Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000810.1 Hibiscus syriacus cultivar Beakdansim tig00001570_pilon, 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: 56847
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Found at i:676 original size:118 final size:118
Alignment explanation
Indices: 452--691 Score: 387
Period size: 118 Copynumber: 2.0 Consensus size: 118
442 TTTTTCTTCC
452 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCGCT
517 AATAAAACGGTATCTTATACCGGTTATATTACAAAATTATCTAGTACATTATA
66 AATAAAACGGTATCTTATACCGGTTATATTACAAAATTATCTAGTACATTATA
*
570 ATTCTGGACATAAAGTACCGACACAA-A-TAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCGCT
* * * *
633 CATAAAACCGGTATATTTATACCGGTTTATATTTCAAAA-TATCTATTACATTATA
66 AATAAAA-CGGTAT-CTTATACCGG-TTATATTACAAAATTATCTAGTACATTATA
688 ATTC
1 ATTC
692 GGGTTCCGAT
Statistics
Matches: 114, Mismatches: 5, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
116 41 0.36
117 7 0.06
118 54 0.47
119 12 0.11
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.33
Consensus pattern (118 bp):
ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCGCT
AATAAAACGGTATCTTATACCGGTTATATTACAAAATTATCTAGTACATTATA
Found at i:879 original size:181 final size:181
Alignment explanation
Indices: 570--1051 Score: 772
Period size: 181 Copynumber: 2.7 Consensus size: 181
560 GTACATTATA
570 ATTCTGGACATAAAGTACCGACACAA-A-TAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
633 CATAAAACCGGTATATTTATACCGGTTTATATTTCAAAA-TATCTATTACATTATAATTC-GGGT
66 CATAAAACCGG-ATATTTATACCGG-TTATATTT-AAAATTATCTATTACATTATAATTCTGGGT
696 TCCGATGTGTAAATGTCGA-CACTTTTTGACAAGGTATCGACACA-TTTTCTTCC
128 TCCGATGTGTAAATGTCGACCAC-TTTTGACAAGGTATCGACACATTTTTCTTCC
*
749 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTATACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
814 CATAAAACCGGATATTTATACCGGTTATATTATAAAATTATCTATTACATTATAATTCTGGGTTC
66 CATAAAACCGGATATTTATACCGGTTATATT-TAAAATTATCTATTACATTATAATTCTGGGTTC
879 CGATGTGTAAATGTCGACCACTTTTGACAAGGTATCGACACATTTTTCTTCC
130 CGATGTGTAAATGTCGACCACTTTTGACAAGGTATCGACACATTTTTCTTCC
*
931 ATTCTGGACATAAAGTACC-ACACAATATTAAAAAGTGTCGACATAGG-T-TAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
* * *
993 AATAAAACTGG-TATTCTTATA-CGGTTATA-TTAAAATTATCTAGTACATTATAATTCTGG
66 CATAAAACCGGATA-T-TTATACCGGTTATATTTAAAATTATCTATTACATTATAATTCTGG
1052 TACGACACAA
Statistics
Matches: 288, Mismatches: 6, Indels: 20
0.92 0.02 0.06
Matches are distributed among these distances:
177 28 0.10
178 3 0.01
179 68 0.24
180 41 0.14
181 117 0.41
182 31 0.11
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (181 bp):
ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
CATAAAACCGGATATTTATACCGGTTATATTTAAAATTATCTATTACATTATAATTCTGGGTTCC
GATGTGTAAATGTCGACCACTTTTGACAAGGTATCGACACATTTTTCTTCC
Found at i:1099 original size:287 final size:280
Alignment explanation
Indices: 767--1328 Score: 845
Period size: 277 Copynumber: 2.0 Consensus size: 280
757 CATAAAGTAC
* *
767 CGACACAATATTAAAAAGTGTCGATATAGGTTGTATACCTATTCGCTCATAAAACCGG-ATATTT
1 CGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAA-CGGTATATTT
831 ATACCGGTTATATTAT-AAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCG
65 ATA-CGGTTATATT-TCAAAATTATCTATTACA-T-TAA-------TTCCGATGTGTAAATGTCG
895 ACCAC-TTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACC-ACACAATA
119 A-CACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATA
* *
958 TTAAAAAGTGTCGACATAGG-T-TAGACCTATTCGCTAATAAAACTGGTAT-TCTTATA-CGGTT
183 TTAAAAAGTGTCGACATAGGTTGTAGACC--TTCGCTAATAAAACCGGTATAT-TTATACCGATT
1019 ATATT-AAAATTATCTAGTACATTATAATTCTGGTA
245 ATATTAAAAATTATCTAGTACATTATAATTCTGGTA
1054 CGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACGGTATATTTA
1 CGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACGGTATATTTA
1119 TACGGTTATATTTCAAAATTATCTATTACATTAATTCCGATGTGTAAATGTCGACACTTTTTGAC
66 TACGGTTATATTTCAAAATTATCTATTACATTAATTCCGATGTGTAAATGTCGACACTTTTTGAC
1184 AAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCG
131 AAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCG
* *
1249 ATATAGGTTGTAGACCTTCGCTCATAAAACCGGTATATTTATACCGATTATATTACAAAATTATC
196 ACATAGGTTGTAGACCTTCGCTAATAAAACCGGTATATTTATACCGATTATATTA-AAAATTATC
*
1314 TATTACATTATAATT
260 TAGTACATTATAATT
1329 ATGGGTTCTG
Statistics
Matches: 258, Mismatches: 7, Indels: 26
0.89 0.02 0.09
Matches are distributed among these distances:
276 3 0.01
277 70 0.27
278 50 0.19
279 11 0.04
280 6 0.02
281 23 0.09
284 3 0.01
285 2 0.01
286 29 0.11
287 61 0.24
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (280 bp):
CGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACGGTATATTTA
TACGGTTATATTTCAAAATTATCTATTACATTAATTCCGATGTGTAAATGTCGACACTTTTTGAC
AAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCG
ACATAGGTTGTAGACCTTCGCTAATAAAACCGGTATATTTATACCGATTATATTAAAAATTATCT
AGTACATTATAATTCTGGTA
Found at i:1289 original size:458 final size:470
Alignment explanation
Indices: 290--1427 Score: 1813
Period size: 458 Copynumber: 2.4 Consensus size: 470
280 TTAAAATTAG
*
290 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGATATATTT
1 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACC-ATTCGCTCATAAAACCGGTATATTT
*
355 ATACCGGTTATATTACAAA-TATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGA-
65 ATACCGGTTATATTAAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGAC
418 CACTTTTTGAC-AGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATT
130 CAC-TTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATT
482 AAAAAGTGTCGACATAGGTTGTAGACCTATTCGCTAATAAAACGGTATCTTATACCGGTTATATT
194 AAAAAGTGTCGACATAGGTTGTAGACCTATTCGCTAATAAAACGGTATCTTATACCGGTTATATT
547 ACAAAATTATCTAGTACATTATAATTCTGGACATAAAGTACCGACACAAATAAAAAGTGTCGATA
259 A-AAAATTATCTAGTACATTATAATTCTGG--ATAAAGTACCGACACAAATAAAAAGTGTCGATA
612 TAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTTTATATTTCAAAATATCT
321 TAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTTTATATTTCAAAATATCT
677 ATTACATTATAATTCGGGTTCCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACATT
386 ATTACATTATAA-----GTTCCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACATT
742 TTCTTCCATTCTGGACATAAAGTAC
446 TTCTTCCATTCTGGACATAAAGTAC
*
767 CGACACAATATTAAAAAGTGTCGATATAGGTTGTATACCTATTCGCTCATAAAACCGG-ATATTT
1 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACC-ATTCGCTCATAAAACCGGTATATTT
831 ATACCGGTTATATTATAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGA
65 ATACCGGTTATATTA-AAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGA
896 CCACTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACC-ACACAATATT
129 CCACTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATT
960 AAAAAGTGTCGACATAGG-T-TAGACCTATTCGCTAATAAAACTGGTATTCTTATA-CGGTTATA
194 AAAAAGTGTCGACATAGGTTGTAGACCTATTCGCTAATAAAAC-GGTA-TCTTATACCGGTTATA
*
1022 TT-AAAATTATCTAGTACATTATAATTCTGG-T-ACG-A-C-ACA-AAATTAAAAAGTGTCGATA
257 TTAAAAATTATCTAGTACATTATAATTCTGGATAAAGTACCGACACAAA-TAAAAAGTGTCGATA
1080 TAGGTTGTAGACCTATTCGCTCATAAAA-CGGTATATTTATA-CGG-TTATATTTCAAAATTATC
321 TAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTTTATATTTCAAAA-TATC
1142 TATTACA-T-TAA-TTCCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTC
385 TATTACATTATAAGTTCCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACA-TTTTC
1204 TTCCATTCTGGACATAAAGTAC
449 TTCCATTCTGGACATAAAGTAC
1226 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACC-TTCGCTCATAAAACCGGTATATTTA
1 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCATTCGCTCATAAAACCGGTATATTTA
* * * * *
1290 TACCGATTATATTACAAAATTATCTATTACATTATAATTATGGGTTCTGATGTTTTTTCAA--TC
66 TACCGGTTATATTA-AAAATTATCTATTACATTATAATTCTGGGTTCCGATG---TGTAAATGTC
* *
1353 G-CCACTTTTGAAAAGGTATCGACACATTTTTCTTCCATTCTTGACATAAAGTACCGACACAATA
127 GACCACTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATA
1417 TTAAAAAGTGT
192 TTAAAAAGTGT
1428 GAAAACTTTG
Statistics
Matches: 634, Mismatches: 13, Indels: 46
0.91 0.02 0.07
Matches are distributed among these distances:
457 17 0.03
458 152 0.24
459 87 0.14
461 4 0.01
464 3 0.00
465 14 0.02
466 14 0.02
467 16 0.03
468 46 0.07
469 1 0.00
470 1 0.00
471 2 0.00
472 1 0.00
475 28 0.04
476 43 0.07
477 74 0.12
478 86 0.14
479 45 0.07
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (470 bp):
CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCATTCGCTCATAAAACCGGTATATTTA
TACCGGTTATATTAAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGACC
ACTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATTAA
AAAGTGTCGACATAGGTTGTAGACCTATTCGCTAATAAAACGGTATCTTATACCGGTTATATTAA
AAATTATCTAGTACATTATAATTCTGGATAAAGTACCGACACAAATAAAAAGTGTCGATATAGGT
TGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTTTATATTTCAAAATATCTATTAC
ATTATAAGTTCCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTCTTCCATT
CTGGACATAAAGTAC
Found at i:2635 original size:6 final size:6
Alignment explanation
Indices: 2624--2685 Score: 70
Period size: 6 Copynumber: 10.3 Consensus size: 6
2614 ACTTGTTTGG
* * * *
2624 ATCATC ATCATC ATCATC ATCATC ATCGTC ATCGTC ATCTTC ATCGTC
1 ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC
* *
2672 ATCTTC ATCGTC AT
1 ATCATC ATCATC AT
2686 TGACCGCTTG
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 51 1.00
ACGTcount: A:0.24, C:0.32, G:0.06, T:0.37
Consensus pattern (6 bp):
ATCATC
Found at i:2641 original size:12 final size:12
Alignment explanation
Indices: 2624--2685 Score: 79
Period size: 12 Copynumber: 5.2 Consensus size: 12
2614 ACTTGTTTGG
*
2624 ATCATCATCATC
1 ATCATCATCGTC
*
2636 ATCATCATCATC
1 ATCATCATCGTC
*
2648 ATCGTCATCGTC
1 ATCATCATCGTC
*
2660 ATCTTCATCGTC
1 ATCATCATCGTC
*
2672 ATCTTCATCGTC
1 ATCATCATCGTC
2684 AT
1 AT
2686 TGACCGCTTG
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 47 1.00
ACGTcount: A:0.24, C:0.32, G:0.06, T:0.37
Consensus pattern (12 bp):
ATCATCATCGTC
Found at i:2647 original size:18 final size:18
Alignment explanation
Indices: 2624--2685 Score: 79
Period size: 18 Copynumber: 3.4 Consensus size: 18
2614 ACTTGTTTGG
*
2624 ATCATCATCATCATCATC
1 ATCATCATCGTCATCATC
*
2642 ATCATCATCGTCATCGTC
1 ATCATCATCGTCATCATC
* *
2660 ATCTTCATCGTCATCTTC
1 ATCATCATCGTCATCATC
*
2678 ATCGTCAT
1 ATCATCAT
2686 TGACCGCTTG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 39 1.00
ACGTcount: A:0.24, C:0.32, G:0.06, T:0.37
Consensus pattern (18 bp):
ATCATCATCGTCATCATC
Found at i:4484 original size:200 final size:200
Alignment explanation
Indices: 4141--4904 Score: 1289
Period size: 200 Copynumber: 3.8 Consensus size: 200
4131 AACATTAAAC
* * *
4141 AGTGTCGATACA-TATTATATACCA-ATTCTCCCATAAAACCGGTATACTTATACCGGTTAGATT
1 AGTGTCGATACATTATT-TAGA-CATATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATT
* * *
4204 GCAAAATTACCTAATACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTTATATA
64 GAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATA
4269 TGGATCGACACTTTATGGTTGCACCATGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAA
129 TGGATCGACACTTTATGGTTGCACCATGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAA
4334 CTACAAA
194 CTACAAA
* * * *
4341 AGTGTCGACACATTATTTAGGCCTATTCTCTCATAAAACCGGTATACTTGTACGGGTTAGATTGA
1 AGTGTCGATACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
4406 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
66 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
* *
4471 GATCGACACTTTATTGTTGCACCATATTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
131 GATCGACACTTTATGGTTGCACCATGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
4536 ACAAA
196 ACAAA
*
4541 AGTGTCGATACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACGGGTTAGATTGA
1 AGTGTCGATACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
*
4606 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATTGGATCGACACTTTTTATATATG
66 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
* * * *
4671 GATCGACACTTTATTGTTGCACCCTGTTTGTCATTCATTCTTGACCAAAAATATCGACACAAACT
131 GATCGACACTTTATGGTTGCACCATGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
4736 ACAAA
196 ACAAA
*
4741 AGTGTCGATACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGATTAGATTGA
1 AGTGTCGATACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
* * *
4806 AAAACTACCTATTACATTATACTTTTGGGTTTCGATGTTTATGTGATCGACACTTTTTATATATG
66 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
*
4871 GATCGACACTTTATGGTTGCACCCTGTTTGCCAT
131 GATCGACACTTTATGGTTGCACCATGTTTGCCAT
4905 ATTGTAAATT
Statistics
Matches: 534, Mismatches: 28, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
199 1 0.00
200 529 0.99
201 4 0.01
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.36
Consensus pattern (200 bp):
AGTGTCGATACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
GATCGACACTTTATGGTTGCACCATGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
ACAAA
Found at i:5149 original size:18 final size:18
Alignment explanation
Indices: 5126--5186 Score: 59
Period size: 19 Copynumber: 3.3 Consensus size: 18
5116 TCTCATTCAT
*
5126 AATTATATTCACATACAA
1 AATTATAATCACATACAA
**
5144 AATTATAAATCGTATACAA
1 AATTAT-AATCACATACAA
**
5163 AATTATAAATCTTATACAA
1 AATTAT-AATCACATACAA
5182 AATTA
1 AATTA
5187 ACCCTACATT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
18 6 0.16
19 32 0.84
ACGTcount: A:0.52, C:0.11, G:0.02, T:0.34
Consensus pattern (18 bp):
AATTATAATCACATACAA
Found at i:5162 original size:19 final size:19
Alignment explanation
Indices: 5138--5186 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
5128 TTATATTCAC
5138 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
5157 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
5176 ATACAAAATTA
1 ATACAAAATTA
5187 ACCCTACATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:7015 original size:33 final size:33
Alignment explanation
Indices: 6978--7043 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
6968 CATCTTAATA
*
6978 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* * *
7011 TCACCCCTCAACACCTCTACTTTTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
7044 CCATCTATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.23, C:0.47, G:0.00, T:0.30
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:7101 original size:21 final size:21
Alignment explanation
Indices: 7076--7117 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
7066 CCCCTTATGC
7076 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
* *
7097 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
7118 TTAATATCAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.17, C:0.31, G:0.12, T:0.40
Consensus pattern (21 bp):
CTCTCAAGTGTATCTTCGACT
Found at i:7184 original size:33 final size:33
Alignment explanation
Indices: 7124--7189 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
7114 GACTTTAATA
*
7124 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* * * *
7157 TCACTCCTCAACACCTCTACTTTTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
7190 CCATCTATTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.23, C:0.45, G:0.00, T:0.32
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:7248 original size:21 final size:21
Alignment explanation
Indices: 7223--7287 Score: 94
Period size: 21 Copynumber: 3.1 Consensus size: 21
7213 CCCCTTATGC
* *
7223 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
*
7244 CTCTCAAGTTTCTATTCGACT
1 CTCTCAAGTTTCTCTTCGACT
*
7265 CTATCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
7286 CT
1 CT
7288 TGATTGTCTT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.18, C:0.29, G:0.11, T:0.42
Consensus pattern (21 bp):
CTCTCAAGTTTCTCTTCGACT
Found at i:9550 original size:20 final size:19
Alignment explanation
Indices: 9504--9550 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
9494 TCCGGTATCG
*
9504 TTTTATCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
9523 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
9544 TTTTACC
1 TTTTACC
9551 TGTTATATCG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.19, C:0.15, G:0.11, T:0.55
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:10879 original size:21 final size:21
Alignment explanation
Indices: 10836--10875 Score: 66
Period size: 19 Copynumber: 2.0 Consensus size: 21
10826 TTTTTCTATC
10836 AATTTAATCACAATTTAATTT
1 AATTTAATCACAATTTAATTT
10857 AATTTAAT-A-AATTTAATTT
1 AATTTAATCACAATTTAATTT
10876 TTAAATTGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.53
20 1 0.05
21 8 0.42
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (21 bp):
AATTTAATCACAATTTAATTT
Found at i:12647 original size:31 final size:31
Alignment explanation
Indices: 12612--12682 Score: 142
Period size: 31 Copynumber: 2.3 Consensus size: 31
12602 CGAATTGAAG
12612 GATTAAATTTATTTAATTGAATTAAAATAAT
1 GATTAAATTTATTTAATTGAATTAAAATAAT
12643 GATTAAATTTATTTAATTGAATTAAAATAAT
1 GATTAAATTTATTTAATTGAATTAAAATAAT
12674 GATTAAATT
1 GATTAAATT
12683 AATATAATGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (31 bp):
GATTAAATTTATTTAATTGAATTAAAATAAT
Found at i:12684 original size:17 final size:17
Alignment explanation
Indices: 12631--12703 Score: 62
Period size: 17 Copynumber: 4.4 Consensus size: 17
12621 TATTTAATTG
12631 AATTAAAATAATGATTA
1 AATTAAAATAATGATTA
* * * *
12648 AATT--TAT-TTAATTG
1 AATTAAAATAATGATTA
12662 AATTAAAATAATGATTA
1 AATTAAAATAATGATTA
*
12679 AATTAATATAATGTATTA
1 AATTAAAATAATG-ATTA
12697 ATATTAA
1 A-ATTAA
12704 GAGAAAATCG
Statistics
Matches: 42, Mismatches: 9, Indels: 8
0.71 0.15 0.14
Matches are distributed among these distances:
14 8 0.19
15 2 0.05
16 2 0.05
17 20 0.48
18 5 0.12
19 5 0.12
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.42
Consensus pattern (17 bp):
AATTAAAATAATGATTA
Found at i:12937 original size:20 final size:21
Alignment explanation
Indices: 12912--12963 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
12902 TTTTCCCAAT
*
12912 TCGCAATGCGAAT-AAGTAAA
1 TCGCAATGCGAATCAAGAAAA
* **
12932 TCGCAACGCGAATCGGGAAAA
1 TCGCAATGCGAATCAAGAAAA
12953 TCGCAATGCGA
1 TCGCAATGCGA
12964 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 12 0.46
21 14 0.54
ACGTcount: A:0.38, C:0.21, G:0.25, T:0.15
Consensus pattern (21 bp):
TCGCAATGCGAATCAAGAAAA
Found at i:12977 original size:20 final size:20
Alignment explanation
Indices: 12952--13065 Score: 104
Period size: 20 Copynumber: 5.7 Consensus size: 20
12942 AATCGGGAAA
*
12952 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
12972 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTGACT
* * *
12992 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
* *
13013 ATCGCAACGAGATACTGCCT
1 ATCGCAACGCGATACTGACT
* *
13033 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
13053 TTCGCAACGCGAT
1 ATCGCAACGCGAT
13066 TTACATAGCG
Statistics
Matches: 79, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
19 2 0.03
20 63 0.80
21 13 0.16
22 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:12996 original size:61 final size:59
Alignment explanation
Indices: 12931--13064 Score: 135
Period size: 61 Copynumber: 2.2 Consensus size: 59
12921 GAATAAGTAA
* * * *
12931 ATCGCAACGCGAAT-CGGGAAAATCGCAATGCGATACTGACTATCGCAATGCGATACTTACT
1 ATCGCAACGCGAATAC---AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACT
* * * *
12992 ATCGCAATGCGATAATACAAAATCGCAACGAGATACTGCCTTTCGCAACGCGATTCTGACT
1 ATCGCAACGCG--AATACAAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACT
*
13053 TTCGCAACGCGA
1 ATCGCAACGCGA
13065 TTTACATAGC
Statistics
Matches: 60, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
59 1 0.02
61 55 0.92
63 3 0.05
64 1 0.02
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (59 bp):
ATCGCAACGCGAATACAAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACT
Found at i:13065 original size:61 final size:61
Alignment explanation
Indices: 12949--13065 Score: 153
Period size: 61 Copynumber: 1.9 Consensus size: 61
12939 GCGAATCGGG
* * * * *
12949 AAAATCGCAATGCGATACTGACTATCGCAATGCGATACTTACTATCGCAATGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
* * * *
13010 AAAATCGCAACGAGATACTGCCTTTCGCAACGCGATTCTGACTTTCGCAACGCGAT
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGAT
13066 TTACATAGCG
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
61 47 1.00
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (61 bp):
AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
Found at i:13610 original size:20 final size:19
Alignment explanation
Indices: 13585--13636 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
13575 AAGAATGAAA
13585 ATCGCAACGCGGAAATAACT
1 ATCGCAACGC-GAAATAACT
**
13605 ATCGCAACGCGAAATAAAA
1 ATCGCAACGCGAAATAACT
13624 ATCGC-ACGCGAAA
1 ATCGCAACGCGAAA
13637 CCAAAATCGC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 8 0.27
19 12 0.40
20 10 0.33
ACGTcount: A:0.44, C:0.25, G:0.19, T:0.12
Consensus pattern (19 bp):
ATCGCAACGCGAAATAACT
Found at i:13634 original size:18 final size:19
Alignment explanation
Indices: 13582--13647 Score: 80
Period size: 18 Copynumber: 3.5 Consensus size: 19
13572 TTCAAGAATG
13582 AAAATCGCAACGCGGAAATA
1 AAAATCGCAACGC-GAAATA
**
13602 ACTATCGCAACGCGAAATA
1 AAAATCGCAACGCGAAATA
**
13621 AAAATCGC-ACGCGAAACC
1 AAAATCGCAACGCGAAATA
13639 AAAATCGCA
1 AAAATCGCA
13648 TTGCGATTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
18 16 0.41
19 12 0.31
20 11 0.28
ACGTcount: A:0.47, C:0.26, G:0.17, T:0.11
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATA
Found at i:13665 original size:19 final size:19
Alignment explanation
Indices: 13643--13768 Score: 92
Period size: 19 Copynumber: 7.1 Consensus size: 19
13633 GAAACCAAAA
*
13643 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
13662 TCGCGTTACGATTTTCATT
1 TCGCGTTGCGATTTTCATT
13681 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * **
13695 TCTCGTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
13714 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* *
13728 TCTCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATT
*
13747 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
13767 TC
1 TC
13769 AACCAAAAGA
Statistics
Matches: 84, Mismatches: 12, Indels: 22
0.71 0.10 0.19
Matches are distributed among these distances:
14 19 0.23
16 4 0.05
17 5 0.06
19 38 0.45
20 18 0.21
ACGTcount: A:0.13, C:0.25, G:0.19, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:13718 original size:33 final size:33
Alignment explanation
Indices: 13676--13760 Score: 125
Period size: 33 Copynumber: 2.5 Consensus size: 33
13666 GTTACGATTT
*
13676 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAC
* *
13709 TCATTTCGCGTTGCGATTCTCTCGTTGCGATTC
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAC
*
13742 TCATTATCTCGTTGCGATT
1 TCATT-TCGCGTTGCGATT
13761 TTCATTTCAA
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 35 0.74
34 12 0.26
ACGTcount: A:0.12, C:0.26, G:0.21, T:0.41
Consensus pattern (33 bp):
TCATTTCGCGTTGCGATTCTCTCGTCGCGATAC
Found at i:13734 original size:14 final size:14
Alignment explanation
Indices: 13684--13743 Score: 57
Period size: 14 Copynumber: 3.9 Consensus size: 14
13674 TTTCATTTCG
13684 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
* *
13698 CGTCGCGATAGTCATTTCG
1 CGTTGCGAT--TC---TCT
13717 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
13731 CGTTGCGATTCTC
1 CGTTGCGATTCTC
13744 ATTATCTCGT
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
14 23 0.62
16 2 0.05
17 2 0.05
19 10 0.27
ACGTcount: A:0.10, C:0.28, G:0.23, T:0.38
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:13753 original size:20 final size:20
Alignment explanation
Indices: 13728--13766 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
13718 GTTGCGATTC
13728 TCTCGTTGCGATTCTCATTA
1 TCTCGTTGCGATTCTCATTA
*
13748 TCTCGTTGCGATTTTCATT
1 TCTCGTTGCGATTCTCATT
13767 TCAACCAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.13, C:0.23, G:0.15, T:0.49
Consensus pattern (20 bp):
TCTCGTTGCGATTCTCATTA
Found at i:15914 original size:21 final size:21
Alignment explanation
Indices: 15890--16005 Score: 62
Period size: 21 Copynumber: 5.5 Consensus size: 21
15880 CCTATCGTTG
15890 AAGAGGCCCCTATCATTCCTC
1 AAGAGGCCCCTATCATTCCTC
* **
15911 AAGAGTCCCCTCCCA--CCATTC
1 AAGAGGCCCCTATCATTCC--TC
* *
15932 AAGAGGCCACTATCATCCCTC
1 AAGAGGCCCCTATCATTCCTC
* * *
15953 AAGAGTCCACTCCTATC-GT--TG
1 AAGAG-GC-C-CCTATCATTCCTC
15974 AAGAGGCCCCTATCATTCCTC
1 AAGAGGCCCCTATCATTCCTC
* *
15995 GAGAGTCCCCT
1 AAGAGGCCCCT
16006 CCCACCGTTC
Statistics
Matches: 68, Mismatches: 17, Indels: 20
0.65 0.16 0.19
Matches are distributed among these distances:
18 6 0.09
19 4 0.06
20 1 0.01
21 48 0.71
22 1 0.01
23 3 0.04
24 5 0.07
ACGTcount: A:0.24, C:0.38, G:0.16, T:0.22
Consensus pattern (21 bp):
AAGAGGCCCCTATCATTCCTC
Found at i:15936 original size:42 final size:42
Alignment explanation
Indices: 15860--16031 Score: 209
Period size: 42 Copynumber: 4.1 Consensus size: 42
15850 GACTCGCCTG
* * * * * *
15860 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATTCCTCAAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
*
15902 TCATTCCTCAAGAGTCCCCTCCCACCATTCAAGAGGCCACTA
1 TCATTCCTCAAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
* * * * * *
15944 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATTCCTCAAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
* *
15986 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATTCCTCAAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
16028 TCAT
1 TCAT
16032 CGTTGAAGAG
Statistics
Matches: 108, Mismatches: 22, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 108 1.00
ACGTcount: A:0.23, C:0.38, G:0.16, T:0.23
Consensus pattern (42 bp):
TCATTCCTCAAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
Found at i:16041 original size:84 final size:84
Alignment explanation
Indices: 15860--16032 Score: 319
Period size: 84 Copynumber: 2.1 Consensus size: 84
15850 GACTCGCCTG
15860 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCAAGAGTCCCCTCCC
1 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCAAGAGTCCCCTCCC
15925 ACCATTCAAGAGGCCACTA
66 ACCATTCAAGAGGCCACTA
*
15944 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCTCCC
1 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCAAGAGTCCCCTCCC
* *
16009 ACCGTTCAAGAGGCCACTG
66 ACCATTCAAGAGGCCACTA
16028 TCATC
1 TCATC
16033 GTTGAAGAGG
Statistics
Matches: 86, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
84 86 1.00
ACGTcount: A:0.23, C:0.38, G:0.16, T:0.23
Consensus pattern (84 bp):
TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCAAGAGTCCCCTCCC
ACCATTCAAGAGGCCACTA
Found at i:16048 original size:42 final size:41
Alignment explanation
Indices: 15890--16061 Score: 152
Period size: 42 Copynumber: 4.1 Consensus size: 41
15880 CCTATCGTTG
* *
15890 AAGAGGCCCCTATCATTCC-TCAAGAGTCCCCTCCCACCATTC
1 AAGAGGCCACTATCA-TCCTTGAAGAGT-CCCTCCCACCATTC
* * * * * *
15932 AAGAGGCCACTATCATCCCTCAAGAGTCCACTCCTATCGTTG
1 AAGAGGCCACTATCATCCTTGAAGAGTCC-CTCCCACCATTC
* * *
15974 AAGAGGCCCCTATCATTCCTCG-AGAGTCCCCTCCCACCGTTC
1 AAGAGGCCACTATCA-TCCTTGAAGAGT-CCCTCCCACCATTC
* *
16016 AAGAGGCCACTGTCATCGTTGAAGAGGTCCCT-CCACCATTC
1 AAGAGGCCACTATCATCCTTGAAGA-GTCCCTCCCACCATTC
16057 AAGAG
1 AAGAG
16062 CCCGATTCAA
Statistics
Matches: 107, Mismatches: 17, Indels: 13
0.78 0.12 0.09
Matches are distributed among these distances:
41 22 0.21
42 78 0.73
43 7 0.07
ACGTcount: A:0.24, C:0.37, G:0.17, T:0.22
Consensus pattern (41 bp):
AAGAGGCCACTATCATCCTTGAAGAGTCCCTCCCACCATTC
Found at i:17422 original size:13 final size:14
Alignment explanation
Indices: 17406--17440 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
17396 ATTGTTTAAT
17406 TGATTTGT-AAAGG
1 TGATTTGTAAAAGG
*
17419 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
17433 TGATTTGT
1 TGATTTGT
17441 TTAATTAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.29, C:0.00, G:0.26, T:0.46
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:17645 original size:33 final size:33
Alignment explanation
Indices: 17603--17729 Score: 168
Period size: 33 Copynumber: 3.8 Consensus size: 33
17593 ATTAAATTCG
17603 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
* **
17636 CGTTGCGATTTTCATTTCGCATTACGAAATTAGCT
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCCCT
* *
17671 --TTGCGATTTTCATTTCGCATTGTGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
*
17702 CATTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
17730 AGTAATTTCC
Statistics
Matches: 82, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
31 5 0.06
33 72 0.88
35 5 0.06
ACGTcount: A:0.17, C:0.22, G:0.17, T:0.44
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
Found at i:17688 original size:66 final size:66
Alignment explanation
Indices: 17596--17724 Score: 213
Period size: 66 Copynumber: 2.0 Consensus size: 66
17586 ACGCGAAATT
* *
17596 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTAC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCATTGCGATTTTCATTTCGCATTAC
17661 G
66 G
* * *
17662 AAATTAGCTTTGCGATTTTCATTTCGCATTGTGATTCTCTCATTGCGATTTTCATTTCGCATT
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCATTGCGATTTTCATTTCGCATT
17725 GCGATAGTAA
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
66 58 1.00
ACGTcount: A:0.18, C:0.22, G:0.16, T:0.44
Consensus pattern (66 bp):
AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCATTGCGATTTTCATTTCGCATTAC
G
Found at i:17726 original size:19 final size:19
Alignment explanation
Indices: 17599--17729 Score: 76
Period size: 19 Copynumber: 7.7 Consensus size: 19
17589 CGAAATTAAA
*
17599 TTCGCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
*
17618 TTCGCATTGCGA--TTC-C
1 TTCGCATTGCGATTTTCAT
*
17634 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
* *
17651 TTCGCATTACGA-----AA
1 TTCGCATTGCGATTTTCAT
* *
17665 TTAGCTTTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
*
17684 TTCGCATTGTGA--TTC--
1 TTCGCATTGCGATTTTCAT
*
17699 -TCTCATTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
17717 TTCGCATTGCGAT
1 TTCGCATTGCGAT
17730 AGTAATTTCC
Statistics
Matches: 80, Mismatches: 17, Indels: 30
0.63 0.13 0.24
Matches are distributed among these distances:
14 25 0.31
16 9 0.11
17 9 0.11
19 37 0.46
ACGTcount: A:0.16, C:0.22, G:0.18, T:0.44
Consensus pattern (19 bp):
TTCGCATTGCGATTTTCAT
Found at i:20035 original size:12 final size:12
Alignment explanation
Indices: 20018--20042 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
20008 TCTTCGGGGA
20018 CTTTTTCTTCTT
1 CTTTTTCTTCTT
20030 CTTTTTCTTCTT
1 CTTTTTCTTCTT
20042 C
1 C
20043 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:20251 original size:24 final size:24
Alignment explanation
Indices: 20217--20270 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
20207 CTGAAACATC
*
20217 ATCAAAATCCGAGTATTGACCAAT
1 ATCAAAATCCGAGTATTGACCAAG
* *
20241 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
20265 ATCAAA
1 ATCAAA
20271 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:21080 original size:20 final size:21
Alignment explanation
Indices: 21055--21106 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
21045 TTTTCCTAAT
*
21055 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
21075 TCGCAATGTGAATTTGGAAAA
1 TCGCAATGCGAATTAAGAAAA
21096 TCGCAATGCGA
1 TCGCAATGCGA
21107 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.23
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:21408 original size:20 final size:20
Alignment explanation
Indices: 21376--21443 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 20
21366 CAACGGGGAA
*
21376 ATCGGAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
** ***
21396 ATCGCAATTCG-AAATGAAAA
1 ATCGCAACGCGAAAATG-GCT
21416 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
21436 ATCGCAAC
1 ATCGCAAC
21444 TAGAAAATCG
Statistics
Matches: 35, Mismatches: 11, Indels: 4
0.70 0.22 0.08
Matches are distributed among these distances:
19 5 0.14
20 25 0.71
21 5 0.14
ACGTcount: A:0.40, C:0.22, G:0.22, T:0.16
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGGCT
Found at i:21455 original size:34 final size:34
Alignment explanation
Indices: 21360--21463 Score: 100
Period size: 40 Copynumber: 2.9 Consensus size: 34
21350 ATTCATTTGA
** * *
21360 CTATCGCAACGGGGAAATCGGAACGCGAAAATGG
1 CTATCGCAACAAGAAAATCGCAACGCGAAAATGG
21394 CTATCGCAATTCGAAATGAAAAATCGCAACGCGAAAATGG
1 CTATCGCAA--C--AA-G-AAAATCGCAACGCGAAAATGG
* *
21434 CTATCGCAACTAGAAAATCGCAATGCGAAA
1 CTATCGCAACAAGAAAATCGCAACGCGAAA
21464 TGAAAATTGC
Statistics
Matches: 58, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
34 25 0.43
35 1 0.02
36 2 0.03
38 1 0.02
39 1 0.02
40 28 0.48
ACGTcount: A:0.40, C:0.21, G:0.23, T:0.15
Consensus pattern (34 bp):
CTATCGCAACAAGAAAATCGCAACGCGAAAATGG
Found at i:21492 original size:19 final size:18
Alignment explanation
Indices: 21470--21537 Score: 81
Period size: 19 Copynumber: 3.9 Consensus size: 18
21460 GAAATGAAAA
21470 TTGCATTGCGATTTTC--
1 TTGCATTGCGATTTTCAT
*
21486 -T-CGTTGCGATTTTCAT
1 TTGCATTGCGATTTTCAT
21502 TTCGCATTGCGATTTTCAT
1 TT-GCATTGCGATTTTCAT
21521 TTCGCATTGCGATTTTC
1 TT-GCATTGCGATTTTC
21538 TCGTTGCGAT
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
14 12 0.27
15 1 0.02
17 1 0.02
19 31 0.69
ACGTcount: A:0.13, C:0.21, G:0.18, T:0.49
Consensus pattern (18 bp):
TTGCATTGCGATTTTCAT
Found at i:21494 original size:14 final size:16
Alignment explanation
Indices: 21474--21547 Score: 66
Period size: 19 Copynumber: 4.5 Consensus size: 16
21464 TGAAAATTGC
21474 ATTGCGATTTTC-TCG
1 ATTGCGATTTTCTTCG
21489 -TTGCGATTTTCATTTCG
1 ATTGCGATTTTC--TTCG
21506 CATTGCGATTTTCATTTCG
1 -ATTGCGATTTTC--TTCG
21525 CATTGCGATTTTC-TCG
1 -ATTGCGATTTTCTTCG
21541 -TTGCGAT
1 ATTGCGAT
21548 AGTCAGTTTC
Statistics
Matches: 54, Mismatches: 0, Indels: 11
0.83 0.00 0.17
Matches are distributed among these distances:
14 18 0.33
16 3 0.06
17 3 0.06
19 30 0.56
ACGTcount: A:0.14, C:0.20, G:0.19, T:0.47
Consensus pattern (16 bp):
ATTGCGATTTTCTTCG
Found at i:21693 original size:14 final size:14
Alignment explanation
Indices: 21674--21710 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
21664 CATCAATTAA
21674 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
21688 ACAAATCATCTTTT
1 ACAAATCAACATTT
21702 ACAAATCAA
1 ACAAATCAA
21711 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:23617 original size:19 final size:19
Alignment explanation
Indices: 23572--23685 Score: 79
Period size: 19 Copynumber: 6.5 Consensus size: 19
23562 CACGAAACTT
*
23572 AAAATCGCAACGCGGAAATG
1 AAAATCGCAATGC-GAAATG
***
23592 GCTATCGCAATGCGAAATG
1 AAAATCGCAATGCGAAATG
*
23611 AAAATCGCAA--CG--A-C
1 AAAATCGCAATGCGAAATG
*
23625 AAAATCGCAATGCGAAAAG
1 AAAATCGCAATGCGAAATG
*
23644 AAAATCGCAA--CG--A-C
1 AAAATCGCAATGCGAAATG
23658 AAAATCGCAATGCGAAATG
1 AAAATCGCAATGCGAAATG
23677 -AAATCGCAA
1 AAAATCGCAA
23686 CGACAAAATC
Statistics
Matches: 73, Mismatches: 11, Indels: 22
0.69 0.10 0.21
Matches are distributed among these distances:
14 20 0.27
15 2 0.03
16 4 0.05
17 4 0.05
18 11 0.15
19 23 0.32
20 9 0.12
ACGTcount: A:0.46, C:0.21, G:0.20, T:0.12
Consensus pattern (19 bp):
AAAATCGCAATGCGAAATG
Found at i:23630 original size:14 final size:14
Alignment explanation
Indices: 23611--23701 Score: 83
Period size: 14 Copynumber: 5.9 Consensus size: 14
23601 ATGCGAAATG
23611 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
23625 AAAATCGCAATGCGAAAAG
1 AAAATCGCAA--CG---AC
23644 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
23658 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
23674 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
23690 AAAATCGCAACG
1 AAAATCGCAACG
23702 CGAAACACAA
Statistics
Matches: 64, Mismatches: 4, Indels: 18
0.74 0.05 0.21
Matches are distributed among these distances:
14 32 0.50
16 10 0.16
17 2 0.03
18 9 0.14
19 11 0.17
ACGTcount: A:0.49, C:0.23, G:0.18, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:23686 original size:32 final size:33
Alignment explanation
Indices: 23595--23706 Score: 199
Period size: 33 Copynumber: 3.4 Consensus size: 33
23585 GGAAATGGCT
23595 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
23628 ATCGCAATGCGAAAAGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
23661 ATCGCAATGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
23693 ATCGCAACGCGAAA
1 ATCGCAATGCGAAA
23707 CACAAATCAC
Statistics
Matches: 76, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
32 29 0.38
33 47 0.62
ACGTcount: A:0.48, C:0.22, G:0.19, T:0.11
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:23754 original size:14 final size:14
Alignment explanation
Indices: 23735--23792 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
23725 TTTCATTTCA
*
23735 CGTTGCAATTTTGT
1 CGTTGCGATTTTGT
*
23749 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
23765 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
23781 CGTTGCGATTTT
1 CGTTGCGATTTT
23793 CATTTCGCAT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
14 20 0.54
16 8 0.22
18 9 0.24
ACGTcount: A:0.12, C:0.17, G:0.22, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:23799 original size:33 final size:33
Alignment explanation
Indices: 23718--23808 Score: 148
Period size: 32 Copynumber: 2.8 Consensus size: 33
23708 ACAAATCACA
* * *
23718 TTGCGATTTTCATTTCACGTTGCAATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
23751 TTGCGA-TTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
23783 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
23809 AGCCATTTCC
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
32 29 0.54
33 25 0.46
ACGTcount: A:0.14, C:0.19, G:0.20, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:23827 original size:20 final size:19
Alignment explanation
Indices: 23793--23847 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
23783 TTGCGATTTT
*
23793 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
23812 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
23832 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
23848 AAGTAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:24349 original size:18 final size:18
Alignment explanation
Indices: 24323--24367 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
24313 GTCGATCAGA
24323 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGTGAGG
*
24341 TGATAGCTCTGGGTGAGG
1 TGATGGCTCTGGGTGAGG
24359 TGATGGCTC
1 TGATGGCTC
24368 CCGAAGTGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.13, C:0.13, G:0.44, T:0.29
Consensus pattern (18 bp):
TGATGGCTCTGGGTGAGG
Found at i:25723 original size:20 final size:20
Alignment explanation
Indices: 25700--25749 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
25690 ATGAAAACCA
*
25700 CAACACGAAAATGACTATCG
1 CAACGCGAAAATGACTATCG
**
25720 CAACGCGAATTTGACTATCG
1 CAACGCGAAAATGACTATCG
25740 CAACGCGAAA
1 CAACGCGAAA
25750 CTAAAATCGC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.40, C:0.26, G:0.18, T:0.16
Consensus pattern (20 bp):
CAACGCGAAAATGACTATCG
Found at i:26011 original size:20 final size:21
Alignment explanation
Indices: 25986--26034 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
25976 TCTGAGAGAT
25986 GGAGAT-AGACGGATTTC-TCC
1 GGAGATGAGACGGATTTCGT-C
*
26006 GGAGATGGGGACGGATTTCGTC
1 GGAGAT-GAGACGGATTTCGTC
26028 GGAGATG
1 GGAGATG
26035 GGTGAGAGAG
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 6 0.24
21 1 0.04
22 17 0.68
23 1 0.04
ACGTcount: A:0.22, C:0.14, G:0.41, T:0.22
Consensus pattern (21 bp):
GGAGATGAGACGGATTTCGTC
Found at i:26020 original size:22 final size:22
Alignment explanation
Indices: 25993--26036 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
25983 GATGGAGATA
25993 GACGGATTTC-TCCGGAGATGGG
1 GACGGATTTCGT-CGGAGATGGG
26015 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGTCGGAGATGGG
26037 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 20 0.95
23 1 0.05
ACGTcount: A:0.18, C:0.16, G:0.43, T:0.23
Consensus pattern (22 bp):
GACGGATTTCGTCGGAGATGGG
Found at i:26250 original size:20 final size:20
Alignment explanation
Indices: 26225--26276 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
26215 ATTATGTATT
26225 ATCGCGTTGCGAAAGTCAGA
1 ATCGCGTTGCGAAAGTCAGA
*
26245 ATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGAAAGTCAGA
*
26265 ATCTCGTTGCGA
1 ATCGCGTTGCGA
26277 TTTTGTATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (20 bp):
ATCGCGTTGCGAAAGTCAGA
Found at i:26337 original size:41 final size:41
Alignment explanation
Indices: 26245--26339 Score: 102
Period size: 41 Copynumber: 2.3 Consensus size: 41
26235 GAAAGTCAGA
*** ** *
26245 ATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATT
1 ATCGCGTTGCGAAAGTCAGTATCGAATTGCGATTTTCCAAT
* *
26286 ATCGCATTGCGATAGTCAGTATCGAATTGCGATTTTCCCAAT
1 ATCGCGTTGCGAAAGTCAGTATCGAATTGCGATTTT-CCAAT
26328 -TCGCGTTGCGAA
1 ATCGCGTTGCGAA
26340 TTACTTATTC
Statistics
Matches: 43, Mismatches: 10, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
41 41 0.95
42 2 0.05
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.35
Consensus pattern (41 bp):
ATCGCGTTGCGAAAGTCAGTATCGAATTGCGATTTTCCAAT
Found at i:26429 original size:21 final size:21
Alignment explanation
Indices: 26389--26429 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
26379 ACTGTAGACC
** *
26389 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGCAACT
26410 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATGCAAC
26430 GCGAATTTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.29, G:0.17, T:0.20
Consensus pattern (21 bp):
ATCGCAACGCGAAATGCAACT
Found at i:26964 original size:18 final size:19
Alignment explanation
Indices: 26929--26966 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
26919 CACGGAATGT
26929 AAGATTATCAGTGGGAATAA
1 AAGATTATCAG-GGGAATAA
26949 AAGATTATCA-GGGAATAA
1 AAGATTATCAGGGGAATAA
26967 GATTATTGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.44
20 10 0.56
ACGTcount: A:0.47, C:0.05, G:0.24, T:0.24
Consensus pattern (19 bp):
AAGATTATCAGGGGAATAA
Found at i:26979 original size:15 final size:16
Alignment explanation
Indices: 26928--26972 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 16
26918 TCACGGAATG
26928 TAAGATTATCAGTGGGAA
1 TAAGATTATCA--GGGAA
26946 TAAAAGATTATCAGGGAA
1 T--AAGATTATCAGGGAA
26964 TAAGATTAT
1 TAAGATTAT
26973 TGGGAATGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
16 8 0.32
18 7 0.28
20 10 0.40
ACGTcount: A:0.44, C:0.04, G:0.22, T:0.29
Consensus pattern (16 bp):
TAAGATTATCAGGGAA
Found at i:28119 original size:22 final size:21
Alignment explanation
Indices: 28072--28121 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
28062 TTTTAATCAA
*
28072 AATATTTAAAATATATTTATT
1 AATATTTAAAATATATATATT
*
28093 AATATTTATAATAATATAATATT
1 AATATTTAAAAT-ATAT-ATATT
28116 -ATATTT
1 AATATTT
28122 TTTTAATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 11 0.44
22 10 0.40
23 4 0.16
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
AATATTTAAAATATATATATT
Found at i:28128 original size:24 final size:24
Alignment explanation
Indices: 28076--28131 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
28066 AATCAAAATA
*
28076 TTTAA-AATATATTTATTAATATT
1 TTTAATAATATATATATTAATATT
* *
28099 TATAATAATATA-ATATTATATTTT
1 TTTAATAATATATATATTA-ATATT
28123 TTTAATAAT
1 TTTAATAAT
28132 GTCTAACTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 9 0.33
24 18 0.67
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (24 bp):
TTTAATAATATATATATTAATATT
Found at i:32348 original size:112 final size:112
Alignment explanation
Indices: 31876--32336 Score: 744
Period size: 112 Copynumber: 4.1 Consensus size: 112
31866 TCGGTTTGTA
* * *
31876 TCGATACTTTATAAAAATATATTGATCCATAACAATATAACAAGTAAAAAAATGACAAAACCGAT
1 TCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACCGAT
* * * * *
31941 CAATAAATGACAAAACAGGTAAAGCACTACCGAATATATTAAAAGTA
66 CTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTG
*
31988 TCGATACTTTATAAAAATGTATCGATCCATAACAATATAACACGTAAAAAAATGACAAAACCGAT
1 TCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACCGAT
*
32053 CTATACATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTG
66 CTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTG
*
32100 TCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACCGGT
1 TCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACCGAT
* *
32165 CTATAAATCACAAAACAGGTAAAGCGCTACCGGATATTTTGAAAGTG
66 CTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTG
*
32212 TTGATACTTTATAAAAATGTATCGATCCATAA-AGATATAACAGGTAAAAAAAATGACAAAACCG
1 TCGATACTTTATAAAAATGTATCGATCCATAACA-ATATAACAGGT-AAAAAAATGACAAAACCG
* * *
32276 ATCTATAAATGACAAAACAGGTAAAACGCTACCGGATATGTTGATAGTG
64 ATCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTG
32325 TCGATACTTTAT
1 TCGATACTTTAT
32337 TATAAGTATC
Statistics
Matches: 326, Mismatches: 21, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
111 1 0.00
112 252 0.77
113 73 0.22
ACGTcount: A:0.47, C:0.15, G:0.14, T:0.25
Consensus pattern (112 bp):
TCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACCGAT
CTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTG
Found at i:32531 original size:182 final size:182
Alignment explanation
Indices: 32206--32662 Score: 675
Period size: 182 Copynumber: 2.5 Consensus size: 182
32196 GGATATTTTG
* *
32206 AAAGTGTTGATACTTTATAAAAATGTATCGATCCATAA-AGATATAACAGGTAAAAAAAATGACA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACA-ATATAACAGGT-AAAAATATGACA
* * ** * * *
32270 AAACCGATCTATAAATGACAAAACAGGTAAAACGCTACCGGATATGTTGATAGTGTCGATACTTT
64 AAATCGGTCTCGAAATGACAAAACCGGTAAAACGCTACCGGATATGTTAAAAGTGTCGATACTTT
* * *
32335 ATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCACTAAT
129 ATTATAAGTATCGACACTTTTGAAATTTAAAAGAAAAGAAGTTATAGCACCAAT
* *
32389 AAAGTGTCGATACTTTATAAAAATATATCGATCCATAACAATATAACAAGTAAAAATATGACAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAA
* *
32454 ATCGGTCTCGAAATGTCAAAACCGGTAAAGA-GTTACCGGATATGTTAAAAGTGTCGATACTTTA
66 ATCGGTCTCGAAATGACAAAACCGGTAAA-ACGCTACCGGATATGTTAAAAGTGTCGATACTTTA
*
32518 TTATAAGTATCGACACTTTTGAAATTTAAAAGAAAAGAAGTTATAGCGCCAAT
130 TTATAAGTATCGACACTTTTGAAATTTAAAAGAAAAGAAGTTATAGCACCAAT
* **
32571 AAAATGTCGATACTTTATAAAAATGTATTAATCCATAACAATATAACAGGTAAAAATATGACAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAA
* *
32636 ATCAGTCTCGAAATGACAAAATCGGTA
66 ATCGGTCTCGAAATGACAAAACCGGTA
32663 GTAAAAAAGT
Statistics
Matches: 247, Mismatches: 25, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
182 199 0.81
183 47 0.19
184 1 0.00
ACGTcount: A:0.45, C:0.13, G:0.15, T:0.28
Consensus pattern (182 bp):
AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAA
ATCGGTCTCGAAATGACAAAACCGGTAAAACGCTACCGGATATGTTAAAAGTGTCGATACTTTAT
TATAAGTATCGACACTTTTGAAATTTAAAAGAAAAGAAGTTATAGCACCAAT
Found at i:36176 original size:14 final size:14
Alignment explanation
Indices: 36159--36186 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
36149 ATCATAACAA
36159 AATTATATAACTAT
1 AATTATATAACTAT
36173 AATTATATAACTAT
1 AATTATATAACTAT
36187 TCTTTCACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (14 bp):
AATTATATAACTAT
Found at i:40531 original size:16 final size:16
Alignment explanation
Indices: 40510--40540 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
40500 GAATCTGATT
40510 TTTTTATTAATTATTA
1 TTTTTATTAATTATTA
*
40526 TTTTTATTGATTATT
1 TTTTTATTAATTATT
40541 CTACCCTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (16 bp):
TTTTTATTAATTATTA
Found at i:41090 original size:182 final size:182
Alignment explanation
Indices: 40783--41633 Score: 1198
Period size: 182 Copynumber: 4.7 Consensus size: 182
40773 TGTCGGTTTA
* * * * * *
40783 TGTCGATACTTTATAAAAATGTATCGATCCACATCAATATAACATGAAAAAATATGATAAAACCG
1 TGTCGATTCTTTATAAATATGTATCGATCCACAACGATATAACATGTAAAAATATGACAAAACCG
* * * * * *
40848 GTCACGAAAAGAAAAAACCGGTAAAGCGCTACCGGATATATTGCATGTGTCAATACTTTAATATA
66 ATCACGAAAAGACAAAACCGGTAAAGAGCTACCAGATATATTGCAAGTGTCGATACTTTAATATA
* * *
40913 AGTATCGACACATAGTTAATTTAAAGGAGAAGCAGTTTTAGTGCCTATAAAG
131 AGTATCGACACATTGTGAATTTAAAGGAGAAGCAGTTTTAGCGCCTATAAAG
* * *
40965 TGTCGATTCTTTATAAATATGTATCGATCCACAACAATATAATAGGTAAAAATATGACAAAACCG
1 TGTCGATTCTTTATAAATATGTATCGATCCACAACGATATAACATGTAAAAATATGACAAAACCG
* * *
41030 ATCAGGAAAAGACAAAACCGGTAAAGAGATACCAGATATATTTCAAGTGTCGATACTTTAATATA
66 ATCACGAAAAGACAAAACCGGTAAAGAGCTACCAGATATATTGCAAGTGTCGATACTTTAATATA
41095 AGTATCGACACATTGTGAATTTAAAGGAGAAGCAGTTTTAGCGCCTATAAAG
131 AGTATCGACACATTGTGAATTTAAAGGAGAAGCAGTTTTAGCGCCTATAAAG
*
41147 TGTCGATTCTTTATAAATATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACC-
1 TGTCGATTCTTTATAAATATGTATCGATCCACAACGATATAACATGTAAAAATATGACAAAACCG
* * *
41211 AGTCAGGAAAAGACAAAACCGGTAAAGAGATACCAGATATATTGCAAGTGTCAATACTTTAATAT
66 A-TCACGAAAAGACAAAACCGGTAAAGAGCTACCAGATATATTGCAAGTGTCGATACTTTAATAT
*
41276 AAGTATTGACACATTGTGAATTTAAAGGAGAAGCAGTTTTAGCG-CTATAAAG
130 AAGTATCGACACATTGTGAATTTAAAGGAGAAGCAGTTTTAGCGCCTATAAAG
* * *
41328 TATCGATTCTTTATAAATATGTATCGATCCACAATGATATAACATGTAAAAATATGATAAAACCG
1 TGTCGATTCTTTATAAATATGTATCGATCCACAACGATATAACATGTAAAAATATGACAAAACCG
* * * *
41393 GTCTCGAAAAGAC--AACCGGTAAA-ACGCTACCAGATATATTGAAAGTGTCGATAATTTAATAT
66 ATCACGAAAAGACAAAACCGGTAAAGA-GCTACCAGATATATTGCAAGTGTCGATACTTTAATAT
* * *
41455 AAGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCTTATAAAG
130 AAGTATCGACACATTGTGAATTTAAAGGAGAAGCAGTTTTAGCGCCTATAAAG
* * * *
41508 TGTCGATACTTTATAAAAATGTATCGATCCATAACGATATAACATGT-AAAATATGA-TAAACC-
1 TGTCGATTCTTTATAAATATGTATCGATCCACAACGATATAACATGTAAAAATATGACAAAACCG
* * * * *
41570 AGTCTCTAAATGACAAAACCGGTAAAGCGCTACC-GAATATATTGAAAGTGTCGATACTTTAATA
66 A-TCACGAAAAGACAAAACCGGTAAAGAGCTACCAG-ATATATTGCAAGTGTCGATACTTTAATA
41634 AGTACGCGTA
Statistics
Matches: 610, Mismatches: 50, Indels: 20
0.90 0.07 0.03
Matches are distributed among these distances:
178 16 0.03
179 94 0.15
180 92 0.15
181 79 0.13
182 329 0.54
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.28
Consensus pattern (182 bp):
TGTCGATTCTTTATAAATATGTATCGATCCACAACGATATAACATGTAAAAATATGACAAAACCG
ATCACGAAAAGACAAAACCGGTAAAGAGCTACCAGATATATTGCAAGTGTCGATACTTTAATATA
AGTATCGACACATTGTGAATTTAAAGGAGAAGCAGTTTTAGCGCCTATAAAG
Found at i:44025 original size:21 final size:21
Alignment explanation
Indices: 44001--44066 Score: 105
Period size: 21 Copynumber: 3.1 Consensus size: 21
43991 AAGACAATCA
44001 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
44022 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* * *
44043 AGAGTCAAAAAGACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
44064 AGA
1 AGA
44067 CATAATGGGG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.45, C:0.11, G:0.30, T:0.14
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:44384 original size:34 final size:36
Alignment explanation
Indices: 44341--44422 Score: 141
Period size: 34 Copynumber: 2.3 Consensus size: 36
44331 GAAAAATATA
44341 AAGAAGAAAAGAGGGAGGAAGAA-AAAA-AGGGAGG
1 AAGAAGAAAAGAGGGAGGAAGAAGAAAAGAGGGAGG
*
44375 AAGAAGAAAAGAGGGATGAAGAAGAAAAGAGGGAGG
1 AAGAAGAAAAGAGGGAGGAAGAAGAAAAGAGGGAGG
44411 AAGAAGAAAAGA
1 AAGAAGAAAAGA
44423 TAGAGGAAAT
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
34 22 0.49
35 4 0.09
36 19 0.42
ACGTcount: A:0.60, C:0.00, G:0.39, T:0.01
Consensus pattern (36 bp):
AAGAAGAAAAGAGGGAGGAAGAAGAAAAGAGGGAGG
Found at i:44430 original size:18 final size:18
Alignment explanation
Indices: 44341--44422 Score: 141
Period size: 18 Copynumber: 4.7 Consensus size: 18
44331 GAAAAATATA
44341 AAGAAGAAAAGAGGGAGG
1 AAGAAGAAAAGAGGGAGG
44359 AAGAA-AAAA-AGGGAGG
1 AAGAAGAAAAGAGGGAGG
*
44375 AAGAAGAAAAGAGGGATG
1 AAGAAGAAAAGAGGGAGG
44393 AAGAAGAAAAGAGGGAGG
1 AAGAAGAAAAGAGGGAGG
44411 AAGAAGAAAAGA
1 AAGAAGAAAAGA
44423 TAGAGGAAAT
Statistics
Matches: 60, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
16 12 0.20
17 8 0.13
18 40 0.67
ACGTcount: A:0.60, C:0.00, G:0.39, T:0.01
Consensus pattern (18 bp):
AAGAAGAAAAGAGGGAGG
Found at i:46005 original size:19 final size:19
Alignment explanation
Indices: 45981--46026 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
45971 AATGTAGAGT
45981 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
46000 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
46019 TAATTTTG
1 TAATTTTG
46027 AATGTGGATG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.33, C:0.02, G:0.11, T:0.54
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:46636 original size:200 final size:198
Alignment explanation
Indices: 46290--47567 Score: 1543
Period size: 200 Copynumber: 6.5 Consensus size: 198
46280 GTAAGCATAT
* *
46290 GTGTCGATACATTTATAAAACGTGTTGATCCCAAAAACATCGAAA-CATATAATTATAATGTAAT
1 GTGTCGATACATTT-TAAAAAGTGTCGATCCCAAAAACATCGAAACCATA-AA-TATAATGTAAT
*
46354 AGGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTACATAATG
63 AGGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGTAAGAATAGGTCTACATAATG
** *
46419 TATTGACACTATTTTATTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAAAATGATGAACG
128 TATCAACACTTTTTTATTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAAAATGATGAACG
46484 AATAAA
193 AATAAA
46490 GTGTCGATACAGTTTTAAAAAGTGTCGATCCCAAAAACATCGAAATCCATAAATATAATGTAATA
1 GTGTCGATACA-TTTTAAAAAGTGTCGATCCCAAAAACATCGAAA-CCATAAATATAATGTAATA
*
46555 GGTAATTTTGTAATATAACCGGTATAAATATACCAGTTTTATGTAAGAATAGGTCTACATAATGT
64 GGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGTAAGAATAGGTCTACATAATGT
* * * *
46620 ATCAACACTTTTTTATTTTGTGCCTATACTTTTTGTCCAGATTGAATGCTAAAAATGATGAACGA
129 ATCAACACTTTTTTATTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAAAATGATGAACGA
46685 ATAAA
194 ATAAA
* * *
46690 GTGTCGATACATTTATAAAAAGTGTCGATCCC-AAAACATCGAAACAGATAATTGTAATGTAATA
1 GTGTCGATACATTT-TAAAAAGTGTCGATCCCAAAAACATCGAAAC-CATAAATATAATGTAATA
* *
46754 GGTAATTTTGTAATATAACCGGTATAAATATAACGATTTTATGTAAGAATAGGTCTACATAATGT
64 GGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGTAAGAATAGGTCTACATAATGT
* * *
46819 ATCGACACTTTTTTATTTTGTGTCGATATTTTTTGTCCAGAATGAATGCAAAAAATGATGAACGA
129 ATCAACACTTTTTTATTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAAAATGATGAACGA
46884 ATAAA
194 ATAAA
* * *
46889 GTGTCGATACATTTATAAAAAGTGTCGATTCCAAAAACAT-TAAAACATATAATTATAATGTAAT
1 GTGTCGATACATTT-TAAAAAGTGTCGATCCCAAAAACATCGAAACCATA-AA-TATAATGTAAT
* * * *
46953 ATGTAATTTTGTAATATAACCGATATAAATATACCGATTTTATGTAAGAATATGTCTACATAATG
63 AGGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGTAAGAATAGGTCTACATAATG
* *
47018 TATCAACACTTTTTTATTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAAAAGGATGAATG
128 TATCAACACTTTTTTATTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAAAATGATGAACG
47083 AATAAA
193 AATAAA
* * * * * *
47089 GTGTAGATACAGTTATAAAAAGTGTCAATCCCAAAAATATC-AACACAGATAATTATAATGT-AT
1 GTGTCGATACA-TTTTAAAAAGTGTCGATCCCAAAAACATCGAA-AC-CATAAATATAATGTAAT
* *
47152 -TGTAATTTTGTAATATAACC-GTAT-AA-ATACCGGTTTTATGTAAGAATAGGTCTACATAATA
63 AGGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGTAAGAATAGGTCTACATAATG
* * *
47213 TATCAACAC-TTTTTATTTTGTGTTGATACTTTTTGTCTATAATGAATGCCAAAAATGATGAACG
128 TATCAACACTTTTTTATTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAAAATGATGAACG
47277 AATAAA
193 AATAAA
*
47283 GTGTCG-------------A---T--A--CCAGAAACATCGAAACCCATAAATATAATGTAATAG
1 GTGTCGATACATTTTAAAAAGTGTCGATCCCAAAAACATCGAAA-CCATAAATATAATGTAATAG
* ** * * *
47328 GTAAATTTACAATGTAACCGGTAT-AATAATACCAGTTTTATG-AGAGAATATGTCTACA-ACAT
65 GTAATTTTGTAATATAACCGGTATAAAT-ATACCGGTTTTATGTA-AGAATAGGTCTACATA-AT
* * ** * * * *
47390 GTATCGACACTTGTGGAATTTGTTTCGATACTTTTTGTCCAGAAGGAAAT-CC-AAAA-GTTGCA
127 GTATCAACACTTTTTTATTTTGTGTCGATACTTTTTGTCCAGAATG-AATGCCAAAAATGATG-A
*
47452 A-GCATAAA
190 ACGAATAAA
* * *
47460 GTGTCGATACATTTTTAAAAAGTGTCGATCTCAATAACATCGAAACCGATAATTATAATGTAATA
1 GTGTCGATACA-TTTTAAAAAGTGTCGATCCCAAAAACATCGAAACC-ATAAATATAATGTAATA
* * *
47525 GGTAAATTTT-CAATGTAACTGGTATAAATATACCGGTTTTATG
64 GGT-AATTTTGTAATATAACCGGTATAAATATACCGGTTTTATG
47568 AGAAAATAGG
Statistics
Matches: 943, Mismatches: 87, Indels: 98
0.84 0.08 0.09
Matches are distributed among these distances:
173 22 0.02
174 5 0.01
175 16 0.02
176 6 0.01
177 18 0.02
178 42 0.04
179 28 0.03
180 4 0.00
191 1 0.00
194 62 0.07
195 41 0.04
196 3 0.00
197 5 0.01
198 82 0.09
199 201 0.21
200 391 0.41
201 9 0.01
202 7 0.01
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.34
Consensus pattern (198 bp):
GTGTCGATACATTTTAAAAAGTGTCGATCCCAAAAACATCGAAACCATAAATATAATGTAATAGG
TAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGTAAGAATAGGTCTACATAATGTAT
CAACACTTTTTTATTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAAAATGATGAACGAAT
AAA
Found at i:47067 original size:399 final size:393
Alignment explanation
Indices: 46290--47618 Score: 1671
Period size: 399 Copynumber: 3.4 Consensus size: 393
46280 GTAAGCATAT
* * *
46290 GTGTCGATACATTTATAAAACGTGTTGATCCCAAAAACATCGAAACATATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCGAAACAGATAATTATAATGTAATA
*
46355 GGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTACATAATGT
66 GGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGTAAGAATAGGTCTACATAATGT
* *
46420 ATTGACACTATTTTATTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAAAATGATGAACGA
131 ATCGACACTTTTTTATTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAAAATGATGAACGA
*
46485 ATAAAGTGTCGATACAGTTTTAAAAAGTGTCGATCCCAAAAACATCGAAATCCATAAATATAATG
196 ATAAAGTGTCGATACA-TTTTAAAAAGTGTCGATTCCAAAAACAT--AAA-CCATAAATATAATG
*
46550 TAATAGGTAATTTTGTAATATAACCGGTATAAATATACCAGTTTTATGTAAGAATAGGTCTACAT
257 TAATAGGTAATTTTGTAATATAACCGGTATAAATATACCAGTTTTATGTAAGAATATGTCTACAT
* * *
46615 AATGTATCAACACTTTTTTATTTTGTGCCTATACTTTTTGTCCAGATTGAATGCTAAAAATGATG
322 AATGTATCAACACTTTTTTATTTTGTGTCGATACTTTTTGTCCAGAATGAATGC-AAAAA-GATG
46680 AACGAATAAA
385 AA-GAATAAA
*
46690 GTGTCGATACATTTATAAAAAGTGTCGATCCC-AAAACATCGAAACAGATAATTGTAATGTAATA
1 GTGTCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCGAAACAGATAATTATAATGTAATA
* *
46754 GGTAATTTTGTAATATAACCGGTATAAATATAACGATTTTATGTAAGAATAGGTCTACATAATGT
66 GGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGTAAGAATAGGTCTACATAATGT
* *
46819 ATCGACACTTTTTTATTTTGTGTCGATATTTTTTGTCCAGAATGAATGCAAAAAATGATGAACGA
131 ATCGACACTTTTTTATTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAAAATGATGAACGA
*
46884 ATAAAGTGTCGATACATTTATAAAAAGTGTCGATTCCAAAAACATTAAAACATATAATTATAATG
196 ATAAAGTGTCGATACATTT-TAAAAAGTGTCGATTCCAAAAACA-TAAACCATA-AA-TATAATG
* *
46949 TAATATGTAATTTTGTAATATAACCGATATAAATATACC-GATTTTATGTAAGAATATGTCTACA
257 TAATAGGTAATTTTGTAATATAACCGGTATAAATATACCAG-TTTTATGTAAGAATATGTCTACA
47013 TAATGTATCAACACTTTTTTATTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAAAAGGAT
321 TAATGTATCAACACTTTTTTATTTTGTGTCGATACTTTTTGTCCAGAATGAATG-CAAAAA-GAT
47078 GAATGAATAAA
384 GAA-GAATAAA
* * * *
47089 GTGTAGATACAGTTATAAAAAGTGTCAATCCCAAAAATATC-AACACAGATAATTATAATGT-AT
1 GTGTCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCGAA-ACAGATAATTATAATGTAAT
* *
47152 -TGTAATTTTGTAATATAACC-GTAT-AA-ATACCGGTTTTATGTAAGAATAGGTCTACATAATA
65 AGGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGTAAGAATAGGTCTACATAATG
* * * *
47213 TATCAACAC-TTTTTATTTTGTGTTGATACTTTTTGTCTATAATGAATGCCAAAAATGATGAACG
130 TATCGACACTTTTTTATTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAAAATGATGAACG
* * *
47277 AATAAAGTGTCGATAC----CAGAAA----C-A-T-C-GAAAC-----CCATAAATATAATGTAA
195 AATAAAGTGTCGATACATTTTAAAAAGTGTCGATTCCAAAAACATAAACCATAAATATAATGTAA
* ** *
47325 TAGGTAAATTTACAATGTAACCGGTAT-AATAATACCAGTTTTATG-AGAGAATATGTCTACA-A
260 TAGGTAATTTTGTAATATAACCGGTATAAAT-ATACCAGTTTTATGTA-AGAATATGTCTACATA
* * ** * * * * *
47387 CATGTATCGACACTTGTGGAATTTGTTTCGATACTTTTTGTCCAGAAGGAAAT-CCAAAAGTTGC
323 -ATGTATCAACACTTTTTTATTTTGTGTCGATACTTTTTGTCCAGAATG-AATGCAAAAAGATG-
*
47451 AAGCATAAA
385 AAGAATAAA
* * * *
47460 GTGTCGATACATTTTTAAAAAGTGTCGATCTCAATAACATCGAAACCGATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCGAAACAGATAATTATAATGTAATA
* * * *
47525 GGTAAATTTT-CAATGTAACTGGTATAAATATACCGGTTTTATG-AGAAAATAGGTC-ATCATAA
66 GGT-AATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGTA-AGAATAGGTCTA-CATAA
* * * * * *
47587 AGTATTGACAATTGTTAAATTTGTGTCGATAC
128 TGTATCGACACTTTTTTATTTTGTGTCGATAC
47619 CATTTTAAAT
Statistics
Matches: 827, Mismatches: 78, Indels: 71
0.85 0.08 0.07
Matches are distributed among these distances:
371 59 0.07
372 16 0.02
373 107 0.13
374 16 0.02
375 8 0.01
376 34 0.04
377 16 0.02
381 4 0.00
382 1 0.00
383 1 0.00
384 1 0.00
385 1 0.00
389 4 0.00
394 66 0.08
395 40 0.05
396 2 0.00
397 8 0.01
398 28 0.03
399 360 0.44
400 55 0.07
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.34
Consensus pattern (393 bp):
GTGTCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCGAAACAGATAATTATAATGTAATA
GGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGTAAGAATAGGTCTACATAATGT
ATCGACACTTTTTTATTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAAAATGATGAACGA
ATAAAGTGTCGATACATTTTAAAAAGTGTCGATTCCAAAAACATAAACCATAAATATAATGTAAT
AGGTAATTTTGTAATATAACCGGTATAAATATACCAGTTTTATGTAAGAATATGTCTACATAATG
TATCAACACTTTTTTATTTTGTGTCGATACTTTTTGTCCAGAATGAATGCAAAAAGATGAAGAAT
AAA
Found at i:50094 original size:23 final size:23
Alignment explanation
Indices: 50060--50143 Score: 132
Period size: 23 Copynumber: 3.7 Consensus size: 23
50050 CTCATATAAA
*
50060 TGCACCGAAGTGCCACGTAGAAT
1 TGCACCGTAGTGCCACGTAGAAT
*
50083 TGCACCGTAGTGCCGCGTAGAAT
1 TGCACCGTAGTGCCACGTAGAAT
* *
50106 TACACCGTAGTGCCGCGTAGAAT
1 TGCACCGTAGTGCCACGTAGAAT
50129 TGCACCGTAGTGCCA
1 TGCACCGTAGTGCCA
50144 TATAATAATG
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 56 1.00
ACGTcount: A:0.25, C:0.27, G:0.27, T:0.20
Consensus pattern (23 bp):
TGCACCGTAGTGCCACGTAGAAT
Found at i:51268 original size:20 final size:20
Alignment explanation
Indices: 51245--51290 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
51235 TCTTTTATAT
51245 TCATATAATTTATTATCAT-A
1 TCATATAATTTA-TATCATCA
*
51265 TCATATGATTTATATCATCA
1 TCATATAATTTATATCATCA
51285 TCATAT
1 TCATAT
51291 CACATATTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 6 0.25
20 18 0.75
ACGTcount: A:0.37, C:0.13, G:0.02, T:0.48
Consensus pattern (20 bp):
TCATATAATTTATATCATCA
Found at i:51746 original size:21 final size:20
Alignment explanation
Indices: 51716--51759 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
51706 TTTTGTTCGT
* *
51716 TTGAAGGGTATCGGTTCCCC
1 TTGAAGGGTACCGATTCCCC
51736 TTGAATGGGTACCGATTCCCC
1 TTGAA-GGGTACCGATTCCCC
51757 TTG
1 TTG
51760 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.16, C:0.25, G:0.27, T:0.32
Consensus pattern (20 bp):
TTGAAGGGTACCGATTCCCC
Found at i:53376 original size:23 final size:20
Alignment explanation
Indices: 53321--53377 Score: 51
Period size: 20 Copynumber: 2.7 Consensus size: 20
53311 TCCCCTTTGA
*
53321 AGTGAATCGATGCATTCTAC
1 AGTGCATCGATGCATTCTAC
** *
53341 AGTGCATTAATGCATCTTTAAC
1 AGTGCATCGATGCAT-TCT-AC
53363 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
53378 CTACTCATGC
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
20 12 0.43
21 2 0.07
22 3 0.11
23 11 0.39
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (20 bp):
AGTGCATCGATGCATTCTAC
Found at i:55940 original size:63 final size:61
Alignment explanation
Indices: 55747--55952 Score: 179
Period size: 63 Copynumber: 3.3 Consensus size: 61
55737 ATTTATCAAA
* * *
55747 TTGATGCACCGATGCACCA-ATCCATGCATCGATGCACCATGA-A-TTAAATTGAACATCGAATT
1 TTGATGCATCGATGCA-CATA-CCATGCATCGATGCA-C-TGAGATTTAGA---AACATCGAATG
55809 CAT
59 CAT
* * **
55812 TTCATGCATCGATGCACATACCATGCATCGATGTACTGAGATTTAGAAATGTCGAATGCAT
1 TTGATGCATCGATGCACATACCATGCATCGATGCACTGAGATTTAGAAACATCGAATGCAT
* * * *
55873 TTGATGCATCAATGCACA-GCCATGCATCGATGCACTCTG-GCTATTTTGAAACATCGAATGCAC
1 TTGATGCATCGATGCACATACCATGCATCGATGCA--CTGAG--ATTTAGAAACATCGAATGCAT
55936 TTGATGCATCGATGCAC
1 TTGATGCATCGATGCAC
55953 TCTTGGTGCA
Statistics
Matches: 118, Mismatches: 16, Indels: 16
0.79 0.11 0.11
Matches are distributed among these distances:
60 14 0.12
61 28 0.24
62 6 0.05
63 35 0.30
64 20 0.17
65 15 0.13
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (61 bp):
TTGATGCATCGATGCACATACCATGCATCGATGCACTGAGATTTAGAAACATCGAATGCAT
Found at i:55962 original size:19 final size:19
Alignment explanation
Indices: 55935--55972 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
55925 ATCGAATGCA
*
55935 CTTGATGCATCGATGCACT
1 CTTGATGCACCGATGCACT
*
55954 CTTGGTGCACCGATGCACT
1 CTTGATGCACCGATGCACT
55973 AAGGGTCCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.18, C:0.29, G:0.24, T:0.29
Consensus pattern (19 bp):
CTTGATGCACCGATGCACT
Found at i:56322 original size:14 final size:14
Alignment explanation
Indices: 56296--56333 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
56286 GTACTCAATT
56296 GTATTCA-TTTTGA
1 GTATTCATTTTTGA
56309 GTATTCATTTTTGA
1 GTATTCATTTTTGA
*
56323 GTGTTC-TTTTT
1 GTATTCATTTTT
56334 CTTTGTTCTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.16, C:0.08, G:0.16, T:0.61
Consensus pattern (14 bp):
GTATTCATTTTTGA
Done.