Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr6
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: 56482370
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1659275 characters in sequence are not A, C, G, or T
File 32 of 172
Found at i:9924777 original size:20 final size:20
Alignment explanation
Indices: 9924752--9924797 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
9924742 CTGTTATATT
9924752 TATATTTTTATTATATGTTA
1 TATATTTTTATTATATGTTA
*
9924772 TATATTTTTATTATATTTTA
1 TATATTTTTATTATATGTTA
*
9924792 TTTATT
1 TATATT
9924798 CTACTATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (20 bp):
TATATTTTTATTATATGTTA
Found at i:9924793 original size:30 final size:31
Alignment explanation
Indices: 9924751--9924812 Score: 85
Period size: 30 Copynumber: 2.0 Consensus size: 31
9924741 TCTGTTATAT
9924751 TTATATTTTTATTATATGT-TA-TATATTTTTA
1 TTATATTTTTATT-TAT-TCTACTATATTTTTA
9924782 TTATA-TTTTATTTATTCTACTATATTTTTA
1 TTATATTTTTATTTATTCTACTATATTTTTA
9924812 T
1 T
9924813 ATGTAAAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
28 1 0.03
29 5 0.17
30 18 0.62
31 5 0.17
ACGTcount: A:0.27, C:0.03, G:0.02, T:0.68
Consensus pattern (31 bp):
TTATATTTTTATTTATTCTACTATATTTTTA
Found at i:9926316 original size:51 final size:51
Alignment explanation
Indices: 9926128--9926474 Score: 432
Period size: 51 Copynumber: 6.9 Consensus size: 51
9926118 TAGCCGAAGC
* * * * * *
9926128 TATCTGGTACGCATAGTAGCCTGAACTTAGAACTACACATGCGA-CCAA-T
1 TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGT
* * * * * *
9926177 TATCCA-GTACACATAATAGCCTGCACTTAGTACTACACATGTGACCTAA-C
1 TAT-CAGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGT
* * * * *
9926227 CATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGT
1 TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGT
* * * *
9926278 TATCAGGTATGCATAGTAGCCTGCACTTAGTACAACACATGTGATCGAAGT
1 TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGT
9926329 TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGT
1 TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGT
* * * *
9926380 TATCAGGTATGCATAGTAGCCTGCACTTAGTACAACACATGTGATCGAAGT
1 TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGT
9926431 TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGA
1 TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGA
9926475 CCTCACAATA
Statistics
Matches: 257, Mismatches: 37, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
49 37 0.14
50 43 0.17
51 177 0.69
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.26
Consensus pattern (51 bp):
TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGT
Found at i:9926373 original size:102 final size:102
Alignment explanation
Indices: 9926122--9926474 Score: 498
Period size: 102 Copynumber: 3.5 Consensus size: 102
9926112 CACTTGTAGC
* * * * * *
9926122 CGAAGCTATCTGGTACGCATAGTAGCCTGAACTTAGAACTACACATGCGA-CCAA-TTATCCA-G
1 CGAAGCTATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGTTAT-CAGG
** * * *
9926184 TACACATAATAGCCTGCACTTAGTACTACACATGTGAC
65 TATGCATAGTAGCCTGCACTTAGTACAACACATGTGAT
* * * * * *
9926222 CTAA-CCATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGTTATCAGGT
1 CGAAGCTATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGTTATCAGGT
9926286 ATGCATAGTAGCCTGCACTTAGTACAACACATGTGAT
66 ATGCATAGTAGCCTGCACTTAGTACAACACATGTGAT
*
9926323 CGAAGTTATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGTTATCAGGT
1 CGAAGCTATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGTTATCAGGT
9926388 ATGCATAGTAGCCTGCACTTAGTACAACACATGTGAT
66 ATGCATAGTAGCCTGCACTTAGTACAACACATGTGAT
*
9926425 CGAAGTTATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGA
1 CGAAGCTATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGA
9926475 CCTCACAATA
Statistics
Matches: 227, Mismatches: 22, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
99 37 0.16
100 8 0.04
101 41 0.18
102 141 0.62
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (102 bp):
CGAAGCTATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGTTATCAGGT
ATGCATAGTAGCCTGCACTTAGTACAACACATGTGAT
Found at i:9928710 original size:213 final size:214
Alignment explanation
Indices: 9928343--9928767 Score: 789
Period size: 213 Copynumber: 2.0 Consensus size: 214
9928333 TAGCTTCGAA
*
9928343 TGTCTTAAAAATATTGCTTCCTAACTTATTGGATGTAATATTTTGATTCATTTGATACAAGTGAA
1 TGTCTTAAAAATATTGCTTCCTAACTTATTGGATATAATATTTTGATTCATTTGATACAAGTGAA
* *
9928408 CCCTAATTTTCAAAATTAAAATATTCTTAAGAGGTTTGCATCTTAAAACTTTCAAATTTTCGACA
66 CCCTAATTTTCAAAATTAAAATATTCTAAAGAGGTTTGCATCTTAAAACTTTCAAATTTCCGACA
9928473 TTAAAGACACTTGATAATCAATTAGGTACCAATTTTTGGGCGTTACAAGGG-TGCTAACCCTTCC
131 TTAAAGACACTTGATAATCAATTAGGTACCAATTTTTGGGCGTTACAAGGGTTGCTAACCCTTCC
9928537 TCGTACGTAACCGACTCTT
196 TCGTACGTAACCGACTCTT
9928556 TGTCTTAAAAATATTGCTTCCTAACTTATTGGATATAATATTTTGATTCATTTGATACAAGTGAA
1 TGTCTTAAAAATATTGCTTCCTAACTTATTGGATATAATATTTTGATTCATTTGATACAAGTGAA
*
9928621 CCCTAATTTTCAAAATTAAAATATTCTAAAGAGGTTTGCATCTTAAAATTTTCAAATTTCCGACA
66 CCCTAATTTTCAAAATTAAAATATTCTAAAGAGGTTTGCATCTTAAAACTTTCAAATTTCCGACA
* *
9928686 TTAAAGACATTTGATAATCAATTAGGTACCAATTTTTGGGCGTTACGAGGGTTGCTAACCCTTCC
131 TTAAAGACACTTGATAATCAATTAGGTACCAATTTTTGGGCGTTACAAGGGTTGCTAACCCTTCC
9928751 TCGTACGTAACCGACTC
196 TCGTACGTAACCGACTC
9928768 CCGAATCCAT
Statistics
Matches: 205, Mismatches: 6, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
213 175 0.85
214 30 0.15
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (214 bp):
TGTCTTAAAAATATTGCTTCCTAACTTATTGGATATAATATTTTGATTCATTTGATACAAGTGAA
CCCTAATTTTCAAAATTAAAATATTCTAAAGAGGTTTGCATCTTAAAACTTTCAAATTTCCGACA
TTAAAGACACTTGATAATCAATTAGGTACCAATTTTTGGGCGTTACAAGGGTTGCTAACCCTTCC
TCGTACGTAACCGACTCTT
Found at i:9940458 original size:78 final size:78
Alignment explanation
Indices: 9940311--9941016 Score: 1092
Period size: 78 Copynumber: 9.1 Consensus size: 78
9940301 GTAACAGGTT
* * * *
9940311 AAGACATAGCAGATCTGACCTTCATTAAAGCAGATCCAAAATGATTTGGCGTCTCTGTATTAGAT
1 AAGACATAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGAC
9940376 GGGGAGCAGATCG
66 GGGGAGCAGATCG
* * * * * *
9940389 AAGAAACAGCAGATCTGACCTTTATTGAAGCAGATCCAAGATAATTTGGCATCT-TCATATTCGA
1 AAGACATAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCT-GTATTAGA
9940453 CGGGGAGCAGATCG
65 CGGGGAGCAGATCG
*
9940467 AAGACATAGCAGATCTGACCTTCATTGAAGTAGATCCAAGATGATTTGGCATCTCTGTATTAGAC
1 AAGACATAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGAC
*
9940532 GGGGAGCAGGTCG
66 GGGGAGCAGATCG
*
9940545 AAGACATAGCAGATCTGACCTTCATTGAAGTAGATCCAAGATGATTTGGCATCTCTGTATTAGAC
1 AAGACATAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGAC
*
9940610 GGGGAGCAGGTCG
66 GGGGAGCAGATCG
*
9940623 AAGACATAGCAGATCTGACCTTCATTGAAGTAGATCCAAGATGATTTGGCATCTCTGTATTAGAC
1 AAGACATAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGAC
*
9940688 GGGGAGCAGGTCG
66 GGGGAGCAGATCG
** *
9940701 AAGACATAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCAATATTCGAC
1 AAGACATAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGAC
*
9940766 GGAGAGCAGATCG
66 GGGGAGCAGATCG
*
9940779 AAGACATAGCAGATCTGACCTTCATTGAAGTAGATCCAAGATGATTTGGCATCTCTGTATTAGAC
1 AAGACATAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGAC
*
9940844 AGGGAGCAGATCG
66 GGGGAGCAGATCG
* * ** *
9940857 AAGACACAGCAGATCCGACCTTTTTTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGAT
1 AAGACATAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGAC
*
9940922 GGGGAGCAGATCA
66 GGGGAGCAGATCG
* * *
9940935 AAGACATAACAGAT-TAGACCTTCATTAAAGCAGATCCAAGATGATTTGGCATTTCTGTATTAGA
1 AAGACATAGCAGATCT-GACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGA
*
9940999 CGGGGAGCAGATCA
65 CGGGGAGCAGATCG
9941013 AAGA
1 AAGA
9941017 TAGTAGATAT
Statistics
Matches: 579, Mismatches: 46, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
77 1 0.00
78 577 1.00
79 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (78 bp):
AAGACATAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGAC
GGGGAGCAGATCG
Found at i:9948197 original size:21 final size:20
Alignment explanation
Indices: 9948161--9948199 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
9948151 TGTCGATGAC
9948161 CAAAAGTTCATGCAAACAGA
1 CAAAAGTTCATGCAAACAGA
9948181 CAAAATGTTC-TGACAAACA
1 CAAAA-GTTCATG-CAAACA
9948200 AACGTATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.49, C:0.21, G:0.13, T:0.18
Consensus pattern (20 bp):
CAAAAGTTCATGCAAACAGA
Found at i:9962148 original size:25 final size:26
Alignment explanation
Indices: 9962118--9962174 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 26
9962108 TTAACTACAG
*
9962118 TTTTCAGTA-TATACTAACTAGAGTA
1 TTTTCAGCAGTATACTAACTAGAGTA
* *
9962143 TTTTCA-CAGTATACTACCTATAGTA
1 TTTTCAGCAGTATACTAACTAGAGTA
*
9962168 GTTTCAG
1 TTTTCAG
9962175 AATAGCATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 1 0.04
25 25 0.96
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (26 bp):
TTTTCAGCAGTATACTAACTAGAGTA
Found at i:9963549 original size:17 final size:17
Alignment explanation
Indices: 9963529--9963563 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
9963519 TTGGCCTTGG
9963529 CCGTCACATGGCCATGT
1 CCGTCACATGGCCATGT
9963546 CCGTCACATGGCCATGT
1 CCGTCACATGGCCATGT
9963563 C
1 C
9963564 TTGCGCGCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.17, C:0.37, G:0.23, T:0.23
Consensus pattern (17 bp):
CCGTCACATGGCCATGT
Found at i:9965594 original size:41 final size:40
Alignment explanation
Indices: 9965535--9965619 Score: 107
Period size: 41 Copynumber: 2.1 Consensus size: 40
9965525 CATTTCCAGC
*
9965535 TGGAAGCTCTTTTACCACATTAACTGAAAAAGCTTCCACT
1 TGGAAGCTCTTTTACCACATCAACTGAAAAAGCTTCCACT
* ** * *
9965575 TGGAAGCTCTTTCTGCCACATCAGTTGAAAAAGCTTTCAGT
1 TGGAAGCTCTTT-TACCACATCAACTGAAAAAGCTTCCACT
9965616 TGGA
1 TGGA
9965620 GGCATTTTCT
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
40 12 0.32
41 26 0.68
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (40 bp):
TGGAAGCTCTTTTACCACATCAACTGAAAAAGCTTCCACT
Found at i:9967741 original size:30 final size:30
Alignment explanation
Indices: 9967686--9967743 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
9967676 AGAAGAGCAT
* *
9967686 CAAGGCATTGGAAGCACGCAGAAGAAGAAA
1 CAAGGCATTGGAAGCACACAAAAGAAGAAA
* *
9967716 CAAGGCATTGGGAGCGCACAAAAGAAGA
1 CAAGGCATTGGAAGCACACAAAAGAAGA
9967744 GGCACTGCGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.45, C:0.17, G:0.31, T:0.07
Consensus pattern (30 bp):
CAAGGCATTGGAAGCACACAAAAGAAGAAA
Found at i:9969859 original size:44 final size:44
Alignment explanation
Indices: 9969764--9969863 Score: 112
Period size: 44 Copynumber: 2.2 Consensus size: 44
9969754 AGAAATGAGC
* * *
9969764 CATGTAAGTCCATATTAGAAATATGGCTTTGGAGAAAGGATTTAG
1 CATGTAAGTCCATATTA-AAATATGGCATTGGAGAAAGGAATAAG
* * *
9969809 CTATGTAAGTCCATATT-ATATATGGCATTGGAGACAGGAATAATT
1 C-ATGTAAGTCCATATTAAAATATGGCATTGGAGAAAGGAATAA-G
9969854 CATGTAAGTC
1 CATGTAAGTC
9969864 TATGTCAAAG
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
44 30 0.64
45 2 0.04
46 15 0.32
ACGTcount: A:0.35, C:0.11, G:0.22, T:0.32
Consensus pattern (44 bp):
CATGTAAGTCCATATTAAAATATGGCATTGGAGAAAGGAATAAG
Found at i:9979882 original size:11 final size:11
Alignment explanation
Indices: 9979866--9979890 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
9979856 ATATCTAGAA
9979866 TTCTCTTCATT
1 TTCTCTTCATT
9979877 TTCTCTTCATT
1 TTCTCTTCATT
9979888 TTC
1 TTC
9979891 ATCAGTTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.28, G:0.00, T:0.64
Consensus pattern (11 bp):
TTCTCTTCATT
Found at i:9985505 original size:22 final size:22
Alignment explanation
Indices: 9985458--9985505 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
9985448 TAAGGTAATA
* *
9985458 AAAATAGTGAGAAAACAATAAG
1 AAAATAGTGAGAAAACAACAAC
9985480 AAAATAGT-AGCAAAACAACAAC
1 AAAATAGTGAG-AAAACAACAAC
9985502 AAAA
1 AAAA
9985506 AAGCAAAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 2 0.09
22 21 0.91
ACGTcount: A:0.67, C:0.10, G:0.12, T:0.10
Consensus pattern (22 bp):
AAAATAGTGAGAAAACAACAAC
Found at i:9988342 original size:16 final size:16
Alignment explanation
Indices: 9988321--9988360 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
9988311 GTAGATTATC
9988321 GGAAGCTTGATCGATT
1 GGAAGCTTGATCGATT
9988337 GGAAGCTTGATCGATT
1 GGAAGCTTGATCGATT
9988353 GGAAGCTT
1 GGAAGCTT
9988361 TTTGGAGATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.25, C:0.12, G:0.33, T:0.30
Consensus pattern (16 bp):
GGAAGCTTGATCGATT
Found at i:9990534 original size:16 final size:16
Alignment explanation
Indices: 9990496--9990537 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
9990486 AGTGTATTAT
9990496 TATT-ATTATTAATTTA
1 TATTAATTA-TAATTTA
*
9990512 T-TAAATTATAATTTA
1 TATTAATTATAATTTA
9990527 TATTAATTATA
1 TATTAATTATA
9990538 TTATGAGATT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TATTAATTATAATTTA
Found at i:9993782 original size:78 final size:78
Alignment explanation
Indices: 9993648--9993814 Score: 253
Period size: 78 Copynumber: 2.1 Consensus size: 78
9993638 ATTATATCCT
* *
9993648 TGATTGCACTTACATGCCCTTATTTTACTTCGGTACCCTTGATCGCACTTACATGCCCCTGTTGT
1 TGATAGCACTTACATGCCCTTATTGTACTTCGGTACCCTTGATCGCACTTACATGCCCCTGTTGT
*
9993713 ACTTCGGTACCCC
66 ACTTCAGTACCCC
* * * *
9993726 TGATCGCACTTACATGCCGTTGTTGTATTTCGGTACCCTTGATCGCACTTACATGCCCCTGTTGT
1 TGATAGCACTTACATGCCCTTATTGTACTTCGGTACCCTTGATCGCACTTACATGCCCCTGTTGT
**
9993791 ACTTCAGTATTCC
66 ACTTCAGTACCCC
9993804 TGATAGCACTT
1 TGATAGCACTT
9993815 TTAAGTCGTG
Statistics
Matches: 80, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
78 80 1.00
ACGTcount: A:0.17, C:0.29, G:0.17, T:0.37
Consensus pattern (78 bp):
TGATAGCACTTACATGCCCTTATTGTACTTCGGTACCCTTGATCGCACTTACATGCCCCTGTTGT
ACTTCAGTACCCC
Found at i:9993814 original size:39 final size:39
Alignment explanation
Indices: 9993645--9993795 Score: 230
Period size: 39 Copynumber: 3.9 Consensus size: 39
9993635 ATAATTATAT
* * * *
9993645 CCTTGATTGCACTTACATGCCCTTATTTTACTTCGGTAC
1 CCTTGATCGCACTTACATGCCCCTGTTGTACTTCGGTAC
9993684 CCTTGATCGCACTTACATGCCCCTGTTGTACTTCGGTAC
1 CCTTGATCGCACTTACATGCCCCTGTTGTACTTCGGTAC
* ** *
9993723 CCCTGATCGCACTTACATGCCGTTGTTGTATTTCGGTAC
1 CCTTGATCGCACTTACATGCCCCTGTTGTACTTCGGTAC
9993762 CCTTGATCGCACTTACATGCCCCTGTTGTACTTC
1 CCTTGATCGCACTTACATGCCCCTGTTGTACTTC
9993796 AGTATTCCTG
Statistics
Matches: 100, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 100 1.00
ACGTcount: A:0.16, C:0.31, G:0.17, T:0.36
Consensus pattern (39 bp):
CCTTGATCGCACTTACATGCCCCTGTTGTACTTCGGTAC
Found at i:9993834 original size:78 final size:78
Alignment explanation
Indices: 9993676--9993834 Score: 219
Period size: 78 Copynumber: 2.0 Consensus size: 78
9993666 CTTATTTTAC
* * *
9993676 TTCGGTACCCTTGATCGCACTTACATGCCCCTGTTGTACTTCGGTACCCCTGATCGCACTTACAT
1 TTCGGTACCCTTGATCGCACTTACATGCCCCTGTTGTACTTCAGTACCCCTGATAGCACTTACAA
* **
9993741 GCCGTTGTTGTAT
66 GCCGTGGTTACAT
** **
9993754 TTCGGTACCCTTGATCGCACTTACATGCCCCTGTTGTACTTCAGTATTCCTGATAGCACTTTTAA
1 TTCGGTACCCTTGATCGCACTTACATGCCCCTGTTGTACTTCAGTACCCCTGATAGCACTTACAA
*
9993819 GTCGTGGTTACAT
66 GCCGTGGTTACAT
9993832 TTC
1 TTC
9993835 AGTAGCATTA
Statistics
Matches: 70, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
78 70 1.00
ACGTcount: A:0.17, C:0.28, G:0.18, T:0.36
Consensus pattern (78 bp):
TTCGGTACCCTTGATCGCACTTACATGCCCCTGTTGTACTTCAGTACCCCTGATAGCACTTACAA
GCCGTGGTTACAT
Found at i:10001191 original size:39 final size:39
Alignment explanation
Indices: 10001168--10001300 Score: 178
Period size: 39 Copynumber: 3.4 Consensus size: 39
10001158 TATATGCCTT
*
10001168 TATTGTACTTCGGTACCCTTGATCGCATTTACGTGCCCC
1 TATTGTACTTCGGTACCCTTGATCGCACTTACGTGCCCC
* *
10001207 TGTTGTAC-TCTGGTACCCCTGATCGCACTTACGTGCCCC
1 TATTGTACTTC-GGTACCCTTGATCGCACTTACGTGCCCC
* * * * *
10001246 TGTTTTACTTCGGTATCCTTGATTGCACTTACGTGCCCT
1 TATTGTACTTCGGTACCCTTGATCGCACTTACGTGCCCC
10001285 TATTGTACTTCGGTAC
1 TATTGTACTTCGGTAC
10001301 TTCTGATAGC
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
38 2 0.02
39 77 0.95
40 2 0.02
ACGTcount: A:0.14, C:0.29, G:0.19, T:0.38
Consensus pattern (39 bp):
TATTGTACTTCGGTACCCTTGATCGCACTTACGTGCCCC
Found at i:10001247 original size:20 final size:20
Alignment explanation
Indices: 10001187--10001247 Score: 54
Period size: 20 Copynumber: 3.1 Consensus size: 20
10001177 TCGGTACCCT
*
10001187 TGATCGCATTTACGTGCCCC
1 TGATCGCACTTACGTGCCCC
* * * *
10001207 TG-TTGTACTCT-GGTACCCC
1 TGATCGCACT-TACGTGCCCC
10001226 TGATCGCACTTACGTGCCCC
1 TGATCGCACTTACGTGCCCC
10001246 TG
1 TG
10001248 TTTTACTTCG
Statistics
Matches: 29, Mismatches: 9, Indels: 6
0.66 0.20 0.14
Matches are distributed among these distances:
19 13 0.45
20 16 0.55
ACGTcount: A:0.13, C:0.34, G:0.21, T:0.31
Consensus pattern (20 bp):
TGATCGCACTTACGTGCCCC
Found at i:10007918 original size:36 final size:36
Alignment explanation
Indices: 10007878--10007949 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
10007868 GGTGCCCCAA
*
10007878 ACCCAATCGAGACAGCCCGATCTGAGTTTCAAACGT
1 ACCCAATCGAGACAGCCCGATCTAAGTTTCAAACGT
* *
10007914 ACCCAGTCGGGACAGCCCGATCTAAGTTTCAAACGT
1 ACCCAATCGAGACAGCCCGATCTAAGTTTCAAACGT
10007950 CTCATTAGCC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.29, C:0.31, G:0.21, T:0.19
Consensus pattern (36 bp):
ACCCAATCGAGACAGCCCGATCTAAGTTTCAAACGT
Found at i:10009807 original size:17 final size:17
Alignment explanation
Indices: 10009760--10009937 Score: 124
Period size: 17 Copynumber: 10.4 Consensus size: 17
10009750 ATATGATAAT
*
10009760 AGGGTTCGCATATATAG
1 AGGGTTCGCACATATAG
**
10009777 TAGGGGTTTACACATATAG
1 -A-GGGTTCGCACATATAG
* *
10009796 AGGGTTCGCACAAATGG
1 AGGGTTCGCACATATAG
* * *
10009813 AAGGTTTGCACATACAG
1 AGGGTTCGCACATATAG
* *
10009830 AGGGTTTGCATATATA-
1 AGGGTTCGCACATATAG
* * *
10009846 ACGAGTTCACACATATGG
1 A-GGGTTCGCACATATAG
* * *
10009864 AGGGTTCACACAAATGG
1 AGGGTTCGCACATATAG
* *
10009881 TGGGTTCGCACATATGG
1 AGGGTTCGCACATATAG
*
10009898 AGGGTTCACACATATAG
1 AGGGTTCGCACATATAG
* * *
10009915 AGGGTTTGCACAAATAA
1 AGGGTTCGCACATATAG
10009932 AGGGTT
1 AGGGTT
10009938 TGTACAAATG
Statistics
Matches: 125, Mismatches: 32, Indels: 7
0.76 0.20 0.04
Matches are distributed among these distances:
16 1 0.01
17 108 0.86
18 3 0.02
19 13 0.10
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.26
Consensus pattern (17 bp):
AGGGTTCGCACATATAG
Found at i:10009913 original size:68 final size:68
Alignment explanation
Indices: 10009786--10009913 Score: 166
Period size: 68 Copynumber: 1.9 Consensus size: 68
10009776 GTAGGGGTTT
* * ** *
10009786 ACACATATAGAGGGTTCGCACAAATGGAAGGTTTGCACATACAGAGGGTTTGCATATATAACGAG
1 ACACATATAGAGGGTTCACACAAATGGAAGGTTCGCACATACAGAGGGTTCACACATATAACGAG
10009851 TTC
66 TTC
* ** **
10009854 ACACATATGGAGGGTTCACACAAATGGTGGGTTCGCACATATGGAGGGTTCACACATATA
1 ACACATATAGAGGGTTCACACAAATGGAAGGTTCGCACATACAGAGGGTTCACACATATA
10009914 GAGGGTTTGC
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
68 50 1.00
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24
Consensus pattern (68 bp):
ACACATATAGAGGGTTCACACAAATGGAAGGTTCGCACATACAGAGGGTTCACACATATAACGAG
TTC
Found at i:10009937 original size:51 final size:51
Alignment explanation
Indices: 10009780--10009964 Score: 160
Period size: 51 Copynumber: 3.6 Consensus size: 51
10009770 TATATAGTAG
* * * * * *
10009780 GGGTTTACACATATAGA-GGGTTCGCACAAATGGAAGGTTTGCACATACAGA
1 GGGTTTGCACATAT-GACGGGTTCACACATATGGAGGGTTTGCACAAATAGA
* * * ** * *
10009831 GGGTTTGCATATATAACGAGTTCACACATATGGAGGGTTCACACAAATGGT
1 GGGTTTGCACATATGACGGGTTCACACATATGGAGGGTTTGCACAAATAGA
* * *
10009882 GGGTTCGCACATATGGA-GGGTTCACACATATAGAGGGTTTGCACAAATAAA
1 GGGTTTGCACATAT-GACGGGTTCACACATATGGAGGGTTTGCACAAATAGA
* * *
10009933 GGGTTTGTACAAATGATGGGTTCACACA-ATGG
1 GGGTTTGCACATATGACGGGTTCACACATATGG
10009965 CTTGGCTCGC
Statistics
Matches: 104, Mismatches: 27, Indels: 7
0.75 0.20 0.05
Matches are distributed among these distances:
50 6 0.06
51 97 0.93
52 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.28, T:0.25
Consensus pattern (51 bp):
GGGTTTGCACATATGACGGGTTCACACATATGGAGGGTTTGCACAAATAGA
Found at i:10009961 original size:17 final size:17
Alignment explanation
Indices: 10009850--10009961 Score: 91
Period size: 17 Copynumber: 6.6 Consensus size: 17
10009840 TATATAACGA
*
10009850 GTTCACACATATGGAGG
1 GTTCACACAAATGGAGG
*
10009867 GTTCACACAAATGGTGG
1 GTTCACACAAATGGAGG
* *
10009884 GTTCGCACATATGGAGG
1 GTTCACACAAATGGAGG
* *
10009901 GTTCACACATATAGAGG
1 GTTCACACAAATGGAGG
** **
10009918 GTTTGCACAAATAAAGG
1 GTTCACACAAATGGAGG
***
10009935 GTTTGTACAAAT-GATGG
1 GTTCACACAAATGGA-GG
10009952 GTTCACACAA
1 GTTCACACAA
10009962 TGGCTTGGCT
Statistics
Matches: 78, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
16 1 0.01
17 77 0.99
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.25
Consensus pattern (17 bp):
GTTCACACAAATGGAGG
Found at i:10009992 original size:17 final size:17
Alignment explanation
Indices: 10009967--10010000 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
10009957 CACAATGGCT
*
10009967 TGGCTCGCATAAAGGTA
1 TGGCCCGCATAAAGGTA
*
10009984 TGGCCCGCATAATGGTA
1 TGGCCCGCATAAAGGTA
10010001 AGGTTCGCAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (17 bp):
TGGCCCGCATAAAGGTA
Found at i:10010009 original size:17 final size:17
Alignment explanation
Indices: 10009989--10010084 Score: 52
Period size: 17 Copynumber: 5.6 Consensus size: 17
10009979 AGGTATGGCC
10009989 CGCATAATGGTAAGGTT
1 CGCATAATGGTAAGGTT
* * *
10010006 CGCACT-ATTGTATGGCT
1 CGCA-TAATGGTAAGGTT
* * *
10010023 CACACAATGGT-ATGTCT
1 CGCATAATGGTAAGGT-T
* * **
10010040 CGCATAAAGGTATGGCA
1 CGCATAATGGTAAGGTT
* *
10010057 CTCACAATGGTAAGGTT
1 CGCATAATGGTAAGGTT
10010074 CGCATAATGGT
1 CGCATAATGGT
10010085 TTGGTTTGCA
Statistics
Matches: 51, Mismatches: 24, Indels: 8
0.61 0.29 0.10
Matches are distributed among these distances:
16 1 0.02
17 48 0.94
18 2 0.04
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (17 bp):
CGCATAATGGTAAGGTT
Found at i:10010009 original size:34 final size:34
Alignment explanation
Indices: 10009971--10010080 Score: 116
Period size: 34 Copynumber: 3.2 Consensus size: 34
10009961 ATGGCTTGGC
* * *
10009971 TCGCATAAAGGTATGGCCCGCATAATGGTAAGGT
1 TCGCATAAAGGTATGGCACACACAATGGTAAGGT
** * *
10010005 TCGCACT-ATTGTATGGCTCACACAATGGT-ATGT
1 TCGCA-TAAAGGTATGGCACACACAATGGTAAGGT
*
10010038 CTCGCATAAAGGTATGGCACTCACAATGGTAAGGT
1 -TCGCATAAAGGTATGGCACACACAATGGTAAGGT
10010073 TCGCATAA
1 TCGCATAA
10010081 TGGTTTGGTT
Statistics
Matches: 61, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
33 4 0.07
34 53 0.87
35 4 0.07
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (34 bp):
TCGCATAAAGGTATGGCACACACAATGGTAAGGT
Found at i:10010110 original size:68 final size:68
Alignment explanation
Indices: 10009968--10010111 Score: 164
Period size: 68 Copynumber: 2.1 Consensus size: 68
10009958 ACAATGGCTT
* * * *
10009968 GGCTCGCATAAAGGTATGGCCCGCATAATGGTAAGGTTCGCACTATTGTATGGCTCACACAATGG
1 GGCTCGCATAAAGGTATGGCACGCACAATGGTAAGGTTCGCACTATGGTATGGCTCACACAAAGG
*
10010033 TAT
66 TAA
* * * * **
10010036 GTCTCGCATAAAGGTATGGCACTCACAATGGTAAGGTTCGCA-TAATGGTTTGGTTTGCACAAAG
1 GGCTCGCATAAAGGTATGGCACGCACAATGGTAAGGTTCGCACT-ATGGTATGGCTCACACAAAG
*
10010100 TTAA
65 GTAA
10010104 GGCTCGCA
1 GGCTCGCA
10010112 CTATCACATA
Statistics
Matches: 62, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
67 1 0.02
68 61 0.98
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.27
Consensus pattern (68 bp):
GGCTCGCATAAAGGTATGGCACGCACAATGGTAAGGTTCGCACTATGGTATGGCTCACACAAAGG
TAA
Found at i:10012551 original size:39 final size:39
Alignment explanation
Indices: 10012387--10012569 Score: 170
Period size: 40 Copynumber: 4.6 Consensus size: 39
10012377 TTGAATGCTG
* * * * * * *
10012387 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTATGTCCCGAAGGCATTGTGC-GAGTTACTAAA
* * * *
10012427 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTATG-TCCCGAAGG-CATTGTGCGAGTTACTAAA
* **
10012467 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTATGTCCCGAAGGCATT-GTGCGAGTTACTAAA
*
10012507 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTATGTCCCGAAGGCATTGTGCGAGTTACTAAA
* *
10012546 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTATGTCCCGAAGGCATT
10012570 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
39 38 0.31
40 74 0.61
41 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (39 bp):
TCCGGGTTATGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:10012589 original size:79 final size:80
Alignment explanation
Indices: 10012423--10012604 Score: 190
Period size: 79 Copynumber: 2.3 Consensus size: 80
10012413 GCTAAGTGAA
* * * *
10012423 TATATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGG
1 TATATCCGGGTTAAG-TCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGG
** ** *
10012487 CATTCGTGCGAGTTGT
65 CATTCGAACGAGGAGC
* * * * *
10012503 TAAATCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGC
1 TATATCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGC
*
10012567 ATTTGAACGAGGAGC
66 ATTCGAACGAGGAGC
*
10012582 TATATCC-GGTTAAATCCCGAAGG
1 TATATCCGGGTTAAGTCCCGAAGG
10012605 TACGTGATTT
Statistics
Matches: 83, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
78 14 0.17
79 50 0.60
80 19 0.23
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (80 bp):
TATATCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGC
ATTCGAACGAGGAGC
Found at i:10019389 original size:25 final size:25
Alignment explanation
Indices: 10019355--10019411 Score: 105
Period size: 25 Copynumber: 2.3 Consensus size: 25
10019345 AAAAATTCAG
10019355 TTCAATTATATATCAATCAATAACA
1 TTCAATTATATATCAATCAATAACA
10019380 TTCAATTATATATCAATCAATAACA
1 TTCAATTATATATCAATCAATAACA
*
10019405 ATCAATT
1 TTCAATT
10019412 TCCAGTACAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.47, C:0.16, G:0.00, T:0.37
Consensus pattern (25 bp):
TTCAATTATATATCAATCAATAACA
Found at i:10020578 original size:5 final size:5
Alignment explanation
Indices: 10020570--10020610 Score: 57
Period size: 5 Copynumber: 8.0 Consensus size: 5
10020560 TTTGTTTTAT
10020570 TATTA TATTA TATTA TATTA TATTA -ATATA TTATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TAT-TA -TATTA TATTA
10020611 ATTTCTTAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
4 2 0.06
5 27 0.82
6 2 0.06
7 2 0.06
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATTA
Found at i:10020580 original size:8 final size:8
Alignment explanation
Indices: 10020567--10020610 Score: 56
Period size: 8 Copynumber: 5.6 Consensus size: 8
10020557 TGTTTTGTTT
10020567 TATTATTA
1 TATTATTA
10020575 TATTA-TA
1 TATTATTA
10020582 T-TATATTA
1 TAT-TATTA
*
10020590 TATTAATA
1 TATTATTA
10020598 TATTATTA
1 TATTATTA
10020606 TATTA
1 TATTA
10020611 ATTTCTTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
6 1 0.03
7 5 0.16
8 24 0.77
9 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (8 bp):
TATTATTA
Found at i:10026104 original size:37 final size:37
Alignment explanation
Indices: 10026040--10026150 Score: 116
Period size: 37 Copynumber: 3.0 Consensus size: 37
10026030 CTGAAAGTAC
* * *
10026040 GCTCTATCGAGCCAAATCCTATTGTTATACTAAATGAA
1 GCTCAATCGAG-CAAATCATATCGTTATACTAAATGAA
*
10026078 GCTCAATCGAGCAAATCATATCGTTATACTAAATGGA
1 GCTCAATCGAGCAAATCATATCGTTATACTAAATGAA
* * * * *
10026115 GCTTAA-CTGAGCAAATCTTACCGTTATTCTGAATGA
1 GCTCAATC-GAGCAAATCATATCGTTATACTAAATGA
10026151 TGTTTAATCA
Statistics
Matches: 62, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
36 1 0.02
37 51 0.82
38 10 0.16
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (37 bp):
GCTCAATCGAGCAAATCATATCGTTATACTAAATGAA
Found at i:10035111 original size:18 final size:17
Alignment explanation
Indices: 10035088--10035126 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
10035078 ATTGTATAAA
10035088 AAAATAAAAAAAAAATAT
1 AAAATAAAAAAAAAAT-T
* *
10035106 AAAATAATATAAAAATT
1 AAAATAAAAAAAAAATT
10035123 AAAA
1 AAAA
10035127 ATACCTAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (17 bp):
AAAATAAAAAAAAAATT
Found at i:10044486 original size:20 final size:20
Alignment explanation
Indices: 10044463--10044516 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
10044453 AGTTTTTCCC
*
10044463 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
10044483 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
10044503 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
10044517 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:10044498 original size:30 final size:30
Alignment explanation
Indices: 10044463--10044536 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
10044453 AGTTTTTCCC
10044463 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
10044493 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
10044523 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
10044537 TGGCTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:10044526 original size:20 final size:20
Alignment explanation
Indices: 10044463--10044527 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
10044453 AGTTTTTCCC
* * * *
10044463 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
10044483 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
10044502 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
10044523 AGCTC
1 AGCTC
10044528 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:10045415 original size:18 final size:18
Alignment explanation
Indices: 10045377--10045418 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
10045367 AAATCGAAAG
* **
10045377 AAAAGAAAAAGAGATTGA
1 AAAAGAAAAAGAAATCCA
10045395 AAAAGAAAAAGAAATCCA
1 AAAAGAAAAAGAAATCCA
10045413 AAAAGA
1 AAAAGA
10045419 GAGTGAGGTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.71, C:0.05, G:0.17, T:0.07
Consensus pattern (18 bp):
AAAAGAAAAAGAAATCCA
Found at i:10047128 original size:10 final size:10
Alignment explanation
Indices: 10047113--10047150 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
10047103 GCTCGTTTTC
*
10047113 AGCTCACTCG
1 AGCTCAATCG
10047123 AGCTCAAGTC-
1 AGCTCAA-TCG
10047133 AGCTCAATCG
1 AGCTCAATCG
10047143 AGCTCAAT
1 AGCTCAAT
10047151 TTAGCTTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 2 0.08
10 21 0.84
11 2 0.08
ACGTcount: A:0.29, C:0.32, G:0.18, T:0.21
Consensus pattern (10 bp):
AGCTCAATCG
Found at i:10047156 original size:20 final size:20
Alignment explanation
Indices: 10047111--10047149 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
10047101 TAGCTCGTTT
*
10047111 TCAGCTCACTCGAGCTCAAG
1 TCAGCTCAATCGAGCTCAAG
10047131 TCAGCTCAATCGAGCTCAA
1 TCAGCTCAATCGAGCTCAA
10047150 TTTAGCTTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.33, G:0.18, T:0.21
Consensus pattern (20 bp):
TCAGCTCAATCGAGCTCAAG
Found at i:10048542 original size:18 final size:18
Alignment explanation
Indices: 10048521--10048557 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
10048511 TTTCAAAAAC
10048521 AAAAGAGAGTGAAAAGAA
1 AAAAGAGAGTGAAAAGAA
* *
10048539 AAAAGAGATTTAAAAGAA
1 AAAAGAGAGTGAAAAGAA
10048557 A
1 A
10048558 TTGAAAGACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.22, T:0.11
Consensus pattern (18 bp):
AAAAGAGAGTGAAAAGAA
Found at i:10052974 original size:19 final size:19
Alignment explanation
Indices: 10052937--10052974 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
10052927 GTTGTAAAGT
*
10052937 TTTATTTTTTATTTATTTA
1 TTTATTTTTTACTTATTTA
10052956 TTTA-TTTTTACTTAGTTTA
1 TTTATTTTTTACTTA-TTTA
10052975 AGTCCTAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.74
Consensus pattern (19 bp):
TTTATTTTTTACTTATTTA
Found at i:10066564 original size:16 final size:15
Alignment explanation
Indices: 10066536--10066574 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
10066526 AATTAAAAAA
10066536 AAAATTAAAACTATGT
1 AAAA-TAAAACTATGT
10066552 AAAATAAAGACTATGT
1 AAAATAAA-ACTATGT
*
10066568 AATATAA
1 AAAATAA
10066575 TGAGAATCCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 4 0.19
16 17 0.81
ACGTcount: A:0.59, C:0.05, G:0.08, T:0.28
Consensus pattern (15 bp):
AAAATAAAACTATGT
Found at i:10074841 original size:25 final size:26
Alignment explanation
Indices: 10074807--10074858 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
10074797 TACGTGGATG
*
10074807 ATTATTGTT-ATTAAATTTTAATAAA
1 ATTATTGTTAAATAAATTTTAATAAA
*
10074832 ATTATTGTTAAATATATTTTAATAAA
1 ATTATTGTTAAATAAATTTTAATAAA
10074858 A
1 A
10074859 ATAATAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 9 0.38
26 15 0.62
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (26 bp):
ATTATTGTTAAATAAATTTTAATAAA
Found at i:10074869 original size:26 final size:25
Alignment explanation
Indices: 10074820--10074875 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 25
10074810 ATTGTTATTA
* * **
10074820 AATTTTAATAAAATTATTGTTAAAT
1 AATTTTAATAAAAATAATAATAAAT
10074845 ATATTTTAATAAAAATAATAATAAAT
1 A-ATTTTAATAAAAATAATAATAAAT
10074871 AATTT
1 AATTT
10074876 AATCATATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 5 0.19
26 21 0.81
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.45
Consensus pattern (25 bp):
AATTTTAATAAAAATAATAATAAAT
Found at i:10075446 original size:14 final size:14
Alignment explanation
Indices: 10075427--10075453 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
10075417 AGTAAAGTTC
10075427 AATATTTTATTATT
1 AATATTTTATTATT
10075441 AATATTTTATTAT
1 AATATTTTATTAT
10075454 ATAAAAGGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
AATATTTTATTATT
Found at i:10075825 original size:58 final size:58
Alignment explanation
Indices: 10075758--10076024 Score: 480
Period size: 58 Copynumber: 4.6 Consensus size: 58
10075748 TCATGTTATC
* * * * *
10075758 TAAATCGAGAAAAAAATTAAAAGTCAATCAATAATGTAACCAATTAAAATACTTCTAT
1 TAAACCGAGAAAAAAGTTAAAAGTTAATCCATAATATAACCAATTAAAATACTTCTAT
10075816 TAAACCGAGAAAAAAGTTAAAAGTTAATCCATAATATAACCAATTAAAATACTTCTAT
1 TAAACCGAGAAAAAAGTTAAAAGTTAATCCATAATATAACCAATTAAAATACTTCTAT
10075874 TAAACCGAGAAAAAAGTTAAAAGTTAATCCATAATATAACCAATTAAAATACTTCTAT
1 TAAACCGAGAAAAAAGTTAAAAGTTAATCCATAATATAACCAATTAAAATACTTCTAT
10075932 TAAACCGAGAAAAAAGTTAAAAGTTAATCCATAATATAACCAATTAAAATACTTCTAT
1 TAAACCGAGAAAAAAGTTAAAAGTTAATCCATAATATAACCAATTAAAATACTTCTAT
*
10075990 TAAACCGAGAAAAAAATTAAAAGTTAATCCATAAT
1 TAAACCGAGAAAAAAGTTAAAAGTTAATCCATAAT
10076025 TGCAACAGTG
Statistics
Matches: 203, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 203 1.00
ACGTcount: A:0.53, C:0.13, G:0.07, T:0.27
Consensus pattern (58 bp):
TAAACCGAGAAAAAAGTTAAAAGTTAATCCATAATATAACCAATTAAAATACTTCTAT
Found at i:10076075 original size:90 final size:92
Alignment explanation
Indices: 10075957--10076198 Score: 256
Period size: 94 Copynumber: 2.6 Consensus size: 92
10075947 GTTAAAAGTT
* *
10075957 AATCCATAATATAACCAATTAAAA-TACTTCTATTAAACCGAGAAAAAAATTAAAAGTTAATCCA
1 AATCCATAATATAACCAATTAAAATTACTTCTATTAAACCGAGAAAAAAATTAAAAGTCAACCCA
10076021 TAATTGCAACAGTGTATT-ATACTATC
66 TAATTGCAACAGTGTATTGATACTATC
** ** * * *
10076047 AATCCATAATATAACCAA-TAAAATTACTTCTAGGAAAAAATTAGAAAAAAAAATCAAAGGTCAA
1 AATCCATAATATAACCAATTAAAATTACTTCT---ATTAAA-CCGAGAAAAAAATTAAAAGTCAA
*** *
10076111 CCCATAATTGTGTCAGTGTATTGATGCTATC
62 CCCATAATTGCAACAGTGTATTGATACTATC
* *
10076142 AATCCATAATATAACCAATTAAAAGTCAATAATTTTATTAAACCGAGAAAAAAATTA
1 AATCCATAATATAACCAATTAAAA-T---TACTTCTATTAAACCGAGAAAAAAATTA
10076199 GAAAAGAATT
Statistics
Matches: 120, Mismatches: 21, Indels: 16
0.76 0.13 0.10
Matches are distributed among these distances:
89 5 0.04
90 25 0.21
93 4 0.03
94 35 0.29
95 25 0.21
96 16 0.13
97 5 0.04
100 5 0.04
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.29
Consensus pattern (92 bp):
AATCCATAATATAACCAATTAAAATTACTTCTATTAAACCGAGAAAAAAATTAAAAGTCAACCCA
TAATTGCAACAGTGTATTGATACTATC
Found at i:10076231 original size:28 final size:28
Alignment explanation
Indices: 10076178--10076231 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
10076168 CAATAATTTT
* *
10076178 ATTAAACCGAGAAAAAAATTAGAAAAGA
1 ATTAAACCGAGAAAAAAATCAAAAAAGA
10076206 ATTAAACCGAG-AAAAAATACAAAAAA
1 ATTAAACCGAGAAAAAAAT-CAAAAAA
10076232 TAAAAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 7 0.30
28 16 0.70
ACGTcount: A:0.67, C:0.09, G:0.11, T:0.13
Consensus pattern (28 bp):
ATTAAACCGAGAAAAAAATCAAAAAAGA
Found at i:10077711 original size:29 final size:29
Alignment explanation
Indices: 10077678--10077736 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
10077668 TAAAGAAAAG
10077678 GGTAAGGTTTTTAAAACCTGTGGAGTGAA
1 GGTAAGGTTTTTAAAACCTGTGGAGTGAA
10077707 GGTAAGGTTTTTAAAACCTGTGGAGTGAA
1 GGTAAGGTTTTTAAAACCTGTGGAGTGAA
10077736 G
1 G
10077737 AGAAAACGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.31, C:0.07, G:0.32, T:0.31
Consensus pattern (29 bp):
GGTAAGGTTTTTAAAACCTGTGGAGTGAA
Found at i:10077749 original size:29 final size:28
Alignment explanation
Indices: 10077686--10077747 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 28
10077676 AGGGTAAGGT
* *
10077686 TTTTAAAACCTGTGGAGTGAAGGTAAGG
1 TTTTAAAACCTGTGGAGTGAAGGAAACG
10077714 TTTTTAAAACCTGTGGAGTGAAGAGAAAACG
1 -TTTTAAAACCTGTGGAGTGAAG-G-AAACG
10077745 TTT
1 TTT
10077748 AAGAGACGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 22 0.76
30 4 0.14
31 3 0.10
ACGTcount: A:0.34, C:0.08, G:0.27, T:0.31
Consensus pattern (28 bp):
TTTTAAAACCTGTGGAGTGAAGGAAACG
Found at i:10078524 original size:16 final size:16
Alignment explanation
Indices: 10078503--10078570 Score: 109
Period size: 16 Copynumber: 4.2 Consensus size: 16
10078493 TTTGGTTCGC
10078503 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
10078519 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
10078535 TGTAATGGATTAGAAG
1 TGTATTGGATTAGAGG
*
10078551 TGTATTGGAATAGAGG
1 TGTATTGGATTAGAGG
10078567 TGTA
1 TGTA
10078571 ATAGCAAATC
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.29, C:0.00, G:0.35, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:10078610 original size:45 final size:41
Alignment explanation
Indices: 10078551--10078660 Score: 116
Period size: 45 Copynumber: 2.6 Consensus size: 41
10078541 GGATTAGAAG
*
10078551 TGTATTGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTT
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGG-T
* * ***
10078593 GAATGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGT
1 ---TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGT
10078636 TG-AATGGAATAGAGGTGTAATAGCA
1 TGTAATGGAATAGAGGTGTAATAGCA
10078661 TAATGGAAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
39 20 0.36
40 2 0.04
43 1 0.02
44 11 0.20
45 22 0.39
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (41 bp):
TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGT
Found at i:10078823 original size:16 final size:16
Alignment explanation
Indices: 10078786--10078827 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
10078776 TTAATCATAT
*
10078786 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
10078802 TT-AAATATATTATAA
1 TTAAAATATATTATAA
10078817 TTAAAATATAT
1 TTAAAATATAT
10078828 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:10078834 original size:14 final size:15
Alignment explanation
Indices: 10078795--10078836 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
10078785 TTTAAACATA
*
10078795 ATTATTATTAAATAT
1 ATTATAATTAAATAT
10078810 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
10078824 A-TATAATTTAATA
1 ATTATAATTAAATA
10078837 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:10078886 original size:61 final size:61
Alignment explanation
Indices: 10078821--10079008 Score: 215
Period size: 61 Copynumber: 3.1 Consensus size: 61
10078811 TTATAATTAA
10078821 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
* * * * * * * * * * *
10078882 AATATATGATACT-ATAAAA-TATAAATTAA-C-ATAATTATTAT-TAAATATATTAAAATTAA
1 AATATATAAT-TTAATAAAATTCTTAA-TAATCAAT-ATTCTTATATGAATTTACTCAAATCAT
10078941 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
10079002 AATATAT
1 AATATAT
10079009 GATACTATAA
Statistics
Matches: 97, Mismatches: 22, Indels: 16
0.72 0.16 0.12
Matches are distributed among these distances:
58 1 0.01
59 32 0.33
60 24 0.25
61 39 0.40
62 1 0.01
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
Found at i:10078939 original size:120 final size:120
Alignment explanation
Indices: 10078789--10079018 Score: 451
Period size: 120 Copynumber: 1.9 Consensus size: 120
10078779 ATCATATTTA
*
10078789 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTAAAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
10078854 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
10078909 AACATAATTATTATTAAATATATTAAAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTAAAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
10078974 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAA
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAA
10079019 TTTACTCAAA
Statistics
Matches: 109, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 109 1.00
ACGTcount: A:0.50, C:0.07, G:0.02, T:0.41
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTAAAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
Found at i:10079007 original size:59 final size:59
Alignment explanation
Indices: 10078824--10079007 Score: 180
Period size: 59 Copynumber: 3.1 Consensus size: 59
10078814 TAATTAAAAT
10078824 ATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATA
1 ATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATA
* * * * * * * * * *
10078883 ATAT-ATGATACTATAAAA-TATAAATTAA-C-ATAATTATTAT-TAAATATATTAAAATTAAAA
1 ATATAAT-TTA--ATAAAATTCTTAA-TAATCAAT-ATTCTTATATGAATTTACTCAAA-TCATA
10078943 TATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATA
1 -ATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATA
10079003 ATATA
1 ATATA
10079008 TGATACTATA
Statistics
Matches: 93, Mismatches: 20, Indels: 24
0.68 0.15 0.18
Matches are distributed among these distances:
58 2 0.02
59 32 0.34
60 30 0.32
61 27 0.29
62 2 0.02
ACGTcount: A:0.49, C:0.08, G:0.02, T:0.41
Consensus pattern (59 bp):
ATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATA
Found at i:10087095 original size:20 final size:20
Alignment explanation
Indices: 10087072--10087109 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
10087062 ATAAATTAAA
10087072 ACTAAATAAAAACCTAAACT
1 ACTAAATAAAAACCTAAACT
* *
10087092 ACTAACTAAAACCCTAAA
1 ACTAAATAAAAACCTAAA
10087110 ACGACTTTGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.58, C:0.24, G:0.00, T:0.18
Consensus pattern (20 bp):
ACTAAATAAAAACCTAAACT
Found at i:10093255 original size:24 final size:24
Alignment explanation
Indices: 10093228--10093275 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
10093218 TTATATGATG
10093228 TGATTTTATTTGCCTATAGGGATA
1 TGATTTTATTTGCCTATAGGGATA
10093252 TGATTTTATTTGCCTATAGGGATA
1 TGATTTTATTTGCCTATAGGGATA
10093276 CTGCAGCATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.08, G:0.21, T:0.46
Consensus pattern (24 bp):
TGATTTTATTTGCCTATAGGGATA
Found at i:10095246 original size:20 final size:20
Alignment explanation
Indices: 10095221--10095258 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
10095211 ACGGGACCGC
10095221 TGATGTGGCAAGTTAACTGT
1 TGATGTGGCAAGTTAACTGT
*
10095241 TGATGTGGCTAGTTAACT
1 TGATGTGGCAAGTTAACT
10095259 TGCCATATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.11, G:0.29, T:0.37
Consensus pattern (20 bp):
TGATGTGGCAAGTTAACTGT
Found at i:10096404 original size:20 final size:20
Alignment explanation
Indices: 10096379--10096417 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
10096369 AGGTGACAAG
10096379 TTAACTGGCCACATCAGCAA
1 TTAACTGGCCACATCAGCAA
*
10096399 TTAACTTGCCACATCAGCA
1 TTAACTGGCCACATCAGCA
10096418 GTCCCGTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.31, G:0.13, T:0.23
Consensus pattern (20 bp):
TTAACTGGCCACATCAGCAA
Found at i:10098575 original size:31 final size:31
Alignment explanation
Indices: 10098509--10098576 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 31
10098499 TTAGAAAACA
* ** *
10098509 TAAATTTAACTTTTTTTTAAAGATTAATAGT
1 TAAATTTAACTCTTTTCAAAAGATTAATAGC
*
10098540 TAAATTTAACTCTTTTCAAAATATTAA-AGAC
1 TAAATTTAACTCTTTTCAAAAGATTAATAG-C
10098571 TAAATT
1 TAAATT
10098577 GATAAAACAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
30 2 0.06
31 29 0.94
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (31 bp):
TAAATTTAACTCTTTTCAAAAGATTAATAGC
Found at i:10099652 original size:14 final size:14
Alignment explanation
Indices: 10099633--10099659 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
10099623 TTCAATAGAA
10099633 TGAAAAGACCTTGT
1 TGAAAAGACCTTGT
10099647 TGAAAAGACCTTG
1 TGAAAAGACCTTG
10099660 AGCTCTCCTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.26
Consensus pattern (14 bp):
TGAAAAGACCTTGT
Found at i:10106204 original size:44 final size:45
Alignment explanation
Indices: 10106137--10106244 Score: 137
Period size: 44 Copynumber: 2.4 Consensus size: 45
10106127 TGTCTTTGAC
** * * *
10106137 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATA-TATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTATAAT
* *
10106181 ATGGGCTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA-TTATAAT
10106227 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
10106245 TTTCTGTTCT
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
44 32 0.59
46 22 0.41
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (45 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTATAAT
Found at i:10107720 original size:20 final size:20
Alignment explanation
Indices: 10107697--10107739 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
10107687 TGAAATTCTA
10107697 AAAGATAAATACAA-ATAAAT
1 AAAGATAAATA-AATATAAAT
*
10107717 AAAGATAATTAAATATAAAT
1 AAAGATAAATAAATATAAAT
10107737 AAA
1 AAA
10107740 TAAAAATGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 2 0.10
20 19 0.90
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.23
Consensus pattern (20 bp):
AAAGATAAATAAATATAAAT
Found at i:10107740 original size:10 final size:10
Alignment explanation
Indices: 10107701--10107778 Score: 54
Period size: 10 Copynumber: 7.9 Consensus size: 10
10107691 ATTCTAAAAG
10107701 ATAAATACAA-
1 ATAAATA-AAT
*
10107711 ATAAATAAAG
1 ATAAATAAAT
*
10107721 ATAATTAAAT
1 ATAAATAAAT
10107731 ATAAATAAAT
1 ATAAATAAAT
*
10107741 AAAAATGAAA-
1 ATAAAT-AAAT
**
10107751 ATAAAT-CCT
1 ATAAATAAAT
*
10107760 ATAATTAAAT
1 ATAAATAAAT
*
10107770 CTAAATAAA
1 ATAAATAAA
10107779 AATCCTTAAT
Statistics
Matches: 52, Mismatches: 12, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
9 7 0.13
10 42 0.81
11 3 0.06
ACGTcount: A:0.65, C:0.05, G:0.03, T:0.27
Consensus pattern (10 bp):
ATAAATAAAT
Found at i:10109113 original size:15 final size:15
Alignment explanation
Indices: 10109093--10109122 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
10109083 AAAATTATAT
10109093 GGGCAGCAACAACCA
1 GGGCAGCAACAACCA
10109108 GGGCAGCAACAACCA
1 GGGCAGCAACAACCA
10109123 AATCAGCATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.33, G:0.27, T:0.00
Consensus pattern (15 bp):
GGGCAGCAACAACCA
Found at i:10109367 original size:5 final size:5
Alignment explanation
Indices: 10109344--10109405 Score: 65
Period size: 5 Copynumber: 12.6 Consensus size: 5
10109334 TGAAAATAAT
* * * *
10109344 AAATA ATAATA AAAT- -AATA AAATA AAACA AACTA AAACA AACTA AAATA
1 AAATA A-AATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA
10109393 AAATA AAATA AAA
1 AAATA AAATA AAA
10109406 ATTGGGTTGC
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
3 3 0.07
5 38 0.83
6 5 0.11
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (5 bp):
AAATA
Found at i:10113179 original size:24 final size:24
Alignment explanation
Indices: 10113131--10113239 Score: 155
Period size: 24 Copynumber: 4.5 Consensus size: 24
10113121 TCAACTCCGT
* * * *
10113131 ACACATAGTGCCAAATAATTCCGC
1 ACACATAGTGCCATACAAATACGC
* *
10113155 ACACATAGTGCCTTACATATACGC
1 ACACATAGTGCCATACAAATACGC
*
10113179 ACACATAGTGCCATACAAATATGC
1 ACACATAGTGCCATACAAATACGC
10113203 ACACATAGTGCCATACAAATACGC
1 ACACATAGTGCCATACAAATACGC
10113227 ACACATAGTGCCA
1 ACACATAGTGCCA
10113240 CTTAAATCTG
Statistics
Matches: 75, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 75 1.00
ACGTcount: A:0.39, C:0.28, G:0.13, T:0.20
Consensus pattern (24 bp):
ACACATAGTGCCATACAAATACGC
Found at i:10113659 original size:14 final size:13
Alignment explanation
Indices: 10113636--10113666 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
10113626 TCTTTTCCTA
10113636 TTTATTTATTTAT
1 TTTATTTATTTAT
10113649 TTTATTTTATTTAT
1 TTTA-TTTATTTAT
10113663 TTTA
1 TTTA
10113667 ACCATTAGCC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.24
14 13 0.76
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTATTTATTTAT
Found at i:10119925 original size:24 final size:24
Alignment explanation
Indices: 10119877--10119961 Score: 116
Period size: 24 Copynumber: 3.5 Consensus size: 24
10119867 TCAACTCCGT
* * * *
10119877 ACACATAGTGCCAAATAATTCCGC
1 ACACATAGTGCCATACAAATACGC
* *
10119901 ACACATAGTGCCTTACATATACGC
1 ACACATAGTGCCATACAAATACGC
10119925 ACACATAGTGCCATACAAATACGC
1 ACACATAGTGCCATACAAATACGC
10119949 ACACATAGTGCCA
1 ACACATAGTGCCA
10119962 CTTAAATCCG
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 53 1.00
ACGTcount: A:0.38, C:0.29, G:0.13, T:0.20
Consensus pattern (24 bp):
ACACATAGTGCCATACAAATACGC
Found at i:10119968 original size:24 final size:24
Alignment explanation
Indices: 10119877--10119973 Score: 92
Period size: 24 Copynumber: 4.0 Consensus size: 24
10119867 TCAACTCCGT
** * *
10119877 ACACATAGTGCCAAATAATTCCGC
1 ACACATAGTGCCACTTAAATACGC
10119901 ACACATAGTG-C-CTTACATATACGC
1 ACACATAGTGCCACTTA-A-ATACGC
*
10119925 ACACATAGTGCCA-TACAAATACGC
1 ACACATAGTGCCACT-TAAATACGC
*
10119949 ACACATAGTGCCACTTAAATCCGC
1 ACACATAGTGCCACTTAAATACGC
10119973 A
1 A
10119974 TATCTAGTAA
Statistics
Matches: 60, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
22 2 0.03
23 2 0.03
24 51 0.85
25 4 0.07
26 1 0.02
ACGTcount: A:0.37, C:0.30, G:0.12, T:0.21
Consensus pattern (24 bp):
ACACATAGTGCCACTTAAATACGC
Found at i:10124482 original size:10 final size:10
Alignment explanation
Indices: 10124461--10124522 Score: 74
Period size: 10 Copynumber: 6.1 Consensus size: 10
10124451 AATGAAATTC
10124461 TAAATGATAAA
1 TAAA-GATAAA
10124472 TACAA-ATAAA
1 TA-AAGATAAA
*
10124482 TAAAGATAAT
1 TAAAGATAAA
10124492 TAAAGATAAA
1 TAAAGATAAA
10124502 TAAAGATAAA
1 TAAAGATAAA
10124512 TGAAA-ATAAA
1 T-AAAGATAAA
10124522 T
1 T
10124523 CCTAGAATTA
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
9 2 0.04
10 37 0.80
11 5 0.11
12 2 0.04
ACGTcount: A:0.66, C:0.02, G:0.08, T:0.24
Consensus pattern (10 bp):
TAAAGATAAA
Found at i:10140515 original size:13 final size:13
Alignment explanation
Indices: 10140497--10140521 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10140487 TCAATTCCCA
10140497 TGTATTATTTTTC
1 TGTATTATTTTTC
10140510 TGTATTATTTTT
1 TGTATTATTTTT
10140522 GCATCCATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.04, G:0.08, T:0.72
Consensus pattern (13 bp):
TGTATTATTTTTC
Found at i:10143431 original size:25 final size:25
Alignment explanation
Indices: 10143399--10143448 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
10143389 TATAATTTTT
*
10143399 ATCATAATTGATAAAATATTCCTTC
1 ATCATAATTAATAAAATATTCCTTC
*
10143424 ATCATAATTAATGAAATATTCCTTC
1 ATCATAATTAATAAAATATTCCTTC
10143449 TTTCCATACA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.40, C:0.16, G:0.04, T:0.40
Consensus pattern (25 bp):
ATCATAATTAATAAAATATTCCTTC
Found at i:10145707 original size:58 final size:58
Alignment explanation
Indices: 10145596--10145709 Score: 131
Period size: 58 Copynumber: 2.0 Consensus size: 58
10145586 CACGAAAGGA
* * *** *
10145596 CCTAAATGTAAAAGATATGGCTCACCTTCACCGCGAGCCTAGAGGGTTCATGGAGGGG
1 CCTAAATGTAAAAGATATGCCTCACCTCCACCAAAAGCCGAGAGGGTTCATGGAGGGG
* * *
10145654 CCTAAATGTAGAAGATATGCCTCACCTCCACCAAAAGCCCGA-AGGTTTTATGGAGG
1 CCTAAATGTAAAAGATATGCCTCACCTCCACCAAAAG-CCGAGAGGGTTCATGGAGG
10145710 AGCCCAAGTG
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
58 43 0.93
59 3 0.07
ACGTcount: A:0.30, C:0.24, G:0.25, T:0.21
Consensus pattern (58 bp):
CCTAAATGTAAAAGATATGCCTCACCTCCACCAAAAGCCGAGAGGGTTCATGGAGGGG
Found at i:10150280 original size:32 final size:32
Alignment explanation
Indices: 10150239--10150304 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
10150229 CCTATACTTG
10150239 TAATTCTAGTAATTTAGTCTCTTTACTTTTCA
1 TAATTCTAGTAATTTAGTCTCTTTACTTTTCA
10150271 TAATTCTAGTAATTTAGTCTCTTTACTTTTCA
1 TAATTCTAGTAATTTAGTCTCTTTACTTTTCA
10150303 TA
1 TA
10150305 TTTCAAAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.26, C:0.15, G:0.06, T:0.53
Consensus pattern (32 bp):
TAATTCTAGTAATTTAGTCTCTTTACTTTTCA
Found at i:10165814 original size:300 final size:300
Alignment explanation
Indices: 10165292--10165865 Score: 798
Period size: 300 Copynumber: 1.9 Consensus size: 300
10165282 CAGTGCTGCA
* * *
10165292 ATGTTGGCAGCAGTAGAACACCAGAGGAATAAACAGTTAAAGACTACTGAGACACAATTTCAACG
1 ATGTTGGCAGCAGTAGAACACCAGAGGAATAAACAGTTAAAGACTACTGAAACACAACTTCAAAG
* * * *
10165357 AGGAAAACAATAATTGCTGTACAGTGCCGCAACAAGCTTGGGTTAAACATTCTAATTTGTATATA
66 AGAAAAACAATAATTGCTATACAGTGCCGCAACAAGATTGGGTTAAACATTCTAATTTGTATAGA
** * * * * * *
10165422 GAAATTTGTGAGCATGAAGAAGGCTTTAAATGGAAGAGAAAATACTATCTTTGGGTAGCACTTTC
131 GAAATTCATGAGCACGAAGAAGGCTCTAAATGCAAAAGAAAATACTATCTTTGGGCAGCAATTTC
* *
10165487 TAAGTTTCAACTGTACGAACACAAACTGCATGAAAAAGTCATGGCATTGG-CTAACCAGGTGGTT
196 TAAGTTTCAACTGTACGAACACAAACTGCATGAAAAAGTCATAGCATTGGTC-AACAAGGTGGTT
10165551 CCAACATAGTCAATATAATATAAATGCGGTACAATGCTGTG
260 CCAACATAGTCAATATAATATAAATGCGGTACAATGCTGTG
** * *
10165592 ATGTTGGCAGTGGTAGAACACCTA-TGGAATAAACAGTTAAAGACTATTGAAACACAACTTCAAA
1 ATGTTGGCAGCAGTAGAACACC-AGAGGAATAAACAGTTAAAGACTACTGAAACACAACTTCAAA
* * * *
10165656 TAGAAAAACAATAATTG-TCATACAGTG-CG-ATGACAAGATTGGTTTATACATTCTTATTTGTA
65 GAGAAAAACAATAATTGCT-ATACAGTGCCGCA--ACAAGATTGGGTTAAACATTCTAATTTGTA
* *
10165718 TAGAGAAATTCATGAGCACGAAGAAGGCTCTAAATGCAAAAGAAAATACTATCTTTTGGCAGTAA
127 TAGAGAAATTCATGAGCACGAAGAAGGCTCTAAATGCAAAAGAAAATACTATCTTTGGGCAGCAA
* * *
10165783 TTTCTATGTTTCAACTGTACGAACTCAAACTGCATGAGAAAGTCATAGCATTGGTCAACAAGGTG
192 TTTCTAAGTTTCAACTGTACGAACACAAACTGCATGAAAAAGTCATAGCATTGGTCAACAAGGTG
10165848 GTTCCAACATAGTCAATA
257 GTTCCAACATAGTCAATA
10165866 CCCTAAAGGT
Statistics
Matches: 239, Mismatches: 30, Indels: 10
0.86 0.11 0.04
Matches are distributed among these distances:
298 1 0.00
299 3 0.01
300 233 0.97
301 2 0.01
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.27
Consensus pattern (300 bp):
ATGTTGGCAGCAGTAGAACACCAGAGGAATAAACAGTTAAAGACTACTGAAACACAACTTCAAAG
AGAAAAACAATAATTGCTATACAGTGCCGCAACAAGATTGGGTTAAACATTCTAATTTGTATAGA
GAAATTCATGAGCACGAAGAAGGCTCTAAATGCAAAAGAAAATACTATCTTTGGGCAGCAATTTC
TAAGTTTCAACTGTACGAACACAAACTGCATGAAAAAGTCATAGCATTGGTCAACAAGGTGGTTC
CAACATAGTCAATATAATATAAATGCGGTACAATGCTGTG
Found at i:10171526 original size:36 final size:36
Alignment explanation
Indices: 10171486--10171558 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
10171476 TATGTCTTAT
*
10171486 CAGCAGGAGAAGCTTACGTGAAGAAAACAAGCCAAA
1 CAGCAGGAAAAGCTTACGTGAAGAAAACAAGCCAAA
* *
10171522 CAGCAGGAAAAGCTTATGTGAAGAAAACAAGCTAAA
1 CAGCAGGAAAAGCTTACGTGAAGAAAACAAGCCAAA
10171558 C
1 C
10171559 TAATAGTACA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (36 bp):
CAGCAGGAAAAGCTTACGTGAAGAAAACAAGCCAAA
Found at i:10175007 original size:21 final size:21
Alignment explanation
Indices: 10174981--10175022 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
10174971 GTCTTTGAGA
10174981 TCATGTTAACTCAATTTAGCT
1 TCATGTTAACTCAATTTAGCT
10175002 TCATGTTAACTCAATTTAGCT
1 TCATGTTAACTCAATTTAGCT
10175023 AACTCGTGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.19, G:0.10, T:0.43
Consensus pattern (21 bp):
TCATGTTAACTCAATTTAGCT
Found at i:10175880 original size:13 final size:13
Alignment explanation
Indices: 10175864--10175888 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10175854 GATAATAAAG
10175864 TTATTTAATATTA
1 TTATTTAATATTA
10175877 TTATTTAATATT
1 TTATTTAATATT
10175889 TACAAGTCCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TTATTTAATATTA
Found at i:10187802 original size:40 final size:40
Alignment explanation
Indices: 10187711--10187804 Score: 125
Period size: 40 Copynumber: 2.4 Consensus size: 40
10187701 TTATTTGTGG
* * *
10187711 CACTTAGTGTGCGATACGACATAGCTTCGGCTATATATGG
1 CACTTAGTGTGTGATACGACATAGCTTCGGCTATATACGA
** * *
10187751 CACTTAGTGTGTGATTTGAGATAGCTTCGGCTATGTACGA
1 CACTTAGTGTGTGATACGACATAGCTTCGGCTATATACGA
10187791 CACTTAGTGTGTGA
1 CACTTAGTGTGTGA
10187805 GATATCGAGT
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (40 bp):
CACTTAGTGTGTGATACGACATAGCTTCGGCTATATACGA
Found at i:10187834 original size:28 final size:28
Alignment explanation
Indices: 10187791--10187844 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
10187781 CTATGTACGA
* *
10187791 CACTTAGTGTGTGAGATATCGAGTATGG
1 CACTTAGTGTGCGAGACATCGAGTATGG
*
10187819 CACTTAGTGTGCGAGACATTGAGTAT
1 CACTTAGTGTGCGAGACATCGAGTAT
10187845 TCAACGACAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.26, C:0.13, G:0.30, T:0.31
Consensus pattern (28 bp):
CACTTAGTGTGCGAGACATCGAGTATGG
Found at i:10190890 original size:43 final size:43
Alignment explanation
Indices: 10190766--10190925 Score: 193
Period size: 43 Copynumber: 3.7 Consensus size: 43
10190756 ATATGTGTTA
*
10190766 TCGTGTAAGACCACGTCTGGGACGTTGGCATCGACT-TATGATT
1 TCGTGTAAGACCACGTCTGGGACGTTGGCATCGA-TATTTGATT
* * *
10190809 TACGTGTAAGACTACATCTGGGACATTGGCATCG-TATTTGATT
1 T-CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATT
*
10190852 TTGTGTAAGACC-CTGTCTGGGACAG-TGGCATCGATATTTGATT
1 TCGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATTTGATT
* *
10190895 ACATGTAAGACCACGTCTGGGACGTTGGCAT
1 TCGTGTAAGACCACGTCTGGGACGTTGGCAT
10190926 TGTACGAGCT
Statistics
Matches: 99, Mismatches: 11, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
41 1 0.01
42 27 0.27
43 41 0.41
44 30 0.30
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (43 bp):
TCGTGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATT
Found at i:10194157 original size:26 final size:26
Alignment explanation
Indices: 10194105--10194177 Score: 65
Period size: 26 Copynumber: 2.8 Consensus size: 26
10194095 TATTTTCTTG
* * * * *
10194105 AAATTTTACCAGGGGCAATATCGTCA
1 AAATTTTACTAAGGGTAAAATCATCA
10194131 AAATTTTACTAAGGGTAAAATCATCA
1 AAATTTTACTAAGGGTAAAATCATCA
* * * *
10194157 AATTTTTGCTGAGAGTAAAAT
1 AAATTTTACTAAGGGTAAAAT
10194178 AAGGATGATA
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (26 bp):
AAATTTTACTAAGGGTAAAATCATCA
Found at i:10200188 original size:11 final size:10
Alignment explanation
Indices: 10200157--10200191 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
10200147 ACCTAAATTC
10200157 GAAATGAAAA
1 GAAATGAAAA
*
10200167 GAAAAGAAAA
1 GAAATGAAAA
10200177 GAAATGGAAAA
1 GAAAT-GAAAA
10200188 GAAA
1 GAAA
10200192 ATAAAACCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.71, C:0.00, G:0.23, T:0.06
Consensus pattern (10 bp):
GAAATGAAAA
Found at i:10200188 original size:21 final size:20
Alignment explanation
Indices: 10200157--10200197 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
10200147 ACCTAAATTC
10200157 GAAATGAAAAGAAAAGAAAA
1 GAAATGAAAAGAAAAGAAAA
*
10200177 GAAATGGAAAAGAAAATAAAA
1 GAAAT-GAAAAGAAAAGAAAA
10200198 CCCTAAAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.73, C:0.00, G:0.20, T:0.07
Consensus pattern (20 bp):
GAAATGAAAAGAAAAGAAAA
Found at i:10212471 original size:43 final size:43
Alignment explanation
Indices: 10212384--10212472 Score: 101
Period size: 43 Copynumber: 2.1 Consensus size: 43
10212374 ATATAACACA
* * *
10212384 AAACAAAACAAATAAAGAAAAAGAGAATAAAAAAATAAGCAAG
1 AAACAAAACAAAGAAAGAAAAAGAGAATAAAAAAAGAAGAAAG
* *
10212427 AAACAAAACAAAGAAAGGAAAAGGGAGAA-AGAAAAAGAA-AAAG
1 AAACAAAACAAAGAAA-GAAAA-AGAGAATAAAAAAAGAAGAAAG
10212470 AAA
1 AAA
10212473 AATTAGGGTT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
43 21 0.54
44 13 0.33
45 5 0.13
ACGTcount: A:0.74, C:0.06, G:0.17, T:0.03
Consensus pattern (43 bp):
AAACAAAACAAAGAAAGAAAAAGAGAATAAAAAAAGAAGAAAG
Found at i:10220326 original size:20 final size:20
Alignment explanation
Indices: 10220301--10220346 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
10220291 ATTGGGTCTT
10220301 GCCCATATT-AACACAGTTGG
1 GCCCATATTCAACACAGTT-G
*
10220321 GCCCAT-TTCAATACAGTTG
1 GCCCATATTCAACACAGTTG
10220340 GCCCATA
1 GCCCATA
10220347 ACAAAACAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (20 bp):
GCCCATATTCAACACAGTTG
Found at i:10220355 original size:19 final size:20
Alignment explanation
Indices: 10220313--10220356 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
10220303 CCATATTAAC
** *
10220313 ACAGTTGGGCCCATTTCAAT
1 ACAGTTGGGCCCATAACAAA
10220333 ACAGTT-GGCCCATAACAAA
1 ACAGTTGGGCCCATAACAAA
10220352 ACAGT
1 ACAGT
10220357 CTCATATGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (20 bp):
ACAGTTGGGCCCATAACAAA
Found at i:10229862 original size:13 final size:13
Alignment explanation
Indices: 10229844--10229868 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10229834 TCGGCAGGGA
10229844 CACGCCCGTGTAG
1 CACGCCCGTGTAG
10229857 CACGCCCGTGTA
1 CACGCCCGTGTA
10229869 CGTTTACTTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.40, G:0.28, T:0.16
Consensus pattern (13 bp):
CACGCCCGTGTAG
Found at i:10234568 original size:21 final size:22
Alignment explanation
Indices: 10234539--10234585 Score: 87
Period size: 21 Copynumber: 2.2 Consensus size: 22
10234529 GGCTAAAAGA
10234539 TGAATGACAAAAGCCAATGGCT
1 TGAATGACAAAAGCCAATGGCT
10234561 TGAA-GACAAAAGCCAATGGCT
1 TGAATGACAAAAGCCAATGGCT
10234582 TGAA
1 TGAA
10234586 CTATTCAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 21 0.84
22 4 0.16
ACGTcount: A:0.43, C:0.17, G:0.23, T:0.17
Consensus pattern (22 bp):
TGAATGACAAAAGCCAATGGCT
Found at i:10235270 original size:45 final size:45
Alignment explanation
Indices: 10235207--10236056 Score: 1682
Period size: 45 Copynumber: 18.9 Consensus size: 45
10235197 TTTCTTTTCA
* *
10235207 ATGAATACAACACATGCATGAATCAATTTCTTTTCAATGACTAGA
1 ATGAATAGAACACATGCATGAATCAATTTCTTTTCAATGACTAGT
10235252 ATGAATAGAACACATGCATGAATCAATTTCTTTTCAATGACTAGT
1 ATGAATAGAACACATGCATGAATCAATTTCTTTTCAATGACTAGT
10235297 ATGAATAGAACACATGCATGAATCAATTTCTTTTCAATGACTAGT
1 ATGAATAGAACACATGCATGAATCAATTTCTTTTCAATGACTAGT
10235342 ATGAATAGAACACATGCATGAATCAATTTCTTTTCAATGACTAGT
1 ATGAATAGAACACATGCATGAATCAATTTCTTTTCAATGACTAGT
10235387 ATGAATAGAACACATGCATGAATCAATTTCTTTTCAATGACTAGT
1 ATGAATAGAACACATGCATGAATCAATTTCTTTTCAATGACTAGT
10235432 ATGAATAGAACACATGCATGAATCAATTTCTTTTCAATGACTAGT
1 ATGAATAGAACACATGCATGAATCAATTTCTTTTCAATGACTAGT
10235477 ATGAATAGAACACATGCATGAATCAATTTCTTTTCAATGACTAGT
1 ATGAATAGAACACATGCATGAATCAATTTCTTTTCAATGACTAGT
10235522 ATGAATAGAACACATGCATGAATCAATTTCTTTTCAATGACTAGT
1 ATGAATAGAACACATGCATGAATCAATTTCTTTTCAATGACTAGT
10235567 ATGAATAGAACACATGCATGAATCAATTTCTTTTCAATGACTAGT
1 ATGAATAGAACACATGCATGAATCAATTTCTTTTCAATGACTAGT
10235612 ATGAATAGAACACATGCATGAATCAATTTCTTTTCAATGACTAGT
1 ATGAATAGAACACATGCATGAATCAATTTCTTTTCAATGACTAGT
10235657 ATGAATAGAACACATGCATGAATCAATTTCTTTTCAATGACTAGT
1 ATGAATAGAACACATGCATGAATCAATTTCTTTTCAATGACTAGT
10235702 ATGAATAGAACACATGCATGAATCAATTTCTTTTCAATGACTAGT
1 ATGAATAGAACACATGCATGAATCAATTTCTTTTCAATGACTAGT
10235747 ATGAATAGAACACATGCATGAATCAATTTCTTTTCAATGACTAGT
1 ATGAATAGAACACATGCATGAATCAATTTCTTTTCAATGACTAGT
10235792 ATGAATAGAACACATGCATGAATCAATTTCTTTTCAATGACTAGT
1 ATGAATAGAACACATGCATGAATCAATTTCTTTTCAATGACTAGT
10235837 ATGAATAGAACACATGCATGAATCAATTTCTTTTCAATGACTAGT
1 ATGAATAGAACACATGCATGAATCAATTTCTTTTCAATGACTAGT
10235882 ATGAATAGAACACATGCATGAATCAATTTCTTTTCAATGACTAGT
1 ATGAATAGAACACATGCATGAATCAATTTCTTTTCAATGACTAGT
10235927 ATGAATAGAACACATGCATGAATCAATTTCTTTTCAATGACTAGT
1 ATGAATAGAACACATGCATGAATCAATTTCTTTTCAATGACTAGT
10235972 ATGAATAGAACACATGCATGAATCAATTTCTTTTCAATGACTAGT
1 ATGAATAGAACACATGCATGAATCAATTTCTTTTCAATGACTAGT
10236017 ATGAATAGAACACATGCATGAATCAATTTCTTTTCAATGA
1 ATGAATAGAACACATGCATGAATCAATTTCTTTTCAATGA
10236057 ATAGAACACA
Statistics
Matches: 803, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 803 1.00
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.33
Consensus pattern (45 bp):
ATGAATAGAACACATGCATGAATCAATTTCTTTTCAATGACTAGT
Found at i:10237846 original size:23 final size:23
Alignment explanation
Indices: 10237755--10237848 Score: 125
Period size: 23 Copynumber: 4.1 Consensus size: 23
10237745 ATGTGTGTAT
* *
10237755 CTTTTCATATTCAAGCCTCTTAA
1 CTTTTCATATTCAAGTCTCTTCA
* *
10237778 CTTTTGATCTTCAAGTCTCTTCA
1 CTTTTCATATTCAAGTCTCTTCA
* * *
10237801 CTATTCATATTCAAGTTTTTTCA
1 CTTTTCATATTCAAGTCTCTTCA
10237824 CTTTTCATATTCAAGTCTCTTCA
1 CTTTTCATATTCAAGTCTCTTCA
10237847 CT
1 CT
10237849 CTTCTAACTT
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 59 1.00
ACGTcount: A:0.22, C:0.24, G:0.05, T:0.48
Consensus pattern (23 bp):
CTTTTCATATTCAAGTCTCTTCA
Found at i:10242353 original size:23 final size:23
Alignment explanation
Indices: 10242262--10242355 Score: 125
Period size: 23 Copynumber: 4.1 Consensus size: 23
10242252 ATGTGTGTAT
* *
10242262 CTTTTCATATTCAAGCCTCTTAA
1 CTTTTCATATTCAAGTCTCTTCA
* *
10242285 CTTTTGATCTTCAAGTCTCTTCA
1 CTTTTCATATTCAAGTCTCTTCA
* * *
10242308 CTATTCATATTCAAGTTTTTTCA
1 CTTTTCATATTCAAGTCTCTTCA
10242331 CTTTTCATATTCAAGTCTCTTCA
1 CTTTTCATATTCAAGTCTCTTCA
10242354 CT
1 CT
10242356 CTTCTAACTT
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 59 1.00
ACGTcount: A:0.22, C:0.24, G:0.05, T:0.48
Consensus pattern (23 bp):
CTTTTCATATTCAAGTCTCTTCA
Found at i:10251148 original size:30 final size:30
Alignment explanation
Indices: 10251114--10251176 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
10251104 ATTTATTTTA
10251114 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
*
10251144 TTGTTAATTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
10251174 TTG
1 TTG
10251177 CTTGTTAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.27, C:0.03, G:0.13, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:10255295 original size:25 final size:25
Alignment explanation
Indices: 10255261--10255317 Score: 105
Period size: 25 Copynumber: 2.3 Consensus size: 25
10255251 AAAAATTCAG
10255261 TTCAATTATATATCAATCAATAACA
1 TTCAATTATATATCAATCAATAACA
10255286 TTCAATTATATATCAATCAATAACA
1 TTCAATTATATATCAATCAATAACA
*
10255311 ATCAATT
1 TTCAATT
10255318 TCCAGTACAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.47, C:0.16, G:0.00, T:0.37
Consensus pattern (25 bp):
TTCAATTATATATCAATCAATAACA
Found at i:10256484 original size:5 final size:5
Alignment explanation
Indices: 10256476--10256516 Score: 57
Period size: 5 Copynumber: 8.0 Consensus size: 5
10256466 TTTGTTTTAT
10256476 TATTA TATTA TATTA TATTA TATTA -ATATA TTATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TAT-TA -TATTA TATTA
10256517 ATTTCTTAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
4 2 0.06
5 27 0.82
6 2 0.06
7 2 0.06
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATTA
Found at i:10256486 original size:8 final size:8
Alignment explanation
Indices: 10256473--10256516 Score: 56
Period size: 8 Copynumber: 5.6 Consensus size: 8
10256463 TGTTTTGTTT
10256473 TATTATTA
1 TATTATTA
10256481 TATTA-TA
1 TATTATTA
10256488 T-TATATTA
1 TAT-TATTA
*
10256496 TATTAATA
1 TATTATTA
10256504 TATTATTA
1 TATTATTA
10256512 TATTA
1 TATTA
10256517 ATTTCTTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
6 1 0.03
7 5 0.16
8 24 0.77
9 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (8 bp):
TATTATTA
Found at i:10262010 original size:37 final size:37
Alignment explanation
Indices: 10261946--10262056 Score: 116
Period size: 37 Copynumber: 3.0 Consensus size: 37
10261936 CTGAAAGTAC
* * *
10261946 GCTCTATCGAGCCAAATCCTATTGTTATACTAAATGAA
1 GCTCAATCGAG-CAAATCATATCGTTATACTAAATGAA
*
10261984 GCTCAATCGAGCAAATCATATCGTTATACTAAATGGA
1 GCTCAATCGAGCAAATCATATCGTTATACTAAATGAA
* * * * *
10262021 GCTTAA-CTGAGCAAATCTTACCGTTATTCTGAATGA
1 GCTCAATC-GAGCAAATCATATCGTTATACTAAATGA
10262057 TGTTTAATCA
Statistics
Matches: 62, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
36 1 0.02
37 51 0.82
38 10 0.16
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (37 bp):
GCTCAATCGAGCAAATCATATCGTTATACTAAATGAA
Found at i:10275448 original size:21 final size:21
Alignment explanation
Indices: 10275423--10275487 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
10275413 TAGCTTTCGG
10275423 GCTTCCGTTTAGCACTTATGT
1 GCTTCCGTTTAGCACTTATGT
* ** *
10275444 GCTTCAG-TTAGC-C-TCCGG
1 GCTTCCGTTTAGCACTTATGT
10275462 GCTTCCGTTTAGCACTTATGT
1 GCTTCCGTTTAGCACTTATGT
10275483 GCTTC
1 GCTTC
10275488 AGTTAGATTT
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
18 8 0.24
19 6 0.18
20 6 0.18
21 13 0.39
ACGTcount: A:0.12, C:0.28, G:0.22, T:0.38
Consensus pattern (21 bp):
GCTTCCGTTTAGCACTTATGT
Found at i:10275448 original size:39 final size:39
Alignment explanation
Indices: 10275405--10275505 Score: 175
Period size: 39 Copynumber: 2.6 Consensus size: 39
10275395 GCTCTGATGA
10275405 GCTTCAGTTAGCTTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCTTTCGGGCTTCCGTTTAGCACTTATGT
* *
10275444 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCTTTCGGGCTTCCGTTTAGCACTTATGT
*
10275483 GCTTCAGTTAGATTTCGGGCTTC
1 GCTTCAGTTAGCTTTCGGGCTTC
10275506 AGATCACGAT
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 57 1.00
ACGTcount: A:0.13, C:0.25, G:0.24, T:0.39
Consensus pattern (39 bp):
GCTTCAGTTAGCTTTCGGGCTTCCGTTTAGCACTTATGT
Found at i:10289041 original size:20 final size:20
Alignment explanation
Indices: 10289013--10289073 Score: 95
Period size: 20 Copynumber: 3.0 Consensus size: 20
10289003 ATAAGATATG
*
10289013 TGTTTATATGGATGAATTAC
1 TGTTAATATGGATGAATTAC
*
10289033 TGTTAATATTGATGAATTAC
1 TGTTAATATGGATGAATTAC
*
10289053 TGTTAATACGGATGAATTAC
1 TGTTAATATGGATGAATTAC
10289073 T
1 T
10289074 ATTATTACTG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.33, C:0.07, G:0.18, T:0.43
Consensus pattern (20 bp):
TGTTAATATGGATGAATTAC
Found at i:10289067 original size:40 final size:40
Alignment explanation
Indices: 10289013--10289114 Score: 114
Period size: 40 Copynumber: 2.5 Consensus size: 40
10289003 ATAAGATATG
* * *
10289013 TGTTTATATGGATGAATTACTGTTAATATTGATGAATTAC
1 TGTTTATACGGATGAATTACTGTTAATACTGATGAACTAC
* * * *
10289053 TGTTAATACGGATGAATTACTATTATTACTGATGAGCTAC
1 TGTTTATACGGATGAATTACTGTTAATACTGATGAACTAC
* * *
10289093 TATTTATACAGATGAACTACTG
1 TGTTTATACGGATGAATTACTG
10289115 GTTATATGAA
Statistics
Matches: 50, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 50 1.00
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (40 bp):
TGTTTATACGGATGAATTACTGTTAATACTGATGAACTAC
Found at i:10289086 original size:20 final size:20
Alignment explanation
Indices: 10289023--10289087 Score: 94
Period size: 20 Copynumber: 3.2 Consensus size: 20
10289013 TGTTTATATG
*
10289023 GATGAATTACTGTTAATATT
1 GATGAATTACTGTTAATACT
*
10289043 GATGAATTACTGTTAATACG
1 GATGAATTACTGTTAATACT
* *
10289063 GATGAATTACTATTATTACT
1 GATGAATTACTGTTAATACT
10289083 GATGA
1 GATGA
10289088 GCTACTATTT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.35, C:0.08, G:0.17, T:0.40
Consensus pattern (20 bp):
GATGAATTACTGTTAATACT
Found at i:10289106 original size:20 final size:20
Alignment explanation
Indices: 10289043--10289113 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 20
10289033 TGTTAATATT
* * * *
10289043 GATGAATTACTGTTAATACG
1 GATGAACTACTATTATTACA
* *
10289063 GATGAATTACTATTATTACT
1 GATGAACTACTATTATTACA
*
10289083 GATGAGCTACTATT-TATACA
1 GATGAACTACTATTAT-TACA
10289103 GATGAACTACT
1 GATGAACTACT
10289114 GGTTATATGA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
19 1 0.02
20 42 0.98
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (20 bp):
GATGAACTACTATTATTACA
Found at i:10289119 original size:20 final size:19
Alignment explanation
Indices: 10289023--10289120 Score: 61
Period size: 20 Copynumber: 4.9 Consensus size: 19
10289013 TGTTTATATG
* **
10289023 GATGAATTACTGTTAATATT
1 GATGAACTACTGTT-ATACA
* *
10289043 GATGAATTACTGTTAATACG
1 GATGAACTACTGTT-ATACA
* * *
10289063 GATGAATTACTATTATTACT
1 GATGAACTACTGTTA-TACA
* *
10289083 GATGAGCTACTATTTATACA
1 GATGAACTACT-GTTATACA
10289103 GATGAACTACTGGTTATA
1 GATGAACTACT-GTTATA
10289121 TGAATGTATT
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
19 1 0.02
20 61 0.94
21 3 0.05
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.39
Consensus pattern (19 bp):
GATGAACTACTGTTATACA
Found at i:10290605 original size:8 final size:8
Alignment explanation
Indices: 10290588--10290622 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
10290578 ATGATGTATG
*
10290588 TGTTTGAA
1 TGTTTAAA
10290596 TGTTTAAA
1 TGTTTAAA
10290604 TGTTTAAA
1 TGTTTAAA
10290612 TGTTTAAA
1 TGTTTAAA
10290620 TGT
1 TGT
10290623 ATGAGATATG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.17, T:0.51
Consensus pattern (8 bp):
TGTTTAAA
Found at i:10294996 original size:35 final size:36
Alignment explanation
Indices: 10294950--10295020 Score: 108
Period size: 35 Copynumber: 2.0 Consensus size: 36
10294940 ATTCGGTATG
* *
10294950 ATAATATGCATTAGGTATGCGAA-TGAGTATTTAAA
1 ATAATATGCATTAGGTATGCAAATTGAATATTTAAA
*
10294985 ATAATATGCATTAGGTGTGCAAATTGAATATTTAAA
1 ATAATATGCATTAGGTATGCAAATTGAATATTTAAA
10295021 TGTATGTACT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 21 0.66
36 11 0.34
ACGTcount: A:0.41, C:0.06, G:0.18, T:0.35
Consensus pattern (36 bp):
ATAATATGCATTAGGTATGCAAATTGAATATTTAAA
Found at i:10295537 original size:20 final size:19
Alignment explanation
Indices: 10295486--10295544 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 19
10295476 AATATATGTG
* *
10295486 TTTATATGGATGAATTACT
1 TTTATACGGATGAACTACT
* *
10295505 CTTATTACTGATGAACTACT
1 TTTA-TACGGATGAACTACT
10295525 ATTTATACGGATGAACTACT
1 -TTTATACGGATGAACTACT
10295545 GGTTATATGA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
19 3 0.09
20 26 0.81
21 3 0.09
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.41
Consensus pattern (19 bp):
TTTATACGGATGAACTACT
Found at i:10295558 original size:20 final size:20
Alignment explanation
Indices: 10295515--10295559 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
10295505 CTTATTACTG
* *
10295515 ATGAACTACTATTTATACGG
1 ATGAACTACTAGTTATACGA
* *
10295535 ATGAACTACTGGTTATATGA
1 ATGAACTACTAGTTATACGA
10295555 ATGAA
1 ATGAA
10295560 TTAAAATTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.33
Consensus pattern (20 bp):
ATGAACTACTAGTTATACGA
Found at i:10302755 original size:18 final size:18
Alignment explanation
Indices: 10302732--10302771 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
10302722 TTGTAAACTT
10302732 AACGCGTTTATTGTTTTA
1 AACGCGTTTATTGTTTTA
10302750 AACGCGTTTATTGTTTTA
1 AACGCGTTTATTGTTTTA
10302768 AACG
1 AACG
10302772 TGTAGGTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.25, C:0.12, G:0.17, T:0.45
Consensus pattern (18 bp):
AACGCGTTTATTGTTTTA
Found at i:10319245 original size:12 final size:12
Alignment explanation
Indices: 10319228--10319252 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10319218 GGTTCCATAT
10319228 GCTTCAAAGTTG
1 GCTTCAAAGTTG
10319240 GCTTCAAAGTTG
1 GCTTCAAAGTTG
10319252 G
1 G
10319253 AAGTCTTATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (12 bp):
GCTTCAAAGTTG
Found at i:10323517 original size:39 final size:39
Alignment explanation
Indices: 10323472--10323548 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 39
10323462 TGGAGATAAA
10323472 AAAAAGTAGGAAAACTAGCAAACAGGTAAGGTTCTTAAT
1 AAAAAGTAGGAAAACTAGCAAACAGGTAAGGTTCTTAAT
* *
10323511 AAAAAGTAGGGAAACTAGCAAGCAGGTAAGGTTCTTAA
1 AAAAAGTAGGAAAACTAGCAAACAGGTAAGGTTCTTAA
10323549 CCCTTCTGTG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.47, C:0.10, G:0.23, T:0.19
Consensus pattern (39 bp):
AAAAAGTAGGAAAACTAGCAAACAGGTAAGGTTCTTAAT
Found at i:10328882 original size:26 final size:26
Alignment explanation
Indices: 10328859--10328966 Score: 135
Period size: 26 Copynumber: 4.2 Consensus size: 26
10328849 CAAAAGTCTG
* *
10328859 CAAGGACTATTCCCTGTATGAGTCCG
1 CAAGGACTATTCCATGTATGAGTCCA
*
10328885 CAAGGACTATTCCATGTATGATTCCA
1 CAAGGACTATTCCATGTATGAGTCCA
* *
10328911 CGAGGATTATTCCATGTATGAGTCCA
1 CAAGGACTATTCCATGTATGAGTCCA
* * * *
10328937 CAAGCACTATTCCAAGCATGAGTTCA
1 CAAGGACTATTCCATGTATGAGTCCA
10328963 CAAG
1 CAAG
10328967 AATCATTATT
Statistics
Matches: 70, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 70 1.00
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (26 bp):
CAAGGACTATTCCATGTATGAGTCCA
Found at i:10329270 original size:18 final size:18
Alignment explanation
Indices: 10329247--10329282 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
10329237 GTCTAAGTCT
10329247 ACCAAAACCTAGCTGTAG
1 ACCAAAACCTAGCTGTAG
10329265 ACCAAAACCTAGCTGTAG
1 ACCAAAACCTAGCTGTAG
10329283 GTTTAAGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.28, G:0.17, T:0.17
Consensus pattern (18 bp):
ACCAAAACCTAGCTGTAG
Done.