Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005063.1 Hibiscus syriacus cultivar Beakdansim tig00011367_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: 72325
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Found at i:730 original size:45 final size:46
Alignment explanation
Indices: 642--732 Score: 157
Period size: 45 Copynumber: 2.0 Consensus size: 46
632 TGAAAAAAGC
* *
642 CTGAGTGCATCGATGCATGGTTTTGTGCATCGATGCATCAAATGCA
1 CTGAGTGCATCGATGCATGGTTATGTGCATCGATGCATAAAATGCA
688 CTGAGTGCATCGATGCATGG-TATGTGCATCGATGCATAAAATGCA
1 CTGAGTGCATCGATGCATGGTTATGTGCATCGATGCATAAAATGCA
733 TTCGATGTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
45 23 0.53
46 20 0.47
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (46 bp):
CTGAGTGCATCGATGCATGGTTATGTGCATCGATGCATAAAATGCA
Found at i:7382 original size:22 final size:21
Alignment explanation
Indices: 7340--7379 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
7330 GAGTTTATTT
*
7340 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
7361 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
7380 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:9395 original size:19 final size:19
Alignment explanation
Indices: 9371--9495 Score: 241
Period size: 19 Copynumber: 6.6 Consensus size: 19
9361 ATCCTGAGTC
9371 CATCGATGCATGGTATGTG
1 CATCGATGCATGGTATGTG
9390 CATCGATGCATGGTATGTG
1 CATCGATGCATGGTATGTG
9409 CATCGATGCATGGTATGTG
1 CATCGATGCATGGTATGTG
9428 CATCGATGCATGGTATGTG
1 CATCGATGCATGGTATGTG
9447 CATCGATGCATGGTATGTG
1 CATCGATGCATGGTATGTG
*
9466 CATCGATGCATGGTATATG
1 CATCGATGCATGGTATGTG
9485 CATCGATGCAT
1 CATCGATGCAT
9496 AAAATGCATT
Statistics
Matches: 105, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
19 105 1.00
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.31
Consensus pattern (19 bp):
CATCGATGCATGGTATGTG
Found at i:9559 original size:20 final size:20
Alignment explanation
Indices: 9523--9560 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
9513 TGAAAAAATA
*
9523 ATTGGTGCATTGATGCATGG
1 ATTGGTGCATCGATGCATGG
*
9543 ATTGGTGCATCGGTGCAT
1 ATTGGTGCATCGATGCAT
9561 CACTTTGAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.13, G:0.34, T:0.34
Consensus pattern (20 bp):
ATTGGTGCATCGATGCATGG
Found at i:10393 original size:25 final size:26
Alignment explanation
Indices: 10365--10435 Score: 99
Period size: 27 Copynumber: 2.7 Consensus size: 26
10355 GTGGAATTTT
*
10365 AAAGTATTTAAGTTTCAATGTT-AAA
1 AAAGTGTTTAAGTTTCAATGTTAAAA
* *
10390 AAAGTGTTTAAGCTTAAATGTTAGAAA
1 AAAGTGTTTAAGTTTCAATGTTA-AAA
10417 AAAGTGTTTAAGTTTCAAT
1 AAAGTGTTTAAGTTTCAAT
10436 CTATAGAATT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
25 19 0.49
27 20 0.51
ACGTcount: A:0.42, C:0.04, G:0.15, T:0.38
Consensus pattern (26 bp):
AAAGTGTTTAAGTTTCAATGTTAAAA
Found at i:10425 original size:27 final size:25
Alignment explanation
Indices: 10365--10428 Score: 83
Period size: 25 Copynumber: 2.5 Consensus size: 25
10355 GTGGAATTTT
* * *
10365 AAAGTATTTAAGTTTCAATGTTAAA
1 AAAGTGTTTAAGCTTAAATGTTAAA
10390 AAAGTGTTTAAGCTTAAATGTTAGAAA
1 AAAGTGTTTAAGCTTAAATGTT--AAA
10417 AAAGTGTTTAAG
1 AAAGTGTTTAAG
10429 TTTCAATCTA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
25 19 0.56
27 15 0.44
ACGTcount: A:0.44, C:0.03, G:0.17, T:0.36
Consensus pattern (25 bp):
AAAGTGTTTAAGCTTAAATGTTAAA
Found at i:16528 original size:21 final size:21
Alignment explanation
Indices: 16495--16536 Score: 52
Period size: 19 Copynumber: 2.0 Consensus size: 21
16485 ATTTCCAGTT
16495 AATAGAAAGACATGTAATACAAA
1 AATAGAAAGACAT-TAAT-CAAA
16518 AATA-AAA-ACATTAATCAAA
1 AATAGAAAGACATTAATCAAA
16537 CAGGAAAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
19 4 0.21
20 4 0.21
21 4 0.21
22 3 0.16
23 4 0.21
ACGTcount: A:0.64, C:0.10, G:0.07, T:0.19
Consensus pattern (21 bp):
AATAGAAAGACATTAATCAAA
Found at i:19718 original size:18 final size:17
Alignment explanation
Indices: 19695--19739 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
19685 AACATTCCTA
19695 GTAATCTTATT-TCAACC
1 GTAATCTTATTCTC-ACC
*
19712 GGTAATCCTATTCTCACC
1 -GTAATCTTATTCTCACC
19730 GTAATCTTAT
1 GTAATCTTAT
19740 ATTTCGTGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 9 0.38
18 13 0.54
19 2 0.08
ACGTcount: A:0.27, C:0.24, G:0.09, T:0.40
Consensus pattern (17 bp):
GTAATCTTATTCTCACC
Found at i:20047 original size:23 final size:23
Alignment explanation
Indices: 20004--20048 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
19994 ACATATTAGG
* **
20004 TAGCGTTTATATAATGTAATAGA
1 TAGCGCTTATATAATAAAATAGA
20027 TAGCGCTTATATAATAAAATAG
1 TAGCGCTTATATAATAAAATAG
20049 GCATTTAACC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.42, C:0.07, G:0.16, T:0.36
Consensus pattern (23 bp):
TAGCGCTTATATAATAAAATAGA
Found at i:21278 original size:363 final size:364
Alignment explanation
Indices: 20485--21437 Score: 1574
Period size: 363 Copynumber: 2.6 Consensus size: 364
20475 TGTTGACCTA
* * *
20485 TTTTCTCATATTTTTAGCTGTTATATTGTTATCGATCGATACATTTTCATAAAGTGTCAACACTT
1 TTTTGTCATATTTTTAGCTGTTATATTGTTATAGATCGATACATTTTCATAAAGTGTCGACACTT
20550 TTTAGGCGCTATAA---CTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGA
66 TTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGA
** *
20612 CACTTTCAACATATCTAGTAACGTTTTACCGGTTTTGTCATTTTGAGATCGATTTTGTCATATTT
131 CACTTTCAACATATCCGGTAACGTTTTACCGGTTTTGTCATTTTGAGATCGGTTTTGTCATATTT
* *
20677 TTACTTGTTATATTATTATGGATCGATACA-TTTTTTAAAGTATCGACACTTTATAGGCGCTATA
196 TTACCTGTTATATTGTTATGGATCGATACATTTTTTTAAAGTATCGACACTTTATAGGCGCTATA
* * * * *
20741 ACTTCTTCTTTTTTAAATTCCTAAAGTGTTGATACTTATATTAAAGTATTGACACTTTCAACATA
261 ACTTCTTATCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAAGTATCGACACTTTCAACATA
*
20806 TCCGGTAGTTATTTACCTGTTTTGTCATTTTGAGACCAG
326 TCCGATAGTTATTTACCTGTTTTGTCATTTTGAGACCAG
* * *
20845 TTTTGTCATATTTTTAGTTGTTATATTGTTATGGATCGATACATGTTCATAAAGTGTCGACACTT
1 TTTTGTCATATTTTTAGCTGTTATATTGTTATAGATCGATACATTTTCATAAAGTGTCGACACTT
*
20910 TTTAGGCGTTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGA
66 TTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGA
* *
20975 CACTTTCAACATATCCGGTAGCGTTTTACCAGTTTTGTCATTTTGAGATCGGTTTTGTCATATTT
131 CACTTTCAACATATCCGGTAACGTTTTACCGGTTTTGTCATTTTGAGATCGGTTTTGTCATATTT
* * *
21040 TTACCTATTATATTGTTATAGATCGATACATTTTTTTAAAGTATCGACACTTTTTAGGCGCTATA
196 TTACCTGTTATATTGTTATGGATCGATACATTTTTTTAAAGTATCGACACTTTATAGGCGCTATA
*
21105 ACTTCTTATCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAAGTATCGACACTTTCAATATA
261 ACTTCTTATCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAAGTATCGACACTTTCAACATA
*
21170 TCCGATAGTTATTTACCTGTTTTGTCATTTTGAGACCGG
326 TCCGATAGTTATTTACCTGTTTTGTCATTTTGAGACCAG
*
21209 TTTTGTCATATTTTTAGCTGTTATATTATTATAGATCGATACATTTTCATAAAGTGTCGACAC-T
1 TTTTGTCATATTTTTAGCTGTTATATTGTTATAGATCGATACATTTTCATAAAGTGTCGACACTT
*
21273 TTTAGGTGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGA
66 TTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGA
* *
21338 CACTTTCAAGATATCCGGTAACGTTTTACCGGTTTTGTCATTTTGAGACCGGTTTTGTCATATTT
131 CACTTTCAACATATCCGGTAACGTTTTACCGGTTTTGTCATTTTGAGATCGGTTTTGTCATATTT
* * * *
21403 TTACCTGTAATATTGCTACGGAGCGATACATTTTT
196 TTACCTGTTATATTGTTATGGATCGATACATTTTT
21438 CATTTGTATC
Statistics
Matches: 549, Mismatches: 40, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
360 73 0.13
363 288 0.52
364 188 0.34
ACGTcount: A:0.27, C:0.15, G:0.14, T:0.44
Consensus pattern (364 bp):
TTTTGTCATATTTTTAGCTGTTATATTGTTATAGATCGATACATTTTCATAAAGTGTCGACACTT
TTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGA
CACTTTCAACATATCCGGTAACGTTTTACCGGTTTTGTCATTTTGAGATCGGTTTTGTCATATTT
TTACCTGTTATATTGTTATGGATCGATACATTTTTTTAAAGTATCGACACTTTATAGGCGCTATA
ACTTCTTATCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAAGTATCGACACTTTCAACATA
TCCGATAGTTATTTACCTGTTTTGTCATTTTGAGACCAG
Found at i:21452 original size:181 final size:182
Alignment explanation
Indices: 20485--21436 Score: 1357
Period size: 182 Copynumber: 5.3 Consensus size: 182
20475 TGTTGACCTA
* * * * *
20485 TTTTCTCATATTTTTAGCTGTTATATTGTTATCGATCGATACATTTTCATAAAGTGTCAACACTT
1 TTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTATCGACACTT
20550 TTTAGGCGCTATAA---CTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGA
66 TTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGA
** * *
20612 CACTTTCAACATATCTAGTAACGTTTTACCGGTTTTGTCATTTTGAGATCGA
131 CACTTTCAACATATCCGGTAACGTTTTACCGGTTTTGTCATTTTGAGACCGG
* * *
20664 TTTTGTCATATTTTTACTTGTTATATTATTATGGATCGATACATTTT-TTAAAGTATCGACACTT
1 TTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTATCGACACTT
* * ** * * *
20728 TATAGGCGCTATAACTTCTTCTTTTTTAAATTCCTAAAGTGTTGATACTTATATTAAAGTATTGA
66 TTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGA
* *
20793 CACTTTCAACATATCCGGT-A-GTTATTTACCTGTTTTGTCATTTTGAGACCAG
131 CACTTTCAACATATCCGGTAACG-T-TTTACCGGTTTTGTCATTTTGAGACCGG
** * *
20845 TTTTGTCATATTTTTAGTTGTTATATTGTTATGGATCGATACATGTTCATAAAGTGTCGACACTT
1 TTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTATCGACACTT
*
20910 TTTAGGCGTTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGA
66 TTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGA
* * *
20975 CACTTTCAACATATCCGGTAGCGTTTTACCAGTTTTGTCATTTTGAGATCGG
131 CACTTTCAACATATCCGGTAACGTTTTACCGGTTTTGTCATTTTGAGACCGG
* * **
21027 TTTTGTCATATTTTTACCTATTATATTGTTATAGATCGATACATTTTTTTAAAGTATCGACACTT
1 TTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTATCGACACTT
* *
21092 TTTAGGCGCTATAACTTCTTATCTTTTAAATTCCA-AAAGTGTCGATACTTATATTAAAGTATCG
66 TTTAGGCGCTATAACTTCTTCTCTTTTAAATT-CAGAAAGTGTCGATACTTATATTAAATTATCG
* * *
21156 ACACTTTCAATATATCCGAT-A-GTTATTTACCTGTTTTGTCATTTTGAGACCGG
130 ACACTTTCAACATATCCGGTAACG-T-TTTACCGGTTTTGTCATTTTGAGACCGG
* * * *
21209 TTTTGTCATATTTTTAGCTGTTATATTATTATAGATCGATACATTTTCATAAAGTGTCGACAC-T
1 TTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTATCGACACTT
*
21273 TTTAGGTGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGA
66 TTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGA
*
21338 CACTTTCAAGATATCCGGTAACGTTTTACCGGTTTTGTCATTTTGAGACCGG
131 CACTTTCAACATATCCGGTAACGTTTTACCGGTTTTGTCATTTTGAGACCGG
* * * *
21390 TTTTGTCATATTTTTACCTGTAATATTGCTACGGAGCGATACATTTT
1 TTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTT
21437 TCATTTGTAT
Statistics
Matches: 686, Mismatches: 73, Indels: 26
0.87 0.09 0.03
Matches are distributed among these distances:
178 27 0.04
179 43 0.06
180 5 0.01
181 272 0.40
182 334 0.49
183 4 0.01
184 1 0.00
ACGTcount: A:0.27, C:0.15, G:0.14, T:0.44
Consensus pattern (182 bp):
TTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTATCGACACTT
TTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGA
CACTTTCAACATATCCGGTAACGTTTTACCGGTTTTGTCATTTTGAGACCGG
Found at i:21997 original size:19 final size:19
Alignment explanation
Indices: 21973--22014 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
21963 AGAAAAAAAT
*
21973 AACTTTTATC-CGACATTGG
1 AACTTTTATCTCCA-ATTGG
21992 AACTTTTATCTCCAATTGG
1 AACTTTTATCTCCAATTGG
22011 AACT
1 AACT
22015 CTGTCAGCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 19 0.90
20 2 0.10
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (19 bp):
AACTTTTATCTCCAATTGG
Found at i:26097 original size:7 final size:7
Alignment explanation
Indices: 26085--26115 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
26075 GAAAGAAGGA
26085 AAATCAT
1 AAATCAT
26092 AAATCAT
1 AAATCAT
26099 AAATCAT
1 AAATCAT
26106 AAATCAT
1 AAATCAT
26113 AAA
1 AAA
26116 AATGAAGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.61, C:0.13, G:0.00, T:0.26
Consensus pattern (7 bp):
AAATCAT
Found at i:28208 original size:24 final size:24
Alignment explanation
Indices: 28177--28228 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
28167 TAGTTTTAGC
28177 CTTACGGTTTAATTGTTTCCTTTT
1 CTTACGGTTTAATTGTTTCCTTTT
* *
28201 CTTACGGTTTACTTGTTTCTTTTT
1 CTTACGGTTTAATTGTTTCCTTTT
28225 CTTA
1 CTTA
28229 ACTGTACAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.12, C:0.17, G:0.12, T:0.60
Consensus pattern (24 bp):
CTTACGGTTTAATTGTTTCCTTTT
Found at i:33398 original size:16 final size:13
Alignment explanation
Indices: 33360--33387 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
33350 CAACTTTGTG
33360 AATTGTGTCTCAA
1 AATTGTGTCTCAA
33373 AATTGTGTCTCAA
1 AATTGTGTCTCAA
33386 AA
1 AA
33388 AAATTGTGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (13 bp):
AATTGTGTCTCAA
Found at i:38553 original size:20 final size:19
Alignment explanation
Indices: 38523--38560 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
38513 TGAGACAACA
38523 TTGAGAATTGAAGCAAGAT
1 TTGAGAATTGAAGCAAGAT
*
38542 TTGAGCAATTGAAGGAAGA
1 TTGAG-AATTGAAGCAAGA
38561 ATTGCAAGAG
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:0.42, C:0.05, G:0.29, T:0.24
Consensus pattern (19 bp):
TTGAGAATTGAAGCAAGAT
Found at i:40669 original size:5 final size:5
Alignment explanation
Indices: 40648--40731 Score: 116
Period size: 5 Copynumber: 16.8 Consensus size: 5
40638 AATAATACAA
* * * *
40648 AAAAC AAAGAA AAAAG AAAAG AAAAG A-AAC AAAAC AAAAC AAAAC AAAAC
1 AAAAC AAA-AC AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC
40698 AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAAA
1 AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAAA
40732 GGTGAGAAAA
Statistics
Matches: 74, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
4 3 0.04
5 67 0.91
6 4 0.05
ACGTcount: A:0.81, C:0.14, G:0.05, T:0.00
Consensus pattern (5 bp):
AAAAC
Found at i:41327 original size:21 final size:21
Alignment explanation
Indices: 41282--41338 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 21
41272 ATAACAAAGG
*
41282 CTAAACTAT--GTATTTAGTAT
1 CTAAACTATCAGT-TTTAGTAC
*
41302 ATAAACTATCAGTTTTAGTAC
1 CTAAACTATCAGTTTTAGTAC
* *
41323 CTAAACTTTCATTTTT
1 CTAAACTATCAGTTTT
41339 TTAAAAATCA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
20 8 0.27
21 20 0.67
22 2 0.07
ACGTcount: A:0.33, C:0.14, G:0.07, T:0.46
Consensus pattern (21 bp):
CTAAACTATCAGTTTTAGTAC
Found at i:43293 original size:210 final size:213
Alignment explanation
Indices: 42697--43509 Score: 1232
Period size: 210 Copynumber: 3.8 Consensus size: 213
42687 ATTTAAGAAT
42697 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACA-T-A-GAG
* * * * *
42762 GGGTCAAATCAAAATAATTTTAAATTGCGAGGTTGAAATTAATAC-AAAAA-TACTAAATTGTAT
63 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATAC
* * * *
42825 CCATTTAAAAAGTTATGGGCCAATTAAAAAAATAGAATTAAGTAATAAGTATAGATCAATTTCAT
128 CCATTTAAAAAGTTATGGGCCAATT-TAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTCAT
* *
42890 ATACAAATAAAATTTGGATGAC
192 ATGCAAATAAAATTTGGAGGAC
42912 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACA-T-A-GAG
* * *
42977 GGATCAAATTGAAATAATTTTAAATTGTAATGTTGAAATTAATACAAAAAAGTACTAAATTATAC
63 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATAC
*
43042 CCATTTAAAAAGTTATGGGTCAATTTAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTCATA
128 CCATTTAAAAAGTTATGGGCCAATTTAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTCATA
43107 TGCAAATAAAATTTGGAGGAC
193 TGCAAATAAAATTTGGAGGAC
*
43128 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATATATTAAACAACACA-A-A-AGGGA
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATAGAGGGA
* *
43190 TCAAATCGAAATAATTTTAAATTTTGAGGTTAAAATTAATACAAAAAAGTACTAAATTATACCCA
66 TCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATACCCA
*
43255 TTTAAAAAGTTATGGGCCAATTTAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTCATGTGC
131 TTTAAAAAGTTATGGGCCAATTTAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTCATATGC
43320 AAATAAAATTTGGAGGAC
196 AAATAAAATTTGGAGGAC
* *
43338 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATATATTAAACAACACA-A-A-AAGGA
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATAGAGGGA
* * * * *
43400 TCAAATTGAAATAATTTTAAATTTTGAGGTTGAAATTAATA-TAAAATGTACTAAATTATACTCA
66 TCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATACCCA
* *
43464 TTTAAAAAGTTATGAGCCAA-TTAATAAATATAAATAAGTAATAAGT
131 TTTAAAAAGTTATGGGCCAATTTAA-AAATAGAAATAAGTAATAAGT
43510 TGAGAAAAAA
Statistics
Matches: 564, Mismatches: 31, Indels: 12
0.93 0.05 0.02
Matches are distributed among these distances:
208 4 0.01
209 59 0.10
210 246 0.44
212 1 0.00
215 105 0.19
216 114 0.20
217 35 0.06
ACGTcount: A:0.51, C:0.08, G:0.11, T:0.30
Consensus pattern (213 bp):
TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATAGAGGGA
TCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATACCCA
TTTAAAAAGTTATGGGCCAATTTAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTCATATGC
AAATAAAATTTGGAGGAC
Found at i:43509 original size:426 final size:425
Alignment explanation
Indices: 42697--43509 Score: 1248
Period size: 426 Copynumber: 1.9 Consensus size: 425
42687 ATTTAAGAAT
42697 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACA-T-A-GAG
* * * *
42762 GGGTCAAATCAAAATAATTTTAAATTGCGAGGTTGAAATTAATACAAAAATACTAAATTGTATCC
63 GGATCAAATCAAAATAATTTTAAATTGCGAGGTTAAAATTAATACAAAAATACTAAATTATACCC
*
42827 ATTTAAAAAGTTATGGGCCAATTAAAAAAATAGAATTAAGTAATAAGTATAGATCAATTTCATAT
128 ATTTAAAAAGTTATGGGCCAATTAAAAAAATAGAAATAAGTAATAAGTATAGATCAATTTCATAT
*
42892 ACAAATAAAATTTGGATGACTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATT
193 ACAAATAAAATTTGGAGGACTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATT
* *
42957 AAACAACACACATTGATGAGGGATCAAATTGAAATAATTTTAAATTGTAATGTTGAAATTAATAC
258 AAACAACACACA-T-A-GAAGGATCAAATTGAAATAATTTTAAATTGTAAGGTTGAAATTAATAC
* *
43022 AAAAAAGTACTAAATTATACCCATTTAAAAAGTTATGGGTCAATTTAAAAATAGAAATAAGTAAT
320 AAAAAAGTACTAAATTATACCCATTTAAAAAGTTATGAGCCAATTTAAAAATAGAAATAAGTAAT
43087 AAGTATGGGTCAATTTCATATGCAAATAAAATTTGGAGGAC
385 AAGTATGGGTCAATTTCATATGCAAATAAAATTTGGAGGAC
*
43128 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATATATTAAACAACACA-A-A-AGGGA
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATAGAGGGA
* **
43190 TCAAATCGAAATAATTTTAAATTTTGAGGTTAAAATTAATACAAAAAAGTACTAAATTATACCCA
66 TCAAATCAAAATAATTTTAAATTGCGAGGTTAAAATTAATAC-AAAAA-TACTAAATTATACCCA
* * * * *
43255 TTTAAAAAGTTATGGGCCAATT-TAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTCATGTG
129 TTTAAAAAGTTATGGGCCAATTAAAAAAATAGAAATAAGTAATAAGTATAGATCAATTTCATATA
*
43319 CAAATAAAATTTGGAGGACTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATATATTA
194 CAAATAAAATTTGGAGGACTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTA
* * *
43384 AACAACACA-A-A-AAGGATCAAATTGAAATAATTTTAAATTTTGAGGTTGAAATTAATA-TAAA
259 AACAACACACATAGAAGGATCAAATTGAAATAATTTTAAATTGTAAGGTTGAAATTAATACAAAA
* * *
43445 ATGTACTAAATTATACTCATTTAAAAAGTTATGAGCCAA-TTAATAAATATAAATAAGTAATAAG
324 AAGTACTAAATTATACCCATTTAAAAAGTTATGAGCCAATTTAA-AAATAGAAATAAGTAATAAG
43509 T
388 T
43510 TGAGAAAAAA
Statistics
Matches: 353, Mismatches: 26, Indels: 18
0.89 0.07 0.05
Matches are distributed among these distances:
418 4 0.01
419 58 0.16
420 42 0.12
422 1 0.00
425 43 0.12
426 113 0.32
427 37 0.10
430 1 0.00
431 54 0.15
ACGTcount: A:0.51, C:0.08, G:0.11, T:0.30
Consensus pattern (425 bp):
TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATAGAGGGA
TCAAATCAAAATAATTTTAAATTGCGAGGTTAAAATTAATACAAAAATACTAAATTATACCCATT
TAAAAAGTTATGGGCCAATTAAAAAAATAGAAATAAGTAATAAGTATAGATCAATTTCATATACA
AATAAAATTTGGAGGACTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAA
CAACACACATAGAAGGATCAAATTGAAATAATTTTAAATTGTAAGGTTGAAATTAATACAAAAAA
GTACTAAATTATACCCATTTAAAAAGTTATGAGCCAATTTAAAAATAGAAATAAGTAATAAGTAT
GGGTCAATTTCATATGCAAATAAAATTTGGAGGAC
Found at i:43592 original size:2 final size:2
Alignment explanation
Indices: 43585--43735 Score: 74
Period size: 2 Copynumber: 79.5 Consensus size: 2
43575 CTACATAGTT
* * *
43585 TA TA TA TA AA T- TA TA TA TGA -A T- TA TA TA TA AA CTA TA CA -A
1 TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA -TA TA TA TA
* * * *
43625 TT TA TA TT TA TA TA T- TA TG TA TA -A T- TA TA AA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
43663 TA T- TG TA TA AA T- TA TA TA T- TA TA TA TA TA AA AA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
43701 TA GTT TA TA TA TA TA TA TA TA TA TA TA GTA TA TA T
1 TA -TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA T
43736 GACTTAGGGT
Statistics
Matches: 113, Mismatches: 20, Indels: 32
0.68 0.12 0.19
Matches are distributed among these distances:
1 12 0.11
2 96 0.85
3 5 0.04
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (2 bp):
TA
Found at i:43598 original size:11 final size:11
Alignment explanation
Indices: 43584--43702 Score: 66
Period size: 11 Copynumber: 10.6 Consensus size: 11
43574 ACTACATAGT
43584 TTATATATAAA
1 TTATATATAAA
*
43595 TTATATATGAA
1 TTATATATAAA
43606 TTATATATAAA
1 TTATATATAAA
* * *
43617 --CTATACAAT
1 TTATATATAAA
*
43626 TTATATTTATATA
1 TTATA--TATAAA
*
43639 TTATGTAT-AA
1 TTATATATAAA
*
43649 TTATAAATAATA
1 TTATATATAA-A
*
43661 TATATTGTATAAA
1 T-TA-TATATAAA
*
43674 TTATATAT-TA
1 TTATATATAAA
*
43684 TATATATAAAAA
1 T-TATATATAAA
43696 TTATATA
1 TTATATA
43703 GTTTATATAT
Statistics
Matches: 79, Mismatches: 19, Indels: 20
0.67 0.16 0.17
Matches are distributed among these distances:
9 6 0.08
10 9 0.11
11 42 0.53
12 6 0.08
13 11 0.14
14 5 0.06
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.47
Consensus pattern (11 bp):
TTATATATAAA
Found at i:43749 original size:7 final size:7
Alignment explanation
Indices: 43739--43797 Score: 64
Period size: 7 Copynumber: 8.4 Consensus size: 7
43729 TATATATGAC
43739 TTAGGGT
1 TTAGGGT
43746 TTAGGGT
1 TTAGGGT
**
43753 TTAATGT
1 TTAGGGT
43760 TTAGGGT
1 TTAGGGT
*
43767 GTAGGGT
1 TTAGGGT
43774 TTAGGGT
1 TTAGGGT
* *
43781 TTATGAT
1 TTAGGGT
*
43788 GTAGGGT
1 TTAGGGT
43795 TTA
1 TTA
43798 TATTTATATT
Statistics
Matches: 40, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
7 40 1.00
ACGTcount: A:0.19, C:0.00, G:0.37, T:0.44
Consensus pattern (7 bp):
TTAGGGT
Found at i:43782 original size:21 final size:21
Alignment explanation
Indices: 43739--43797 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
43729 TATATATGAC
* *
43739 TTAGGGTTTAGGGTTTAATGT
1 TTAGGGTGTAGGGTTTAAGGT
*
43760 TTAGGGTGTAGGGTTTAGGGT
1 TTAGGGTGTAGGGTTTAAGGT
* *
43781 TTATGATGTAGGGTTTA
1 TTAGGGTGTAGGGTTTA
43798 TATTTATATT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.19, C:0.00, G:0.37, T:0.44
Consensus pattern (21 bp):
TTAGGGTGTAGGGTTTAAGGT
Found at i:43852 original size:20 final size:20
Alignment explanation
Indices: 43820--43983 Score: 148
Period size: 22 Copynumber: 7.5 Consensus size: 20
43810 TATAAACTAC
*
43820 ATACTATAATTTATATTTAT
1 ATACTATATTTTATATTTAT
*
43840 ATATTATATTTTATACTATTTAT
1 ATACTATA-TTT-TA-TATTTAT
*
43863 ATAAACTATAGTTTATATTTAT
1 AT--ACTATATTTTATATTTAT
43885 ATACTATATTTTATACTATTTAT
1 ATACTATA-TTT-TA-TATTTAT
*
43908 ATAAACTATAGTTTATATTTAT
1 AT--ACTATATTTTATATTTAT
43930 ATACTATATTTTATACTATTTAT
1 ATACTATA-TTT-TA-TATTTAT
*
43953 ATAAACTATAGTTTATATTTAT
1 AT--ACTATATTTTATATTTAT
43975 ATACTATAT
1 ATACTATAT
43984 ATATGAACTA
Statistics
Matches: 120, Mismatches: 9, Indels: 30
0.75 0.06 0.19
Matches are distributed among these distances:
20 25 0.21
21 6 0.05
22 33 0.28
23 33 0.28
24 6 0.05
25 17 0.14
ACGTcount: A:0.38, C:0.06, G:0.02, T:0.54
Consensus pattern (20 bp):
ATACTATATTTTATATTTAT
Found at i:43872 original size:25 final size:25
Alignment explanation
Indices: 43844--43969 Score: 155
Period size: 22 Copynumber: 5.4 Consensus size: 25
43834 ATTTATATAT
43844 TATATTTTATACTATTTATATAAAC
1 TATATTTTATACTATTTATATAAAC
*
43869 TATA-GTT-TA-TATTTATAT--AC
1 TATATTTTATACTATTTATATAAAC
43889 TATATTTTATACTATTTATATAAAC
1 TATATTTTATACTATTTATATAAAC
*
43914 TATA-GTT-TA-TATTTATAT--AC
1 TATATTTTATACTATTTATATAAAC
43934 TATATTTTATACTATTTATATAAAC
1 TATATTTTATACTATTTATATAAAC
*
43959 TATAGTTTATA
1 TATATTTTATA
43970 TTTATATACT
Statistics
Matches: 86, Mismatches: 5, Indels: 20
0.77 0.05 0.18
Matches are distributed among these distances:
20 12 0.14
21 4 0.05
22 22 0.26
23 22 0.26
24 4 0.05
25 22 0.26
ACGTcount: A:0.38, C:0.06, G:0.02, T:0.53
Consensus pattern (25 bp):
TATATTTTATACTATTTATATAAAC
Found at i:43879 original size:45 final size:45
Alignment explanation
Indices: 43822--43983 Score: 306
Period size: 45 Copynumber: 3.6 Consensus size: 45
43812 TAAACTACAT
* *
43822 ACTATAATTTATATTTATATATTATATTTTATACTATTTATATAA
1 ACTATAGTTTATATTTATATACTATATTTTATACTATTTATATAA
43867 ACTATAGTTTATATTTATATACTATATTTTATACTATTTATATAA
1 ACTATAGTTTATATTTATATACTATATTTTATACTATTTATATAA
43912 ACTATAGTTTATATTTATATACTATATTTTATACTATTTATATAA
1 ACTATAGTTTATATTTATATACTATATTTTATACTATTTATATAA
43957 ACTATAGTTTATATTTATATACTATAT
1 ACTATAGTTTATATTTATATACTATAT
43984 ATATGAACTA
Statistics
Matches: 115, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 115 1.00
ACGTcount: A:0.38, C:0.06, G:0.02, T:0.54
Consensus pattern (45 bp):
ACTATAGTTTATATTTATATACTATATTTTATACTATTTATATAA
Found at i:44017 original size:33 final size:33
Alignment explanation
Indices: 43941--44019 Score: 90
Period size: 33 Copynumber: 2.4 Consensus size: 33
43931 TACTATATTT
* * *
43941 TATACTATTTATATAAACTATAGTTTATATTTA
1 TATACTATATATATAAACTATAGTTTACATTGA
*
43974 TATACTATATATATGAACTATAGTTTACATGTGA
1 TATACTATATATATAAACTATAGTTTACAT-TGA
44008 -ACTAC-ATATATA
1 TA-TACTATATATA
44020 AATATATATA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
33 35 0.88
34 5 0.12
ACGTcount: A:0.41, C:0.09, G:0.06, T:0.44
Consensus pattern (33 bp):
TATACTATATATATAAACTATAGTTTACATTGA
Found at i:44084 original size:35 final size:36
Alignment explanation
Indices: 44040--44121 Score: 125
Period size: 35 Copynumber: 2.3 Consensus size: 36
44030 TACTAAGGTT
44040 TATA-TTTATATA-TGAACTATAGTTTACATATAAAC
1 TATAGTTTATATACT-AACTATAGTTTACATATAAAC
44075 TAT-GTTTATATACTAACTATAGTTTACATATAAAC
1 TATAGTTTATATACTAACTATAGTTTACATATAAAC
*
44110 TATAGTTAATAT
1 TATAGTTTATAT
44122 TTACATATGT
Statistics
Matches: 43, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
35 35 0.81
36 8 0.19
ACGTcount: A:0.41, C:0.09, G:0.06, T:0.44
Consensus pattern (36 bp):
TATAGTTTATATACTAACTATAGTTTACATATAAAC
Found at i:44092 original size:17 final size:18
Alignment explanation
Indices: 44040--44121 Score: 98
Period size: 18 Copynumber: 4.7 Consensus size: 18
44030 TACTAAGGTT
*
44040 TATA-TTTATATATGAAC
1 TATAGTTTATATATAAAC
*
44057 TATAGTTTACATATAAAC
1 TATAGTTTATATATAAAC
44075 TAT-GTTTATATACT-AAC
1 TATAGTTTATATA-TAAAC
*
44092 TATAGTTTACATATAAAC
1 TATAGTTTATATATAAAC
*
44110 TATAGTTAATAT
1 TATAGTTTATAT
44122 TTACATATGT
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
17 19 0.35
18 36 0.65
ACGTcount: A:0.41, C:0.09, G:0.06, T:0.44
Consensus pattern (18 bp):
TATAGTTTATATATAAAC
Found at i:44172 original size:22 final size:21
Alignment explanation
Indices: 44134--44255 Score: 85
Period size: 22 Copynumber: 5.8 Consensus size: 21
44124 ACATATGTAC
*
44134 TATATATATA-AAGTATAGTTGA
1 TATATATATACTA-TATAGTT-A
*
44156 TATTTATATACTATATAGTT-
1 TATATATATACTATATAGTTA
* * *
44176 TACATGTGA-CCTATATA--TA
1 TATATAT-ATACTATATAGTTA
44195 TATATATATA-TACTATAGTTGA
1 TATATATATACTA-TATAGTT-A
*
44217 TATTTATATACTATATAGTATA
1 TATATATATACTATATAGT-TA
*
44239 TATATATAAACTATATA
1 TATATATATACTATATA
44256 TACTATATAA
Statistics
Matches: 78, Mismatches: 12, Indels: 20
0.71 0.11 0.18
Matches are distributed among these distances:
18 4 0.05
19 9 0.12
20 11 0.14
21 2 0.03
22 48 0.62
23 4 0.05
ACGTcount: A:0.42, C:0.06, G:0.07, T:0.45
Consensus pattern (21 bp):
TATATATATACTATATAGTTA
Found at i:44194 original size:2 final size:2
Alignment explanation
Indices: 44187--44269 Score: 71
Period size: 2 Copynumber: 39.0 Consensus size: 2
44177 ACATGTGACC
*
44187 TA TA TA TA TA TA TA TA TA TA CTA TA GT- TGA TA TT TA TA TA CTA
1 TA TA TA TA TA TA TA TA TA TA -TA TA -TA T-A TA TA TA TA TA -TA
*
44230 TA TA GTA TA TA TA TA TA AA CTA TA TA TA CTA TA TA -A TA TA
1 TA TA -TA TA TA TA TA TA TA -TA TA TA TA -TA TA TA TA TA TA
44270 ATTTACATAT
Statistics
Matches: 68, Mismatches: 4, Indels: 18
0.76 0.04 0.20
Matches are distributed among these distances:
1 2 0.03
2 55 0.81
3 11 0.16
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.46
Consensus pattern (2 bp):
TA
Found at i:44239 original size:20 final size:20
Alignment explanation
Indices: 44110--44269 Score: 79
Period size: 22 Copynumber: 7.8 Consensus size: 20
44100 ACATATAAAC
*
44110 TATAGT-TA-ATATTTAC-A
1 TATAGTATATATATATACTA
*
44127 TAT-GTACTATATATATA-AA
1 TATAGTA-TATATATATACTA
*
44146 GTATAGTTGATATTTATATACTA
1 -TATAG-T-ATATATATATACTA
* *
44169 TATAGT-T-TACATGTGACCTA
1 TATAGTATATATATAT-A-CTA
44189 TATA-TATATATATATA-TA
1 TATAGTATATATATATACTA
*
44207 CTATAGTTGATATTTATATACTA
1 -TATAG-T-ATATATATATACTA
44230 TATAGTATATATATATAAACTA
1 TATAGTATATATATAT--ACTA
44252 TATA-TACTATATAATATA
1 TATAGTA-TATAT-ATATA
44270 ATTTACATAT
Statistics
Matches: 111, Mismatches: 10, Indels: 40
0.69 0.06 0.25
Matches are distributed among these distances:
16 2 0.02
17 3 0.03
18 8 0.07
19 14 0.13
20 21 0.19
21 12 0.11
22 43 0.39
23 8 0.07
ACGTcount: A:0.42, C:0.06, G:0.07, T:0.45
Consensus pattern (20 bp):
TATAGTATATATATATACTA
Found at i:44254 original size:61 final size:60
Alignment explanation
Indices: 43992--44269 Score: 195
Period size: 61 Copynumber: 4.6 Consensus size: 60
43982 ATATATGAAC
* * *
43992 TATAGTTTACATGTGAACTACATATATAAATATATATATACTA-AGGTTTATATTTATATA-TGA
1 TATAGTTTACATAT-AA--ACATATATATATATATATATACTATA-GTTGATATTTATATACT--
44055 A
60 A
* ** *
44056 CTATAGTTTACATATAAAC-TATGT-T-TATATACTA-ACTATAGTT--TACATATAAAC--
1 -TATAGTTTACATATAAACATATATATATATATA-TATACTATAGTTGATATTTATATACTA
** * * *
44110 TATAG-TTA-ATATTTACATATGTACTATATATATAAAGTATAGTTGATATTTATATACTA
1 TATAGTTTACATATAAACATATATA-TATATATATATACTATAGTTGATATTTATATACTA
* * *
44169 TATAGTTTACATGTGACCTATATATATATATATATATACTATAGTTGATATTTATATACTA
1 TATAGTTTACATATAAAC-ATATATATATATATATATACTATAGTTGATATTTATATACTA
*
44230 TATAGTATATATATATAAAC-TATATATACTATATAATATA
1 TATAGT-T-TACATATAAACATATATATA-TATAT-ATATA
44270 ATTTACATAT
Statistics
Matches: 171, Mismatches: 23, Indels: 40
0.73 0.10 0.17
Matches are distributed among these distances:
51 6 0.04
52 8 0.05
53 5 0.03
54 3 0.02
55 14 0.08
57 15 0.09
59 18 0.11
60 6 0.04
61 55 0.32
62 14 0.08
63 12 0.07
64 2 0.01
65 13 0.08
ACGTcount: A:0.42, C:0.08, G:0.07, T:0.44
Consensus pattern (60 bp):
TATAGTTTACATATAAACATATATATATATATATATACTATAGTTGATATTTATATACTA
Found at i:44262 original size:22 final size:21
Alignment explanation
Indices: 44186--44270 Score: 86
Period size: 22 Copynumber: 4.0 Consensus size: 21
44176 TACATGTGAC
*
44186 CTATATATATATATATATATA
1 CTATATATATATATATATAAA
*
44207 CTATAGT-TGATAT-T-TATATA
1 CTATA-TAT-ATATATATATAAA
44227 CTATATAGTATATATATATAAA
1 CTATATA-TATATATATATAAA
44249 CTATATATACTATATAATATAA
1 CTATATATA-TATAT-ATATAA
44271 TTTACATATG
Statistics
Matches: 55, Mismatches: 1, Indels: 14
0.79 0.01 0.20
Matches are distributed among these distances:
19 1 0.02
20 15 0.27
21 11 0.20
22 22 0.40
23 6 0.11
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.45
Consensus pattern (21 bp):
CTATATATATATATATATAAA
Found at i:44290 original size:34 final size:31
Alignment explanation
Indices: 44221--44291 Score: 88
Period size: 34 Copynumber: 2.2 Consensus size: 31
44211 AGTTGATATT
* *
44221 TATATACTATATAGTATATATATATAAACTA
1 TATATACTATATAATATATACATATAAACTA
*
44252 TATATACTATATAATATAATTTACATATGAACTA
1 TATATACTATATAATAT-A--TACATATAAACTA
44286 TATATA
1 TATATA
44292 AAAATTCTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
31 16 0.47
32 1 0.03
34 17 0.50
ACGTcount: A:0.48, C:0.07, G:0.03, T:0.42
Consensus pattern (31 bp):
TATATACTATATAATATATACATATAAACTA
Found at i:44362 original size:35 final size:34
Alignment explanation
Indices: 44317--44400 Score: 123
Period size: 35 Copynumber: 2.4 Consensus size: 34
44307 AAACCCTAAA
*
44317 ATATACATTATATAGTTTATTAGCATATATAAACT
1 ATATA-ATTATATAGTTCATTAGCATATATAAACT
*
44352 ATATATATTATATAGTTCATTAGTATATATAAACT
1 ATATA-ATTATATAGTTCATTAGCATATATAAACT
44387 ATATAATATATATA
1 ATATAAT-TATATA
44401 AATTATATAT
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
34 2 0.04
35 43 0.96
ACGTcount: A:0.45, C:0.06, G:0.05, T:0.44
Consensus pattern (34 bp):
ATATAATTATATAGTTCATTAGCATATATAAACT
Found at i:44390 original size:44 final size:44
Alignment explanation
Indices: 44340--44435 Score: 117
Period size: 44 Copynumber: 2.2 Consensus size: 44
44330 AGTTTATTAG
* *
44340 CATATATAA-ACTATATATATTATATAGTTCA-TTAGTATATATAAA
1 CATATATAATA-TATATAAATTATATA-TTAATTTAGTA-ATATAAA
*
44385 C-TATATAATATATATAAATTATATATTAATTTATTAATATAAA
1 CATATATAATATATATAAATTATATATTAATTTAGTAATATAAA
44428 CATATATA
1 CATATATA
44436 TTAATTGAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
43 11 0.24
44 32 0.71
45 2 0.04
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (44 bp):
CATATATAATATATATAAATTATATATTAATTTAGTAATATAAA
Found at i:44521 original size:34 final size:33
Alignment explanation
Indices: 44483--44604 Score: 91
Period size: 34 Copynumber: 3.8 Consensus size: 33
44473 TGAACAAATT
44483 TTAAATATGAAGCTTAAATTAATAAATTATAACA
1 TTAAATATGAAGCTTAAATTAATAAATTA-AACA
* * *
44517 TTAAATTTG--GATTAAATT-A-AAA--AAA-G
1 TTAAATATGAAGCTTAAATTAATAAATTAAACA
*
44543 TTGAAATATGAAGCTTAAATTAATATATTAAATCA
1 TT-AAATATGAAGCTTAAATTAATAAATTAAA-CA
* *
44578 TTAATTTTGAA-C-TAAATTGAATAAATT
1 TTAAATATGAAGCTTAAATT-AATAAATT
44605 TAAAACTAAA
Statistics
Matches: 68, Mismatches: 10, Indels: 21
0.69 0.10 0.21
Matches are distributed among these distances:
26 2 0.03
27 8 0.12
28 1 0.01
29 8 0.12
30 4 0.06
31 3 0.04
32 14 0.21
33 11 0.16
34 15 0.22
35 2 0.03
ACGTcount: A:0.50, C:0.04, G:0.08, T:0.38
Consensus pattern (33 bp):
TTAAATATGAAGCTTAAATTAATAAATTAAACA
Found at i:47704 original size:20 final size:20
Alignment explanation
Indices: 47666--47704 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
47656 CTATTTATTA
*
47666 ATTTAATTATCATAATAAAT
1 ATTTAATTATAATAATAAAT
* *
47686 ATTTTATTATAATATTAAA
1 ATTTAATTATAATAATAAA
47705 AAAGTAATCA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
ATTTAATTATAATAATAAAT
Found at i:47856 original size:16 final size:16
Alignment explanation
Indices: 47837--47904 Score: 86
Period size: 16 Copynumber: 4.2 Consensus size: 16
47827 CAGATCATTT
47837 ACAGATCAGGTTAAAA
1 ACAGATCAGGTTAAAA
*
47853 ACAGGTCAGGTTAAAA
1 ACAGATCAGGTTAAAA
*
47869 ACATG-TCAGTTTAAAA
1 ACA-GATCAGGTTAAAA
47885 ACA-AGTCAGGTTAAAA
1 ACAGA-TCAGGTTAAAA
47901 ACAG
1 ACAG
47905 GTCGGGTAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
16 44 0.98
17 1 0.02
ACGTcount: A:0.47, C:0.13, G:0.19, T:0.21
Consensus pattern (16 bp):
ACAGATCAGGTTAAAA
Found at i:47883 original size:32 final size:32
Alignment explanation
Indices: 47842--47903 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
47832 CATTTACAGA
*
47842 TCAGGTTAAAAACAGGTCAGGTTAAAAACATG
1 TCAGGTTAAAAACAAGTCAGGTTAAAAACATG
*
47874 TCAGTTTAAAAACAAGTCAGGTTAAAAACA
1 TCAGGTTAAAAACAAGTCAGGTTAAAAACA
47904 GGTCGGGTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.47, C:0.13, G:0.18, T:0.23
Consensus pattern (32 bp):
TCAGGTTAAAAACAAGTCAGGTTAAAAACATG
Found at i:51315 original size:25 final size:25
Alignment explanation
Indices: 51287--51335 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
51277 GGTATTAAAT
*
51287 TTCTTAAGTAAGTTTAGGAGTTCGA
1 TTCTTAAGCAAGTTTAGGAGTTCGA
51312 TTCTTAAGCAAGTTTAGGAGTTCG
1 TTCTTAAGCAAGTTTAGGAGTTCG
51336 GATTAACATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.27, C:0.10, G:0.24, T:0.39
Consensus pattern (25 bp):
TTCTTAAGCAAGTTTAGGAGTTCGA
Found at i:53882 original size:38 final size:37
Alignment explanation
Indices: 53803--53875 Score: 94
Period size: 37 Copynumber: 2.0 Consensus size: 37
53793 AATCATACAT
* * *
53803 AAAA-TTTAGTTTTTATTTCATTTTAGTACTCCATTA
1 AAAATTTTTGTTTTTATTTCATTCTAGTACCCCATTA
*
53839 AAAATTTTTGTTTTTTTTTCATTCTAGTATCCCCATT
1 AAAATTTTTGTTTTTATTTCATTCTAGTA-CCCCATT
53876 CGAAATTGTA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
36 4 0.13
37 21 0.68
38 6 0.19
ACGTcount: A:0.26, C:0.14, G:0.05, T:0.55
Consensus pattern (37 bp):
AAAATTTTTGTTTTTATTTCATTCTAGTACCCCATTA
Found at i:54073 original size:31 final size:33
Alignment explanation
Indices: 54023--54086 Score: 87
Period size: 31 Copynumber: 2.0 Consensus size: 33
54013 TGATTTTAAA
*
54023 AAAATTAAAAGTTTAAATATTAAA-ATA-AATT
1 AAAACTAAAAGTTTAAATATTAAATATATAATT
* *
54054 AAAACTAATAGTTTTAATATTAAATATATAATT
1 AAAACTAAAAGTTTAAATATTAAATATATAATT
54087 TACCTTTTGA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 21 0.75
32 3 0.11
33 4 0.14
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (33 bp):
AAAACTAAAAGTTTAAATATTAAATATATAATT
Found at i:54437 original size:31 final size:31
Alignment explanation
Indices: 54401--54516 Score: 162
Period size: 31 Copynumber: 3.7 Consensus size: 31
54391 CATACCTAAT
54401 GTTTACTTTTTGTTTCATTTTAGTACCCTAC
1 GTTTACTTTTTGTTTCATTTTAGTACCCTAC
*
54432 GTTTACTTTTTGTTTCATTTTAGTACCCGAC
1 GTTTACTTTTTGTTTCATTTTAGTACCCTAC
* *
54463 GTTTACTTTTTGTTTCATTCTAGTA-CCTCATT
1 GTTTACTTTTTGTTTCATTTTAGTACCCT-A-C
* *
54495 GTTAACTTTTTATTTCATTTTA
1 GTTTACTTTTTGTTTCATTTTA
54517 ATACATAAAT
Statistics
Matches: 76, Mismatches: 7, Indels: 3
0.88 0.08 0.03
Matches are distributed among these distances:
30 2 0.03
31 55 0.72
32 19 0.25
ACGTcount: A:0.17, C:0.17, G:0.09, T:0.56
Consensus pattern (31 bp):
GTTTACTTTTTGTTTCATTTTAGTACCCTAC
Found at i:55493 original size:60 final size:63
Alignment explanation
Indices: 55429--55570 Score: 161
Period size: 65 Copynumber: 2.3 Consensus size: 63
55419 TAGTCGAGAG
*
55429 ACTCAACAAAATAACATCTTAT-A-ATAAT-AAA-ATT-ATTTTATAATTTTTAATAATAATATA
1 ACTCAACAAAATAACATCTTATAATATAATAAAAGATTAATTTTAT-A-TTTTAATAATAATAGA
* * *
55489 ACTCAA-TAAATCAACACCTTATAATTATAATAAAAAGATTAATTTTATATTTTACTAATAATAG
1 ACTCAACAAAAT-AACATCTTATAA-TATAAT-AAAAGATTAATTTTATATTTTAATAATAATAG
55553 A
63 A
55554 ACTCAACAAAATAACAT
1 ACTCAACAAAATAACAT
55571 TGTAATGGGG
Statistics
Matches: 67, Mismatches: 6, Indels: 13
0.78 0.07 0.15
Matches are distributed among these distances:
59 4 0.06
60 15 0.22
61 1 0.01
63 5 0.07
65 27 0.40
66 8 0.12
67 7 0.10
ACGTcount: A:0.51, C:0.11, G:0.01, T:0.36
Consensus pattern (63 bp):
ACTCAACAAAATAACATCTTATAATATAATAAAAGATTAATTTTATATTTTAATAATAATAGA
Found at i:61655 original size:29 final size:29
Alignment explanation
Indices: 61573--61655 Score: 85
Period size: 29 Copynumber: 2.9 Consensus size: 29
61563 TATGTCTTTG
* * * *
61573 GTTCCAATTTAGTGCTTAACCTTTATTTC
1 GTTCCAGTTTGGTGCCTAACATTTATTTC
* * **
61602 ATTCTAGTTTGGTGCCTAGTATTTATTTC
1 GTTCCAGTTTGGTGCCTAACATTTATTTC
*
61631 GTTCCAGTTTGGTGCCTAACGTTTA
1 GTTCCAGTTTGGTGCCTAACATTTA
61656 ATTCTATGAC
Statistics
Matches: 41, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.18, C:0.18, G:0.17, T:0.47
Consensus pattern (29 bp):
GTTCCAGTTTGGTGCCTAACATTTATTTC
Found at i:62202 original size:2 final size:2
Alignment explanation
Indices: 62197--62225 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
62187 TGTTTTTTAA
62197 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
62226 ATTTTAATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:66746 original size:38 final size:38
Alignment explanation
Indices: 66698--67121 Score: 434
Period size: 38 Copynumber: 11.4 Consensus size: 38
66688 AAAAAAATCA
66698 ATTTT-AAAACTATATAATATATATATTTTCAAAAATT
1 ATTTTCAAAACTATATAATATATATATTTTCAAAAATT
* * *
66735 ATTTTCGAAACTATGTAATATATATGTTTTCAAAAATT
1 ATTTTCAAAACTATATAATATATATATTTTCAAAAATT
*
66773 GATTTTCAAAAC--TAT-ATA-ATATATTTTCAAAAATC
1 -ATTTTCAAAACTATATAATATATATATTTTCAAAAATT
* *
66808 ATTTTCAAAACTATATAATACATATATGTTCAAAAATT
1 ATTTTCAAAACTATATAATATATATATTTTCAAAAATT
*
66846 GTTTTCAAAACTATATAATATATATATTTTCAAAAATT
1 ATTTTCAAAACTATATAATATATATATTTTCAAAAATT
* * **
66884 GTTTTCAAAGCTATAT-A-ATATATATTTTCAAAAAGC
1 ATTTTCAAAACTATATAATATATATATTTTCAAAAATT
*
66920 GTTTTCAAAACTATATAATATATATATTTTC-AAAATT
1 ATTTTCAAAACTATATAATATATATATTTTCAAAAATT
*
66957 CGTTTTCAAAACTATAT-A-ATATAT-TTTTCAAAAATT
1 -ATTTTCAAAACTATATAATATATATATTTTCAAAAATT
* * *
66993 ATTTTTAAAATTATATATATATATATTTTTTCAAAAATT
1 ATTTTCAAAACTATATA-ATATATATATTTTCAAAAATT
* * * *
67032 GATTTTGTAAAAAGTATAT-AT-TATATGTTTTCAAAACCGTT
1 -A-TTT-TCAAAACTATATAATATATATATTTTCAAAA--ATT
* * *
67073 -TTCTAAAAACTATAT-AT-TAT-TTTTTTCAAAAA-T
1 ATTTTCAAAACTATATAATATATATATTTTCAAAAATT
67106 ATTTTCAAAAACTATA
1 ATTTTC-AAAACTATA
67122 CTATATTAAT
Statistics
Matches: 335, Mismatches: 31, Indels: 44
0.82 0.08 0.11
Matches are distributed among these distances:
33 1 0.00
34 14 0.04
35 42 0.13
36 60 0.18
37 34 0.10
38 130 0.39
39 36 0.11
40 3 0.01
41 5 0.01
42 10 0.03
ACGTcount: A:0.43, C:0.08, G:0.04, T:0.44
Consensus pattern (38 bp):
ATTTTCAAAACTATATAATATATATATTTTCAAAAATT
Found at i:66754 original size:74 final size:73
Alignment explanation
Indices: 66675--67121 Score: 366
Period size: 74 Copynumber: 6.0 Consensus size: 73
66665 AAACTAAAAA
*
66675 ATAATATGCTTTCAAAAAAATCAATTTT-AAAACTATATAATATATATATTTTCAAAAATTATTT
1 ATAATATGTTTTC--AAAAATCAATTTTCAAAACTATATAATATATATATTTTCAAAAATTATTT
*
66739 TCGAAACTATGT
64 TCAAAACTA--T
** *
66751 AATATATATGTTTTCAAAAATTGATTTTCAAAAC--TAT-ATA-ATATATTTTCAAAAATCATTT
1 -ATA-ATATGTTTTCAAAAATCAATTTTCAAAACTATATAATATATATATTTTCAAAAATTATTT
66812 TCAAAACTAT
64 TCAAAACTAT
* ** *
66822 ATAATACATATATGTTCAAAAAT-TGTTTTCAAAACTATATAATATATATATTTTCAAAAATTGT
1 ATAAT--ATGT-T-TTCAAAAATCAATTTTCAAAACTATATAATATATATATTTTCAAAAATTAT
*
66886 TTTCAAAGCTAT
62 TTTCAAAACTAT
* * * *
66898 ATAATATATATTTTCAAAAAGC-GTTTTCAAAACTATATAATATATATATTTTC-AAAATTCGTT
1 AT-A-ATATGTTTTCAAAAATCAATTTTCAAAACTATATAATATATATATTTTCAAAAATT-ATT
66961 TTCAAAACTAT
63 TTCAAAACTAT
* * * * *
66972 ATAATATATTTTTCAAAAAT-TATTTTTAAAATTATATATATATATATTTTTTCAAAAATTGATT
1 ATAATAT-GTTTTCAAAAATCAATTTTCAAAACTATATA-ATATATATATTTTCAAAAATT-A-T
* *
67036 TTGTAAAAAGTAT
62 TT-TCAAAACTAT
** *
67049 ATATTATATGTTTTC-AAAA-CCGTTTTCTAAAAACTATAT-AT-TAT-TTTTTTCAAAAA-TAT
1 ATA--ATATGTTTTCAAAAATCAATTTTC--AAAACTATATAATATATATATTTTCAAAAATTAT
67108 TTTCAAAAACTAT
62 TTTC-AAAACTAT
67121 A
1 A
67122 CTATATTAAT
Statistics
Matches: 314, Mismatches: 30, Indels: 57
0.78 0.07 0.14
Matches are distributed among these distances:
69 2 0.01
70 3 0.01
71 5 0.02
72 26 0.08
73 69 0.22
74 74 0.24
75 25 0.08
76 51 0.16
77 30 0.10
78 16 0.05
79 13 0.04
ACGTcount: A:0.44, C:0.09, G:0.04, T:0.44
Consensus pattern (73 bp):
ATAATATGTTTTCAAAAATCAATTTTCAAAACTATATAATATATATATTTTCAAAAATTATTTTC
AAAACTAT
Found at i:67542 original size:23 final size:23
Alignment explanation
Indices: 67515--67560 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
67505 CTAACAAAAA
*
67515 ACAGAGAAAAACGTGTCACAAAG
1 ACAGACAAAAACGTGTCACAAAG
* *
67538 ACAGACATAAACGTGTCATAAAG
1 ACAGACAAAAACGTGTCACAAAG
67561 GCAAAGAACA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.50, C:0.17, G:0.20, T:0.13
Consensus pattern (23 bp):
ACAGACAAAAACGTGTCACAAAG
Found at i:68131 original size:9 final size:10
Alignment explanation
Indices: 68070--68146 Score: 54
Period size: 10 Copynumber: 7.7 Consensus size: 10
68060 TTTGATAATA
68070 TAATAATTATT
1 TAATAA-TATT
* *
68081 TTATAGTATT
1 TAATAATATT
68091 TAGATAA-ATT
1 TA-ATAATATT
*
68101 TATTAATATT
1 TAATAATATT
*
68111 T-ATAATCTTT
1 TAATAAT-ATT
68121 TAATAA-ATT
1 TAATAATATT
68130 TAATAAGTATT
1 TAATAA-TATT
68141 T-ATAAT
1 TAATAAT
68147 TTTTTAAACT
Statistics
Matches: 52, Mismatches: 8, Indels: 14
0.70 0.11 0.19
Matches are distributed among these distances:
9 16 0.31
10 21 0.40
11 15 0.29
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (10 bp):
TAATAATATT
Found at i:68143 original size:30 final size:29
Alignment explanation
Indices: 68089--68153 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 29
68079 TTTTATAGTA
*
68089 TTTAGATAAATTTATTAATATTTATAATCT
1 TTTA-ATAAATTTAATAATATTTATAATCT
*
68119 TTTAATAAATTTAATAAGTATTTATAATTT
1 TTTAATAAATTTAATAA-TATTTATAATCT
68149 TTTAA
1 TTTAA
68154 ACTTTATTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 12 0.38
30 20 0.62
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.54
Consensus pattern (29 bp):
TTTAATAAATTTAATAATATTTATAATCT
Found at i:68150 original size:29 final size:29
Alignment explanation
Indices: 68070--68150 Score: 92
Period size: 29 Copynumber: 2.7 Consensus size: 29
68060 TTTGATAATA
* *
68070 TAATAATTATTTTATAGTATTTAGATAAATT
1 TAATAA-TA-TTTATAATTTTTAGATAAATT
*
68101 TATTAATATTTATAATCTTTTA-ATAAATT
1 TAATAATATTTATAAT-TTTTAGATAAATT
68130 TAATAAGTATTTATAATTTTT
1 TAATAA-TATTTATAATTTTT
68151 TAAACTTTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
29 23 0.52
30 16 0.36
31 5 0.11
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.54
Consensus pattern (29 bp):
TAATAATATTTATAATTTTTAGATAAATT
Found at i:70081 original size:21 final size:21
Alignment explanation
Indices: 70057--70098 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
70047 TTGTCTTTGA
70057 CTTGGGTGCGAAAAAGGCTTT
1 CTTGGGTGCGAAAAAGGCTTT
70078 CTTGGGTGCGAAAAAGGCTTT
1 CTTGGGTGCGAAAAAGGCTTT
70099 ACCTTGCCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.14, G:0.33, T:0.29
Consensus pattern (21 bp):
CTTGGGTGCGAAAAAGGCTTT
Done.