Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 ID=Chr06-JGI_221_v2.0
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: 51074515
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 971674 characters in sequence are not A, C, G, or T
File 81 of 168
Found at i:23784564 original size:25 final size:25
Alignment explanation
Indices: 23784530--23784681 Score: 183
Period size: 25 Copynumber: 6.3 Consensus size: 25
23784520 TCAAAATAAC
23784530 TCAAA-AAAATTCTATTTTATTACA
1 TCAAATAAAATTCTATTTTATTACA
23784554 TCAAATAAAATTCTATTTTATTACA
1 TCAAATAAAATTCTATTTTATTACA
*
23784579 TCAAATAAACTTCTATTTTATTACA
1 TCAAATAAAATTCTATTTTATTACA
* ** *
23784604 TCAAATAATA-TC-A--AAATAAC-
1 TCAAATAAAATTCTATTTTATTACA
*
23784624 TCAAA-AAAATTTCTAATTTATTACA
1 TCAAATAAAA-TTCTATTTTATTACA
*
23784649 TCAAATAAACTTCTATTTTATTACA
1 TCAAATAAAATTCTATTTTATTACA
23784674 TCAAATAA
1 TCAAATAA
23784682 CACAAAAAAA
Statistics
Matches: 108, Mismatches: 12, Indels: 15
0.80 0.09 0.11
Matches are distributed among these distances:
19 3 0.03
20 5 0.05
21 6 0.06
22 1 0.01
23 1 0.01
24 11 0.10
25 78 0.72
26 3 0.03
ACGTcount: A:0.47, C:0.14, G:0.00, T:0.39
Consensus pattern (25 bp):
TCAAATAAAATTCTATTTTATTACA
Found at i:23784644 original size:45 final size:44
Alignment explanation
Indices: 23784502--23784656 Score: 193
Period size: 45 Copynumber: 3.4 Consensus size: 44
23784492 TAAGCTCATG
23784502 TTATTACATCAAATAATATCAAAATAACTCAAAAAAATTCTATT
1 TTATTACATCAAATAATATCAAAATAACTCAAAAAAATTCTATT
* ** * *
23784546 TTATTACATCAAATAAAATTCTATTTTATTACATCAAATAAACTTCTATT
1 TTATTACATCAAATAATA-TC-A--AAATAAC-TCAAA-AAAATTCTATT
*
23784596 TTATTACATCAAATAATATCAAAATAACTCAAAAAAATTTCTAAT
1 TTATTACATCAAATAATATCAAAATAACTCAAAAAAA-TTCTATT
23784641 TTATTACATCAAATAA
1 TTATTACATCAAATAA
23784657 ACTTCTATTT
Statistics
Matches: 93, Mismatches: 11, Indels: 13
0.79 0.09 0.11
Matches are distributed among these distances:
44 20 0.22
45 29 0.31
46 5 0.05
48 5 0.05
49 7 0.08
50 27 0.29
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.37
Consensus pattern (44 bp):
TTATTACATCAAATAATATCAAAATAACTCAAAAAAATTCTATT
Found at i:23784668 original size:95 final size:94
Alignment explanation
Indices: 23784502--23784681 Score: 333
Period size: 95 Copynumber: 1.9 Consensus size: 94
23784492 TAAGCTCATG
*
23784502 TTATTACATCAAATAATATCAAAATAACTCAAAAAAATTCTATTTTATTACATCAAATAAAATTC
1 TTATTACATCAAATAATATCAAAATAACTCAAAAAAATTCTAATTTATTACATCAAATAAAATTC
23784567 TATTTTATTACATCAAATAAACTTCTATT
66 TATTTTATTACATCAAATAAACTTCTATT
*
23784596 TTATTACATCAAATAATATCAAAATAACTCAAAAAAATTTCTAATTTATTACATCAAATAAACTT
1 TTATTACATCAAATAATATCAAAATAACTCAAAAAAA-TTCTAATTTATTACATCAAATAAAATT
23784661 CTATTTTATTACATCAAATAA
65 CTATTTTATTACATCAAATAA
23784682 CACAAAAAAA
Statistics
Matches: 83, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
94 37 0.45
95 46 0.55
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.38
Consensus pattern (94 bp):
TTATTACATCAAATAATATCAAAATAACTCAAAAAAATTCTAATTTATTACATCAAATAAAATTC
TATTTTATTACATCAAATAAACTTCTATT
Found at i:23785166 original size:18 final size:18
Alignment explanation
Indices: 23785143--23785182 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
23785133 GACTCGGAAA
*
23785143 AGGATACATATAAGGGTT
1 AGGATACATATAAGGGCT
23785161 AGGATACATATAAGGGCT
1 AGGATACATATAAGGGCT
23785179 AGGA
1 AGGA
23785183 AACGTACCTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.40, C:0.07, G:0.30, T:0.23
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:23786064 original size:20 final size:20
Alignment explanation
Indices: 23786027--23786064 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
23786017 TTTATTTTTA
*
23786027 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
23786047 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
23786065 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:23800206 original size:16 final size:16
Alignment explanation
Indices: 23800185--23800217 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
23800175 AACCTTGAAT
23800185 GGTTACATTAAAAATG
1 GGTTACATTAAAAATG
23800201 GGTTACATTAAAAATG
1 GGTTACATTAAAAATG
23800217 G
1 G
23800218 ATCATAACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.42, C:0.06, G:0.21, T:0.30
Consensus pattern (16 bp):
GGTTACATTAAAAATG
Found at i:23800572 original size:26 final size:26
Alignment explanation
Indices: 23800524--23800586 Score: 90
Period size: 26 Copynumber: 2.4 Consensus size: 26
23800514 CCTGTAAGTG
23800524 TTCTGAAACTAATACATGCTATGATA
1 TTCTGAAACTAATACATGCTATGATA
* * *
23800550 TTCTGAAACTGATATATGTTATGATA
1 TTCTGAAACTAATACATGCTATGATA
*
23800576 TTCTAAAACTA
1 TTCTGAAACTA
23800587 GTGTAGGTAG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.38
Consensus pattern (26 bp):
TTCTGAAACTAATACATGCTATGATA
Found at i:23811065 original size:25 final size:25
Alignment explanation
Indices: 23811037--23811092 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
23811027 TATGCTAACT
* * *
23811037 CAAGCTATAGATCGGTCTGCTCTCA
1 CAAGCTATAAATCAGTATGCTCTCA
23811062 CAAGCTATAAATCAGTATGCTCTCA
1 CAAGCTATAAATCAGTATGCTCTCA
*
23811087 CGAGCT
1 CAAGCT
23811093 GTGGGTCGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.27
Consensus pattern (25 bp):
CAAGCTATAAATCAGTATGCTCTCA
Found at i:23817579 original size:64 final size:64
Alignment explanation
Indices: 23817478--23817628 Score: 266
Period size: 64 Copynumber: 2.4 Consensus size: 64
23817468 AACACATACT
*
23817478 CAACAATAATGAATTAGAAAATGGTAGCATACTACATCTAAAATTACGGCACAAATCAGGTTTC
1 CAACAATAATGAATTAGAAAATGGCAGCATACTACATCTAAAATTACGGCACAAATCAGGTTTC
* *
23817542 CAACAATAATGAATTAGAAAATGGCAGCATACTACATCTAAACTTACGGCACAAATCGGGTTTC
1 CAACAATAATGAATTAGAAAATGGCAGCATACTACATCTAAAATTACGGCACAAATCAGGTTTC
*
23817606 CAACAATAATGAATCAGAAAATG
1 CAACAATAATGAATTAGAAAATG
23817629 ACATTTCTAT
Statistics
Matches: 83, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 83 1.00
ACGTcount: A:0.44, C:0.18, G:0.15, T:0.23
Consensus pattern (64 bp):
CAACAATAATGAATTAGAAAATGGCAGCATACTACATCTAAAATTACGGCACAAATCAGGTTTC
Found at i:23826182 original size:21 final size:21
Alignment explanation
Indices: 23826158--23826200 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
23826148 TAGAACTACA
*
23826158 ATCA-AAGCAAGATGCATCCAC
1 ATCAGAAGC-AGATGCAGCCAC
*
23826179 ATCAGAATCAGATGCAGCCAC
1 ATCAGAAGCAGATGCAGCCAC
23826200 A
1 A
23826201 ACACTCTTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.42, C:0.28, G:0.16, T:0.14
Consensus pattern (21 bp):
ATCAGAAGCAGATGCAGCCAC
Found at i:23827984 original size:16 final size:17
Alignment explanation
Indices: 23827963--23827997 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
23827953 AATTAGAGGA
*
23827963 GGGATTTTTG-GGATTT
1 GGGATTGTTGCGGATTT
23827979 GGGATTGTTGCGGATTT
1 GGGATTGTTGCGGATTT
23827996 GG
1 GG
23827998 TGAGAGTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.11, C:0.03, G:0.43, T:0.43
Consensus pattern (17 bp):
GGGATTGTTGCGGATTT
Found at i:23829101 original size:54 final size:54
Alignment explanation
Indices: 23828954--23829236 Score: 333
Period size: 54 Copynumber: 5.3 Consensus size: 54
23828944 AGACCCCAAA
** * *
23828954 ATAGGGTAAAACAACTAAAATACCCCTAT-AGGATAAAATGATCGAAATACCCCT
1 ATAGGGTAAAATGACCAAAATACCCCTATAAGG-TAAAATGATCGAAATACCCCC
* * * *
23829008 ACA-GGTAAAATGACCAAAATACCCCTATAGGGTAGAATGATCAAAATACCCCC
1 ATAGGGTAAAATGACCAAAATACCCCTATAAGGTAAAATGATCGAAATACCCCC
* * * * *
23829061 ATAGGGTAAAATGACTAAAATACCCCCATAAGGTAAAATGACCGAAATATCCCT
1 ATAGGGTAAAATGACCAAAATACCCCTATAAGGTAAAATGATCGAAATACCCCC
* * *
23829115 ATAGGGTAAAATGACCAAAATACCCCTATAGGGTAAAATGAACAAAATACCCCC
1 ATAGGGTAAAATGACCAAAATACCCCTATAAGGTAAAATGATCGAAATACCCCC
* * *
23829169 ATAGGGTAAAATGACCGAAATAACACC-ATAAGGTAGAAA-GATCGAAATA-CTCC
1 ATAGGGTAAAATGACCAAAAT-ACCCCTATAAGGTA-AAATGATCGAAATACCCCC
23829222 ATAGGGTAAAATGAC
1 ATAGGGTAAAATGAC
23829237 TGTTATACCC
Statistics
Matches: 195, Mismatches: 30, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
53 60 0.31
54 128 0.66
55 7 0.04
ACGTcount: A:0.46, C:0.20, G:0.16, T:0.18
Consensus pattern (54 bp):
ATAGGGTAAAATGACCAAAATACCCCTATAAGGTAAAATGATCGAAATACCCCC
Found at i:23829189 original size:27 final size:27
Alignment explanation
Indices: 23828954--23829236 Score: 302
Period size: 27 Copynumber: 10.6 Consensus size: 27
23828944 AGACCCCAAA
** * *
23828954 ATAGGGTAAAACAACTAAAATACCCCT
1 ATAGGGTAAAATGACCAAAATACCCCC
* * * *
23828981 ATAGGATAAAATGATCGAAATACCCCT
1 ATAGGGTAAAATGACCAAAATACCCCC
* *
23829008 ACA-GGTAAAATGACCAAAATACCCCT
1 ATAGGGTAAAATGACCAAAATACCCCC
* *
23829034 ATAGGGTAGAATGATCAAAATACCCCC
1 ATAGGGTAAAATGACCAAAATACCCCC
*
23829061 ATAGGGTAAAATGACTAAAATACCCCC
1 ATAGGGTAAAATGACCAAAATACCCCC
* * * *
23829088 ATAAGGTAAAATGACCGAAATATCCCT
1 ATAGGGTAAAATGACCAAAATACCCCC
*
23829115 ATAGGGTAAAATGACCAAAATACCCCT
1 ATAGGGTAAAATGACCAAAATACCCCC
*
23829142 ATAGGGTAAAATGAACAAAATACCCCC
1 ATAGGGTAAAATGACCAAAATACCCCC
* * *
23829169 ATAGGGTAAAATGACCGAAATAACACC
1 ATAGGGTAAAATGACCAAAATACCCCC
* * * *
23829196 ATAAGGTAGAAA-GATCGAAATA-CTCC
1 ATAGGGTA-AAATGACCAAAATACCCCC
23829222 ATAGGGTAAAATGAC
1 ATAGGGTAAAATGAC
23829237 TGTTATACCC
Statistics
Matches: 217, Mismatches: 36, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
25 3 0.01
26 34 0.16
27 177 0.82
28 3 0.01
ACGTcount: A:0.46, C:0.20, G:0.16, T:0.18
Consensus pattern (27 bp):
ATAGGGTAAAATGACCAAAATACCCCC
Found at i:23837591 original size:19 final size:19
Alignment explanation
Indices: 23837567--23837605 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
23837557 TTGTGAGCAC
23837567 TTAGCATTCTATTGAATAT
1 TTAGCATTCTATTGAATAT
23837586 TTAGCATTCTATTGAATAT
1 TTAGCATTCTATTGAATAT
23837605 T
1 T
23837606 CACGTTGGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.31, C:0.10, G:0.10, T:0.49
Consensus pattern (19 bp):
TTAGCATTCTATTGAATAT
Found at i:23844234 original size:33 final size:33
Alignment explanation
Indices: 23844173--23844463 Score: 269
Period size: 33 Copynumber: 8.8 Consensus size: 33
23844163 TGGAATCCAT
* * * * *
23844173 AGAGGTAGTCTGTTGCGATAGTAAACACAGAAC
1 AGAGATAGTCCGTTGGGACAGTAAACACATAAC
* *** *
23844206 AAAGATAGTTTATTGGGACAGTAAACACATAAT
1 AGAGATAGTCCGTTGGGACAGTAAACACATAAC
* *
23844239 AGAGATAGTCTGCTGGGACAGTAAACACATAAC
1 AGAGATAGTCCGTTGGGACAGTAAACACATAAC
* * * * * *
23844272 AGAGATAGTTCATTGTGATAGTAAACACAGAAT
1 AGAGATAGTCCGTTGGGACAGTAAACACATAAC
*
23844305 AGAGATAGTCCGTTGGGACAATAAACACA-ACAC
1 AGAGATAGTCCGTTGGGACAGTAAACACATA-AC
* * * * * *
23844338 AAAGATAGTCCGCTAGGATAATAAACACATGAC
1 AGAGATAGTCCGTTGGGACAGTAAACACATAAC
* *
23844371 AGAGATAGTCCGTTAGGATAGTAAACACATAAC
1 AGAGATAGTCCGTTGGGACAGTAAACACATAAC
* *
23844404 AGAGATAGTCTGTTGGGACAGTAAATACATAAC
1 AGAGATAGTCCGTTGGGACAGTAAACACATAAC
* * * *
23844437 AAAAATAGTCTGTTGGGACAATAAACA
1 AGAGATAGTCCGTTGGGACAGTAAACA
23844464 TATATAGAGT
Statistics
Matches: 212, Mismatches: 44, Indels: 4
0.82 0.17 0.02
Matches are distributed among these distances:
32 1 0.00
33 211 1.00
ACGTcount: A:0.42, C:0.14, G:0.22, T:0.22
Consensus pattern (33 bp):
AGAGATAGTCCGTTGGGACAGTAAACACATAAC
Found at i:23844363 original size:99 final size:99
Alignment explanation
Indices: 23844189--23844463 Score: 329
Period size: 99 Copynumber: 2.8 Consensus size: 99
23844179 AGTCTGTTGC
* * * * * * *
23844189 GATAGTAAACACAGAACAAAGATAGTTTATTGGGACAGTAAACACATAATAGAGATAGTCTGCTG
1 GATAGTAAACACAGAACAGAGATAGTCTGTTGGGACAGTAAACACATAACAAAGATAGTCCGCTA
* *
23844254 GGACAGTAAACACATAACAGAGATAGTTCATT-G
66 GGACAATAAACACATAACAGAGATAGTCCATTAG
* * *
23844287 TGATAGTAAACACAGAATAGAGATAGTCCGTTGGGACAATAAACACA-ACACAAAGATAGTCCGC
1 -GATAGTAAACACAGAACAGAGATAGTCTGTTGGGACAGTAAACACATA-ACAAAGATAGTCCGC
* * *
23844351 TAGGATAATAAACACATGACAGAGATAGTCCGTTAG
64 TAGGACAATAAACACATAACAGAGATAGTCCATTAG
* * * * * *
23844387 GATAGTAAACACATAACAGAGATAGTCTGTTGGGACAGTAAATACATAACAAAAATAGTCTGTTG
1 GATAGTAAACACAGAACAGAGATAGTCTGTTGGGACAGTAAACACATAACAAAGATAGTCCGCTA
23844452 GGACAATAAACA
66 GGACAATAAACA
23844464 TATATAGAGT
Statistics
Matches: 148, Mismatches: 25, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
98 1 0.01
99 145 0.98
100 2 0.01
ACGTcount: A:0.44, C:0.15, G:0.21, T:0.21
Consensus pattern (99 bp):
GATAGTAAACACAGAACAGAGATAGTCTGTTGGGACAGTAAACACATAACAAAGATAGTCCGCTA
GGACAATAAACACATAACAGAGATAGTCCATTAG
Found at i:23848471 original size:25 final size:25
Alignment explanation
Indices: 23848443--23848494 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
23848433 TTACATTTAA
*
23848443 AATGATGGGAATTATTTTAAAATAT
1 AATGATGGGAATTATTGTAAAATAT
23848468 AATGATGGGAATTATTGTAAAATAT
1 AATGATGGGAATTATTGTAAAATAT
23848493 AA
1 AA
23848495 AGTAAAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.46, C:0.00, G:0.17, T:0.37
Consensus pattern (25 bp):
AATGATGGGAATTATTGTAAAATAT
Found at i:23868690 original size:75 final size:75
Alignment explanation
Indices: 23868567--23868714 Score: 287
Period size: 75 Copynumber: 2.0 Consensus size: 75
23868557 TAGTGAGTCG
*
23868567 TATATTTTGATACAGTCAAAACATATACTGTAATAGGTTGTACTATAAAGACTGATGTTGGGTAT
1 TATATTTTGATACAGTCAAAACATATACTGTAATAGGTTGTACTATAAAAACTGATGTTGGGTAT
23868632 GCCACAATTT
66 GCCACAATTT
23868642 TATATTTTGATACAGTCAAAACATATACTGTAATAGGTTGTACTATAAAAACTGATGTTGGGTAT
1 TATATTTTGATACAGTCAAAACATATACTGTAATAGGTTGTACTATAAAAACTGATGTTGGGTAT
23868707 GCCACAAT
66 GCCACAAT
23868715 CTATGTAGTG
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 72 1.00
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.35
Consensus pattern (75 bp):
TATATTTTGATACAGTCAAAACATATACTGTAATAGGTTGTACTATAAAAACTGATGTTGGGTAT
GCCACAATTT
Found at i:23879568 original size:25 final size:25
Alignment explanation
Indices: 23879534--23879604 Score: 106
Period size: 25 Copynumber: 2.8 Consensus size: 25
23879524 CCTTTACATA
*
23879534 TATGCTCACACGAGATGTGAATAAG
1 TATGCTCACACGAGCTGTGAATAAG
* *
23879559 TATGCTCACACGAGCTATGACTAAG
1 TATGCTCACACGAGCTGTGAATAAG
*
23879584 TATGCTCACATGAGCTGTGAA
1 TATGCTCACACGAGCTGTGAA
23879605 AATGGGCATG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (25 bp):
TATGCTCACACGAGCTGTGAATAAG
Found at i:23893853 original size:91 final size:91
Alignment explanation
Indices: 23893698--23893884 Score: 358
Period size: 91 Copynumber: 2.1 Consensus size: 91
23893688 CCAAAGGTCC
23893698 GATTGAAGCTGAGTCTAGGGTTTAAAAGCCTAAATTTATCTATCTTTTACCTACCTCTAGCCTAG
1 GATTGAAGCTGAGTCTAGGGTTTAAAAGCCTAAATTTATCTATCTTTTACCTACCTCTAGCCTAG
*
23893763 CTACGTTACAACCTTTTTAAAGATCT
66 CTACGTTACAACCTTTTTAAAGACCT
23893789 GATTGAAGCTGAGTCTAGGGTTTAAAAGCCTAAATTTATCTATCTTTTACCTACCTCTAGCCTAG
1 GATTGAAGCTGAGTCTAGGGTTTAAAAGCCTAAATTTATCTATCTTTTACCTACCTCTAGCCTAG
23893854 CTACGTTACAACCTTTTTAAAGACCT
66 CTACGTTACAACCTTTTTAAAGACCT
23893880 -ATTGA
1 GATTGA
23893885 TTCAAGTTTT
Statistics
Matches: 95, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
90 5 0.05
91 90 0.95
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (91 bp):
GATTGAAGCTGAGTCTAGGGTTTAAAAGCCTAAATTTATCTATCTTTTACCTACCTCTAGCCTAG
CTACGTTACAACCTTTTTAAAGACCT
Found at i:23895893 original size:15 final size:15
Alignment explanation
Indices: 23895873--23895902 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
23895863 TAATTAATCT
*
23895873 AACACAGTTATGTCA
1 AACACAATTATGTCA
23895888 AACACAATTATGTCA
1 AACACAATTATGTCA
23895903 TCTTGATTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.20, G:0.10, T:0.27
Consensus pattern (15 bp):
AACACAATTATGTCA
Found at i:23903172 original size:54 final size:54
Alignment explanation
Indices: 23903105--23903214 Score: 202
Period size: 54 Copynumber: 2.0 Consensus size: 54
23903095 CGGCCTCTGA
*
23903105 ATCTTAAACAATCATTAGCATCAACTCAAAACTCTGAATCAAAATTCAAATCAC
1 ATCTTAAACAATCATTAGCATCAACTCAAAACTCTAAATCAAAATTCAAATCAC
*
23903159 ATCTTAAACAATCATTAGCATCAACTCAAAACTCTAAATCAGAATTCAAATCAC
1 ATCTTAAACAATCATTAGCATCAACTCAAAACTCTAAATCAAAATTCAAATCAC
23903213 AT
1 AT
23903215 TGAGTCTGTT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.46, C:0.24, G:0.04, T:0.26
Consensus pattern (54 bp):
ATCTTAAACAATCATTAGCATCAACTCAAAACTCTAAATCAAAATTCAAATCAC
Found at i:23906902 original size:22 final size:22
Alignment explanation
Indices: 23906823--23906894 Score: 117
Period size: 22 Copynumber: 3.3 Consensus size: 22
23906813 ATTGTTCAAA
* **
23906823 CATGAGAGCTTAGTACGTGAAA
1 CATGAGAGCTTAGTACGTTAGC
23906845 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAGC
23906867 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAGC
23906889 CATGAG
1 CATGAG
23906895 GGTTTAGTTT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.25
Consensus pattern (22 bp):
CATGAGAGCTTAGTACGTTAGC
Found at i:23912021 original size:25 final size:25
Alignment explanation
Indices: 23911957--23912022 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
23911947 TTGAAAGTTC
* *
23911957 ACTAGGGGTAAAATCGTCAAAATTTT
1 ACTA-GGGTAAAATTGTCAAAACTTT
* * *
23911983 ATTGGGGTAAAATTTTCAAAACTTT
1 ACTAGGGTAAAATTGTCAAAACTTT
23912008 ACTAGGGTAAAATTG
1 ACTAGGGTAAAATTG
23912023 GGGTGAGAAT
Statistics
Matches: 32, Mismatches: 8, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
25 30 0.94
26 2 0.06
ACGTcount: A:0.38, C:0.09, G:0.20, T:0.33
Consensus pattern (25 bp):
ACTAGGGTAAAATTGTCAAAACTTT
Found at i:23913077 original size:12 final size:12
Alignment explanation
Indices: 23913060--23913088 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
23913050 TTTATCACAC
23913060 ATTTTGAAAGGA
1 ATTTTGAAAGGA
23913072 ATTTTGAAAGGA
1 ATTTTGAAAGGA
23913084 ATTTT
1 ATTTT
23913089 TTTCATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.21, T:0.41
Consensus pattern (12 bp):
ATTTTGAAAGGA
Found at i:23919418 original size:24 final size:24
Alignment explanation
Indices: 23919370--23919416 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
23919360 ACTAGTCATA
*
23919370 GAGAGATTTGAGGAGGGATATTTG
1 GAGAGATTTGAGGAGGAATATTTG
*
23919394 GAGATATTTGAGGAGAGAATATT
1 GAGAGATTTGAGGAG-GAATATT
23919417 GGGTTTTGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.34, C:0.00, G:0.36, T:0.30
Consensus pattern (24 bp):
GAGAGATTTGAGGAGGAATATTTG
Found at i:23920194 original size:81 final size:81
Alignment explanation
Indices: 23920050--23920453 Score: 531
Period size: 81 Copynumber: 5.0 Consensus size: 81
23920040 TACAGTGAGA
* * * * *
23920050 CCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGATCAAAATA-CCCTCATAGG
1 CCCCTATAGGGTAAAATGACCGTAATACCCCCATAGGGTTAAATGATCGAAATACCCCT-ATAAG
** *
23920114 GTAAAATGACCAAAATA
65 GTAAAATGACCGTAATG
* * * * * * *
23920131 CCCTTATAGGGTAAAATGACTGAAATACCCCCATAGGGTAAAATGACCAAAATACCCCTATAGGG
1 CCCCTATAGGGTAAAATGACCGTAATACCCCCATAGGGTTAAATGATCGAAATACCCCTATAAGG
23920196 TAAAATGACCGTAATG
66 TAAAATGACCGTAATG
* * *
23920212 CCCCTATAGGGTAAAATGATCGTAATACCCCCATAGGGTTATATGATCGAAATACCCCTGTAAGG
1 CCCCTATAGGGTAAAATGACCGTAATACCCCCATAGGGTTAAATGATCGAAATACCCCTATAAGG
*
23920277 TAAAATGACCGTAGTG
66 TAAAATGACCGTAATG
* * ** * *
23920293 CCCATATAGGGTAATATGACCGTAATACCTTCATAGGGTTAAATGACCGAAATACCCCTGTAAGG
1 CCCCTATAGGGTAAAATGACCGTAATACCCCCATAGGGTTAAATGATCGAAATACCCCTATAAGG
*
23920358 TAAAATGACTGTAATG
66 TAAAATGACCGTAATG
* * *
23920374 CCCCTATAGGGTAAAATGACCGTAATACCCCCATAGGGTTAAATGATTGAAATACCCCTGTTAGG
1 CCCCTATAGGGTAAAATGACCGTAATACCCCCATAGGGTTAAATGATCGAAATACCCCTATAAGG
23920439 TAAAATGACCGTAAT
66 TAAAATGACCGTAAT
23920454 ACCTCTGGAG
Statistics
Matches: 287, Mismatches: 35, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
81 283 0.99
82 4 0.01
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (81 bp):
CCCCTATAGGGTAAAATGACCGTAATACCCCCATAGGGTTAAATGATCGAAATACCCCTATAAGG
TAAAATGACCGTAATG
Found at i:23920467 original size:27 final size:27
Alignment explanation
Indices: 23920049--23920473 Score: 417
Period size: 27 Copynumber: 15.8 Consensus size: 27
23920039 CTACAGTGAG
*
23920049 ACCCCCATAGGGTAAAATGACCGAAAT
1 ACCCCTATAGGGTAAAATGACCGAAAT
* * *
23920076 ACCCCCATAGGGTAAAATGATCAAAAT
1 ACCCCTATAGGGTAAAATGACCGAAAT
*
23920103 A-CCCTCATAGGGTAAAATGACCAAAAT
1 ACCCCT-ATAGGGTAAAATGACCGAAAT
* *
23920130 ACCCTTATAGGGTAAAATGACTGAAAT
1 ACCCCTATAGGGTAAAATGACCGAAAT
* *
23920157 ACCCCCATAGGGTAAAATGACCAAAAT
1 ACCCCTATAGGGTAAAATGACCGAAAT
*
23920184 ACCCCTATAGGGTAAAATGACCGTAAT
1 ACCCCTATAGGGTAAAATGACCGAAAT
* * *
23920211 GCCCCTATAGGGTAAAATGATCGTAAT
1 ACCCCTATAGGGTAAAATGACCGAAAT
* * * *
23920238 ACCCCCATAGGGTTATATGATCGAAAT
1 ACCCCTATAGGGTAAAATGACCGAAAT
* * * *
23920265 ACCCCTGTAAGGTAAAATGACCGTAGT
1 ACCCCTATAGGGTAAAATGACCGAAAT
* * * *
23920292 GCCCATATAGGGTAATATGACCGTAAT
1 ACCCCTATAGGGTAAAATGACCGAAAT
* *
23920319 A-CCTTCATAGGGTTAAATGACCGAAAT
1 ACCCCT-ATAGGGTAAAATGACCGAAAT
* * * *
23920346 ACCCCTGTAAGGTAAAATGACTGTAAT
1 ACCCCTATAGGGTAAAATGACCGAAAT
* *
23920373 GCCCCTATAGGGTAAAATGACCGTAAT
1 ACCCCTATAGGGTAAAATGACCGAAAT
* * **
23920400 ACCCCCATAGGGTTAAATGATTGAAAT
1 ACCCCTATAGGGTAAAATGACCGAAAT
* *
23920427 ACCCCTGTTA-GGTAAAATGACCGTAAT
1 ACCCCT-ATAGGGTAAAATGACCGAAAT
* **
23920454 ACCTCTGGAGGGT-AAATGAC
1 ACCCCTATAGGGTAAAATGAC
23920474 TATTTTTCCC
Statistics
Matches: 327, Mismatches: 65, Indels: 13
0.81 0.16 0.03
Matches are distributed among these distances:
26 14 0.04
27 305 0.93
28 8 0.02
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (27 bp):
ACCCCTATAGGGTAAAATGACCGAAAT
Found at i:23920516 original size:11 final size:11
Alignment explanation
Indices: 23920500--23920569 Score: 50
Period size: 11 Copynumber: 6.0 Consensus size: 11
23920490 TGTAAATGAT
*
23920500 TGATTTGTCTG
1 TGATTTGTATG
**
23920511 TGATTTAAATG
1 TGATTTGTATG
*
23920522 ACTGATTTGTTTG
1 --TGATTTGTATG
*
23920535 TGATTGGTATG
1 TGATTTGTATG
*
23920546 ACTGATTTGTCTG
1 --TGATTTGTATG
23920559 TGATTTGTATG
1 TGATTTGTATG
23920570 ACTGATTTTG
Statistics
Matches: 44, Mismatches: 11, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
11 27 0.61
13 17 0.39
ACGTcount: A:0.19, C:0.06, G:0.26, T:0.50
Consensus pattern (11 bp):
TGATTTGTATG
Found at i:23920527 original size:24 final size:24
Alignment explanation
Indices: 23920492--23920577 Score: 109
Period size: 24 Copynumber: 3.6 Consensus size: 24
23920482 CCCTCGAGTG
*
23920492 TAAATGATTGATTTGTCTGTGATT
1 TAAATGACTGATTTGTCTGTGATT
*
23920516 TAAATGACTGATTTGTTTGTGATT
1 TAAATGACTGATTTGTCTGTGATT
***
23920540 GGTATGACTGATTTGTCTGTGATT
1 TAAATGACTGATTTGTCTGTGATT
**
23920564 TGTATGACTGATTT
1 TAAATGACTGATTT
23920578 TGAGCAAGGC
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 55 1.00
ACGTcount: A:0.22, C:0.06, G:0.23, T:0.49
Consensus pattern (24 bp):
TAAATGACTGATTTGTCTGTGATT
Found at i:23920701 original size:27 final size:27
Alignment explanation
Indices: 23920645--23920701 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
23920635 GGAAGTACTG
* *
23920645 TACTGGTGGCTCTGCCATAATCACTGT
1 TACTGGTGGCTCTGCCACAATCACTAT
23920672 TACTGGTGGCT-TGGCCACATAT-ACTAT
1 TACTGGTGGCTCT-GCCACA-ATCACTAT
23920699 TAC
1 TAC
23920702 GGGCAGCTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
26 1 0.04
27 23 0.88
28 2 0.08
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (27 bp):
TACTGGTGGCTCTGCCACAATCACTAT
Found at i:23920757 original size:26 final size:26
Alignment explanation
Indices: 23920703--23920757 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
23920693 TACTATTACG
** *
23920703 GGCAGCTTTGTTGCGATACTGTTGTT
1 GGCAGCTTTGTTGCGATACTACTGAT
*
23920729 GGCAGCTTTGTTGCGATGCTACTGAT
1 GGCAGCTTTGTTGCGATACTACTGAT
23920755 GGC
1 GGC
23920758 TTTGTGCCGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.13, C:0.18, G:0.33, T:0.36
Consensus pattern (26 bp):
GGCAGCTTTGTTGCGATACTACTGAT
Found at i:23920789 original size:32 final size:32
Alignment explanation
Indices: 23920748--23920904 Score: 179
Period size: 32 Copynumber: 4.9 Consensus size: 32
23920738 GTTGCGATGC
*
23920748 TACTGATGGCTTTGTGCCGATCATATTACCAT
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
* * * *
23920780 TACTGATGGCTTTATACCGATCACAATACCGT
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
* * *
23920812 TACTGATGGCTTTGTACCAATCATAATACCGT
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
* * * * * *
23920844 TACTGATGGCTGTGTGCTGATAATATCACTGC
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
*
23920876 TACTGATGGCTTTGTGCCAATCATATTAC
1 TACTGATGGCTTTGTGCCGATCATATTAC
23920905 TGTACTTATT
Statistics
Matches: 103, Mismatches: 22, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
32 103 1.00
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (32 bp):
TACTGATGGCTTTGTGCCGATCATATTACCGT
Found at i:23923516 original size:14 final size:15
Alignment explanation
Indices: 23923492--23923525 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
23923482 TGTGATTATT
23923492 TTGATGATTGATATG
1 TTGATGATTGATATG
*
23923507 TTGA-GATTGATATT
1 TTGATGATTGATATG
23923521 TTGAT
1 TTGAT
23923526 ATGTATGCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (15 bp):
TTGATGATTGATATG
Found at i:23923525 original size:22 final size:22
Alignment explanation
Indices: 23923499--23923548 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 22
23923489 ATTTTGATGA
23923499 TTGATATGT-TGAGATTGATATT
1 TTGATATGTATGAGATT-ATATT
*
23923521 TTGATATGTATGCGATTATATT
1 TTGATATGTATGAGATTATATT
23923543 TGTGAT
1 T-TGAT
23923549 GATCTCACAC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 15 0.60
23 10 0.40
ACGTcount: A:0.26, C:0.02, G:0.22, T:0.50
Consensus pattern (22 bp):
TTGATATGTATGAGATTATATT
Found at i:23923972 original size:16 final size:16
Alignment explanation
Indices: 23923951--23924020 Score: 104
Period size: 16 Copynumber: 4.4 Consensus size: 16
23923941 TTTGGTTCGT
* *
23923951 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
* *
23923967 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
23923983 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
23923999 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
23924015 TGTAAT
1 TGTAAT
23924021 AGCAAATCAA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 52 1.00
ACGTcount: A:0.31, C:0.00, G:0.36, T:0.33
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:23924053 original size:45 final size:44
Alignment explanation
Indices: 23923999--23924093 Score: 145
Period size: 45 Copynumber: 2.1 Consensus size: 44
23923989 GGAATAGAGG
*
23923999 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGC-AATCAACTGTTTGGTTGAA
***
23924044 TGTAATGGAATAGAGGCGTAATAGCAATCCTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAATCAACTGTTTGGTTGAA
23924088 TGTAAT
1 TGTAAT
23924094 AGAGGTGTAA
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
44 22 0.48
45 24 0.52
ACGTcount: A:0.33, C:0.07, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAATCAACTGTTTGGTTGAA
Found at i:23924274 original size:18 final size:17
Alignment explanation
Indices: 23924253--23924287 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
23924243 TTATTATTAA
*
23924253 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
23924271 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
23924288 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:23924417 original size:16 final size:16
Alignment explanation
Indices: 23924380--23924421 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
23924370 TTAATCATAT
*
23924380 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
23924396 TT-AAATATATTATAA
1 TTAAAATATATTATAA
23924411 TTAAAATATAT
1 TTAAAATATAT
23924422 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:23924428 original size:14 final size:15
Alignment explanation
Indices: 23924389--23924430 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
23924379 TTTAAACATA
*
23924389 ATTATTATTAAATAT
1 ATTATAATTAAATAT
23924404 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
23924418 A-TATAATTTAATA
1 ATTATAATTAAATA
23924431 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:23924441 original size:147 final size:147
Alignment explanation
Indices: 23924174--23924446 Score: 494
Period size: 147 Copynumber: 1.9 Consensus size: 147
23924164 ATGATTATTG
* *
23924174 TTATTGTTATTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATTATATTTTAAC
1 TTATTGTTATTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAAC
*
23924239 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCAG
66 ATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCAG
23924304 AAATTTGTTTTGGTAAA
131 AAATTTGTTTTGGTAAA
*
23924321 TTATT-TTATTTAAATTTTAATAAGATTATTAATATCAATAGTAAATAATTTAATCATATTTAAA
1 TTATTGTTA-TTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAA
23924385 CATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
65 CATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
23924447 ATATTCTTAT
Statistics
Matches: 121, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
146 3 0.02
147 118 0.98
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (147 bp):
TTATTGTTATTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAAC
ATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCAG
AAATTTGTTTTGGTAAA
Found at i:23924548 original size:14 final size:15
Alignment explanation
Indices: 23924499--23924550 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
23924489 GTAAAATATA
23924499 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
23924514 TATTAAATATATTAT
1 AATTAAATATATTAT
23924529 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
23924542 AATTTAATA
1 AATTAAATA
23924551 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:23934186 original size:50 final size:50
Alignment explanation
Indices: 23934087--23934326 Score: 273
Period size: 50 Copynumber: 4.7 Consensus size: 50
23934077 AATGAGATCT
* * *
23934087 CATGTAAGACCATGTCTGAGACATGGAATTGGCATCATTGAGATTATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCA---AG---ATGAGAGGTCC
*
23934143 CATGTAAGACCATGTTTGGGACATGGCATTGGCACCAAGATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATGAGAGGTCC
* * * *
23934193 CATGTAAGATCATGTCTGGGACATAGCGTTGGCACCGAGATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATGAGAGGTCC
** * * * **
23934243 CCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATGAGAGGTCC
* *
23934293 CATGTAAGACCATATCTGGGATATGGCATTGGCA
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA
23934327 GTACAGAAAA
Statistics
Matches: 161, Mismatches: 23, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
50 126 0.78
53 2 0.01
56 33 0.20
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (50 bp):
CATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATGAGAGGTCC
Found at i:23934562 original size:12 final size:12
Alignment explanation
Indices: 23934545--23934583 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
23934535 ATGAGTTATT
23934545 TAAGTAAGCAAG
1 TAAGTAAGCAAG
*
23934557 TAAGTAAACAAG
1 TAAGTAAGCAAG
* *
23934569 TAAGTGAGTAAG
1 TAAGTAAGCAAG
23934581 TAA
1 TAA
23934584 AGAAGCGAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.51, C:0.05, G:0.23, T:0.21
Consensus pattern (12 bp):
TAAGTAAGCAAG
Found at i:23940033 original size:6 final size:6
Alignment explanation
Indices: 23940024--23940048 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
23940014 ACTTCATAGT
23940024 CATCGC CATCGC CATCGC CATCGC C
1 CATCGC CATCGC CATCGC CATCGC C
23940049 GCTGCTTCTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.52, G:0.16, T:0.16
Consensus pattern (6 bp):
CATCGC
Found at i:23940671 original size:25 final size:25
Alignment explanation
Indices: 23940634--23940689 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
23940624 ATTAGCGATT
* *
23940634 GTGATATGTGGCTTTTTTCTTTCTA
1 GTGATACGAGGCTTTTTTCTTTCTA
*
23940659 GTGATACGAGGCTTTTTTTTTTCTA
1 GTGATACGAGGCTTTTTTCTTTCTA
23940684 GTGATA
1 GTGATA
23940690 TGTGGCCTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.16, C:0.11, G:0.21, T:0.52
Consensus pattern (25 bp):
GTGATACGAGGCTTTTTTCTTTCTA
Found at i:23946083 original size:50 final size:50
Alignment explanation
Indices: 23945973--23946262 Score: 314
Period size: 50 Copynumber: 5.7 Consensus size: 50
23945963 ACATGCGAAA
** * * *
23945973 GCCATGTCCCAGACATGGTCTTACATGGGATGTTTCATGTAC--TGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-CGGTGCCAAC
* * * * ** * * *
23946022 GCCATATCCCAGATATGGCCTTACATCGGAGTTCTCATATCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
**
23946072 GCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
*
23946122 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
* *
23946172 CCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATGATCTCAAGGTTGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC--GG-TGCCAAC
* *
23946228 GTCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCT
23946263 TTACCCAAAT
Statistics
Matches: 204, Mismatches: 29, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
48 1 0.00
49 32 0.16
50 127 0.62
53 4 0.02
55 2 0.01
56 38 0.19
ACGTcount: A:0.21, C:0.30, G:0.22, T:0.27
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
Found at i:23953720 original size:50 final size:51
Alignment explanation
Indices: 23953578--23953824 Score: 189
Period size: 50 Copynumber: 4.8 Consensus size: 51
23953568 GATAATAACA
* * ** * *
23953578 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCAT-GTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATACT-CGG
* * * * * * * * **
23953627 TACAAATGCCATATCCCATATATGGCCTTAAATGGGAGTTCTCATA-TCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATACTCGG
* * *
23953677 TGCCCATGCCATGTCCCAAACATGGTCTTACGGGGGACCTCTCA-ACTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATACTCGG
* *
23953727 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATGATCTCAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCAT-A-CTC--GG
* * *
23953782 ATGCCAATGCCATGTCCCAGGCATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
23953825 TTACCCAAAT
Statistics
Matches: 157, Mismatches: 31, Indels: 13
0.78 0.15 0.06
Matches are distributed among these distances:
48 1 0.01
49 36 0.23
50 75 0.48
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.25
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (51 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATACTCGG
Found at i:23965792 original size:17 final size:17
Alignment explanation
Indices: 23965770--23965811 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
23965760 TGTGTCTCAA
* *
23965770 CCGTGTGCGGCACACGG
1 CCGTGTGAGCCACACGG
23965787 CCGTGTGAGCCACACGG
1 CCGTGTGAGCCACACGG
*
23965804 CCGCGTGA
1 CCGTGTGA
23965812 CCCATGCAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.14, C:0.36, G:0.38, T:0.12
Consensus pattern (17 bp):
CCGTGTGAGCCACACGG
Found at i:23967286 original size:57 final size:57
Alignment explanation
Indices: 23967206--23967320 Score: 203
Period size: 57 Copynumber: 2.0 Consensus size: 57
23967196 ATTGCTCGAA
*
23967206 AAGGCTCAGACTACTCGATCGAGTAATACAACTGTGAAAGGGAGACCACCTCGAAAC
1 AAGGCTCAGACTACTCGACCGAGTAATACAACTGTGAAAGGGAGACCACCTCGAAAC
* *
23967263 AAGGCTTAGACTACTCGACCGAGTAATACAGCTGTGAAAGGGAGACCACCTCGAAAC
1 AAGGCTCAGACTACTCGACCGAGTAATACAACTGTGAAAGGGAGACCACCTCGAAAC
23967320 A
1 A
23967321 CTAGAAATAC
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.37, C:0.24, G:0.23, T:0.16
Consensus pattern (57 bp):
AAGGCTCAGACTACTCGACCGAGTAATACAACTGTGAAAGGGAGACCACCTCGAAAC
Found at i:23976288 original size:30 final size:30
Alignment explanation
Indices: 23976252--23976314 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
23976242 ACTTGATGCC
23976252 TAAGTCTATTTTCAAGATGTTAGGGATAGG
1 TAAGTCTATTTTCAAGATGTTAGGGATAGG
23976282 TAAGTCTATTTTCAAGATGTTAGGGATAGG
1 TAAGTCTATTTTCAAGATGTTAGGGATAGG
23976312 TAA
1 TAA
23976315 AGTAAGACCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.32, C:0.06, G:0.25, T:0.37
Consensus pattern (30 bp):
TAAGTCTATTTTCAAGATGTTAGGGATAGG
Found at i:23981926 original size:13 final size:13
Alignment explanation
Indices: 23981908--23981943 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
23981898 TTTGGGTTTT
23981908 AATTGATTAAGTA
1 AATTGATTAAGTA
*
23981921 AATTGATTAATTA
1 AATTGATTAAGTA
*
23981934 AATTGGTTAA
1 AATTGATTAA
23981944 ATTATATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.14, T:0.42
Consensus pattern (13 bp):
AATTGATTAAGTA
Found at i:23985806 original size:51 final size:50
Alignment explanation
Indices: 23985751--23985941 Score: 192
Period size: 51 Copynumber: 3.8 Consensus size: 50
23985741 CTGGTTCACA
* * * *
23985751 TAGTAGCCTACACACAGTACTACACATGTGACCATCACTATCCGATACATG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCG-TACACG
* * * *
23985802 TAGTAGTCTGCACATAGTACTACACACGTGATCGA--AGCTATTTCGTACACA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-CTA-TCCGTACACG
* * *
23985853 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTATC-CGTACACG
*
23985903 TAGTAGCCTGCACATAGTACTACACACGTGACTATCACT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
23985942 TTCACTTTCA
Statistics
Matches: 114, Mismatches: 18, Indels: 17
0.77 0.12 0.11
Matches are distributed among these distances:
49 5 0.04
50 39 0.34
51 64 0.56
52 5 0.04
53 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCGTACACG
Found at i:23985928 original size:101 final size:102
Alignment explanation
Indices: 23985747--23985933 Score: 288
Period size: 101 Copynumber: 1.8 Consensus size: 102
23985737 GATACTGGTT
* * *
23985747 CACATAGTAGCCTACACACAGTACTACACATGTGACCATCACTATCCGATACATGTAGTAGTCTG
1 CACATAGTAGCCTACACACAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGCCTG
23985812 CACATAGTACTACACACGTGATCGAAGCTATTTCGTA
66 CACATAGTACTACACACGTGATCGAAGCTATTTCGTA
* * * *
23985849 CACATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTGGTACACGTAGTAGCCT
1 CACATAGTAGCCTACACACAGTACTACACATGCGACC-ATCACTATCCGATACACGTAGTAGCCT
23985912 GCACATAGTACTACACACGTGA
65 GCACATAGTACTACACACGTGA
23985934 CTATCACTTT
Statistics
Matches: 77, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
101 38 0.49
102 35 0.45
103 4 0.05
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.25
Consensus pattern (102 bp):
CACATAGTAGCCTACACACAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGCCTG
CACATAGTACTACACACGTGATCGAAGCTATTTCGTA
Found at i:23985954 original size:101 final size:102
Alignment explanation
Indices: 23985744--23985971 Score: 277
Period size: 101 Copynumber: 2.2 Consensus size: 102
23985734 AATGATACTG
* * *
23985744 GTTCACATAGTAGCCTACACACAGTACTACACATGTGACCATCACTATCCGATACATGTAGTAGT
1 GTTCACATAGTAGCCTACACACAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGC
*
23985809 CTGCACATAGTACTACACACGTGATCGAAGCTATTTC
66 CTGCACATAGTACTACACACGTGATCGAAGCTATTAC
* * * * *
23985846 GTACACATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTGGTACACGTAGTAG
1 GTTCACATAGTAGCCTACACACAGTACTACACATGCGACC-ATCACTATCCGATACACGTAGTAG
*
23985909 CCTGCACATAGTACTACACACGTGA-CTATCA-CT-TTCAC
65 CCTGCACATAGTACTACACACGTGATCGA--AGCTATT-AC
* *
23985947 TTTCACATAGTGGCCTACACACAGT
1 GTTCACATAGTAGCCTACACACAGT
23985972 CCATGCCACA
Statistics
Matches: 107, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
100 4 0.04
101 61 0.57
102 38 0.36
103 4 0.04
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (102 bp):
GTTCACATAGTAGCCTACACACAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGC
CTGCACATAGTACTACACACGTGATCGAAGCTATTAC
Found at i:23990446 original size:17 final size:17
Alignment explanation
Indices: 23990410--23990448 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
23990400 ATGGTAGTTT
*
23990410 GTTAA-CCGAGTTGCAT
1 GTTAAGCCGAGTTGCAA
*
23990426 GTTAAGCCGAGTTGTAA
1 GTTAAGCCGAGTTGCAA
23990443 GTTAAG
1 GTTAAG
23990449 TCGACTTGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.31
Consensus pattern (17 bp):
GTTAAGCCGAGTTGCAA
Found at i:23998375 original size:43 final size:42
Alignment explanation
Indices: 23998316--23998415 Score: 177
Period size: 43 Copynumber: 2.4 Consensus size: 42
23998306 ATGTGTCGGG
23998316 CCGTGT-AGGTCACACGGCTGTATGGTAGGCCTTTTGGTAGA
1 CCGTGTGAGGTCACACGGCTGTATGGTAGGCCTTTTGGTAGA
23998357 CCGTGTGGAGGTCACACGGCTGTATGGTAGGCCTTTTGGTAGA
1 CCGTGT-GAGGTCACACGGCTGTATGGTAGGCCTTTTGGTAGA
23998400 CCGTGTG-GGTCACACG
1 CCGTGTGAGGTCACACG
23998416 ACCATGTGGT
Statistics
Matches: 57, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
41 15 0.26
42 1 0.02
43 41 0.72
ACGTcount: A:0.16, C:0.21, G:0.36, T:0.27
Consensus pattern (42 bp):
CCGTGTGAGGTCACACGGCTGTATGGTAGGCCTTTTGGTAGA
Found at i:23998426 original size:41 final size:43
Alignment explanation
Indices: 23998322--23998428 Score: 137
Period size: 43 Copynumber: 2.5 Consensus size: 43
23998312 CGGGCCGTGT
* **
23998322 AGGTCACACGGCTGTATGGTAGGCCTTTTGGTAGACCGTGTGG
1 AGGTCACACGACCATATGGTAGGCCTTTTGGTAGACCGTGTGG
* **
23998365 AGGTCACACGGCTGTATGGTAGGCCTTTTGGTAGACCGTGT-G
1 AGGTCACACGACCATATGGTAGGCCTTTTGGTAGACCGTGTGG
*
23998407 -GGTCACACGACCATGTGGTAGG
1 AGGTCACACGACCATATGGTAGG
23998429 TTGTGTGAAG
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
41 18 0.30
42 1 0.02
43 41 0.68
ACGTcount: A:0.18, C:0.20, G:0.36, T:0.26
Consensus pattern (43 bp):
AGGTCACACGACCATATGGTAGGCCTTTTGGTAGACCGTGTGG
Found at i:24000136 original size:40 final size:40
Alignment explanation
Indices: 24000074--24000242 Score: 121
Period size: 40 Copynumber: 4.2 Consensus size: 40
24000064 TTTGGATAAC
* ** *
24000074 AAATGCCGCTATAGGTTTAGCATTAGAGGCGCTTTTGGAA
1 AAATGCCGCTATAGATAGAGCATTAGAGGCGCTTTTTGAA
* * *
24000114 AAATGCCGCTATAGATAGAGCATTAGTGGTG-TTTTTTAA
1 AAATGCCGCTATAGATAGAGCATTAGAGGCGCTTTTTGAA
* * * * * *
24000153 GAA-GCACCGCTATAGATCGAGCATTAGCGGTGGTTCTTGAA
1 AAATG--CCGCTATAGATAGAGCATTAGAGGCGCTTTTTGAA
* * * *
24000194 AAACGTCGCTATAGGTCA-ACCATTAGTA-GCGCTTTTTGAA
1 AAATGCCGCTATAGAT-AGAGCATTAG-AGGCGCTTTTTGAA
24000234 AAATGCCGC
1 AAATGCCGC
24000243 AAAAAAATTA
Statistics
Matches: 100, Mismatches: 23, Indels: 12
0.74 0.17 0.09
Matches are distributed among these distances:
38 1 0.01
39 8 0.08
40 82 0.82
41 8 0.08
42 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (40 bp):
AAATGCCGCTATAGATAGAGCATTAGAGGCGCTTTTTGAA
Found at i:24000462 original size:22 final size:24
Alignment explanation
Indices: 24000427--24000487 Score: 76
Period size: 22 Copynumber: 2.7 Consensus size: 24
24000417 GCCCGGCCCG
24000427 TTTTTAATTAAAATTAAAATTATT
1 TTTTTAATTAAAATTAAAATTATT
*
24000451 TTTTTAA-T-AAATTAAAATTA-A
1 TTTTTAATTAAAATTAAAATTATT
*
24000472 TTGTT-ATTAAAATTAA
1 TTTTTAATTAAAATTAA
24000488 TTGTTAGTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 1 0.03
21 5 0.15
22 19 0.58
23 1 0.03
24 7 0.21
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (24 bp):
TTTTTAATTAAAATTAAAATTATT
Found at i:24000480 original size:16 final size:16
Alignment explanation
Indices: 24000461--24000502 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
24000451 TTTTTAATAA
24000461 ATTAAAATTAATTGTT
1 ATTAAAATTAATTGTT
24000477 ATTAAAATTAATTGTT
1 ATTAAAATTAATTGTT
*
24000493 AGTAAAATTA
1 ATTAAAATTA
24000503 TCAAATTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (16 bp):
ATTAAAATTAATTGTT
Found at i:24000561 original size:66 final size:67
Alignment explanation
Indices: 24000491--24000633 Score: 243
Period size: 68 Copynumber: 2.1 Consensus size: 67
24000481 AAATTAATTG
*
24000491 TTAGTAAAATTATCAAATTATTAATTG-CTAATTGTATTAATTGTTGTAATAAAATCTAACATTT
1 TTAGTAAAATTATCAAATTATTAATTGACTAATTGTATTAATTGTTGTAACAAAATCTAACATTT
24000555 GA
66 GA
* *
24000557 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAACAAAATCTAACATT
1 TTAGTAAAATTATCAAATTATTAATTG-ACTAATTGTATTAATTGTTGTAACAAAATCTAACATT
24000622 TGA
65 TGA
24000625 TTAGTAAAA
1 TTAGTAAAA
24000634 CAAACTTGAT
Statistics
Matches: 71, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
66 26 0.37
68 45 0.63
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (67 bp):
TTAGTAAAATTATCAAATTATTAATTGACTAATTGTATTAATTGTTGTAACAAAATCTAACATTT
GA
Found at i:24000587 original size:9 final size:9
Alignment explanation
Indices: 24000575--24000602 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
24000565 TTTATCAAAT
24000575 TATTAATTG
1 TATTAATTG
24000584 TATTAATTG
1 TATTAATTG
24000593 TATTAATTG
1 TATTAATTG
24000602 T
1 T
24000603 TGTAACAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:24001221 original size:7 final size:7
Alignment explanation
Indices: 24001170--24001420 Score: 116
Period size: 7 Copynumber: 35.7 Consensus size: 7
24001160 AATATATATA
24001170 TTTAGGG
1 TTTAGGG
*
24001177 TTTATGG
1 TTTAGGG
*
24001184 TGTA-GG
1 TTTAGGG
24001190 TTT-GTGG
1 TTTAG-GG
*
24001197 TTTGGGG
1 TTTAGGG
***
24001204 TTTAAAT
1 TTTAGGG
24001211 TTTAGGG
1 TTTAGGG
* *
24001218 TTTATGA
1 TTTAGGG
*
24001225 TTTAGTG
1 TTTAGGG
* *
24001232 TTAAGAG
1 TTTAGGG
*
24001239 TTTAGTG
1 TTTAGGG
* *
24001246 TTTACGA
1 TTTAGGG
24001253 TTTAGGG
1 TTTAGGG
*
24001260 TGTA-GG
1 TTTAGGG
**
24001266 TTTATTG
1 TTTAGGG
*
24001273 TTTAGTG
1 TTTAGGG
**
24001280 TTTAATG
1 TTTAGGG
*
24001287 TTTAGAG
1 TTTAGGG
* *
24001294 TTTAAAGT
1 TTT-AGGG
24001302 TTTAGGG
1 TTTAGGG
24001309 TTTAAGGG
1 TTT-AGGG
24001317 TTATA-GG
1 TT-TAGGG
*
24001324 CTTAGGG
1 TTTAGGG
24001331 TTTATGGG
1 TTTA-GGG
24001339 -TTACGGG
1 TTTA-GGG
* *
24001346 CTTAAGG
1 TTTAGGG
24001353 TTTAGGG
1 TTTAGGG
24001360 TTTAGGG
1 TTTAGGG
* *
24001367 TTTATGT
1 TTTAGGG
*
24001374 TTTAAGG
1 TTTAGGG
*
24001381 TTTATGG
1 TTTAGGG
*
24001388 TTTAGGC
1 TTTAGGG
24001395 TTTAGGG
1 TTTAGGG
*
24001402 TTTAGTG
1 TTTAGGG
*
24001409 TTTATGG
1 TTTAGGG
24001416 TTTAG
1 TTTAG
24001421 CTAAAAACAT
Statistics
Matches: 180, Mismatches: 54, Indels: 20
0.71 0.21 0.08
Matches are distributed among these distances:
6 11 0.06
7 150 0.83
8 18 0.10
9 1 0.01
ACGTcount: A:0.19, C:0.02, G:0.31, T:0.47
Consensus pattern (7 bp):
TTTAGGG
Found at i:24001328 original size:22 final size:22
Alignment explanation
Indices: 24001303--24001365 Score: 76
Period size: 22 Copynumber: 3.0 Consensus size: 22
24001293 GTTTAAAGTT
24001303 TTAGGGTTTAAGGGTTATAGGC
1 TTAGGGTTTAAGGGTTATAGGC
* **
24001325 TTAGGGTTTATGGGTTACGGGC
1 TTAGGGTTTAAGGGTTATAGGC
*
24001347 TTAAGGTTT-AGGGTT-TAGG
1 TTAGGGTTTAAGGGTTATAGG
24001366 GTTTATGTTT
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
20 2 0.06
21 5 0.15
22 27 0.79
ACGTcount: A:0.19, C:0.05, G:0.38, T:0.38
Consensus pattern (22 bp):
TTAGGGTTTAAGGGTTATAGGC
Found at i:24001334 original size:29 final size:29
Alignment explanation
Indices: 24001302--24001370 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 29
24001292 AGTTTAAAGT
24001302 TTTAGGGTTTAAGGG-TTATAGGCTTAGGG
1 TTTAGGGTTTAAGGGCTTA-AGGCTTAGGG
* *
24001331 TTTATGGG-TTACGGGCTTAAGGTTTAGGG
1 TTTA-GGGTTTAAGGGCTTAAGGCTTAGGG
24001360 TTTAGGGTTTA
1 TTTAGGGTTTA
24001371 TGTTTTAAGG
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
28 3 0.09
29 26 0.74
30 6 0.17
ACGTcount: A:0.19, C:0.04, G:0.36, T:0.41
Consensus pattern (29 bp):
TTTAGGGTTTAAGGGCTTAAGGCTTAGGG
Found at i:24001630 original size:41 final size:42
Alignment explanation
Indices: 24001558--24001636 Score: 115
Period size: 42 Copynumber: 1.9 Consensus size: 42
24001548 AAGGTTAATT
*
24001558 AAGTTGAGCAATAATGGCGTTTTTGGCTCAAAACGCCGGAAA
1 AAGTTGAACAATAATGGCGTTTTTGGCTCAAAACGCCGGAAA
** *
24001600 AAGTTGAACAATTGTGGTGTTTTTGG-TCAAAACGCCG
1 AAGTTGAACAATAATGGCGTTTTTGGCTCAAAACGCCG
24001637 CAAATATGTA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
41 11 0.33
42 22 0.67
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (42 bp):
AAGTTGAACAATAATGGCGTTTTTGGCTCAAAACGCCGGAAA
Found at i:24002004 original size:16 final size:16
Alignment explanation
Indices: 24001983--24002018 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
24001973 CCAGCGGCCG
*
24001983 CTCTGTCACCCGCTTC
1 CTCTGTCACCCGCATC
*
24001999 CTCTGTCGCCCGCATC
1 CTCTGTCACCCGCATC
24002015 CTCT
1 CTCT
24002019 ATTCACGGAC
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:0.06, C:0.50, G:0.14, T:0.31
Consensus pattern (16 bp):
CTCTGTCACCCGCATC
Found at i:24003603 original size:119 final size:121
Alignment explanation
Indices: 24003260--24003672 Score: 670
Period size: 119 Copynumber: 3.4 Consensus size: 121
24003250 AATAAATTTT
24003260 TAAATTTTTAAATTTTAAAAATAATTATAAATATTATA-TTTTAAATATTAAAACCTATATTTTT
1 TAAATTTTTAAATTTTAAAAATAATTATAAATATTATATTTTTAAATATTAAAACCTATATTTTT
* *
24003324 AAGATATAACCTATATTAGTATGGATATATAACCTACATTTCAAATTCATTACTAA
66 AATATATAACCTATATTAGTATGGATATATAACCTATATTTCAAATTCATTACTAA
** *
24003380 TAAGCTTTTAAATTTTAAAAATAATTATAAATATTATATTTTTAAATAACTTAGAACCTATATTT
1 TAAATTTTTAAATTTTAAAAATAATTATAAATATTATATTTTTAAAT-A-TTAAAACCTATATTT
** * *
24003445 TTAATATATAACCTATATTAGTAAAGATATATAAACTATATTTCAAATTCATTTCTAA
64 TTAATATATAACCTATATTAGTATGGATATATAACCTATATTTCAAATTCATTACTAA
*
24003503 TAAATTTTTAAATTTTAAAAAT-ATTATAAATATTATA-TTTTAAATATTAAAACCCATATTTTT
1 TAAATTTTTAAATTTTAAAAATAATTATAAATATTATATTTTTAAATATTAAAACCTATATTTTT
24003566 AATATATAACCTATATTAGTATGGATATATAACCTATATTTCAAATTCATTACTAA
66 AATATATAACCTATATTAGTATGGATATATAACCTATATTTCAAATTCATTACTAA
* * *
24003622 TAAGTTTTTAAATTTTAAAAATAATTATAATTTTTATATTTTTAAATATTA
1 TAAATTTTTAAATTTTAAAAATAATTATAAATATTATATTTTTAAATATTA
24003673 TATTACTCAA
Statistics
Matches: 268, Mismatches: 20, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
119 88 0.33
120 50 0.19
121 28 0.10
122 16 0.06
123 86 0.32
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.45
Consensus pattern (121 bp):
TAAATTTTTAAATTTTAAAAATAATTATAAATATTATATTTTTAAATATTAAAACCTATATTTTT
AATATATAACCTATATTAGTATGGATATATAACCTATATTTCAAATTCATTACTAA
Found at i:24003746 original size:9 final size:9
Alignment explanation
Indices: 24003732--24003803 Score: 58
Period size: 9 Copynumber: 8.0 Consensus size: 9
24003722 ACTAATTTCC
*
24003732 ACATAACAT
1 ACATAACTT
24003741 ACATAACTT
1 ACATAACTT
*
24003750 ACATAA-AT
1 ACATAACTT
* *
24003758 ATATATCATAT
1 ACATAAC-T-T
*
24003769 A-AAAACTT
1 ACATAACTT
24003777 ACATAACTT
1 ACATAACTT
*
24003786 ACATAATTT
1 ACATAACTT
24003795 ACATAACTT
1 ACATAACTT
24003804 TAAAGAATTA
Statistics
Matches: 49, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
8 7 0.14
9 37 0.76
10 3 0.06
11 2 0.04
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (9 bp):
ACATAACTT
Found at i:24003870 original size:9 final size:9
Alignment explanation
Indices: 24003831--24004057 Score: 178
Period size: 9 Copynumber: 24.8 Consensus size: 9
24003821 CTTTGGATCT
24003831 TAACTTA-A
1 TAACTTACA
*
24003839 TAACTTATA
1 TAACTTACA
*
24003848 TATATCATATCA
1 TA-A-CTTA-CA
24003860 TAACTTACA
1 TAACTTACA
*
24003869 TAACTCACA
1 TAACTTACA
* *
24003878 TAACATGCA
1 TAACTTACA
24003887 TAACTTA-A
1 TAACTTACA
*
24003895 TAACTTATA
1 TAACTTACA
*
24003904 TATATCATATCA
1 TA-A-CTTA-CA
24003916 TAACTTACA
1 TAACTTACA
24003925 TAACTTA-A
1 TAACTTACA
*
24003933 TAACTTATA
1 TAACTTACA
*
24003942 TATATCATATCA
1 TA-A-CTTA-CA
24003954 TAACTTACA
1 TAACTTACA
24003963 TAACTTACA
1 TAACTTACA
*
24003972 TAACTCACA
1 TAACTTACA
24003981 TAACTTACA
1 TAACTTACA
24003990 TAACTTACA
1 TAACTTACA
24003999 TAA--TACA
1 TAACTTACA
* *
24004006 TAA-ATATA
1 TAACTTACA
* *
24004014 TATCATATCA
1 TAACTTA-CA
24004024 TAACTTACA
1 TAACTTACA
* *
24004033 TTACTCACA
1 TAACTTACA
24004042 TAACTTACA
1 TAACTTACA
24004051 TAACTTA
1 TAACTTA
24004058 ACTATACTTA
Statistics
Matches: 178, Mismatches: 26, Indels: 29
0.76 0.11 0.12
Matches are distributed among these distances:
7 7 0.04
8 28 0.16
9 104 0.58
10 18 0.10
11 12 0.07
12 9 0.05
ACGTcount: A:0.45, C:0.19, G:0.00, T:0.36
Consensus pattern (9 bp):
TAACTTACA
Found at i:24003894 original size:56 final size:56
Alignment explanation
Indices: 24003831--24004069 Score: 264
Period size: 56 Copynumber: 4.3 Consensus size: 56
24003821 CTTTGGATCT
* *
24003831 TAACTTAATAACTTATATATATCATATCATAACTTACATAACTCACATAACATGCA
1 TAACTTAATAACTTATATATATCATATCATAACTTACATAACTCACATAACTTACA
*
24003887 TAACTTAATAACTTATATATATCATATCATAACTTACATAACTTA-ATAACTT--A
1 TAACTTAATAACTTATATATATCATATCATAACTTACATAACTCACATAACTTACA
* * *
24003940 T-A--T-AT-A-TCATATCATAACTTA-CATAACTTACATAACTCACATAACTTACA
1 TAACTTAATAACTTATAT-ATATCATATCATAACTTACATAACTCACATAACTTACA
* *
24003990 TAACTTACATAATACATAAATATATATCATATCATAACTTACATTACTCACATAACTTACA
1 TAACTTA-AT-A-AC-T-TATATATATCATATCATAACTTACATAACTCACATAACTTACA
24004051 TAACTTAACTATACTTATA
1 TAACTTAA-TA-ACTTATA
24004070 AATAAACAAC
Statistics
Matches: 155, Mismatches: 11, Indels: 32
0.78 0.06 0.16
Matches are distributed among these distances:
47 22 0.14
48 14 0.09
49 2 0.01
50 3 0.02
51 1 0.01
52 1 0.01
53 3 0.02
55 8 0.05
56 44 0.28
58 4 0.03
59 1 0.01
60 12 0.08
61 40 0.26
ACGTcount: A:0.45, C:0.19, G:0.00, T:0.36
Consensus pattern (56 bp):
TAACTTAATAACTTATATATATCATATCATAACTTACATAACTCACATAACTTACA
Found at i:24003918 original size:21 final size:21
Alignment explanation
Indices: 24003894--24003960 Score: 88
Period size: 21 Copynumber: 3.4 Consensus size: 21
24003884 GCATAACTTA
24003894 ATAACTTATATATATCATATC
1 ATAACTTATATATATCATATC
* *
24003915 ATAACTTACATA-A-C-T-TA
1 ATAACTTATATATATCATATC
24003932 ATAACTTATATATATCATATC
1 ATAACTTATATATATCATATC
24003953 ATAACTTA
1 ATAACTTA
24003961 CATAACTTAC
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
17 12 0.32
18 2 0.05
19 2 0.05
20 2 0.05
21 20 0.53
ACGTcount: A:0.45, C:0.15, G:0.00, T:0.40
Consensus pattern (21 bp):
ATAACTTATATATATCATATC
Found at i:24003927 original size:38 final size:39
Alignment explanation
Indices: 24003876--24004048 Score: 213
Period size: 38 Copynumber: 4.7 Consensus size: 39
24003866 ACATAACTCA
* *
24003876 CATAACATGCATAACTTA-ATAACTTATATATATCATAT
1 CATAACTTACATAACTTACATAACTTATATATATCATAT
24003914 CATAACTTACATAACTTA-ATAACTTATATATATCATAT
1 CATAACTTACATAACTTACATAACTTATATATATCATAT
* * *
24003952 CATAACTTACATAACTTACATAACTCACATA-A-CTTA-
1 CATAACTTACATAACTTACATAACTTATATATATCATAT
24003988 CATAACTTACATAA--TACATAA---ATATATATCATAT
1 CATAACTTACATAACTTACATAACTTATATATATCATAT
* *
24004022 CATAACTTACATTACTCACATAACTTA
1 CATAACTTACATAACTTACATAACTTA
24004049 CATAACTTAA
Statistics
Matches: 117, Mismatches: 9, Indels: 17
0.82 0.06 0.12
Matches are distributed among these distances:
31 4 0.03
32 1 0.01
33 3 0.03
34 20 0.17
36 20 0.17
37 3 0.03
38 55 0.47
39 11 0.09
ACGTcount: A:0.45, C:0.19, G:0.01, T:0.35
Consensus pattern (39 bp):
CATAACTTACATAACTTACATAACTTATATATATCATAT
Found at i:24004048 original size:61 final size:64
Alignment explanation
Indices: 24003914--24004073 Score: 204
Period size: 61 Copynumber: 2.5 Consensus size: 64
24003904 TATATCATAT
* *
24003914 CATAACTTACATAACTTAATAACTTATATATATCATATCATAACTTACATAACTTACATAACTCA
1 CATAACTTACATAACTTAATAACTCATAAATATCATATCATAAC-TACATAACTTACATAACTCA
*
24003979 CATAACTTACATAACTTACATAA-TACATAAATAT-ATATCAT-A-T-CATAACTTACATTACTC
1 CATAACTTACATAACTTA-ATAACT-CATAAATATCATATCATAACTACATAACTTACATAACTC
24004039 A
64 A
*
24004040 CATAACTTACATAACTTAACTATACTTATAAATA
1 CATAACTTACATAACTTAA-TA-ACTCATAAATA
24004074 AACAACTTAC
Statistics
Matches: 86, Mismatches: 4, Indels: 13
0.83 0.04 0.13
Matches are distributed among these distances:
60 1 0.01
61 37 0.43
62 9 0.10
63 1 0.01
64 1 0.01
65 26 0.30
66 11 0.13
ACGTcount: A:0.46, C:0.19, G:0.00, T:0.35
Consensus pattern (64 bp):
CATAACTTACATAACTTAATAACTCATAAATATCATATCATAACTACATAACTTACATAACTCA
Found at i:24014140 original size:29 final size:27
Alignment explanation
Indices: 24014107--24014238 Score: 97
Period size: 28 Copynumber: 4.6 Consensus size: 27
24014097 CAGAGATTGT
24014107 CACAAAGGATTACCTTTCCAAAATTTTGC
1 CACAAAGG-TTACCTTT-CAAAATTTTGC
* * *
24014136 CACAAAGGTTGTCCTTT-AACAAGTTCGC
1 CACAAAGGTT-ACCTTTCAA-AATTTTGC
* * *
24014164 CACAAAGGCTTACCTTTCTAGAGTTTTCC
1 CACAAAGG-TTACCTTTC-AAAATTTTGC
* *
24014193 CACAAAGGTTGTCCTTT-AACAGTTTTGC
1 CACAAAGGTT-ACCTTTCAA-AATTTTGC
24014221 CACAAAGGCTTACCTTTC
1 CACAAAGG-TTACCTTTC
24014239 CAAAGGTTTT
Statistics
Matches: 81, Mismatches: 13, Indels: 18
0.72 0.12 0.16
Matches are distributed among these distances:
27 3 0.04
28 43 0.53
29 34 0.42
30 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (27 bp):
CACAAAGGTTACCTTTCAAAATTTTGC
Found at i:24014169 original size:57 final size:56
Alignment explanation
Indices: 24014107--24014296 Score: 238
Period size: 57 Copynumber: 3.3 Consensus size: 56
24014097 CAGAGATTGT
* *
24014107 CACAAAGGATTACCTTTCCAAAATTTTGCCACAAAGGTTGTCCTTTAACAAGTTCGC
1 CACAAAGGCTTACCTTTCCAAAGTTTT-CCACAAAGGTTGTCCTTTAACAAGTTCGC
* * *
24014164 CACAAAGGCTTACCTTTCTAGAGTTTTCCCACAAAGGTTGTCCTTTAAC-AGTTTTGC
1 CACAAAGGCTTACCTTTCCAAAGTTTT-CCACAAAGGTTGTCCTTTAACAAG-TTCGC
* * * **
24014221 CACAAAGGCTTACCTTTCCAAAGGTTTTCCATAAAGGTTTTCCTTTAACAGGTTCAT
1 CACAAAGGCTTACCTTTCCAAA-GTTTTCCACAAAGGTTGTCCTTTAACAAGTTCGC
*
24014278 CACAGAGGCTTACCTTTCC
1 CACAAAGGCTTACCTTTCC
24014297 TGGTGATCCA
Statistics
Matches: 115, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
56 2 0.02
57 107 0.93
58 6 0.05
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (56 bp):
CACAAAGGCTTACCTTTCCAAAGTTTTCCACAAAGGTTGTCCTTTAACAAGTTCGC
Found at i:24016181 original size:49 final size:46
Alignment explanation
Indices: 24016112--24016214 Score: 136
Period size: 49 Copynumber: 2.2 Consensus size: 46
24016102 AATAAGAAAG
* *
24016112 GGCAAAACTACGTCGTTTTGATAAATGTTTA-CCTTTTCTAAAGTTAAAA
1 GGCAAAATTACGTCGTTTTGATAAATGTTTATCC--AT-T-AAGTTAAAA
*
24016161 GGCAAAATTACTTCGTTTTGATAAATGTTTATCCATTAAGTTAAAA
1 GGCAAAATTACGTCGTTTTGATAAATGTTTATCCATTAAGTTAAAA
24016207 GGCAAAAT
1 GGCAAAAT
24016215 CATTATATTG
Statistics
Matches: 50, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
46 17 0.34
47 1 0.02
48 1 0.02
49 29 0.58
50 2 0.04
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.36
Consensus pattern (46 bp):
GGCAAAATTACGTCGTTTTGATAAATGTTTATCCATTAAGTTAAAA
Found at i:24016361 original size:15 final size:15
Alignment explanation
Indices: 24016302--24016365 Score: 51
Period size: 15 Copynumber: 4.1 Consensus size: 15
24016292 GAGTATAAAT
24016302 AATAGGATTTGTTAA
1 AATAGGATTTGTTAA
* *
24016317 AATAGAATTCAGTTTGATTA
1 AATAGGATT-TG-TT-A--A
24016337 AATA--ATTTGTTAA
1 AATAGGATTTGTTAA
24016350 AATAGGATTTGTTAA
1 AATAGGATTTGTTAA
24016365 A
1 A
24016366 TAATTTGTAC
Statistics
Matches: 39, Mismatches: 3, Indels: 14
0.70 0.05 0.25
Matches are distributed among these distances:
13 5 0.13
15 19 0.49
16 3 0.08
17 3 0.08
18 4 0.10
20 5 0.13
ACGTcount: A:0.42, C:0.02, G:0.16, T:0.41
Consensus pattern (15 bp):
AATAGGATTTGTTAA
Found at i:24016373 original size:12 final size:12
Alignment explanation
Indices: 24016329--24016373 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 12
24016319 TAGAATTCAG
24016329 TTTGATTAAATAA
1 TTTG-TTAAATAA
24016342 TTTGTTAAAATAGGA
1 TTTGTT-AAATA--A
24016357 TTTGTTAAATAA
1 TTTGTTAAATAA
24016369 TTTGT
1 TTTGT
24016374 ACTTCATCTA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
12 8 0.28
13 9 0.31
14 5 0.17
15 7 0.24
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (12 bp):
TTTGTTAAATAA
Found at i:24016728 original size:24 final size:23
Alignment explanation
Indices: 24016665--24016730 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 23
24016655 CTAAAAACCC
* *
24016665 AAAACTCTAAACTTTAAACTTTAA
1 AAAAC-CTAAACCTTAAACTCTAA
* *
24016689 AAAACATAAAATCTTAAACTCTAA
1 AAAACCT-AAACCTTAAACTCTAA
24016713 AAAATCCTAAACCTTAAA
1 AAAA-CCTAAACCTTAAA
24016731 AATTCGAGAA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
23 1 0.03
24 31 0.91
25 2 0.06
ACGTcount: A:0.55, C:0.18, G:0.00, T:0.27
Consensus pattern (23 bp):
AAAACCTAAACCTTAAACTCTAA
Found at i:24016733 original size:16 final size:17
Alignment explanation
Indices: 24016696--24016733 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
24016686 TAAAAAACAT
*
24016696 AAAATCTTAAACTCTAA
1 AAAATCCTAAACTCTAA
*
24016713 AAAATCCTAAAC-CTTA
1 AAAATCCTAAACTCTAA
24016729 AAAAT
1 AAAAT
24016734 TCGAGAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.55, C:0.18, G:0.00, T:0.26
Consensus pattern (17 bp):
AAAATCCTAAACTCTAA
Found at i:24020942 original size:14 final size:14
Alignment explanation
Indices: 24020919--24020956 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
24020909 ACAGAAAAGT
24020919 AAAACATTTTCCAG
1 AAAACATTTTCCAG
* *
24020933 AAATCATTTTCCGG
1 AAAACATTTTCCAG
24020947 AAAACATTTT
1 AAAACATTTT
24020957 ACTGTCAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.39, C:0.18, G:0.08, T:0.34
Consensus pattern (14 bp):
AAAACATTTTCCAG
Found at i:24021032 original size:22 final size:23
Alignment explanation
Indices: 24020996--24021039 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 23
24020986 CTCGAAATAA
24020996 ACTAAAATTTAAGTCAAACTTAC
1 ACTAAAATTTAAGTCAAACTTAC
24021019 ACTAAAA-TTAAGTCAAACTTA
1 ACTAAAATTTAAGTCAAACTTA
24021040 TTATAGTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.50, C:0.16, G:0.05, T:0.30
Consensus pattern (23 bp):
ACTAAAATTTAAGTCAAACTTAC
Found at i:24021519 original size:6 final size:6
Alignment explanation
Indices: 24021508--24021546 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
24021498 TACTTACTTT
*
24021508 AACAAA AACAAA AACAAA ACCAAA AACAAA AA-AAA AACA
1 AACAAA AACAAA AACAAA AACAAA AACAAA AACAAA AACA
24021547 TAAATTCTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 5 0.17
6 25 0.83
ACGTcount: A:0.82, C:0.18, G:0.00, T:0.00
Consensus pattern (6 bp):
AACAAA
Found at i:24023270 original size:23 final size:21
Alignment explanation
Indices: 24023242--24023287 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
24023232 ATTTCAATGA
* * * *
24023242 TAAAATATCATTCGATTTTTT
1 TAAAAAATAATTCAATTTTAT
24023263 TAAAAAATAATTCAATTTTAT
1 TAAAAAATAATTCAATTTTAT
24023284 TAAA
1 TAAA
24023288 TATTTTTCAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.46
Consensus pattern (21 bp):
TAAAAAATAATTCAATTTTAT
Found at i:24029986 original size:2 final size:2
Alignment explanation
Indices: 24029979--24030008 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
24029969 GACTCTCCCT
24029979 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
24030009 TACTCTCTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:24030016 original size:2 final size:2
Alignment explanation
Indices: 24030011--24030043 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
24030001 CACACACATA
24030011 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
24030044 CATGTTTCCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:24030624 original size:45 final size:45
Alignment explanation
Indices: 24030575--24030663 Score: 124
Period size: 45 Copynumber: 2.0 Consensus size: 45
24030565 GTTCTCACCC
*
24030575 ATTTTCATCATGACGCCATAACATCTTTCAACTATGGTCGTACTA
1 ATTTTCAGCATGACGCCATAACATCTTTCAACTATGGTCGTACTA
* * * * *
24030620 ATTTTTAGCATGATGCCATAGCATCTTTCAGCTATGGTCTTACT
1 ATTTTCAGCATGACGCCATAACATCTTTCAACTATGGTCGTACT
24030664 CAGTTTAGAC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.26, C:0.22, G:0.13, T:0.38
Consensus pattern (45 bp):
ATTTTCAGCATGACGCCATAACATCTTTCAACTATGGTCGTACTA
Found at i:24037370 original size:17 final size:20
Alignment explanation
Indices: 24037334--24037372 Score: 57
Period size: 17 Copynumber: 2.1 Consensus size: 20
24037324 TTATATTGTG
24037334 TGTTAATATATGATATTAAT
1 TGTTAATATATGATATTAAT
24037354 TGTT-ATATAT-ATA-TAAT
1 TGTTAATATATGATATTAAT
24037371 TG
1 TG
24037373 CATAGAACCG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.32
18 3 0.16
19 6 0.32
20 4 0.21
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.51
Consensus pattern (20 bp):
TGTTAATATATGATATTAAT
Found at i:24043388 original size:51 final size:52
Alignment explanation
Indices: 24043332--24043439 Score: 157
Period size: 51 Copynumber: 2.1 Consensus size: 52
24043322 ATGTAATTTT
* * *
24043332 CATTTTTATTTTTGAGAAAACCACATTCATTTCCAAATGATTT-C-ATTTCTC
1 CATTTTCATTTTGGAGAAAACCACAATCATTTCCAAATG-TTTCCTATTTCTC
*
24043383 CATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGTTTCCTATTTCTC
1 CATTTTCATTTTGGAGAAAACCACAATCATTTCCAAATGTTTCCTATTTCTC
24043435 CATTT
1 CATTT
24043440 CATCATATTT
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
50 3 0.06
51 36 0.71
52 12 0.24
ACGTcount: A:0.29, C:0.20, G:0.06, T:0.44
Consensus pattern (52 bp):
CATTTTCATTTTGGAGAAAACCACAATCATTTCCAAATGTTTCCTATTTCTC
Found at i:24048624 original size:27 final size:27
Alignment explanation
Indices: 24048584--24048862 Score: 285
Period size: 27 Copynumber: 10.3 Consensus size: 27
24048574 AATGGGCCTC
* *
24048584 TAAAATGATCGAAATACCCTTGAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
* **
24048611 TAAAATTATTGAAATACCCTCGAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
** * * *
24048638 TAAAACAACTGAAATACCCACGAAAGG
1 TAAAATGACCGAAATACCCTCGAAGGG
* *
24048665 TAAAATAACTGAAATACCCTCGAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
* *
24048692 TAAAATGAACAAAATACCCTCGAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
*
24048719 TAAAATGACCGAAATACCCTCGATGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
* * * *
24048746 TAAAATTATCGAAATACCCTTGATGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
* * *
24048773 TAAAATGACCAAAATACCCCCAAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
* *
24048800 TAAAATTACCGAAATACCC-CTGAAAGG
1 TAAAATGACCGAAATACCCTC-GAAGGG
*
24048827 TAAAATGATCGAAATACTCC-C-ATAGGG
1 TAAAATGACCGAAATAC-CCTCGA-AGGG
24048854 TAAAATGAC
1 TAAAATGAC
24048863 TGTTATATCC
Statistics
Matches: 213, Mismatches: 36, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
26 2 0.01
27 208 0.98
28 3 0.01
ACGTcount: A:0.44, C:0.19, G:0.18, T:0.19
Consensus pattern (27 bp):
TAAAATGACCGAAATACCCTCGAAGGG
Found at i:24049067 original size:26 final size:26
Alignment explanation
Indices: 24049042--24049138 Score: 124
Period size: 26 Copynumber: 3.7 Consensus size: 26
24049032 ACAAACACTG
* *
24049042 TTACTGGCAGCTTTGCTGCGTTACTGA
1 TTACTGGCAGCTCTGCTGCATTACT-A
* *
24049069 -TGCTGGTAGCTCTGCTGCATTACTA
1 TTACTGGCAGCTCTGCTGCATTACTA
*
24049094 TTACTGGCAGCTCTGCTACATTACTA
1 TTACTGGCAGCTCTGCTGCATTACTA
*
24049120 TTACTGGCAGCTTTGCTGC
1 TTACTGGCAGCTCTGCTGC
24049139 GATATTGGTG
Statistics
Matches: 60, Mismatches: 9, Indels: 3
0.83 0.12 0.04
Matches are distributed among these distances:
25 1 0.02
26 59 0.98
ACGTcount: A:0.16, C:0.25, G:0.23, T:0.36
Consensus pattern (26 bp):
TTACTGGCAGCTCTGCTGCATTACTA
Found at i:24049324 original size:30 final size:30
Alignment explanation
Indices: 24049245--24049317 Score: 112
Period size: 30 Copynumber: 2.4 Consensus size: 30
24049235 ACTGCATTTG
24049245 CACTGTTACTGTATTGGGCTAAGGCCCACA
1 CACTGTTACTGTATTGGGCTAAGGCCCACA
*
24049275 CTCTGTTACTGTATTGGGCTATA-GCCCACA
1 CACTGTTACTGTATTGGGCTA-AGGCCCACA
*
24049305 CACTGCTACTGTA
1 CACTGTTACTGTA
24049318 CAGGGCTCAG
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
30 38 0.97
31 1 0.03
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.30
Consensus pattern (30 bp):
CACTGTTACTGTATTGGGCTAAGGCCCACA
Found at i:24058354 original size:33 final size:33
Alignment explanation
Indices: 24058312--24058467 Score: 108
Period size: 33 Copynumber: 4.6 Consensus size: 33
24058302 AAAATACGGT
24058312 GGAATCAGCACTTAGCAACCACCAATGAATCGG
1 GGAATCAGCACTTAGCAACCACCAATGAATCGG
** *
24058345 GGAATCAGCACACAGCAACC-CC--T---TGGG
1 GGAATCAGCACTTAGCAACCACCAATGAATCGG
* *
24058372 GGAATCAGCACTTAGCAACCCCCTTTCACATTTAAAATACGG
1 GGAATCAGCACTTAGCAA-CCAC---CA-A--T-GAAT-CGG
*
24058414 TGGAATCAGCACTTAGCAACCACCAATGAATTGG
1 -GGAATCAGCACTTAGCAACCACCAATGAATCGG
**
24058448 GGAATCAGCACACAGCAACC
1 GGAATCAGCACTTAGCAACC
24058468 CCTTTATATG
Statistics
Matches: 96, Mismatches: 11, Indels: 32
0.69 0.08 0.23
Matches are distributed among these distances:
27 19 0.20
28 2 0.02
29 1 0.01
30 1 0.01
32 3 0.03
33 36 0.38
34 2 0.02
35 3 0.03
36 1 0.01
37 1 0.01
38 1 0.01
39 2 0.02
41 1 0.01
42 5 0.05
43 18 0.19
ACGTcount: A:0.35, C:0.29, G:0.20, T:0.17
Consensus pattern (33 bp):
GGAATCAGCACTTAGCAACCACCAATGAATCGG
Found at i:24058443 original size:103 final size:103
Alignment explanation
Indices: 24058115--24058471 Score: 612
Period size: 102 Copynumber: 3.5 Consensus size: 103
24058105 GGTGGATTTC
24058115 GCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTTGGGGGAATCAGCACT
1 GCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTTGGGGGAATCAGCACT
* * *
24058180 TAGCAACCCCC-TTCACATTTCAGATGCGGTGGAATCA
66 TAGCAACCCCCTTTCACATTTAAAATACGGTGGAATCA
* * **
24058217 GCACTTAGCAACCACCAATGAATAGGGGAATTAGCACTTAGCAACCCCTCT-GGGGAATCAGCAC
1 GCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT-TGGGGGAATCAGCAC
24058281 TTA-CAACCCCCTTTCACATTTAAAATACGGTGGAATCA
65 TTAGCAACCCCCTTTCACATTTAAAATACGGTGGAATCA
24058319 GCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTTGGGGGAATCAGCACT
1 GCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTTGGGGGAATCAGCACT
24058384 TAGCAACCCCCTTTCACATTTAAAATACGGTGGAATCA
66 TAGCAACCCCCTTTCACATTTAAAATACGGTGGAATCA
*
24058422 GCACTTAGCAACCACCAATGAATTGGGGAATCAGCACACAGCAACCCCTT
1 GCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTT
24058472 TATATGCAAT
Statistics
Matches: 239, Mismatches: 12, Indels: 7
0.93 0.05 0.03
Matches are distributed among these distances:
101 9 0.04
102 145 0.61
103 85 0.36
ACGTcount: A:0.32, C:0.29, G:0.19, T:0.19
Consensus pattern (103 bp):
GCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTTGGGGGAATCAGCACT
TAGCAACCCCCTTTCACATTTAAAATACGGTGGAATCA
Found at i:24071071 original size:10 final size:10
Alignment explanation
Indices: 24071056--24071081 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
24071046 TAATGAAATT
24071056 GAAATGATTA
1 GAAATGATTA
24071066 GAAATGATTA
1 GAAATGATTA
24071076 GAAATG
1 GAAATG
24071082 TTAATATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.23, T:0.27
Consensus pattern (10 bp):
GAAATGATTA
Found at i:24071113 original size:16 final size:16
Alignment explanation
Indices: 24071068--24071129 Score: 94
Period size: 16 Copynumber: 4.1 Consensus size: 16
24071058 AATGATTAGA
24071068 AATGATTAGAAATGTT
1 AATGATTAGAAATGTT
*
24071084 AAT-A-TA-ATATGTT
1 AATGATTAGAAATGTT
24071097 AATGATTAGAAATGTT
1 AATGATTAGAAATGTT
24071113 AATGATTAGAAATGTT
1 AATGATTAGAAATGTT
24071129 A
1 A
24071130 TATAAAACAA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
13 9 0.22
14 3 0.07
15 3 0.07
16 26 0.63
ACGTcount: A:0.45, C:0.00, G:0.16, T:0.39
Consensus pattern (16 bp):
AATGATTAGAAATGTT
Found at i:24074214 original size:20 final size:19
Alignment explanation
Indices: 24074172--24074222 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
24074162 GCCAAGTGTC
* *
24074172 AAAGTCCAAAACCA-AAATT
1 AAAGTCCAAAA-GATAAATG
24074191 AAAGTCCATAAAGATAAATG
1 AAAGTCCA-AAAGATAAATG
24074211 AAAGTCCAAAAG
1 AAAGTCCAAAAG
24074223 CCCATACTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 13 0.46
20 15 0.54
ACGTcount: A:0.57, C:0.16, G:0.12, T:0.16
Consensus pattern (19 bp):
AAAGTCCAAAAGATAAATG
Found at i:24077190 original size:9 final size:9
Alignment explanation
Indices: 24077176--24077206 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
24077166 GTTAAACGAA
24077176 TCGAGTTAT
1 TCGAGTTAT
*
24077185 TCGAGTTAA
1 TCGAGTTAT
24077194 TCGAGTTAT
1 TCGAGTTAT
24077203 TCGA
1 TCGA
24077207 ATCAACTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:24081445 original size:40 final size:40
Alignment explanation
Indices: 24081390--24081511 Score: 172
Period size: 40 Copynumber: 3.0 Consensus size: 40
24081380 TGAATATGCC
* *
24081390 TTTAGGGGTATCGAAGTACTAATAGGGGCACGTATGTGCA
1 TTTAGGGGTACCGAAGTACAAATAGGGGCACGTATGTGCA
* *
24081430 TTTAGGGGTACCGAAGTACAAATAGGGCCACGTATGTACA
1 TTTAGGGGTACCGAAGTACAAATAGGGGCACGTATGTGCA
* * * *
24081470 TTCAAGGGTACCAAAGTACAAACAGGGGCACGTATGTGCA
1 TTTAGGGGTACCGAAGTACAAATAGGGGCACGTATGTGCA
24081510 TT
1 TT
24081512 CAGACAATAA
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 72 1.00
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.24
Consensus pattern (40 bp):
TTTAGGGGTACCGAAGTACAAATAGGGGCACGTATGTGCA
Found at i:24084768 original size:6 final size:6
Alignment explanation
Indices: 24084757--24084800 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
24084747 TAAGTCTAAG
* *
24084757 AAAATA ACAATA AACATA AAAATA AAAATA AAAAT- AAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAA
24084801 CAAATAGACT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
5 5 0.15
6 28 0.85
ACGTcount: A:0.80, C:0.05, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:24090871 original size:12 final size:11
Alignment explanation
Indices: 24090854--24090878 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
24090844 AACTCACTGA
24090854 TTTTTTTTTCC
1 TTTTTTTTTCC
24090865 TTTTTTTTTCC
1 TTTTTTTTTCC
24090876 TTT
1 TTT
24090879 ACATTGCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTTTTTTCC
Found at i:24091518 original size:11 final size:11
Alignment explanation
Indices: 24091502--24091534 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
24091492 TACATTTTCA
24091502 TTATTTATTAT
1 TTATTTATTAT
24091513 TTATTTATTAT
1 TTATTTATTAT
24091524 TT-TTTA-TAT
1 TTATTTATTAT
24091533 TT
1 TT
24091535 TCTAAGGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 5 0.23
10 4 0.18
11 13 0.59
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TTATTTATTAT
Found at i:24099550 original size:20 final size:21
Alignment explanation
Indices: 24099517--24099555 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
24099507 AGCTCAATGG
24099517 AGCTCAATTCAGCTCAATTCT
1 AGCTCAATTCAGCTCAATTCT
*
24099538 AGCTC-ATTGAGCTCAATT
1 AGCTCAATTCAGCTCAATT
24099556 TTATCCTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (21 bp):
AGCTCAATTCAGCTCAATTCT
Found at i:24099634 original size:16 final size:16
Alignment explanation
Indices: 24099613--24099647 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
24099603 GTCTTATTTT
24099613 TGCTGGAACAATTTCA
1 TGCTGGAACAATTTCA
*
24099629 TGCTGGAATAATTTCA
1 TGCTGGAACAATTTCA
24099645 TGC
1 TGC
24099648 GTCTAGCTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (16 bp):
TGCTGGAACAATTTCA
Found at i:24105326 original size:23 final size:24
Alignment explanation
Indices: 24105300--24105352 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
24105290 GTGTTTTTCG
* *
24105300 AGTGATTTCTTCAATCTTCTT-TA
1 AGTGATCTCTTAAATCTTCTTCTA
*
24105323 AGTGCTCTCTTAAATCTTCTTCTA
1 AGTGATCTCTTAAATCTTCTTCTA
*
24105347 ATTGAT
1 AGTGAT
24105353 ATTTATAGAC
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
23 18 0.75
24 6 0.25
ACGTcount: A:0.23, C:0.19, G:0.09, T:0.49
Consensus pattern (24 bp):
AGTGATCTCTTAAATCTTCTTCTA
Found at i:24110818 original size:40 final size:39
Alignment explanation
Indices: 24110763--24110886 Score: 176
Period size: 40 Copynumber: 3.1 Consensus size: 39
24110753 TGAATATGCC
* *
24110763 TTCAAGAGTACCGAAGTACTAATAGAGGCACGTATGTGCA
1 TTCAAGGGTACCGAAGTACAAATAG-GGCACGTATGTGCA
*
24110803 TTCAAGGGTACCGAAGTACAAATAGGGTCACGTATGTACA
1 TTCAAGGGTACCGAAGTACAAATAGGG-CACGTATGTGCA
* *
24110843 TTCAAGGGTATCGAAGTACAAACAGGGGCACGTATGTGCA
1 TTCAAGGGTACCGAAGTACAAATA-GGGCACGTATGTGCA
24110883 TTCA
1 TTCA
24110887 GAAAATGAAC
Statistics
Matches: 76, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
39 2 0.03
40 71 0.93
41 3 0.04
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.23
Consensus pattern (39 bp):
TTCAAGGGTACCGAAGTACAAATAGGGCACGTATGTGCA
Found at i:24114007 original size:51 final size:50
Alignment explanation
Indices: 24113928--24114113 Score: 205
Period size: 51 Copynumber: 3.7 Consensus size: 50
24113918 GAACACGTGG
*
24113928 GTAGTACTATGTGAAGGCTACTACGTGTATCGATAAA-TAATGGTCACATGT
1 GTAGTACTATGTGAAGGCTACTACGTGTACCGA-AAACT-ATGGTCACATGT
* * * *
24113979 GTAGTACTAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGTCACGTGT
1 GTAGTACTATGTGAAGGCTACTACGTGTACCGAAAA-CTATGGTCACATGT
* * * ** * *
24114030 GTAGTACTATGTGGAGGCTACTACGTGGACCGTAAAACT-TGATTGCGTTT
1 GTAGTACTATGTGAAGGCTACTACGTGTACCG-AAAACTATGGTCACATGT
*
24114080 GTAGTACTATGTGAAGGCTACTACGTGTATCGAA
1 GTAGTACTATGTGAAGGCTACTACGTGTACCGAA
24114114 TGATAATAAT
Statistics
Matches: 116, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
49 2 0.02
50 39 0.34
51 70 0.60
52 5 0.04
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (50 bp):
GTAGTACTATGTGAAGGCTACTACGTGTACCGAAAACTATGGTCACATGT
Found at i:24126557 original size:27 final size:28
Alignment explanation
Indices: 24126510--24126562 Score: 67
Period size: 27 Copynumber: 1.9 Consensus size: 28
24126500 TGAGGAAAAA
24126510 GAAAAAGGAAAAAAGAAAAAT-AAAAGT
1 GAAAAAGGAAAAAAGAAAAATGAAAAGT
24126537 GAAAAA-GAAGAAAATG-AAAATGAAAA
1 GAAAAAGGAA-AAAA-GAAAAATGAAAA
24126563 AGGCGAAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
26 3 0.13
27 15 0.65
28 5 0.22
ACGTcount: A:0.74, C:0.00, G:0.19, T:0.08
Consensus pattern (28 bp):
GAAAAAGGAAAAAAGAAAAATGAAAAGT
Found at i:24126571 original size:21 final size:22
Alignment explanation
Indices: 24126518--24126564 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
24126508 AAGAAAAAGG
24126518 AAAA-AAGAAAAAT-AAAAGTGA
1 AAAAGAAG-AAAATGAAAAGTGA
24126539 AAAAGAAGAAAATGAAAA-TGA
1 AAAAGAAGAAAATGAAAAGTGA
24126560 AAAAG
1 AAAAG
24126565 GCGAAAAGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.74, C:0.00, G:0.17, T:0.09
Consensus pattern (22 bp):
AAAAGAAGAAAATGAAAAGTGA
Found at i:24126576 original size:21 final size:22
Alignment explanation
Indices: 24126531--24126576 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
24126521 AAAGAAAAAT
*
24126531 AAAAGTGAAAAAGAAGAAAATG
1 AAAAGTGAAAAAGAAGAAAAGG
**
24126553 AAAA-TGAAAAAGGCGAAAAGG
1 AAAAGTGAAAAAGAAGAAAAGG
24126574 AAA
1 AAA
24126577 GCGAGAGAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.67, C:0.02, G:0.24, T:0.07
Consensus pattern (22 bp):
AAAAGTGAAAAAGAAGAAAAGG
Found at i:24126675 original size:36 final size:33
Alignment explanation
Indices: 24126610--24126676 Score: 80
Period size: 33 Copynumber: 1.9 Consensus size: 33
24126600 GTGAATGAAG
*
24126610 TGAGTGAAAAAGAGAGAGAGCTTAAACAAGGAA
1 TGAGTGAAAAAGAGAGAGAGCTAAAACAAGGAA
* *
24126643 TGAGTGAAGAAGAAGAGAGTGCTCAAACACAAGG
1 TGAGTGAAAAAG-AGAGAGAGCT-AAA-ACAAGG
24126677 GAGGAATATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
33 11 0.39
34 9 0.32
35 2 0.07
36 6 0.21
ACGTcount: A:0.48, C:0.09, G:0.31, T:0.12
Consensus pattern (33 bp):
TGAGTGAAAAAGAGAGAGAGCTAAAACAAGGAA
Found at i:24129345 original size:32 final size:32
Alignment explanation
Indices: 24129278--24129346 Score: 79
Period size: 32 Copynumber: 2.2 Consensus size: 32
24129268 CTATTCCAAT
* * *
24129278 TCACA-CCAATGGATCATTCAATACTTAGTGT
1 TCACACCCAATGAACCATTCAATACTTAGTGA
*
24129309 TCACACCCAATGAACCATTCAA-ATTTGAGTGA
1 TCACACCCAATGAACCATTCAATACTT-AGTGA
24129341 TCACAC
1 TCACAC
24129347 GAAAGACCCT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
31 8 0.25
32 24 0.75
ACGTcount: A:0.35, C:0.26, G:0.12, T:0.28
Consensus pattern (32 bp):
TCACACCCAATGAACCATTCAATACTTAGTGA
Found at i:24134142 original size:111 final size:111
Alignment explanation
Indices: 24133986--24134207 Score: 444
Period size: 111 Copynumber: 2.0 Consensus size: 111
24133976 GATGATTAAG
24133986 TAAGTGAAAAGGACTAAATCGTAAAAAAGTGTAAAAGTAGAGTTTCGTTAGCTAAACGGGTCAAA
1 TAAGTGAAAAGGACTAAATCGTAAAAAAGTGTAAAAGTAGAGTTTCGTTAGCTAAACGGGTCAAA
24134051 TGGCTATGAAATTTTAAAGTGAAAGGATTTAGACGGTAATTAGACC
66 TGGCTATGAAATTTTAAAGTGAAAGGATTTAGACGGTAATTAGACC
24134097 TAAGTGAAAAGGACTAAATCGTAAAAAAGTGTAAAAGTAGAGTTTCGTTAGCTAAACGGGTCAAA
1 TAAGTGAAAAGGACTAAATCGTAAAAAAGTGTAAAAGTAGAGTTTCGTTAGCTAAACGGGTCAAA
24134162 TGGCTATGAAATTTTAAAGTGAAAGGATTTAGACGGTAATTAGACC
66 TGGCTATGAAATTTTAAAGTGAAAGGATTTAGACGGTAATTAGACC
24134208 ATTTGAGTAG
Statistics
Matches: 111, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
111 111 1.00
ACGTcount: A:0.41, C:0.09, G:0.23, T:0.26
Consensus pattern (111 bp):
TAAGTGAAAAGGACTAAATCGTAAAAAAGTGTAAAAGTAGAGTTTCGTTAGCTAAACGGGTCAAA
TGGCTATGAAATTTTAAAGTGAAAGGATTTAGACGGTAATTAGACC
Found at i:24142135 original size:792 final size:788
Alignment explanation
Indices: 24140597--24142961 Score: 3017
Period size: 792 Copynumber: 3.0 Consensus size: 788
24140587 CATCCACTTG
* * * *
24140597 AAAGGAGCATTCTTATACAATAACTTCATCAAAGGAGATGCGATCAACTAGAACCCTTCTAAAAA
1 AAAGAAGCATTCTTATACAATAACTTCGTCAAATGAGATGCGATCAAC-AGAA-CCTTCTACAAA
* * * * *
24140662 TATCTGATAATACCCTTCCA-ACCCAAGGAAACTCCAAATCTGTGAGAGAGTTTTAGGCTGTTTC
64 TCTCTGATAATACCCTTCCAGA-CCAATGAAACTCAAAATCTGTGAGACACTTTTAGGCTGTTTC
* * * * *
24140726 CATTTAAGAATAGTTTGGATCCATATTGATTCCCTCAGCAGATACCATATGTCCCAAAAACATAA
128 CACTTAAGAATAGTTTGGATCCACACTGATACCCTCAGCAGATACCATATGT-CCAAAAACATGA
* * * * *
24140791 TTTCCCTCAACCAGAACTCACACTTGCTCAATTTAGCATAGAGCTTCTTCTCTCAGACAATCTAC
192 CTTCCCTTAACCAGAACTCACACTTGCTCAATTTAGCATAGAGCTTCTTCTCTCGGAGAATCTAT
* * *
24140856 AAAACTACCCTTACATGCTCATCATGCTCAGCCTCAGTCTTAGAGTATACAAAAATATCGTCGAT
257 AGAACTACCCTTACATGCTCATCATGCTCAGCCTTAGTCTTAGAGTATACAAAAATATCGTTGAT
* * *
24140921 GAACACACTATCACGAACTAATCCAGAAATGGTTGAGACACTCTATTCATAAGATCCATGAATGC
322 GAACA-A-TATGACGAACTAATCCAGAAACGGTTGAAACACTCTATTCATAAGATCCATGAATGC
* * ** *
24140986 GGTCGAAACATTGGCCAAACCGAAAGGCATAACTAATAACTT-GTAATAACCATAACAAGACCTA
385 GGTCGAAACATTGGTCAAATCGAAAGGCATAACTAGGAA-TTCGTAATAACCATAACGAGACCTA
* * * * ** *
24141050 AATGTAGTCTTAGGCACGTCAGATCCTTTCAGTCCCAACTAATGGTACATAGGTCTCAAATTGAT
449 AATGCAGTCTTAGGCAC-TTAGATCCTTTCACTTCCAACTAATGGTACCCAGATCTCAAATTGAT
* * * *
24141115 CTTATAAAATACTGACGTCCCTCAAAACTGATCAAACAAATTGTCGATCCCTGGCAATGAATATT
513 CTTAGAAAACACTGACGTCCCTCAAAACTGATCAAACAAATCGTCGATCCTTGGCAATGAATATT
* * * * **
24141180 TATTATTTATCATTAACTTATTCAGTTGCCTATAGTTGATCTACTATAATACGGTGTAACAAATT
578 TATTATTTACCGTTAACTTATTCAGTTGCCTGTAGTTGATCTAC-ATAATTCGGTGTAGTAAATT
* ** * *
24141245 AAACTAGTTTTTGCGCTTAAGGAGCTT--A-ACAAGCATTGTCGTTATGTTTTAGTTAAGTTTTC
642 AAACTAGTTTTCGCATTTAAGGAGCTTGAATACAAGCATTTTCGTTATGTTTTAGTTAAGATTTC
* * *
24141307 TTATTTTTAATTACATTCAATAAAATGTGTAAATTGAGTCTTTTATTGACCTTAGGGGTCGGATA
707 TTAGTTTTAATTACATTCAATAAAATGTGAAAATTGAGTCTTTTATTGACCTTAGGGGCCGGATA
*
24141372 AGGCCTAAGGATGAGCT
772 AGGCCTAAGGGTGAGCT
* *
24141389 AAATG-AGTATTCTTATTCAATAACTTCGTCAAATGAGATGCGATCAACGAGAAACCTTCTACAA
1 AAA-GAAGCATTCTTATACAATAACTTCGTCAAATGAGATGCGATCAAC-AG-AACCTTCTACAA
* * * * * *
24141453 ATCTCTAATAATACCCTTCTAGACCAATGAAACTCGAAATCCGTGAGACACTTTTACGTTGTTTC
63 ATCTCTGATAATACCCTTCCAGACCAATGAAACTCAAAATCTGTGAGACACTTTTAGGCTGTTTC
*
24141518 CACTTAAGAATAGTTTGGATCCACACGGATACCCTCAGCAGATACCATATGTCCAAAAAACATGA
128 CACTTAAGAATAGTTTGGATCCACACTGATACCCTCAGCAGATACCATATGTCC-AAAAACATGA
** *
24141583 CTTCCCTTAACCAGAACTCACACTTGCTCAATTTAGCATAGATTTTCTTCTCTTGGAGAATCTAT
192 CTTCCCTTAACCAGAACTCACACTTGCTCAATTTAGCATAGAGCTTCTTCTCTCGGAGAATCTAT
* * * * * *
24141648 AGAACCACCCTTAGATGCTCATCATGCCCAACCTTAGTCTTAGAGTTTACAAAAATATCGTTAAT
257 AGAACTACCCTTACATGCTCATCATGCTCAGCCTTAGTCTTAGAGTATACAAAAATATCGTTGAT
* * *
24141713 GAACAATATGACGAACTAATCTAGAAACGGTTGAAACACTCTATTCATAAGATCCAGGAATGCAG
322 GAACAATATGACGAACTAATCCAGAAACGGTTGAAACACTCTATTCATAAGATCCATGAATGCGG
* * * *
24141778 TC-AGAACATTGGTCAAATCAAAAGGCATAACTAGGAATTCGTAATGACCATTACGATACCTAAA
387 TCGA-AACATTGGTCAAATCGAAAGGCATAACTAGGAATTCGTAATAACCATAACGAGACCTAAA
* *
24141842 TGCAGTCTTAGGCACTTAGATCCTTTCACTTTCAACTGATGGTACCCAGATCTCAAATTGATCTT
451 TGCAGTCTTAGGCACTTAGATCCTTTCACTTCCAACTAATGGTACCCAGATCTCAAATTGATCTT
* * **
24141907 AGAAAACACTGACGTCCCTTAAAATTGATCAAACAAATCACCGATCCTTGGCAATGAATATTTAT
516 AGAAAACACTGACGTCCCTCAAAACTGATCAAACAAATCGTCGATCCTTGGCAATGAATATTTAT
* * *
24141972 TATTTACCGTTAACTTATTCAGTTGCCTGTAGTTGATCTGACGTAATTTGGTGTAGTAGATTAAA
581 TATTTACCGTTAACTTATTCAGTTGCCTGTAGTTGATCT-ACATAATTCGGTGTAGTAAATTAAA
24142037 CTAGTTTTCGCATTTAAGGAGCTTGAATACAAGCATTTTCGTTATGTTTTAGTTAAGATTTCTTA
645 CTAGTTTTCGCATTTAAGGAGCTTGAATACAAGCATTTTCGTTATGTTTTAGTTAAGATTTCTTA
* *
24142102 GTTTTAATTGCATTCAATAAAATGTGCAAATTGAGTCTTTTATTGACCTTAGGGGCCGGATAAGG
710 GTTTTAATTACATTCAATAAAATGTGAAAATTGAGTCTTTTATTGACCTTAGGGGCCGGATAAGG
24142167 CCTAAGGGTGAGCT
775 CCTAAGGGTGAGCT
** *
24142181 AAAGAAGCATTCTTACGCAATAACTTCGTCAAAT--GA---GAT--AC----CCTTCCACAAATC
1 AAAGAAGCATTCTTATACAATAACTTCGTCAAATGAGATGCGATCAACAGAACCTTCTACAAATC
* *
24142235 TCTGATGATACCCTTCCAGACCAATGAAACTCAAAATCTGTGAGACACTTTTAGGCTATTTCCAC
66 TCTGATAATACCCTTCCAGACCAATGAAACTCAAAATCTGTGAGACACTTTTAGGCTGTTTCCAC
* * * * *
24142300 TTAAGAATAGTTTGGATCCACACTGATAACCTCGGCAGATACCATATGACCCAAAACATGACTTT
131 TTAAGAATAGTTTGGATCCACACTGATACCCTCAGCAGATACCATATGTCCAAAAACATGACTTC
* * * *
24142365 CCTTAACCAAAACTCACACTTGCTTAATTTAGCATAGGGCTTGTTCTCTCGGAGAATCTATAGAA
196 CCTTAACCAGAACTCACACTTGCTCAATTTAGCATAGAGCTTCTTCTCTCGGAGAATCTATAGAA
* * * *
24142430 CTACCCTTACATGCTCATCATGGTCAGCCTTAGTCTTAGAGTATAGAAAAATATTGTTGATGAAT
261 CTACCCTTACATGCTCATCATGCTCAGCCTTAGTCTTAGAGTATACAAAAATATCGTTGATGAAC
* ** * * ** *
24142495 ACTATGACGAACTGGTCCAGAAACGATTGAAACACTCTATTCATAGGATCCATGAATATGGTCGC
326 AATATGACGAACTAATCCAGAAACGGTTGAAACACTCTATTCATAAGATCCATGAATGCGGTCGA
* * * * *
24142560 AGCATTGATCAAATTGAAAGGCATAACTAGGAACTCGTAATAACCATAACGAGACCTAACTGCAG
391 AACATTGGTCAAATCGAAAGGCATAACTAGGAATTCGTAATAACCATAACGAGACCTAAATGCAG
* * * * * * *
24142625 TCTTAGGCA-TGTCAAATACTTTTACTTCCAACTTATGGCATCCAAATCTCAAATTGATCTTAGA
456 TCTTAGGCACT-T-AGATCCTTTCACTTCCAACTAATGGTACCCAGATCTCAAATTGATCTTAGA
* * ** * **
24142689 AAACACTGACATCACTCAAAACTGATTGAATAAATCGTCGATCCTT-AAAAGTGAATATTTATTA
519 AAACACTGACGTCCCTCAAAACTGATCAAACAAATCGTCGATCCTTGGCAA-TGAATATTTATTA
* * * * * * ** * *
24142753 TTTACTGATAACTTATTTAGTTTCTTGTAGTTGATTTTTTATAATTCAGTGTAGTAAAATAAACT
583 TTTACCGTTAACTTATTCAGTTGCCTGTAGTTGA-TCTACATAATTCGGTGTAGTAAATTAAACT
* * * *
24142818 AGTTTTCACATTGAAGGAGCCTGAATACAAGCATTTTTGTTATGTTTTAGTTAA-ATTTTCTTAG
647 AGTTTTCGCATTTAAGGAGCTTGAATACAAGCATTTTCGTTATGTTTTAGTTAAGA-TTTCTTAG
* *
24142882 TTTTTATTACATTCAATAAAATGTGAAAATTGAGTCTTTTATTGACCTTAGGGGCCGAATAAGGC
711 TTTTAATTACATTCAATAAAATGTGAAAATTGAGTCTTTTATTGACCTTAGGGGCCGGATAAGGC
*
24142947 TTAAGGGTGAGCT
776 CTAAGGGTGAGCT
24142960 AA
1 AA
24142962 TGCACTTTGT
Statistics
Matches: 1370, Mismatches: 186, Indels: 47
0.85 0.12 0.03
Matches are distributed among these distances:
777 1 0.00
778 247 0.18
779 391 0.29
780 2 0.00
785 2 0.00
787 3 0.00
789 176 0.13
790 121 0.09
791 5 0.00
792 418 0.31
793 4 0.00
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (788 bp):
AAAGAAGCATTCTTATACAATAACTTCGTCAAATGAGATGCGATCAACAGAACCTTCTACAAATC
TCTGATAATACCCTTCCAGACCAATGAAACTCAAAATCTGTGAGACACTTTTAGGCTGTTTCCAC
TTAAGAATAGTTTGGATCCACACTGATACCCTCAGCAGATACCATATGTCCAAAAACATGACTTC
CCTTAACCAGAACTCACACTTGCTCAATTTAGCATAGAGCTTCTTCTCTCGGAGAATCTATAGAA
CTACCCTTACATGCTCATCATGCTCAGCCTTAGTCTTAGAGTATACAAAAATATCGTTGATGAAC
AATATGACGAACTAATCCAGAAACGGTTGAAACACTCTATTCATAAGATCCATGAATGCGGTCGA
AACATTGGTCAAATCGAAAGGCATAACTAGGAATTCGTAATAACCATAACGAGACCTAAATGCAG
TCTTAGGCACTTAGATCCTTTCACTTCCAACTAATGGTACCCAGATCTCAAATTGATCTTAGAAA
ACACTGACGTCCCTCAAAACTGATCAAACAAATCGTCGATCCTTGGCAATGAATATTTATTATTT
ACCGTTAACTTATTCAGTTGCCTGTAGTTGATCTACATAATTCGGTGTAGTAAATTAAACTAGTT
TTCGCATTTAAGGAGCTTGAATACAAGCATTTTCGTTATGTTTTAGTTAAGATTTCTTAGTTTTA
ATTACATTCAATAAAATGTGAAAATTGAGTCTTTTATTGACCTTAGGGGCCGGATAAGGCCTAAG
GGTGAGCT
Found at i:24142538 original size:778 final size:780
Alignment explanation
Indices: 24140648--24142961 Score: 2946
Period size: 779 Copynumber: 3.0 Consensus size: 780
24140638 GATCAACTAG
* * * * * *
24140648 AACCCTTCTAAAAATATCTGATAATACCCTTCCA-ACCCAAGGAAACTCCAAATCTGTGAGAGAG
1 AACCCTTCTACAAATCTCTGATAATACCCTTCCAGA-CCAATGAAACTCAAAATCTGTGAGACAC
* * * *
24140712 TTTTAGGCTGTTTCCATTTAAGAATAGTTTGGATCCATATTGATTCCCTCAGCAGATACCATATG
65 TTTTAGGCTGTTTCCACTTAAGAATAGTTTGGATCCACACTGATACCCTCAGCAGATACCATATG
* *
24140777 TCCCAAAAACAT-AATTTCCCTCAACCAGAACTCACACTTGCTCAATTTAGCATAGAGCTTCTTC
130 TCCC-AAAACATGACTTT-CCTTAACCAGAACTCACACTTGCTCAATTTAGCATAGAGCTTCTTC
* * * * *
24140841 TCTCAGACAATCTACAAAACTACCCTTACATGCTCATCATGCTCAGCCTCAGTCTTAGAGTATAC
193 TCTCGGAGAATCTATAGAACTACCCTTACATGCTCATCATGCTCAGCCTTAGTCTTAGAGTATAC
* * * *
24140906 AAAAATATCGTCGATGAACACACTATCACGAACTAATCCAGAAATGGTTGAGACACTCTATTCAT
258 AAAAATATCGTTGATG-A-ACACTATGACGAACTAATCCAGAAACGGTTGAAACACTCTATTCAT
* * **
24140971 AAGATCCATGAATGCGGTCGAAACATTGGCCAAACCGAAAGGCATAACTAATAACTT-GTAATAA
321 AAGATCCATGAATGCGGTCGAAACATTGGTCAAATCGAAAGGCATAACTAGGAA-TTCGTAATAA
* * * * * **
24141035 CCATAACAAGACCTAAATGTAGTCTTAGGCACGTCAGATCCTTTCAGTCCCAACTAATGGTACAT
385 CCATAACGAGACCTAAATGCAGTCTTAGGCAC-TTAGATCCTTTCACTTCCAACTAATGGTACCC
* * * *
24141100 AGGTCTCAAATTGATCTTATAAAATACTGACGTCCCTCAAAACTGATCAAACAAATTGTCGATCC
449 AGATCTCAAATTGATCTTAGAAAACACTGACGTCCCTCAAAACTGATCAAACAAATCGTCGATCC
* * * *
24141165 CTGGCAATGAATATTTATTATTTATCATTAACTTATTCAGTTGCCTATAGTTGATCTACTATAAT
514 TTGGCAATGAATATTTATTATTTACCGTTAACTTATTCAGTTGCCTGTAGTTGATCTAC-ATAAT
* ** * ** *
24141230 ACGGTGTAACAAATTAAACTAGTTTTTGCGCTTAAGGAGCTT--A-ACAAGCATTGTCGTTATGT
578 TCGGTGTAGTAAATTAAACTAGTTTTCGCATTTAAGGAGCTTGAATACAAGCATTTTCGTTATGT
* * *
24141292 TTTAGTTAAGTTTTCTTATTTTTAATTACATTCAATAAAATGTGTAAATTGAGTCTTTTATTGAC
643 TTTAGTTAAGATTTCTTAGTTTTAATTACATTCAATAAAATGTGAAAATTGAGTCTTTTATTGAC
* * * **
24141357 CTTAGGGGTCGGATAAGGCCTAAGGATGAGCTAAATGAGTATTCTTATTCAATAACTTCGTCAAA
708 CTTAGGGGCCGGATAAGGCCTAAGGGTGAGCTAAATGAGCATTCTTACGCAATAACTTCGTCAAA
24141422 TGAGATGCGAT
773 T-AGA--CGAT
* * * *
24141433 CAACGAGAAACCTTCTACAAATCTCTAATAATACCCTTCTAGACCAATGAAACTCGAAATCCGTG
1 -AAC------CCTTCTACAAATCTCTGATAATACCCTTCCAGACCAATGAAACTCAAAATCTGTG
* * *
24141498 AGACACTTTTACGTTGTTTCCACTTAAGAATAGTTTGGATCCACACGGATACCCTCAGCAGATAC
59 AGACACTTTTAGGCTGTTTCCACTTAAGAATAGTTTGGATCCACACTGATACCCTCAGCAGATAC
* * **
24141563 CATATGTCCAAAAAACATGACTTCCCTTAACCAGAACTCACACTTGCTCAATTTAGCATAGATTT
124 CATATGTCC-CAAAACATGACTTTCCTTAACCAGAACTCACACTTGCTCAATTTAGCATAGAGCT
* * * * *
24141628 TCTTCTCTTGGAGAATCTATAGAACCACCCTTAGATGCTCATCATGCCCAACCTTAGTCTTAGAG
188 TCTTCTCTCGGAGAATCTATAGAACTACCCTTACATGCTCATCATGCTCAGCCTTAGTCTTAGAG
* * * *
24141693 TTTACAAAAATATCGTTAATGAACAATATGACGAACTAATCTAGAAACGGTTGAAACACTCTATT
253 TATACAAAAATATCGTTGATGAACACTATGACGAACTAATCCAGAAACGGTTGAAACACTCTATT
* * *
24141758 CATAAGATCCAGGAATGCAGTC-AGAACATTGGTCAAATCAAAAGGCATAACTAGGAATTCGTAA
318 CATAAGATCCATGAATGCGGTCGA-AACATTGGTCAAATCGAAAGGCATAACTAGGAATTCGTAA
* * * * *
24141822 TGACCATTACGATACCTAAATGCAGTCTTAGGCACTTAGATCCTTTCACTTTCAACTGATGGTAC
382 TAACCATAACGAGACCTAAATGCAGTCTTAGGCACTTAGATCCTTTCACTTCCAACTAATGGTAC
* * **
24141887 CCAGATCTCAAATTGATCTTAGAAAACACTGACGTCCCTTAAAATTGATCAAACAAATCACCGAT
447 CCAGATCTCAAATTGATCTTAGAAAACACTGACGTCCCTCAAAACTGATCAAACAAATCGTCGAT
*
24141952 CCTTGGCAATGAATATTTATTATTTACCGTTAACTTATTCAGTTGCCTGTAGTTGATCTGACGTA
512 CCTTGGCAATGAATATTTATTATTTACCGTTAACTTATTCAGTTGCCTGTAGTTGATCT-ACATA
* *
24142017 ATTTGGTGTAGTAGATTAAACTAGTTTTCGCATTTAAGGAGCTTGAATACAAGCATTTTCGTTAT
576 ATTCGGTGTAGTAAATTAAACTAGTTTTCGCATTTAAGGAGCTTGAATACAAGCATTTTCGTTAT
* *
24142082 GTTTTAGTTAAGATTTCTTAGTTTTAATTGCATTCAATAAAATGTGCAAATTGAGTCTTTTATTG
641 GTTTTAGTTAAGATTTCTTAGTTTTAATTACATTCAATAAAATGTGAAAATTGAGTCTTTTATTG
24142147 ACCTTAGGGGCCGGATAAGGCCTAAGGGTGAGCTAAA-GAAGCATTCTTACGCAATAACTTCGTC
706 ACCTTAGGGGCCGGATAAGGCCTAAGGGTGAGCTAAATG-AGCATTCTTACGCAATAACTTCGTC
24142211 AAAT-GA-GAT
770 AAATAGACGAT
* *
24142220 -ACCCTTCCACAAATCTCTGATGATACCCTTCCAGACCAATGAAACTCAAAATCTGTGAGACACT
1 AACCCTTCTACAAATCTCTGATAATACCCTTCCAGACCAATGAAACTCAAAATCTGTGAGACACT
* * * *
24142284 TTTAGGCTATTTCCACTTAAGAATAGTTTGGATCCACACTGATAACCTCGGCAGATACCATATGA
66 TTTAGGCTGTTTCCACTTAAGAATAGTTTGGATCCACACTGATACCCTCAGCAGATACCATATGT
* * * *
24142349 CCCAAAACATGACTTTCCTTAACCAAAACTCACACTTGCTTAATTTAGCATAGGGCTTGTTCTCT
131 CCCAAAACATGACTTTCCTTAACCAGAACTCACACTTGCTCAATTTAGCATAGAGCTTCTTCTCT
* *
24142414 CGGAGAATCTATAGAACTACCCTTACATGCTCATCATGGTCAGCCTTAGTCTTAGAGTATAGAAA
196 CGGAGAATCTATAGAACTACCCTTACATGCTCATCATGCTCAGCCTTAGTCTTAGAGTATACAAA
* * ** * *
24142479 AATATTGTTGATGAATACTATGACGAACTGGTCCAGAAACGATTGAAACACTCTATTCATAGGAT
261 AATATCGTTGATGAACACTATGACGAACTAATCCAGAAACGGTTGAAACACTCTATTCATAAGAT
** * * * * *
24142544 CCATGAATATGGTCGCAGCATTGATCAAATTGAAAGGCATAACTAGGAACTCGTAATAACCATAA
326 CCATGAATGCGGTCGAAACATTGGTCAAATCGAAAGGCATAACTAGGAATTCGTAATAACCATAA
* * * * * * * *
24142609 CGAGACCTAACTGCAGTCTTAGGCA-TGTCAAATACTTTTACTTCCAACTTATGGCATCCAAATC
391 CGAGACCTAAATGCAGTCTTAGGCACT-T-AGATCCTTTCACTTCCAACTAATGGTACCCAGATC
* * ** * **
24142673 TCAAATTGATCTTAGAAAACACTGACATCACTCAAAACTGATTGAATAAATCGTCGATCCTT-AA
454 TCAAATTGATCTTAGAAAACACTGACGTCCCTCAAAACTGATCAAACAAATCGTCGATCCTTGGC
* * * * * * ** *
24142737 AAGTGAATATTTATTATTTACTGATAACTTATTTAGTTTCTTGTAGTTGATTTTTTATAATTCAG
519 AA-TGAATATTTATTATTTACCGTTAACTTATTCAGTTGCCTGTAGTTGA-TCTACATAATTCGG
* * * * *
24142802 TGTAGTAAAATAAACTAGTTTTCACATTGAAGGAGCCTGAATACAAGCATTTTTGTTATGTTTTA
582 TGTAGTAAATTAAACTAGTTTTCGCATTTAAGGAGCTTGAATACAAGCATTTTCGTTATGTTTTA
*
24142867 GTTAA-ATTTTCTTAGTTTTTATTACATTCAATAAAATGTGAAAATTGAGTCTTTTATTGACCTT
647 GTTAAGA-TTTCTTAGTTTTAATTACATTCAATAAAATGTGAAAATTGAGTCTTTTATTGACCTT
* *
24142931 AGGGGCCGAATAAGGCTTAAGGGTGAGCTAA
711 AGGGGCCGGATAAGGCCTAAGGGTGAGCTAA
24142962 TGCACTTTGT
Statistics
Matches: 1323, Mismatches: 183, Indels: 51
0.85 0.12 0.03
Matches are distributed among these distances:
777 1 0.00
778 247 0.19
779 391 0.30
780 2 0.00
785 2 0.00
786 3 0.00
787 3 0.00
789 176 0.13
790 124 0.09
791 3 0.00
792 367 0.28
793 4 0.00
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.31
Consensus pattern (780 bp):
AACCCTTCTACAAATCTCTGATAATACCCTTCCAGACCAATGAAACTCAAAATCTGTGAGACACT
TTTAGGCTGTTTCCACTTAAGAATAGTTTGGATCCACACTGATACCCTCAGCAGATACCATATGT
CCCAAAACATGACTTTCCTTAACCAGAACTCACACTTGCTCAATTTAGCATAGAGCTTCTTCTCT
CGGAGAATCTATAGAACTACCCTTACATGCTCATCATGCTCAGCCTTAGTCTTAGAGTATACAAA
AATATCGTTGATGAACACTATGACGAACTAATCCAGAAACGGTTGAAACACTCTATTCATAAGAT
CCATGAATGCGGTCGAAACATTGGTCAAATCGAAAGGCATAACTAGGAATTCGTAATAACCATAA
CGAGACCTAAATGCAGTCTTAGGCACTTAGATCCTTTCACTTCCAACTAATGGTACCCAGATCTC
AAATTGATCTTAGAAAACACTGACGTCCCTCAAAACTGATCAAACAAATCGTCGATCCTTGGCAA
TGAATATTTATTATTTACCGTTAACTTATTCAGTTGCCTGTAGTTGATCTACATAATTCGGTGTA
GTAAATTAAACTAGTTTTCGCATTTAAGGAGCTTGAATACAAGCATTTTCGTTATGTTTTAGTTA
AGATTTCTTAGTTTTAATTACATTCAATAAAATGTGAAAATTGAGTCTTTTATTGACCTTAGGGG
CCGGATAAGGCCTAAGGGTGAGCTAAATGAGCATTCTTACGCAATAACTTCGTCAAATAGACGAT
Found at i:24159275 original size:9 final size:9
Alignment explanation
Indices: 24159247--24159328 Score: 55
Period size: 9 Copynumber: 9.0 Consensus size: 9
24159237 TTAGTATTCT
24159247 TTATTAAAA
1 TTATTAAAA
*
24159256 TTTTTAAAAAA
1 TTATT--AAAA
24159267 TTATTAAAA
1 TTATTAAAA
*
24159276 TATAATAAAA
1 T-TATTAAAA
* *
24159286 ATA-TAAAT
1 TTATTAAAA
24159294 TTA-TATAAA
1 TTATTA-AAA
24159303 TTATTAAATA
1 TTATTAAA-A
24159313 TTA-TAAAA
1 TTATTAAAA
24159321 TT-TTAAAA
1 TTATTAAAA
24159329 ATACTACTCT
Statistics
Matches: 59, Mismatches: 7, Indels: 15
0.73 0.09 0.19
Matches are distributed among these distances:
8 16 0.27
9 22 0.37
10 13 0.22
11 8 0.14
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (9 bp):
TTATTAAAA
Found at i:24159326 original size:17 final size:18
Alignment explanation
Indices: 24159263--24159327 Score: 73
Period size: 17 Copynumber: 3.7 Consensus size: 18
24159253 AAATTTTTAA
*
24159263 AAAATTATTAAAATATAAT
1 AAAATTATT-AAATATTAT
*
24159282 AAAAATA-TAAAT-TTAT
1 AAAATTATTAAATATTAT
24159298 ATAAATTATTAAATATTAT
1 A-AAATTATTAAATATTAT
24159317 AAAATT-TTAAA
1 AAAATTATTAAA
24159328 AATACTACTC
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
16 4 0.10
17 14 0.35
18 11 0.28
19 11 0.28
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
AAAATTATTAAATATTAT
Found at i:24163166 original size:22 final size:22
Alignment explanation
Indices: 24163138--24163290 Score: 225
Period size: 22 Copynumber: 7.0 Consensus size: 22
24163128 TTTATTGTTC
*
24163138 AAACATGAGAGCTTAGTACGTG
1 AAACATGAGAGCTTAGTACGTT
24163160 AAACATGAGAGCTTAGTACGTT
1 AAACATGAGAGCTTAGTACGTT
**
24163182 AGCCATGAGAGCTTAGTACGTT
1 AAACATGAGAGCTTAGTACGTT
** * * *
24163204 AGCCATGAGGGTTTAGTTCGTT
1 AAACATGAGAGCTTAGTACGTT
24163226 AAACATGAGAGCTTAGTACGTT
1 AAACATGAGAGCTTAGTACGTT
*
24163248 AAACATGAGAGCTTAGTACGTG
1 AAACATGAGAGCTTAGTACGTT
24163270 AAACATGAGAGCTTAGTACGT
1 AAACATGAGAGCTTAGTACGT
24163291 ACTATAAAAG
Statistics
Matches: 119, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 119 1.00
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (22 bp):
AAACATGAGAGCTTAGTACGTT
Done.