGTTTTGTGTTATT
1 TCTTGTTTTGTGTTATT
55754518 TTTTTATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.08, C:0.08, G:0.14, T:0.69
Consensus pattern (18 bp):
TCTTGTTTTGTGTTATTC
Found at i:55754527 original size:18 final size:18
Alignment explanation
Indices: 55754480--55754537 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
55754470 ATCTCTGGGC
*
55754480 TTTCTTTTTTTGTGATTAT
1 TTTCTTATTTTGTG-TTAT
* *
55754499 TCTCTTGTTTTGTGTTAT
1 TTTCTTATTTTGTGTTAT
* * *
55754517 TTTTTTATTTTATTTTAT
1 TTTCTTATTTTGTGTTAT
55754535 TTT
1 TTT
55754538 GAAAGTAAAT
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
18 20 0.62
19 12 0.38
ACGTcount: A:0.10, C:0.05, G:0.09, T:0.76
Consensus pattern (18 bp):
TTTCTTATTTTGTGTTAT
Found at i:55755740 original size:28 final size:29
Alignment explanation
Indices: 55755684--55755740 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
55755674 ATATATTTTG
* *
55755684 TATTAAAGTTAATTTTATTTCATATATAT
1 TATTAAAGTTAATATTATTTCATACATAT
* *
55755713 TATTAAA-TTTATATTATTTTATACATAT
1 TATTAAAGTTAATATTATTTCATACATAT
55755741 AATTCCTTCT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 17 0.71
29 7 0.29
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.56
Consensus pattern (29 bp):
TATTAAAGTTAATATTATTTCATACATAT
Found at i:55758109 original size:13 final size:13
Alignment explanation
Indices: 55758091--55758118 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
55758081 GATTATTTAG
55758091 AATGCCATTTTGT
1 AATGCCATTTTGT
55758104 AATGCCATTTTGT
1 AATGCCATTTTGT
55758117 AA
1 AA
55758119 CATGATTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (13 bp):
AATGCCATTTTGT
Found at i:55762349 original size:4 final size:4
Alignment explanation
Indices: 55762340--55762393 Score: 62
Period size: 4 Copynumber: 14.2 Consensus size: 4
55762330 TAGCAAAAGA
*
55762340 TAAT TAAT TAAT TATAT T-AT TAAT T-AT TAAT TAAT TAAT TAA- -AAA
1 TAAT TAAT TAAT TA-AT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT
55762385 TAAT TAAT T
1 TAAT TAAT T
55762394 TCTTTTAATT
Statistics
Matches: 44, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
2 2 0.05
3 6 0.14
4 33 0.75
5 3 0.07
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
TAAT
Found at i:55766314 original size:79 final size:79
Alignment explanation
Indices: 55766183--55766342 Score: 320
Period size: 79 Copynumber: 2.0 Consensus size: 79
55766173 GTAGCTCTCT
55766183 TGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTATCTTTCACGTAG
1 TGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTATCTTTCACGTAG
55766248 CTCTCTTGTCTACA
66 CTCTCTTGTCTACA
55766262 TGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTATCTTTCACGTAG
1 TGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTATCTTTCACGTAG
55766327 CTCTCTTGTCTACA
66 CTCTCTTGTCTACA
55766341 TG
1 TG
55766343 GGATACATCT
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 81 1.00
ACGTcount: A:0.20, C:0.28, G:0.17, T:0.36
Consensus pattern (79 bp):
TGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTATCTTTCACGTAG
CTCTCTTGTCTACA
Found at i:55770855 original size:2 final size:2
Alignment explanation
Indices: 55770850--55770874 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
55770840 TTTTTTAACT
55770850 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
55770875 GCATTGACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:55773203 original size:7 final size:7
Alignment explanation
Indices: 55773191--55773215 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
55773181 ATTTTTATGT
55773191 AAATATA
1 AAATATA
55773198 AAATATA
1 AAATATA
55773205 AAATATA
1 AAATATA
55773212 AAAT
1 AAAT
55773216 TATTAATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
AAATATA
Found at i:55773593 original size:22 final size:23
Alignment explanation
Indices: 55773551--55773593 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
55773541 GCATTCTCTT
**
55773551 AAAATCACAAAAGTTGTATAATA
1 AAAATCACAAAAGGAGTATAATA
55773574 AAAATCACAAAAGGAG-ATAA
1 AAAATCACAAAAGGAGTATAA
55773594 GATTTAACTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.60, C:0.09, G:0.12, T:0.19
Consensus pattern (23 bp):
AAAATCACAAAAGGAGTATAATA
Found at i:55778414 original size:31 final size:31
Alignment explanation
Indices: 55778379--55778441 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
55778369 ATCAATTAAA
55778379 AAAACATTAAGGCATACACAAGCTTGGCACC
1 AAAACATTAAGGCATACACAAGCTTGGCACC
*
55778410 AAAACATTAAGGCATACACAAGTTTGGCACC
1 AAAACATTAAGGCATACACAAGCTTGGCACC
55778441 A
1 A
55778442 TTCAAACATA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.43, C:0.24, G:0.16, T:0.17
Consensus pattern (31 bp):
AAAACATTAAGGCATACACAAGCTTGGCACC
Found at i:55780112 original size:42 final size:43
Alignment explanation
Indices: 55780008--55780152 Score: 120
Period size: 42 Copynumber: 3.4 Consensus size: 43
55779998 TGTGATATTG
* * *
55780008 TGTAAGACCACGTCTGGGAC-GTTGGCATCGACTTGATAT--TTACG
1 TGTAAGACCATGTCTGGGACAG-TGACATCG--TT-ATATGATTACA
*
55780052 TGTAAGACCATGTCTGGGACA-TCGACATCG-TATATGATTTCA
1 TGTAAGACCATGTCTGGGACAGT-GACATCGTTATATGATTACA
* * * *
55780094 TGTAAGACCTTGTTTGGGACAGTGGCATCGTTATTTGATTACA
1 TGTAAGACCATGTCTGGGACAGTGACATCGTTATATGATTACA
* *
55780137 TGTAATACCACGTCTG
1 TGTAAGACCATGTCTG
55780153 AGACGTTGGC
Statistics
Matches: 82, Mismatches: 13, Indels: 13
0.76 0.12 0.12
Matches are distributed among these distances:
40 4 0.05
41 1 0.01
42 28 0.34
43 24 0.29
44 25 0.30
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACAGTGACATCGTTATATGATTACA
Found at i:55787814 original size:42 final size:44
Alignment explanation
Indices: 55787735--55787837 Score: 106
Period size: 42 Copynumber: 2.4 Consensus size: 44
55787725 ATCAACTTTA
* *
55787735 GATTTACGTGTAAGACCATGCCTGGGACATCGGCATCG-TATAT
1 GATTTACGTGTAAGACCATACCTGGGACATCGACATCGATATAT
* * *
55787778 GATTT-CGTGTAAGACCCTATCTGGGACAGT-GACATCGATATTT
1 GATTTACGTGTAAGACCATACCTGGGACA-TCGACATCGATATAT
**
55787821 GA-TTAAATGTAAGACCA
1 GATTTACGTGTAAGACCA
55787838 CGTCTGGGAC
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
42 28 0.57
43 21 0.43
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.29
Consensus pattern (44 bp):
GATTTACGTGTAAGACCATACCTGGGACATCGACATCGATATAT
Found at i:55791522 original size:83 final size:83
Alignment explanation
Indices: 55791412--55791573 Score: 270
Period size: 83 Copynumber: 2.0 Consensus size: 83
55791402 ATAAAGCTTG
* *
55791412 AAAGAGAAAGTGGCCCAGTGTGCTAAGCATTGAAGACTGATCCAACAAGCAAATTGGCATCCCAA
1 AAAGAGAAAGTGACCCAGTGTGCTAAGCATTGAAGACTGATCCAACAAGCAAATTGGCAGCCCAA
*
55791477 AACCATCCAACAAGCCTA
66 AAACATCCAACAAGCCTA
* * *
55791495 AAAGAGAAAGTGACCCAGTGTGTTAAGCATTGAAGATTGATCCAACAAGCAAATTGGTAGCCCAA
1 AAAGAGAAAGTGACCCAGTGTGCTAAGCATTGAAGACTGATCCAACAAGCAAATTGGCAGCCCAA
55791560 AAACATCCAACAAG
66 AAACATCCAACAAG
55791574 TTGACCCAAT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
83 73 1.00
ACGTcount: A:0.41, C:0.22, G:0.20, T:0.17
Consensus pattern (83 bp):
AAAGAGAAAGTGACCCAGTGTGCTAAGCATTGAAGACTGATCCAACAAGCAAATTGGCAGCCCAA
AAACATCCAACAAGCCTA
Found at i:55793912 original size:29 final size:28
Alignment explanation
Indices: 55793880--55793982 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
55793870 GTGACGAGAT
* *
55793880 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
55793909 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
55793938 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
55793967 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
55793983 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:55801707 original size:29 final size:28
Alignment explanation
Indices: 55801675--55801777 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
55801665 GTGACGAGAT
* *
55801675 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
55801704 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
55801733 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
55801762 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
55801778 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:55803683 original size:25 final size:25
Alignment explanation
Indices: 55803654--55803705 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
55803644 CGACATTTAC
55803654 TTGTCACTTTATTACTTGATAACGA
1 TTGTCACTTTATTACTTGATAACGA
55803679 TTGTCACTTTATTACTTGATAACGA
1 TTGTCACTTTATTACTTGATAACGA
55803704 TT
1 TT
55803706 ATGTACACTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.27, C:0.15, G:0.12, T:0.46
Consensus pattern (25 bp):
TTGTCACTTTATTACTTGATAACGA
Found at i:55808287 original size:93 final size:93
Alignment explanation
Indices: 55808175--55808345 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
55808165 GCTCATAAGT
* * *
55808175 GAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAG-TTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
55808239 ACGAGTTCGGATGCCTAGTTACATTTCAC
65 ACGAGTTCGGATGCCTAGTTACATTTCAC
55808268 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
55808333 CGAGTTCGGATGC
66 CGAGTTCGGATGC
55808346 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:55808342 original size:46 final size:46
Alignment explanation
Indices: 55808168--55808342 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
55808158 GTAACCCGCT
* *
55808168 CATAAGTGAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGCATC
1 CATAAGTGAACTCGGACTCAACTCAACGAG-TTCGGACATTCGCATC
*
55808214 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-
1 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATC
* * *
55808263 -TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATC
1 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATC
*
55808307 CATAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
1 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
55808343 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 11, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 4 0.04
46 60 0.56
47 29 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (46 bp):
CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATC
Found at i:55813747 original size:46 final size:46
Alignment explanation
Indices: 55813680--55813853 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
55813670 TGTAACCTGC
*
55813680 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
55813726 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * * * *
55813776 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
55813819 CCATAAGTGAACTCGGACTCAACTCAAC-AGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
55813854 ATGCTCAACC
Statistics
Matches: 108, Mismatches: 11, Indels: 19
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 1 0.01
45 9 0.08
46 55 0.51
47 28 0.26
48 3 0.03
49 1 0.01
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:55813800 original size:93 final size:92
Alignment explanation
Indices: 55813688--55813857 Score: 304
Period size: 93 Copynumber: 1.8 Consensus size: 92
55813678 GCCCATAAGT
* *
55813688 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
55813753 CGAGTTCGGATGCCTAGTTACATTTCAC
66 C-AGTTCGGATGCCTAGTTACATTTCAC
*
55813781 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
55813846 CAGTTCGGATGC
66 CAGTTCGGATGC
55813858 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 11 0.15
93 63 0.85
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CAGTTCGGATGCCTAGTTACATTTCAC
Found at i:55825190 original size:284 final size:284
Alignment explanation
Indices: 55824680--55825209 Score: 925
Period size: 284 Copynumber: 1.9 Consensus size: 284
55824670 AGTATAAGTC
* * *
55824680 TTGAGATAATGGAACTTTTGTCTTCAAACAAAGTCATGTATGTCTTGGGACAAGGACCTATTGCT
1 TTGAGATAATGGAACTTTTGTCTTCAAACAAAGTCATGTATGTATTGAGACAAGGACCTATTGAT
*
55824745 GTAGAATTTTAGCTTTGAAGTTTTTATGTCTCGAGACCCAAGAAAATAGACCTAAAAAATATGCT
66 GTAGAATTTTAGCTTCGAAGTTTTTATGTCTCGAGACCCAAGAAAATAGACCTAAAAAATATGCT
* * *
55824810 TTTAAACACTCTTAAATCATACTAAATTGTCCACAATGATTTCAATCATTGACCAAAACACCTAA
131 TTAAAACACTCTTAAACCATACTAAATTGTCCACAATGACTTCAATCATTGACCAAAACACCTAA
* *
55824875 AATCAAGTCAAAACCATTACCAATCATTTTCTTATGTTTCATTAAAAACTTCCTTCGAAGTTTTA
196 AATCAAGTCAAAACCATTACCAATCATTTTCTTAGGGTTCATTAAAAACTTCCTTCGAAGTTTTA
55824940 AGATAAGAACCTATTGTTGTAGAA
261 AGATAAGAACCTATTGTTGTAGAA
* *
55824964 TTGAGATAATGGAAGTTTTGTCTTCAAACAAAGTCATGTATGTATTGAGACAAGGATCTATTGAT
1 TTGAGATAATGGAACTTTTGTCTTCAAACAAAGTCATGTATGTATTGAGACAAGGACCTATTGAT
** *
55825029 GTAGAATTTTAGCTTCGAAGTTTTTATGTCTCGAGACCCGGGAAAATAGACCTGAAAAATATGCT
66 GTAGAATTTTAGCTTCGAAGTTTTTATGTCTCGAGACCCAAGAAAATAGACCTAAAAAATATGCT
*
55825094 TTAAAACACTTTTAAACCATACTAAATTGTCCACAATGACTTCAATCATTGACCAAAACACCTAA
131 TTAAAACACTCTTAAACCATACTAAATTGTCCACAATGACTTCAATCATTGACCAAAACACCTAA
55825159 AATCAAGTCAAAACCATTACCAATCATTTTCTTAGGGTTCATTAAAAACTT
196 AATCAAGTCAAAACCATTACCAATCATTTTCTTAGGGTTCATTAAAAACTT
55825210 GCATGCTATT
Statistics
Matches: 231, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
284 231 1.00
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.33
Consensus pattern (284 bp):
TTGAGATAATGGAACTTTTGTCTTCAAACAAAGTCATGTATGTATTGAGACAAGGACCTATTGAT
GTAGAATTTTAGCTTCGAAGTTTTTATGTCTCGAGACCCAAGAAAATAGACCTAAAAAATATGCT
TTAAAACACTCTTAAACCATACTAAATTGTCCACAATGACTTCAATCATTGACCAAAACACCTAA
AATCAAGTCAAAACCATTACCAATCATTTTCTTAGGGTTCATTAAAAACTTCCTTCGAAGTTTTA
AGATAAGAACCTATTGTTGTAGAA
Found at i:55830571 original size:79 final size:82
Alignment explanation
Indices: 55830431--55830615 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
55830421 TCGAATGATG
* * *
55830431 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
*
55830495 CGTGCGAGTTAATA-AA
66 CGTGCGAGTCAATATAA
* **
55830511 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
*
55830573 TCGTGCGAGTCACTATAA
65 TCGTGCGAGTCAATATAA
**
55830591 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
55830616 AGCGAGTCGT
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 34 0.37
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTCAATATAA
Found at i:55830623 original size:40 final size:40
Alignment explanation
Indices: 55830432--55830623 Score: 151
Period size: 40 Copynumber: 4.8 Consensus size: 40
55830422 CGAATGATGT
* * * * *
55830432 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTCACTAAAC
** * * * * *
55830472 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAAT
1 CCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTCACTAAAC
* * *
55830512 CCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAAC
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
*
55830551 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA-
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTA-AAC
* *
55830591 CCGGGCTT-CGTCCCGAAGGCATTTGAGCGAGTC
1 CCGGG-TTAAGTCCCGAAGGCATTTGTGCGAGTC
55830624 GTTATATCCG
Statistics
Matches: 126, Mismatches: 20, Indels: 12
0.80 0.13 0.08
Matches are distributed among these distances:
39 33 0.26
40 82 0.65
41 11 0.09
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
Found at i:55830646 original size:79 final size:79
Alignment explanation
Indices: 55830431--55830648 Score: 183
Period size: 79 Copynumber: 2.7 Consensus size: 79
55830421 TCGAATGATG
* * * * ** *
55830431 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGA-TCCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGC-AAGTCACTAAACCCGGGTTA-AATTCCGAAGGCAT
*
55830494 TCGTGCGAGTTAATAAA
63 TCGTGCGAGTCAATAAA
* * * *
55830511 TCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAAACCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
*
55830576 TGCGAGTCACTATAA
66 TGCGAGTCAATA-AA
** * ** * *
55830591 -CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGTTATATCC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGG
55830649 TACGTGATTC
Statistics
Matches: 113, Mismatches: 21, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
79 69 0.61
80 44 0.39
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
TGCGAGTCAATAAA
Found at i:55838619 original size:79 final size:82
Alignment explanation
Indices: 55838479--55838663 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
55838469 TCGAATGATG
* * *
55838479 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
*
55838543 CGTGCGAGTTAATA-AA
66 CGTGCGAGTCAATATAA
* **
55838559 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
*
55838621 TCGTGCGAGTCACTATAA
65 TCGTGCGAGTCAATATAA
**
55838639 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
55838664 AGCGAGTCGT
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 34 0.37
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTCAATATAA
Found at i:55838671 original size:40 final size:40
Alignment explanation
Indices: 55838480--55838671 Score: 151
Period size: 40 Copynumber: 4.8 Consensus size: 40
55838470 CGAATGATGT
* * * * *
55838480 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTCACTAAAC
** * * * * *
55838520 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAAT
1 CCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTCACTAAAC
* * *
55838560 CCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAAC
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
*
55838599 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA-
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTA-AAC
* *
55838639 CCGGGCTT-CGTCCCGAAGGCATTTGAGCGAGTC
1 CCGGG-TTAAGTCCCGAAGGCATTTGTGCGAGTC
55838672 GTTATATCCG
Statistics
Matches: 126, Mismatches: 20, Indels: 12
0.80 0.13 0.08
Matches are distributed among these distances:
39 33 0.26
40 82 0.65
41 11 0.09
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
Found at i:55838694 original size:79 final size:79
Alignment explanation
Indices: 55838479--55838696 Score: 183
Period size: 79 Copynumber: 2.7 Consensus size: 79
55838469 TCGAATGATG
* * * * ** *
55838479 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGA-TCCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGC-AAGTCACTAAACCCGGGTTA-AATTCCGAAGGCAT
*
55838542 TCGTGCGAGTTAATAAA
63 TCGTGCGAGTCAATAAA
* * * *
55838559 TCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAAACCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
*
55838624 TGCGAGTCACTATAA
66 TGCGAGTCAATA-AA
** * ** * *
55838639 -CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGTTATATCC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGG
55838697 TACGTGATTC
Statistics
Matches: 113, Mismatches: 21, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
79 69 0.61
80 44 0.39
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
TGCGAGTCAATAAA
Found at i:55849103 original size:40 final size:39
Alignment explanation
Indices: 55849020--55849202 Score: 122
Period size: 40 Copynumber: 4.6 Consensus size: 39
55849010 TCGAATGATG
* * * * *
55849020 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGACTAAGT-CCGAAGGCATTCGTGC-GAGTTACTAAA
*
55849060 TCCGGACTAGGATCCGAAGGCATTCGTGCGAGTTGA-TAAA
1 TCCGGACTAAG-TCCGAAGGCATTCGTGCGAGTT-ACTAAA
* * *
55849100 TCC-GAGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAAA
1 TCCGGA-CTAAGTCCGAAGGCATTCGTGCGAGTTACTAAA
* ** *
55849139 CCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA
1 TCCGGACTAAGT-CCGAAGGCATTCGTGCGAGTTACTA-AA
* **
55849180 -CCGGGCTTCGTCCCGAAGGCATT
1 TCCGGACTAAGT-CCGAAGGCATT
55849203 TGAGCTAGTC
Statistics
Matches: 115, Mismatches: 20, Indels: 16
0.76 0.13 0.11
Matches are distributed among these distances:
38 1 0.01
39 31 0.27
40 73 0.63
41 10 0.09
ACGTcount: A:0.25, C:0.25, G:0.27, T:0.23
Consensus pattern (39 bp):
TCCGGACTAAGTCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:55849120 original size:39 final size:40
Alignment explanation
Indices: 55849073--55849202 Score: 140
Period size: 40 Copynumber: 3.3 Consensus size: 40
55849063 GGACTAGGAT
*
55849073 CCGAAGGCATTCGTGCGAGTTGA-TAAATCCGAGCTAAG-C
1 CCGAAGGCATTCGTGCGAGTT-ACTAAACCCGAGCTAAGTC
* * * *
55849112 CCGAAGGCATTTGTGCAAGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAACCCGAGCTAAGTC
* * **
55849152 CCGAAGGCATTCGTGCGAGTCACTATAA-CCGGGCTTCGTC
1 CCGAAGGCATTCGTGCGAGTTACTA-AACCCGAGCTAAGTC
55849192 CCGAAGGCATT
1 CCGAAGGCATT
55849203 TGAGCTAGTC
Statistics
Matches: 77, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
38 1 0.01
39 31 0.40
40 43 0.56
41 2 0.03
ACGTcount: A:0.25, C:0.25, G:0.27, T:0.22
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAACCCGAGCTAAGTC
Found at i:55849157 original size:79 final size:80
Alignment explanation
Indices: 55849020--55849171 Score: 202
Period size: 79 Copynumber: 1.9 Consensus size: 80
55849010 TCGAATGATG
* * * *
55849020 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTC
1 TCCGAGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
55849085 GTGCGAGTTGATAAA
66 GTGCGAGTTGATAAA
* **
55849100 TCCGAGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGAGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
55849162 TCGTGCGAGT
64 TCGTGCGAGT
55849172 CACTATAACC
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
78 1 0.02
79 45 0.71
80 17 0.27
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGAGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTTGATAAA
Found at i:55855000 original size:31 final size:33
Alignment explanation
Indices: 55854934--55855000 Score: 86
Period size: 31 Copynumber: 2.1 Consensus size: 33
55854924 TTCTGGGCTT
*
55854934 CACACGGGCAAGGCCAATTTGAGCCGTGTGGGTC
1 CACACGGGCAAGGCCAA-TTGAGCCGTGTGAGTC
55854968 CACACGGGC-AGGCCACA-TGAG-CGTGTGAGTC
1 CACACGGGCAAGGCCA-ATTGAGCCGTGTGAGTC
55854999 CA
1 CA
55855001 TTTTTTTGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
31 11 0.35
32 4 0.13
33 6 0.19
34 10 0.32
ACGTcount: A:0.22, C:0.28, G:0.34, T:0.15
Consensus pattern (33 bp):
CACACGGGCAAGGCCAATTGAGCCGTGTGAGTC
Found at i:55855373 original size:23 final size:23
Alignment explanation
Indices: 55855347--55855391 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
55855337 TAATCCCCAC
55855347 ATGGTGTGTAGA-GCTGGATGGGG
1 ATGGTGTGTAGAGGCTGG-TGGGG
55855370 ATGGTGTGTAGAGGCTGGTGGG
1 ATGGTGTGTAGAGGCTGGTGGG
55855392 TAGGATTCTG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 16 0.76
24 5 0.24
ACGTcount: A:0.16, C:0.04, G:0.53, T:0.27
Consensus pattern (23 bp):
ATGGTGTGTAGAGGCTGGTGGGG
Found at i:55866947 original size:27 final size:26
Alignment explanation
Indices: 55866910--55867024 Score: 149
Period size: 27 Copynumber: 4.3 Consensus size: 26
55866900 AGCATGGCTG
* *
55866910 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
55866936 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
55866964 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
55866991 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
55867018 CCAGAAC
1 CCAGAAC
55867025 GTTTCCTCCA
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
26 5 0.06
27 58 0.73
28 17 0.21
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:55866969 original size:54 final size:54
Alignment explanation
Indices: 55866910--55867024 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
55866900 AGCATGGCTG
*
55866910 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
55866964 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
55867018 CCAGAAC
1 CCAGAAC
55867025 GTTTCCTCCA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:55868678 original size:26 final size:26
Alignment explanation
Indices: 55868642--55868751 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
55868632 CATGAAATTC
55868642 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
55868668 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
55868694 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
55868720 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCCA
55868746 TTATCA
1 TTATCA
55868752 ATTTGTACCA
Statistics
Matches: 81, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
26 79 0.98
27 2 0.02
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:55871243 original size:31 final size:32
Alignment explanation
Indices: 55871171--55871243 Score: 85
Period size: 31 Copynumber: 2.3 Consensus size: 32
55871161 ATTGGTAAGT
* * *
55871171 AGATATTTATTATTTATTATTATTAAGTTAAA
1 AGATATTTATTAATTATAATTATTAAATTAAA
* *
55871203 ATATATTTATTAATTA-AATTATTAAATTATA
1 AGATATTTATTAATTATAATTATTAAATTAAA
*
55871234 AGATTTTTAT
1 AGATATTTAT
55871244 ATGATAAATA
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
31 20 0.59
32 14 0.41
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.53
Consensus pattern (32 bp):
AGATATTTATTAATTATAATTATTAAATTAAA
Found at i:55871596 original size:11 final size:11
Alignment explanation
Indices: 55871580--55871612 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
55871570 ATATGGAAAT
55871580 AAGAAGAAAGA
1 AAGAAGAAAGA
55871591 AAGAAGAAAGAA
1 AAGAAGAAAG-A
55871603 AAGAA-AAAGA
1 AAGAAGAAAGA
55871613 GAAACTAAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.05
11 14 0.67
12 6 0.29
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (11 bp):
AAGAAGAAAGA
Found at i:55871971 original size:23 final size:24
Alignment explanation
Indices: 55871934--55871978 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
55871924 TATGGCAAGA
55871934 AATTAAGTAGAAAAAG-AAGTATG
1 AATTAAGTAGAAAAAGTAAGTATG
55871957 AATTAAGCTAG-AAAAGTAAGTA
1 AATTAAG-TAGAAAAAGTAAGTA
55871979 AGCTTAGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.56, C:0.02, G:0.20, T:0.22
Consensus pattern (24 bp):
AATTAAGTAGAAAAAGTAAGTATG
Found at i:55872460 original size:25 final size:25
Alignment explanation
Indices: 55872413--55872460 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
55872403 GTATTGATTT
* *
55872413 TGAAAATGGATTTTTGAAATGAAAG
1 TGAAAATGGATTGTGGAAATGAAAG
* *
55872438 TGAAATTGGATTGTGGAATTGAA
1 TGAAAATGGATTGTGGAAATGAA
55872461 TTGCATATTG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.27, T:0.33
Consensus pattern (25 bp):
TGAAAATGGATTGTGGAAATGAAAG
Found at i:55876203 original size:27 final size:28
Alignment explanation
Indices: 55876147--55876216 Score: 133
Period size: 27 Copynumber: 2.5 Consensus size: 28
55876137 AAATTTGTAC
55876147 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
55876175 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
55876202 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
55876217 GACTCACTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 25 0.60
28 17 0.40
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:55886039 original size:29 final size:30
Alignment explanation
Indices: 55885982--55886049 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
55885972 CACCCTTAAA
* * * *
55885982 ATATTTGCACTATTAGTCCTTCAACTTTTC
1 ATATTTACACTATTAATCCCTCAAATTTTC
*
55886012 ATATTTACACT-TTAATCCCTCAAATTTTG
1 ATATTTACACTATTAATCCCTCAAATTTTC
55886041 AGTATTTAC
1 A-TATTTAC
55886050 TCTTGGGTAG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 15 0.47
30 17 0.53
ACGTcount: A:0.28, C:0.21, G:0.06, T:0.46
Consensus pattern (30 bp):
ATATTTACACTATTAATCCCTCAAATTTTC
Found at i:55886398 original size:9 final size:9
Alignment explanation
Indices: 55886384--55886487 Score: 93
Period size: 9 Copynumber: 11.6 Consensus size: 9
55886374 TTTATACAAA
55886384 TAATTCGGT
1 TAATTCGGT
55886393 TAATTCGGT
1 TAATTCGGT
*
55886402 TAACTCGGT
1 TAATTCGGT
55886411 TAATTCGGT
1 TAATTCGGT
** *
55886420 TAATTTAGA
1 TAATTCGGT
55886429 TAATTCAGG-
1 TAATTC-GGT
* *
55886438 TAATTTGGG
1 TAATTCGGT
**
55886447 TAATTTAGT
1 TAATTCGGT
* *
55886456 TAATTTGAT
1 TAATTCGGT
55886465 TAATTCGGT
1 TAATTCGGT
*
55886474 TAATTCAGT
1 TAATTCGGT
55886483 TAATT
1 TAATT
55886488 TTATACTTAT
Statistics
Matches: 78, Mismatches: 15, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
8 2 0.03
9 75 0.96
10 1 0.01
ACGTcount: A:0.29, C:0.08, G:0.18, T:0.45
Consensus pattern (9 bp):
TAATTCGGT
Found at i:55890918 original size:5 final size:5
Alignment explanation
Indices: 55890908--55890950 Score: 54
Period size: 5 Copynumber: 8.6 Consensus size: 5
55890898 TGCTCGTGAA
55890908 AAAAG AAAAG AAAAG AAAAG AAAAAG AACAA- AAAA- AAAAG AAA
1 AAAAG AAAAG AAAAG AAAAG -AAAAG AA-AAG AAAAG AAAAG AAA
55890951 GCATATGTAC
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
4 6 0.17
5 22 0.63
6 7 0.20
ACGTcount: A:0.84, C:0.02, G:0.14, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:55894166 original size:20 final size:20
Alignment explanation
Indices: 55894141--55894181 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
55894131 CACACTTTTT
55894141 TTCATTTGCTCTCCTTTGTC
1 TTCATTTGCTCTCCTTTGTC
55894161 TTCATTTGCTCTCCTTTGTC
1 TTCATTTGCTCTCCTTTGTC
55894181 T
1 T
55894182 ATAATATTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.05, C:0.29, G:0.10, T:0.56
Consensus pattern (20 bp):
TTCATTTGCTCTCCTTTGTC
Found at i:55894640 original size:25 final size:25
Alignment explanation
Indices: 55894595--55894672 Score: 68
Period size: 26 Copynumber: 2.9 Consensus size: 25
55894585 TCTAATATTT
*
55894595 TTTAATTAAAATAATGATAAAATAAC
1 TTTAATAAAAATAAT-ATAAAATAAC
*
55894621 TTTAATAAAATATAAT-TAAAATAATA
1 TTTAATAAAA-ATAATATAAAATAA-C
*
55894647 TTTAGATAATTAATTAATATAAAATA
1 TTTA-ATAA--AAATAATATAAAATA
55894673 TCACTAACAC
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
25 8 0.19
26 13 0.30
27 9 0.21
28 4 0.09
29 9 0.21
ACGTcount: A:0.58, C:0.01, G:0.03, T:0.38
Consensus pattern (25 bp):
TTTAATAAAAATAATATAAAATAAC
Found at i:55897111 original size:21 final size:22
Alignment explanation
Indices: 55897078--55897118 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
55897068 TTCCTTTATG
*
55897078 TTTCATTGGCACATA-ATCATA
1 TTTCATTGCCACATACATCATA
*
55897099 TTTCATTTCCACATACATCA
1 TTTCATTGCCACATACATCA
55897119 CAATACATTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.32, C:0.24, G:0.05, T:0.39
Consensus pattern (22 bp):
TTTCATTGCCACATACATCATA
Found at i:55901196 original size:27 final size:27
Alignment explanation
Indices: 55901165--55901249 Score: 102
Period size: 27 Copynumber: 3.1 Consensus size: 27
55901155 ACACGTCAAA
*
55901165 AAATGAAATCCTTTATGGTGAA-TCATG
1 AAATGAAATCCTTTGTGGTGAAGT-ATG
55901192 AAATGAAAGT-CTTTGTGGTGAAGTATG
1 AAATGAAA-TCCTTTGTGGTGAAGTATG
* *
55901219 AAAAGAATAGCCTTTGTGGTGAAGTATG
1 AAATGAA-ATCCTTTGTGGTGAAGTATG
55901247 AAA
1 AAA
55901250 AGAACAGCCT
Statistics
Matches: 51, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
27 28 0.55
28 23 0.45
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.31
Consensus pattern (27 bp):
AAATGAAATCCTTTGTGGTGAAGTATG
Found at i:55901240 original size:28 final size:27
Alignment explanation
Indices: 55901164--55901259 Score: 113
Period size: 28 Copynumber: 3.4 Consensus size: 27
55901154 AACACGTCAA
* *
55901164 AAAATGAAATCCTTTATGGTGAA-TCATG
1 AAAA-GAAAGCCTTTGTGGTGAAGT-ATG
* *
55901192 AAATGAAAGTCTTTGTGGTGAAGTATG
1 AAAAGAAAGCCTTTGTGGTGAAGTATG
55901219 AAAAGAATAGCCTTTGTGGTGAAGTATG
1 AAAAGAA-AGCCTTTGTGGTGAAGTATG
55901247 AAAAGAACAGCCT
1 AAAAGAA-AGCCT
55901260 CTATGGCAAT
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
27 24 0.41
28 35 0.59
ACGTcount: A:0.39, C:0.09, G:0.24, T:0.28
Consensus pattern (27 bp):
AAAAGAAAGCCTTTGTGGTGAAGTATG
Found at i:55909499 original size:15 final size:16
Alignment explanation
Indices: 55909479--55909508 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
55909469 TAAATTTTGA
55909479 AAATAAA-GTAAATTT
1 AAATAAAGGTAAATTT
55909494 AAATAAAGGTAAATT
1 AAATAAAGGTAAATT
55909509 ATGAAAAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.60, C:0.00, G:0.10, T:0.30
Consensus pattern (16 bp):
AAATAAAGGTAAATTT
Found at i:55912387 original size:48 final size:48
Alignment explanation
Indices: 55912291--55912977 Score: 1118
Period size: 48 Copynumber: 14.4 Consensus size: 48
55912281 AAGCTATTGT
* * * *
55912291 TGAAATATGTATGAGATATG--TGTGTGGTAAAGCCGAATGGGTAATG
1 TGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTG
55912337 TGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTG
1 TGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTG
*
55912385 TGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTG
1 TGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTG
*
55912433 TGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTG
1 TGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTG
55912481 TGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTG
1 TGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTG
*
55912529 TGAAATATGA-ATAAGATATGTATATGTGGTAAAGCCGAATGGCTAGTG
1 TGAAATAT-ATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTG
55912577 TGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTG
1 TGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTG
55912625 TGAAATATGA-ATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTG
1 TGAAATAT-ATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTG
* *
55912673 TGAAACATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTG
1 TGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTG
* *
55912721 TGAAACATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTG
1 TGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTG
* *
55912769 TGAAATATGTATGAGATATGTATCTGTGGTAAAGCCGAATGGCTAGTG
1 TGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTG
* *
55912817 TCAAATATGA-ATGAGATATGTATCTGTGGTAAAGCCGAATGGCTAGTG
1 TGAAATAT-ATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTG
*
55912865 TGAAATATGA-ATAAGATATGTATATGTGGTAAAGCCGAATGGCTAGTG
1 TGAAATAT-ATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTG
55912913 TGAAATATGA-ATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTG
1 TGAAATAT-ATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTG
* *
55912961 TGAAATATGTAGGAGAT
1 TGAAATATATATGAGAT
55912978 GTGTGTATAT
Statistics
Matches: 613, Mismatches: 20, Indels: 14
0.95 0.03 0.02
Matches are distributed among these distances:
46 19 0.03
47 1 0.00
48 591 0.96
49 2 0.00
ACGTcount: A:0.35, C:0.07, G:0.29, T:0.30
Consensus pattern (48 bp):
TGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTG
Found at i:55913172 original size:37 final size:37
Alignment explanation
Indices: 55913118--55913220 Score: 179
Period size: 37 Copynumber: 2.8 Consensus size: 37
55913108 GGAAATATAT
55913118 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
55913155 TCCGGGTAAGACTCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
55913192 TCCGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
55913221 GGACTATTCG
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:55914550 original size:40 final size:40
Alignment explanation
Indices: 55914503--55914935 Score: 645
Period size: 40 Copynumber: 10.8 Consensus size: 40
55914493 GTTATATAGT
* * *
55914503 CGGGCTAAGTCCCGAAAAGCATTCGTGCTGGTGTTATGTT
1 CGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATC
* *
55914543 CGGGCTAAGTCCCGAAGAGCATTTGTGCTGATGTTATATC
1 CGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATC
* *
55914583 CGGGCTAAGTCCCGAAGAGCATTTGTGCTGATGTTATATC
1 CGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATC
* * *
55914623 CGGGCTAAGTCCCGAAGAGCATTCGTGTTAGTGTTATGTC
1 CGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATC
*
55914663 CGGGCTAAGTCCCGAAGAGCATTCGTGCTGATGTTATAT-
1 CGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATC
*
55914702 CGGGCTAAGTCTCGAAGAGCATTCGTGCTGGTGTTATATC
1 CGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATC
55914742 CGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATC
1 CGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATC
**
55914782 CGGGCTAAGTCCATAAAGAGCATTCGTGCTGGTGTT-TATC
1 CGGGCTAAGTCC-CGAAGAGCATTCGTGCTGGTGTTATATC
**
55914822 CGGGCTAAGTCCATAAAGAGCATTCGTGCTGGTGTTATATC
1 CGGGCTAAGTCC-CGAAGAGCATTCGTGCTGGTGTTATATC
*
55914863 CGGGCTAAGTCCCGATGAGCATTCGTGCTGGTGTTATATC
1 CGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATC
* * * *
55914903 CGGGCTAGGTCCTGAAGAGCAATCATGCTGGTG
1 CGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
55914936 ATGTGCATTC
Statistics
Matches: 363, Mismatches: 27, Indels: 6
0.92 0.07 0.02
Matches are distributed among these distances:
39 37 0.10
40 289 0.80
41 37 0.10
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATC
Found at i:55919462 original size:40 final size:39
Alignment explanation
Indices: 55919351--55919501 Score: 142
Period size: 40 Copynumber: 3.8 Consensus size: 39
55919341 TTAATCACGT
* * *
55919351 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* * *
55919391 GCACGAATGCCTTCGGGCCTTAGCCCGGATATAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *** *
55919431 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *
55919471 GCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAT
55919502 CATTCAATTT
Statistics
Matches: 93, Mismatches: 17, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
39 15 0.16
40 78 0.84
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
Found at i:55919485 original size:80 final size:79
Alignment explanation
Indices: 55919351--55919501 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
55919341 TTAATCACGT
*
55919351 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
55919416 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
55919431 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
55919494 CCGGATAT
64 CCGGATAT
55919502 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:55933197 original size:29 final size:29
Alignment explanation
Indices: 55933163--55933294 Score: 140
Period size: 29 Copynumber: 4.6 Consensus size: 29
55933153 TACTCGATTT
** * *
55933163 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* **** * *
55933192 CGCACACATAGTGCCATGCCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
55933221 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
55933250 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
55933279 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
55933295 ATCTCGTCAC
Statistics
Matches: 86, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
28 2 0.02
29 84 0.98
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:55936497 original size:84 final size:84
Alignment explanation
Indices: 55936355--55936508 Score: 272
Period size: 84 Copynumber: 1.8 Consensus size: 84
55936345 GGTACATGTT
55936355 TGATTTGGTGATGAAAATGGCTTGATTTTTGGCCAATTTCATGTCCACAAAGCATGAGACACGGA
1 TGATTTGGTGATGAAAATGGCTTGATTTTTGGCCAATTTCATGTCCACAAAGCATGAGACACGGA
55936420 CGTGTGAATCAGTCGTGTG
66 CGTGTGAATCAGTCGTGTG
* * * *
55936439 TGATTTGGTGATGGAAATGGCTTGATTTTTGGCCAATTTCATGTCCACACAGCCTGAGACATGGA
1 TGATTTGGTGATGAAAATGGCTTGATTTTTGGCCAATTTCATGTCCACAAAGCATGAGACACGGA
55936504 CGTGT
66 CGTGT
55936509 TGTGACAGCC
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
84 66 1.00
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (84 bp):
TGATTTGGTGATGAAAATGGCTTGATTTTTGGCCAATTTCATGTCCACAAAGCATGAGACACGGA
CGTGTGAATCAGTCGTGTG
Found at i:55937537 original size:40 final size:39
Alignment explanation
Indices: 55937410--55937539 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
55937400 ATGCTGGAAA
* *
55937410 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-AGTGG
* * *
55937450 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGC-AGTGG
*
55937490 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGCACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA-GTGG
55937530 TTATATCCGG
1 TTATATCCGG
55937540 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 4 0.05
40 73 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.23
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAGTGG
Found at i:55944662 original size:40 final size:41
Alignment explanation
Indices: 55944617--55944728 Score: 144
Period size: 40 Copynumber: 2.8 Consensus size: 41
55944607 GTGGAAATTA
* *
55944617 TATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAG-CGGCTAC
1 TATCCGGGCTAAGACCCGAAGGCAATTCGTGCAAGTC-G-TAC
*
55944658 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTCGTTC
1 TATCCGGGCTAAGACCCGAAGGCAATTCGTGCAAGTCGTAC
55944697 TATCCGGGCTAAGACCCGAAGGC-ATTCGTGCA
1 TATCCGGGCTAAGACCCGAAGGCAATTCGTGCA
55944729 CGTGGTTATA
Statistics
Matches: 65, Mismatches: 3, Indels: 7
0.87 0.04 0.09
Matches are distributed among these distances:
39 5 0.08
40 59 0.91
41 1 0.02
ACGTcount: A:0.24, C:0.27, G:0.29, T:0.21
Consensus pattern (41 bp):
TATCCGGGCTAAGACCCGAAGGCAATTCGTGCAAGTCGTAC
Found at i:55952895 original size:25 final size:25
Alignment explanation
Indices: 55952861--55952930 Score: 122
Period size: 25 Copynumber: 2.8 Consensus size: 25
55952851 TCTTGTACAT
55952861 GTATGCTCACACGAGCTGTGAATCG
1 GTATGCTCACACGAGCTGTGAATCG
*
55952886 GTATGCTCACACGAGTTGTGAATCG
1 GTATGCTCACACGAGCTGTGAATCG
*
55952911 GTATGTTCACACGAGCTGTG
1 GTATGCTCACACGAGCTGTG
55952931 GGTCAGAACG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (25 bp):
GTATGCTCACACGAGCTGTGAATCG
Found at i:55965354 original size:13 final size:13
Alignment explanation
Indices: 55965336--55965362 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
55965326 AAAATAATAG
55965336 CACACGGGCGTGT
1 CACACGGGCGTGT
55965349 CACACGGGCGTGT
1 CACACGGGCGTGT
55965362 C
1 C
55965363 CTTGCCGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:55966765 original size:39 final size:38
Alignment explanation
Indices: 55966707--55966783 Score: 100
Period size: 39 Copynumber: 2.0 Consensus size: 38
55966697 CCAGCACTTA
** *
55966707 TACCAACTGTTTAGTAACTAACATACCCTACTAGTGGC
1 TACCAACTGTTTAACAACTAACATACCCTACCAGTGGC
**
55966745 TACCAACCTGTTTAACAACTAACATGTCCTACCAGTGGC
1 TACCAA-CTGTTTAACAACTAACATACCCTACCAGTGGC
55966784 CCAAAATACA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
38 6 0.18
39 27 0.82
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (38 bp):
TACCAACTGTTTAACAACTAACATACCCTACCAGTGGC
Found at i:55972309 original size:189 final size:189
Alignment explanation
Indices: 55971989--55972558 Score: 1122
Period size: 189 Copynumber: 3.0 Consensus size: 189
55971979 GACCGACATT
55971989 TTTCCAAGAAGTTTGCACAACTCAGATCAATGATGGTGACTTACAAGTCAAGAGAATTCAATGTG
1 TTTCCAAGAAGTTTGCACAACTCAGATCAATGATGGTGACTTACAAGTCAAGAGAATTCAATGTG
*
55972054 AGTCAGGCACTGAACCAAATTTTTGGATTGGTACCGACGGTTGCTTGATGTTCAGAGATAGGATC
66 AGTCAGGCACTGAATCAAATTTTTGGATTGGTACCGACGGTTGCTTGATGTTCAGAGATAGGATC
55972119 TGTGTATCGAGAGATGATGAGCTTATTCAAAAAATCCTACAAGAGGCACATGATAGCCA
131 TGTGTATCGAGAGATGATGAGCTTATTCAAAAAATCCTACAAGAGGCACATGATAGCCA
55972178 TTTCCAAGAAGTTTGCACAACTCAGATCAATGATGGTGACTTACAAGTCAAGAGAATTCAATGTG
1 TTTCCAAGAAGTTTGCACAACTCAGATCAATGATGGTGACTTACAAGTCAAGAGAATTCAATGTG
55972243 AGTCAGGCACTGAATCAAATTTTTGGATTGGTACCGACGGTTGCTTGATGTTCAGAGATAGGATC
66 AGTCAGGCACTGAATCAAATTTTTGGATTGGTACCGACGGTTGCTTGATGTTCAGAGATAGGATC
55972308 TGTGTATCGAGAGATGATGAGCTTATTCAAAAAATCCTACAAGAGGCACATGATAGCCA
131 TGTGTATCGAGAGATGATGAGCTTATTCAAAAAATCCTACAAGAGGCACATGATAGCCA
55972367 TTTCCAAGAAGTTTGCACAACTCAGATCAATGATGGTGACTTACAAGTCAAGAGAATTCAATGTG
1 TTTCCAAGAAGTTTGCACAACTCAGATCAATGATGGTGACTTACAAGTCAAGAGAATTCAATGTG
55972432 AGTCAGGCACTGAATCAAATTTTTGGATTGGTACCGACGGTTGCTTGATGTTCAGAGATAGGATC
66 AGTCAGGCACTGAATCAAATTTTTGGATTGGTACCGACGGTTGCTTGATGTTCAGAGATAGGATC
*
55972497 TATGTATCGAGAGATGATGAGCTTATTCAAAAAATCCTACAAGAGGCACATGATAGCCA
131 TGTGTATCGAGAGATGATGAGCTTATTCAAAAAATCCTACAAGAGGCACATGATAGCCA
55972556 TTT
1 TTT
55972559 GTCTATTCAT
Statistics
Matches: 379, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
189 379 1.00
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (189 bp):
TTTCCAAGAAGTTTGCACAACTCAGATCAATGATGGTGACTTACAAGTCAAGAGAATTCAATGTG
AGTCAGGCACTGAATCAAATTTTTGGATTGGTACCGACGGTTGCTTGATGTTCAGAGATAGGATC
TGTGTATCGAGAGATGATGAGCTTATTCAAAAAATCCTACAAGAGGCACATGATAGCCA
Found at i:55976672 original size:19 final size:18
Alignment explanation
Indices: 55976648--55976708 Score: 68
Period size: 19 Copynumber: 3.2 Consensus size: 18
55976638 GGACATGTGT
55976648 GTGTCCCATGCACACAGGC
1 GTGTCCCATGCACAC-GGC
* *
55976667 GTGTCCCATCCACACGAGT
1 GTGTCCCATGCACACG-GC
*
55976686 GTGTCCCATGCGCACGGGC
1 GTGTCCCATGCACAC-GGC
55976705 GTGT
1 GTGT
55976709 GCATTGCCCC
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
18 1 0.03
19 33 0.94
20 1 0.03
ACGTcount: A:0.16, C:0.34, G:0.30, T:0.20
Consensus pattern (18 bp):
GTGTCCCATGCACACGGC
Found at i:55977145 original size:13 final size:13
Alignment explanation
Indices: 55977127--55977152 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
55977117 GGAACTTAAC
55977127 CTTATGTATTGGG
1 CTTATGTATTGGG
55977140 CTTATGTATTGGG
1 CTTATGTATTGGG
55977153 ATTTCATCTT
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:0.15, C:0.08, G:0.31, T:0.46
Consensus pattern (13 bp):
CTTATGTATTGGG
Found at i:55978039 original size:30 final size:30
Alignment explanation
Indices: 55978003--55978061 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
55977993 ACTATGTTGG
55978003 CGATTATCTACTAGCCCTTTGGGGCGACAC
1 CGATTATCTACTAGCCCTTTGGGGCGACAC
* *
55978033 CGATTATCTACTAGTCCTTTGGGGTGACA
1 CGATTATCTACTAGCCCTTTGGGGCGACA
55978062 TCGTGTTGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.20, C:0.25, G:0.24, T:0.31
Consensus pattern (30 bp):
CGATTATCTACTAGCCCTTTGGGGCGACAC
Found at i:55978142 original size:37 final size:37
Alignment explanation
Indices: 55978083--55978154 Score: 108
Period size: 37 Copynumber: 1.9 Consensus size: 37
55978073 GTTATCTACT
* * * *
55978083 GGTCTTTTGGGGTGACACCGTGTAAATGGTATATAAA
1 GGTCCTTTGGGGCGACAACGTGTAAACGGTATATAAA
55978120 GGTCCTTTGGGGCGACAACGTGTAAACGGTATATA
1 GGTCCTTTGGGGCGACAACGTGTAAACGGTATATA
55978155 GGTCCTACGG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (37 bp):
GGTCCTTTGGGGCGACAACGTGTAAACGGTATATAAA
Found at i:55980336 original size:39 final size:40
Alignment explanation
Indices: 55980270--55980445 Score: 225
Period size: 40 Copynumber: 4.5 Consensus size: 40
55980260 ACCCAAGTAT
*
55980270 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
55980309 CTTCGGGTCTTAGCCCGG-TATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
55980348 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* * *
55980388 CTTCGGGACATAGCCCGGATATAGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
55980428 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
55980446 TTATCATCCG
Statistics
Matches: 118, Mismatches: 14, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
38 1 0.01
39 51 0.43
40 64 0.54
41 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:55988320 original size:40 final size:40
Alignment explanation
Indices: 55988253--55988429 Score: 234
Period size: 40 Copynumber: 4.5 Consensus size: 40
55988243 ACCCAAGTAT
*
55988253 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
55988292 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
55988332 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* * *
55988372 CTTCGGGACATAGCCCGGATATAGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
55988412 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
55988430 TTATCATCCG
Statistics
Matches: 120, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
38 1 0.01
39 13 0.11
40 104 0.87
41 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:55995839 original size:16 final size:16
Alignment explanation
Indices: 55995818--55995870 Score: 63
Period size: 16 Copynumber: 3.3 Consensus size: 16
55995808 TTGAATTGAG
55995818 AAAATTATTTAATTAA
1 AAAATTATTTAATTAA
*
55995834 AAAATTAATTAATTAA
1 AAAATTATTTAATTAA
* *
55995850 ATAA-TATTTATTTTAA
1 AAAATTATTTA-ATTAA
55995866 AAAAT
1 AAAAT
55995871 AGAAAAACAT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
15 5 0.17
16 25 0.83
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
AAAATTATTTAATTAA
Found at i:56019403 original size:16 final size:16
Alignment explanation
Indices: 56019382--56019422 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
56019372 TTTTGTATTA
56019382 TTTTAATATTAAATAT
1 TTTTAATATTAAATAT
*
56019398 TTTTAAAATTAAATAT
1 TTTTAATATTAAATAT
*
56019414 TATTAATAT
1 TTTTAATAT
56019423 AACTTATTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
TTTTAATATTAAATAT
Found at i:56032933 original size:18 final size:18
Alignment explanation
Indices: 56032910--56032947 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
56032900 TTCGTAAGTC
*
56032910 ATGTCGGACTGAATTTCA
1 ATGTCGAACTGAATTTCA
56032928 ATGTCGAACTGAATTTCA
1 ATGTCGAACTGAATTTCA
56032946 AT
1 AT
56032948 CTCAGATGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (18 bp):
ATGTCGAACTGAATTTCA
Found at i:56043610 original size:28 final size:28
Alignment explanation
Indices: 56043570--56043626 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
56043560 AAACAGGGGA
56043570 GACTTTAACTAATAAACTGTACTAATTG
1 GACTTTAACTAATAAACTGTACTAATTG
56043598 GACTTTAACTAATAAACTGTACTAATTG
1 GACTTTAACTAATAAACTGTACTAATTG
56043626 G
1 G
56043627 TCTAACCAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.39, C:0.14, G:0.12, T:0.35
Consensus pattern (28 bp):
GACTTTAACTAATAAACTGTACTAATTG
Found at i:56046508 original size:34 final size:34
Alignment explanation
Indices: 56046466--56046534 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
56046456 CATCCGAGTA
*
56046466 AAAAAATATTTAAATATTATTTTTCGTGTTTATT
1 AAAAAATATTTAAATATTATTTTCCGTGTTTATT
56046500 AAAAAATATTTAAATATTATTTTCCGTGTTTATT
1 AAAAAATATTTAAATATTATTTTCCGTGTTTATT
56046534 A
1 A
56046535 TATGTGAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.39, C:0.04, G:0.06, T:0.51
Consensus pattern (34 bp):
AAAAAATATTTAAATATTATTTTCCGTGTTTATT
Found at i:56048015 original size:35 final size:36
Alignment explanation
Indices: 56047965--56048058 Score: 111
Period size: 35 Copynumber: 2.6 Consensus size: 36
56047955 CATAGGTAAG
*
56047965 TACATGTAAGCTTATATTGAACTAGTA-TATTCGAC
1 TACATGTGAGCTTATATTGAACTAGTAGTATTCGAC
* * ** *
56048000 TGCATGTGAGATTATATTGAA-TTTTAGTATTCGAT
1 TACATGTGAGCTTATATTGAACTAGTAGTATTCGAC
56048035 TACATGTGAGCTTATATTTGAACT
1 TACATGTGAGCTTATA-TTGAACT
56048059 GGCATACTTG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
34 3 0.06
35 39 0.81
36 5 0.10
37 1 0.02
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.41
Consensus pattern (36 bp):
TACATGTGAGCTTATATTGAACTAGTAGTATTCGAC
Found at i:56050443 original size:67 final size:67
Alignment explanation
Indices: 56050365--56050500 Score: 173
Period size: 67 Copynumber: 2.0 Consensus size: 67
56050355 GCTGATTTAA
** * *
56050365 TTTGTCCAGCCGCATGACATAAATTGCATTGGTTTGAATGTTGCTGAATTTAATGTGTCTTAACA
1 TTTGTCCAGCCGCATGACATAAATTAAATTGGTTTGAATGCTGCCGAATTTAATGTGTCTTAACA
56050430 CT
66 CT
* * ** * * *
56050432 TTTGTCTAGCCGCATGACATGAATTAAATTGGTTTGTTTGCTGCCGATTTTAATGTGTTTTAACC
1 TTTGTCCAGCCGCATGACATAAATTAAATTGGTTTGAATGCTGCCGAATTTAATGTGTCTTAACA
56050497 CT
66 CT
56050499 TT
1 TT
56050501 AATTGCTGTT
Statistics
Matches: 58, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
67 58 1.00
ACGTcount: A:0.23, C:0.16, G:0.19, T:0.42
Consensus pattern (67 bp):
TTTGTCCAGCCGCATGACATAAATTAAATTGGTTTGAATGCTGCCGAATTTAATGTGTCTTAACA
CT
Found at i:56053739 original size:18 final size:20
Alignment explanation
Indices: 56053698--56053743 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
56053688 GGAAAAATAA
56053698 AAAAAGTG-GAAAAGAGAGG
1 AAAAAGTGAGAAAAGAGAGG
*
56053717 AAAAAGTGAGAAAAGTGA-G
1 AAAAAGTGAGAAAAGAGAGG
56053736 -AAAAGTGA
1 AAAAAGTGA
56053744 TTCAAAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 8 0.32
19 9 0.36
20 8 0.32
ACGTcount: A:0.59, C:0.00, G:0.33, T:0.09
Consensus pattern (20 bp):
AAAAAGTGAGAAAAGAGAGG
Found at i:56053740 original size:9 final size:9
Alignment explanation
Indices: 56053699--56053743 Score: 56
Period size: 9 Copynumber: 4.9 Consensus size: 9
56053689 GAAAAATAAA
56053699 AAAAGTG-G
1 AAAAGTGAG
*
56053707 AAAAGAGAGG
1 AAAAGTGA-G
56053717 AAAAAGTGAG
1 -AAAAGTGAG
56053727 AAAAGTGAG
1 AAAAGTGAG
56053736 AAAAGTGA
1 AAAAGTGA
56053744 TTCAAAAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
8 6 0.19
9 17 0.53
10 2 0.06
11 7 0.22
ACGTcount: A:0.58, C:0.00, G:0.33, T:0.09
Consensus pattern (9 bp):
AAAAGTGAG
Found at i:56057101 original size:67 final size:67
Alignment explanation
Indices: 56057024--56057155 Score: 210
Period size: 67 Copynumber: 2.0 Consensus size: 67
56057014 GCTAATTTAA
*
56057024 TTTGTCCAGCCGCATGACATAAATTACATTGGTTTGAATGCTGCCGAATTTAATGTGTCTTAACC
1 TTTGTCCAGCCGCATGACATAAATTAAATTGGTTTGAATGCTGCCGAATTTAATGTGTCTTAACC
56057089 AT
66 AT
* ** * *
56057091 TTTGTCCAGCCGCATGACATGAATTAAATTGGTTTGTCTGCTGCCGATTTTAATGTGTTTTAACC
1 TTTGTCCAGCCGCATGACATAAATTAAATTGGTTTGAATGCTGCCGAATTTAATGTGTCTTAACC
56057156 CTTTAATTGT
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
67 59 1.00
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.38
Consensus pattern (67 bp):
TTTGTCCAGCCGCATGACATAAATTAAATTGGTTTGAATGCTGCCGAATTTAATGTGTCTTAACC
AT
Found at i:56059229 original size:13 final size:14
Alignment explanation
Indices: 56059199--56059229 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
56059189 TTTCTTATGA
56059199 TTTTTAAAAGTAGT
1 TTTTTAAAAGTAGT
56059213 TTTTTAAAAGTAGT
1 TTTTTAAAAGTAGT
56059227 TTT
1 TTT
56059230 CTTCTCAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (14 bp):
TTTTTAAAAGTAGT
Found at i:56061315 original size:10 final size:10
Alignment explanation
Indices: 56061300--56061331 Score: 64
Period size: 10 Copynumber: 3.2 Consensus size: 10
56061290 TGTGTTAATA
56061300 TTTTAATATT
1 TTTTAATATT
56061310 TTTTAATATT
1 TTTTAATATT
56061320 TTTTAATATT
1 TTTTAATATT
56061330 TT
1 TT
56061332 ATATTTTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (10 bp):
TTTTAATATT
Found at i:56061340 original size:17 final size:19
Alignment explanation
Indices: 56061294--56061331 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
56061284 AGATAGTGTG
56061294 TTAATA-TTTTAATATTTT
1 TTAATATTTTTAATATTTT
56061312 TTAATATTTTTTAATATTTT
1 TTAATA-TTTTTAATATTTT
56061332 ATATTTTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.33
20 12 0.67
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
TTAATATTTTTAATATTTT
Found at i:56066043 original size:55 final size:55
Alignment explanation
Indices: 56065927--56066051 Score: 130
Period size: 55 Copynumber: 2.3 Consensus size: 55
56065917 GCAATATGGT
* * *
56065927 CGTGGTCGAGCCTGGCAAAACAACACGGGTATGTGAAACCTCCGTGTGGAAGAAC
1 CGTGGTCAAGCCTGTCAAAACAACACGGGTATGTGAAACCTCCGTGTGGAACAAC
* * * * *
56065982 CATGGTCAAGCCTGTCAAAACAGCACGGGTGT-TCGACACGC-CCGTGTGGAACACC
1 CGTGGTCAAGCCTGTCAAAACAACACGGGTATGT-GAAAC-CTCCGTGTGGAACAAC
56066037 CGTGGTCGAA-CCTGT
1 CGTGGTC-AAGCCTGT
56066052 TAAATTAACA
Statistics
Matches: 58, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
54 1 0.02
55 54 0.93
56 3 0.05
ACGTcount: A:0.26, C:0.27, G:0.30, T:0.18
Consensus pattern (55 bp):
CGTGGTCAAGCCTGTCAAAACAACACGGGTATGTGAAACCTCCGTGTGGAACAAC
Found at i:56070103 original size:29 final size:27
Alignment explanation
Indices: 56070069--56070171 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
56070059 TACTCAATCA
*
56070069 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
56070098 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
56070127 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
56070156 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
56070172 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:56077913 original size:29 final size:27
Alignment explanation
Indices: 56077879--56077981 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
56077869 TACTCAATCA
*
56077879 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
56077908 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
56077937 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
56077966 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
56077982 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:56080807 original size:40 final size:40
Alignment explanation
Indices: 56080577--56080800 Score: 335
Period size: 40 Copynumber: 5.6 Consensus size: 40
56080567 TGGATGAAAA
* ** * *
56080577 CCGGGCTAAGTCCCGAAGGCATCTGCACTAGTGACT-AAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
*
56080616 CCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
*
56080656 CCGGGCTAAGTCCCGAAGGTATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
56080696 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* *
56080736 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTCTAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAAT
*
56080776 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
56080801 AACGAGTAGT
Statistics
Matches: 170, Mismatches: 13, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 30 0.18
40 138 0.81
41 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:56087473 original size:39 final size:39
Alignment explanation
Indices: 56087374--56087555 Score: 231
Period size: 39 Copynumber: 4.6 Consensus size: 39
56087364 AATGTTCGAG
56087374 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
56087413 TGATAT-CGGGCTAAGCCCGAAGGCAATTGGGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
56087451 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
56087490 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
56087530 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
56087556 GTTTGAACGA
Statistics
Matches: 124, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
38 37 0.30
39 49 0.40
40 38 0.31
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:56092283 original size:437 final size:437
Alignment explanation
Indices: 56091469--56093205 Score: 3393
Period size: 437 Copynumber: 4.0 Consensus size: 437
56091459 AAGCATCAAG
*
56091469 TGTAACACCCCGAACCCGAGACCATCGCCGGTGTCGAACGCGAGGGGTTAACGAGCTAAATCCTC
1 TGTAACACCCCGAACCCGAGACCATCGCCGGTGTCGGACGCGAGGGGTTAACGAGCTAAATCCTC
56091534 TTAAAGCACCGACCAATTTGGCATTTCCAGACAGGCTGGAAAACTGCGTCACTGTCGCCTTAAAA
66 TTAAAGCACCGACCAATTTGGCATTTCCAGACAGGCTGGAAAACTGCGTCACTGTCGCCTTAAAA
56091599 ATCATATCTCGAGTTTCAAAACTCGGAAACTGGTTCCGTAAATTTTCCCTGAATTTAGACTCATA
131 ATCATATCTCGAGTTTCAAAACTCGGAAACTGGTTCCGTAAATTTTCCCTGAATTTAGACTCATA
*
56091664 TATCCTTCCATGGATTTATTTCTAGAATTTTTGGTCAGGCCAATTGGTACAGTTTATTAGTTAAA
196 TATCCTTCCATGGATTTATTTCTAGAATTTTTGGTCGGGCCAATTGGTACAGTTTATTAGTTAAA
56091729 GTCACCCATATTACAGGGATCGACTGCTCTGACCTTCGCGCGTTACAAATTGAATATCTCTCTGT
261 GTCACCCATATTACAGGGATCGACTGCTCTGACCTTCGCGCGTTACAAATTGAATATCTCTCTGT
56091794 ACAGGGCTTTAATACTGGTGCCGTTTGTTTCTAATGAAACTAGACTCAAAATGGAATCTGCACAT
326 ACAGGGCTTTAATACTGGTGCCGTTTGTTTCTAATGAAACTAGACTCAAAATGGAATCTGCACAT
56091859 ATAAGGCATGACTTCTAATTCTTTCTGGATGATTTACTAAATAAATT
391 ATAAGGCATGACTTCTAATTCTTTCTGGATGATTTACTAAATAAATT
56091906 TGTAACACCCCGAACCCGAGACCATCGCCGGTGTCGGACGCGAGGGGTTAACGAGCTAAATCCTC
1 TGTAACACCCCGAACCCGAGACCATCGCCGGTGTCGGACGCGAGGGGTTAACGAGCTAAATCCTC
56091971 TTAAAGCACCGACCAATTTGGCATTTCCAGACAGGCTGGAAAACTGCGTCACTGTCGCCTTAAAA
66 TTAAAGCACCGACCAATTTGGCATTTCCAGACAGGCTGGAAAACTGCGTCACTGTCGCCTTAAAA
56092036 ATCATATCTCGAGTTTCAAAACTCGGAAACTGGTTCCGTAAATTTTCCCTGAATTTAGACTCATA
131 ATCATATCTCGAGTTTCAAAACTCGGAAACTGGTTCCGTAAATTTTCCCTGAATTTAGACTCATA
56092101 TATCCTTCCATGGATTTATTTCTAGAATTTTTGGTCGGGCCAATTGGTACAGTTTATTAGTTAAA
196 TATCCTTCCATGGATTTATTTCTAGAATTTTTGGTCGGGCCAATTGGTACAGTTTATTAGTTAAA
56092166 GTCACCCATATTACAGGGATCGACTGCTCTGACCTTCGCGCGTTACAAATTGAATATCTCTCTGT
261 GTCACCCATATTACAGGGATCGACTGCTCTGACCTTCGCGCGTTACAAATTGAATATCTCTCTGT
*
56092231 ACAGGGCTTTAATACTGGTGTCGTTTGTTTCTAATGAAACTAGACTCAAAATGGAATCTGCACAT
326 ACAGGGCTTTAATACTGGTGCCGTTTGTTTCTAATGAAACTAGACTCAAAATGGAATCTGCACAT
56092296 ATAAGGCATGACTTCTAATTCTTTCTGGATGATTTACTAAATAAATT
391 ATAAGGCATGACTTCTAATTCTTTCTGGATGATTTACTAAATAAATT
56092343 TGTAACACCCCGAACCCGAGACCATCGCCGGTGTCGGACGCGAGGGGTTAACGAGCTAAATCCTC
1 TGTAACACCCCGAACCCGAGACCATCGCCGGTGTCGGACGCGAGGGGTTAACGAGCTAAATCCTC
56092408 TTAAAGCACCGACCAATTTGGCATTTCCAGACAGGCTGGAAAACTGCGTCACTGTCGCCTTAAAA
66 TTAAAGCACCGACCAATTTGGCATTTCCAGACAGGCTGGAAAACTGCGTCACTGTCGCCTTAAAA
56092473 ATCATATCTCGAGTTTCAAAACTCGGAAACTGGTTCCGTAAATTTTCCCTGAATTTAGACTCATA
131 ATCATATCTCGAGTTTCAAAACTCGGAAACTGGTTCCGTAAATTTTCCCTGAATTTAGACTCATA
56092538 TATCCTTCCATGGATTTATTTCTAGAATTTTTGGTCGGGCCAATTGGTACAGTTTATTAGTTAAA
196 TATCCTTCCATGGATTTATTTCTAGAATTTTTGGTCGGGCCAATTGGTACAGTTTATTAGTTAAA
*
56092603 GTCACCCATATTATAGGGATCGACTGCTCTGACCTTCGCGCGTTACAAATTGAATATCTCTCTGT
261 GTCACCCATATTACAGGGATCGACTGCTCTGACCTTCGCGCGTTACAAATTGAATATCTCTCTGT
56092668 ACAGGGCTTTAATACTGGTGCCGTTTGTTTCTAATGAAACTAGACTCAAAATGGAATCTGCACAT
326 ACAGGGCTTTAATACTGGTGCCGTTTGTTTCTAATGAAACTAGACTCAAAATGGAATCTGCACAT
56092733 ATAAGGCATGACTTCTAATTCTTTCTGGATGATTTACTAAATAAATT
391 ATAAGGCATGACTTCTAATTCTTTCTGGATGATTTACTAAATAAATT
*
56092780 TTTAACACCCCGAACCCGAGACCATCGCCGGTGTCGGACGCGAGGGGTTAACGAGCTAAATCCTC
1 TGTAACACCCCGAACCCGAGACCATCGCCGGTGTCGGACGCGAGGGGTTAACGAGCTAAATCCTC
*
56092845 TTAAAGCACCGACCAGTTTGGCATTTCCAGACAGGCTGGAAAACTGCGTCACTGTCGCCTTAAAA
66 TTAAAGCACCGACCAATTTGGCATTTCCAGACAGGCTGGAAAACTGCGTCACTGTCGCCTTAAAA
56092910 ATCATATCTCGAGTTTCAAAACTCGGAAACTGGTTCCGTAAATTTTCCCTGAATTTAGACTCATA
131 ATCATATCTCGAGTTTCAAAACTCGGAAACTGGTTCCGTAAATTTTCCCTGAATTTAGACTCATA
56092975 TATCCTTCCATGGATTTATTTCTAGAATTTTTGGTCGGGCCAATTGGTACAGTTTATTAGTTAAA
196 TATCCTTCCATGGATTTATTTCTAGAATTTTTGGTCGGGCCAATTGGTACAGTTTATTAGTTAAA
*
56093040 GTCACCCATATTACAGGGATCGACTGCTCTGACCTTCGCGCGTTACAAATTGAATATCTCTCTTT
261 GTCACCCATATTACAGGGATCGACTGCTCTGACCTTCGCGCGTTACAAATTGAATATCTCTCTGT
* *
56093105 TCAGGGCTTTAATACTAGTGCCGTTTGTTTCTAATGAAACTAGACTCAAAATGGAATCTGCACAT
326 ACAGGGCTTTAATACTGGTGCCGTTTGTTTCTAATGAAACTAGACTCAAAATGGAATCTGCACAT
56093170 ATAAGGCATGACTTCTAATTCTTTCTGGATGATTTA
391 ATAAGGCATGACTTCTAATTCTTTCTGGATGATTTA
56093206 TTGTAAATTT
Statistics
Matches: 1289, Mismatches: 11, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
437 1289 1.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (437 bp):
TGTAACACCCCGAACCCGAGACCATCGCCGGTGTCGGACGCGAGGGGTTAACGAGCTAAATCCTC
TTAAAGCACCGACCAATTTGGCATTTCCAGACAGGCTGGAAAACTGCGTCACTGTCGCCTTAAAA
ATCATATCTCGAGTTTCAAAACTCGGAAACTGGTTCCGTAAATTTTCCCTGAATTTAGACTCATA
TATCCTTCCATGGATTTATTTCTAGAATTTTTGGTCGGGCCAATTGGTACAGTTTATTAGTTAAA
GTCACCCATATTACAGGGATCGACTGCTCTGACCTTCGCGCGTTACAAATTGAATATCTCTCTGT
ACAGGGCTTTAATACTGGTGCCGTTTGTTTCTAATGAAACTAGACTCAAAATGGAATCTGCACAT
ATAAGGCATGACTTCTAATTCTTTCTGGATGATTTACTAAATAAATT
Found at i:56094181 original size:40 final size:40
Alignment explanation
Indices: 56094137--56094342 Score: 227
Period size: 40 Copynumber: 5.2 Consensus size: 40
56094127 CGGAATACAA
*
56094137 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* * *
56094177 CCGGATATAACGACTTGCACAAATGCCTTCGGGTGTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* *
56094217 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* ** * *
56094257 CCGGATGTAGTCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTTGCACGAA-TGCCTTCGGGTCTTAGC
** ** * *
56094297 CCGGATATAATTA-TTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTT-GCACGAATGCCTTCGGGTCTTAGC
56094337 CCGGAT
1 CCGGAT
56094343 GTCATTCAAT
Statistics
Matches: 141, Mismatches: 22, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.02
40 136 0.96
41 2 0.01
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
Found at i:56097790 original size:29 final size:29
Alignment explanation
Indices: 56097756--56097887 Score: 149
Period size: 29 Copynumber: 4.6 Consensus size: 29
56097746 TACTCGATTT
** * *
56097756 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* *** * *
56097785 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
56097814 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
56097843 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
56097872 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
56097888 ATCTCGTCAC
Statistics
Matches: 87, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
28 2 0.02
29 85 0.98
ACGTcount: A:0.26, C:0.33, G:0.17, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:56105228 original size:40 final size:39
Alignment explanation
Indices: 56105183--56105390 Score: 227
Period size: 40 Copynumber: 5.2 Consensus size: 39
56105173 CGGAATACAA
*
56105183 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *
56105223 CCGGATATAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
56105263 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
56105303 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
56105343 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
56105383 CCGGATAT
1 CCGGATAT
56105391 CATTCAATTG
Statistics
Matches: 144, Mismatches: 23, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
39 1 0.01
40 143 0.99
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:56105323 original size:80 final size:80
Alignment explanation
Indices: 56105183--56105390 Score: 256
Period size: 80 Copynumber: 2.6 Consensus size: 80
56105173 CGGAATACAA
* * *
56105183 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTTGCACAAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
*
56105248 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
* * * *
56105263 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGTC-ACTAGCACAATT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATA-ACGACTAGCACAAAT
*
56105327 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
56105343 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAT
56105391 CATTCAATTG
Statistics
Matches: 109, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
80 108 0.99
81 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:56107445 original size:40 final size:40
Alignment explanation
Indices: 56107400--56107605 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 40
56107390 CGGAATACAA
*
56107400 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* * * *
56107440 CCGGATATAACGAGTTGCACAAATGCCTTCGGGTGTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* *
56107480 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* ** * *
56107520 CCGGATGTAGTCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTTGCACGAA-TGCCTTCGGGTCTTAGC
** ** * *
56107560 CCGGATATAATTA-TTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTT-GCACGAATGCCTTCGGGTCTTAGC
56107600 CCGGAT
1 CCGGAT
56107606 GTCATTCAAT
Statistics
Matches: 139, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 3 0.02
40 134 0.96
41 2 0.01
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
Found at i:56107540 original size:80 final size:80
Alignment explanation
Indices: 56107400--56107607 Score: 240
Period size: 80 Copynumber: 2.6 Consensus size: 80
56107390 CGGAATACAA
* * * * *
56107400 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGAGTTGCACAAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAACGACTAGCACAAATG
* *
56107465 CCTTCGGGTGTTAGC
66 CCTTCGGGTCTTAAC
* * *
56107480 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGTC-ACTAGCACAATT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTA-ACGACTAGCACAAAT
56107544 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTCTTAAC
** ** * *
56107560 CCGGATATAATTA-TTAGCATAAATGTCTTCGGGACTTAGCCCGGATGT
1 CCGGATATAACAACTT-GCACGAATGCCTTCGGGTCTTAGCCCGGATGT
56107608 CATTCAATTG
Statistics
Matches: 109, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
79 2 0.02
80 106 0.97
81 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.27
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAACGACTAGCACAAATG
CCTTCGGGTCTTAAC
Found at i:56109740 original size:20 final size:21
Alignment explanation
Indices: 56109715--56109754 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
56109705 TCTTAAAAAC
56109715 AGGGC-ACACGCCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
56109735 AGGGCAACACGCCCGTGTGG
1 AGGGCAACACGCCCGTGTGG
56109755 CCATTAGAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.20, C:0.30, G:0.40, T:0.10
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:56113182 original size:51 final size:51
Alignment explanation
Indices: 56113106--56113207 Score: 168
Period size: 51 Copynumber: 2.0 Consensus size: 51
56113096 TTTTCAGAGT
* *
56113106 TCTTTAGAGGACTCAGGTTTTTTCTGAATGGGTTCCAATGGATGTTTTGGG
1 TCTTTAAAGGACTCAGGTTGTTTCTGAATGGGTTCCAATGGATGTTTTGGG
**
56113157 TCTTTAAAGGACTTGGGTTGTTTCTGAATGGGTTCCAATGGATGTTTTGGG
1 TCTTTAAAGGACTCAGGTTGTTTCTGAATGGGTTCCAATGGATGTTTTGGG
56113208 CTTAGTAGGC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.18, C:0.11, G:0.30, T:0.41
Consensus pattern (51 bp):
TCTTTAAAGGACTCAGGTTGTTTCTGAATGGGTTCCAATGGATGTTTTGGG
Found at i:56119022 original size:14 final size:14
Alignment explanation
Indices: 56119003--56119033 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
56118993 AAGAGAGAAT
56119003 GATGATGGATGAGG
1 GATGATGGATGAGG
*
56119017 GATGATTGATGAGG
1 GATGATGGATGAGG
56119031 GAT
1 GAT
56119034 CAAATGAGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.29, C:0.00, G:0.45, T:0.26
Consensus pattern (14 bp):
GATGATGGATGAGG
Found at i:56120360 original size:3 final size:3
Alignment explanation
Indices: 56120352--56120378 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
56120342 TTCCTTTATC
56120352 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
56120379 GCATGAGCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:56124549 original size:27 final size:27
Alignment explanation
Indices: 56124510--56124568 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
56124500 ATAAGTATAA
* * *
56124510 AATTAATCGAATTAATCGAATTAACCG
1 AATTAATCAAATTAACCAAATTAACCG
* *
56124537 AATTACTCAAATTACCCAAATTAACCG
1 AATTAATCAAATTAACCAAATTAACCG
56124564 AATTA
1 AATTA
56124569 TTTGTATAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.46, C:0.19, G:0.07, T:0.29
Consensus pattern (27 bp):
AATTAATCAAATTAACCAAATTAACCG
Done.