Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007696.1 Hibiscus syriacus cultivar Beakdansim tig00109904_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: 46218
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Found at i:387 original size:3 final size:3
Alignment explanation
Indices: 373--448 Score: 91
Period size: 3 Copynumber: 25.3 Consensus size: 3
363 TGTAATATTA
* * *
373 AAT AAT ATAT AAT AAT AAT AAT AAT AAT AAT AAT TAT TAT TAT AAT
1 AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
419 TAT -AT AAT AAT AAT TAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
449 TAAATAACAT
Statistics
Matches: 66, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
2 2 0.03
3 61 0.92
4 3 0.05
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (3 bp):
AAT
Found at i:710 original size:17 final size:17
Alignment explanation
Indices: 688--743 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 17
678 TTGAATAAGC
688 TCTTCTCATTATGAACT
1 TCTTCTCATTATGAACT
*
705 TCTTCTTC-TCCTGATG-AGT
1 TCTTC-TCAT--T-ATGAACT
724 TCTTCTCATTATGAACT
1 TCTTCTCATTATGAACT
741 TCT
1 TCT
744 CTGGAAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 12
0.69 0.04 0.27
Matches are distributed among these distances:
16 3 0.10
17 12 0.39
18 4 0.13
19 9 0.29
20 3 0.10
ACGTcount: A:0.18, C:0.25, G:0.09, T:0.48
Consensus pattern (17 bp):
TCTTCTCATTATGAACT
Found at i:817 original size:20 final size:20
Alignment explanation
Indices: 794--857 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
784 GCTGAACAAA
794 TTCTTCTCATTATGAACTTC
1 TTCTTCTCATTATGAACTTC
* **
814 TTCTTCCTTC-TT-T-AAATGAG
1 TTCTT-C-TCATTATGAACT-TC
834 TTCTTCTCATTATGAACTTC
1 TTCTTCTCATTATGAACTTC
854 TTCT
1 TTCT
858 GGAAAAGCTA
Statistics
Matches: 32, Mismatches: 6, Indels: 12
0.64 0.12 0.24
Matches are distributed among these distances:
18 2 0.06
19 6 0.19
20 16 0.50
21 6 0.19
22 2 0.06
ACGTcount: A:0.19, C:0.23, G:0.06, T:0.52
Consensus pattern (20 bp):
TTCTTCTCATTATGAACTTC
Found at i:1313 original size:335 final size:339
Alignment explanation
Indices: 673--2093 Score: 2294
Period size: 335 Copynumber: 4.2 Consensus size: 339
663 AGAGTCATTC
* ** *
673 AAAGGTTGAATAAGCTCTTCTCATTATGAACTTCTTCTT-C-TC--CTGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * * * *
734 ATGAACTTC-TCTGGAAAAAATGACCCATCAAGTGATGGATTTGAGCAAAA-GCTGAACAAATTC
66 ATGAACTTCATCTGGAAAAGATAATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAACTC
* *
797 TTCTCATTATGAACTTCTTCTTCCTTCTTTAAATGAGTTCTTCTCATTATGAACTTCTTCTGGAA
131 TTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTTCTGGAA
862 AAGCTAATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTC
196 AAGCTAATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTC
*
927 TTCTTCCTTCTTCAGATGAGTTATTCTCATTATGAACTCGAACTGGAAAAGATAATCCATCAAGT
261 TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAGATAATCCATCAAGT
992 GATGGATTTGAGCA
326 GATGGATTTGAGCA
1006 AAAGGTTGAACAAATTCTTCTCATTATG-ACTTCTTCTTCCTTCTTCAGATGAGTTC-T-TCATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * *
1068 ATGAACTTCTTCTGGAAAAGCTAATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAATTC
66 ATGAACTTCATCTGGAAAAGATAATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAACTC
**
1133 TTCTCATTATGAACTTCTTCTT-CTTCTTCAGATGAGTTCTTCTCATTATGAAC-TCGAACTGGA
131 TTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTC-TTCTGGA
*
1196 AAAGATAATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTT
195 AAAGCTAATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTT
1261 CTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAGATAATCCATCAAG
260 CTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAGATAATCCATCAAG
1326 TGATGGATTTGAGCA
325 TGATGGATTTGAGCA
*
1341 AAAGGTTGAACAAATTCTTCTCACTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* *
1406 ATGAAC-TCGAACTGGAAAAGATAATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGCT
66 ATGAACTTC-ATCTGGAAAAGATAATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAACT
*
1470 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAA---CTTCTGGA
130 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTTCTGGA
*
1532 AAAGCTGATCCATCAAGTGATGGATTTGAGC-AAAGGTTGAACAAATTCTTCTCATTATGAACTT
195 AAAGCTAATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTT
*
1596 CTTCTTCCTTCTTTAGATGAG---TTCTCATTATGAACTCGAACTGGAAAAGATAATCCATCAAG
260 CTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAGATAATCCATCAAG
1658 TGATGGATTTGAGCA
325 TGATGGATTTGAGCA
1673 AAAGGTTGAAC-AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* *
1737 ATGAAC-TCGAACTGGAAAAGATAATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGCT
66 ATGAACTTC-ATCTGGAAAAGATAATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAACT
*
1801 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTCTTCTGGA
130 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTTCTGGA
* *
1866 AAAGCTGATCCATCAAGTGATGGATTTGAGCATAAGGTTGAACAAATTCTTCTCATTATGAACTT
195 AAAGCTAATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTT
**** * *
1931 CTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATCCATCAAG
260 CTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAGATAATCCATCAAG
* *
1996 TGAT-GAATTCAGGCA
325 TGATGGATTTGA-GCA
*
2011 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
2076 ATGAACTTTC-TCTGGAAA
66 ATGAAC-TTCATCTGGAAA
2094 TGTTGATCCA
Statistics
Matches: 1025, Mismatches: 40, Indels: 40
0.93 0.04 0.04
Matches are distributed among these distances:
331 170 0.17
332 77 0.08
333 26 0.03
334 57 0.06
335 347 0.34
336 106 0.10
337 9 0.01
338 137 0.13
339 94 0.09
341 2 0.00
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.36
Consensus pattern (339 bp):
AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
ATGAACTTCATCTGGAAAAGATAATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAACTC
TTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTTCTGGAA
AAGCTAATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTC
TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAGATAATCCATCAAGT
GATGGATTTGAGCA
Found at i:1790 original size:557 final size:556
Alignment explanation
Indices: 673--2083 Score: 2315
Period size: 557 Copynumber: 2.5 Consensus size: 556
663 AGAGTCATTC
* *
673 AAAGGTTGAATAAGCTCTTCTCATTATGAACTTCTTCTT-C-TC--CTGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * *
734 ATGAACTTCTCTGGAAAAAATGACCCATCAAGTGATGGATTTGAGCAAAA-GCTGAACAAATTCT
66 ATGAACTTCTCTGGAAAAGATGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAATTCT
* * *
798 TCTCATTATGAACTTCTTCTTCCTTCTTTAAATGAGTTCTTCTCATTATGAACTTCTTCTGGAAA
131 TCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC-TCATCTGGAAA
* *
863 AGCTAATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCT
195 AGATAATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCT
* *
928 TCTTCCTTCTTCAGATGAGTTATTCTCATTATGAACTCGAACTGGAAAAGATAATCCATCAAGTG
260 TCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT---TCTGGAAAAGATAATCCATCAAGTG
993 ATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGACTTCTTCTTCCTTCTTCAGATGA
322 ATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGACTTCTTCTTCCTTCTTCAGATGA
** *
1058 GTTCTTCATTATGAACTTCTTCTGGAAAAGCTAATCCATCAAGTGATGGATTTGAGCAAAAGGTT
387 GTTCTTCATTATGAACTTCAACTGGAAAAGATAATCCATCAAGTGATGGATTTGAGCAAAAGGTT
1123 GAACAAATTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTC
452 GAACAAATTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTC
1188 GAACTGGAAAAGATAATCCATCAAGTGATGGATTTGAGCA
517 GAACTGGAAAAGATAATCCATCAAGTGATGGATTTGAGCA
**
1228 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* *
1293 ATGAAC-TCGAACTGGAAAAGATAATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAATT
66 ATGAACTTC--TCTGGAAAAGATGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAATT
* *
1357 CTTCTCACTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGA
129 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTC-ATCTGGA
*
1422 AAAGATAATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTT
193 AAAGATAATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTT
* * *
1487 CTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTCTGGAAAAGCTGATCCATCAAGTGA
258 CTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTGGAAAAGATAATCCATCAAGTGA
*
1552 TGGATTTGAGC-AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTTAGATGA
323 TGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATG-ACTTCTTCTTCCTTCTTCAGATGA
1616 GTTC-TCATTATGAAC-TCGAACTGGAAAAGATAATCCATCAAGTGATGGATTTGAGCAAAAGGT
387 GTTCTTCATTATGAACTTC-AACTGGAAAAGATAATCCATCAAGTGATGGATTTGAGCAAAAGGT
1679 TGAAC-AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC
451 TGAACAAATTCTTCTCATTATGAACTTCTTCTT-CTTCTTCAGATGAGTTCTTCTCATTATGAAC
1743 TCGAACTGGAAAAGATAATCCATCAAGTGATGGATTTGAGCA
515 TCGAACTGGAAAAGATAATCCATCAAGTGATGGATTTGAGCA
*
1785 AAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATT
1 AAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* *
1850 ATGAACTTCTTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCATAAGGTTGAACAAATTC
66 ATGAACTTC-TCTGGAAAAGATGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAATTC
1915 TTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTC-TCTGGA
130 TTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC--TCATCTGGA
* * * *
1979 AAAGTTGATCCATCAAGTGAT-GAATTCAGGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACT
193 AAAGATAATCCATCAAGTGATGGATTTGA-GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACT
2043 TCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTT
257 TCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTT
2084 TCTCTGGAAA
Statistics
Matches: 799, Mismatches: 42, Indels: 28
0.92 0.05 0.03
Matches are distributed among these distances:
555 36 0.05
556 35 0.04
557 431 0.54
558 65 0.08
559 26 0.03
560 39 0.05
561 167 0.21
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.36
Consensus pattern (556 bp):
AAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
ATGAACTTCTCTGGAAAAGATGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAATTCT
TCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCATCTGGAAAA
GATAATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTT
CTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTGGAAAAGATAATCCATCAAGTGATGG
ATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGACTTCTTCTTCCTTCTTCAGATGAGTTC
TTCATTATGAACTTCAACTGGAAAAGATAATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAAC
AAATTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAAC
TGGAAAAGATAATCCATCAAGTGATGGATTTGAGCA
Found at i:2104 original size:113 final size:113
Alignment explanation
Indices: 673--2093 Score: 2220
Period size: 113 Copynumber: 12.7 Consensus size: 113
663 AGAGTCATTC
* ** *
673 AAAGGTTGAATAAGCTCTTCTCATTATGAACTTCTTCTT-C-TC--CTGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * * *
734 ATGAACT-TCTCTGGAAAAAATGACCCATCAAGTGATGGATTTGAGCA
66 ATGAACTCTATCTGGAAAAGATAATCCATCAAGTGATGGATTTGAGCA
* * *
781 AAA-GCTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTTAAATGAGTTCTTCTCATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
*
845 ATGAACTTCT-TCTGGAAAAGCTAATCCATCAAGTGATGGATTTGAGCA
66 ATGAAC-TCTATCTGGAAAAGATAATCCATCAAGTGATGGATTTGAGCA
*
893 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTATTCTCATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* *
958 ATGAACTCGAACTGGAAAAGATAATCCATCAAGTGATGGATTTGAGCA
66 ATGAACTCTATCTGGAAAAGATAATCCATCAAGTGATGGATTTGAGCA
1006 AAAGGTTGAACAAATTCTTCTCATTATG-ACTTCTTCTTCCTTCTTCAGATGAGTTC-T-TCATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
*
1068 ATGAACTTCT-TCTGGAAAAGCTAATCCATCAAGTGATGGATTTGAGCA
66 ATGAAC-TCTATCTGGAAAAGATAATCCATCAAGTGATGGATTTGAGCA
1116 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTT-CTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* *
1180 ATGAACTCGAACTGGAAAAGATAATCCATCAAGTGATGGATTTGAGCA
66 ATGAACTCTATCTGGAAAAGATAATCCATCAAGTGATGGATTTGAGCA
1228 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* *
1293 ATGAACTCGAACTGGAAAAGATAATCCATCAAGTGATGGATTTGAGCA
66 ATGAACTCTATCTGGAAAAGATAATCCATCAAGTGATGGATTTGAGCA
*
1341 AAAGGTTGAACAAATTCTTCTCACTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* *
1406 ATGAACTCGAACTGGAAAAGATAATCCATCAAGTGATGGATTTGAGCA
66 ATGAACTCTATCTGGAAAAGATAATCCATCAAGTGATGGATTTGAGCA
** *
1454 AAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* *
1519 ATGAA--CT-TCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGC-
66 ATGAACTCTATCTGGAAAAGATAATCCATCAAGTGATGGATTTGAGCA
*
1563 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTTAGATGAG---TTCTCATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* *
1625 ATGAACTCGAACTGGAAAAGATAATCCATCAAGTGATGGATTTGAGCA
66 ATGAACTCTATCTGGAAAAGATAATCCATCAAGTGATGGATTTGAGCA
1673 AAAGGTTGAAC-AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* *
1737 ATGAACTCGAACTGGAAAAGATAATCCATCAAGTGATGGATTTGAGCA
66 ATGAACTCTATCTGGAAAAGATAATCCATCAAGTGATGGATTTGAGCA
** *
1785 AAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* *
1850 ATGAACTTCT-TCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCA
66 ATGAAC-TCTATCTGGAAAAGATAATCCATCAAGTGATGGATTTGAGCA
*
1898 TAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * * * * *
1963 ATGAACTTTCTCTGGAAAAGTTGATCCATCAAGTGAT-GAATTCAGGCA
66 ATGAACTCTATCTGGAAAAGATAATCCATCAAGTGATGGATTTGA-GCA
*
2011 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* *
2076 ATGAACTTTCTCTGGAAA
66 ATGAACTCTATCTGGAAA
2094 TGTTGATCCA
Statistics
Matches: 1228, Mismatches: 60, Indels: 45
0.92 0.05 0.03
Matches are distributed among these distances:
106 12 0.01
107 31 0.03
108 5 0.00
109 128 0.10
110 137 0.11
111 39 0.03
112 227 0.18
113 647 0.53
114 2 0.00
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.36
Consensus pattern (113 bp):
AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
ATGAACTCTATCTGGAAAAGATAATCCATCAAGTGATGGATTTGAGCA
Found at i:3029 original size:83 final size:83
Alignment explanation
Indices: 2932--3488 Score: 1015
Period size: 83 Copynumber: 6.7 Consensus size: 83
2922 CTGTGGTTCA
* *
2932 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTTC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
*
2997 AAATTCAATGACTGGTTT
66 AAATTCAATAACTGGTTT
*
3015 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTTC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
3080 AAATTCAATAACTGGTTT
66 AAATTCAATAACTGGTTT
3098 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
3163 AAATTCAATAACTGGTTT
66 AAATTCAATAACTGGTTT
3181 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
* *
3246 AAATTCAATGATTGGTTTT
66 AAATTCAATAACTGG-TTT
3265 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
3330 AAATTCAATAACTGGTTT
66 AAATTCAATAACTGGTTT
* *
3348 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
*
3413 AAATTCAATAATTGGTTTT
66 AAATTCAATAACTGG-TTT
3432 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATT
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATT
3489 ACATTTGTTC
Statistics
Matches: 460, Mismatches: 12, Indels: 3
0.97 0.03 0.01
Matches are distributed among these distances:
83 319 0.69
84 141 0.31
ACGTcount: A:0.38, C:0.23, G:0.12, T:0.26
Consensus pattern (83 bp):
TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
AAATTCAATAACTGGTTT
Found at i:3339 original size:250 final size:249
Alignment explanation
Indices: 2843--3488 Score: 1121
Period size: 250 Copynumber: 2.6 Consensus size: 249
2833 GGTTTTATAT
*
2843 CAAACCAAATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCCAAA
2908 TTCAATAACTGGTTCTGTGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
66 TTCAATAACT-G----GT--TT--TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
* *
2973 ATGCTATTAGCAAATTCATCTTTCAAATTCAATGACTGGTTTTACCAAACCAGATCAGATAACTC
122 ATGCTATGAGCACATTCATCTTTCAAATTCAATGACTGGTTTTACCAAACCAGATCAGATAACTC
*
3038 AAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTTCAAATTCAATAACTGGTTTTAC
187 AAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCAAATTCAATAACTGGTTTTAC
* *
3101 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCCAAA
3166 TTCAATAACTGGTTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGA
66 TTCAATAACTGGTTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGA
*
3231 GCACATTCATCTTTCAAATTCAATGATTGGTTTTTACCAAACCAGATCAGATAACTCAAAGAACA
131 GCACATTCATCTTTCAAATTCAATGACTGG-TTTTACCAAACCAGATCAGATAACTCAAAGAACA
3296 CTTCCAGAAGATGCTATGAGCACATTCATCTTTCAAATTCAATAACTGGTTTTAC
195 CTTCCAGAAGATGCTATGAGCACATTCATCTTTCAAATTCAATAACTGGTTTTAC
3351 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCCAAA
*
3416 TTCAATAATTGGTTTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
66 TTCAATAACTGG-TTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
3481 AGCACATT
130 AGCACATT
3489 ACATTTGTTC
Statistics
Matches: 376, Mismatches: 10, Indels: 11
0.95 0.03 0.03
Matches are distributed among these distances:
249 77 0.20
250 162 0.43
251 62 0.16
253 2 0.01
257 1 0.00
258 72 0.19
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.26
Consensus pattern (249 bp):
CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCCAAA
TTCAATAACTGGTTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGA
GCACATTCATCTTTCAAATTCAATGACTGGTTTTACCAAACCAGATCAGATAACTCAAAGAACAC
TTCCAGAAGATGCTATGAGCACATTCATCTTTCAAATTCAATAACTGGTTTTAC
Found at i:3349 original size:167 final size:167
Alignment explanation
Indices: 2843--3488 Score: 1123
Period size: 167 Copynumber: 3.8 Consensus size: 167
2833 GGTTTTATAT
*
2843 CAAACCAAATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCCAAA
2908 TTCAATAACTGGTTCTGTGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
66 TTCAATAACTGG---T-T--TT--TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
* * *
2973 ATGCTATTAGCAAATTCATCTTTCAAATTCAATGACTGGTTTTAC
123 ATGCTATGAGCACATTCATCTTTCAAATTCAATAACTGGTTTTAC
*
3018 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTTCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCCAAA
3083 TTCAATAACTGG-TTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
66 TTCAATAACTGGTTTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
3147 AGCACATTCATCTTTCAAATTCAATAACTGGTTTTAC
131 AGCACATTCATCTTTCAAATTCAATAACTGGTTTTAC
* *
3184 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCCAAA
* *
3249 TTCAATGATTGGTTTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
66 TTCAATAACTGGTTTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
3314 AGCACATTCATCTTTCAAATTCAATAACTGGTTTTAC
131 AGCACATTCATCTTTCAAATTCAATAACTGGTTTTAC
3351 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCCAAA
*
3416 TTCAATAATTGGTTTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
66 TTCAATAACTGGTTTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
3481 AGCACATT
131 AGCACATT
3489 ACATTTGTTC
Statistics
Matches: 459, Mismatches: 11, Indels: 10
0.96 0.02 0.02
Matches are distributed among these distances:
166 157 0.34
167 224 0.49
168 2 0.00
170 1 0.00
175 75 0.16
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.26
Consensus pattern (167 bp):
CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCCAAA
TTCAATAACTGGTTTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
AGCACATTCATCTTTCAAATTCAATAACTGGTTTTAC
Found at i:4649 original size:9 final size:8
Alignment explanation
Indices: 4635--4690 Score: 53
Period size: 9 Copynumber: 6.6 Consensus size: 8
4625 TTGACCCCCC
4635 CTTTTTTAT
1 CTTTTTT-T
4644 CTTTTTTT
1 CTTTTTTT
4652 C-TTTTTT
1 CTTTTTTT
4659 CTTTTTCTCT
1 CTTTTT-T-T
4669 CTTTTTTTT
1 C-TTTTTTT
4678 CTTCTTTTT
1 CTT-TTTTT
4687 -TTTT
1 CTTTT
4691 CTTCAAGCAT
Statistics
Matches: 42, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
7 9 0.21
8 10 0.24
9 15 0.36
10 3 0.07
11 5 0.12
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (8 bp):
CTTTTTTT
Found at i:4673 original size:23 final size:22
Alignment explanation
Indices: 4637--4686 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
4627 GACCCCCCCT
* *
4637 TTTTTATCTTTTTTTCTTTTTTC
1 TTTTTATCTCTTTTT-TTTCTTC
*
4660 TTTTTCTCTCTTTTTTTTCTTC
1 TTTTTATCTCTTTTTTTTCTTC
4682 TTTTT
1 TTTTT
4687 TTTTCTTCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 11 0.46
23 13 0.54
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (22 bp):
TTTTTATCTCTTTTTTTTCTTC
Found at i:4694 original size:13 final size:13
Alignment explanation
Indices: 4645--4694 Score: 68
Period size: 13 Copynumber: 3.8 Consensus size: 13
4635 CTTTTTTATC
4645 TTTTTTTCTT-TT
1 TTTTTTTCTTCTT
4657 TTCTTTTTC-TCTCT
1 TT-TTTTTCTTCT-T
4671 TTTTTTTCTTCTT
1 TTTTTTTCTTCTT
4684 TTTTTTTCTTC
1 TTTTTTTCTTC
4695 AAGCATAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
12 3 0.09
13 25 0.74
14 6 0.18
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (13 bp):
TTTTTTTCTTCTT
Found at i:11985 original size:11 final size:11
Alignment explanation
Indices: 11971--11995 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
11961 TTATCTTAAT
11971 AAATAAAATAA
1 AAATAAAATAA
11982 AAATAAAATAA
1 AAATAAAATAA
11993 AAA
1 AAA
11996 AAATATTCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (11 bp):
AAATAAAATAA
Found at i:12043 original size:15 final size:16
Alignment explanation
Indices: 12019--12057 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
12009 GAAAATTATG
*
12019 AAATGAATGTATGC-A
1 AAATGTATGTATGCGA
12034 AAATGTATGTATGCGA
1 AAATGTATGTATGCGA
*
12050 AAAGGTAT
1 AAATGTAT
12058 TGATCCCAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.44, C:0.05, G:0.23, T:0.28
Consensus pattern (16 bp):
AAATGTATGTATGCGA
Found at i:17486 original size:14 final size:13
Alignment explanation
Indices: 17467--17548 Score: 52
Period size: 12 Copynumber: 6.8 Consensus size: 13
17457 TGGGCTTGTA
17467 ATATTAAATAATAT
1 ATATT-AATAATAT
17481 ATATTAATAATA-
1 ATATTAATAATAT
* *
17493 ATAATAATTA-AT
1 ATATTAATAATAT
* *
17505 -TATTATTATTAT
1 ATATTAATAATAT
17517 A-ATT-ATAATA-
1 ATATTAATAATAT
*
17527 ATAATAATAATA-
1 ATATTAATAATAT
*
17539 ATATAAATAA
1 ATATTAATAA
17549 CATTAAAATG
Statistics
Matches: 52, Mismatches: 11, Indels: 12
0.69 0.15 0.16
Matches are distributed among these distances:
10 1 0.02
11 12 0.23
12 27 0.52
13 7 0.13
14 5 0.10
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
ATATTAATAATAT
Found at i:17491 original size:3 final size:3
Alignment explanation
Indices: 17473--17541 Score: 66
Period size: 3 Copynumber: 22.3 Consensus size: 3
17463 TGTAATATTA
* * * * *
17473 AAT AAT ATAT ATT AAT AAT AAT AAT AATT AAT TAT TAT TAT TAT AAT
1 AAT AAT A-AT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT
*
17520 TAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT A
17542 TAAATAACAT
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
3 52 0.90
4 6 0.10
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (3 bp):
AAT
Found at i:20661 original size:34 final size:35
Alignment explanation
Indices: 20618--20687 Score: 106
Period size: 34 Copynumber: 2.0 Consensus size: 35
20608 CATAAAAAAC
* *
20618 CCCATAAAACTGAAATT-ATATTCTCTTAATCTAA
1 CCCAGAAAACTGAAATTAACATTCTCTTAATCTAA
*
20652 CCCAGAAAACTGAAATTAACATTCTTTTAATCTAA
1 CCCAGAAAACTGAAATTAACATTCTCTTAATCTAA
20687 C
1 C
20688 ACTCTTCAGG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
34 16 0.50
35 16 0.50
ACGTcount: A:0.41, C:0.21, G:0.04, T:0.33
Consensus pattern (35 bp):
CCCAGAAAACTGAAATTAACATTCTCTTAATCTAA
Found at i:25770 original size:22 final size:22
Alignment explanation
Indices: 25728--25776 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
25718 TTTTCCATTG
* *
25728 CATTATTTACTTTTTTCCACAA
1 CATTTTTTACTTTTGTCCACAA
*
25750 CATTTTTTACTGTTTGT-CACAT
1 CATTTTTTACT-TTTGTCCACAA
25772 CATTT
1 CATTT
25777 CACCCCATAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 19 0.83
23 4 0.17
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (22 bp):
CATTTTTTACTTTTGTCCACAA
Found at i:30491 original size:37 final size:37
Alignment explanation
Indices: 30424--30496 Score: 94
Period size: 37 Copynumber: 2.0 Consensus size: 37
30414 AGGAGAAATG
*
30424 GAAAATGTTGCAGCATTCTCAATAACATTCCTGGGCA
1 GAAAATGTTGCAGCATTCTCAACAACATTCCTGGGCA
* * *
30461 GAAAATGTTGCAGTATTCT-AGACGATATTCCTGGGC
1 GAAAATGTTGCAGCATTCTCA-ACAACATTCCTGGGC
30497 GCAAAAAAGG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
36 1 0.03
37 30 0.97
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (37 bp):
GAAAATGTTGCAGCATTCTCAACAACATTCCTGGGCA
Found at i:33981 original size:21 final size:22
Alignment explanation
Indices: 33937--33989 Score: 69
Period size: 21 Copynumber: 2.5 Consensus size: 22
33927 TATAAATTTA
33937 AACCT-TAAATCATAACTTCAT
1 AACCTCTAAATCATAACTTCAT
33958 AACCTCTAAATCATAAAC-TC-T
1 AACCTCTAAATCAT-AACTTCAT
33979 AACC-CTAAATC
1 AACCTCTAAATC
33990 TTATCTTAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.23
21 10 0.33
22 10 0.33
23 3 0.10
ACGTcount: A:0.43, C:0.28, G:0.00, T:0.28
Consensus pattern (22 bp):
AACCTCTAAATCATAACTTCAT
Found at i:43671 original size:16 final size:16
Alignment explanation
Indices: 43647--43680 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
43637 TATCGCCGAC
*
43647 CGAATTTCACTATTCA
1 CGAAATTCACTATTCA
43663 CGAAATTCACTATTCA
1 CGAAATTCACTATTCA
43679 CG
1 CG
43681 TGATTAGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.26, G:0.09, T:0.32
Consensus pattern (16 bp):
CGAAATTCACTATTCA
Found at i:45107 original size:28 final size:30
Alignment explanation
Indices: 45076--45133 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
45066 TATTTCATCG
* *
45076 CTAAAT-ATT-TTATAATTTTTTAATGTGA
1 CTAAATAATTGTTACAATTTATTAATGTGA
*
45104 CTAAATAATTGTTACAATTTATTATTGTGA
1 CTAAATAATTGTTACAATTTATTAATGTGA
45134 AAGAATATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 6 0.24
29 3 0.12
30 16 0.64
ACGTcount: A:0.36, C:0.05, G:0.09, T:0.50
Consensus pattern (30 bp):
CTAAATAATTGTTACAATTTATTAATGTGA
Found at i:45435 original size:189 final size:190
Alignment explanation
Indices: 45098--45471 Score: 513
Period size: 189 Copynumber: 2.0 Consensus size: 190
45088 TAATTTTTTA
*
45098 ATGTGACTAAATAATTGTTACAATTTATTATTGTGAAAGAATATTATTTGTCACAAATTTTTATA
1 ATGTGACTAAATAATTGTTACAATTTATTATTGTGAAAGAATATTACTTGTCACAAATTTTTATA
* ** * ** *
45163 ATGAGAAATTAATATTTGTTATAAATTGCTATTGATTAAATAAATTTGTCGTAATTTTTTATTTT
66 ATGAGAAATTAATATTTGTTAGAAATTAATATTGATTAAATAAATTTATCAAAACTTTTTATTTT
* * * *
45228 GACAAAATATTATGACTAAATAAATTTGATATAACTTTTTACTTTGATTAAATTTGTGTT
131 GACAAAATATTATGACTAAATAAATTTAACATAACTTTTTACTTTAAATAAATTTGTGTT
** * * *
45288 ATGTGACTAAATCTTTTGTTACAATTTGTTATTGTGAAATAATATTACTTGTCATAAA-TTTTAT
1 ATGTGACTAAAT-AATTGTTACAATTTATTATTGTGAAAGAATATTACTTGTCACAAATTTTTAT
45352 -ATGAGAAATTAATATTTGTTAGAAATTAATATTTTGATT-AA-AAATTTATCAAAACTTTTTAT
65 AATGAGAAATTAATATTTGTTAGAAATTAATA--TTGATTAAATAAATTTATCAAAACTTTTTAT
* * *
45414 TTTGACAAAATATTTTGACTAAATAAATTTAACATAATTTTTTATTTTAAATAAATTT
128 TTTGACAAAATATTATGACTAAATAAATTTAACATAACTTTTTACTTTAAATAAATTT
45472 AATTTGTTAT
Statistics
Matches: 161, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
189 96 0.60
190 20 0.12
191 45 0.28
ACGTcount: A:0.39, C:0.05, G:0.09, T:0.47
Consensus pattern (190 bp):
ATGTGACTAAATAATTGTTACAATTTATTATTGTGAAAGAATATTACTTGTCACAAATTTTTATA
ATGAGAAATTAATATTTGTTAGAAATTAATATTGATTAAATAAATTTATCAAAACTTTTTATTTT
GACAAAATATTATGACTAAATAAATTTAACATAACTTTTTACTTTAAATAAATTTGTGTT
Found at i:45568 original size:21 final size:22
Alignment explanation
Indices: 45539--45581 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
45529 ATTTAAATTG
*
45539 TTATTATAAAT-AAAATATTTT
1 TTATGATAAATAAAAATATTTT
*
45560 TTATGATAACTAAAAATATTTT
1 TTATGATAAATAAAAATATTTT
45582 AAAATCTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (22 bp):
TTATGATAAATAAAAATATTTT
Found at i:45625 original size:27 final size:28
Alignment explanation
Indices: 45570--45632 Score: 69
Period size: 27 Copynumber: 2.3 Consensus size: 28
45560 TTATGATAAC
* *
45570 TAAAAAT-ATTTTAAAATCTTATAACAA
1 TAAAAATAATATTAAAATCATATAACAA
45597 TAAAAATAATATTAAATATCAT-TAA-AA
1 TAAAAATAATATTAAA-ATCATATAACAA
*
45624 TAAACATAA
1 TAAAAATAA
45633 AATGTTTTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
27 17 0.55
28 10 0.32
29 4 0.13
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.33
Consensus pattern (28 bp):
TAAAAATAATATTAAAATCATATAACAA
Done.