Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr12
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: 39383930
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.32
Warning! 780790 characters in sequence are not A, C, G, or T
File 47 of 126
Found at i:13665303 original size:9 final size:9
Alignment explanation
Indices: 13665276--13665375 Score: 66
Period size: 9 Copynumber: 10.9 Consensus size: 9
13665266 TTACTGAAAT
13665276 TATTAAAATA
1 TATTAAAA-A
*
13665286 TAATAAAAA
1 TATTAAAAA
13665295 TATTAAAAA
1 TATTAAAAA
**
13665304 TTAGAAAAAA
1 -TATTAAAAA
13665314 T-TATAAAAA
1 TAT-TAAAAA
*
13665323 TACTAAAAA
1 TATTAAAAA
13665332 T-TTATAAAA
1 TATTA-AAAA
13665341 T-TTATAAAA
1 TATTA-AAAA
13665350 T-TTATAAAA
1 TATTA-AAAA
13665359 TATATAAAAA
1 TAT-TAAAAA
13665369 TA-TAAAA
1 TATTAAAA
13665376 TTTTATAAAG
Statistics
Matches: 76, Mismatches: 8, Indels: 14
0.78 0.08 0.14
Matches are distributed among these distances:
8 7 0.09
9 46 0.61
10 21 0.28
11 2 0.03
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.33
Consensus pattern (9 bp):
TATTAAAAA
Found at i:13665340 original size:28 final size:27
Alignment explanation
Indices: 13665249--13665375 Score: 91
Period size: 28 Copynumber: 4.6 Consensus size: 27
13665239 ATGATAAAAA
* *
13665249 ATAAAAATAAATAAAAATTACT-GAAATT
1 ATAAAAAT-TATAAAAA-TACTAAAAATT
* *
13665277 ATTAAAATATAATAAAAATATTAAAAATT
1 A-TAAAA-ATTATAAAAATACTAAAAATT
*
13665306 AGAAAAAATTATAAAAATACTAAAAATTT
1 A-TAAAAATTATAAAAATACTAAAAA-TT
* *
13665335 ATAAAATTTAT-AAAAT-TTATAAAATAT
1 ATAAAAATTATAAAAATACTA-AAAAT-T
13665362 ATAAAAA-TATAAAA
1 ATAAAAATTATAAAA
13665376 TTTTATAAAG
Statistics
Matches: 82, Mismatches: 10, Indels: 15
0.77 0.09 0.14
Matches are distributed among these distances:
26 6 0.07
27 19 0.23
28 29 0.35
29 26 0.32
30 2 0.02
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (27 bp):
ATAAAAATTATAAAAATACTAAAAATT
Found at i:13665376 original size:7 final size:8
Alignment explanation
Indices: 13665242--13665375 Score: 63
Period size: 9 Copynumber: 14.8 Consensus size: 8
13665232 GGCGACAATG
13665242 ATAAAAA-
1 ATAAAAAT
13665249 ATAAAAAT
1 ATAAAAAT
13665257 AAATAAAAATT
1 --ATAAAAA-T
* *
13665268 ACTGAAATT
1 A-TAAAAAT
13665277 ATTAAAATAT
1 A-TAAAA-AT
13665287 AATAAAAAT
1 -ATAAAAAT
13665296 ATTAAAAATT
1 A-TAAAAA-T
*
13665306 AGAAAAAATT
1 A-TAAAAA-T
13665316 ATAAAAAT
1 ATAAAAAT
13665324 ACTAAAAATTT
1 A-TAAAAA--T
*
13665335 ATAAAATTT
1 ATAAAA-AT
*
13665344 ATAAAATTT
1 ATAAAA-AT
13665353 ATAAAATAT
1 ATAAAA-AT
13665362 ATAAAAAT
1 ATAAAAAT
13665370 ATAAAA
1 ATAAAA
13665376 TTTTATAAAG
Statistics
Matches: 104, Mismatches: 10, Indels: 25
0.75 0.07 0.18
Matches are distributed among these distances:
7 7 0.07
8 11 0.11
9 50 0.48
10 32 0.31
11 4 0.04
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.31
Consensus pattern (8 bp):
ATAAAAAT
Found at i:13665380 original size:27 final size:27
Alignment explanation
Indices: 13665242--13665384 Score: 82
Period size: 27 Copynumber: 5.2 Consensus size: 27
13665232 GGCGACAATG
* * *
13665242 ATAAAAAATA-AAAATAAATAAAAATT
1 ATAAAATATATAAAATATATAAAATTT
*
13665268 ACTGAAAT-TATTAAAATATAATAAAAATATT
1 A-TAAAATATA-TAAAATAT-AT-AAAAT-TT
* * *
13665299 A-AAAAT-TAGAAAAAATTATAAAA-AT
1 ATAAAATATATAAAATA-TATAAAATTT
* *
13665324 ACTAAAAATTTATAAAATTTATAAAATTT
1 A-T-AAAATATATAAAATATATAAAATTT
13665353 ATAAAATATATAAAA-ATATAAAATTTT
1 ATAAAATATATAAAATATATAAAA-TTT
13665380 ATAAA
1 ATAAA
13665385 GTCGTAAGAT
Statistics
Matches: 90, Mismatches: 14, Indels: 25
0.70 0.11 0.19
Matches are distributed among these distances:
25 2 0.02
26 10 0.11
27 28 0.31
28 26 0.29
29 17 0.19
30 4 0.04
31 3 0.03
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.32
Consensus pattern (27 bp):
ATAAAATATATAAAATATATAAAATTT
Found at i:13665384 original size:18 final size:18
Alignment explanation
Indices: 13665279--13665376 Score: 78
Period size: 18 Copynumber: 5.3 Consensus size: 18
13665269 CTGAAATTAT
13665279 TAAAATATAATAAAAATATTA
1 TAAAATAT-AT-AAAAT-TTA
* *
13665300 -AAAAT-TAGAAAAAATTA
1 TAAAATATA-TAAAATTTA
13665317 TAAAA-ATACTAAAAATTTA
1 TAAAATATA-T-AAAATTTA
*
13665336 TAAAATTTATAAAATTTA
1 TAAAATATATAAAATTTA
*
13665354 TAAAATATATAAAA-ATA
1 TAAAATATATAAAATTTA
13665371 TAAAAT
1 TAAAAT
13665377 TTTATAAAGT
Statistics
Matches: 64, Mismatches: 8, Indels: 14
0.74 0.09 0.16
Matches are distributed among these distances:
17 11 0.17
18 32 0.50
19 14 0.22
20 7 0.11
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.33
Consensus pattern (18 bp):
TAAAATATATAAAATTTA
Found at i:13666039 original size:21 final size:23
Alignment explanation
Indices: 13665998--13666039 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
13665988 ATATTTTTCT
13665998 ATATTCTTTATTATAAATTTTTA
1 ATATTCTTTATTATAAATTTTTA
*
13666021 ATATT-TTTA-TATAACTTTT
1 ATATTCTTTATTATAAATTTT
13666040 ATTTATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
22 4 0.22
23 5 0.28
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (23 bp):
ATATTCTTTATTATAAATTTTTA
Found at i:13666041 original size:33 final size:33
Alignment explanation
Indices: 13665977--13666042 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 33
13665967 CTATGTTTTA
* *
13665977 ATAAATTGTAAATATTTTTCTATATTCTTTATT
1 ATAAATTGTAAATATTTTTATATACTCTTTATT
* *
13666010 ATAAATTTTTAATATTTTTATATAACT-TTTATT
1 ATAAATTGTAAATATTTTTATAT-ACTCTTTATT
13666043 TATTTTTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 26 0.93
34 2 0.07
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.59
Consensus pattern (33 bp):
ATAAATTGTAAATATTTTTATATACTCTTTATT
Found at i:13668986 original size:18 final size:17
Alignment explanation
Indices: 13668944--13668991 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 17
13668934 TGTCGCTTGT
13668944 TTTCAAAACATTATTCA
1 TTTCAAAACATTATTCA
* *
13668961 TTTACAAATCGTTATTCAA
1 TTT-CAAAACATTATTC-A
13668980 TTTCAAAACATT
1 TTTCAAAACATT
13668992 TTCTTATTGC
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
17 3 0.12
18 18 0.72
19 4 0.16
ACGTcount: A:0.40, C:0.17, G:0.02, T:0.42
Consensus pattern (17 bp):
TTTCAAAACATTATTCA
Found at i:13678266 original size:19 final size:19
Alignment explanation
Indices: 13678242--13678281 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
13678232 GTAGCCATAG
*
13678242 TTACCCATAGTAATCAAAT
1 TTACCCACAGTAATCAAAT
*
13678261 TTACCCACCGTAATCAAAT
1 TTACCCACAGTAATCAAAT
13678280 TT
1 TT
13678282 GTTATTAACT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.38, C:0.25, G:0.05, T:0.33
Consensus pattern (19 bp):
TTACCCACAGTAATCAAAT
Found at i:13679630 original size:21 final size:21
Alignment explanation
Indices: 13679597--13679639 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
13679587 TTTTGAGTTG
* *
13679597 TTTATGAAGTTGGATGATAAA
1 TTTAAGAACTTGGATGATAAA
* *
13679618 TTTAAGAACTTGGTTGTTAAA
1 TTTAAGAACTTGGATGATAAA
13679639 T
1 T
13679640 AAGACTATTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.35, C:0.02, G:0.21, T:0.42
Consensus pattern (21 bp):
TTTAAGAACTTGGATGATAAA
Found at i:13680777 original size:62 final size:59
Alignment explanation
Indices: 13680667--13680783 Score: 180
Period size: 62 Copynumber: 1.9 Consensus size: 59
13680657 ATCACTTTAA
* *
13680667 TATTAAATTAATATAATATTTATCAAGATAAATATTAAATTAAATTTAATATTAAATCT
1 TATTAAATTAATAGAATATTTATCAAGATAAACATTAAATTAAATTTAATATTAAATCT
*
13680726 TATTAAATTAATAGAATATTTATCTATAAGATAAACATTAAATTTAATTTAATATTAA
1 TATTAAATTAATAGAATATTTATC---AAGATAAACATTAAATTAAATTTAATATTAA
13680784 GATAACCATT
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
59 23 0.44
62 29 0.56
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (59 bp):
TATTAAATTAATAGAATATTTATCAAGATAAACATTAAATTAAATTTAATATTAAATCT
Found at i:13690538 original size:25 final size:26
Alignment explanation
Indices: 13690510--13690558 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
13690500 ATGATATATG
*
13690510 GCTCTTTG-GAGCTTCCCGATTAAAA
1 GCTCTTTGTAAGCTTCCCGATTAAAA
*
13690535 GCTCTTTGTAAGCTTCCTGATTAA
1 GCTCTTTGTAAGCTTCCCGATTAA
13690559 TGGCTCACCG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 8 0.38
26 13 0.62
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.37
Consensus pattern (26 bp):
GCTCTTTGTAAGCTTCCCGATTAAAA
Found at i:13690564 original size:26 final size:25
Alignment explanation
Indices: 13690507--13690564 Score: 71
Period size: 26 Copynumber: 2.3 Consensus size: 25
13690497 CTCATGATAT
*
13690507 ATGGCTCTTTGGAGCTTCCCGATTA
1 ATGGCTCTTTGAAGCTTCCCGATTA
** *
13690532 AAAGCTCTTTGTAAGCTTCCTGATTA
1 ATGGCTCTTTG-AAGCTTCCCGATTA
13690558 ATGGCTC
1 ATGGCTC
13690565 ACCGGAGCTT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
25 9 0.35
26 17 0.65
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.36
Consensus pattern (25 bp):
ATGGCTCTTTGAAGCTTCCCGATTA
Found at i:13699738 original size:16 final size:15
Alignment explanation
Indices: 13699689--13699739 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 15
13699679 TTCAATAAAA
13699689 AATTATAA-T-TATT
1 AATTATAATTATATT
13699702 AATATATAATTATA-T
1 AAT-TATAATTATATT
13699717 ACATTATAATATATATT
1 A-ATTATAAT-TATATT
13699734 AATTAT
1 AATTAT
13699740 TATCAGCTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
13 3 0.09
14 5 0.16
15 9 0.28
16 13 0.41
17 2 0.06
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (15 bp):
AATTATAATTATATT
Found at i:13703362 original size:14 final size:15
Alignment explanation
Indices: 13703338--13703367 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
13703328 AAAGTGGTCC
13703338 AGTTGAACTGAACCG
1 AGTTGAACTGAACCG
13703353 AGTT-AACTGAACCG
1 AGTTGAACTGAACCG
13703367 A
1 A
13703368 CCAAGAAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.37, C:0.20, G:0.23, T:0.20
Consensus pattern (15 bp):
AGTTGAACTGAACCG
Found at i:13707595 original size:22 final size:22
Alignment explanation
Indices: 13707507--13707596 Score: 74
Period size: 22 Copynumber: 4.0 Consensus size: 22
13707497 TCACACCCGT
*
13707507 ATATGAGAGCCCCTTGTGTGGGAT
1 ATATGAGAG-CCCTTG-GTGGGAC
* * **
13707531 ATATAAAAGCCCTTTATGGGAC
1 ATATGAGAGCCCTTGGTGGGAC
* *
13707553 ATTTGAGAGCCCCTCGG-GGGAC
1 ATATGAGAG-CCCTTGGTGGGAC
*
13707575 ATATGTGAGCCCTTGGTGGGAC
1 ATATGAGAGCCCTTGGTGGGAC
13707597 GAATAGAAGT
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
21 6 0.12
22 28 0.56
23 9 0.18
24 7 0.14
ACGTcount: A:0.23, C:0.20, G:0.31, T:0.26
Consensus pattern (22 bp):
ATATGAGAGCCCTTGGTGGGAC
Found at i:13717283 original size:10 final size:10
Alignment explanation
Indices: 13717264--13717326 Score: 56
Period size: 10 Copynumber: 5.9 Consensus size: 10
13717254 TTTATTTCTT
13717264 TTTTTCTTTC
1 TTTTTCTTTC
13717274 TTTTTCTTTC
1 TTTTTCTTTC
*
13717284 TGTTTCGTTT-
1 TTTTTC-TTTC
*
13717294 TGGTTTTGTATTCC
1 T--TTTTCT-TT-C
13717308 TTTTTCTTTC
1 TTTTTCTTTC
13717318 TTTTTCTTT
1 TTTTTCTTT
13717327 TATTTGTTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
10 26 0.60
11 6 0.14
12 10 0.23
14 1 0.02
ACGTcount: A:0.02, C:0.16, G:0.08, T:0.75
Consensus pattern (10 bp):
TTTTTCTTTC
Found at i:13718684 original size:44 final size:44
Alignment explanation
Indices: 13718565--13718738 Score: 163
Period size: 44 Copynumber: 3.9 Consensus size: 44
13718555 CATTCACATT
* * * *
13718565 TAATGCCATAGTATGTTTCAACTATGGTCTTGT-TCATTTTTCGATA
1 TAATGCCATGGTATCTTTCAACTATGGTCTT-TCTC--TTTTGGTTA
* * * * *
13718611 TAGTGTCATAGTATCTTTCAACTAGGGTCTTACTCGTTTTGGTT-
1 TAATGCCATGGTATCTTTCAACTATGGTCTTTCTC-TTTTGGTTA
* * *
13718655 TATTTCCATGGTATCTTTCAACTATGGTCTTTCTCATTTCGGTTA
1 TAATGCCATGGTATCTTTCAACTATGGTCTTTCTC-TTTTGGTTA
* *
13718700 TAATGCCATGATATCTTTCAACCATGGTCTTTCTCTTTT
1 TAATGCCATGGTATCTTTCAACTATGGTCTTTCTCTTTT
13718739 CCCAAGTTAA
Statistics
Matches: 105, Mismatches: 21, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
44 39 0.37
45 37 0.35
46 29 0.28
ACGTcount: A:0.20, C:0.18, G:0.15, T:0.47
Consensus pattern (44 bp):
TAATGCCATGGTATCTTTCAACTATGGTCTTTCTCTTTTGGTTA
Found at i:13718727 original size:45 final size:44
Alignment explanation
Indices: 13718523--13718739 Score: 156
Period size: 45 Copynumber: 4.8 Consensus size: 44
13718513 CCCGAAGTGG
* * **
13718523 TGCCATAATATCTTTCGACTATGGT-TTTCATTCA-TTCACATTTAA
1 TGCCATGATATCTTTCAACTATGGTCTTTC--TCATTTC-GGTTTAA
* * * *
13718568 TGCCAT-AGTATGTTTCAACTATGGTCTTGT-TCATTTTTCGATATAG
1 TGCCATGA-TATCTTTCAACTATGGTCTT-TCTCA--TTTCGGTTTAA
* * * * * *
13718614 TGTCAT-AGTATCTTTCAACTAGGGTCTTACTCGTTTTGGTTTAT
1 TGCCATGA-TATCTTTCAACTATGGTCTTTCTCATTTCGGTTTAA
* *
13718658 TTCCATGGTATCTTTCAACTATGGTCTTTCTCATTTCGGTTATAA
1 TGCCATGATATCTTTCAACTATGGTCTTTCTCATTTCGGTT-TAA
* *
13718703 TGCCATGATATCTTTCAACCATGGTCTTTCTCTTTTC
1 TGCCATGATATCTTTCAACTATGGTCTTTCTCATTTC
13718740 CCAAGTTAAT
Statistics
Matches: 137, Mismatches: 26, Indels: 18
0.76 0.14 0.10
Matches are distributed among these distances:
44 44 0.32
45 56 0.41
46 33 0.24
47 4 0.03
ACGTcount: A:0.21, C:0.19, G:0.14, T:0.46
Consensus pattern (44 bp):
TGCCATGATATCTTTCAACTATGGTCTTTCTCATTTCGGTTTAA
Found at i:13723149 original size:27 final size:27
Alignment explanation
Indices: 13723100--13723177 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
13723090 CAACACAATA
* *
13723100 CCATGTTTAACGTC-CTAACGGACTACC
1 CCATGTTTAATGTCTC-GACGGACTACC
* *
13723127 CCATTTTTATAT-TCTCGATGGACTACC
1 CCATGTTTA-ATGTCTCGACGGACTACC
13723154 CCATGTTTAATGTCTCGACGGACT
1 CCATGTTTAATGTCTCGACGGACT
13723178 CCAAATGTTG
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
26 2 0.05
27 38 0.90
28 2 0.05
ACGTcount: A:0.23, C:0.28, G:0.15, T:0.33
Consensus pattern (27 bp):
CCATGTTTAATGTCTCGACGGACTACC
Found at i:13726758 original size:21 final size:21
Alignment explanation
Indices: 13726732--13726777 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
13726722 AAAAGAAATT
* *
13726732 TTTTTTACTGCTTTCTTGTTG
1 TTTTTTACTGCTTTATTGTTA
* *
13726753 TTTTTTATTGTTTTATTGTTA
1 TTTTTTACTGCTTTATTGTTA
13726774 TTTT
1 TTTT
13726778 CTTGTTGTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.09, C:0.07, G:0.11, T:0.74
Consensus pattern (21 bp):
TTTTTTACTGCTTTATTGTTA
Found at i:13726782 original size:11 final size:11
Alignment explanation
Indices: 13726743--13726788 Score: 58
Period size: 11 Copynumber: 4.3 Consensus size: 11
13726733 TTTTTACTGC
13726743 TTTCTTGTTGT
1 TTTCTTGTTGT
*
13726754 TTT-TTATTGT
1 TTTCTTGTTGT
* *
13726764 TTTATTGTTAT
1 TTTCTTGTTGT
13726775 TTTCTTGTTGT
1 TTTCTTGTTGT
13726786 TTT
1 TTT
13726789 TTTCACTATT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
10 9 0.31
11 20 0.69
ACGTcount: A:0.07, C:0.04, G:0.13, T:0.76
Consensus pattern (11 bp):
TTTCTTGTTGT
Found at i:13726967 original size:16 final size:17
Alignment explanation
Indices: 13726934--13726972 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
13726924 GAAACATTTG
*
13726934 TTTTAATGTTTTAGTAT
1 TTTTAATGTATTAGTAT
*
13726951 TTTTTATGTATTA-TAT
1 TTTTAATGTATTAGTAT
13726967 TTTTAA
1 TTTTAA
13726973 AAAAATTATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.26, C:0.00, G:0.08, T:0.67
Consensus pattern (17 bp):
TTTTAATGTATTAGTAT
Found at i:13726989 original size:12 final size:12
Alignment explanation
Indices: 13726972--13727007 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
13726962 TATATTTTTA
*
13726972 AAAAAATTATAT
1 AAAAAATAATAT
*
13726984 AAAAAATAAAAT
1 AAAAAATAATAT
13726996 AAAAAATAATAT
1 AAAAAATAATAT
13727008 GGCCGGACCG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (12 bp):
AAAAAATAATAT
Found at i:13732301 original size:51 final size:51
Alignment explanation
Indices: 13732154--13732290 Score: 175
Period size: 51 Copynumber: 2.7 Consensus size: 51
13732144 CTACCATCAA
* * *
13732154 ATCTCTAAGAATATAATATCATATCTTCTAAGATTCCATATCTTAGATAAG
1 ATCTCTAAGATTATAATATCATATCTTCTAAGATTCCATATCATATATAAG
* * ** * * * *
13732205 ATATGTAATCTTATAAAATAATATCTTATAAGATTCCATATCATATCTAAG
1 ATCTCTAAGATTATAATATCATATCTTCTAAGATTCCATATCATATATAAG
13732256 ATCTCTAAGATTATAATATCATATCTTCTAAGATT
1 ATCTCTAAGATTATAATATCATATCTTCTAAGATT
13732291 AGTTACCATA
Statistics
Matches: 68, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
51 68 1.00
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.39
Consensus pattern (51 bp):
ATCTCTAAGATTATAATATCATATCTTCTAAGATTCCATATCATATATAAG
Found at i:13735103 original size:51 final size:51
Alignment explanation
Indices: 13734956--13735092 Score: 175
Period size: 51 Copynumber: 2.7 Consensus size: 51
13734946 CTACCATCAA
* * *
13734956 ATCTCTAAGAATATAATATCATATCTTCTAAGATTCCATATCTTAGATAAG
1 ATCTCTAAGATTATAATATCATATCTTCTAAGATTCCATATCATATATAAG
* * ** * * * *
13735007 ATATGTAATCTTATAAAATAATATCTTATAAGATTCCATATCATATCTAAG
1 ATCTCTAAGATTATAATATCATATCTTCTAAGATTCCATATCATATATAAG
13735058 ATCTCTAAGATTATAATATCATATCTTCTAAGATT
1 ATCTCTAAGATTATAATATCATATCTTCTAAGATT
13735093 AGTTACCATA
Statistics
Matches: 68, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
51 68 1.00
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.39
Consensus pattern (51 bp):
ATCTCTAAGATTATAATATCATATCTTCTAAGATTCCATATCATATATAAG
Found at i:13739001 original size:30 final size:29
Alignment explanation
Indices: 13738967--13739041 Score: 73
Period size: 30 Copynumber: 2.5 Consensus size: 29
13738957 AATGATAAAA
13738967 AATAAAAATCA-ACAACAATGA-TTAAATTTT
1 AATAAAAAT-ATA-AACAAT-ATTTAAATTTT
*
13738997 AATAAATAATATAAATAATATTTAAATTTT
1 AATAAA-AATATAAACAATATTTAAATTTT
*
13739027 ATTAAAAATTATAAA
1 AATAAAAA-TATAAA
13739042 AATCTTAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
29 3 0.08
30 32 0.82
31 4 0.10
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.36
Consensus pattern (29 bp):
AATAAAAATATAAACAATATTTAAATTTT
Found at i:13739043 original size:9 final size:9
Alignment explanation
Indices: 13739029--13739125 Score: 56
Period size: 9 Copynumber: 10.1 Consensus size: 9
13739019 TAAATTTTAT
13739029 TAAAAATTA
1 TAAAAATTA
13739038 TAAAAATCTTA
1 TAAAAA--TTA
*
13739049 AAAAAATTA
1 TAAAAATTA
*
13739058 T-AAAATTT
1 TAAAAATTA
13739066 TATAAAATCGTA
1 TA-AAAAT--TA
13739078 -AGAAAATTA
1 TA-AAAATTA
*
13739087 TAAAAAATA
1 TAAAAATTA
*
13739096 T-AATATTCA
1 TAAAAATT-A
13739105 TAAAAAATTTA
1 T-AAAAA-TTA
13739116 TAAAAATTA
1 TAAAAATTA
13739125 T
1 T
13739126 CGTACCAAAA
Statistics
Matches: 68, Mismatches: 9, Indels: 22
0.69 0.09 0.22
Matches are distributed among these distances:
8 11 0.16
9 24 0.35
10 11 0.16
11 19 0.28
12 3 0.04
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.34
Consensus pattern (9 bp):
TAAAAATTA
Found at i:13739072 original size:20 final size:21
Alignment explanation
Indices: 13739020--13739072 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
13739010 AATAATATTT
*
13739020 AAATTTTATTAAAAATTATAA
1 AAATTTTATAAAAAATTATAA
*
13739041 AAATCTTA-AAAAAATTAT-A
1 AAATTTTATAAAAAATTATAA
13739060 AAATTTTATAAAA
1 AAATTTTATAAAA
13739073 TCGTAAGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 8 0.29
20 13 0.46
21 7 0.25
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (21 bp):
AAATTTTATAAAAAATTATAA
Found at i:13739072 original size:29 final size:28
Alignment explanation
Indices: 13739027--13739125 Score: 92
Period size: 29 Copynumber: 3.5 Consensus size: 28
13739017 TTTAAATTTT
*
13739027 ATTA-AAAATTATAAAAATCTTAAAAAA
1 ATTATAAAATTATAAAAATCGTAAAAAA
* *
13739054 ATTATAAAATTTTATAAAATCGTAAGAAA
1 ATTATAAAATTATA-AAAATCGTAAAAAA
* * * *
13739083 ATTATAAAAAATATAATATTCATAAAAAA
1 ATTAT-AAAATTATAAAAATCGTAAAAAA
*
13739112 TTTATAAAAATTAT
1 ATTAT-AAAATTAT
13739126 CGTACCAAAA
Statistics
Matches: 58, Mismatches: 11, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
27 4 0.07
28 8 0.14
29 39 0.67
30 7 0.12
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.34
Consensus pattern (28 bp):
ATTATAAAATTATAAAAATCGTAAAAAA
Found at i:13739372 original size:8 final size:8
Alignment explanation
Indices: 13739359--13739388 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
13739349 ATTTATATAT
13739359 ATTTTAAA
1 ATTTTAAA
13739367 ATTTTAAA
1 ATTTTAAA
13739375 ATTTTTAAA
1 A-TTTTAAA
13739384 ATTTT
1 ATTTT
13739389 TATTTTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (8 bp):
ATTTTAAA
Found at i:13739382 original size:9 final size:9
Alignment explanation
Indices: 13739360--13739390 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
13739350 TTTATATATA
13739360 TTTTAAAA-
1 TTTTAAAAT
13739368 TTTTAAAAT
1 TTTTAAAAT
13739377 TTTTAAAAT
1 TTTTAAAAT
13739386 TTTTA
1 TTTTA
13739391 TTTTTTATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
TTTTAAAAT
Found at i:13741828 original size:43 final size:43
Alignment explanation
Indices: 13741762--13741910 Score: 203
Period size: 43 Copynumber: 3.5 Consensus size: 43
13741752 GGGATATACG
*
13741762 CCCGTGTGGCCAGGCTGTGTGTCTCACACGGCCAAGAGACACA
1 CCCGTGTGGCCAGGCCGTGTGTCTCACACGGCCAAGAGACACA
* * * *
13741805 CTCGTGTGGCCAGGCCGTATGTCTCACATGGCCAAGAGACACG
1 CCCGTGTGGCCAGGCCGTGTGTCTCACACGGCCAAGAGACACA
* * *
13741848 CCCGTGTGGCTAGGCCGTGTGTCTCACACGGCTAAGAGACACG
1 CCCGTGTGGCCAGGCCGTGTGTCTCACACGGCCAAGAGACACA
13741891 CCCGTGT--CTCAGGCCGTGTG
1 CCCGTGTGGC-CAGGCCGTGTG
13741911 GGCATTTAAA
Statistics
Matches: 94, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
41 1 0.01
42 10 0.11
43 83 0.88
ACGTcount: A:0.18, C:0.32, G:0.32, T:0.19
Consensus pattern (43 bp):
CCCGTGTGGCCAGGCCGTGTGTCTCACACGGCCAAGAGACACA
Found at i:13743605 original size:31 final size:31
Alignment explanation
Indices: 13743568--13743629 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
13743558 AGATAATTTT
13743568 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
13743599 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
13743630 TAATTTGCCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.42
Consensus pattern (31 bp):
AAAGAGTTTTATTAGGATTCAATTACTCTTG
Found at i:13744206 original size:21 final size:20
Alignment explanation
Indices: 13744176--13744221 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 20
13744166 AAAAAAACAG
13744176 AAAAAAGCAAAAAGCGCAAA
1 AAAAAAGCAAAAAGCGCAAA
13744196 AAAAGAAGCAAAAAGCGCAAA
1 AAAA-AAGCAAAAAGCGCAAA
13744217 AAAAA
1 AAAAA
13744222 GTTGCCTACC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 5 0.20
21 20 0.80
ACGTcount: A:0.72, C:0.13, G:0.15, T:0.00
Consensus pattern (20 bp):
AAAAAAGCAAAAAGCGCAAA
Found at i:13749808 original size:31 final size:31
Alignment explanation
Indices: 13749772--13749833 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
13749762 AGATAATTTT
13749772 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
13749803 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
13749834 TAATTTGCCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.42
Consensus pattern (31 bp):
AAAGAGTTTTATTAGGATTCAATTACTCTTG
Found at i:13752145 original size:20 final size:20
Alignment explanation
Indices: 13752122--13752160 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
13752112 TATCGACACT
*
13752122 TTTCTTAAAGTATCGATATA
1 TTTCCTAAAGTATCGATATA
*
13752142 TTTCCTAAGGTATCGATAT
1 TTTCCTAAAGTATCGATAT
13752161 TCCTGCTCCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.44
Consensus pattern (20 bp):
TTTCCTAAAGTATCGATATA
Found at i:13753542 original size:18 final size:17
Alignment explanation
Indices: 13753519--13753556 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
13753509 GGTAAGGTTA
13753519 AAATGG-TAAATAGTAAAT
1 AAATGGATAAAT--TAAAT
13753537 AAATGGATAAATTAAAT
1 AAATGGATAAATTAAAT
13753554 AAA
1 AAA
13753557 ACAAATTATC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 8 0.42
18 6 0.32
19 5 0.26
ACGTcount: A:0.61, C:0.00, G:0.13, T:0.26
Consensus pattern (17 bp):
AAATGGATAAATTAAAT
Found at i:13758115 original size:20 final size:20
Alignment explanation
Indices: 13758092--13758130 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
13758082 TATCGACACT
*
13758092 TTTCTTAAAGTATCGATATA
1 TTTCCTAAAGTATCGATATA
*
13758112 TTTCCTAAGGTATCGATAT
1 TTTCCTAAAGTATCGATAT
13758131 TCCTGCTCCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.44
Consensus pattern (20 bp):
TTTCCTAAAGTATCGATATA
Found at i:13762653 original size:32 final size:32
Alignment explanation
Indices: 13762613--13762689 Score: 147
Period size: 32 Copynumber: 2.4 Consensus size: 32
13762603 TAAATGGTCT
13762613 AATT-ACCATTTAAGTCCCTTTTCCTTTATTC
1 AATTAACCATTTAAGTCCCTTTTCCTTTATTC
13762644 AATTAACCATTTAAGTCCCTTTTCCTTTATTC
1 AATTAACCATTTAAGTCCCTTTTCCTTTATTC
13762676 AATTAACCATTTAA
1 AATTAACCATTTAA
13762690 TCACTCAAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
31 4 0.09
32 41 0.91
ACGTcount: A:0.29, C:0.23, G:0.03, T:0.45
Consensus pattern (32 bp):
AATTAACCATTTAAGTCCCTTTTCCTTTATTC
Found at i:13767807 original size:41 final size:41
Alignment explanation
Indices: 13767753--13768091 Score: 329
Period size: 41 Copynumber: 8.3 Consensus size: 41
13767743 GGGAACGTAG
* * * *
13767753 GTGCTATTCAGGGGTACCGAAGTACAAACAAGGGCACATAT
1 GTGCAATTTAGGGGTACCAAAGTACAAACAGGGGCACATAT
* * * *
13767794 GTACAATTTAGGGGTATCAAAGTACAAACAAGGGCACGTAT
1 GTGCAATTTAGGGGTACCAAAGTACAAACAGGGGCACATAT
* * * *
13767835 GTGCAATTTAGAGGTATCGAAGTACAAATAGGGGCACATAT
1 GTGCAATTTAGGGGTACCAAAGTACAAACAGGGGCACATAT
* *
13767876 GTGCAATTCAGGGGTCCCAAAGTACAAACAGGGGCACATAT
1 GTGCAATTTAGGGGTACCAAAGTACAAACAGGGGCACATAT
* *** * * **
13767917 GTGCAATTCAGGGGTATTGAAGTGCAAATAGGGGCATGTAT
1 GTGCAATTTAGGGGTACCAAAGTACAAACAGGGGCACATAT
* * * * *
13767958 GTACAACTCAAGGGTACCAAAGTACAAATAGGGGCA-ATTAT
1 GTGCAATTTAGGGGTACCAAAGTACAAACAGGGGCACA-TAT
* * * * *
13767999 GTGTAATTTAGGGGTATCAAAGTAAAAATAGGGGCACGTAT
1 GTGCAATTTAGGGGTACCAAAGTACAAACAGGGGCACATAT
* * * **
13768040 GTGCAATTTAGGGGTGCCGAAGTACAAACAAGGGCATGTAT
1 GTGCAATTTAGGGGTACCAAAGTACAAACAGGGGCACATAT
13768081 GTGCAATTTAG
1 GTGCAATTTAG
13768092 TGAATAATTA
Statistics
Matches: 246, Mismatches: 50, Indels: 4
0.82 0.17 0.01
Matches are distributed among these distances:
41 246 1.00
ACGTcount: A:0.35, C:0.14, G:0.28, T:0.23
Consensus pattern (41 bp):
GTGCAATTTAGGGGTACCAAAGTACAAACAGGGGCACATAT
Found at i:13767861 original size:82 final size:82
Alignment explanation
Indices: 13767738--13768091 Score: 395
Period size: 82 Copynumber: 4.3 Consensus size: 82
13767728 ATCAGAGTGT
* * * * * * *
13767738 AAAC-AGGGAACGTAGGTGCTATTCAGGGGTACCGAAGTACAAACAAGGGCACATATGTACAATT
1 AAACAAGGGCACGTATGTGCAATTTAGGGGTATCGAAGTACAAATAGGGGCACATATGTACAATT
* *
13767802 TAGGGGTATCAAAGTAC
66 CAGGGGTACCAAAGTAC
* *
13767819 AAACAAGGGCACGTATGTGCAATTTAGAGGTATCGAAGTACAAATAGGGGCACATATGTGCAATT
1 AAACAAGGGCACGTATGTGCAATTTAGGGGTATCGAAGTACAAATAGGGGCACATATGTACAATT
*
13767884 CAGGGGTCCCAAAGTAC
66 CAGGGGTACCAAAGTAC
* * * * * ** *
13767901 AAACAGGGGCACATATGTGCAATTCAGGGGTATTGAAGTGCAAATAGGGGCATGTATGTACAACT
1 AAACAAGGGCACGTATGTGCAATTTAGGGGTATCGAAGTACAAATAGGGGCACATATGTACAATT
*
13767966 CAAGGGTACCAAAGTAC
66 CAGGGGTACCAAAGTAC
* * ** * * * * *
13767983 AAATAGGGGCAATTATGTGTAATTTAGGGGTATCAAAGTAAAAATAGGGGCACGTATGTGCAATT
1 AAACAAGGGCACGTATGTGCAATTTAGGGGTATCGAAGTACAAATAGGGGCACATATGTACAATT
* * *
13768048 TAGGGGTGCCGAAGTAC
66 CAGGGGTACCAAAGTAC
*
13768065 AAACAAGGGCATGTATGTGCAATTTAG
1 AAACAAGGGCACGTATGTGCAATTTAG
13768092 TGAATAATTA
Statistics
Matches: 227, Mismatches: 45, Indels: 1
0.83 0.16 0.00
Matches are distributed among these distances:
81 4 0.02
82 223 0.98
ACGTcount: A:0.36, C:0.14, G:0.28, T:0.22
Consensus pattern (82 bp):
AAACAAGGGCACGTATGTGCAATTTAGGGGTATCGAAGTACAAATAGGGGCACATATGTACAATT
CAGGGGTACCAAAGTAC
Found at i:13767930 original size:21 final size:21
Alignment explanation
Indices: 13767864--13767930 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
13767854 AAGTACAAAT
13767864 AGGGGCACATATGTGCAATTC
1 AGGGGCACATATGTGCAATTC
* * * *
13767885 AGGGGTCCCA-AAGTACAA-AC
1 AGGGG-CACATATGTGCAATTC
13767905 AGGGGCACATATGTGCAATTC
1 AGGGGCACATATGTGCAATTC
13767926 AGGGG
1 AGGGG
13767931 TATTGAAGTG
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
19 3 0.09
20 12 0.34
21 17 0.49
22 3 0.09
ACGTcount: A:0.31, C:0.19, G:0.31, T:0.18
Consensus pattern (21 bp):
AGGGGCACATATGTGCAATTC
Found at i:13767981 original size:123 final size:123
Alignment explanation
Indices: 13767753--13768087 Score: 404
Period size: 123 Copynumber: 2.7 Consensus size: 123
13767743 GGGAACGTAG
* * * * *
13767753 GTGCTATTCAGGGGTACCGAAGTACAAACAAGGGCACATATGTACAATTTAGGGGTATCAAAGTA
1 GTGCAATTCAGGGGTACCAAAGTACAAACAGGGGCACATATGTGCAATTTAGGGGTATCGAAGTA
* * ** * *
13767818 CAAACAAGGGCACGTATGTGCAATTTAGAGGTATCGAAGTACAAATAGGGGCACA-TAT
66 CAAACAAGGGCATGTATGTACAATCAAGAGGTACCAAAGTACAAATAGGGGCA-ATTAT
* * * *
13767876 GTGCAATTCAGGGGTCCCAAAGTACAAACAGGGGCACATATGTGCAATTCAGGGGTATTGAAGTG
1 GTGCAATTCAGGGGTACCAAAGTACAAACAGGGGCACATATGTGCAATTTAGGGGTATCGAAGTA
* *
13767941 CAAATAGGGGCATGTATGTACAACTCAAG-GGTACCAAAGTACAAATAGGGGCAATTAT
66 CAAACAAGGGCATGTATGTACAA-TCAAGAGGTACCAAAGTACAAATAGGGGCAATTAT
* * * * * * **
13767999 GTGTAATTTAGGGGTATCAAAGTAAAAATAGGGGCACGTATGTGCAATTTAGGGGTGCCGAAGTA
1 GTGCAATTCAGGGGTACCAAAGTACAAACAGGGGCACATATGTGCAATTTAGGGGTATCGAAGTA
*
13768064 CAAACAAGGGCATGTATGTGCAAT
66 CAAACAAGGGCATGTATGTACAAT
13768088 TTAGTGAATA
Statistics
Matches: 178, Mismatches: 32, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
122 2 0.01
123 173 0.97
124 3 0.02
ACGTcount: A:0.35, C:0.15, G:0.28, T:0.22
Consensus pattern (123 bp):
GTGCAATTCAGGGGTACCAAAGTACAAACAGGGGCACATATGTGCAATTTAGGGGTATCGAAGTA
CAAACAAGGGCATGTATGTACAATCAAGAGGTACCAAAGTACAAATAGGGGCAATTAT
Found at i:13769902 original size:21 final size:21
Alignment explanation
Indices: 13769861--13769902 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
13769851 TGAAAAGGAC
*
13769861 TAAATTGGAAATTAAATTAAT
1 TAAATTGGAAATTAAACTAAT
*
13769882 TAAATATGGAAA-TAAGCTAAT
1 TAAAT-TGGAAATTAAACTAAT
13769903 ATCATCTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.52, C:0.02, G:0.12, T:0.33
Consensus pattern (21 bp):
TAAATTGGAAATTAAACTAAT
Found at i:13770920 original size:25 final size:24
Alignment explanation
Indices: 13770884--13770936 Score: 79
Period size: 25 Copynumber: 2.2 Consensus size: 24
13770874 ACATACTGTA
13770884 GCTCTTTATGAGCATCCTGATATAG
1 GCTCTTTATGAGCATCCTGATAT-G
* *
13770909 GCTCTTTGTGAGCTTCCTGATATG
1 GCTCTTTATGAGCATCCTGATATG
13770933 GCTC
1 GCTC
13770937 GCTTGAACTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 5 0.19
25 21 0.81
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.38
Consensus pattern (24 bp):
GCTCTTTATGAGCATCCTGATATG
Found at i:13775923 original size:24 final size:24
Alignment explanation
Indices: 13775896--13775947 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
13775886 ACTCTAATCA
* *
13775896 AACCAAACCGGTTAAGTTTTCCCT
1 AACCAAACCAGTTAACTTTTCCCT
* *
13775920 AACC-AGCCATTTAACTTTTCCCT
1 AACCAAACCAGTTAACTTTTCCCT
13775943 AACCA
1 AACCA
13775948 GCTACTTAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
23 19 0.83
24 4 0.17
ACGTcount: A:0.31, C:0.33, G:0.08, T:0.29
Consensus pattern (24 bp):
AACCAAACCAGTTAACTTTTCCCT
Found at i:13775956 original size:23 final size:23
Alignment explanation
Indices: 13775907--13775956 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
13775897 ACCAAACCGG
* *
13775907 TTAAGTTTTCCCTAACCAGCCAT
1 TTAACTTTTCCCTAACCAGCCAC
*
13775930 TTAACTTTTCCCTAACCAGCTAC
1 TTAACTTTTCCCTAACCAGCCAC
13775953 TTAA
1 TTAA
13775957 GTTTCTAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.28, C:0.30, G:0.06, T:0.36
Consensus pattern (23 bp):
TTAACTTTTCCCTAACCAGCCAC
Found at i:13780571 original size:27 final size:26
Alignment explanation
Indices: 13780531--13780612 Score: 92
Period size: 27 Copynumber: 3.0 Consensus size: 26
13780521 AATATGTCAG
*
13780531 GAAAGAAAAGCCTTTGTGGCGAAATAT
1 GAAAGAAAA-CCTTTGTGGCGAATTAT
* *
13780558 GAAAGAAGAACCTTTGTAGCGCATTAT
1 GAAAGAA-AACCTTTGTGGCGAATTAT
* *
13780585 GAAAGGAACACCTTTGTGGTGAATTAT
1 GAAA-GAAAACCTTTGTGGCGAATTAT
13780612 G
1 G
13780613 GAGGGATAGC
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
27 41 0.89
28 5 0.11
ACGTcount: A:0.37, C:0.12, G:0.26, T:0.26
Consensus pattern (26 bp):
GAAAGAAAACCTTTGTGGCGAATTAT
Found at i:13784530 original size:16 final size:16
Alignment explanation
Indices: 13784509--13784540 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
13784499 TGATTGAAAG
13784509 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
13784525 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
13784541 GCAACAAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.12, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:13794856 original size:121 final size:121
Alignment explanation
Indices: 13794609--13794890 Score: 307
Period size: 121 Copynumber: 2.3 Consensus size: 121
13794599 TGGTCCATTG
* * ** *
13794609 AGACATTAAATACGGGGTAGTTCG-CTAGAACGTTAAACATAGGGTATATTTTGTAAGACCGTAG
1 AGACATTAAATACGGGGTAG-TCGACTAGGACGTTAAACATAAGGTATATAGTGTAAGACCATAG
* * * *
13794673 CTCAACTATGGCAGCATTTGGAGTTCGTTGAGACATTAATCACAGGGAAATTTGCTA
65 CTCAACTATGACAACATTTGGAGTCCGTCGAGACATTAATCACAGGGAAATTTGCTA
* * *
13794730 AGACATTAAATATGGGGTAGTCGACCAGGACGTGAAACATAAGGTATATAGTGTAAGACCATAGC
1 AGACATTAAATACGGGGTAGTCGACTAGGACGTTAAACATAAGGTATATAGTGTAAGACCATAGC
** * * * * * * *
13794795 TCGGCTATGACAATATTTGGAGTCCGTCGGGACATTAAAT-ACGGGGTAGTTTGTTG
66 TCAACTATGACAACATTTGGAGTCCGTCGAGACATT-AATCACAGGGAAATTTGCTA
* * * *
13794851 GGACATTAAATACGGAGTAGTCTACTAGGACATTAAACAT
1 AGACATTAAATACGGGGTAGTCGACTAGGACGTTAAACAT
13794891 GGGGTTAGGT
Statistics
Matches: 131, Mismatches: 28, Indels: 4
0.80 0.17 0.02
Matches are distributed among these distances:
120 3 0.02
121 125 0.95
122 3 0.02
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (121 bp):
AGACATTAAATACGGGGTAGTCGACTAGGACGTTAAACATAAGGTATATAGTGTAAGACCATAGC
TCAACTATGACAACATTTGGAGTCCGTCGAGACATTAATCACAGGGAAATTTGCTA
Found at i:13794881 original size:27 final size:27
Alignment explanation
Indices: 13794824--13794887 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 27
13794814 GAGTCCGTCG
* * ** *
13794824 GGACATTAAATACGGGGTAGTTTGTTG
1 GGACATTAAATACGGAGTAGTCTACTA
13794851 GGACATTAAATACGGAGTAGTCTACTA
1 GGACATTAAATACGGAGTAGTCTACTA
13794878 GGACATTAAA
1 GGACATTAAA
13794888 CATGGGGTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.34, C:0.11, G:0.27, T:0.28
Consensus pattern (27 bp):
GGACATTAAATACGGAGTAGTCTACTA
Found at i:13805977 original size:17 final size:17
Alignment explanation
Indices: 13805955--13805988 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
13805945 TGCTTGGTAA
13805955 GAAAGATAAAAAA-AATT
1 GAAAGA-AAAAAATAATT
13805972 GAAAGAAAAAAATAATT
1 GAAAGAAAAAAATAATT
13805989 TTCTTTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.71, C:0.00, G:0.12, T:0.18
Consensus pattern (17 bp):
GAAAGAAAAAAATAATT
Found at i:13806492 original size:2 final size:2
Alignment explanation
Indices: 13806487--13806541 Score: 101
Period size: 2 Copynumber: 27.5 Consensus size: 2
13806477 ACACACACAC
*
13806487 AG AG AG AG AG AA AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
13806529 AG AG AG AG AG AG A
1 AG AG AG AG AG AG A
13806542 ACAATGCCTT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:13811071 original size:30 final size:30
Alignment explanation
Indices: 13811025--13811113 Score: 116
Period size: 25 Copynumber: 3.1 Consensus size: 30
13811015 ATTTCTTATG
*
13811025 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
13811056 CCAATATTTGATACCCATATCTTTGAC-TT
1 CCAATATTTGATACCCATATCTTTGACTTT
*
13811085 ----TATTTGATACTCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
13811111 CCA
1 CCA
13811114 TAAATATGGA
Statistics
Matches: 52, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
25 22 0.42
26 2 0.04
29 2 0.04
30 19 0.37
31 7 0.13
ACGTcount: A:0.26, C:0.25, G:0.07, T:0.43
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:13811080 original size:15 final size:15
Alignment explanation
Indices: 13811035--13811081 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
13811025 CCAATATCTC
13811035 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
13811050 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
13811065 GATACCCATATCTTT
1 GATACCCATATCTTT
13811080 GA
1 GA
13811082 CTTTATTTGA
Statistics
Matches: 24, Mismatches: 6, Indels: 4
0.71 0.18 0.12
Matches are distributed among these distances:
14 4 0.17
15 16 0.67
16 4 0.17
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:13817373 original size:13 final size:14
Alignment explanation
Indices: 13817330--13817380 Score: 63
Period size: 13 Copynumber: 3.9 Consensus size: 14
13817320 ATTTTGTACA
13817330 AAAATATTAAATTT
1 AAAATATTAAATTT
*
13817344 AAAA-ATTAAATTA
1 AAAATATTAAATTT
*
13817357 AAAATATT-AGTTT
1 AAAATATTAAATTT
13817370 AAAATA-TAAAT
1 AAAATATTAAAT
13817381 CGAATTCGAA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
12 1 0.03
13 23 0.74
14 7 0.23
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (14 bp):
AAAATATTAAATTT
Found at i:13817402 original size:7 final size:7
Alignment explanation
Indices: 13817390--13817472 Score: 125
Period size: 7 Copynumber: 11.9 Consensus size: 7
13817380 TCGAATTCGA
13817390 ATTTAAT
1 ATTTAAT
13817397 ATTTAAT
1 ATTTAAT
13817404 ATTTAAT
1 ATTTAAT
13817411 ATTTAAT
1 ATTTAAT
13817418 ATTTAAT
1 ATTTAAT
13817425 ATTTAAT
1 ATTTAAT
13817432 ATTTAAT
1 ATTTAAT
13817439 ATTTAA-
1 ATTTAAT
13817445 AGTTTAA-
1 A-TTTAAT
13817452 ATTTAAT
1 ATTTAAT
13817459 ATATTAAT
1 AT-TTAAT
*
13817467 TTTTAA
1 ATTTAA
13817473 GTTTATAATA
Statistics
Matches: 72, Mismatches: 1, Indels: 6
0.91 0.01 0.08
Matches are distributed among these distances:
6 6 0.08
7 60 0.83
8 6 0.08
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.55
Consensus pattern (7 bp):
ATTTAAT
Found at i:13819935 original size:21 final size:23
Alignment explanation
Indices: 13819904--13819945 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
13819894 ACACCAATTT
13819904 TTTTAAAAAATAA-AAAAATATA
1 TTTTAAAAAATAACAAAAATATA
13819926 TTTT-AAAAATAACAAAAATA
1 TTTTAAAAAATAACAAAAATA
13819946 AAAAATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (23 bp):
TTTTAAAAAATAACAAAAATATA
Found at i:13836433 original size:52 final size:53
Alignment explanation
Indices: 13836357--13836487 Score: 185
Period size: 52 Copynumber: 2.5 Consensus size: 53
13836347 TCCATCTTAT
* * *
13836357 TTTCGATTTGTCAAGGATTATATCTTATTTTTGA-TTTCTTCTATTTTTCATA
1 TTTCAATTTGTCAAGGATTATATCTTAATTTTCATTTTCTTCTATTTTTCATA
* *
13836409 TTTCAATTTATCAAGGATTATATC-TAATTTTCATTTTCTTCTATTTTTCATC
1 TTTCAATTTGTCAAGGATTATATCTTAATTTTCATTTTCTTCTATTTTTCATA
* *
13836461 TTTCAATTTGTCAATGATTATTTCTTA
1 TTTCAATTTGTCAAGGATTATATCTTA
13836488 GATGGTTGAT
Statistics
Matches: 69, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
51 7 0.10
52 60 0.87
53 2 0.03
ACGTcount: A:0.24, C:0.13, G:0.07, T:0.56
Consensus pattern (53 bp):
TTTCAATTTGTCAAGGATTATATCTTAATTTTCATTTTCTTCTATTTTTCATA
Found at i:13836456 original size:17 final size:18
Alignment explanation
Indices: 13836431--13836464 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
13836421 AAGGATTATA
13836431 TCTAATTTTCAT-TTTCT
1 TCTAATTTTCATCTTTCT
*
13836448 TCTATTTTTCATCTTTC
1 TCTAATTTTCATCTTTC
13836465 AATTTGTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.15, C:0.21, G:0.00, T:0.65
Consensus pattern (18 bp):
TCTAATTTTCATCTTTCT
Found at i:13842800 original size:20 final size:20
Alignment explanation
Indices: 13842775--13842814 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
13842765 CGTAAAATAA
*
13842775 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
13842795 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
13842815 GGAAATTACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:13844978 original size:6 final size:7
Alignment explanation
Indices: 13844961--13844986 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
13844951 AAAAACCATA
13844961 AAAAATT
1 AAAAATT
13844968 AAAAATT
1 AAAAATT
13844975 AAAAATT
1 AAAAATT
13844982 AAAAA
1 AAAAA
13844987 GAGGGATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (7 bp):
AAAAATT
Found at i:13850871 original size:40 final size:39
Alignment explanation
Indices: 13850773--13851035 Score: 278
Period size: 40 Copynumber: 6.6 Consensus size: 39
13850763 TCCTCGTTCA
* * * *
13850773 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
13850812 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
13850851 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
13850891 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
13850931 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
13850971 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
13851012 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
13851036 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 40 0.20
40 145 0.74
41 12 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:13850995 original size:120 final size:119
Alignment explanation
Indices: 13850773--13851035 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 119
13850763 TCCTCGTTCA
* * *
13850773 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
* * *
13850838 TAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAAC-TCGCAC
66 TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
* * * * *
13850891 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGG-
* * ** * *
13850956 ATTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
63 ATTTAATAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAATAACTTAGCAC
*
13851012 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
13851036 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 37 0.31
120 75 0.62
121 9 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
Found at i:13851044 original size:41 final size:41
Alignment explanation
Indices: 13850967--13851044 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
13850957 TTTGTATCTC
* * *
13850967 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
13851008 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
13851045 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:13858820 original size:40 final size:40
Alignment explanation
Indices: 13858720--13858891 Score: 213
Period size: 40 Copynumber: 4.3 Consensus size: 40
13858710 GCTCCTCGTT
* * *
13858720 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
**
13858760 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
13858799 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
13858839 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
13858879 CAAATGCCTTCGG
1 CAAATGCCTTCGG
13858892 ATCTTAGTCC
Statistics
Matches: 117, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
39 34 0.29
40 79 0.68
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:13858904 original size:80 final size:79
Alignment explanation
Indices: 13858720--13858944 Score: 231
Period size: 80 Copynumber: 2.8 Consensus size: 79
13858710 GCTCCTCGTT
* * * * *
13858720 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
13858784 ATTTAACAACTCGCA
65 ATTTAACAACTCGCA
* * *
13858799 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
** *
13858864 AATTT-GTATCTCGCA
64 AATTTAACAACTCGCA
* * * * *
13858879 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
13858943 GA
63 GA
13858945 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
78 1 0.01
79 39 0.32
80 68 0.56
81 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAACAACTCGCA
Found at i:13858953 original size:41 final size:41
Alignment explanation
Indices: 13858876--13858953 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
13858866 TTTGTATCTC
* * *
13858876 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
13858917 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
13858954 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:13860676 original size:10 final size:9
Alignment explanation
Indices: 13860639--13860684 Score: 65
Period size: 9 Copynumber: 5.0 Consensus size: 9
13860629 TTAAATTTTT
13860639 TAAAATATA
1 TAAAATATA
*
13860648 TAAAATTTA
1 TAAAATATA
*
13860657 AAAAATATA
1 TAAAATATA
13860666 TAAAATAATA
1 TAAAAT-ATA
13860676 TAAAATATA
1 TAAAATATA
13860685 AAATAATTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
9 23 0.72
10 9 0.28
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (9 bp):
TAAAATATA
Found at i:13865993 original size:31 final size:31
Alignment explanation
Indices: 13865932--13866008 Score: 109
Period size: 31 Copynumber: 2.4 Consensus size: 31
13865922 TGAAAAAGTT
* *
13865932 AATATTTTTTGGTGTTTGGATAAATTTGTATAA
1 AATATTTTCT-GT-TTTGGATAAATCTGTATAA
*
13865965 AATATTTTCTGTTTTGGATGAATCTGTATAA
1 AATATTTTCTGTTTTGGATAAATCTGTATAA
13865996 AATATTTTCTGTT
1 AATATTTTCTGTT
13866009 ATTTGACAGA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
31 30 0.73
32 2 0.05
33 9 0.22
ACGTcount: A:0.29, C:0.04, G:0.16, T:0.52
Consensus pattern (31 bp):
AATATTTTCTGTTTTGGATAAATCTGTATAA
Found at i:13869490 original size:41 final size:41
Alignment explanation
Indices: 13869431--13869649 Score: 357
Period size: 41 Copynumber: 5.3 Consensus size: 41
13869421 TTATTCTGTA
*
13869431 TAAGTGCCAGTGAACTGAATCAGGCTATAAGCCTAGCAGGC
1 TAAGTGCCGGTGAACTGAATCAGGCTATAAGCCTAGCAGGC
*
13869472 TAAGTGCCGGTGATCTGAATCAGGCTATAAGCCTAGCAGGC
1 TAAGTGCCGGTGAACTGAATCAGGCTATAAGCCTAGCAGGC
13869513 TAAGTGCCGGTGAACTGAATCAGGCTATAAGCCTAGCAGGC
1 TAAGTGCCGGTGAACTGAATCAGGCTATAAGCCTAGCAGGC
*
13869554 TAAGTGCCGGTGAACTGGATCAGGCTATAAGCCTAGCAGGC
1 TAAGTGCCGGTGAACTGAATCAGGCTATAAGCCTAGCAGGC
* * * * *
13869595 TAAGTGCCGGTGATCTAAATCAGGCTTTAAGCCTAACAAGC
1 TAAGTGCCGGTGAACTGAATCAGGCTATAAGCCTAGCAGGC
*
13869636 TAAGTGCCAGTGAA
1 TAAGTGCCGGTGAA
13869650 TCTGTTTAAA
Statistics
Matches: 166, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 166 1.00
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.21
Consensus pattern (41 bp):
TAAGTGCCGGTGAACTGAATCAGGCTATAAGCCTAGCAGGC
Found at i:13881308 original size:19 final size:18
Alignment explanation
Indices: 13881284--13881323 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
13881274 CAAGATTTAT
13881284 CATTTCATATTCCATTCCA
1 CATTTCAT-TTCCATTCCA
* *
13881303 CATTTCATTTTCATTTCA
1 CATTTCATTTCCATTCCA
13881321 CAT
1 CAT
13881324 ACTTTGCCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.25, C:0.28, G:0.00, T:0.47
Consensus pattern (18 bp):
CATTTCATTTCCATTCCA
Found at i:13884070 original size:26 final size:26
Alignment explanation
Indices: 13884041--13884098 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
13884031 TTTATTTATT
* *
13884041 TAAACTATACTATTAAAAATAATAGA
1 TAAAATATACTATAAAAAATAATAGA
* * *
13884067 TAAAATTTTCTCTAAAAAATAATAGA
1 TAAAATATACTATAAAAAATAATAGA
13884093 TAAAAT
1 TAAAAT
13884099 CATATCAATA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.57, C:0.07, G:0.03, T:0.33
Consensus pattern (26 bp):
TAAAATATACTATAAAAAATAATAGA
Found at i:13884197 original size:17 final size:16
Alignment explanation
Indices: 13884157--13884203 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
13884147 CACAACTAAG
13884157 TATATTAGTTATAAATAA
1 TATATTA-TT-TAAATAA
13884175 TATATTATATTAAATCAA
1 TATATTAT-TTAAAT-AA
13884193 T-TATTATTTAA
1 TATATTATTTAA
13884204 TTAGTGTTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
16 4 0.15
17 12 0.44
18 11 0.41
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (16 bp):
TATATTATTTAAATAA
Found at i:13884900 original size:30 final size:30
Alignment explanation
Indices: 13884866--13884925 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
13884856 AATTTTAATT
13884866 TATCTTTAAATTATTTTATTTTCTAAAATA
1 TATCTTTAAATTATTTTATTTTCTAAAATA
13884896 TATCTTTAAATTATTTTATTTTCTAAAATA
1 TATCTTTAAATTATTTTATTTTCTAAAATA
13884926 ATACAATTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.57
Consensus pattern (30 bp):
TATCTTTAAATTATTTTATTTTCTAAAATA
Found at i:13886505 original size:13 final size:13
Alignment explanation
Indices: 13886485--13886544 Score: 68
Period size: 13 Copynumber: 4.6 Consensus size: 13
13886475 AGCTTGGTTA
13886485 TATATTTTAAAAG
1 TATATTTTAAAAG
* *
13886498 TTTATTTTTAAAG
1 TATATTTTAAAAG
13886511 TATATCTTTAAAAG
1 TATAT-TTTAAAAG
* *
13886525 T-TTTTTTGAAAG
1 TATATTTTAAAAG
13886537 TATATTTT
1 TATATTTT
13886545 TTAAAAGATA
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
12 8 0.21
13 22 0.58
14 8 0.21
ACGTcount: A:0.35, C:0.02, G:0.08, T:0.55
Consensus pattern (13 bp):
TATATTTTAAAAG
Found at i:13886522 original size:27 final size:25
Alignment explanation
Indices: 13886485--13886544 Score: 93
Period size: 26 Copynumber: 2.3 Consensus size: 25
13886475 AGCTTGGTTA
*
13886485 TATATTTTAAAAGTTTATTTTTAAAG
1 TATATTTTAAAAGTTT-TTTTGAAAG
13886511 TATATCTTTAAAAGTTTTTTTGAAAG
1 TATAT-TTTAAAAGTTTTTTTGAAAG
13886537 TATATTTT
1 TATATTTT
13886545 TTAAAAGATA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
25 3 0.09
26 18 0.56
27 11 0.34
ACGTcount: A:0.35, C:0.02, G:0.08, T:0.55
Consensus pattern (25 bp):
TATATTTTAAAAGTTTTTTTGAAAG
Found at i:13886547 original size:27 final size:28
Alignment explanation
Indices: 13886483--13886551 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
13886473 TTAGCTTGGT
* *
13886483 TATATATTTTAAAAGTTTATTTTTAAAG
1 TATATTTTTTAAAAGTTTATTTTGAAAG
*
13886511 TATA-TCTTTAAAAGTTT-TTTTGAAAG
1 TATATTTTTTAAAAGTTTATTTTGAAAG
13886537 TATATTTTTTAAAAG
1 TATATTTTTTAAAAG
13886552 ATAACATAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
26 12 0.33
27 20 0.56
28 4 0.11
ACGTcount: A:0.38, C:0.01, G:0.09, T:0.52
Consensus pattern (28 bp):
TATATTTTTTAAAAGTTTATTTTGAAAG
Found at i:13886875 original size:17 final size:18
Alignment explanation
Indices: 13886842--13886876 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
13886832 AAGTTGAAGC
13886842 AAAATAATTATACATTTA
1 AAAATAATTATACATTTA
13886860 AAAATAATTATA-ATTTA
1 AAAATAATTATACATTTA
13886877 TTAAAAGTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (18 bp):
AAAATAATTATACATTTA
Found at i:13887034 original size:6 final size:6
Alignment explanation
Indices: 13887023--13887062 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
13887013 AAAAATTAAA
* *
13887023 TATAAT TATAAT TTTAAC TATAAT TATAA- TATAAT TATAA
1 TATAAT TATAAT TATAAT TATAAT TATAAT TATAAT TATAA
13887063 AAAAATTGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 5 0.17
6 24 0.83
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (6 bp):
TATAAT
Found at i:13887039 original size:18 final size:18
Alignment explanation
Indices: 13887018--13887052 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
13887008 AAGAAAAAAA
13887018 TTAAATATAATTATAATT
1 TTAAATATAATTATAATT
*
13887036 TTAACTATAATTATAAT
1 TTAAATATAATTATAAT
13887053 ATAATTATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (18 bp):
TTAAATATAATTATAATT
Found at i:13889735 original size:6 final size:6
Alignment explanation
Indices: 13889724--13889759 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
13889714 TTTGTCTAAT
13889724 TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG
13889760 ATGCTGTAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (6 bp):
TATATG
Found at i:13892193 original size:31 final size:29
Alignment explanation
Indices: 13892124--13892197 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
13892114 ACAACATGAT
**
13892124 AACATAAGTGACTAAAACGTAACATTTCA
1 AACATAAGTGACTAAAACGTAACATACCA
*
13892153 AACATAAGTGACTAAAATGTAACATGAACCA
1 AACATAAGTGACTAAAACGTAACAT--ACCA
*
13892184 AACAAAAGTGACTA
1 AACATAAGTGACTA
13892198 TTTTAATAGT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 24 0.62
31 15 0.38
ACGTcount: A:0.51, C:0.16, G:0.12, T:0.20
Consensus pattern (29 bp):
AACATAAGTGACTAAAACGTAACATACCA
Found at i:13894550 original size:8 final size:8
Alignment explanation
Indices: 13894537--13894561 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
13894527 AAATAGCAGA
13894537 AGAAATTG
1 AGAAATTG
13894545 AGAAATTG
1 AGAAATTG
13894553 AGAAATTG
1 AGAAATTG
13894561 A
1 A
13894562 ACACACAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (8 bp):
AGAAATTG
Found at i:13897876 original size:19 final size:20
Alignment explanation
Indices: 13897852--13897889 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
13897842 CCCCTTGGAC
13897852 AAATC-ATCAAAAACAAAAA
1 AAATCAATCAAAAACAAAAA
*
13897871 AAATCAATCAAAATCAAAA
1 AAATCAATCAAAAACAAAA
13897890 CAAACCCTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.71, C:0.16, G:0.00, T:0.13
Consensus pattern (20 bp):
AAATCAATCAAAAACAAAAA
Found at i:13898575 original size:3 final size:3
Alignment explanation
Indices: 13898567--13898597 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
13898557 TTGTAGGTTG
13898567 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
13898598 CTTCTTCTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:13908231 original size:12 final size:11
Alignment explanation
Indices: 13908214--13908288 Score: 51
Period size: 12 Copynumber: 6.3 Consensus size: 11
13908204 GATAAGAAGA
13908214 AATAATGAAAAT
1 AATAAT-AAAAT
13908226 AATAATAACAAT
1 AATAATAA-AAT
*
13908238 AATAGTACAAAT
1 AATAATA-AAAT
* *
13908250 AATAATAGGATT
1 AATAATA-AAAT
13908262 AATAAATAAGAAT
1 AAT-AATAA-AAT
* *
13908275 AATATTAAATT
1 AATAATAAAAT
13908286 AAT
1 AAT
13908289 TAGTAAAAGG
Statistics
Matches: 50, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
11 7 0.14
12 33 0.66
13 10 0.20
ACGTcount: A:0.61, C:0.03, G:0.07, T:0.29
Consensus pattern (11 bp):
AATAATAAAAT
Found at i:13914275 original size:114 final size:114
Alignment explanation
Indices: 13914157--13914549 Score: 615
Period size: 114 Copynumber: 3.4 Consensus size: 114
13914147 GTTTATTTGT
* * *
13914157 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCATTTGGTCTAGAGGTTTATTAGAATTAGTGGC
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
* *
13914222 GCTTATGAAAAAACGCCGCTAAATCACAGAATTAGCAGCGCATTATAAA
66 GCTTATGGAAAAACGCCGCTAAAGCACAGAATTAGCAGCGCATTATAAA
* *
13914271 AAGCGCCTCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTCGTGGC
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
*
13914336 GCTTATGGAAAAACGCCGCTAAAGCACAGCATTAGCAGCGCATTATAAA
66 GCTTATGGAAAAACGCCGCTAAAGCACAGAATTAGCAGCGCATTATAAA
** * *
13914385 AAGCGCAACAAAATATCTTAACCAAAACGCAACGTTTGGTCTTGAGGTAAATTAGAATTAGTGGC
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
* * *
13914450 GCTTATGGAAAAACGCCACTAAAGCACAGAATTAGCGGCACATTATAAA
66 GCTTATGGAAAAACGCCGCTAAAGCACAGAATTAGCAGCGCATTATAAA
* * * *
13914499 AAGCGCTGCAAAATATCTTATCCAAAGCGCAGTGTTTGGTCTTGAGGTATA
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATA
13914550 GAGCCAATAG
Statistics
Matches: 255, Mismatches: 24, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
114 255 1.00
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.24
Consensus pattern (114 bp):
AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
GCTTATGGAAAAACGCCGCTAAAGCACAGAATTAGCAGCGCATTATAAA
Found at i:13915241 original size:21 final size:21
Alignment explanation
Indices: 13915168--13915243 Score: 84
Period size: 21 Copynumber: 3.6 Consensus size: 21
13915158 TTTGGCTAGT
* *
13915168 TTTAGGGTTTAAAGTTTATGA
1 TTTAGGGTTTAATGTTTATGG
*
13915189 TTTGGTGGTTGT--TGTTTATGG
1 TTTAG-GGTT-TAATGTTTATGG
13915210 TTTATGGGTTTAATGTTTATGG
1 TTTA-GGGTTTAATGTTTATGG
13915232 TTTAGGGTTTAA
1 TTTAGGGTTTAA
13915244 GATTTACGAT
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
20 1 0.02
21 26 0.57
22 18 0.39
23 1 0.02
ACGTcount: A:0.18, C:0.00, G:0.29, T:0.53
Consensus pattern (21 bp):
TTTAGGGTTTAATGTTTATGG
Found at i:13915334 original size:7 final size:7
Alignment explanation
Indices: 13915322--13915377 Score: 58
Period size: 7 Copynumber: 8.0 Consensus size: 7
13915312 GTTAATTAAT
13915322 GGGTTTA
1 GGGTTTA
13915329 GGGTTTA
1 GGGTTTA
** *
13915336 TAGTTTG
1 GGGTTTA
*
13915343 GGGTTTG
1 GGGTTTA
13915350 GGGTTTA
1 GGGTTTA
13915357 GGGTTTA
1 GGGTTTA
**
13915364 TAGTTTA
1 GGGTTTA
13915371 GGGTTTA
1 GGGTTTA
13915378 AGATTTACGG
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
7 39 1.00
ACGTcount: A:0.14, C:0.00, G:0.39, T:0.46
Consensus pattern (7 bp):
GGGTTTA
Found at i:13915361 original size:28 final size:28
Alignment explanation
Indices: 13915322--13915376 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
13915312 GTTAATTAAT
*
13915322 GGGTTTAGGGTTTATAGTTTGGGGTTTG
1 GGGTTTAGGGTTTATAGTTTAGGGTTTG
13915350 GGGTTTAGGGTTTATAGTTTAGGGTTT
1 GGGTTTAGGGTTTATAGTTTAGGGTTT
13915377 AAGATTTACG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.13, C:0.00, G:0.40, T:0.47
Consensus pattern (28 bp):
GGGTTTAGGGTTTATAGTTTAGGGTTTG
Found at i:13915384 original size:21 final size:21
Alignment explanation
Indices: 13915345--13915384 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
13915335 ATAGTTTGGG
* * *
13915345 GTTTGGGGTTTAGGGTTTATA
1 GTTTAGGGTTTAAGATTTATA
13915366 GTTTAGGGTTTAAGATTTA
1 GTTTAGGGTTTAAGATTTA
13915385 CGGTTAAGGC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.33, T:0.47
Consensus pattern (21 bp):
GTTTAGGGTTTAAGATTTATA
Found at i:13915384 original size:28 final size:28
Alignment explanation
Indices: 13915325--13915389 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
13915315 AATTAATGGG
* ** *
13915325 TTTAGGGTTTATAGTTTGGGGTTTGGGG
1 TTTAGGGTTTATAGTTTAGGGTTTAAGA
13915353 TTTAGGGTTTATAGTTTAGGGTTTAAGA
1 TTTAGGGTTTATAGTTTAGGGTTTAAGA
*
13915381 TTTACGGTT
1 TTTAGGGTT
13915390 AAGGCTTACA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.17, C:0.02, G:0.34, T:0.48
Consensus pattern (28 bp):
TTTAGGGTTTATAGTTTAGGGTTTAAGA
Found at i:13915389 original size:14 final size:14
Alignment explanation
Indices: 13915324--13915377 Score: 72
Period size: 14 Copynumber: 3.9 Consensus size: 14
13915314 TAATTAATGG
13915324 GTTTAGGGTTTATA
1 GTTTAGGGTTTATA
* ***
13915338 GTTTGGGGTTTGGG
1 GTTTAGGGTTTATA
13915352 GTTTAGGGTTTATA
1 GTTTAGGGTTTATA
13915366 GTTTAGGGTTTA
1 GTTTAGGGTTTA
13915378 AGATTTACGG
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.15, C:0.00, G:0.37, T:0.48
Consensus pattern (14 bp):
GTTTAGGGTTTATA
Found at i:13915533 original size:15 final size:16
Alignment explanation
Indices: 13915513--13915548 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
13915503 GATATTTTTG
*
13915513 AATATAAATGTAAA-T
1 AATATAAATATAAATT
13915528 AATATAAATATAAATT
1 AATATAAATATAAATT
13915544 AATAT
1 AATAT
13915549 TTTAAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (16 bp):
AATATAAATATAAATT
Found at i:13915789 original size:21 final size:20
Alignment explanation
Indices: 13915749--13915786 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
13915739 AATATATTGA
*
13915749 TGTATTTATTTTTTAAAATG
1 TGTAATTATTTTTTAAAATG
13915769 TGTAATTATTTTTTAAAA
1 TGTAATTATTTTTTAAAA
13915787 ATGCATTACT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (20 bp):
TGTAATTATTTTTTAAAATG
Found at i:13916444 original size:17 final size:15
Alignment explanation
Indices: 13916410--13916438 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
13916400 AAATTTGAAT
13916410 ATTGATAGTATTTAA
1 ATTGATAGTATTTAA
13916425 ATTGATAGTATTTA
1 ATTGATAGTATTTA
13916439 TAAATTTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.48
Consensus pattern (15 bp):
ATTGATAGTATTTAA
Found at i:13916454 original size:16 final size:16
Alignment explanation
Indices: 13916392--13916461 Score: 50
Period size: 16 Copynumber: 3.9 Consensus size: 16
13916382 CGCCGCAAAC
13916392 ATATTTATAAATTTGA
1 ATATTTATAAATTTGA
*
13916408 ATATTGATAGTATTTAAATTGA
1 ATATT--TA-TA---AATTTGA
13916430 TAGTATTTATAAATTTGA
1 -A-TATTTATAAATTTGA
*
13916448 ATATTTAGAAATTT
1 ATATTTATAAATTT
13916462 ATTAAATTTG
Statistics
Matches: 43, Mismatches: 3, Indels: 16
0.69 0.05 0.26
Matches are distributed among these distances:
16 17 0.40
17 1 0.02
18 8 0.19
19 2 0.05
21 2 0.05
22 8 0.19
23 1 0.02
24 4 0.09
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (16 bp):
ATATTTATAAATTTGA
Found at i:13916484 original size:25 final size:24
Alignment explanation
Indices: 13916434--13916484 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 24
13916424 AATTGATAGT
* *
13916434 ATTTATAAATTTGAATATTTAGAA
1 ATTTATAAATTTGAATAATTAAAA
*
13916458 ATTTATTAAATTTGTATAATTAAAA
1 ATTTA-TAAATTTGAATAATTAAAA
13916483 AT
1 AT
13916485 AATGTCTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 5 0.22
25 18 0.78
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (24 bp):
ATTTATAAATTTGAATAATTAAAA
Found at i:13921750 original size:21 final size:21
Alignment explanation
Indices: 13921724--13921771 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
13921714 CAACTTAAAG
*
13921724 CAGAGGCGGCAGCGAGGGAAA
1 CAGAGGCGGCAGCGAGAGAAA
* *
13921745 CAGAGGCTGCAGCGAGAGAAG
1 CAGAGGCGGCAGCGAGAGAAA
13921766 CAGAGG
1 CAGAGG
13921772 TTCAAAAGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.33, C:0.19, G:0.46, T:0.02
Consensus pattern (21 bp):
CAGAGGCGGCAGCGAGAGAAA
Found at i:13922228 original size:44 final size:43
Alignment explanation
Indices: 13922139--13922281 Score: 166
Period size: 43 Copynumber: 3.3 Consensus size: 43
13922129 AATCCCAAAA
* * *
13922139 TTAGCGGCATTTGTGG--AAAATCGCCGCTAAAGAGCATGACCT
1 TTAGCGGCGTTTGTGGAAAAAAACGCCGCTAAAGAACATGA-CT
* *
13922181 TTAGCGGCGTTTGTGGAAAAAAACGCCGCTAAAAAACATTACTT
1 TTAGCGGCGTTTGTGGAAAAAAACGCCGCTAAAGAACATGAC-T
* * *
13922225 TTAGCGGCGTTTGT-GAATAAAGCGCTGCTAAAGAACATGAGCT
1 TTAGCGGCGTTTGTGGAAAAAAACGCCGCTAAAGAACATGA-CT
13922268 TTAGCGGCGTTTGT
1 TTAGCGGCGTTTGT
13922282 TGGTAGGCGC
Statistics
Matches: 87, Mismatches: 10, Indels: 7
0.84 0.10 0.07
Matches are distributed among these distances:
42 15 0.17
43 37 0.43
44 35 0.40
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (43 bp):
TTAGCGGCGTTTGTGGAAAAAAACGCCGCTAAAGAACATGACT
Found at i:13922271 original size:43 final size:43
Alignment explanation
Indices: 13922139--13922447 Score: 236
Period size: 42 Copynumber: 7.3 Consensus size: 43
13922129 AATCCCAAAA
* * * *
13922139 TTAGCGGCATTTGTGGA-AAATCGCCGCTAAAGAGCATGACCT
1 TTAGCGGCGTTTGTGTATAAAGCGCCGCTAAAGAACATGACCT
* * * * * *
13922181 TTAGCGGCGTTTGTGGAAAAAAACGCCGCTAAAAAACATTACTT
1 TTAGCGGCGTTTGT-GTATAAAGCGCCGCTAAAGAACATGACCT
* * *
13922225 TTAGCGGCGTTTGTGAATAAAGCGCTGCTAAAGAACATGAGCT
1 TTAGCGGCGTTTGTGTATAAAGCGCCGCTAAAGAACATGACCT
* * * ** **
13922268 TTAGCGGCGTTTGT-TGGT-AGGCGCCGCTATAGGTCATGTTCT
1 TTAGCGGCGTTTGTGT-ATAAAGCGCCGCTAAAGAACATGACCT
* * * *
13922310 TTAGCAGCGTATTTTGTA-AAAGCGCTGCTAAAGAACATGGCCT
1 TTAGCGGCGT-TTGTGTATAAAGCGCCGCTAAAGAACATGACCT
* * * * **
13922353 TTAGCGGCGTTT-TTTTTGAAGCGCCGCTACAGAACATGATTT
1 TTAGCGGCGTTTGTGTATAAAGCGCCGCTAAAGAACATGACCT
* **
13922395 TTAGCGGCGTTT-T-TTTTCAGCGCCGCTAAAGAACATGACCT
1 TTAGCGGCGTTTGTGTATAAAGCGCCGCTAAAGAACATGACCT
*
13922436 TTAACGGCGTTT
1 TTAGCGGCGTTT
13922448 ATTTCTGTAA
Statistics
Matches: 212, Mismatches: 48, Indels: 15
0.77 0.17 0.05
Matches are distributed among these distances:
41 36 0.17
42 73 0.34
43 68 0.32
44 35 0.17
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (43 bp):
TTAGCGGCGTTTGTGTATAAAGCGCCGCTAAAGAACATGACCT
Found at i:13922342 original size:85 final size:83
Alignment explanation
Indices: 13922155--13922447 Score: 232
Period size: 85 Copynumber: 3.5 Consensus size: 83
13922145 GCATTTGTGG
* * * * * ** * * *
13922155 AAAATCGCCGCTAAAGAGCATGACCTTTAGCGGCGTTTGTGGAAAAAAACGCCGCTAAAAAACAT
1 AAAAGCGCTGCTAAAGAACATGAGCTTTAGCGGCGTTTTTGG--TGAAGCGCCGCTACAGAACAT
* * * **
13922220 TACTTTTAGCGGCGTTTGTGA
64 GATTTTTAGCAGCGTTT-TTT
* * **
13922241 ATAAAGCGCTGCTAAAGAACATGAGCTTTAGCGGCGTTTGTTGGT-AGGCGCCGCTATAGGTCAT
1 A-AAAGCGCTGCTAAAGAACATGAGCTTTAGCGGCGTTT-TTGGTGAAGCGCCGCTACAGAACAT
13922305 G-TTCTTTAGCAGCGTATTTTGT
64 GATT-TTTAGCAGCGT-TTTT-T
**
13922327 AAAAGCGCTGCTAAAGAACATG-GCCTTTAGCGGCGTTTTTTTTGAAGCGCCGCTACAGAACATG
1 AAAAGCGCTGCTAAAGAACATGAG-CTTTAGCGGCGTTTTTGGTGAAGCGCCGCTACAGAACATG
*
13922391 ATTTTTAGCGGCGTTTTTT
65 ATTTTTAGCAGCGTTTTTT
*** * * *
13922410 TTCAGCGCCGCTAAAGAACATGACCTTTAACGGCGTTT
1 AAAAGCGCTGCTAAAGAACATGAGCTTTAGCGGCGTTT
13922448 ATTTCTGTAA
Statistics
Matches: 168, Mismatches: 30, Indels: 21
0.77 0.14 0.10
Matches are distributed among these distances:
83 32 0.19
84 9 0.05
85 85 0.51
86 6 0.04
87 33 0.20
88 3 0.02
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (83 bp):
AAAAGCGCTGCTAAAGAACATGAGCTTTAGCGGCGTTTTTGGTGAAGCGCCGCTACAGAACATGA
TTTTTAGCAGCGTTTTTT
Found at i:13924379 original size:43 final size:43
Alignment explanation
Indices: 13924330--13924518 Score: 227
Period size: 43 Copynumber: 4.4 Consensus size: 43
13924320 TCGCTAATAA
* * *
13924330 GACCTTTAGCGACGCTTTTTCCACAAACGCAGCTAAAGACCAG
1 GACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAG
*
13924373 GACCTTTAGCGGCG-TTTCTCCCACAAATGCCGCTAAAGACCAG
1 GACCTTTAGCGGCGCTTT-TCCCACAAACGCCGCTAAAGACCAG
* * * *
13924416 GACCTTTAGCGGCGCTTTTCTCAAAAACGCCGCTAAAGAACAA
1 GACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAG
* * * * * *
13924459 GACCTATAGCGGCTCTTTTCCCACAGACGCTGCTAAAGATCAT
1 GACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAG
*
13924502 GACCTTTAGCGACGCTT
1 GACCTTTAGCGGCGCTT
13924519 CTATTAAAAA
Statistics
Matches: 124, Mismatches: 20, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
42 3 0.02
43 118 0.95
44 3 0.02
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.23
Consensus pattern (43 bp):
GACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAG
Found at i:13926167 original size:20 final size:20
Alignment explanation
Indices: 13926142--13926182 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
13926132 AGCTTCTTTT
13926142 AATATACATCTAAGATTTCC
1 AATATACATCTAAGATTTCC
13926162 AATATACATCTAAGATTTCC
1 AATATACATCTAAGATTTCC
13926182 A
1 A
13926183 CTGCTTTCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.41, C:0.20, G:0.05, T:0.34
Consensus pattern (20 bp):
AATATACATCTAAGATTTCC
Found at i:13928932 original size:41 final size:41
Alignment explanation
Indices: 13928900--13929207 Score: 377
Period size: 41 Copynumber: 7.5 Consensus size: 41
13928890 GCATTTTTTT
* *
13928900 AAAAACGCTGCTAAAGACCCGAGAATTAGCGGCGCTTCTTC
1 AAAAACGCCGCTAAAGACCCGAGCATTAGCGGCGCTTCTTC
* * * * *
13928941 AAAAAATGCTGCTAAATACACGAGAATTAGCGGCGCTTCTTC
1 -AAAAACGCCGCTAAAGACCCGAGCATTAGCGGCGCTTCTTC
** *
13928983 AAAATTGCCGCTAAAGACCCGGGCATTAGCGGCGCTTCTTC
1 AAAAACGCCGCTAAAGACCCGAGCATTAGCGGCGCTTCTTC
* * * * * *
13929024 AAAAATGCTGCT-AAGACACGAGCATTCGCGGTGCTACTTC
1 AAAAACGCCGCTAAAGACCCGAGCATTAGCGGCGCTTCTTC
* * * * *
13929064 AAAAACACCGCTAAAAACCTGAGCATTATCAGCGCTTCTTC
1 AAAAACGCCGCTAAAGACCCGAGCATTAGCGGCGCTTCTTC
*
13929105 AAAAACGGCGCTAAAGACCCGAGCATTAGCGGCGCTTCTTC
1 AAAAACGCCGCTAAAGACCCGAGCATTAGCGGCGCTTCTTC
*
13929146 AAAAATGCCGCTAAAGACCCGAGCATTAGCGGCGCTTCTT-
1 AAAAACGCCGCTAAAGACCCGAGCATTAGCGGCGCTTCTTC
*
13929186 AAAAACGCCGCTAAAGCCCCGA
1 AAAAACGCCGCTAAAGACCCGA
13929208 AAACTCAAAA
Statistics
Matches: 228, Mismatches: 37, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
40 52 0.23
41 138 0.61
42 38 0.17
ACGTcount: A:0.32, C:0.28, G:0.21, T:0.20
Consensus pattern (41 bp):
AAAAACGCCGCTAAAGACCCGAGCATTAGCGGCGCTTCTTC
Found at i:13929102 original size:122 final size:122
Alignment explanation
Indices: 13928900--13929200 Score: 356
Period size: 122 Copynumber: 2.5 Consensus size: 122
13928890 GCATTTTTTT
* * * * * * *
13928900 AAAAACGCTGCTAAAGACCCGAGAATTAGCGGCGCTTCTTCAAAAA-ATGCTGCTAAATACAC-G
1 AAAAATGCCGCTAAAGACACGAGCATTAGCGGCGCTACTT-AAAAACA--CCGCTAAAAAC-CTG
* * * ** *
13928963 AGAATTAGCGGCGCTTCTTCAAAATTGCCGCTAAAGACCCGGGCATTAGCGGCGCTTCTTC
62 AGCATTATCAGCGCTTCTTCAAAAACGCCGCTAAAGACCCGAGCATTAGCGGCGCTTCTTC
* * *
13929024 AAAAATGCTGCT-AAGACACGAGCATTCGCGGTGCTACTTCAAAAACACCGCTAAAAACCTGAGC
1 AAAAATGCCGCTAAAGACACGAGCATTAGCGGCGCTACTT-AAAAACACCGCTAAAAACCTGAGC
*
13929088 ATTATCAGCGCTTCTTCAAAAACGGCGCTAAAGACCCGAGCATTAGCGGCGCTTCTTC
65 ATTATCAGCGCTTCTTCAAAAACGCCGCTAAAGACCCGAGCATTAGCGGCGCTTCTTC
* * *
13929146 AAAAATGCCGCTAAAGACCCGAGCATTAGCGGCGCTTCTTAAAAACGCCGCTAAA
1 AAAAATGCCGCTAAAGACACGAGCATTAGCGGCGCTACTTAAAAACACCGCTAAA
13929201 GCCCCGAAAA
Statistics
Matches: 153, Mismatches: 21, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
121 1 0.01
122 89 0.58
123 51 0.33
124 12 0.08
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (122 bp):
AAAAATGCCGCTAAAGACACGAGCATTAGCGGCGCTACTTAAAAACACCGCTAAAAACCTGAGCA
TTATCAGCGCTTCTTCAAAAACGCCGCTAAAGACCCGAGCATTAGCGGCGCTTCTTC
Found at i:13929306 original size:39 final size:39
Alignment explanation
Indices: 13929259--13929375 Score: 125
Period size: 39 Copynumber: 3.0 Consensus size: 39
13929249 CGCCTTTTGG
13929259 AAAA-CGCCGCTAATGCTCCG-TTTTAGCGGCGTTTTCTT
1 AAAAGCGCCGCTAATGCTCCGATTTTAGCGGCGTTTT-TT
* * *
13929297 AAAAGCGCCGCTAATACT-CGATCTTTTGCGGCATTTTTT
1 AAAAGCGCCGCTAATGCTCCGAT-TTTAGCGGCGTTTTTT
* * *
13929336 AGAAGCGCCGGTAATGC-CTGATTTTTAGCGGCGTTTTTT
1 AAAAGCGCCGCTAATGCTCCGA-TTTTAGCGGCGTTTTTT
13929375 A
1 A
13929376 TCCAAAGGCT
Statistics
Matches: 65, Mismatches: 9, Indels: 9
0.78 0.11 0.11
Matches are distributed among these distances:
38 6 0.09
39 46 0.71
40 13 0.20
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.35
Consensus pattern (39 bp):
AAAAGCGCCGCTAATGCTCCGATTTTAGCGGCGTTTTTT
Found at i:13929977 original size:18 final size:18
Alignment explanation
Indices: 13929951--13929985 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
13929941 ACAAAAATGA
*
13929951 AAACTATATTAAATGGTT
1 AAACGATATTAAATGGTT
13929969 AAACGATATTAAATGGT
1 AAACGATATTAAATGGT
13929986 AAATAAACTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.46, C:0.06, G:0.14, T:0.34
Consensus pattern (18 bp):
AAACGATATTAAATGGTT
Found at i:13948471 original size:8 final size:8
Alignment explanation
Indices: 13948458--13948482 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
13948448 GGAAAATGAA
13948458 AGTAGTCG
1 AGTAGTCG
13948466 AGTAGTCG
1 AGTAGTCG
13948474 AGTAGTCG
1 AGTAGTCG
13948482 A
1 A
13948483 TTGTGTCCGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.28, C:0.12, G:0.36, T:0.24
Consensus pattern (8 bp):
AGTAGTCG
Found at i:13949431 original size:41 final size:41
Alignment explanation
Indices: 13949370--13949531 Score: 193
Period size: 41 Copynumber: 4.0 Consensus size: 41
13949360 TGAAAATAAG
* *
13949370 ATGTTTCAGACTTTACGTCTAAG-AGGCTTGATGCCGATGAA
1 ATGTTTCAGACTTTATGTCT-AGCAGGCTTGATGCCGGTGAA
13949411 ATGTTTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAA
1 ATGTTTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAA
* **
13949452 TTACTTCAGACTTTATGTCTAGCAGGCTTTG-TGCCGGTGAA
1 ATGTTTCAGACTTTATGTCTAGCAGGC-TTGATGCCGGTGAA
* * * * * *
13949493 ATGTATCGGGCTTTGTGCCTAGCAGGCTTTATGCCGGTG
1 ATGTTTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTG
13949532 TTTTATACAA
Statistics
Matches: 104, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
40 4 0.04
41 97 0.93
42 3 0.03
ACGTcount: A:0.20, C:0.19, G:0.27, T:0.34
Consensus pattern (41 bp):
ATGTTTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAA
Found at i:13958016 original size:49 final size:49
Alignment explanation
Indices: 13957943--13958042 Score: 182
Period size: 49 Copynumber: 2.0 Consensus size: 49
13957933 GTATTACAGT
* *
13957943 ATGGATTATTGTTTTAGTTGGAGTTCCCTATATAGTATATTGACACTGG
1 ATGGATTATTGTTTTAGTTAGAGTTCCCCATATAGTATATTGACACTGG
13957992 ATGGATTATTGTTTTAGTTAGAGTTCCCCATATAGTATATTGACACTGG
1 ATGGATTATTGTTTTAGTTAGAGTTCCCCATATAGTATATTGACACTGG
13958041 AT
1 AT
13958043 TGAATGGACA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.26, C:0.11, G:0.21, T:0.42
Consensus pattern (49 bp):
ATGGATTATTGTTTTAGTTAGAGTTCCCCATATAGTATATTGACACTGG
Found at i:13959079 original size:15 final size:15
Alignment explanation
Indices: 13959059--13959088 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
13959049 ACCTGTAAAA
*
13959059 ATTAAATTAAACTAC
1 ATTAAATAAAACTAC
13959074 ATTAAATAAAACTAC
1 ATTAAATAAAACTAC
13959089 TAAGTAAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.30
Consensus pattern (15 bp):
ATTAAATAAAACTAC
Found at i:13973817 original size:18 final size:17
Alignment explanation
Indices: 13973794--13973833 Score: 62
Period size: 18 Copynumber: 2.3 Consensus size: 17
13973784 AAGTGGAAGG
13973794 GGAGAGAAAAAAATGAGA
1 GGAGAGAAAAAAATGA-A
*
13973812 GGAGAGAAAGAAATGAA
1 GGAGAGAAAAAAATGAA
13973829 GGAGA
1 GGAGA
13973834 AAACAACATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.57, C:0.00, G:0.38, T:0.05
Consensus pattern (17 bp):
GGAGAGAAAAAAATGAA
Found at i:13974913 original size:20 final size:18
Alignment explanation
Indices: 13974877--13974916 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 18
13974867 AATTGTGATG
13974877 TTAATATGTTTAATTTAA
1 TTAATATGTTTAATTTAA
13974895 TTAATATGATTTAAATTTAA
1 TTAATATG-TTT-AATTTAA
13974915 TT
1 TT
13974917 CGTGTTAGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 8 0.40
19 3 0.15
20 9 0.45
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (18 bp):
TTAATATGTTTAATTTAA
Found at i:13980856 original size:52 final size:51
Alignment explanation
Indices: 13980629--13980856 Score: 224
Period size: 52 Copynumber: 4.4 Consensus size: 51
13980619 TCAAAGCCAT
* * * * * *
13980629 CTAAATAAACACCAGCTCAAAG-TTGCTAAATAACCACTAGCTCAAGGCGTG
1 CTAAATAAACACCGGCTCAAGGCTTGCTAAAGAAACAC-AGCCCAAGGCCTG
* ** * *
13980680 CTAAATAAACACTGGCTCAAAACTTGCTAAAGAAACACCTGCCCAAAGCCTG
1 CTAAATAAACACCGGCTCAAGGCTTGCTAAAGAAACA-CAGCCCAAGGCCTG
* * * *
13980732 TTAAATAAACATCGGCTCAAGGCTTGCTCAAGAAACATCAGCCCAAGGCCTA
1 CTAAATAAACACCGGCTCAAGGCTTGCTAAAGAAACA-CAGCCCAAGGCCTG
* * * * *
13980784 CTAAATAAACACCGTCTCAAGGCCTACTAAAGAAACACAGGTCCAAGGCTTG
1 CTAAATAAACACCGGCTCAAGGCTTGCTAAAGAAACACA-GCCCAAGGCCTG
*
13980836 CTAAATAAACACCGACTCAAG
1 CTAAATAAACACCGGCTCAAG
13980857 CCCTGCTATT
Statistics
Matches: 145, Mismatches: 29, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
51 21 0.14
52 123 0.85
53 1 0.01
ACGTcount: A:0.39, C:0.27, G:0.15, T:0.18
Consensus pattern (51 bp):
CTAAATAAACACCGGCTCAAGGCTTGCTAAAGAAACACAGCCCAAGGCCTG
Found at i:13980863 original size:26 final size:26
Alignment explanation
Indices: 13980629--13980864 Score: 124
Period size: 26 Copynumber: 9.1 Consensus size: 26
13980619 TCAAAGCCAT
* *
13980629 CTAAATAAACACC-AGCTCAAAG-TTG
1 CTAAATAAACACCGA-CTCAAGGCCTG
* * *
13980654 CTAAATAACCA-CTAGCTCAAGGCGTG
1 CTAAATAAACACCGA-CTCAAGGCCTG
* * ** *
13980680 CTAAATAAACACTGGCTCAAAACTTG
1 CTAAATAAACACCGACTCAAGGCCTG
* * *
13980706 CTAAAGAAACACCTG-CCCAAAGCCTG
1 CTAAATAAACACC-GACTCAAGGCCTG
* * * *
13980732 TTAAATAAACATCGGCTCAAGGCTTG
1 CTAAATAAACACCGACTCAAGGCCTG
* * * * *
13980758 CTCAAGAAACATC-AGCCCAAGGCCTA
1 CTAAATAAACACCGA-CTCAAGGCCTG
* *
13980784 CTAAATAAACACCGTCTCAAGGCCTA
1 CTAAATAAACACCGACTCAAGGCCTG
* * * *
13980810 CTAAAGAAACACAG-GTCCAAGGCTTG
1 CTAAATAAACACCGACT-CAAGGCCTG
*
13980836 CTAAATAAACACCGACTCAAGCCCTG
1 CTAAATAAACACCGACTCAAGGCCTG
13980862 CTA
1 CTA
13980865 TTCAAGTACG
Statistics
Matches: 159, Mismatches: 43, Indels: 17
0.73 0.20 0.08
Matches are distributed among these distances:
24 1 0.01
25 20 0.13
26 136 0.86
27 2 0.01
ACGTcount: A:0.39, C:0.28, G:0.15, T:0.18
Consensus pattern (26 bp):
CTAAATAAACACCGACTCAAGGCCTG
Found at i:13983816 original size:38 final size:38
Alignment explanation
Indices: 13983750--13983824 Score: 132
Period size: 38 Copynumber: 2.0 Consensus size: 38
13983740 TCTATACAGA
*
13983750 TATCACTAAAATCATTTTCGAAACAAATCAGACTTAGT
1 TATCACTAAAATCATTTTCGAAACAAATCAAACTTAGT
*
13983788 TATCACTGAAATCATTTTCGAAACAAATCAAACTTAG
1 TATCACTAAAATCATTTTCGAAACAAATCAAACTTAG
13983825 CAAATTCAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.43, C:0.19, G:0.08, T:0.31
Consensus pattern (38 bp):
TATCACTAAAATCATTTTCGAAACAAATCAAACTTAGT
Found at i:13987362 original size:21 final size:21
Alignment explanation
Indices: 13987336--13987377 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
13987326 CCATATATCA
13987336 AGCTAATCA-CAAAAGGCATTT
1 AGCTAATCACCAAAA-GCATTT
*
13987357 AGCTAATGACCAAAAGCATTT
1 AGCTAATCACCAAAAGCATTT
13987378 CATATCTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.43, C:0.19, G:0.14, T:0.24
Consensus pattern (21 bp):
AGCTAATCACCAAAAGCATTT
Done.