Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 77 of 186
Found at i:24738289 original size:41 final size:41
Alignment explanation
Indices: 24738232--24738309 Score: 120
Period size: 41 Copynumber: 1.9 Consensus size: 41
24738222 AATGAAATTG
*
24738232 AGGATCGAATAGTTGCTTGATGACCGTGGATCCACCGATTA
1 AGGATCGAATAGTTGCTTGACGACCGTGGATCCACCGATTA
* * *
24738273 AGGATCGCATGGTTGCTTGACGATCGTGGATCCACCG
1 AGGATCGAATAGTTGCTTGACGACCGTGGATCCACCG
24738310 GTGGCTTTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (41 bp):
AGGATCGAATAGTTGCTTGACGACCGTGGATCCACCGATTA
Found at i:24738712 original size:22 final size:22
Alignment explanation
Indices: 24738687--24738733 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
24738677 ATTGCTGCGA
* *
24738687 TGTTTACGGCTATGTGTTGTTC
1 TGTTTACGGCTATGTGATGTCC
*
24738709 TGTTTATGGCTATGTGATGTCC
1 TGTTTACGGCTATGTGATGTCC
24738731 TGT
1 TGT
24738734 CTATGGCGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.11, C:0.13, G:0.28, T:0.49
Consensus pattern (22 bp):
TGTTTACGGCTATGTGATGTCC
Found at i:24738738 original size:22 final size:22
Alignment explanation
Indices: 24738694--24738740 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
24738684 CGATGTTTAC
* * *
24738694 GGCTATGTGTTGTTCTGTTTAT
1 GGCTATGTGATGTCCTGTCTAT
24738716 GGCTATGTGATGTCCTGTCTAT
1 GGCTATGTGATGTCCTGTCTAT
24738738 GGC
1 GGC
24738741 GTTGAGCTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.11, C:0.15, G:0.30, T:0.45
Consensus pattern (22 bp):
GGCTATGTGATGTCCTGTCTAT
Found at i:24740687 original size:19 final size:19
Alignment explanation
Indices: 24740631--24740688 Score: 55
Period size: 19 Copynumber: 3.0 Consensus size: 19
24740621 GATTTGGTTA
*
24740631 ATTAAGTTTAACTTAAACTA-
1 ATTAAGATTAA-TTAAA-TAT
* * *
24740651 ATTAAGGTTAGTTTAATAT
1 ATTAAGATTAATTAAATAT
24740670 ATTAAGATTAATTAAATAT
1 ATTAAGATTAATTAAATAT
24740689 TAATGATAGT
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
18 2 0.06
19 20 0.65
20 9 0.29
ACGTcount: A:0.45, C:0.03, G:0.09, T:0.43
Consensus pattern (19 bp):
ATTAAGATTAATTAAATAT
Found at i:24743064 original size:21 final size:21
Alignment explanation
Indices: 24743040--24743118 Score: 68
Period size: 21 Copynumber: 3.8 Consensus size: 21
24743030 CGAAAGCTCG
*
24743040 TAAGAGCTAAACGGAAACCCA
1 TAAGAGCTAAACAGAAACCCA
* * * *
24743061 TAAGGGTTAAACTGAAGCCCA
1 TAAGAGCTAAACAGAAACCCA
* * *
24743082 AAAGAGCTGAACAGAAACTCA
1 TAAGAGCTAAACAGAAACCCA
* *
24743103 TATGAGTTAAACAGAA
1 TAAGAGCTAAACAGAA
24743119 GCTTTAGAGC
Statistics
Matches: 43, Mismatches: 15, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.15
Consensus pattern (21 bp):
TAAGAGCTAAACAGAAACCCA
Found at i:24743087 original size:42 final size:42
Alignment explanation
Indices: 24743041--24743120 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 42
24743031 GAAAGCTCGT
* * *
24743041 AAGAGCTAAACGGAAACCCATAAGGGTTAAACTGAAGCCCAA
1 AAGAGCTAAACAGAAACCCATAAGAGTTAAACAGAAGCCCAA
* * *
24743083 AAGAGCTGAACAGAAACTCATATGAGTTAAACAGAAGC
1 AAGAGCTAAACAGAAACCCATAAGAGTTAAACAGAAGC
24743121 TTTAGAGCTA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.46, C:0.19, G:0.21, T:0.14
Consensus pattern (42 bp):
AAGAGCTAAACAGAAACCCATAAGAGTTAAACAGAAGCCCAA
Found at i:24744059 original size:5 final size:5
Alignment explanation
Indices: 24744049--24744073 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
24744039 TCATTTTGGC
24744049 TATTT TATTT TATTT TATTT TATTT
1 TATTT TATTT TATTT TATTT TATTT
24744074 CCAATTTTGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TATTT
Found at i:24748327 original size:44 final size:42
Alignment explanation
Indices: 24748226--24748342 Score: 126
Period size: 44 Copynumber: 2.7 Consensus size: 42
24748216 CCAAATATCG
* * * * * *
24748226 ATGCCACTGTCCGAGACAGGGTCTTACACGAAATCATATACG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCACAAACA
* * *
24748268 ACGCCAATGTTCCAGACATGGTATTACACGTAAATCACAAATCA
1 ATGCCAATGTCCCAGACATGGTCTTACACG-AAATCACAAA-CA
*
24748312 ATGCCAATGTCCCAGACGTGGTCTTACACGA
1 ATGCCAATGTCCCAGACATGGTCTTACACGA
24748343 TAACACATAT
Statistics
Matches: 60, Mismatches: 13, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
42 24 0.40
43 9 0.15
44 27 0.45
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.22
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAAATCACAAACA
Found at i:24779611 original size:27 final size:27
Alignment explanation
Indices: 24779574--24779660 Score: 122
Period size: 27 Copynumber: 3.2 Consensus size: 27
24779564 AGTATGGCTG
* *
24779574 CCAG-AACAGATATTGTGACAGAGTCA
1 CCAGAAACAGATATTGTGGCAGAGCCA
*
24779600 CCAGAAACAGATATTGTGGTAGAGCCA
1 CCAGAAACAGATATTGTGGCAGAGCCA
*
24779627 CCAAAAACAGATATTTGTGGCAGAGCCA
1 CCAGAAACAGATA-TTGTGGCAGAGCCA
24779655 CCAGAA
1 CCAGAA
24779661 CGCTTCCTCC
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
26 4 0.08
27 31 0.58
28 18 0.34
ACGTcount: A:0.39, C:0.21, G:0.23, T:0.17
Consensus pattern (27 bp):
CCAGAAACAGATATTGTGGCAGAGCCA
Found at i:24786109 original size:774 final size:774
Alignment explanation
Indices: 24784621--24786169 Score: 3071
Period size: 774 Copynumber: 2.0 Consensus size: 774
24784611 CCGGAAAAAA
24784621 AGGAGGTGAGTCTATTAGACTGCTTAAGTACCAATCTCTCCATGGATCCACTCCTAGACATGCAC
1 AGGAGGTGAGTCTATTAGACTGCTTAAGTACCAATCTCTCCATGGATCCACTCCTAGACATGCAC
24784686 ACAACCATTGCCACACTTTAACTGAATGATTGTTCACGAAAAAACCATTTCATTTTAAGCTTTTG
66 ACAACCATTGCCACACTTTAACTGAATGATTGTTCACGAAAAAACCATTTCATTTTAAGCTTTTG
24784751 AAAACACTTATTAATTTTTTAAAACGTTTTTCATTTCGGAAGCTTTGTCTTGTTTCACGATATTT
131 AAAACACTTATTAATTTTTTAAAACGTTTTTCATTTCGGAAGCTTTGTCTTGTTTCACGATATTT
24784816 TAAAATCAGGTAATCTCTTTTAAAAACGCACCCTAGAGCTATTCAATTTCAAACATTTAAATCCA
196 TAAAATCAGGTAATCTCTTTTAAAAACGCACCCTAGAGCTATTCAATTTCAAACATTTAAATCCA
*
24784881 TATCATGCCTAAGCTAATAGTCATACTAAAGAAATTAAAAATAATTAAAGCGGCCTTATTACAAC
261 TATCATGCCTAAGCTAATAATCATACTAAAGAAATTAAAAATAATTAAAGCGGCCTTATTACAAC
24784946 TTAAAACCCAAAGCAATTAAAGTAAATGAAACTAATCCAGTCATAAGAAGGAAATTGAGCTTGCA
326 TTAAAACCCAAAGCAATTAAAGTAAATGAAACTAATCCAGTCATAAGAAGGAAATTGAGCTTGCA
24785011 AAACATATGGCCACTTCGAATCCCTCTCAGCTCCAAGTCCACTATGGTTGGGGGTTACCTGCACA
391 AAACATATGGCCACTTCGAATCCCTCTCAGCTCCAAGTCCACTATGGTTGGGGGTTACCTGCACA
24785076 GATAAAATTAAGGGGTGAGTTTGGAAAACTCAGTGTGTAAAATAGCCCAACCATAGTCCAGATCA
456 GATAAAATTAAGGGGTGAGTTTGGAAAACTCAGTGTGTAAAATAGCCCAACCATAGTCCAGATCA
24785141 GTTCAAACCACAGAAATAGATTAAGTTGGGCCTTAGCCCTATACAAAATTCAGAATGAAGCCCAT
521 GTTCAAACCACAGAAATAGATTAAGTTGGGCCTTAGCCCTATACAAAATTCAGAATGAAGCCCAT
24785206 AGGCCCATAATAGAAACAGAACATATATATCTTGTATGGAGAAAACCCAACCCATATCCATCTGT
586 AGGCCCATAATAGAAACAGAACATATATATCTTGTATGGAGAAAACCCAACCCATATCCATCTGT
24785271 ATACACCTCCTGCCAGCCTTACATCATGTGGGGAGACTACTCGACCCACCCACCCGCTACACGTC
651 ATACACCTCCTGCCAGCCTTACATCATGTGGGGAGACTACTCGACCCACCCACCCGCTACACGTC
24785336 ACAAAATTTGCAGCATGGCTGCCAGAATAGATATTGTGATAGAGTCACCAGATACAGAT
716 ACAAAATTTGCAGCATGGCTGCCAGAATAGATATTGTGATAGAGTCACCAGATACAGAT
24785395 AGGAGGTGAGTCTATTAGACTGCTTAAGTACCAATCTCTCCATGGATCCACTCCTAGACATGCAC
1 AGGAGGTGAGTCTATTAGACTGCTTAAGTACCAATCTCTCCATGGATCCACTCCTAGACATGCAC
24785460 ACAACCATTGCCACACTTTAACTGAATGATTGTTCACGAAAAAACCATTTCATTTTAAGCTTTTG
66 ACAACCATTGCCACACTTTAACTGAATGATTGTTCACGAAAAAACCATTTCATTTTAAGCTTTTG
24785525 AAAACACTTATTAATTTTTTAAAACGTTTTTCATTTCGGAAGCTTTGTCTTGTTTCACGATATTT
131 AAAACACTTATTAATTTTTTAAAACGTTTTTCATTTCGGAAGCTTTGTCTTGTTTCACGATATTT
**
24785590 TAAAATCAGGTAATCTCTTTTAAAAACGTGCCCTAGAGCTATTCAATTTCAAACATTTAAATCCA
196 TAAAATCAGGTAATCTCTTTTAAAAACGCACCCTAGAGCTATTCAATTTCAAACATTTAAATCCA
24785655 TATCATGCCTAAGCTAATAATCATACTAAAGAAATTAAAAATAATTAAAGCGGCCTTATTACAAC
261 TATCATGCCTAAGCTAATAATCATACTAAAGAAATTAAAAATAATTAAAGCGGCCTTATTACAAC
24785720 TTAAAACCCAAAGCAATTAAAGTAAATGAAACTAATCCAGTCATAAGAAGGAAATTGAGCTTGCA
326 TTAAAACCCAAAGCAATTAAAGTAAATGAAACTAATCCAGTCATAAGAAGGAAATTGAGCTTGCA
24785785 AAACATATGGCCACTTCGAATCCCTCTCAGCTCCAAGTCCACTATGGTTGGGGGTTACCTGCACA
391 AAACATATGGCCACTTCGAATCCCTCTCAGCTCCAAGTCCACTATGGTTGGGGGTTACCTGCACA
24785850 GATAAAATTAAGGGGTGAGTTTGGAAAACTCAGTGTGTAAAATAGCCCAACCATAGTCCAGATCA
456 GATAAAATTAAGGGGTGAGTTTGGAAAACTCAGTGTGTAAAATAGCCCAACCATAGTCCAGATCA
24785915 GTTCAAACCACAGAAATAGATTAAGTTGGGCCTTAGCCCTATACAAAATTCAGAATGAAGCCCAT
521 GTTCAAACCACAGAAATAGATTAAGTTGGGCCTTAGCCCTATACAAAATTCAGAATGAAGCCCAT
24785980 AGGCCCATAATAGAAACAGAACATATATATCTTGTATGGAGAAAACCCAACCCATATCCATCTGT
586 AGGCCCATAATAGAAACAGAACATATATATCTTGTATGGAGAAAACCCAACCCATATCCATCTGT
24786045 ATACACCTCCTGCCAGCCTTACATCATGTGGGGAGACTACTCGACCCACCCACCCGCTACACGTC
651 ATACACCTCCTGCCAGCCTTACATCATGTGGGGAGACTACTCGACCCACCCACCCGCTACACGTC
24786110 ACAAAATTTGCAGCATGGCTGCCAGAATAGATATTGTGATAGAGTCACCAGATACAGAT
716 ACAAAATTTGCAGCATGGCTGCCAGAATAGATATTGTGATAGAGTCACCAGATACAGAT
24786169 A
1 A
24786170 TTGTGGCAGA
Statistics
Matches: 772, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
774 772 1.00
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (774 bp):
AGGAGGTGAGTCTATTAGACTGCTTAAGTACCAATCTCTCCATGGATCCACTCCTAGACATGCAC
ACAACCATTGCCACACTTTAACTGAATGATTGTTCACGAAAAAACCATTTCATTTTAAGCTTTTG
AAAACACTTATTAATTTTTTAAAACGTTTTTCATTTCGGAAGCTTTGTCTTGTTTCACGATATTT
TAAAATCAGGTAATCTCTTTTAAAAACGCACCCTAGAGCTATTCAATTTCAAACATTTAAATCCA
TATCATGCCTAAGCTAATAATCATACTAAAGAAATTAAAAATAATTAAAGCGGCCTTATTACAAC
TTAAAACCCAAAGCAATTAAAGTAAATGAAACTAATCCAGTCATAAGAAGGAAATTGAGCTTGCA
AAACATATGGCCACTTCGAATCCCTCTCAGCTCCAAGTCCACTATGGTTGGGGGTTACCTGCACA
GATAAAATTAAGGGGTGAGTTTGGAAAACTCAGTGTGTAAAATAGCCCAACCATAGTCCAGATCA
GTTCAAACCACAGAAATAGATTAAGTTGGGCCTTAGCCCTATACAAAATTCAGAATGAAGCCCAT
AGGCCCATAATAGAAACAGAACATATATATCTTGTATGGAGAAAACCCAACCCATATCCATCTGT
ATACACCTCCTGCCAGCCTTACATCATGTGGGGAGACTACTCGACCCACCCACCCGCTACACGTC
ACAAAATTTGCAGCATGGCTGCCAGAATAGATATTGTGATAGAGTCACCAGATACAGAT
Found at i:24786169 original size:27 final size:27
Alignment explanation
Indices: 24786138--24786242 Score: 140
Period size: 27 Copynumber: 3.9 Consensus size: 27
24786128 CTGCCAGAAT
** *
24786138 AGATATTGTGATAGAGTCACCAGATAC
1 AGATATTGTGGCAGAGCCACCAGATAC
*
24786165 AGATATTGTGGCAGAGCCACCAGAAAC
1 AGATATTGTGGCAGAGCCACCAGATAC
*
24786192 AGATATTTGTGGCAGAGCCACTAGAT-C
1 AGATA-TTGTGGCAGAGCCACCAGATAC
24786219 AGATATTTGTGGCAGAGCCACCAG
1 AGATA-TTGTGGCAGAGCCACCAG
24786243 GATGCTTCCT
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
27 52 0.74
28 18 0.26
ACGTcount: A:0.33, C:0.19, G:0.26, T:0.22
Consensus pattern (27 bp):
AGATATTGTGGCAGAGCCACCAGATAC
Found at i:24790449 original size:39 final size:39
Alignment explanation
Indices: 24790370--24790553 Score: 210
Period size: 39 Copynumber: 4.6 Consensus size: 39
24790360 GCTACTCGTT
* *
24790370 CAAATGCCTTCGGGACATAGACCGG-TTATAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGATT-TAGTAACTCGCA
*
24790410 CAAATGCCTTCGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
24790449 CCAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
24790488 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
24790529 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTC-GGACTTAGCCCGGA
24790554 CATCATTCGA
Statistics
Matches: 124, Mismatches: 16, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
39 69 0.56
40 44 0.35
41 11 0.09
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:24790513 original size:79 final size:80
Alignment explanation
Indices: 24790372--24790553 Score: 228
Period size: 79 Copynumber: 2.3 Consensus size: 80
24790362 TACTCGTTCA
* * *
24790372 AATGCCTTCGGGACATAGACCGG-TTATAGTAACTCGCACAAATGCCTTCGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGACTTAACCCGGAT
* *
24790436 TTAGTAAC-TCGCACC
66 ATAGTAACTTAGCA-C
**
24790451 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGA-CTTAACCCGGA
* *
24790514 TATGGTCACTTAGCAC
65 TATAGTAACTTAGCAC
*
24790530 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
24790554 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
78 34 0.38
79 40 0.45
80 15 0.17
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGACTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:24790832 original size:63 final size:63
Alignment explanation
Indices: 24790733--24790855 Score: 210
Period size: 63 Copynumber: 2.0 Consensus size: 63
24790723 ATAATTTAAG
24790733 CTCTATTACTCAAGAACTTACCTCGGATGTGGTCGAGCAATTTCAACAGCTATTCGATCAGTT
1 CTCTATTACTCAAGAACTTACCTCGGATGTGGTCGAGCAATTTCAACAGCTATTCGATCAGTT
* * **
24790796 CTCTATTACTCAATAACTTACCTCGGATGTGGTCGAGCGATTTTGACAGCTATTCGATCA
1 CTCTATTACTCAAGAACTTACCTCGGATGTGGTCGAGCAATTTCAACAGCTATTCGATCA
24790856 CTTTTTCCTT
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
63 56 1.00
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.33
Consensus pattern (63 bp):
CTCTATTACTCAAGAACTTACCTCGGATGTGGTCGAGCAATTTCAACAGCTATTCGATCAGTT
Found at i:24791265 original size:37 final size:37
Alignment explanation
Indices: 24791215--24791968 Score: 1508
Period size: 37 Copynumber: 20.4 Consensus size: 37
24791205 AGGCTACCTA
24791215 TGGCCGAACATACACATAACTTATGTACTTATTCATG
1 TGGCCGAACATACACATAACTTATGTACTTATTCATG
24791252 TGGCCGAACATACACATAACTTATGTACTTATTCATG
1 TGGCCGAACATACACATAACTTATGTACTTATTCATG
24791289 TGGCCGAACATACACATAACTTATGTACTTATTCATG
1 TGGCCGAACATACACATAACTTATGTACTTATTCATG
24791326 TGGCCGAACATACACATAACTTATGTACTTATTCATG
1 TGGCCGAACATACACATAACTTATGTACTTATTCATG
24791363 TGGCCGAACATACACATAACTTATGTACTTATTCATG
1 TGGCCGAACATACACATAACTTATGTACTTATTCATG
24791400 TGGCCGAACATACACATAACTTATGTACTTATTCATG
1 TGGCCGAACATACACATAACTTATGTACTTATTCATG
24791437 TGGCCGAACATACACATAACTTATGTACTTATTCATG
1 TGGCCGAACATACACATAACTTATGTACTTATTCATG
24791474 TGGCCGAACATACACATAACTTATGTACTTATTCATG
1 TGGCCGAACATACACATAACTTATGTACTTATTCATG
24791511 TGGCCGAACATACACATAACTTATGTACTTATTCATG
1 TGGCCGAACATACACATAACTTATGTACTTATTCATG
24791548 TGGCCGAACATACACATAACTTATGTACTTATTCATG
1 TGGCCGAACATACACATAACTTATGTACTTATTCATG
24791585 TGGCCGAACATACACATAACTTATGTACTTATTCATG
1 TGGCCGAACATACACATAACTTATGTACTTATTCATG
24791622 TGGCCGAACATACACATAACTTATGTACTTATTCATG
1 TGGCCGAACATACACATAACTTATGTACTTATTCATG
24791659 TGGCCGAACATACACATAACTTATGTACTTATTCATG
1 TGGCCGAACATACACATAACTTATGTACTTATTCATG
24791696 TGGCCGAACATACACATAACTTATGTACTTATTCATG
1 TGGCCGAACATACACATAACTTATGTACTTATTCATG
24791733 TGGCCGAACATACACATAACTTATGTACTTATTCATG
1 TGGCCGAACATACACATAACTTATGTACTTATTCATG
24791770 TGGCCGAACATACACATAACTTATGTACTTATTCATG
1 TGGCCGAACATACACATAACTTATGTACTTATTCATG
24791807 TGGCCGAACATACACATAACTTATGTACTTATTCATG
1 TGGCCGAACATACACATAACTTATGTACTTATTCATG
24791844 TGGCCGAACATACACATAACTTATGTACTTATTCATG
1 TGGCCGAACATACACATAACTTATGTACTTATTCATG
24791881 TGGCCGAACATACACATAACTTATGTACTTATTCATG
1 TGGCCGAACATACACATAACTTATGTACTTATTCATG
24791918 TGGCCGAACATACACATAACTTATGTACTTATTCATG
1 TGGCCGAACATACACATAACTTATGTACTTATTCATG
24791955 TGGCCGAACATACA
1 TGGCCGAACATACA
24791969 TGTCTATGTT
Statistics
Matches: 717, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 717 1.00
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (37 bp):
TGGCCGAACATACACATAACTTATGTACTTATTCATG
Found at i:24800159 original size:37 final size:37
Alignment explanation
Indices: 24800118--24800195 Score: 131
Period size: 37 Copynumber: 2.1 Consensus size: 37
24800108 GTTTAACATA
*
24800118 ATGTCAAATTATGTCATTGCAAAA-ATGAACATCAACT
1 ATGTCAAATTATGTCATTGCAAAACA-GAACACCAACT
24800155 ATGTCAAATTATGTCATTGCAAAACAGAACACCAACT
1 ATGTCAAATTATGTCATTGCAAAACAGAACACCAACT
24800192 ATGT
1 ATGT
24800196 AGACCTAGGA
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
37 38 0.97
38 1 0.03
ACGTcount: A:0.42, C:0.18, G:0.12, T:0.28
Consensus pattern (37 bp):
ATGTCAAATTATGTCATTGCAAAACAGAACACCAACT
Found at i:24800221 original size:18 final size:18
Alignment explanation
Indices: 24800198--24800233 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
24800188 AACTATGTAG
*
24800198 ACCTAGGACGTGCTAATA
1 ACCTAGGACGTACTAATA
24800216 ACCTAGGACGTACTAATA
1 ACCTAGGACGTACTAATA
24800234 TGGAAAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.22
Consensus pattern (18 bp):
ACCTAGGACGTACTAATA
Found at i:24806714 original size:42 final size:42
Alignment explanation
Indices: 24806589--24806726 Score: 161
Period size: 42 Copynumber: 3.1 Consensus size: 42
24806579 CATTTTTTAA
*
24806589 TTTACTATTAGACGTTTGTGGAACCAAAAAGCTATGACTTAC
1 TTTACTATTAGACGTTTGTGGAACCAGAAAGCTATGACTTAC
* *
24806631 -TTCCTATTTAGAAGTCGAGACATATGTGGAACCAGAAAGCTATGACTTAC
1 TTTACTA-TTAG-A--C--G---TTTGTGGAACCAGAAAGCTATGACTTAC
24806681 TTTACTATTAGACGTTTGTGGAACCAGAAAGCTATGACTTAC
1 TTTACTATTAGACGTTTGTGGAACCAGAAAGCTATGACTTAC
24806723 TTTA
1 TTTA
24806727 AGGTCAGTAT
Statistics
Matches: 81, Mismatches: 5, Indels: 20
0.76 0.05 0.19
Matches are distributed among these distances:
41 5 0.06
42 35 0.43
43 1 0.01
45 2 0.02
47 2 0.02
49 1 0.01
50 30 0.37
51 5 0.06
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
Consensus pattern (42 bp):
TTTACTATTAGACGTTTGTGGAACCAGAAAGCTATGACTTAC
Found at i:24817710 original size:26 final size:27
Alignment explanation
Indices: 24817658--24817714 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
24817648 AAAAGTTATT
24817658 AAATGACCAAAATACCCATAAAGGGTA
1 AAATGACCAAAATACCCATAAAGGGTA
* *
24817685 AAATGACCAAAATACCCCTAGA-GGTA
1 AAATGACCAAAATACCCATAAAGGGTA
24817711 AAAT
1 AAAT
24817715 TACCGTTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.51, C:0.19, G:0.14, T:0.16
Consensus pattern (27 bp):
AAATGACCAAAATACCCATAAAGGGTA
Found at i:24821022 original size:26 final size:26
Alignment explanation
Indices: 24820966--24821034 Score: 84
Period size: 26 Copynumber: 2.7 Consensus size: 26
24820956 GGGGTTATAG
* *
24820966 AGCCTTTGCGGTTATCTCTGAATGCA
1 AGCCTTTGTGGTTATCTCTGAAAGCA
* * *
24820992 CGCCTTTATGGTTATCTCTGAAAGGA
1 AGCCTTTGTGGTTATCTCTGAAAGCA
*
24821018 AGCCTTTGTGGCTATCT
1 AGCCTTTGTGGTTATCT
24821035 TAGTTAAAAG
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.19, C:0.22, G:0.23, T:0.36
Consensus pattern (26 bp):
AGCCTTTGTGGTTATCTCTGAAAGCA
Found at i:24821051 original size:29 final size:29
Alignment explanation
Indices: 24821019--24821196 Score: 154
Period size: 29 Copynumber: 6.2 Consensus size: 29
24821009 CTGAAAGGAA
24821019 GCCTTTGTGGCTATCTTAGTTAAAAGAAT
1 GCCTTTGTGGCTATCTTAGTTAAAAGAAT
* **
24821048 GCCTTTGTGG-TGATCTCTA-TTATAAGTTT
1 GCCTTTGTGGCT-ATCT-TAGTTAAAAGAAT
* *
24821077 GCATTTGTGGCTATCTTATTTAAAAGAAT
1 GCCTTTGTGGCTATCTTAGTTAAAAGAAT
24821106 GCCTTTGTGGCTATCTCTA-TTAAAA-ATAT
1 GCCTTTGTGGCTATCT-TAGTTAAAAGA-AT
* * *
24821135 GCCTTTGTGGCTAT-TTCTGTTAAAAGGAC
1 GCCTTTGTGGCTATCTT-AGTTAAAAGAAT
* * *
24821164 GCCTTCGTGGCCATTTTTAG--AAAAGAAT
1 GCCTTTGTGGCTA-TCTTAGTTAAAAGAAT
24821192 GCCTT
1 GCCTT
24821197 CATGGTGAAA
Statistics
Matches: 122, Mismatches: 16, Indels: 23
0.76 0.10 0.14
Matches are distributed among these distances:
27 1 0.01
28 16 0.13
29 96 0.79
30 7 0.06
31 2 0.02
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.40
Consensus pattern (29 bp):
GCCTTTGTGGCTATCTTAGTTAAAAGAAT
Found at i:24821091 original size:58 final size:58
Alignment explanation
Indices: 24821022--24821174 Score: 193
Period size: 58 Copynumber: 2.6 Consensus size: 58
24821012 AAAGGAAGCC
* * *
24821022 TTTGTGGCTATCTTAGTTAAAAGAATGCCTTTGTGG-TGATCTCTATTATAAGTTTGCA
1 TTTGTGGCTATCTTAGTTAAAAGAATGCCTTTGTGGCT-ATCTCTATTAAAAATATGCA
* *
24821080 TTTGTGGCTATCTTATTTAAAAGAATGCCTTTGTGGCTATCTCTATTAAAAATATGCC
1 TTTGTGGCTATCTTAGTTAAAAGAATGCCTTTGTGGCTATCTCTATTAAAAATATGCA
* * * *
24821138 TTTGTGGCTAT-TTCTGTTAAAAGGACGCCTTCGTGGC
1 TTTGTGGCTATCTT-AGTTAAAAGAATGCCTTTGTGGC
24821175 CATTTTTAGA
Statistics
Matches: 83, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
57 2 0.02
58 80 0.96
59 1 0.01
ACGTcount: A:0.24, C:0.15, G:0.20, T:0.41
Consensus pattern (58 bp):
TTTGTGGCTATCTTAGTTAAAAGAATGCCTTTGTGGCTATCTCTATTAAAAATATGCA
Found at i:24821174 original size:87 final size:86
Alignment explanation
Indices: 24821011--24821196 Score: 193
Period size: 87 Copynumber: 2.2 Consensus size: 86
24821001 GGTTATCTCT
* * *
24821011 GAAAGGAA-GCCTTTGTGGCTATCTTAGTTAAAAGAATGCCTTTGTGGTGATCTCTATTATAAGT
1 GAAAAGAATGCCTTTGTGGCTATCTTAGTTAAAAGAATGCCTTTGTGGTGATCTCTATTAAAAGG
** * *
24821075 TTGCATTTGTGGCTATCTTATT-
66 ACGCATTCGTGGCCAT-TT-TTA
* * *
24821097 TAAAAGAATGCCTTTGTGGCTATCTCTA-TTAAAA-ATATGCCTTTGTGGCT-ATTTCTGTTAAA
1 GAAAAGAATGCCTTTGTGGCTATCT-TAGTTAAAAGA-ATGCCTTTGTGG-TGATCTCTATTAAA
*
24821159 AGGACGCCTTCGTGGCCATTTTTA
63 AGGACGCATTCGTGGCCATTTTTA
24821183 GAAAAGAATGCCTT
1 GAAAAGAATGCCTT
24821197 CATGGTGAAA
Statistics
Matches: 83, Mismatches: 12, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
85 2 0.02
86 22 0.27
87 56 0.67
88 3 0.04
ACGTcount: A:0.26, C:0.15, G:0.20, T:0.38
Consensus pattern (86 bp):
GAAAAGAATGCCTTTGTGGCTATCTTAGTTAAAAGAATGCCTTTGTGGTGATCTCTATTAAAAGG
ACGCATTCGTGGCCATTTTTA
Found at i:24822994 original size:40 final size:38
Alignment explanation
Indices: 24822950--24823050 Score: 105
Period size: 40 Copynumber: 2.6 Consensus size: 38
24822940 AAATCATAAT
*
24822950 AATTATAATTACCATAATTATAATAATGTTTGACTAAAAA
1 AATTATAATTACCATAATTATAATAATATTTGA-T-AAAA
* * ***
24822990 AATTACAATTA-CAGTAGTTATAATAATATTTGATCCTA
1 AATTATAATTACCA-TAATTATAATAATATTTGATAAAA
*
24823028 AATTATAATTACAATAATTATAA
1 AATTATAATTACCATAATTATAA
24823051 CAAGGATTTC
Statistics
Matches: 50, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
38 19 0.38
39 4 0.08
40 27 0.54
ACGTcount: A:0.49, C:0.08, G:0.05, T:0.39
Consensus pattern (38 bp):
AATTATAATTACCATAATTATAATAATATTTGATAAAA
Found at i:24835842 original size:27 final size:27
Alignment explanation
Indices: 24835812--24835880 Score: 102
Period size: 27 Copynumber: 2.6 Consensus size: 27
24835802 TAAATTGTAC
* *
24835812 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAGTTGATTACAT
*
24835839 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGATTACAT
*
24835866 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
24835881 GACTCAATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGATTACAT
Found at i:24844500 original size:22 final size:22
Alignment explanation
Indices: 24844472--24844513 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
24844462 TTTTATTCGA
24844472 GCTAAGTCCCAAAGGCATTTGG
1 GCTAAGTCCCAAAGGCATTTGG
*
24844494 GCTAAGTCCCGAAGGCATTT
1 GCTAAGTCCCAAAGGCATTT
24844514 ATGCTAGTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (22 bp):
GCTAAGTCCCAAAGGCATTTGG
Found at i:24844519 original size:22 final size:22
Alignment explanation
Indices: 24844472--24844519 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
24844462 TTTTATTCGA
*
24844472 GCTAAGTCCCAAAGGCATTTGG
1 GCTAAGTCCCAAAGGCATTTAG
* *
24844494 GCTAAGTCCCGAAGGCATTTAT
1 GCTAAGTCCCAAAGGCATTTAG
24844516 GCTA
1 GCTA
24844520 GTGATTTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (22 bp):
GCTAAGTCCCAAAGGCATTTAG
Found at i:24844528 original size:62 final size:62
Alignment explanation
Indices: 24844430--24844554 Score: 196
Period size: 62 Copynumber: 2.0 Consensus size: 62
24844420 AATGATATCC
* * * *
24844430 GGGCTAAGTCTCGAAGGCATTTATGCTAGTGCTTTTATTCGAGCTAAGTCCCAAAGGCATTT
1 GGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGAGCTAAGACCCAAAGGCATTT
* *
24844492 GGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTT
1 GGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGAGCTAAGACCCAAAGGCATTT
24844554 G
1 G
24844555 TGCGAGTTGA
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
62 57 1.00
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (62 bp):
GGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGAGCTAAGACCCAAAGGCATTT
Found at i:24844547 original size:40 final size:41
Alignment explanation
Indices: 24844492--24844637 Score: 190
Period size: 40 Copynumber: 3.6 Consensus size: 41
24844482 AAAGGCATTT
* * *
24844492 GGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTTTATCC
1 GGGCTAAGACCCGAAGGCATTTATGCGAGTTGATTATATCC
*
24844532 GGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TATATCC
1 GGGCTAAGACCCGAAGGCATTTATGCGAGTTGATTATATCC
* * *
24844572 GGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATACCC
1 GGGCTAAGACCCGAAGGCATTTATGCGAGTTGATTATATCC
* *
24844612 GGGTTAAGACCCGAAGGCAATTATGC
1 GGGCTAAGACCCGAAGGCATTTATGC
24844638 TTGTGGTTAT
Statistics
Matches: 96, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
40 93 0.97
41 3 0.03
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (41 bp):
GGGCTAAGACCCGAAGGCATTTATGCGAGTTGATTATATCC
Found at i:24844649 original size:80 final size:80
Alignment explanation
Indices: 24844492--24844657 Score: 192
Period size: 80 Copynumber: 2.1 Consensus size: 80
24844482 AAAGGCATTT
* * * * * * *
24844492 GGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTGTG
1 GGGCTAAGACCCGAAGGCATTTATGCGAGTGACTATACCCGGGCTAAGACCCGAAGGCAATTATG
*
24844557 CGAGTTGATATATCC
66 CGAGTGGATATATCC
* *
24844572 GGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATACCCGGGTTAAGACCCGAAGGCAATTAT
1 GGGCTAAGACCCGAAGGCATTTATGCGAG-TGACTATACCCGGGCTAAGACCCGAAGGCAATTAT
** *
24844636 GCTTGTGGTTATATCC
65 GCGAGTGGATATATCC
24844652 -GGCTAA
1 GGGCTAA
24844658 ATTCCGAAGA
Statistics
Matches: 72, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
79 6 0.08
80 64 0.89
81 2 0.03
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (80 bp):
GGGCTAAGACCCGAAGGCATTTATGCGAGTGACTATACCCGGGCTAAGACCCGAAGGCAATTATG
CGAGTGGATATATCC
Found at i:24847503 original size:23 final size:24
Alignment explanation
Indices: 24847454--24847518 Score: 80
Period size: 23 Copynumber: 2.8 Consensus size: 24
24847444 TGAAAAATTA
* * *
24847454 AGTGATTTGTCCACAATGCTATTG
1 AGTGGTTTGACCACAACGCTATTG
24847478 AGTGGCTTTG-CCACAACG-TATTG
1 AGTGG-TTTGACCACAACGCTATTG
24847501 AGTGGTTTGACCACAACG
1 AGTGGTTTGACCACAACG
24847519 AGCAGCTTGT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
22 4 0.11
23 18 0.49
24 11 0.30
25 4 0.11
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.31
Consensus pattern (24 bp):
AGTGGTTTGACCACAACGCTATTG
Found at i:24847674 original size:22 final size:21
Alignment explanation
Indices: 24847631--24847674 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
24847621 GTAATATTTT
*
24847631 TGAAAAACTTGCACTGATTTC
1 TGAAAAACTTGCACTGAATTC
* *
24847652 TGAAAAAGTTGCATTGACATTC
1 TGAAAAACTTGCACTGA-ATTC
24847674 T
1 T
24847675 CATGCATCTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (21 bp):
TGAAAAACTTGCACTGAATTC
Found at i:24858941 original size:22 final size:23
Alignment explanation
Indices: 24858897--24858940 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
24858887 TATTTTATAA
*
24858897 TTCAAAGGTAACTGGGAAAAAAT
1 TTCAAAGGTAACTAGGAAAAAAT
24858920 TTCAAAGGTAACTAGGAAAAA
1 TTCAAAGGTAACTAGGAAAAA
24858941 TGTTTACAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.50, C:0.09, G:0.20, T:0.20
Consensus pattern (23 bp):
TTCAAAGGTAACTAGGAAAAAAT
Found at i:24863603 original size:23 final size:23
Alignment explanation
Indices: 24863573--24863620 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
24863563 ACATCCATAC
24863573 ATAGCATGCTCTATGTCTGAGAT
1 ATAGCATGCTCTATGTCTGAGAT
24863596 ATAGCATGCTCTATGTCTGAGAT
1 ATAGCATGCTCTATGTCTGAGAT
24863619 AT
1 AT
24863621 TGGGTATTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (23 bp):
ATAGCATGCTCTATGTCTGAGAT
Found at i:24871198 original size:48 final size:48
Alignment explanation
Indices: 24871118--24871288 Score: 186
Period size: 48 Copynumber: 3.5 Consensus size: 48
24871108 AAGGGATACA
* * *
24871118 TTGATTTGGCTTCGGGGGACATGATATCGACACTTTGGGTGTGAGTTACT
1 TTGATTTGGCTTC--GAGCCATGATATCGACACTTCGGGTGTGAGTTACT
*
24871168 TTGATTTGGCTTCGAGCCATGATATCGACACTTCGGCTGTGAGTTACT
1 TTGATTTGGCTTCGAGCCATGATATCGACACTTCGGGTGTGAGTTACT
* * * * * *
24871216 TTGATTGGGCTTTGGGTCATGATATCGGCACTTCGGGTGCGAGCTTCAC-
1 TTGATTTGGCTTCGAGCCATGATATCGACACTTCGGGTGTGAG-TT-ACT
24871265 -TGATTTGGCTAT-GAGCCATGATAT
1 TTGATTTGGCT-TCGAGCCATGATAT
24871289 TAGCAATTTG
Statistics
Matches: 104, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
48 86 0.83
49 3 0.03
50 15 0.14
ACGTcount: A:0.18, C:0.18, G:0.29, T:0.35
Consensus pattern (48 bp):
TTGATTTGGCTTCGAGCCATGATATCGACACTTCGGGTGTGAGTTACT
Found at i:24871352 original size:48 final size:48
Alignment explanation
Indices: 24871223--24871352 Score: 111
Period size: 48 Copynumber: 2.7 Consensus size: 48
24871213 ACTTTGATTG
* * * * *
24871223 GGCTTTGGGTCATGAT-ATCGGCACTTCGGGTGCGAGCTTCACTGATTT
1 GGCTTTGGGCCATGATAAT-GGCACTTAGAGTGCGAGATTCACTGAGTT
* * * * * * *
24871271 GGCTATGAGCCATGATATTAGCAATTTGAGTGCGAGATAT-ATTGAGTT
1 GGCTTTGGGCCATGATAATGGCACTTAGAGTGCGAGAT-TCACTGAGTT
*
24871319 GGCTTTGGGCCATGATAATGGCACTTAGTGTGCG
1 GGCTTTGGGCCATGATAATGGCACTTAGAGTGCG
24871353 GGACTCCTGA
Statistics
Matches: 62, Mismatches: 18, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
48 60 0.97
49 2 0.03
ACGTcount: A:0.21, C:0.16, G:0.31, T:0.32
Consensus pattern (48 bp):
GGCTTTGGGCCATGATAATGGCACTTAGAGTGCGAGATTCACTGAGTT
Found at i:24873082 original size:46 final size:46
Alignment explanation
Indices: 24873028--24873200 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
24873018 TGGTTGAGCA
24873028 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
24873074 TCCAAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
24873119 CATCCGAACTCGTTGAGTTGAGTCCGAGTTTATTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
24873167 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
24873201 GGGGCGGGTT
Statistics
Matches: 103, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 57 0.55
47 27 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:24873184 original size:93 final size:93
Alignment explanation
Indices: 24873025--24873195 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
24873015 GGATGGTTGA
* *
24873025 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCAAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTCGTTGAGT
24873090 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
24873118 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTTATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTCGTTGAGT
*
24873183 TGAGTCTGAGTTC
66 TGAGTCCGAGTTC
24873196 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:24873462 original size:19 final size:20
Alignment explanation
Indices: 24873425--24873462 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
24873415 ATAAGGTGGT
24873425 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
24873445 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
24873463 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:24878752 original size:79 final size:79
Alignment explanation
Indices: 24878666--24878825 Score: 266
Period size: 79 Copynumber: 2.0 Consensus size: 79
24878656 AATTATATAA
* * * * *
24878666 ACAAACTCTTGAATAAAAACTTATGTCAAGATGAAAATAAGAAAGTATTGAAAAGCTGAAAAGAA
1 ACAAACTCTTGAATAAAAACCTATGTCAAGAAGAAAACAAGAAAGTATTGAAAACCCGAAAAGAA
24878731 AATAAATTAAATCT
66 AATAAATTAAATCT
*
24878745 ACAAACTCTTGAATAAAAACCTATGTCAAGAAGAAAACAAGAAATTATTGAAAACCCGAAAAGAA
1 ACAAACTCTTGAATAAAAACCTATGTCAAGAAGAAAACAAGAAAGTATTGAAAACCCGAAAAGAA
24878810 AATAAATTAAATCT
66 AATAAATTAAATCT
24878824 AC
1 AC
24878826 TCCTAAATTA
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
79 75 1.00
ACGTcount: A:0.55, C:0.12, G:0.11, T:0.22
Consensus pattern (79 bp):
ACAAACTCTTGAATAAAAACCTATGTCAAGAAGAAAACAAGAAAGTATTGAAAACCCGAAAAGAA
AATAAATTAAATCT
Found at i:24879424 original size:16 final size:16
Alignment explanation
Indices: 24879403--24879438 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
24879393 CAAACTACCC
24879403 AAAATAAAAAAAAACG
1 AAAATAAAAAAAAACG
**
24879419 AAAATAAACTAAAACG
1 AAAATAAAAAAAAACG
24879435 AAAA
1 AAAA
24879439 ACAAGAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.78, C:0.08, G:0.06, T:0.08
Consensus pattern (16 bp):
AAAATAAAAAAAAACG
Found at i:24892889 original size:40 final size:40
Alignment explanation
Indices: 24892829--24893053 Score: 360
Period size: 40 Copynumber: 5.6 Consensus size: 40
24892819 CAATTGAGGA
* *
24892829 TTATATCCGGGTTAAGTCCCGAAGGCATTCATGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
*
24892869 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTAGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
*
24892909 TTATTTCTGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
24892949 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
* *
24892989 CTATTTCCGGGTTAAGTCCCGAAGGCATTTGTGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
** * *
24893029 TTACATCCGGGCTAAATCCCGAAGG
1 TTATTTCCGGGTTAAGTCCCGAAGG
24893054 TAATTGGGTT
Statistics
Matches: 172, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 172 1.00
ACGTcount: A:0.18, C:0.20, G:0.28, T:0.33
Consensus pattern (40 bp):
TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
Found at i:24901829 original size:46 final size:47
Alignment explanation
Indices: 24901777--24901947 Score: 217
Period size: 46 Copynumber: 3.7 Consensus size: 47
24901767 ATCCATAAGT
* *
24901777 GAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
*
24901824 G-ACTCGGACTCAACTCAACGAGTTCGAATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
* * * *
24901870 GAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-TCA-C
24901916 GAACTCGGACTCAACTCAACGAGTTCGGATGC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGC
24901948 TCAACCATCC
Statistics
Matches: 109, Mismatches: 8, Indels: 12
0.84 0.06 0.09
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 72 0.66
47 27 0.25
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:24901963 original size:46 final size:45
Alignment explanation
Indices: 24901728--24901952 Score: 142
Period size: 46 Copynumber: 4.9 Consensus size: 45
24901718 CCCACCCCTA
* ** * * *
24901728 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTC-GCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACAT-C-TC
* *
24901774 AGTGAACTCGGACTCAACTCAATGAGTTCGGATGC-CTAGTTACATTTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACATCTC
* *
24901822 A-CG-ACTCGGACTCAACTCAACGAGTTCGAATGC-CTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACATCTC
* *** *
24901868 A-CGAACTCGGACTCAACTCAACGAGTTCGGA--CATTTGCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-TCAACAT-C-TC
24901913 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAAC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAAC
24901953 CATCCTAGTG
Statistics
Matches: 145, Mismatches: 21, Indels: 25
0.76 0.11 0.13
Matches are distributed among these distances:
43 3 0.02
44 1 0.01
45 4 0.03
46 102 0.70
47 29 0.20
48 3 0.02
50 3 0.02
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACATCTC
Found at i:24906103 original size:27 final size:25
Alignment explanation
Indices: 24906073--24906140 Score: 66
Period size: 27 Copynumber: 2.6 Consensus size: 25
24906063 GCATTATTGA
24906073 GAAGCTCATAAAGAGCCAATTTAA-CGG
1 GAAGCTCA-AAAGAGCC--TTTAATCGG
*
24906100 GAAGCTCACGAAGAGCCTTTAATCGG
1 GAAGCTCA-AAAGAGCCTTTAATCGG
* *
24906126 GATGATCAAAAGAGC
1 GAAGCTCAAAAGAGC
24906141 TAAGGTGTGT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
25 11 0.31
26 9 0.26
27 15 0.43
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.18
Consensus pattern (25 bp):
GAAGCTCAAAAGAGCCTTTAATCGG
Found at i:24910446 original size:48 final size:49
Alignment explanation
Indices: 24910375--24910547 Score: 228
Period size: 48 Copynumber: 3.6 Consensus size: 49
24910365 TAAAGTACCA
* * *
24910375 ATGCCATGTCCCGGACATGGTCTTACATGAATC-CATATATCATCGTCG
1 ATGCCATGTCCCAGACATGGTCTTACATGAAGCACATATATCATCGCCG
* *
24910423 ATGCCATGTCCCAGACATGGTCTTACACTG--GCACATATGTCACCGCCG
1 ATGCCATGTCCCAGACATGGTCTTACA-TGAAGCACATATATCATCGCCG
* *
24910471 ATGCCATGTCCCAGACATGGTCTTACA-CAGGCACATATATCATCGCCG
1 ATGCCATGTCCCAGACATGGTCTTACATGAAGCACATATATCATCGCCG
* *
24910519 ATGCCATGTCCCAAACATGGACTTACATG
1 ATGCCATGTCCCAGACATGGTCTTACATG
24910548 GAATCTCATT
Statistics
Matches: 109, Mismatches: 11, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
47 1 0.01
48 106 0.97
49 2 0.02
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (49 bp):
ATGCCATGTCCCAGACATGGTCTTACATGAAGCACATATATCATCGCCG
Found at i:24910669 original size:24 final size:24
Alignment explanation
Indices: 24910642--24910723 Score: 78
Period size: 24 Copynumber: 3.3 Consensus size: 24
24910632 ATCAAACTTC
24910642 CATTAGATCATCACAAGTCAATTT
1 CATTAGATCATCACAAGTCAATTT
* * *
24910666 CATTAGAGT-AT-ACATACATGAAACTTC
1 CATTAGA-TCATCACA-A-GT-CAA-TTT
24910693 CATTAGATCATCACAAGTCAATTT
1 CATTAGATCATCACAAGTCAATTT
24910717 CATTAGA
1 CATTAGA
24910724 GTATACATAC
Statistics
Matches: 45, Mismatches: 6, Indels: 14
0.69 0.09 0.22
Matches are distributed among these distances:
23 3 0.07
24 19 0.42
25 4 0.09
26 4 0.09
27 12 0.27
28 3 0.07
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.32
Consensus pattern (24 bp):
CATTAGATCATCACAAGTCAATTT
Found at i:24910700 original size:51 final size:51
Alignment explanation
Indices: 24910635--24910736 Score: 204
Period size: 51 Copynumber: 2.0 Consensus size: 51
24910625 GGCTTTCATC
24910635 AAACTTCCATTAGATCATCACAAGTCAATTTCATTAGAGTATACATACATG
1 AAACTTCCATTAGATCATCACAAGTCAATTTCATTAGAGTATACATACATG
24910686 AAACTTCCATTAGATCATCACAAGTCAATTTCATTAGAGTATACATACATG
1 AAACTTCCATTAGATCATCACAAGTCAATTTCATTAGAGTATACATACATG
24910737 TATCATACAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (51 bp):
AAACTTCCATTAGATCATCACAAGTCAATTTCATTAGAGTATACATACATG
Found at i:24918073 original size:48 final size:48
Alignment explanation
Indices: 24918021--24918281 Score: 317
Period size: 48 Copynumber: 5.4 Consensus size: 48
24918011 CCAATGCTAG
** *
24918021 GTCCCAGACATGGTCTTACAAAGGCACATATATCATTGCCGATGTCAT
1 GTCCCAGACATGGTCTTACACTGGCACATATATCATTGCCGATGCCAT
* * * * **
24918069 GTCCCAAACATGCTCTTACACTGGCATATATATTATCACCGATGCCAT
1 GTCCCAGACATGGTCTTACACTGGCACATATATCATTGCCGATGCCAT
24918117 GTCCCAGACATGGTCTTACACTGGCACATATATCATTGCCGATGCCAT
1 GTCCCAGACATGGTCTTACACTGGCACATATATCATTGCCGATGCCAT
* * * *
24918165 GTCCCAAACATGGTCTTATACAGGCACATATATCATTGTCGATGCCAT
1 GTCCCAGACATGGTCTTACACTGGCACATATATCATTGCCGATGCCAT
* * * * *
24918213 GTCCCAGACATAGACTTACACTGGCACACT-TCTTAGATGCCGATGCCAT
1 GTCCCAGACATGGTCTTACACTGGCACA-TATATCA-TTGCCGATGCCAT
* *
24918262 GTCCCAGACACGGACTTACA
1 GTCCCAGACATGGTCTTACA
24918282 TGGAATCTCA
Statistics
Matches: 181, Mismatches: 30, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
48 151 0.83
49 30 0.17
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (48 bp):
GTCCCAGACATGGTCTTACACTGGCACATATATCATTGCCGATGCCAT
Found at i:24918231 original size:144 final size:144
Alignment explanation
Indices: 24918021--24918281 Score: 357
Period size: 144 Copynumber: 1.8 Consensus size: 144
24918011 CCAATGCTAG
* * *
24918021 GTCCCAGACATGGTCTTACAAAGGCACATATATCATTGCCGATGTCATGTCCCAAACATGCTCTT
1 GTCCCAAACATGGTCTTACAAAGGCACATATATCATTGCCGATGCCATGTCCCAAACATGCACTT
* * *
24918086 ACACTGGCATA-TATATT-ATCACCGATGCCATGTCCCAGACATGGTCTTACACTGGCACATATA
66 ACACTGGCACACT-TATTAAT-ACCGATGCCATGTCCCAGACACGGACTTACACTGGCACATATA
24918149 TCATTGCCGATGCCAT
129 TCATTGCCGATGCCAT
* * * *
24918165 GTCCCAAACATGGTCTTATACAGGCACATATATCATTGTCGATGCCATGTCCCAGACATAG-ACT
1 GTCCCAAACATGGTCTTACAAAGGCACATATATCATTGCCGATGCCATGTCCCAAACAT-GCACT
* *
24918229 TACACTGGCACACTTCTTAGATGCCGATGCCATGTCCCAGACACGGACTTACA
65 TACACTGGCACACTTATTA-ATACCGATGCCATGTCCCAGACACGGACTTACA
24918282 TGGAATCTCA
Statistics
Matches: 101, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
144 69 0.68
145 30 0.30
146 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (144 bp):
GTCCCAAACATGGTCTTACAAAGGCACATATATCATTGCCGATGCCATGTCCCAAACATGCACTT
ACACTGGCACACTTATTAATACCGATGCCATGTCCCAGACACGGACTTACACTGGCACATATATC
ATTGCCGATGCCAT
Found at i:24922314 original size:18 final size:18
Alignment explanation
Indices: 24922291--24922335 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
24922281 GGCCTATTGT
24922291 AGTAACAATAAAT-AGTAC
1 AGTAACAAT-AATCAGTAC
* *
24922309 AGTAACAGTAATCAGTGC
1 AGTAACAATAATCAGTAC
24922327 AGTAACAAT
1 AGTAACAAT
24922336 TTAAACAGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 3 0.13
18 20 0.87
ACGTcount: A:0.49, C:0.13, G:0.16, T:0.22
Consensus pattern (18 bp):
AGTAACAATAATCAGTAC
Found at i:24922733 original size:28 final size:27
Alignment explanation
Indices: 24922665--24922765 Score: 139
Period size: 27 Copynumber: 3.7 Consensus size: 27
24922655 CCTCACATAT
* *
24922665 GGGCAAAATAGTCATCTTACCATATGA
1 GGGCAAAATAGTCATTTTACCATATAA
*
24922692 GGGCAAAATAGTCATTTTATCATATATA
1 GGGCAAAATAGTCATTTTACCATATA-A
* *
24922720 AGGCAAAACAGTCATTTTACCATATAA
1 GGGCAAAATAGTCATTTTACCATATAA
*
24922747 GGGCAAAATAGTAATTTTA
1 GGGCAAAATAGTCATTTTA
24922766 TCAATTAGGG
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
27 40 0.62
28 24 0.38
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.30
Consensus pattern (27 bp):
GGGCAAAATAGTCATTTTACCATATAA
Found at i:24923052 original size:19 final size:19
Alignment explanation
Indices: 24923016--24923055 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
24923006 GCCCGTGGAG
*
24923016 CCCACATGAACCATTTCGA
1 CCCACATGAACCAATTCGA
**
24923035 CCCACATGGCCCAATTCGA
1 CCCACATGAACCAATTCGA
24923054 CC
1 CC
24923056 TCAGGCCATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.28, C:0.42, G:0.12, T:0.17
Consensus pattern (19 bp):
CCCACATGAACCAATTCGA
Found at i:24950117 original size:43 final size:44
Alignment explanation
Indices: 24950064--24950214 Score: 159
Period size: 43 Copynumber: 3.5 Consensus size: 44
24950054 TATCCCAAAT
* *
24950064 ATGGTCTTACATGTTATCACATAT-AGATGCCACTGTCCCAGAC
1 ATGGTCTTACATGTAATCACATATCAGATGCCAATGTCCCAGAC
* * * *
24950107 AGGGTCTTACATGAAATC-GAT-TAACGATGCCAATGTCCCAGAC
1 ATGGTCTTACATGTAATCACATATCA-GATGCCAATGTCCCAGAC
* *
24950150 ATGGTCATACACGTAATCACA-ATCCA-ATGCCAATGTCCCAGAC
1 ATGGTCTTACATGTAATCACATAT-CAGATGCCAATGTCCCAGAC
* *
24950193 ATGGTTTTCCATGTAATCACAT
1 ATGGTCTTACATGTAATCACAT
24950215 CTCGTAACCT
Statistics
Matches: 87, Mismatches: 15, Indels: 11
0.77 0.13 0.10
Matches are distributed among these distances:
41 1 0.01
42 3 0.03
43 80 0.92
44 2 0.02
45 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (44 bp):
ATGGTCTTACATGTAATCACATATCAGATGCCAATGTCCCAGAC
Found at i:24950229 original size:23 final size:22
Alignment explanation
Indices: 24950203--24950247 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
24950193 ATGGTTTTCC
24950203 ATGTAATCACATCTCGTAACCTA
1 ATGTAATCACATC-CGTAACCTA
* * *
24950226 ATGTCATGACATCCGTATCCTA
1 ATGTAATCACATCCGTAACCTA
24950248 TACTATTCCT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.31, C:0.27, G:0.11, T:0.31
Consensus pattern (22 bp):
ATGTAATCACATCCGTAACCTA
Found at i:24960707 original size:53 final size:54
Alignment explanation
Indices: 24960639--24960845 Score: 209
Period size: 53 Copynumber: 3.8 Consensus size: 54
24960629 TTCCTTTTTA
*
24960639 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * * * * *
24960692 AACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATCG
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
** * * * * * * * *
24960746 TAGTTTATCAATGCTATGTCTTGACATGGTTTTCCATGATTTCCTTGCCTTGTAA
1 -AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * *
24960801 AACTTACCAATGCCATGTCTTGGCGTGGTCTTACTTGGTATCCTT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTT
24960846 AAACCCTAAT
Statistics
Matches: 119, Mismatches: 33, Indels: 3
0.77 0.21 0.02
Matches are distributed among these distances:
53 47 0.39
54 35 0.29
55 37 0.31
ACGTcount: A:0.19, C:0.24, G:0.18, T:0.39
Consensus pattern (54 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:24967611 original size:6 final size:6
Alignment explanation
Indices: 24967593--24967682 Score: 58
Period size: 6 Copynumber: 14.7 Consensus size: 6
24967583 AAGAAACATT
* * *
24967593 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATTAGT ATCAGGT ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-GA ATCAGA
* * * * *
24967642 ATCAAA ATCAAA ATTAGT ATCAGGTA A-CAGA ATCAAA ATCA
1 ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCA
24967683 AAATGTGAAT
Statistics
Matches: 67, Mismatches: 11, Indels: 12
0.74 0.12 0.13
Matches are distributed among these distances:
5 3 0.04
6 53 0.79
7 10 0.15
8 1 0.01
ACGTcount: A:0.49, C:0.14, G:0.14, T:0.22
Consensus pattern (6 bp):
ATCAGA
Found at i:24967643 original size:31 final size:31
Alignment explanation
Indices: 24967605--24967686 Score: 137
Period size: 31 Copynumber: 2.6 Consensus size: 31
24967595 CAGAACTAGA
* *
24967605 ATCAGAATCAGAATCAGAATTAGTATCAGGT
1 ATCAGAATCAAAATCAAAATTAGTATCAGGT
24967636 ATCAGAATCAAAATCAAAATTAGTATCAGGT
1 ATCAGAATCAAAATCAAAATTAGTATCAGGT
*
24967667 AACAGAATCAAAATCAAAAT
1 ATCAGAATCAAAATCAAAAT
24967687 GTGAATGCAA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 48 1.00
ACGTcount: A:0.50, C:0.13, G:0.13, T:0.23
Consensus pattern (31 bp):
ATCAGAATCAAAATCAAAATTAGTATCAGGT
Found at i:24967860 original size:27 final size:27
Alignment explanation
Indices: 24967818--24967919 Score: 125
Period size: 27 Copynumber: 3.8 Consensus size: 27
24967808 GTTCAGTTAT
* * *
24967818 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGAAA
24967845 CAGATATTGTGGCAGAGCCACCA-AAA
1 CAGATATTGTGGCAGAGCCACCAGAAA
*
24967871 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAGAAA
* * *
24967899 TAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
24967920 TTAACAGAAT
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
26 8 0.12
27 50 0.76
28 8 0.12
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.20
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGAAA
Found at i:24968113 original size:22 final size:22
Alignment explanation
Indices: 24968088--24968141 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
24968078 TGGCACACAA
* **
24968088 CCATAATCAGGTTGGCACAGTG
1 CCATAATCAGGTTGACACAAAG
*
24968110 CCAT-ATGTAGGTTGACACAAAG
1 CCATAAT-CAGGTTGACACAAAG
24968132 CCATAATCAG
1 CCATAATCAG
24968142 AAGGCTTTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
21 2 0.08
22 21 0.84
23 2 0.08
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.22
Consensus pattern (22 bp):
CCATAATCAGGTTGACACAAAG
Found at i:24968624 original size:27 final size:27
Alignment explanation
Indices: 24968586--24968906 Score: 333
Period size: 27 Copynumber: 11.6 Consensus size: 27
24968576 TACCCCGCAA
24968586 GGTATTTCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
24968613 GGTATTTCGGTAGAATCGGTAATTCTACCCTACAGG
1 GGTA--T---T----TCGGTAATTCTACCCTACAGG
*
24968649 GGTATTTCGGTAATTCTACCCTACAAG
1 GGTATTTCGGTAATTCTACCCTACAGG
24968676 GGTA-TTCTGGTAATTCTACCCTACAGG
1 GGTATTTC-GGTAATTCTACCCTACAGG
* * *
24968703 GGTATTCCGGTAATTCTACCTTATAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
24968730 GGTATTTCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
24968757 GGTATTGCGATAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
24968784 GGTATTTCGGTAATTCTACCCTATAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
** *
24968811 GGTATTTCAATAATTCTACCCTACAAG
1 GGTATTTCGGTAATTCTACCCTACAGG
* * * **
24968838 GGTATGTCGATAATTTTA-CAAATCAGG
1 GGTATTTCGGTAATTCTACCCTA-CAGG
* * **
24968865 GGTATTTTGGTAATTTTA-CAAACCAGG
1 GGTATTTCGGTAATTCTACCCTA-CAGG
*
24968892 GGTATTTTGGTAATT
1 GGTATTTCGGTAATT
24968907 TTATTGATCA
Statistics
Matches: 255, Mismatches: 27, Indels: 24
0.83 0.09 0.08
Matches are distributed among these distances:
26 5 0.02
27 219 0.86
28 2 0.01
29 1 0.00
31 1 0.00
32 1 0.00
34 1 0.00
36 25 0.10
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (27 bp):
GGTATTTCGGTAATTCTACCCTACAGG
Found at i:24968639 original size:36 final size:36
Alignment explanation
Indices: 24968592--24968660 Score: 138
Period size: 36 Copynumber: 1.9 Consensus size: 36
24968582 GCAAGGTATT
24968592 TCGGTAATTCTACCCTACAGGGGTATTTCGGTAGAA
1 TCGGTAATTCTACCCTACAGGGGTATTTCGGTAGAA
24968628 TCGGTAATTCTACCCTACAGGGGTATTTCGGTA
1 TCGGTAATTCTACCCTACAGGGGTATTTCGGTA
24968661 ATTCTACCCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.32
Consensus pattern (36 bp):
TCGGTAATTCTACCCTACAGGGGTATTTCGGTAGAA
Found at i:24968964 original size:27 final size:27
Alignment explanation
Indices: 24968834--24968976 Score: 133
Period size: 27 Copynumber: 5.3 Consensus size: 27
24968824 TTCTACCCTA
* * * * *
24968834 CAAGGGTATGTCGATAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
24968861 CAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* ** *
24968888 CAGGGGTATTTTGGTAATTTTATTGAT
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
24968915 CAAGGGTATTTTGGTAATGTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * *
24968942 CAAGGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAC
*
24968969 CGAGGGTA
1 CAAGGGTA
24968977 AAATGTTAAT
Statistics
Matches: 97, Mismatches: 19, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 97 1.00
ACGTcount: A:0.30, C:0.08, G:0.24, T:0.38
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTATAAAC
Found at i:24968975 original size:54 final size:54
Alignment explanation
Indices: 24968848--24968976 Score: 159
Period size: 54 Copynumber: 2.4 Consensus size: 54
24968838 GGTATGTCGA
* * * * *
24968848 TAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGG
1 TAATTTTATAAATCAAGGGTATTTTGGTAATGTTACAAACCAAGGGTATTTTAG
** **
24968902 TAATTTTATTGATCAAGGGTATTTTGGTAATGTTGTAAACCAAGGGTATTTTAG
1 TAATTTTATAAATCAAGGGTATTTTGGTAATGTTACAAACCAAGGGTATTTTAG
* *
24968956 TAATTTTGTAAATCGAGGGTA
1 TAATTTTATAAATCAAGGGTA
24968977 AAATGTTAAT
Statistics
Matches: 62, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 62 1.00
ACGTcount: A:0.30, C:0.07, G:0.22, T:0.40
Consensus pattern (54 bp):
TAATTTTATAAATCAAGGGTATTTTGGTAATGTTACAAACCAAGGGTATTTTAG
Found at i:24968986 original size:27 final size:27
Alignment explanation
Indices: 24968955--24969165 Score: 233
Period size: 27 Copynumber: 7.8 Consensus size: 27
24968945 GGGTATTTTA
*
24968955 GTAATTTTGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* ** * *
24968982 TTAATTCTGTAAATTTAGGGTAAGACG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* *
24969009 GTAATTCTGTAAATCAAGGGTAAAATT
1 GTAATTCTGTAAATCGAGGGTAAAATG
*
24969036 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* *
24969063 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* * * **
24969090 GTAATTTTATAAATCGAGAGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAATG
* **
24969117 GTAATTCTGTAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAATG
* *
24969144 GTAATTCTATAAATCGATGGTA
1 GTAATTCTGTAAATCGAGGGTA
24969166 CTTTGGAAAT
Statistics
Matches: 158, Mismatches: 26, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 158 1.00
ACGTcount: A:0.40, C:0.08, G:0.20, T:0.31
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAATG
Found at i:24969002 original size:81 final size:81
Alignment explanation
Indices: 24968927--24969157 Score: 241
Period size: 81 Copynumber: 2.9 Consensus size: 81
24968917 AGGGTATTTT
** * * *
24968927 GGTAATGT-TGTAAACCAAGGGT-ATTTTAGTAATTTTGTAAATCGAGGGTAAAATGTTAATTCT
1 GGTAAT-TCTGTAAACCAAGGGTAAAATT-GTAATTCTATAAATCGAGGGTAAAATGGTAATTCT
*
24968990 GTAAATTTAGGGTAAGAC
64 ATAAATTTAGGGTAAGAC
*
24969008 GGTAATTCTGTAAATCAAGGGTAAAATTGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTAT
1 GGTAATTCTGTAAACCAAGGGTAAAATTGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTAT
** *
24969073 AAATCGAGGGTAAAAC
66 AAATTTAGGGTAAGAC
* * * * * ** * * **
24969089 GGTAATTTTATAAATCGAGAGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTAT
1 GGTAATTCTGTAAACCAAGGGTAAAATTGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTAT
24969154 AAAT
66 AAAT
24969158 CGATGGTACT
Statistics
Matches: 128, Mismatches: 20, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
80 1 0.01
81 124 0.97
82 3 0.02
ACGTcount: A:0.40, C:0.08, G:0.20, T:0.32
Consensus pattern (81 bp):
GGTAATTCTGTAAACCAAGGGTAAAATTGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTAT
AAATTTAGGGTAAGAC
Found at i:24969202 original size:54 final size:54
Alignment explanation
Indices: 24969173--24969275 Score: 152
Period size: 54 Copynumber: 1.9 Consensus size: 54
24969163 GTACTTTGGA
* *
24969173 AATTTTACAAGTTGAGGACATTTCTGTAATTTTACAAATCGAGGGTATTTCAAT
1 AATTTTACAAATTGAGGACATTTCGGTAATTTTACAAATCGAGGGTATTTCAAT
* ** *
24969227 AATTTTGCAAATTGAGGGTATTTCGGTAATTTTACAAATCGAGGATATT
1 AATTTTACAAATTGAGGACATTTCGGTAATTTTACAAATCGAGGGTATT
24969276 GGGGTAATTT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 43 1.00
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.39
Consensus pattern (54 bp):
AATTTTACAAATTGAGGACATTTCGGTAATTTTACAAATCGAGGGTATTTCAAT
Found at i:24969216 original size:27 final size:27
Alignment explanation
Indices: 24969173--24969317 Score: 130
Period size: 27 Copynumber: 5.4 Consensus size: 27
24969163 GTACTTTGGA
* * * *
24969173 AATTTTACAAGTTGAGGACATTTCTGT
1 AATTTTACAAATCGAGGATATTTCGGT
* **
24969200 AATTTTACAAATCGAGGGTATTTCAAT
1 AATTTTACAAATCGAGGATATTTCGGT
* * *
24969227 AATTTTGCAAATTGAGGGTATTTCGGT
1 AATTTTACAAATCGAGGATATTTCGGT
**
24969254 AATTTTACAAATCGAGGATATTGGGGT
1 AATTTTACAAATCGAGGATATTTCGGT
* * *
24969281 AATTTTATAAATCGGGGGTACTTT-GGT
1 AATTTTACAAATCGAGGATA-TTTCGGT
*
24969308 AATTTCACAA
1 AATTTTACAA
24969318 CTGGGGGTAT
Statistics
Matches: 96, Mismatches: 21, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
27 94 0.98
28 2 0.02
ACGTcount: A:0.32, C:0.10, G:0.21, T:0.38
Consensus pattern (27 bp):
AATTTTACAAATCGAGGATATTTCGGT
Found at i:24969284 original size:54 final size:54
Alignment explanation
Indices: 24969173--24969317 Score: 148
Period size: 54 Copynumber: 2.7 Consensus size: 54
24969163 GTACTTTGGA
* ** * * *
24969173 AATTTTACAAGTTGAGGACATTTCTGTAATTTTACAAATCGAGGGTATTTCAAT
1 AATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAATCGAGGATATTGCAAT
* ***
24969227 AATTTTGCAAATTGAGGGTATTTCGGTAATTTTACAAATCGAGGATATTGGGGT
1 AATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAATCGAGGATATTGCAAT
* * * *
24969281 AATTTTATAAATCGGGGGTACTTT-GGTAATTTCACAA
1 AATTTTACAAATTGAGGGTA-TTTCGGTAATTTTACAA
24969318 CTGGGGGTAT
Statistics
Matches: 75, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
54 72 0.96
55 3 0.04
ACGTcount: A:0.32, C:0.10, G:0.21, T:0.38
Consensus pattern (54 bp):
AATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAATCGAGGATATTGCAAT
Found at i:24977450 original size:39 final size:39
Alignment explanation
Indices: 24977396--24977473 Score: 113
Period size: 39 Copynumber: 2.0 Consensus size: 39
24977386 AGAGGGATGC
*
24977396 CGCACAAACAGCTAGGCG-GTGCGGGCGTGGTGCGTTTGG
1 CGCACAAACAGCTAGG-GTGTGCAGGCGTGGTGCGTTTGG
**
24977435 CGCACAAGTAGCTAGGGTGTGCAGGCGTGGTGCGTTTGG
1 CGCACAAACAGCTAGGGTGTGCAGGCGTGGTGCGTTTGG
24977474 GAGCAATGGT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
38 1 0.03
39 34 0.97
ACGTcount: A:0.15, C:0.21, G:0.44, T:0.21
Consensus pattern (39 bp):
CGCACAAACAGCTAGGGTGTGCAGGCGTGGTGCGTTTGG
Found at i:24978809 original size:43 final size:42
Alignment explanation
Indices: 24978753--24978836 Score: 123
Period size: 43 Copynumber: 2.0 Consensus size: 42
24978743 TGAACTCGAA
* *
24978753 TGTGCTTGTCATGCTATTTCTTAAGTATTTCCATAAGTAATG
1 TGTGCTTGTCATGCCATTTCTTAAGCATTTCCATAAGTAATG
* *
24978795 TNGTGCTTGTCATGCCATTTCTTAAGCCTTTCCCTAAGTAAT
1 T-GTGCTTGTCATGCCATTTCTTAAGCATTTCCATAAGTAAT
24978837 TTGGCATTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 1 0.03
43 36 0.97
ACGTcount: A:0.21, C:0.19, G:0.15, T:0.43
Consensus pattern (42 bp):
TGTGCTTGTCATGCCATTTCTTAAGCATTTCCATAAGTAATG
Found at i:24988363 original size:40 final size:40
Alignment explanation
Indices: 24988296--24988472 Score: 225
Period size: 40 Copynumber: 4.5 Consensus size: 40
24988286 ACCCAAGTAT
* *
24988296 CTTCGGGAT-TTAG-CCGGATATAACAACTCGTACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
24988335 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
24988375 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* * *
24988415 CTTCGGGACATAGCCCGGATATAGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
24988455 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
24988473 TTATCATCCG
Statistics
Matches: 119, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.01
39 13 0.11
40 103 0.87
41 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:24991749 original size:46 final size:46
Alignment explanation
Indices: 24991699--24991874 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
24991689 TGGTTGAGCA
24991699 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*** * *
24991745 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA--
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATG
*
24991792 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
24991838 -CCCAAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
24991875 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 13, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 4 0.04
46 64 0.59
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:24991855 original size:93 final size:93
Alignment explanation
Indices: 24991696--24991866 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
24991686 GGATGGTTGA
*
24991696 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCCAACTCGTTGAGT
24991761 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
*
24991789 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG-CCCAAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCCAA-CTCGTTGAG
24991853 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
24991867 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 4 0.05
93 71 0.95
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCCAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:24994228 original size:53 final size:52
Alignment explanation
Indices: 24994045--24994242 Score: 202
Period size: 55 Copynumber: 3.7 Consensus size: 52
24994035 ATTAGGGTTT
*
24994045 AAGGATACCATGTAAGACCATGCTAAGGCATGGCAATTGGTGAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGC-ATT-GTGA-G-TTCATAAGGC
* * * * * *
24994100 AAGAAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTG-TGAGTT-C-ATAAGGC
* *
24994155 AAAGG-TCCCATGTAAGACCATGCCGAGGCATGGCATTAGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGGCATGGCATT-GTGAGTTCATAAGGC
* *
24994208 AAGGATACCATGTAAGACCATGTCAAGACATGGCA
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCA
24994243 ATGGTAAGTT
Statistics
Matches: 117, Mismatches: 19, Indels: 16
0.77 0.12 0.11
Matches are distributed among these distances:
52 6 0.05
53 36 0.31
54 6 0.05
55 65 0.56
56 4 0.03
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (52 bp):
AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGTGAGTTCATAAGGC
Found at i:24994251 original size:108 final size:110
Alignment explanation
Indices: 24994052--24994252 Score: 300
Period size: 108 Copynumber: 1.8 Consensus size: 110
24994042 TTTAAGGATA
* * *
24994052 CCATGTAAGACCATGCTAAGGCATGGCAATTGGTGAGGTTTCTAAGGCAAGAAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTAGTGAGGTTTCTAAGGCAAGAAAACCATGTAAGA
*
24994117 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* * *
24994162 CCATGTAAGACCATGCCGAGGCATGGC-ATTAGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGCAATTAGTGAGGTTTC-TAAGGCAAGAAAACCATGTAAG
*
24994224 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
24994253 TCAAAAGGAT
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
107 3 0.04
108 47 0.57
109 7 0.09
110 25 0.30
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.23
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTAGTGAGGTTTCTAAGGCAAGAAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:24994513 original size:20 final size:20
Alignment explanation
Indices: 24994485--24994522 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
24994475 GTATTAATAA
*
24994485 ATTTGATTAAGTAAGTAAGT
1 ATTTAATTAAGTAAGTAAGT
*
24994505 ATTTAATTAAGTGAGTAA
1 ATTTAATTAAGTAAGTAA
24994523 CTGAAGAAGT
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:0.42, C:0.00, G:0.18, T:0.39
Consensus pattern (20 bp):
ATTTAATTAAGTAAGTAAGT
Found at i:24996231 original size:29 final size:29
Alignment explanation
Indices: 24996171--24996259 Score: 144
Period size: 29 Copynumber: 3.1 Consensus size: 29
24996161 CATACATGCT
*
24996171 TATGGCCCACTAGGCCC-AATCTCATTCA
1 TATGGCCCACTAGGCCCAAATCACATTCA
*
24996199 TATGGCCCACTAGGCCCAAATCACATTCG
1 TATGGCCCACTAGGCCCAAATCACATTCA
*
24996228 TATGGCCCATTAGGCCCAAATCACATTCA
1 TATGGCCCACTAGGCCCAAATCACATTCA
24996257 TAT
1 TAT
24996260 TCATACTTAC
Statistics
Matches: 56, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
28 17 0.30
29 39 0.70
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.25
Consensus pattern (29 bp):
TATGGCCCACTAGGCCCAAATCACATTCA
Found at i:25005852 original size:29 final size:30
Alignment explanation
Indices: 25005819--25005881 Score: 119
Period size: 29 Copynumber: 2.1 Consensus size: 30
25005809 TACTAGGCCA
25005819 TGTCCTCCACAAGGCTGAGACATACGG-CG
1 TGTCCTCCACAAGGCTGAGACATACGGTCG
25005848 TGTCCTCCACAAGGCTGAGACATACGGTCG
1 TGTCCTCCACAAGGCTGAGACATACGGTCG
25005878 TGTC
1 TGTC
25005882 TCTGCCCGTG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 27 0.82
30 6 0.18
ACGTcount: A:0.22, C:0.30, G:0.27, T:0.21
Consensus pattern (30 bp):
TGTCCTCCACAAGGCTGAGACATACGGTCG
Found at i:25006780 original size:47 final size:46
Alignment explanation
Indices: 25006711--25006887 Score: 180
Period size: 47 Copynumber: 3.8 Consensus size: 46
25006701 GGGAAGGTGC
25006711 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCCCAAG
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCCCAAG
* * **
25006757 TCGATGCCATGTCCCAGACATGGTCTTATACTGACT-ATCATCTCGTAG
1 -CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCA-CATC-CCAAG
* * * * * * *
25006805 CTGATG-CATGTCCTAGAAAT-ATCTTACACTAGCTCTCGTCTCAATG
1 C-GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCCCAA-G
25006851 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC
1 -CGATGCCATGTCCCAGACATGGTCTTACACTGGCTC
25006888 TCATAATGTG
Statistics
Matches: 103, Mismatches: 19, Indels: 15
0.75 0.14 0.11
Matches are distributed among these distances:
45 1 0.01
46 19 0.18
47 63 0.61
48 20 0.19
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.28
Consensus pattern (46 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCCCAAG
Found at i:25006910 original size:47 final size:46
Alignment explanation
Indices: 25006711--25006924 Score: 172
Period size: 47 Copynumber: 4.6 Consensus size: 46
25006701 GGGAAGGTGC
*
25006711 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCCCAAGT-
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT--CAAGTG
* * * **
25006758 CGATGCCATGTCCCAGACATGGTCTTATACTGACTATCATCTCGTAG
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCAAGT-G
* * * * *
25006805 CTGATG-CATGTCCTAGAAAT-ATCTTACACTAGCTCTCGTCTCAA-TG
1 C-GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC--ATCAAGTG
25006851 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-AATGTGG
1 -CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCAA-GT-G
* *
25006899 CCTATG-CATGTCCCAGAC-TTGTCTTA
1 -CGATGCCATGTCCCAGACATGGTCTTA
25006925 AACTAGCCAA
Statistics
Matches: 133, Mismatches: 23, Indels: 23
0.74 0.13 0.13
Matches are distributed among these distances:
45 5 0.04
46 25 0.19
47 76 0.57
48 27 0.20
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (46 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCAAGTG
Found at i:25006924 original size:94 final size:93
Alignment explanation
Indices: 25006712--25006931 Score: 237
Period size: 94 Copynumber: 2.3 Consensus size: 93
25006702 GGAAGGTGCC
* * *
25006712 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCCCAAGTCGATGCCATGTCCCAGACA
1 GATG-CATGTCCCAGAC-TTGTCTTACACTAGCTCACATCCCAAGCCGATGCCATGTCCCAGACA
* *
25006777 TGGTCTTATACTGACTATCATCTCGTAGCT
64 TGGTCTTACACTGACTATCATATCGTAGCT
* ** * * * *
25006807 GATGCATGTCCTAGAAATATCTTACACTAGCTCTCGTCTCAATGCCGATGCCATGTCCCAGACAT
1 GATGCATGTCCCAGACTTGTCTTACACTAGCTCACATCCCAA-GCCGATGCCATGTCCCAGACAT
* * *
25006872 GGTCTTACACTGGCTCTCATAAT-GTGGCCT
65 GGTCTTACACTGACTATCAT-ATCGTAG-CT
*
25006902 -ATGCATGTCCCAGACTTGTCTTAAACTAGC
1 GATGCATGTCCCAGACTTGTCTTACACTAGC
25006932 CAACAATAAC
Statistics
Matches: 102, Mismatches: 20, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
93 19 0.19
94 76 0.75
95 7 0.07
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.29
Consensus pattern (93 bp):
GATGCATGTCCCAGACTTGTCTTACACTAGCTCACATCCCAAGCCGATGCCATGTCCCAGACATG
GTCTTACACTGACTATCATATCGTAGCT
Found at i:25014890 original size:40 final size:42
Alignment explanation
Indices: 25014812--25014890 Score: 108
Period size: 41 Copynumber: 1.9 Consensus size: 42
25014802 ATAGAGGTTT
* *
25014812 TCACCCGGCCAGACACACGGCCGTGTCATTGGCCCGTGTTCC
1 TCACACGGCCAGACACACGCCCGTGTCATTGGCCCGTGTTCC
* *
25014854 TCACACGGCCA-AGACACGCCCGTGT-GTTGGCCCGTGT
1 TCACACGGCCAGACACACGCCCGTGTCATTGGCCCGTGT
25014891 GAAAAAACCT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 11 0.33
41 12 0.36
42 10 0.30
ACGTcount: A:0.15, C:0.38, G:0.28, T:0.19
Consensus pattern (42 bp):
TCACACGGCCAGACACACGCCCGTGTCATTGGCCCGTGTTCC
Found at i:25015685 original size:13 final size:13
Alignment explanation
Indices: 25015663--25015695 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
25015653 AAGGGTTTGT
25015663 TTAT-TAAACTAA
1 TTATCTAAACTAA
25015675 TTATCTAAACTAA
1 TTATCTAAACTAA
*
25015688 TTAACTAA
1 TTATCTAA
25015696 TTTAATTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:25018625 original size:6 final size:5
Alignment explanation
Indices: 25018596--25018668 Score: 57
Period size: 5 Copynumber: 14.8 Consensus size: 5
25018586 TATGTCTTTC
*
25018596 AAAAT AAAAT --AAT AAAATT GAAAT GAAAAT AAAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAA-T AAAAT -AAAAT -AAAAT AAAAT AAAAT
*
25018642 -AAAT -AAAT AAAA- ATAAT AAGAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AA-AAT AAAA
25018669 AGGTAGGAGG
Statistics
Matches: 56, Mismatches: 5, Indels: 14
0.75 0.07 0.19
Matches are distributed among these distances:
3 3 0.05
4 11 0.20
5 24 0.43
6 18 0.32
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:25023526 original size:27 final size:27
Alignment explanation
Indices: 25023490--25023679 Score: 173
Period size: 27 Copynumber: 7.3 Consensus size: 27
25023480 TACTGAAATG
*
25023490 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* * *
25023517 CCTTCAATTTATAGAATTACCATTTCA
1 CCCTCGATTTATAGAATTACCATTTTA
* * *
25023544 CCCTCGATTTACAAAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
25023571 CCCTCGATTTATAGAATTACCA---T-
1 CCCTCGATTTATAGAATTACCATTTTA
* *
25023594 ---T-GATTTATAAAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* *
25023617 CCCTCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* * * *
25023644 CCCTC-AGTTTACAAAATTATCGTTTTA
1 CCCTCGA-TTTATAGAATTACCATTTTA
25023671 CCCTCGATT
1 CCCTCGATT
25023680 GTGAAATTAC
Statistics
Matches: 134, Mismatches: 19, Indels: 20
0.77 0.11 0.12
Matches are distributed among these distances:
19 15 0.11
20 1 0.01
22 1 0.01
24 1 0.01
26 2 0.01
27 113 0.84
28 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.39
Consensus pattern (27 bp):
CCCTCGATTTATAGAATTACCATTTTA
Found at i:25023562 original size:54 final size:53
Alignment explanation
Indices: 25023490--25023679 Score: 207
Period size: 54 Copynumber: 3.7 Consensus size: 53
25023480 TACTGAAATG
** * * * *
25023490 CCCTCGATTTGTAGAATTACCATTTTACCTTCAATTTATAGAATTACCATTTCA
1 CCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTATAGAATTACCATTT-A
25023544 CCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTATAGAATTACCA--T-
1 CCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTA
* * *
25023594 ---T-GATTTATAAAATTACCGTTTTACCCTCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTATAGAATTACCA-TTTA
*
25023644 CCCTC-AGTTTACAAAATTATCGTTTTACCCTCGATT
1 CCCTCGA-TTTACAAAATTACCGTTTTACCCTCGATT
25023680 GTGAAATTAC
Statistics
Matches: 116, Mismatches: 11, Indels: 18
0.80 0.08 0.12
Matches are distributed among these distances:
46 41 0.35
47 1 0.01
49 1 0.01
52 1 0.01
53 2 0.02
54 70 0.60
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.39
Consensus pattern (53 bp):
CCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTA
Found at i:25023606 original size:46 final size:46
Alignment explanation
Indices: 25023549--25023640 Score: 157
Period size: 46 Copynumber: 2.0 Consensus size: 46
25023539 TTTCACCCTC
* *
25023549 GATTTACAAAATTACCGTTTTACCCTCGATTTATAGAATTACCATT
1 GATTTACAAAATTACCGTTTTACCCTCGATTTACAAAATTACCATT
*
25023595 GATTTATAAAATTACCGTTTTACCCTCGATTTACAAAATTACCATT
1 GATTTACAAAATTACCGTTTTACCCTCGATTTACAAAATTACCATT
25023641 TTACCCTCAG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.34, C:0.20, G:0.08, T:0.39
Consensus pattern (46 bp):
GATTTACAAAATTACCGTTTTACCCTCGATTTACAAAATTACCATT
Found at i:25023662 original size:73 final size:73
Alignment explanation
Indices: 25023523--25023662 Score: 210
Period size: 73 Copynumber: 1.9 Consensus size: 73
25023513 TTTACCTTCA
* * * *
25023523 ATTTATAGAATTACCATTTCACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTATAGAAT
1 ATTTATAAAATTACCATTTCACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTACAAAAT
25023588 TACCATTG
66 TACCATTG
* *
25023596 ATTTATAAAATTACCGTTTTACCCTCGATTTACAAAATTACCATTTTACCCTC-AGTTTACAAAA
1 ATTTATAAAATTACCATTTCACCCTCGATTTACAAAATTACCATTTTACCCTCGA-TTTACAAAA
25023660 TTA
65 TTA
25023663 TCGTTTTACC
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
72 1 0.02
73 59 0.98
ACGTcount: A:0.34, C:0.21, G:0.06, T:0.39
Consensus pattern (73 bp):
ATTTATAAAATTACCATTTCACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTACAAAAT
TACCATTG
Found at i:25023668 original size:100 final size:100
Alignment explanation
Indices: 25023495--25023679 Score: 273
Period size: 100 Copynumber: 1.9 Consensus size: 100
25023485 AAATGCCCTC
* * * * *
25023495 GATTTGTAGAATTACCATTTTACCTTCAATTTATAGAATTACCATTTCACCCTCGATTTACAAAA
1 GATTTATAAAATTACCATTTTACCCTCAATTTACAAAATTACCATTTCACCCTCGATTTACAAAA
25023560 TTACCGTTTTACCCTCGATTTATAGAATTACCATT
66 TTACCGTTTTACCCTCGATTTATAGAATTACCATT
* * *
25023595 GATTTATAAAATTACCGTTTTACCCTCGATTTACAAAATTACCATTTTACCCTC-AGTTTACAAA
1 GATTTATAAAATTACCATTTTACCCTCAATTTACAAAATTACCATTTCACCCTCGA-TTTACAAA
*
25023659 ATTATCGTTTTACCCTCGATT
65 ATTACCGTTTTACCCTCGATT
25023680 GTGAAATTAC
Statistics
Matches: 75, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
99 1 0.01
100 74 0.99
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.40
Consensus pattern (100 bp):
GATTTATAAAATTACCATTTTACCCTCAATTTACAAAATTACCATTTCACCCTCGATTTACAAAA
TTACCGTTTTACCCTCGATTTATAGAATTACCATT
Found at i:25023701 original size:27 final size:26
Alignment explanation
Indices: 25023671--25023861 Score: 154
Period size: 27 Copynumber: 7.1 Consensus size: 26
25023661 TATCGTTTTA
* *
25023671 CCCTCGATTGTGAAATTACTAAAATAC
1 CCCT-GATTGTAAAATTACCAAAATAC
* *
25023698 CCCTG-TAGGATAGAATTACCAAAATAC
1 CCCTGAT-TG-TAAAATTACCAAAATAC
*
25023725 CCCTAGTTTGTAAAATTACCAAAATAC
1 CCCT-GATTGTAAAATTACCAAAATAC
* *
25023752 CCCTAGTTTGTAAAATTACCGAAATAC
1 CCCT-GATTGTAAAATTACCAAAATAC
* * * *
25023779 CACTGGTTTGTGAAATTACCGAAATA-
1 CCCT-GATTGTAAAATTACCAAAATAC
*
25023805 CCCTCAATTTGTAAAATTACCAAAATAC
1 CCCT-GA-TTGTAAAATTACCAAAATAC
*
25023833 CCCTGATT-TACAAAATTACAAAAATAC
1 CCCTGATTGT--AAAATTACCAAAATAC
25023860 CC
1 CC
25023862 TTGACTTTCT
Statistics
Matches: 138, Mismatches: 18, Indels: 16
0.80 0.10 0.09
Matches are distributed among these distances:
25 2 0.01
26 7 0.05
27 122 0.88
28 6 0.04
29 1 0.01
ACGTcount: A:0.40, C:0.23, G:0.10, T:0.28
Consensus pattern (26 bp):
CCCTGATTGTAAAATTACCAAAATAC
Found at i:25023752 original size:54 final size:52
Alignment explanation
Indices: 25023678--25023861 Score: 188
Period size: 54 Copynumber: 3.4 Consensus size: 52
25023668 TTACCCTCGA
* * ** *
25023678 TTGTGAAATTACTAAAATACCCCTGTAGGATAGAATTACCAAAATACCCCTAGT
1 TTGTAAAATTACCAAAATACCCCTGTTTG-TAAAATTACCAAAATACCCCT-GT
* *
25023732 TTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCGAAATACCACTGGT
1 TTGTAAAATTACCAAAATACCCCT-GTTTGTAAAATTACCAAAATACCCCT-GT
* * **
25023786 TTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGAT
1 TTGTAAAATTACCAAAATACCC-CTGTTTGTAAAATTACCAAAATACCCCTG-T
** *
25023840 TTACAAAATTACAAAAATACCC
1 TTGTAAAATTACCAAAATACCC
25023862 TTGACTTTCT
Statistics
Matches: 108, Mismatches: 19, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
53 1 0.01
54 103 0.95
55 4 0.04
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.28
Consensus pattern (52 bp):
TTGTAAAATTACCAAAATACCCCTGTTTGTAAAATTACCAAAATACCCCTGT
Found at i:25023848 original size:81 final size:81
Alignment explanation
Indices: 25023711--25023860 Score: 214
Period size: 81 Copynumber: 1.9 Consensus size: 81
25023701 TGTAGGATAG
* ** **
25023711 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCGAAA
1 AATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAGTTTACAAAATTACAAAAA
25023776 TACCACTGGTTTGTGA
66 TACCACTGGTTTGTGA
*
25023792 AATTACCGAAATA-CCCTCAATTTGTAAAATTACCAAAATACCCCT-GATTTACAAAATTACAAA
1 AATTACCAAAATACCCCT-AATTTGTAAAATTACCAAAATACCCCTAG-TTTACAAAATTACAAA
25023855 AATACC
64 AATACC
25023861 CTTGACTTTC
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
80 5 0.08
81 56 0.92
ACGTcount: A:0.42, C:0.22, G:0.08, T:0.28
Consensus pattern (81 bp):
AATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAGTTTACAAAATTACAAAAA
TACCACTGGTTTGTGA
Found at i:25023862 original size:54 final size:54
Alignment explanation
Indices: 25023711--25023918 Score: 177
Period size: 54 Copynumber: 3.8 Consensus size: 54
25023701 TGTAGGATAG
* ** *
25023711 AATTACCAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCC-CTAGTTTGTAA
1 AATTACCAAAATACCACTGA-TTTACAAAATTACCAAAATACCCTC-AATTTGTAA
* * *** *
25023765 AATTACCGAAATACCACTGGTTTGTGAAATTACCGAAATACCCTCAATTTGTAA
1 AATTACCAAAATACCACTGATTTACAAAATTACCAAAATACCCTCAATTTGTAA
* * * * *
25023819 AATTACCAAAATACCCCTGATTTACAAAATTACAAAAATACCCTTGACTTTCTAAA
1 AATTACCAAAATACCACTGATTTACAAAATTACCAAAATACCC-TCAATTTGT-AA
** * * **
25023875 AATTATAAAAATACCATTGGTTTACAAAATTACTGAAATACCCT
1 AATTACCAAAATACCACTGATTTACAAAATTACCAAAATACCCT
25023919 TGGTTTGTAG
Statistics
Matches: 126, Mismatches: 24, Indels: 7
0.80 0.15 0.04
Matches are distributed among these distances:
54 80 0.63
55 8 0.06
56 38 0.30
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.30
Consensus pattern (54 bp):
AATTACCAAAATACCACTGATTTACAAAATTACCAAAATACCCTCAATTTGTAA
Found at i:25024008 original size:27 final size:27
Alignment explanation
Indices: 25023978--25024038 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
25023968 ACCCTTAATA
25023978 GGTAAAAAGACCGTAA-AGCCCCTGTAG
1 GGTAAAAAGACCGTAATA-CCCCTGTAG
** * *
25024005 GGTAAAGTGACCGTAATACCCTTGTAT
1 GGTAAAAAGACCGTAATACCCCTGTAG
25024032 GGTAAAA
1 GGTAAAA
25024039 TGATGAATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
27 27 0.96
28 1 0.04
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (27 bp):
GGTAAAAAGACCGTAATACCCCTGTAG
Found at i:25024887 original size:25 final size:25
Alignment explanation
Indices: 25024853--25024922 Score: 122
Period size: 25 Copynumber: 2.8 Consensus size: 25
25024843 AGGAAGTGCT
*
25024853 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
25024878 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
25024903 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
25024923 ATTAAAAGAG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:25024935 original size:24 final size:24
Alignment explanation
Indices: 25024852--25024935 Score: 107
Period size: 25 Copynumber: 3.4 Consensus size: 24
25024842 GAGGAAGTGC
*
25024852 TAAAAGGGCTTTGCCCCAGTTTACC
1 TAAAAGGGCTTTGCCCCAGTTTA-T
*
25024877 GAAAAGGGCTTTGCCCCAGTTTAT
1 TAAAAGGGCTTTGCCCCAGTTTAT
*
25024901 CAAAAAGGGCTTTGCCCCAG-TTAT
1 -TAAAAGGGCTTTGCCCCAGTTTAT
25024925 TAAAAGAGGCT
1 TAAAAG-GGCT
25024936 AGGCCTCCAG
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
23 5 0.09
24 8 0.15
25 40 0.75
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.26
Consensus pattern (24 bp):
TAAAAGGGCTTTGCCCCAGTTTAT
Found at i:25024946 original size:50 final size:50
Alignment explanation
Indices: 25024853--25024947 Score: 122
Period size: 50 Copynumber: 1.9 Consensus size: 50
25024843 AGGAAGTGCT
**
25024853 AAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
**
25024903 AAAAGGGCTTTGCCCCAG-TTA-TTAAAAGAGGCTAGGCCTCCAGTT
1 AAAAGGGCTTTGCCCCAGTTTACCGAAAAG-GGCTAGGCC-CCAGTT
25024948 ATATGATAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
48 5 0.13
49 10 0.26
50 24 0.62
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.25
Consensus pattern (50 bp):
AAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
Found at i:25025128 original size:42 final size:42
Alignment explanation
Indices: 25025069--25025160 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
25025059 TAGTCTCCCC
* ** *
25025069 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
25025111 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
25025153 AAATGGGC
1 AAATGGGC
25025161 CTAAAGGCCA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:25025219 original size:31 final size:31
Alignment explanation
Indices: 25025184--25025267 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
25025174 CATTTACAGC
25025184 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
25025215 AAAGGCTACGGCCCAGTGATATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
25025246 AAATGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
25025268 TCAAGACTAA
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
30 5 0.10
31 44 0.90
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:25027607 original size:13 final size:13
Alignment explanation
Indices: 25027585--25027617 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
25027575 AAGGGTTTGT
25027585 TTAT-TAAACTAA
1 TTATCTAAACTAA
25027597 TTATCTAAACTAA
1 TTATCTAAACTAA
*
25027610 TTAACTAA
1 TTATCTAA
25027618 TTTAATTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:25029259 original size:47 final size:45
Alignment explanation
Indices: 25029194--25029451 Score: 243
Period size: 46 Copynumber: 5.5 Consensus size: 45
25029184 GTGTCAATGC
*
25029194 CATGTCCCAGACATGGTCTTACACTGGCTCACATCTTAAGTCGATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTCACATCTTAAGCCGATG
**
25029240 CCATGTCCCAGACATGGTCTTACACTAACT-ACCATCTCGT-AGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTCA-CATCT--TAAGCCGATG
* * * *
25029288 CATGTCCCAAACATGTCTTACACTGGCTTACGTCTCAAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCACATCTTAA-GCCGATG
* * * * *
25029334 CATGTCCCAAACATGTCTTACACTAGCTCTCGTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCACATCTTAA-GCCGATG
* * * *
25029380 CCATGTCCCAGACATAGCCTTACACTGGCTCTCATAATGT-GGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTCACAT-CT-TAAGCCGATG
25029428 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
25029452 AGGCAACAAT
Statistics
Matches: 181, Mismatches: 20, Indels: 21
0.82 0.09 0.09
Matches are distributed among these distances:
45 1 0.01
46 75 0.41
47 73 0.40
48 30 0.17
49 2 0.01
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTGGCTCACATCTTAAGCCGATG
Found at i:25029446 original size:140 final size:140
Alignment explanation
Indices: 25029194--25029451 Score: 351
Period size: 140 Copynumber: 1.8 Consensus size: 140
25029184 GTGTCAATGC
* * * * * *
25029194 CATGTCCCAGACATGGTCTTACACTGGCTCACATCTTAAGTCGATGCCATGTCCCAGACATGGTC
1 CATGTCCCAAACATGGTCTTACACTAGCTCACATCTCAAGCCGATGCCATGTCCCAGACATAGCC
*
25029259 TTACACTAACTACCATCTCGTAGCCGATGCATGTCCCAAACATGTCTTACACTGGCTTACGTCTC
66 TTACACTAACTACCATATCGTAGCCGATGCATGTCCCAAACATGTCTTACACTGGCTTACGTCTC
25029324 AAGGCCGATG
131 AAGGCCGATG
* *
25029334 CATGTCCCAAACAT-GTCTTACACTAGCTCTCGTCTCAATGCCGATGCCATGTCCCAGACATAGC
1 CATGTCCCAAACATGGTCTTACACTAGCTCACATCTCAA-GCCGATGCCATGTCCCAGACATAGC
** * *
25029398 CTTACACTGGCT-CTCATAAT-GTGGCCGATGCATGTCCCAGACATGTCTTACACT
65 CTTACACTAACTAC-CAT-ATCGTAGCCGATGCATGTCCCAAACATGTCTTACACT
25029452 AGGCAACAAT
Statistics
Matches: 102, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
139 21 0.21
140 80 0.78
141 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (140 bp):
CATGTCCCAAACATGGTCTTACACTAGCTCACATCTCAAGCCGATGCCATGTCCCAGACATAGCC
TTACACTAACTACCATATCGTAGCCGATGCATGTCCCAAACATGTCTTACACTGGCTTACGTCTC
AAGGCCGATG
Found at i:25033664 original size:125 final size:127
Alignment explanation
Indices: 25033506--25033782 Score: 459
Period size: 127 Copynumber: 2.2 Consensus size: 127
25033496 GAACATAGAC
*
25033506 ATAATTAATATATGAATTTGATTCATACAAAATATT-ATTATATATA-TTTGACTGAAATTAATT
1 ATAATTAATATATGAATTTGATTCATACAAAATATTAATTATATATATTTTGACCGAAATTAATT
* * * *
25033569 AATATAATTAATTTTAGTCAAAATATAAAATACATGAAAATTTATATTTTTTTGGAAAGAAT
66 AATAAAATTAATTTTAGTCAAAATATAAAAGACATGAAAATTAATATTCTTTTGGAAAGAAT
*
25033631 ATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTGACCGAAATTAATT
1 ATAATTAATATATGAATTTGATTCATACAAAATATTAATTATATATATTTTGACCGAAATTAATT
* * *
25033696 AATAAAATTAATTTTGGTCAAAATATAAAAGAGATGGAAATTAATATTCTTTTGGAAAGAAT
66 AATAAAATTAATTTTAGTCAAAATATAAAAGACATGAAAATTAATATTCTTTTGGAAAGAAT
25033758 ATAATTAATATATGAATTTGATTCA
1 ATAATTAATATATGAATTTGATTCA
25033783 AATAAATTTT
Statistics
Matches: 141, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
125 36 0.26
126 9 0.06
127 96 0.68
ACGTcount: A:0.46, C:0.04, G:0.09, T:0.41
Consensus pattern (127 bp):
ATAATTAATATATGAATTTGATTCATACAAAATATTAATTATATATATTTTGACCGAAATTAATT
AATAAAATTAATTTTAGTCAAAATATAAAAGACATGAAAATTAATATTCTTTTGGAAAGAAT
Found at i:25033824 original size:127 final size:126
Alignment explanation
Indices: 25033506--25033885 Score: 408
Period size: 127 Copynumber: 3.0 Consensus size: 126
25033496 GAACATAGAC
* *
25033506 ATAATTAATATATGAATTTGATTCATACAAAATATT-A-T-TATATATATTT-GACTGAAATTAA
1 ATAATTAATATATGAATTTGATTCATACAAAATATTAACTGTATATAT-TTTAAAC-AAAATTAA
* * * * *
25033567 TTAATATAATTAATTTTAGTCAAAATATAAAATACATGAAAATTTATATTTTTTTGGAAAGAAT
64 TTAATA-AATTAATTTTGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGGAAAGAAT
* * * *
25033631 ATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTGACCGAAATTAATT
1 ATAATTAATATATGAATTTGATTCATACAAAATATTAACTGTATATATTTTAAACAAAATTAATT
*
25033696 AATAAAATTAATTTTGGTCAAAATATAAAAGAGATGGAAATTAATATTCTTTTGGAAAGAAT
66 AAT-AAATTAATTTTGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGGAAAGAAT
* *
25033758 ATAATTAATATATGAATTTGATTCA-A-ATAAAT-TTTACTG-A-AT-TTGTTAATATAAACAGT
1 ATAATTAATATATGAATTTGATTCATACA-AAATATTAACTGTATATATT-TTAA-ACAAA-A-T
* * * * * *
25033817 T-A-T-ATTAATTAATTTCGATCAAAATATAGAAGACATAGAAATTAGTATTCTTTTGGAAAGAA
61 TAATTAATAAATTAATTTTGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGGAAAGAA
25033879 T
126 T
25033880 ATAATT
1 ATAATT
25033886 CATTTTTCTA
Statistics
Matches: 224, Mismatches: 21, Indels: 23
0.84 0.08 0.09
Matches are distributed among these distances:
122 59 0.26
123 7 0.03
124 4 0.02
125 44 0.20
126 8 0.04
127 93 0.42
128 9 0.04
ACGTcount: A:0.46, C:0.05, G:0.09, T:0.40
Consensus pattern (126 bp):
ATAATTAATATATGAATTTGATTCATACAAAATATTAACTGTATATATTTTAAACAAAATTAATT
AATAAATTAATTTTGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGGAAAGAAT
Found at i:25035932 original size:40 final size:39
Alignment explanation
Indices: 25035834--25036096 Score: 278
Period size: 40 Copynumber: 6.6 Consensus size: 39
25035824 TCCTCGTTCA
* * * *
25035834 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
25035873 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
25035912 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
25035952 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
25035992 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
25036032 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
25036073 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
25036097 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 40 0.20
40 145 0.74
41 12 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:25036056 original size:120 final size:119
Alignment explanation
Indices: 25035834--25036096 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 119
25035824 TCCTCGTTCA
* * *
25035834 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
* * *
25035899 TAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAAC-TCGCAC
66 TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
* * * * *
25035952 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGG-
* * ** * *
25036017 ATTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
63 ATTTAATAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAATAACTTAGCAC
*
25036073 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
25036097 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 37 0.31
120 75 0.62
121 9 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
Found at i:25036105 original size:41 final size:41
Alignment explanation
Indices: 25036028--25036105 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
25036018 TTTGTATCTC
* * *
25036028 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
25036069 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
25036106 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:25047177 original size:36 final size:37
Alignment explanation
Indices: 25047120--25047190 Score: 108
Period size: 36 Copynumber: 1.9 Consensus size: 37
25047110 TAAATTAATT
* *
25047120 TTATTTGCTTCAAAATAAAAAATAGAATAATTAAAGA
1 TTATTTGCTTAAAAATAAAAAATAAAATAATTAAAGA
*
25047157 TTATTTTCTTAAAAAT-AAAAATAAAATAATTAAA
1 TTATTTGCTTAAAAATAAAAAATAAAATAATTAAA
25047191 TTAAGTTTGG
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
36 17 0.55
37 14 0.45
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.35
Consensus pattern (37 bp):
TTATTTGCTTAAAAATAAAAAATAAAATAATTAAAGA
Found at i:25047844 original size:34 final size:32
Alignment explanation
Indices: 25047801--25047872 Score: 94
Period size: 34 Copynumber: 2.2 Consensus size: 32
25047791 TATATATAAT
25047801 AATATAATATAATA-ACATACTTATT-AATTAAGTA
1 AATATAATATAATATACA-ACTT-TTAAATTAA--A
25047835 AATATAATATAATATACAACTTTTAAATTAAA
1 AATATAATATAATATACAACTTTTAAATTAAA
25047867 AATATA
1 AATATA
25047873 TTAGATTTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
32 7 0.19
33 2 0.06
34 24 0.67
35 3 0.08
ACGTcount: A:0.56, C:0.06, G:0.01, T:0.38
Consensus pattern (32 bp):
AATATAATATAATATACAACTTTTAAATTAAA
Found at i:25056693 original size:40 final size:40
Alignment explanation
Indices: 25056643--25056736 Score: 134
Period size: 40 Copynumber: 2.4 Consensus size: 40
25056633 GTTTGGATAA
* * *
25056643 AAAACGCCGCTAAAGATCGAGCATTAGTGGCAATTTTTGG
1 AAAACGCCGCTAAAGATCAAACATTAGCGGCAATTTTTGG
* * *
25056683 AAAACGCCGCTAAAGGTCAAATATTAGCGGCACTTTTTGG
1 AAAACGCCGCTAAAGATCAAACATTAGCGGCAATTTTTGG
25056723 AAAACGCCGCTAAA
1 AAAACGCCGCTAAA
25056737 AACAACCATT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.22
Consensus pattern (40 bp):
AAAACGCCGCTAAAGATCAAACATTAGCGGCAATTTTTGG
Found at i:25056911 original size:14 final size:14
Alignment explanation
Indices: 25056885--25056925 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
25056875 CAAGTAATTA
25056885 TATGGATTTAAGGAT
1 TATGGA-TTAAGGAT
25056900 TATGGATTAAGGAT
1 TATGGATTAAGGAT
*
25056914 TATGGTTTAAGG
1 TATGGATTAAGG
25056926 GTTGGGATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
14 19 0.76
15 6 0.24
ACGTcount: A:0.32, C:0.00, G:0.29, T:0.39
Consensus pattern (14 bp):
TATGGATTAAGGAT
Found at i:25056960 original size:13 final size:13
Alignment explanation
Indices: 25056945--25056986 Score: 66
Period size: 13 Copynumber: 3.1 Consensus size: 13
25056935 TGAGGTTTAA
25056945 GGGTTAAGGGTTAG
1 GGGTT-AGGGTTAG
25056959 GGGTTAGGGTTAG
1 GGGTTAGGGTTAG
25056972 GGGTTAGGTGTTAG
1 GGGTTAGG-GTTAG
25056986 G
1 G
25056987 AATTAGAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
13 16 0.59
14 11 0.41
ACGTcount: A:0.17, C:0.00, G:0.52, T:0.31
Consensus pattern (13 bp):
GGGTTAGGGTTAG
Found at i:25056969 original size:20 final size:20
Alignment explanation
Indices: 25056944--25056986 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
25056934 TTGAGGTTTA
25056944 AGGGTTAAGGGTTAGGGGTT
1 AGGGTTAAGGGTTAGGGGTT
* *
25056964 AGGGTTAGGGGTTAGGTGTT
1 AGGGTTAAGGGTTAGGGGTT
25056984 AGG
1 AGG
25056987 AATTAGAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.51, T:0.30
Consensus pattern (20 bp):
AGGGTTAAGGGTTAGGGGTT
Found at i:25056978 original size:7 final size:7
Alignment explanation
Indices: 25056945--25056986 Score: 59
Period size: 7 Copynumber: 6.1 Consensus size: 7
25056935 TGAGGTTTAA
*
25056945 GGGTTAA
1 GGGTTAG
25056952 GGGTTAG
1 GGGTTAG
25056959 GGGTTA-
1 GGGTTAG
25056965 GGGTTAG
1 GGGTTAG
25056972 GGGTTAG
1 GGGTTAG
*
25056979 GTGTTAG
1 GGGTTAG
25056986 G
1 G
25056987 AATTAGAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
6 6 0.19
7 26 0.81
ACGTcount: A:0.17, C:0.00, G:0.52, T:0.31
Consensus pattern (7 bp):
GGGTTAG
Found at i:25072529 original size:5 final size:5
Alignment explanation
Indices: 25072514--25072543 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
25072504 AAAATACCCC
25072514 TATTT TA-TT TATTT TATTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT TATTT T
25072544 TTCACACTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 20 0.83
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TATTT
Found at i:25075706 original size:21 final size:21
Alignment explanation
Indices: 25075680--25075720 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
25075670 AGACGAGCAA
* *
25075680 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
25075701 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
25075721 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:25095624 original size:193 final size:194
Alignment explanation
Indices: 25095249--25095635 Score: 505
Period size: 195 Copynumber: 2.0 Consensus size: 194
25095239 TAAAAGGTTA
25095249 AATAATATTCTCAAGATCTATCTGATTATTAGTCTCTAAGATTAAGCGATAGGTACCAATAACTA
1 AATAATATTCTCAAGATCTATCTGATTATTAGTCTCTAAGATTAAGCGATAGGTACCAATAACTA
* *
25095314 TCACGTCCTCTTTGAGATGGTTCCTATATAGATGAATTTCTCACTTTCTTTCAGTGCCCTGCTTG
66 TCACGTCCGCTTTGAGATGGTTCCTATATAGATGAA-TCCTCACTTTCTTTCAGTGCCCTGCTTG
*
25095379 CAAGGAATCCTTACGTTAAATTAGTAATATGAGTAGTGACACCAAAATCAATCCACCAAGTATTT
130 CAAGGAATCCTTACATTAAATTAGTAATATGAGTAGTGACACCAAAATCAATCCACCAAGTATTT
* * * * *
25095444 AATAATCTTCTCAAGAGTC-ATTTGATTATTAGTCTCTAAGATTAAGCGTTAGGTTCCAATAGCT
1 AATAATATTCTCAAGA-TCTATCTGATTATTAGTCTCTAAGATTAAGCGATAGGTACCAATAACT
* * * ** * *
25095508 ATTACTTCCGCTTTGAGATGGTTCCTCATGTAGATG-A-CCTCACTTTCTTTC-GATTTCTTGGT
65 ATCACGTCCGCTTTGAGATGGTTCCT-ATATAGATGAATCCTCACTTTCTTTCAG-TGCCCTGCT
* ** * * *
25095570 TGTAAGGAATCCTTACATTGGATTAGTAATGTGAGTAGT-AGCTCCAGAATCAATCCACCAAGTA
128 TGCAAGGAATCCTTACATTAAATTAGTAATATGAGTAGTGA-CACCAAAATCAATCCACCAAGTA
25095634 TT
192 TT
25095636 AGAAAGATCT
Statistics
Matches: 167, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
192 2 0.01
193 75 0.45
195 80 0.48
196 10 0.06
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.36
Consensus pattern (194 bp):
AATAATATTCTCAAGATCTATCTGATTATTAGTCTCTAAGATTAAGCGATAGGTACCAATAACTA
TCACGTCCGCTTTGAGATGGTTCCTATATAGATGAATCCTCACTTTCTTTCAGTGCCCTGCTTGC
AAGGAATCCTTACATTAAATTAGTAATATGAGTAGTGACACCAAAATCAATCCACCAAGTATTT
Found at i:25098463 original size:2 final size:2
Alignment explanation
Indices: 25098452--25098486 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
25098442 TGCGCGCGCG
*
25098452 CA CA CG CA CA CA CA CA CA CA CA CA CA CA CA CA CA C
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA C
25098487 TCACCTTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.51, G:0.03, T:0.00
Consensus pattern (2 bp):
CA
Found at i:25102170 original size:17 final size:17
Alignment explanation
Indices: 25102148--25102184 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
25102138 CATCTTCATC
25102148 CACAGTAGTTGAAGATG
1 CACAGTAGTTGAAGATG
25102165 CACAGTAGTTGAAGATG
1 CACAGTAGTTGAAGATG
25102182 CAC
1 CAC
25102185 CAAAGCAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.35, C:0.16, G:0.27, T:0.22
Consensus pattern (17 bp):
CACAGTAGTTGAAGATG
Done.