Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01013266.1 Kokia drynarioides strain JFW-HI SEQ_128287, whole genome shotgun sequence
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: 40485
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Warning! 97 characters in sequence are not A, C, G, or T
Found at i:680 original size:30 final size:30
Alignment explanation
Indices: 548--748 Score: 173
Period size: 30 Copynumber: 6.8 Consensus size: 30
538 AAGAGGTCCC
* *
548 TAAACTTTTCTAAAATTATATTTTGA-CC-
1 TAAACTTTTCTAAAATTACATTTTAACCCA
* *
576 TCAAACTCTTAC-AAAATTA-ATTTTGACTCC-
1 T-AAACT-TTTCTAAAATTACATTTTAAC-CCA
* *
606 CAAACTTTTCTAAAATAACATTTTAA-CC-
1 TAAACTTTTCTAAAATTACATTTTAACCCA
*
634 TCAAACTTTTCCAAAATTACATTTTAACCCA
1 T-AAACTTTTCTAAAATTACATTTTAACCCA
* * * *
665 TGAAGTTTTCTAAAATTACATTTTGACCCT
1 TAAACTTTTCTAAAATTACATTTTAACCCA
* * *
695 TAAACTTTTCTAATATTATATTTTAACCCC
1 TAAACTTTTCTAAAATTACATTTTAACCCA
* *
725 TAAACTTTGCTAAAATTACTTTTT
1 TAAACTTTTCTAAAATTACATTTT
749 TGCCTTGAAA
Statistics
Matches: 141, Mismatches: 23, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
28 13 0.09
29 46 0.33
30 81 0.57
31 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.03, T:0.42
Consensus pattern (30 bp):
TAAACTTTTCTAAAATTACATTTTAACCCA
Found at i:722 original size:60 final size:56
Alignment explanation
Indices: 550--748 Score: 202
Period size: 60 Copynumber: 3.4 Consensus size: 56
540 GAGGTCCCTA
* * *
550 AACTTTTCTAAAATTATATTTTGACCTCAAACTCTTACAAAATTAATTTTGACTCCCA-
1 AACTTTTCTAAAATTACATTTTGACCTCAAACT-TTTCAAAATTAATTTT-A-ACCCAT
* *
608 AACTTTTCTAAAATAACATTTTAACCTCAAACTTTTCCAAAATTACATTTTAACCCAT
1 AACTTTTCTAAAATTACATTTTGACCTCAAACTTTT-CAAAATTA-ATTTTAACCCAT
* * * *
666 GAAGTTTTCTAAAATTACATTTTGACCCTTAAACTTTTCTAATATTATATTTTAACCCCT
1 -AACTTTTCTAAAATTACATTTTGA-CCTCAAACTTTTC-AAAATTA-ATTTTAACCCAT
* *
726 AAACTTTGCTAAAATTACTTTTT
1 -AACTTTTCTAAAATTACATTTT
749 TGCCTTGAAA
Statistics
Matches: 119, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
57 6 0.05
58 39 0.33
59 27 0.23
60 47 0.39
ACGTcount: A:0.36, C:0.20, G:0.03, T:0.42
Consensus pattern (56 bp):
AACTTTTCTAAAATTACATTTTGACCTCAAACTTTTCAAAATTAATTTTAACCCAT
Found at i:6417 original size:99 final size:99
Alignment explanation
Indices: 6244--6437 Score: 230
Period size: 99 Copynumber: 2.0 Consensus size: 99
6234 CATGAAGATT
* * * ** * * * *
6244 TGAAGGGAAAGGTTGAGGTCGTAACGACGAACTCGGTACCTTAGAAGATGAGATGGGAAAGGTTG
1 TGAAAGGAAAGGTTGAGGCCATAACGAAAAACTCGATACCTTAAAAAATGAGATGGGAAAGGTTA
* *
6309 AGGCTGCAATGGCAAACCCGATACCATGAACACA
66 AGGCCGCAATGACAAACCCGATACCATGAACACA
6343 TGAAAGGAAAGGTTGAGGCCATAACGAAAAACTCGATACCTTAAAAAAT-ATGATGGG-AAGGAT
1 TGAAAGGAAAGGTTGAGGCCATAACGAAAAACTCGATACCTTAAAAAATGA-GATGGGAAAGG-T
* * *
6406 TAAGGCCGCAATGACGAATCCGGTACCATGAA
64 TAAGGCCGCAATGACAAACCCGATACCATGAA
6438 ATGTGATGAG
Statistics
Matches: 79, Mismatches: 14, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
98 5 0.06
99 74 0.94
ACGTcount: A:0.38, C:0.16, G:0.28, T:0.18
Consensus pattern (99 bp):
TGAAAGGAAAGGTTGAGGCCATAACGAAAAACTCGATACCTTAAAAAATGAGATGGGAAAGGTTA
AGGCCGCAATGACAAACCCGATACCATGAACACA
Found at i:7037 original size:116 final size:116
Alignment explanation
Indices: 6822--7079 Score: 290
Period size: 116 Copynumber: 2.2 Consensus size: 116
6812 CATCATCATT
* * * * * *
6822 CAATCTCTTACCCCGAT-ATGAGGCAGATTGCAGCCACCCGATCTTTTACCCCGATCATGGGTCT
1 CAATCTCTTA-CCCGATCATGGGGCAGATTCCAACCACCCAATCTCTTACCCCGATCATGGGTCA
* *
6886 GATTGAAGCCATCCAATCTCTTACCCCGATCATGAGGCAAATT-CTAGCCATC
65 GATTGAAGCCACCCAATCTCTTACCCCGATCATGAGGCAAATTAC-AACCATC
* * * * *
6938 TAATCTCTTACTCGATCATGGGGCAGATTCCAACCATCCAATCTCTTACCCTGATTATGAGGT-A
1 CAATCTCTTACCCGATCATGGGGCAGATTCCAACCACCCAATCTCTTACCCCGATCATG-GGTCA
* * *
7002 GATTGCAA-CCACCCGATCTCTTACCCCGATTATGAGGCAGATTACAACCATC
65 GATTG-AAGCCACCCAATCTCTTACCCCGATCATGAGGCAAATTACAACCATC
*
7054 CAATCTTTTACCCTGATCATGGGGCA
1 CAATCTCTTACCC-GATCATGGGGCA
7080 CATTGCAGTC
Statistics
Matches: 118, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
115 5 0.04
116 95 0.81
117 18 0.15
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.27
Consensus pattern (116 bp):
CAATCTCTTACCCGATCATGGGGCAGATTCCAACCACCCAATCTCTTACCCCGATCATGGGTCAG
ATTGAAGCCACCCAATCTCTTACCCCGATCATGAGGCAAATTACAACCATC
Found at i:7093 original size:39 final size:39
Alignment explanation
Indices: 6822--7093 Score: 273
Period size: 39 Copynumber: 7.0 Consensus size: 39
6812 CATCATCATT
*
6822 CAATCTCTTACCCCGAT-ATGAGGCAGATTGCAGCCACC
1 CAATCTCTTACCCCGATCATGAGGCAGATTGCAGCCATC
* * * *
6860 CGATCTTTTACCCCGATCATG-GGTCTGATTGAAGCCATC
1 CAATCTCTTACCCCGATCATGAGG-CAGATTGCAGCCATC
*
6899 CAATCTCTTACCCCGATCATGAGGCAAATT-CTAGCCATC
1 CAATCTCTTACCCCGATCATGAGGCAGATTGC-AGCCATC
* * * * *
6938 TAATCTCTTA-CTCGATCATGGGGCAGATTCCAACCATC
1 CAATCTCTTACCCCGATCATGAGGCAGATTGCAGCCATC
* * * * *
6976 CAATCTCTTACCCTGATTATGAGGTAGATTGCAACCACC
1 CAATCTCTTACCCCGATCATGAGGCAGATTGCAGCCATC
* * * *
7015 CGATCTCTTACCCCGATTATGAGGCAGATTACAACCATC
1 CAATCTCTTACCCCGATCATGAGGCAGATTGCAGCCATC
* * * * *
7054 CAATCTTTTACCCTGATCATGGGGCACATTGCAGTCATC
1 CAATCTCTTACCCCGATCATGAGGCAGATTGCAGCCATC
7093 C
1 C
7094 GAAGTAATAA
Statistics
Matches: 191, Mismatches: 37, Indels: 11
0.80 0.15 0.05
Matches are distributed among these distances:
38 48 0.25
39 141 0.74
40 2 0.01
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.27
Consensus pattern (39 bp):
CAATCTCTTACCCCGATCATGAGGCAGATTGCAGCCATC
Found at i:7481 original size:207 final size:207
Alignment explanation
Indices: 7126--7711 Score: 700
Period size: 208 Copynumber: 2.8 Consensus size: 207
7116 CCTGACAAGG
*
7126 TGTAGAGAAGTAAACCAAATCCGTC-TTCTTGATGAGATACAAATAAGTGGATT-AAATCAATGA
1 TGTAGAGAAGTGAACCAAATCCGTCTTTC-TGATGAGATACAAATAAGTGGATTGAAA-CAATGA
* * **
7189 GGCGGTCATCTTCTTGATGAGATA-CAGAGAAGTAGACCAAA-TAATTGAACCGCAGCTCAATGT
64 GGCGGTCATCTTCTTGATGAGATATC-GAGAAGTAGACCAAATTAA-TGAA-AGAAGCTCAATAC
* * * * * *
7252 GAGTGAAAATTCAAACCCCATCTTCCT-AGTGGGATATAGAGAAGTAGGTCGAACCAAT-AAGTG
126 GAATGAGACTTCAAACCCCATCTTCCTGA-TGAGATATAGAGAAGTAGGTCAAACCAATAAAGCG
7315 GTCATCTTCCTAATGAGA
190 GTCATCTTCCTAATGAGA
* * *
7333 TGTAGAGAAGTGAACCAAATCTGTCTTTCTGATGAGATATAGATAAGTGGATTGAAACAATGAGG
1 TGTAGAGAAGTGAACCAAATCCGTCTTTCTGATGAGATACAAATAAGTGGATTGAAACAATGAGG
*
7398 CGGTCATCTTCTTGATGAGATATCGAGAAGTAGACCAAATTAGTGAAGAGAAGCTCAATACGAAT
66 CGGTCATCTTCTTGATGAGATATCGAGAAGTAGACCAAATTAATGAA-AGAAGCTCAATACGAAT
* * * * * *
7463 GAGACTTAAAAACCCATCTTCTTGATGAGATATAGAGAAATGGGTCAAAGCAATAAAGCGGTCAT
130 GAGACTTCAAACCCCATCTTCCTGATGAGATATAGAGAAGTAGGTCAAACCAATAAAGCGGTCAT
* *
7528 CTTCTTGATGAGA
195 CTTCCTAATGAGA
** * * * * * * *
7541 TACAGAAAAGTGGATCAAATCCAT-TTTCCTAATGAGATACAAAGAAGTGGATTGAAACAATGAC
1 TGTAGAGAAGTGAACCAAATCCGTCTTT-CTGATGAGATACAAATAAGTGGATTGAAACAATGAG
* * ** * *
7605 GCGGTTATCTTCCTGATGAGATATATAGAAGTAGACTAAATTAATGAAACGAAGCTTAATACGAA
65 GCGGTCATCTTCTTGATGAGATATCGAGAAGTAGACCAAATTAATGAAA-GAAGCTCAATACGAA
7670 TGAGACTTCAAACCCCATCTTCCTGATGAGATATAGAGAAGT
129 TGAGACTTCAAACCCCATCTTCCTGATGAGATATAGAGAAGT
7712 GGATTGAAAC
Statistics
Matches: 324, Mismatches: 47, Indels: 15
0.84 0.12 0.04
Matches are distributed among these distances:
207 152 0.47
208 172 0.53
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.26
Consensus pattern (207 bp):
TGTAGAGAAGTGAACCAAATCCGTCTTTCTGATGAGATACAAATAAGTGGATTGAAACAATGAGG
CGGTCATCTTCTTGATGAGATATCGAGAAGTAGACCAAATTAATGAAAGAAGCTCAATACGAATG
AGACTTCAAACCCCATCTTCCTGATGAGATATAGAGAAGTAGGTCAAACCAATAAAGCGGTCATC
TTCCTAATGAGA
Found at i:7784 original size:331 final size:331
Alignment explanation
Indices: 7356--8044 Score: 911
Period size: 331 Copynumber: 2.1 Consensus size: 331
7346 ACCAAATCTG
* * * ** * * *
7356 TCTTTCTGATGAGATATAGATAAGTGGATTGAAACAATGAGGCGGTCATCTTCTTGATGAGATAT
1 TCTTCCTGATGAGATATAGAGAAGTGGATTGAAACAAAGAGGCAATCATCTTCCTAATGAAATAT
* * * * *
7421 CGAGAAGTAGACCAAATTAGTGAAGAGAAGCTCAATACGAATGAGACTTAAAAACCCATCTTCTT
66 CGAGAAGTAAACCAAATCAATAAAGAGAAGCTCAATACGAATGAGACGTAAAAACCCATCTTCTT
* *
7486 GATGAGATATAGAGAAATGGGTCAAAGCAATAAAG-CGGTCATCTTCT-TGATGAGATACAGAAA
131 GATGAGATACAGAGAAATGGGTCAAAGCAATAAAGTC-ATCATCTT-TATGATGAGATACAGAAA
* *
7549 AGTGGA-TCAAATCCAT-TTTCCTAATGAGATACAAAGAAGTGGATTGAAACAATGACGCGGTTA
194 AGTAGACT-AAATCCATCTTT-CTAATGAGATACAAAGAAGTGGATTGAAACAATGACGCGGTCA
* * * * * *
7612 TCTTCCTGATGAGATATATAGAAGTAGACTAAATTAATGAAACGAAGCTTAATACGAATGAGACT
257 TCTTCCTCATGAGATACAGAGAAGTAGACCAAATCAATGAAACGAAGCTCAATACGAATGAGACT
7677 TCAAACCCCA
322 TCAAACCCCA
7687 TCTTCCTGATGAGATATAGAGAAGTGGATTGAAACAAAGAGGCAATCATCTTCCTAATGAAATA-
1 TCTTCCTGATGAGATATAGAGAAGTGGATTGAAACAAAGAGGCAATCATCTTCCTAATGAAATAT
* * * * *
7751 CAGAGAAGTAAATCAAATCAATAAAGCGAAGCTCAATATGAATGAGACGTCAAACCCCATCTTCT
66 C-GAGAAGTAAACCAAATCAATAAAGAGAAGCTCAATACGAATGAGACGTAAAAACCCATCTTCT
* * * *
7816 TGATGAGATACAGAGAAGTGGTTCAAAGTAATAAAGTCATCATCTTTATGATGAGATACAGAGAA
130 TGATGAGATACAGAGAAATGGGTCAAAGCAATAAAGTCATCATCTTTATGATGAGATACAGAAAA
* * * * * *
7881 GTAGACTAAATCCATCTTTCTGATGAGATATAGAGAAGTGGATTGAAATAATGAGGTGGTCATCT
195 GTAGACTAAATCCATCTTTCTAATGAGATACAAAGAAGTGGATTGAAACAATGACGCGGTCATCT
** *
7946 TCCTCATGAGATACAGAGAAGTAGACCAAATCAATGAGGCGAAGCTCAATACGAATGAGATTTCA
260 TCCTCATGAGATACAGAGAAGTAGACCAAATCAATGAAACGAAGCTCAATACGAATGAGACTTCA
8011 AACCCCA
325 AACCCCA
* *
8018 TCTTCCTGATGAGATACAAAGAAGTGG
1 TCTTCCTGATGAGATATAGAGAAGTGG
8045 GTCAAAGCAA
Statistics
Matches: 310, Mismatches: 43, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
330 2 0.01
331 303 0.98
332 5 0.02
ACGTcount: A:0.39, C:0.15, G:0.21, T:0.25
Consensus pattern (331 bp):
TCTTCCTGATGAGATATAGAGAAGTGGATTGAAACAAAGAGGCAATCATCTTCCTAATGAAATAT
CGAGAAGTAAACCAAATCAATAAAGAGAAGCTCAATACGAATGAGACGTAAAAACCCATCTTCTT
GATGAGATACAGAGAAATGGGTCAAAGCAATAAAGTCATCATCTTTATGATGAGATACAGAAAAG
TAGACTAAATCCATCTTTCTAATGAGATACAAAGAAGTGGATTGAAACAATGACGCGGTCATCTT
CCTCATGAGATACAGAGAAGTAGACCAAATCAATGAAACGAAGCTCAATACGAATGAGACTTCAA
ACCCCA
Found at i:7794 original size:123 final size:123
Alignment explanation
Indices: 7561--7836 Score: 349
Period size: 123 Copynumber: 2.2 Consensus size: 123
7551 TGGATCAAAT
* * * * ** * * *
7561 CCATTTTCCTAATGAGATACAAAGAAGTGGATTGAAACAATGACGCGGTTATCTTCCTGATGAGA
1 CCATCTTCCTGATGAGATACAGAGAAGTGGATTGAAACAAAGACGCAATCATCTTCCTAATGAAA
* * * * * *
7626 TATATAGAAGTAGACTAAATTAATGAAACGAAGCTTAATACGAATGAGACTTCAAACC
66 TACAGAGAAGTAAACTAAATCAATGAAACGAAGCTCAATACGAATGAGACGTCAAACC
* *
7684 CCATCTTCCTGATGAGATATAGAGAAGTGGATTGAAACAAAGAGGCAATCATCTTCCTAATGAAA
1 CCATCTTCCTGATGAGATACAGAGAAGTGGATTGAAACAAAGACGCAATCATCTTCCTAATGAAA
*
7749 TACAGAGAAGTAAA-TCAAATCAAT-AAAGCGAAGCTCAATATGAATGAGACGTCAAACC
66 TACAGAGAAGTAAACT-AAATCAATGAAA-CGAAGCTCAATACGAATGAGACGTCAAACC
*
7807 CCATCTTCTTGATGAGATACAGAGAAGTGG
1 CCATCTTCCTGATGAGATACAGAGAAGTGG
7837 TTCAAAGTAA
Statistics
Matches: 131, Mismatches: 20, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
122 4 0.03
123 127 0.97
ACGTcount: A:0.40, C:0.16, G:0.20, T:0.24
Consensus pattern (123 bp):
CCATCTTCCTGATGAGATACAGAGAAGTGGATTGAAACAAAGACGCAATCATCTTCCTAATGAAA
TACAGAGAAGTAAACTAAATCAATGAAACGAAGCTCAATACGAATGAGACGTCAAACC
Found at i:7858 original size:123 final size:123
Alignment explanation
Indices: 7561--7892 Score: 348
Period size: 123 Copynumber: 2.7 Consensus size: 123
7551 TGGATCAAAT
* * * * ** * ** *
7561 CCATTTTCCTAATGAGATACAAAGAAGTGGATTGAAACAATGACGCGGTTATCTTCCTGATGAGA
1 CCATCTTCCTGATGAGATACAGAGAAGTGGATTCAAACAAAAAGGCAATCATCTTCCTGATGAGA
* * * * * *
7626 TATATAGAAGTAGACTAAATTAATGAAACGAAGCTTAATACGAATGAGACTTCAAACC
66 TACAGAGAAGTAAACTAAATCAATGAAACGAAGCTCAATACGAATGAGACGTCAAACC
* * * * *
7684 CCATCTTCCTGATGAGATATAGAGAAGTGGATTGAAACAAAGAGGCAATCATCTTCCTAATGAAA
1 CCATCTTCCTGATGAGATACAGAGAAGTGGATTCAAACAAAAAGGCAATCATCTTCCTGATGAGA
*
7749 TACAGAGAAGTAAA-TCAAATCAAT-AAAGCGAAGCTCAATATGAATGAGACGTCAAACC
66 TACAGAGAAGTAAACT-AAATCAATGAAA-CGAAGCTCAATACGAATGAGACGTCAAACC
* * * **
7807 CCATCTTCTTGATGAGATACAGAGAAGTGG-TTCAAAGTAATAAAGTC-ATCATCTTTATGATGA
1 CCATCTTCCTGATGAGATACAGAGAAGTGGATTCAAA-CAA-AAAGGCAATCATCTTCCTGATGA
*
7870 GATACAGAGAAGTAGACTAAATC
64 GATACAGAGAAGTAAACTAAATC
7893 CATCTTTCTG
Statistics
Matches: 175, Mismatches: 29, Indels: 10
0.82 0.14 0.05
Matches are distributed among these distances:
122 9 0.05
123 161 0.92
124 5 0.03
ACGTcount: A:0.41, C:0.16, G:0.19, T:0.25
Consensus pattern (123 bp):
CCATCTTCCTGATGAGATACAGAGAAGTGGATTCAAACAAAAAGGCAATCATCTTCCTGATGAGA
TACAGAGAAGTAAACTAAATCAATGAAACGAAGCTCAATACGAATGAGACGTCAAACC
Found at i:7898 original size:208 final size:207
Alignment explanation
Indices: 7684--8507 Score: 965
Period size: 208 Copynumber: 4.0 Consensus size: 207
7674 ACTTCAAACC
* * * ** * *
7684 CCATCTTCCTGATGAGATATAGAGAAGTGGATTGAAACAAAGAGGCAATCATCTTCCTAATGAAA
1 CCATCTTCCTGATGAGATACAGAGAAGTGGATTGAAACAATGAAGCGGTCATCTTCCTGATGAGA
* * * * * *
7749 TACAGAGAAGTAAATCAAATCAATAAAGCGAAGCTCAATATGAATGAGACGTCAAACCCCATCTT
66 TACAGAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATACGAATGAAACTTCAAACCCCATCTT
* * * ** **
7814 CTTGATGAGATACAGAGAAGTGGTTCAAAGTAATAAAGTCATCATCTTTATGATGAGATACAGAG
131 CTTGATGAGATACAAAGAAGTGGGTCAAAGCAATAAAGTGGTCATCTTCCTGATGAGATACAGAG
*
7879 AAGTAGACTAAAT
196 AAGT-GACCAAAT
* * * * * *
7892 CCATCTTTCTGATGAGATATAGAGAAGTGGATTGAAATAATGAGGTGGTCATCTTCCTCATGAGA
1 CCATCTTCCTGATGAGATACAGAGAAGTGGATTGAAACAATGAAGCGGTCATCTTCCTGATGAGA
* * *
7957 TACAGAGAAGTAGACCAAATCAATGAGGCGAAGCTCAATACGAATGAGATTTCAAACCCCATCTT
66 TACAGAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATACGAATGAAACTTCAAACCCCATCTT
* * * *
8022 CCTGATGAGATACAAAGAAGTGGGTCAAAGCAAAAAAGTGGTCATCTTCCTGACGAGATGCAGAG
131 CTTGATGAGATACAAAGAAGTGGGTCAAAGCAATAAAGTGGTCATCTTCCTGATGAGATACAGAG
8087 AAGTGAACCAAAT
196 AAGTG-ACCAAAT
* *
8100 CCGTCTTCCTGATGAGATACAGAGAAGTGGATTAAAACAATGAAGCGGTCATCTTCCTGATGAGA
1 CCATCTTCCTGATGAGATACAGAGAAGTGGATTGAAACAATGAAGCGGTCATCTTCCTGATGAGA
*
8165 TACAGAGAAGTAGA-CAATTCAATGAAGCGAAGCTCAAT--GTAATGAAACTTCTAAACCCCATC
66 TACAGAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATACG-AATGAAACTTC-AAACCCCATC
* * * * * *
8227 TT-TCTGATGACATATAGAGAAGTGGGTCAAAGCAATAAAGAGGTCATCTTCCTGATGAGGTATA
129 TTCT-TGATGAGATACAAAGAAGTGGGTCAAAGCAATAAAGTGGTCATCTTCCTGATGAGATACA
8291 GAGAAGTGGACCAAAT
193 GAGAAGT-GACCAAAT
** * * ** * *
8307 CTGTCTTCCTAATGAGTTACAGAGAAGTGGATT-AAATCAATGAAATGGTCATGTTCTTGATGAG
1 CCATCTTCCTGATGAGATACAGAGAAGTGGATTGAAA-CAATGAAGCGGTCATCTTCCTGATGAG
* * * * *
8371 ATACAAAGAAGTAGACCAAATCAATGAAGCGAAACTTAATGCGAGTGAAACTTCAAACCCCTATC
65 ATACAGAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATACGAATGAAACTTCAAACCCC-ATC
* ** * * * * *
8436 TTCTTGATGAGATACAAAGAAGTAGGTCAAAATAATAAAGCGGTCATCTTCTTGATAAGATATAA
129 TTCTTGATGAGATACAAAGAAGTGGGTCAAAGCAATAAAGTGGTCATCTTCCTGATGAGATACAG
8501 AGAAGTG
194 AGAAGTG
8508 GACTAAGAGA
Statistics
Matches: 533, Mismatches: 72, Indels: 22
0.85 0.11 0.04
Matches are distributed among these distances:
205 1 0.00
206 12 0.02
207 167 0.31
208 280 0.53
209 71 0.13
210 2 0.00
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.24
Consensus pattern (207 bp):
CCATCTTCCTGATGAGATACAGAGAAGTGGATTGAAACAATGAAGCGGTCATCTTCCTGATGAGA
TACAGAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATACGAATGAAACTTCAAACCCCATCTT
CTTGATGAGATACAAAGAAGTGGGTCAAAGCAATAAAGTGGTCATCTTCCTGATGAGATACAGAG
AAGTGACCAAAT
Found at i:7919 original size:85 final size:85
Alignment explanation
Indices: 7807--7977 Score: 220
Period size: 85 Copynumber: 2.0 Consensus size: 85
7797 ACGTCAAACC
* *
7807 CCATCTTCTTGATGAGATACAGAGAAGTGG-TTCAAAGTAATAAAGTCATCATCTTTATGATGAG
1 CCATCTTCTTGATGAGATACAGAGAAGTGGATTCAAA-TAATAAAGTCATCATCTTCATCATGAG
*
7871 ATACAGAGAAGTAGACTAAAT
65 ATACAGAGAAGTAGACCAAAT
* * * * ** *
7892 CCATCTT-TCTGATGAGATATAGAGAAGTGGATTGAAATAATGAGGTGGTCATCTTCCTCATGAG
1 CCATCTTCT-TGATGAGATACAGAGAAGTGGATTCAAATAATAAAGTCATCATCTTCATCATGAG
7956 ATACAGAGAAGTAGACCAAAT
65 ATACAGAGAAGTAGACCAAAT
7977 C
1 C
7978 AATGAGGCGA
Statistics
Matches: 74, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
84 1 0.01
85 68 0.92
86 5 0.07
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.27
Consensus pattern (85 bp):
CCATCTTCTTGATGAGATACAGAGAAGTGGATTCAAATAATAAAGTCATCATCTTCATCATGAGA
TACAGAGAAGTAGACCAAAT
Found at i:7982 original size:48 final size:48
Alignment explanation
Indices: 7893--7984 Score: 114
Period size: 48 Copynumber: 1.9 Consensus size: 48
7883 AGACTAAATC
* * * * **
7893 CATCTTTCTGATGAGATATAGAGAAGTGGATTGAAATAATGAGGTGGT
1 CATCTTCCTCATGAGATACAGAGAAGTAGATCCAAATAATGAGGTGGT
7941 CATCTTCCTCATGAGATACAGAGAAGTAGA-CCAAATCAATGAGG
1 CATCTTCCTCATGAGATACAGAGAAGTAGATCCAAAT-AATGAGG
7985 CGAAGCTCAA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
47 4 0.11
48 33 0.89
ACGTcount: A:0.36, C:0.13, G:0.25, T:0.26
Consensus pattern (48 bp):
CATCTTCCTCATGAGATACAGAGAAGTAGATCCAAATAATGAGGTGGT
Found at i:8165 original size:85 final size:85
Alignment explanation
Indices: 8018--8175 Score: 235
Period size: 85 Copynumber: 1.9 Consensus size: 85
8008 TCAAACCCCA
* * * *
8018 TCTTCCTGATGAGATACAAAGAAGTGGGTCAAAGCAAAAAAGTGGTCATCTTCCTGACGAGATGC
1 TCTTCCTGATGAGATACAAAGAAGTGGATCAAAACAAAAAAGCGGTCATCTTCCTGACGAGATAC
8083 AGAGAAGTGAACCAAATCCG
66 AGAGAAGTGAACCAAATCCG
* * ** *
8103 TCTTCCTGATGAGATACAGAGAAGTGGATTAAAACAATGAAGCGGTCATCTTCCTGATGAGATAC
1 TCTTCCTGATGAGATACAAAGAAGTGGATCAAAACAAAAAAGCGGTCATCTTCCTGACGAGATAC
8168 AGAGAAGT
66 AGAGAAGT
8176 AGACAATTCA
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
85 64 1.00
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (85 bp):
TCTTCCTGATGAGATACAAAGAAGTGGATCAAAACAAAAAAGCGGTCATCTTCCTGACGAGATAC
AGAGAAGTGAACCAAATCCG
Found at i:8335 original size:415 final size:417
Alignment explanation
Indices: 7687--8486 Score: 1070
Period size: 415 Copynumber: 1.9 Consensus size: 417
7677 TCAAACCCCA
* * *
7687 TCTTCCTGATGAGATATAGAGAAGTGGATTGAAACAAAGAGGCAATCATCTTCCTAATGAAATAC
1 TCTTCCTGATGAGATACAGAGAAGTGGATTAAAACAAAGAAGCAATCATCTTCCTAATGAAATAC
*
7752 AGAGAAGTAAATCAAATCAATAAAGCGAAGCTCAATATGAATGAGACGTCAAACCCCATCTTCTT
66 AGAGAAGTAAATCAAATCAATAAAGCGAAGCTCAATATGAATGAAACGTCAAACCCCATCTTCTT
* * * * *
7817 GATGAGATACAGAGAAGTGGTTCAAAGTAATAAAGTCATCATCTTTATGATGAGATACAGAGAAG
131 GATGACATACAGAGAAGTGGGTCAAAGCAATAAAGACATCATCTTCATGATGAGATACAGAGAAG
* * * * **
7882 TAGACTAAATCCATCTTTCTGATGAGATATAGAGAAGTGGATTGAAAT-AATGAGGTGGTCATCT
196 TAGACCAAATCCATCTTCCTAATGAGATACAGAGAAGTGGATT-AAATCAATGAAATGGTCATCT
* * * * *
7946 TCCTCATGAGATACAGAGAAGTAGACCAAATCAATGAGGCGAAGCTCAATACGAATGAGATTTCA
260 TCCTCATGAGATACAAAGAAGTAGACCAAATCAATGAAGCGAAACTCAATACGAATGAAACTTCA
* * *
8011 AACCCC-ATCTTCCTGATGAGATACAAAGAAGTGGGTCAAAGCAAAAAAGTGGTCATCTTCCTGA
325 AACCCCTATCTTCCTGATGAGATACAAAGAAGTAGGTCAAAACAAAAAAGCGGTCATCTTCCTGA
8075 CGAGATGCAGAGAAGTGAACCAAATCCG
390 CGAGATGCAGAGAAGTGAACCAAATCCG
* ** * *
8103 TCTTCCTGATGAGATACAGAGAAGTGGATTAAAACAATGAAGCGGTCATCTTCCTGATGAGATAC
1 TCTTCCTGATGAGATACAGAGAAGTGGATTAAAACAAAGAAGCAATCATCTTCCTAATGAAATAC
* * * * *
8168 AGAGAAGTAGA-CAATTCAATGAAGCGAAGCTCAATGT-AATGAAACTTCTAAACCCCATCTT-T
66 AGAGAAGTAAATCAAATCAATAAAGCGAAGCTCAATATGAATGAAACGTC-AAACCCCATCTTCT
* ** * * *
8230 CTGATGACATATAGAGAAGTGGGTCAAAGCAATAAAGAGGTCATCTTCCTGATGAGGTATAGAGA
130 -TGATGACATACAGAGAAGTGGGTCAAAGCAATAAAGACATCATCTTCATGATGAGATACAGAGA
* ** * *
8295 AGTGGACCAAATCTGTCTTCCTAATGAGTTACAGAGAAGTGGATTAAATCAATGAAATGGTCATG
194 AGTAGACCAAATCCATCTTCCTAATGAGATACAGAGAAGTGGATTAAATCAATGAAATGGTCATC
* * * * *
8360 TTCTTGATGAGATACAAAGAAGTAGACCAAATCAATGAAGCGAAACTTAATGCGAGTGAAACTTC
259 TTCCTCATGAGATACAAAGAAGTAGACCAAATCAATGAAGCGAAACTCAATACGAATGAAACTTC
* * *
8425 AAACCCCTATCTTCTTGATGAGATACAAAGAAGTAGGTCAAAATAATAAAGCGGTCATCTTC
324 AAACCCCTATCTTCCTGATGAGATACAAAGAAGTAGGTCAAAACAAAAAAGCGGTCATCTTC
8487 TTGATAAGAT
Statistics
Matches: 328, Mismatches: 52, Indels: 8
0.85 0.13 0.02
Matches are distributed among these distances:
414 14 0.04
415 199 0.61
416 115 0.35
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.24
Consensus pattern (417 bp):
TCTTCCTGATGAGATACAGAGAAGTGGATTAAAACAAAGAAGCAATCATCTTCCTAATGAAATAC
AGAGAAGTAAATCAAATCAATAAAGCGAAGCTCAATATGAATGAAACGTCAAACCCCATCTTCTT
GATGACATACAGAGAAGTGGGTCAAAGCAATAAAGACATCATCTTCATGATGAGATACAGAGAAG
TAGACCAAATCCATCTTCCTAATGAGATACAGAGAAGTGGATTAAATCAATGAAATGGTCATCTT
CCTCATGAGATACAAAGAAGTAGACCAAATCAATGAAGCGAAACTCAATACGAATGAAACTTCAA
ACCCCTATCTTCCTGATGAGATACAAAGAAGTAGGTCAAAACAAAAAAGCGGTCATCTTCCTGAC
GAGATGCAGAGAAGTGAACCAAATCCG
Found at i:9667 original size:16 final size:16
Alignment explanation
Indices: 9648--9697 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
9638 AAACAATAAG
9648 AAAATATTCGAAAATC
1 AAAATATTCGAAAATC
* * **
9664 AAAATAATCTAACAAGG
1 AAAATATTCGAA-AATC
9681 AAAATATTCGAAAATC
1 AAAATATTCGAAAATC
9697 A
1 A
9698 TCAAATAAAC
Statistics
Matches: 25, Mismatches: 8, Indels: 2
0.71 0.23 0.06
Matches are distributed among these distances:
16 13 0.52
17 12 0.48
ACGTcount: A:0.58, C:0.12, G:0.08, T:0.22
Consensus pattern (16 bp):
AAAATATTCGAAAATC
Found at i:9669 original size:33 final size:32
Alignment explanation
Indices: 9632--9706 Score: 80
Period size: 33 Copynumber: 2.2 Consensus size: 32
9622 AAAATAAATG
9632 AAATAAAAACAATAAGAAAATATTCGAAAATCA-
1 AAATAAAAAC-A-AAGAAAATATTCGAAAATCAC
* *
9665 AAATAATCTAACAAGGAAAATATTCGAAAATCATC
1 AAATAA--AAACAAAGAAAATATTCGAAAATCA-C
9700 AAATAAA
1 AAATAAA
9707 CAAACTTCTT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
33 25 0.71
34 1 0.03
35 9 0.26
ACGTcount: A:0.63, C:0.11, G:0.07, T:0.20
Consensus pattern (32 bp):
AAATAAAAACAAAGAAAATATTCGAAAATCAC
Found at i:10877 original size:30 final size:30
Alignment explanation
Indices: 10801--11096 Score: 241
Period size: 30 Copynumber: 10.0 Consensus size: 30
10791 GAGAATACGA
* * *
10801 GTCAAAATGTGATTTTTGAGAAGTTTA-TG
1 GTCAAAATGTGATTTTGGAAAAGTTTAGGG
* * *
10830 GTCATAATGTGATTTTTGGGAAGGTTTAGGG
1 GTCAAAATGTGA-TTTTGGAAAAGTTTAGGG
*
10861 GTCAAAATGTGATTTTGGAAAAGTTTTGGG
1 GTCAAAATGTGATTTTGGAAAAGTTTAGGG
* * * * *
10891 GTTAAAATGTGATTTTTGAGAATTTTAAGG
1 GTCAAAATGTGATTTTGGAAAAGTTTAGGG
* *
10921 GTCAAAATGTAATTTT-GAAAAGTTCTA-GA
1 GTCAAAATGTGATTTTGGAAAAGTT-TAGGG
* * **
10950 GTCAAAATGTAATTATGGAAAAGTTTA-AA
1 GTCAAAATGTGATTTTGGAAAAGTTTAGGG
* *
10979 GTC--AATGT-ATTTTTGGAAATGTTTAGAG
1 GTCAAAATGTGA-TTTTGGAAAAGTTTAGGG
* *
11007 GTTAAAATGTAATTTTGGAAAAGTTT-GAGG
1 GTCAAAATGTGATTTTGGAAAAGTTTAG-GG
* * * *
11037 GTTAAAATATAATTTTGGAAAAGTTTAGGA
1 GTCAAAATGTGATTTTGGAAAAGTTTAGGG
*
11067 GTCAAAATATGATATTTGG-AAAGTTTAGGG
1 GTCAAAATGTGAT-TTTGGAAAAGTTTAGGG
11097 AGCTACTAGA
Statistics
Matches: 221, Mismatches: 34, Indels: 23
0.79 0.12 0.08
Matches are distributed among these distances:
26 1 0.00
27 18 0.08
28 3 0.01
29 40 0.18
30 140 0.63
31 19 0.09
ACGTcount: A:0.35, C:0.03, G:0.25, T:0.38
Consensus pattern (30 bp):
GTCAAAATGTGATTTTGGAAAAGTTTAGGG
Found at i:11727 original size:22 final size:23
Alignment explanation
Indices: 11700--11746 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
11690 GAGTTCGTTA
*
11700 TTATTTTTTA-TTTTCAAATCTG
1 TTATTTTTTAGTTTTAAAATCTG
*
11722 TTATTTTTTAGTTTTAAAATTTG
1 TTATTTTTTAGTTTTAAAATCTG
11745 TT
1 TT
11747 CTTTGTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 10 0.45
23 12 0.55
ACGTcount: A:0.23, C:0.04, G:0.06, T:0.66
Consensus pattern (23 bp):
TTATTTTTTAGTTTTAAAATCTG
Found at i:12660 original size:6 final size:6
Alignment explanation
Indices: 12649--12694 Score: 67
Period size: 6 Copynumber: 7.7 Consensus size: 6
12639 TTTGGACATT
*
12649 TTTAAA TTTAAA TTTAAA TTTAAA -ATAAA TTTAAA TTTAAAA TTTA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTT-AAA TTTA
12695 TTCTATATGG
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
5 4 0.11
6 26 0.72
7 6 0.17
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
TTTAAA
Found at i:12679 original size:17 final size:17
Alignment explanation
Indices: 12657--12691 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
12647 TTTTTAAATT
12657 TAAATTTAAATTTAAAA
1 TAAATTTAAATTTAAAA
12674 TAAATTTAAATTTAAAA
1 TAAATTTAAATTTAAAA
12691 T
1 T
12692 TTATTCTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:13360 original size:85 final size:85
Alignment explanation
Indices: 13222--13378 Score: 242
Period size: 85 Copynumber: 1.8 Consensus size: 85
13212 AATTGGTCTA
* * *
13222 CTTCTCTATATCTCATCAGGAAGATGATCGCTTTATTGATTTAATCCACTTCTCTTTATCTCATC
1 CTTCTCTATATCTCATCAGGAAGATGACCGCTTTATTGATTTAACCCACTTCTCTATATCTCATC
13287 AGGAAGACAAATTTGGTTTT
66 AGGAAGACAAATTTGGTTTT
* * * * *
13307 CTTCTCTGTATCTCATCAGGAAGATGACCTCTTTATTGCTTTGACCCATTTCTCTATATCTCATC
1 CTTCTCTATATCTCATCAGGAAGATGACCGCTTTATTGATTTAACCCACTTCTCTATATCTCATC
13372 AGGAAGA
66 AGGAAGA
13379 TGGGGTTTGG
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
85 64 1.00
ACGTcount: A:0.25, C:0.22, G:0.13, T:0.39
Consensus pattern (85 bp):
CTTCTCTATATCTCATCAGGAAGATGACCGCTTTATTGATTTAACCCACTTCTCTATATCTCATC
AGGAAGACAAATTTGGTTTT
Found at i:13471 original size:209 final size:209
Alignment explanation
Indices: 13090--13939 Score: 1306
Period size: 209 Copynumber: 4.1 Consensus size: 209
13080 GCTTCATCTC
* * *
13090 TTGGTCTACTTCTTTGTATCTCATCAGGAAGATGACCTCTTTTTTGCTTTGACCCATTTCTCTGT
1 TTGGTCTTCTTCTCTGTATCTCATCAGGAAGATGACCTCTTTATTGCTTTGACCCATTTCTCTGT
* * *
13155 ACCTAATCAGGAAGATGAGGTTTGGAAGTTTCACTCACATTGAGCTTCACTTCGTTGAATTGGTC
66 ATCTCATCAGGAAGATGGGGTTTGGAAGTTTCACTCACATTGAGCTTCACTTCGTTGAATTGGTC
* * * *
13220 TACTTCTCTATATCTCATCAGGAAGATGATCGCTTTATTGATTTAATCCACTTCTCTTTATCTCA
131 TACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATTGATTTAATCCACTTCTCTGTATCTCA
13285 TCAGGAAGACAAAT
196 TCAGGAAGACAAAT
* *
13299 TTGGTTTTCTTCTCTGTATCTCATCAGGAAGATGACCTCTTTATTGCTTTGACCCATTTCTCTAT
1 TTGGTCTTCTTCTCTGTATCTCATCAGGAAGATGACCTCTTTATTGCTTTGACCCATTTCTCTGT
* *
13364 ATCTCATCAGGAAGATGGGGTTTGGAAGTTTCACTCACATTGAGCTTCACTTTGTTGTATTGGTC
66 ATCTCATCAGGAAGATGGGGTTTGGAAGTTTCACTCACATTGAGCTTCACTTCGTTGAATTGGTC
* * *
13429 TACTTCTCTGTATCTCGTCAGGAAGATGACCGCTTCATTGATTTAATCCACTTTTCTGTATCTTA
131 TACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATTGATTTAATCCACTTCTCTGTATCTCA
**
13494 TCAGGAAGACGGAT
196 TCAGGAAGACAAAT
* * * *
13508 TTTGTCTTCTTCTCTGTATCTCATCAGGAAGATGACTTCTTTATTGCTTTGGCTCATTTCTCTGT
1 TTGGTCTTCTTCTCTGTATCTCATCAGGAAGATGACCTCTTTATTGCTTTGACCCATTTCTCTGT
* *
13573 ATCTCATCAGGAAGATGGGTTTTGGAAGTTTCACTCACATTGAGTTTCACTTCGTTGAATTGGTC
66 ATCTCATCAGGAAGATGGGGTTTGGAAGTTTCACTCACATTGAGCTTCACTTCGTTGAATTGGTC
* * * *
13638 TACTTCTCTGTATCTCATCAAGAAGACGATCGCTTCATTGATTTAATCCACTTCTTTGTATCTCA
131 TACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATTGATTTAATCCACTTCTCTGTATCTCA
*
13703 TCAGGAAGACAGAT
196 TCAGGAAGACAAAT
* * * *
13717 TTGGTCTTCTTCTCTGTATCACATCAGGAAGATGACCTCTTTATTACTTTTGACACATTTCTTTG
1 TTGGTCTTCTTCTCTGTATCTCATCAGGAAGATGACCTCTTTATTGC-TTTGACCCATTTCTCTG
* *
13782 TATCTCATCAGAAAGATGGGGTTTGGAAGTTTCACTCACATCGAGCTTCACTTCGTTGAATTGGT
65 TATCTCATCAGGAAGATGGGGTTTGGAAGTTTCACTCACATTGAGCTTCACTTCGTTGAATTGGT
* *
13847 CTACTTCTTTGTATCTCATTAAGG-AGATGACCGCTTCATTGATTTAATCCACTTCTCTGTATCT
130 CTACTTCTCTGTATCTCA-TCAGGAAGATGACCGCTTCATTGATTTAATCCACTTCTCTGTATCT
*
13911 CATCAGGAAGACGAAT
194 CATCAGGAAGACAAAT
* *
13927 TTTGTCTACTTCT
1 TTGGTCTTCTTCT
13940 ATTGAGCTTT
Statistics
Matches: 581, Mismatches: 58, Indels: 3
0.90 0.09 0.00
Matches are distributed among these distances:
209 424 0.73
210 154 0.27
211 3 0.01
ACGTcount: A:0.22, C:0.21, G:0.17, T:0.40
Consensus pattern (209 bp):
TTGGTCTTCTTCTCTGTATCTCATCAGGAAGATGACCTCTTTATTGCTTTGACCCATTTCTCTGT
ATCTCATCAGGAAGATGGGGTTTGGAAGTTTCACTCACATTGAGCTTCACTTCGTTGAATTGGTC
TACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATTGATTTAATCCACTTCTCTGTATCTCA
TCAGGAAGACAAAT
Found at i:13574 original size:85 final size:85
Alignment explanation
Indices: 13426--13596 Score: 211
Period size: 85 Copynumber: 2.0 Consensus size: 85
13416 TGTTGTATTG
*
13426 GTCTACTTCTCTGTATCTCGTCAGGAAGATGACCGCTTCATTGATTTAATCCACTTTTCTGTATC
1 GTCTACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATTGATTTAATCCACTTTTCTGTATC
*
13491 TTATCAGGAAGACGGATTTT
66 TCATCAGGAAGACGGATTTT
* ** * * **
13511 GTCTTCTTCTCTGTATCTCATCAGGAAGATGACTTCTTTATTGCTTT-GGCTCA-TTTCTCTGTA
1 GTCTACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATTGATTTAATC-CACTTT-TCTGTA
* *
13574 TCTCATCAGGAAGATGGGTTTT
64 TCTCATCAGGAAGACGGATTTT
13596 G
1 G
13597 GAAGTTTCAC
Statistics
Matches: 73, Mismatches: 11, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
84 4 0.05
85 69 0.95
ACGTcount: A:0.20, C:0.20, G:0.19, T:0.41
Consensus pattern (85 bp):
GTCTACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATTGATTTAATCCACTTTTCTGTATC
TCATCAGGAAGACGGATTTT
Found at i:26019 original size:30 final size:30
Alignment explanation
Indices: 25895--26246 Score: 304
Period size: 30 Copynumber: 11.7 Consensus size: 30
25885 GAGAATACGA
* *
25895 GGTTAAAATGTAATTTTGGAGAAGTTT-AG
1 GGTTAAAATGTAATTTTAGAAAAGTTTAAG
* * * * * **
25924 GGTCAAAATATGATTTTTAGGAAGGTTTGGG
1 GGTTAAAATGT-AATTTTAGAAAAGTTTAAG
* * * **
25955 GGTCAAAATGTGATTTAAGAGAAA-TTTGGG
1 GGTTAAAATGTAATTTTAGA-AAAGTTTAAG
* *
25985 GGTTAAAATGTAATTTTAGAAAGGTTTAAA
1 GGTTAAAATGTAATTTTAGAAAAGTTTAAG
* * *
26015 GGTTAAAATATGATTTTAGAGAAGTTTAAG
1 GGTTAAAATGTAATTTTAGAAAAGTTTAAG
*
26045 GGTTAAAATGAAATTTTA-AAGAAGTTT-AG
1 GGTTAAAATGTAATTTTAGAA-AAGTTTAAG
* * *
26074 AGGTTAAAATGCAATTTTGGAAAAGTTTAGG
1 -GGTTAAAATGTAATTTTAGAAAAGTTTAAG
* *
26105 GGTTAAAATGTAATCTTAGAGAAGTTT-AG
1 GGTTAAAATGTAATTTTAGAAAAGTTTAAG
*
26134 GGTTAAAATGCAATTTT-GAAAAAGTTTAAG
1 GGTTAAAATGTAATTTTAG-AAAAGTTTAAG
26164 GGTTAAAATGTAATTTTAGAAAAGTTTAAG
1 GGTTAAAATGTAATTTTAGAAAAGTTTAAG
** * *
26194 GGTCGAAATATAATTTT-GAAGAAGTTGAAG
1 GGTTAAAATGTAATTTTAGAA-AAGTTTAAG
* *
26224 GGTTAAAATATGATTTTTAGAAA
1 GGTTAAAATGT-AATTTTAGAAA
26247 GTTCAGTGAC
Statistics
Matches: 260, Mismatches: 49, Indels: 26
0.78 0.15 0.08
Matches are distributed among these distances:
28 1 0.00
29 40 0.15
30 193 0.74
31 23 0.09
32 3 0.01
ACGTcount: A:0.39, C:0.02, G:0.24, T:0.35
Consensus pattern (30 bp):
GGTTAAAATGTAATTTTAGAAAAGTTTAAG
Found at i:26970 original size:22 final size:21
Alignment explanation
Indices: 26922--26970 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
26912 TTCCTTATAA
* * *
26922 TTTTTTTATTTTCAGATCTGT
1 TTTTTTTATTTTAAAATCTAT
26943 TATTTTTTAGTTTTAAAATCTAT
1 T-TTTTTTA-TTTTAAAATCTAT
26966 TTTTT
1 TTTTT
26971 CTTTTTTGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 1 0.04
22 11 0.48
23 11 0.48
ACGTcount: A:0.20, C:0.06, G:0.06, T:0.67
Consensus pattern (21 bp):
TTTTTTTATTTTAAAATCTAT
Found at i:28290 original size:30 final size:30
Alignment explanation
Indices: 28249--28361 Score: 147
Period size: 30 Copynumber: 3.8 Consensus size: 30
28239 GAGGTCCCTG
* **
28249 AACTTTTCCAAAATTACATTTTGACCTTTT
1 AACTTTTCCAAAATTACATTTTGACCCTCA
*
28279 AACTCTTCCAAAATTACATTTTGACCCTCA
1 AACTTTTCCAAAATTACATTTTGACCCTCA
* *
28309 AACTTTTCTAAAATTGCATTTTGACACC-CA
1 AACTTTTCCAAAATTACATTTTGAC-CCTCA
*
28339 AACTTTGCCAAAATTACATTTTG
1 AACTTTTCCAAAATTACATTTTG
28362 CCTCGAAATT
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
30 70 0.97
31 2 0.03
ACGTcount: A:0.33, C:0.23, G:0.05, T:0.39
Consensus pattern (30 bp):
AACTTTTCCAAAATTACATTTTGACCCTCA
Found at i:40415 original size:4 final size:4
Alignment explanation
Indices: 40399--40433 Score: 61
Period size: 4 Copynumber: 8.8 Consensus size: 4
40389 GTGTTTTTTT
*
40399 ATAC ATGC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
40434 TATATATATA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.49, C:0.23, G:0.03, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:40438 original size:2 final size:2
Alignment explanation
Indices: 40431--40466 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
40421 ACATACATAC
*
40431 AT AT AT AT AT AT AT AT AC AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
40467 GTATGTATGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Done.