Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007995.1 Hibiscus syriacus cultivar Beakdansim tig00110445_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: 866869
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 4
Found at i:488195 original size:46 final size:45
Alignment explanation
Indices: 488103--488196 Score: 125
Period size: 46 Copynumber: 2.1 Consensus size: 45
488093 GTAAATGCAG
* * * *
488103 TGTTTCAAGGTGGAAAGAATGTTTCAAGGCCTTAAAGAGAGGGAA
1 TGTTTCAAGGTGAAAAGAATATTTCAAGGCCTCAAAGAGAGAGAA
* *
488148 TGTTTCAAGGTCGAAAAGAATATTTCAAGGTCTCAAAGAGATAGAA
1 TGTTTCAAGGT-GAAAAGAATATTTCAAGGCCTCAAAGAGAGAGAA
488194 TGT
1 TGT
488197 CAAAATTTGG
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
45 11 0.26
46 31 0.74
ACGTcount: A:0.37, C:0.10, G:0.27, T:0.27
Consensus pattern (45 bp):
TGTTTCAAGGTGAAAAGAATATTTCAAGGCCTCAAAGAGAGAGAA
Found at i:493373 original size:3 final size:3
Alignment explanation
Indices: 493365--493399 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
493355 GTGTAAGTTA
493365 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
493400 AATTTAAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:497541 original size:60 final size:60
Alignment explanation
Indices: 497440--497554 Score: 151
Period size: 60 Copynumber: 1.9 Consensus size: 60
497430 GAGGTGGCAC
* * * *
497440 AAAGGCGCATCCCCGGGGACGCGCTTTACCCGAATTATGCTGACTCGGCTGCCACATGTG
1 AAAGGCGCATCCCCGAGGACGCGCATTACACGAATTATGCTGACTCGGCTACCACATGTG
* * *
497500 AAAGGCGCATCCCCGAGGACGCGCATT-CACGAGGTTCTGCTGAGTCGGCTACCAC
1 AAAGGCGCATCCCCGAGGACGCGCATTACACGA-ATTATGCTGACTCGGCTACCAC
497555 GCTGGTATTT
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
59 4 0.09
60 43 0.91
ACGTcount: A:0.21, C:0.32, G:0.29, T:0.18
Consensus pattern (60 bp):
AAAGGCGCATCCCCGAGGACGCGCATTACACGAATTATGCTGACTCGGCTACCACATGTG
Found at i:501251 original size:116 final size:117
Alignment explanation
Indices: 501044--501745 Score: 539
Period size: 127 Copynumber: 5.8 Consensus size: 117
501034 ACTATTCACA
* * *
501044 TGAAAACACGTTCCTGGGGGCGTGCCTTCCATTATTTTGTCAGATAATATGTTATCATTGCCCTA
1 TGAAAACGCGTTCCTGGGGGCGCGCCTTCCATTATTTTGTCAAATAATATGTTATCATTGCCCTA
*
501109 TTATGTCACTCATGTCCCTCGAGGGCACTATTCATGTCAGTACCCAAAATGG
66 TTATGTCACTCATGTCCCTCGGGGGCACTATTCATGTCAGTACCCAAAATGG
* * *
501161 TGAAAACGCATTCCTGGGGG-GCACCTTCCATTATTTTGTCAAATAATATGTTATCATTGCCATA
1 TGAAAACGCGTTCCTGGGGGCGCGCCTTCCATTATTTTGTCAAATAATATGTTATCATTGCCCTA
*
501225 TTATGTCACTCATGTCCCTCGGGGGCACTATTCATATCAGTACCCAAAATGG
66 TTATGTCACTCATGTCCCTCGGGGGCACTATTCATGTCAGTACCCAAAATGG
** * * ** *
501277 TGAAGGCGCGTTCCCGGGGGCGCGTCTTCCATTATTTTGTGTAAGAATATGTTATCATTGCCCTA
1 TGAAAACGCGTTCCTGGGGGCGCGCCTTCCATTATTTTGTCAAATAATATGTTATCATTGCCCTA
* * * * *
501342 TTATGTCACTCATGTCCC-CTGGGGAACTATTCATGTCAGTTCCTATTATTTCTAAGGGG
66 TTATGTCACTCATGTCCCTCGGGGGCACTATTCATGTCAGTACCCA--A-----AA-TGG
** ** * * ** * * *
501401 ACTTGAAGGCGCGTTCCCAGGGGCACGCCTTTCATTATTTTGTGTAAGAATATGTTATTATTACC
1 ---TGAAAACGCGTTCCTGGGGGCGCGCCTTCCATTATTTTGTCAAATAATATGTTATCATTGCC
* * * ** **
501466 CTATTATGTCACTCATGTCCC-CCGGGGAACTATTCATATCAGTACCTATTTTTCTGAGGGG
63 CTATTATGTCACTCATGTCCCTCGGGGGCACTATTCATGTCAGTACC-------CAAAATGG
** * * * * * *
501527 ACTTGAAGGCGCATTCCCGGGGGCGCGCCTTCCATTATTGTGTTAGAGAATATGTTATCATTGCC
1 ---TGAAAACGCGTTCCTGGGGGCGCGCCTTCCATTATTTTGTCAAATAATATGTTATCATTGCC
* * * * **
501592 CTATTATGTCAATCATGTCCCTC-GGGGAACTATTCATATCAGTACCTATTATTTCTGAGGGG
63 CTATTATGTCACTCATGTCCCTCGGGGGCACTATTCATGTCAGTACCCA--A------AATGG
** * * * * *
501654 ACTTGAAGGCGCGTTCATGGGGGTGCGCCTTTCATTATTTTGTCAGAGAATATGTTATCATTGCC
1 ---TGAAAACGCGTTCCTGGGGGCGCGCCTTCCATTATTTTGTCAAATAATATGTTATCATTGCC
* *
501719 CTATTATGTTACTCATGTCCCCCGGGG
63 CTATTATGTCACTCATGTCCCTCGGGG
501746 AACTATATAT
Statistics
Matches: 495, Mismatches: 61, Indels: 47
0.82 0.10 0.08
Matches are distributed among these distances:
116 128 0.26
117 74 0.15
118 1 0.00
123 2 0.00
124 2 0.00
126 101 0.20
127 184 0.37
128 3 0.01
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.34
Consensus pattern (117 bp):
TGAAAACGCGTTCCTGGGGGCGCGCCTTCCATTATTTTGTCAAATAATATGTTATCATTGCCCTA
TTATGTCACTCATGTCCCTCGGGGGCACTATTCATGTCAGTACCCAAAATGG
Found at i:501594 original size:126 final size:127
Alignment explanation
Indices: 501277--501751 Score: 731
Period size: 127 Copynumber: 3.7 Consensus size: 127
501267 CCCAAAATGG
*
501277 TGAAGGCGCGTTCCCGGGGGCGCGTCTTCCATTATTTTGTGTAAGAATATGTTATCATTGCCCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTGTAAGAATATGTTATCATTGCCCTA
* * * *
501342 TTATGTCACTCATGTCCCCTGGGGAACTATTCATGTCAGTTCCTATTATTTCTAAGGGGACT
66 TTATGTCACTCATGTCCCCCGGGGAACTATTCATATCAGTACCTATTATTTCTGAGGGGACT
* * * * *
501404 TGAAGGCGCGTTCCCAGGGGCACGCCTTTCATTATTTTGTGTAAGAATATGTTATTATTACCCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTGTAAGAATATGTTATCATTGCCCTA
501469 TTATGTCACTCATGTCCCCCGGGGAACTATTCATATCAGTACCTATT-TTTCTGAGGGGACT
66 TTATGTCACTCATGTCCCCCGGGGAACTATTCATATCAGTACCTATTATTTCTGAGGGGACT
* *
501530 TGAAGGCGCATTCCCGGGGGCGCGCCTTCCATTATTGTGT-TAGAGAATATGTTATCATTGCCCT
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTGTA-AGAATATGTTATCATTGCCCT
* *
501594 ATTATGTCAATCATGTCCCTCGGGGAACTATTCATATCAGTACCTATTATTTCTGAGGGGACT
65 ATTATGTCACTCATGTCCCCCGGGGAACTATTCATATCAGTACCTATTATTTCTGAGGGGACT
** * * *
501657 TGAAGGCGCGTTCATGGGGGTGCGCCTTTCATTATTTTGT-CAGAGAATATGTTATCATTGCCCT
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTGTA-AGAATATGTTATCATTGCCCT
*
501721 ATTATGTTACTCATGTCCCCCGGGGAACTAT
65 ATTATGTCACTCATGTCCCCCGGGGAACTAT
501752 ATATGGATGG
Statistics
Matches: 317, Mismatches: 29, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
125 2 0.01
126 113 0.36
127 202 0.64
ACGTcount: A:0.21, C:0.22, G:0.23, T:0.35
Consensus pattern (127 bp):
TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTGTAAGAATATGTTATCATTGCCCTA
TTATGTCACTCATGTCCCCCGGGGAACTATTCATATCAGTACCTATTATTTCTGAGGGGACT
Found at i:501628 original size:253 final size:242
Alignment explanation
Indices: 501054--501751 Score: 796
Period size: 253 Copynumber: 2.9 Consensus size: 242
501044 TGAAAACACG
* * * *
501054 TTCCTGGGGGCGTGCCTTCCATTATTTTGTCAGATAATATGTTATCATTGCCCTATTATGTCACT
1 TTCCCGGGGGCGCGCCTTCCATTATTTTGTTAGAGAATATGTTATCATTGCCCTATTATGTCACT
* * * ** *
501119 CATGTCCCTCGAGGGCACTATTCATGTCAGTACCCA--A-----AA-TGG---TGAAAACGCATT
66 CATGTCCCTCG-GGGAACTATTCATGTCAGTACCTATTATTTCTAAGGGGACTTGAAGGCGCGTT
* * * *
501173 CCTGGGGGGCA--CCTTCCATTATTTTGTCAAATAATATGTTATCATTGCCATATTATGTCACTC
130 CC-CGGGGGCACGCCTTTCATTATTTTGT-AAAGAATATGTTATCATTGCCCTATTATGTCACTC
* * * *
501236 ATGTCCCTCGGGGGCACTATTCATATCAGTACCCAAAATGGTGAAGGCGCG
193 ATGTCCC-CCGGGGAACTATTCATATCAGTACCCAAAAGGGTGAAGGCGCA
*
501287 TTCCCGGGGGCGCGTCTTCCATTATTTTGTGTA-AGAATATGTTATCATTGCCCTATTATGTCAC
1 TTCCCGGGGGCGCGCCTTCCATTATTTTGT-TAGAGAATATGTTATCATTGCCCTATTATGTCAC
*
501351 TCATGTCCC-CTGGGGAACTATTCATGTCAGTTCCTATTATTTCTAAGGGGACTTGAAGGCGCGT
65 TCATGTCCCTC-GGGGAACTATTCATGTCAGTACCTATTATTTCTAAGGGGACTTGAAGGCGCGT
* * * *
501415 TCCCAGGGGCACGCCTTTCATTATTTTGTGTAAGAATATGTTATTATTACCCTATTATGTCACTC
129 TCCCGGGGGCACGCCTTTCATTATTTTGT-AAAGAATATGTTATCATTGCCCTATTATGTCACTC
** *
501480 ATGTCCCCCGGGGAACTATTCATATCAGTACCTATTTTTCTGAGGGGACTTGAAGGCGCA
193 ATGTCCCCCGGGGAACTATTCATATCAGTACC-------CAAAAGGG---TGAAGGCGCA
* *
501540 TTCCCGGGGGCGCGCCTTCCATTATTGTGTTAGAGAATATGTTATCATTGCCCTATTATGTCAAT
1 TTCCCGGGGGCGCGCCTTCCATTATTTTGTTAGAGAATATGTTATCATTGCCCTATTATGTCACT
* *
501605 CATGTCCCTCGGGGAACTATTCATATCAGTACCTATTATTTCTGAGGGGACTTGAAGGCGCGTTC
66 CATGTCCCTCGGGGAACTATTCATGTCAGTACCTATTATTTCTAAGGGGACTTGAAGGCGCGTTC
** ** * *
501670 ATGGGGGTGCGCCTTTCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTTACTCAT
131 CCGGGGGCACGCCTTTCATTATTTTGT-AAAGAATATGTTATCATTGCCCTATTATGTCACTCAT
501735 GTCCCCCGGGGAACTAT
195 GTCCCCCGGGGAACTAT
501752 ATATGGATGG
Statistics
Matches: 393, Mismatches: 45, Indels: 34
0.83 0.10 0.07
Matches are distributed among these distances:
232 22 0.06
233 67 0.17
234 2 0.01
239 2 0.01
240 2 0.01
242 6 0.02
243 34 0.09
244 52 0.13
250 4 0.01
252 2 0.01
253 199 0.51
254 1 0.00
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.34
Consensus pattern (242 bp):
TTCCCGGGGGCGCGCCTTCCATTATTTTGTTAGAGAATATGTTATCATTGCCCTATTATGTCACT
CATGTCCCTCGGGGAACTATTCATGTCAGTACCTATTATTTCTAAGGGGACTTGAAGGCGCGTTC
CCGGGGGCACGCCTTTCATTATTTTGTAAAGAATATGTTATCATTGCCCTATTATGTCACTCATG
TCCCCCGGGGAACTATTCATATCAGTACCCAAAAGGGTGAAGGCGCA
Found at i:501953 original size:63 final size:63
Alignment explanation
Indices: 501880--502007 Score: 222
Period size: 63 Copynumber: 2.0 Consensus size: 63
501870 ATTATGTGAA
501880 GTTTGAATAAATTGGATAAAATGTTATAGATAAATTGAAAAAATGTGAAGTGATC-AGTTGGTT
1 GTTTGAATAAATTGGATAAAATGTTATAGATAAATTGAAAAAATGTGAAGTGA-CAAGTTGGTT
* *
501943 GTTTGAATAAATTGGATAAAATGTTATAGATAAATTGAATATATGTGAAGTGACAAGTTGGTT
1 GTTTGAATAAATTGGATAAAATGTTATAGATAAATTGAAAAAATGTGAAGTGACAAGTTGGTT
502006 GT
1 GT
502008 GACATTGAAA
Statistics
Matches: 62, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
62 1 0.02
63 61 0.98
ACGTcount: A:0.40, C:0.02, G:0.23, T:0.36
Consensus pattern (63 bp):
GTTTGAATAAATTGGATAAAATGTTATAGATAAATTGAAAAAATGTGAAGTGACAAGTTGGTT
Found at i:502144 original size:57 final size:55
Alignment explanation
Indices: 502025--502163 Score: 192
Period size: 57 Copynumber: 2.5 Consensus size: 55
502015 AAATTGTATG
*
502025 GAATGAGCATCGACATGTTTTTACGAATAAATGTGAAGTGATAAGTACTAGGGACT
1 GAATGAGCATCGACATGTTTTTACGAATAAATGTGAAGTGATAAGTA-TAGGGAAT
*
502081 GAAATGAGCATCGACATGTTTTTACGAATAAATGTGAAGTGATAAGT-T-GGTTTTAAT
1 G-AATGAGCATCGACATGTTTTTACGAATAAATGTGAAGTGATAAGTATAGG---GAAT
502138 AGAATGAGCATCGACATGTTTTTACG
1 -GAATGAGCATCGACATGTTTTTACG
502164 TATGGATAAA
Statistics
Matches: 76, Mismatches: 2, Indels: 9
0.87 0.02 0.10
Matches are distributed among these distances:
54 2 0.03
55 1 0.01
56 1 0.01
57 71 0.93
58 1 0.01
ACGTcount: A:0.35, C:0.10, G:0.24, T:0.32
Consensus pattern (55 bp):
GAATGAGCATCGACATGTTTTTACGAATAAATGTGAAGTGATAAGTATAGGGAAT
Found at i:502326 original size:28 final size:28
Alignment explanation
Indices: 502252--502327 Score: 82
Period size: 34 Copynumber: 2.5 Consensus size: 28
502242 TATTAAGTTG
*
502252 AATTTA-ATGTTAAATTTCGAATACTAT
1 AATTTATATTTTAAATTTCGAATACTAT
502279 AATTTTTATTTTTATTTTAAATTTCGAATACTAT
1 AA--TTTA----TATTTTAAATTTCGAATACTAT
502313 AATTTATATTTTAAA
1 AATTTATATTTTAAA
502328 AACATTTAAC
Statistics
Matches: 41, Mismatches: 1, Indels: 13
0.75 0.02 0.24
Matches are distributed among these distances:
27 2 0.05
28 9 0.22
29 4 0.10
32 4 0.10
34 22 0.54
ACGTcount: A:0.38, C:0.05, G:0.04, T:0.53
Consensus pattern (28 bp):
AATTTATATTTTAAATTTCGAATACTAT
Found at i:504531 original size:23 final size:26
Alignment explanation
Indices: 504495--504543 Score: 77
Period size: 23 Copynumber: 2.0 Consensus size: 26
504485 TAATTAATAT
504495 AAATAGATAATAAAT-TTAA-ATTAA
1 AAATAGATAATAAATATTAACATTAA
504519 AAATA-ATAATAAATATTAACATTAA
1 AAATAGATAATAAATATTAACATTAA
504544 TTATAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 9 0.39
24 9 0.39
25 5 0.22
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (26 bp):
AAATAGATAATAAATATTAACATTAA
Found at i:505189 original size:30 final size:27
Alignment explanation
Indices: 505138--505208 Score: 79
Period size: 30 Copynumber: 2.5 Consensus size: 27
505128 TAATTAACAA
* *
505138 ATTTAAATAAATAATAATTATATAAATATT
1 ATTTTAATAAAAAATAATTATAT--A-ATT
*
505168 ATTTTAATAAAAAATATTTATATAATT
1 ATTTTAATAAAAAATAATTATATAATT
*
505195 ATATTAATAAAAAA
1 ATTTTAATAAAAAA
505209 ATATAAAAAC
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
27 16 0.43
28 1 0.03
30 20 0.54
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (27 bp):
ATTTTAATAAAAAATAATTATATAATT
Found at i:507644 original size:23 final size:23
Alignment explanation
Indices: 507587--507645 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
507577 AAACTAATGT
* *
507587 TTTATAAATATTATTTTTAATTAA
1 TTTATAATTA-TATTTTTAACTAA
* * *
507611 ATTACATTTATATTTTTAACTAA
1 TTTATAATTATATTTTTAACTAA
507634 TTTATAATTATA
1 TTTATAATTATA
507646 CATTTAGTAC
Statistics
Matches: 27, Mismatches: 8, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
23 21 0.78
24 6 0.22
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (23 bp):
TTTATAATTATATTTTTAACTAA
Found at i:521273 original size:14 final size:13
Alignment explanation
Indices: 521246--521270 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
521236 GTTACCCAAT
521246 TAAAAAGATTTTA
1 TAAAAAGATTTTA
521259 TAAAAAGATTTT
1 TAAAAAGATTTT
521271 TATGAGTTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (13 bp):
TAAAAAGATTTTA
Found at i:522618 original size:13 final size:13
Alignment explanation
Indices: 522602--522629 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
522592 ATATATTTTT
522602 TAAATTATATAAA
1 TAAATTATATAAA
522615 TAAATTATATAAA
1 TAAATTATATAAA
522628 TA
1 TA
522630 CGAAAACAAA
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:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
TAAATTATATAAA
Found at i:524604 original size:16 final size:16
Alignment explanation
Indices: 524585--524621 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
524575 CCATTAACCA
524585 CTAACTTTTCTAACAG
1 CTAACTTTTCTAACAG
*
524601 CTAACTTTTCTAACCG
1 CTAACTTTTCTAACAG
524617 CTAAC
1 CTAAC
524622 CACTAACCAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.30, C:0.30, G:0.05, T:0.35
Consensus pattern (16 bp):
CTAACTTTTCTAACAG
Found at i:527328 original size:16 final size:16
Alignment explanation
Indices: 527309--527351 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
527299 TCTAACGCTA
527309 ACTTTTTTATTGATTT
1 ACTTTTTTATTGATTT
* *
527325 ACTTATTTATTTATTT
1 ACTTTTTTATTGATTT
*
527341 ATTTATTTTAT
1 ACTT-TTTTAT
527352 GTTTGAAATA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 17 0.77
17 5 0.23
ACGTcount: A:0.23, C:0.05, G:0.02, T:0.70
Consensus pattern (16 bp):
ACTTTTTTATTGATTT
Found at i:527336 original size:4 final size:4
Alignment explanation
Indices: 527314--527348 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
527304 CGCTAACTTT
* *
527314 TTTA TTGA TTTA CTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
527349 TATGTTTGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:528415 original size:432 final size:432
Alignment explanation
Indices: 527612--528478 Score: 1691
Period size: 432 Copynumber: 2.0 Consensus size: 432
527602 ATATATTTTT
527612 TAATTATCTATAATGTTTGTATCCTTTTAGTCCTTGATGGATCACCTTTTTTAGATTTAGTTGGT
1 TAATTATCTATAATGTTTGTATCCTTTTAGTCCTTGATGGATCACCTTTTTTAGATTTAGTTGGT
527677 AATCTTTTAATTATTCGATTCATATTTAGTCATTAAATTAAGAGAATTCTTAATTTGGTCATCGC
66 AATCTTTTAATTATTCGATTCATATTTAGTCATTAAATTAAGAGAATTCTTAATTTGGTCATCGC
527742 TTTTGCTCGAGGTTCCACTTTAATTATTCAAATTGCACTATTGATTAAAATTAATTTAAGTTAAT
131 TTTTGCTCGAGGTTCCACTTTAATTATTCAAATTGCACTATTGATTAAAATTAATTTAAGTTAAT
527807 ATTAGAACCTCCACTTTAGTTAGATTTCAATTTAGTCCTTTTAGTTTATGGAATAATTCGAGTTG
196 ATTAGAACCTCCACTTTAGTTAGATTTCAATTTAGTCCTTTTAGTTTATGGAATAATTCGAGTTG
527872 GCCCTCGCCTAAATGCTCAAGGGACCATTTCAATTATTCGATTCGATAACTGATTAAAATCAAAT
261 GCCCTCGCCTAAATGCTCAAGGGACCATTTCAATTATTCGATTCGATAACTGATTAAAATCAAAT
527937 AGGGTTAATATTAAAGCCCACATTTTTAGGTTTATGCCTCTAGGTTCTTTAATTTTCATAATTTG
326 AGGGTTAATATTAAAGCCCACATTTTTAGGTTTATGCCTCTAGGTTCTTTAATTTTCATAATTTG
* *
528002 AAACTGTAAGCTAGAGAAAGCCTCAATGT-TCATTTATTTTAA
391 AAACTGTAAGCTAGAGAAAGCCTCAATATATCA-TTAGTTTAA
528044 TAATTATCTATAATGTTTGTATCCTTTTAGTCCTTGATGGATCACCTTTTTTAGATTTAGTTGGT
1 TAATTATCTATAATGTTTGTATCCTTTTAGTCCTTGATGGATCACCTTTTTTAGATTTAGTTGGT
528109 AATCTTTTAATTATTCGATTCATATTTAGTCATTAAATTAAGAGAATTCTTAATTTGGTCATCGC
66 AATCTTTTAATTATTCGATTCATATTTAGTCATTAAATTAAGAGAATTCTTAATTTGGTCATCGC
528174 TTTTGCTCGAGGTTCCACTTTAATTATTCAAATTGCACTATTGATTAAAATTAATTTAAGTTAAT
131 TTTTGCTCGAGGTTCCACTTTAATTATTCAAATTGCACTATTGATTAAAATTAATTTAAGTTAAT
528239 ATTAGAACCTCCACTTTAGTTAGATTTCAATTTAGTCCTTTTAGTTTATGGAATAATTCGAGTTG
196 ATTAGAACCTCCACTTTAGTTAGATTTCAATTTAGTCCTTTTAGTTTATGGAATAATTCGAGTTG
528304 GCCCTCGCCTAAATGCTCAAGGGACCATTTCAATTATTCGATTCGATAACTGATTAAAATCAAAT
261 GCCCTCGCCTAAATGCTCAAGGGACCATTTCAATTATTCGATTCGATAACTGATTAAAATCAAAT
528369 AGGGTTAATATTAAAGCCCACATTTTTAGGTTTATGCCTCTAGGTTCTTTAATTTTCATAATTTG
326 AGGGTTAATATTAAAGCCCACATTTTTAGGTTTATGCCTCTAGGTTCTTTAATTTTCATAATTTG
*
528434 AAACTGTAAGCTAGAGAAAGCCTTAATATATCATTAGTTTAA
391 AAACTGTAAGCTAGAGAAAGCCTCAATATATCATTAGTTTAA
528476 TAA
1 TAA
528479 GGATTAATAA
Statistics
Matches: 431, Mismatches: 3, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
432 428 0.99
433 3 0.01
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (432 bp):
TAATTATCTATAATGTTTGTATCCTTTTAGTCCTTGATGGATCACCTTTTTTAGATTTAGTTGGT
AATCTTTTAATTATTCGATTCATATTTAGTCATTAAATTAAGAGAATTCTTAATTTGGTCATCGC
TTTTGCTCGAGGTTCCACTTTAATTATTCAAATTGCACTATTGATTAAAATTAATTTAAGTTAAT
ATTAGAACCTCCACTTTAGTTAGATTTCAATTTAGTCCTTTTAGTTTATGGAATAATTCGAGTTG
GCCCTCGCCTAAATGCTCAAGGGACCATTTCAATTATTCGATTCGATAACTGATTAAAATCAAAT
AGGGTTAATATTAAAGCCCACATTTTTAGGTTTATGCCTCTAGGTTCTTTAATTTTCATAATTTG
AAACTGTAAGCTAGAGAAAGCCTCAATATATCATTAGTTTAA
Found at i:529837 original size:6 final size:6
Alignment explanation
Indices: 529823--529858 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
529813 TGGCCATAGA
* *
529823 AGTGGT AGTGAT AGTGAT AGTGAC AGTGAT AGTGAT
1 AGTGAT AGTGAT AGTGAT AGTGAT AGTGAT AGTGAT
529859 CATTAGATCA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.31, C:0.03, G:0.36, T:0.31
Consensus pattern (6 bp):
AGTGAT
Found at i:530393 original size:23 final size:23
Alignment explanation
Indices: 530367--530424 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 23
530357 AAGTTCTTTC
530367 TTTTCTTTTCT-TTTCT-TTTCAAG
1 TTTTCTTTT-TATTT-TATTTCAAG
530390 TTTTCATTTTTATTTTATTTCAAG
1 TTTTC-TTTTTATTTTATTTCAAG
*
530414 TTTTATTTTTA
1 TTTTCTTTTTA
530425 AACATGCTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
23 13 0.42
24 18 0.58
ACGTcount: A:0.16, C:0.10, G:0.03, T:0.71
Consensus pattern (23 bp):
TTTTCTTTTTATTTTATTTCAAG
Found at i:536642 original size:21 final size:21
Alignment explanation
Indices: 536614--536664 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
536604 ATATAAAATT
536614 TATCCCGAAAGATCC-CATATA
1 TATCCCGAAAGA-CCACATATA
* *
536635 TGTCCCGAAAGACCACGTATA
1 TATCCCGAAAGACCACATATA
536656 TATCCCGAA
1 TATCCCGAA
536665 GGAGACTCTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 2 0.08
21 24 0.92
ACGTcount: A:0.35, C:0.29, G:0.14, T:0.22
Consensus pattern (21 bp):
TATCCCGAAAGACCACATATA
Found at i:537409 original size:20 final size:17
Alignment explanation
Indices: 537385--537456 Score: 76
Period size: 20 Copynumber: 4.0 Consensus size: 17
537375 TATTTCAAAA
537385 TGGTATCGATACTTGCCTT
1 TGGTATCGATAC-T-CCTT
537404 ATGGTATCGATAC-CC-T
1 -TGGTATCGATACTCCTT
537420 TGGTATCGATACTACCCTT
1 TGGTATCGATACT--CCTT
537439 TAGGTATCGATACTCCTT
1 T-GGTATCGATACTCCTT
537457 GAATAACTTA
Statistics
Matches: 47, Mismatches: 0, Indels: 12
0.80 0.00 0.20
Matches are distributed among these distances:
15 12 0.26
16 1 0.02
17 2 0.04
18 6 0.13
19 2 0.04
20 24 0.51
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.38
Consensus pattern (17 bp):
TGGTATCGATACTCCTT
Found at i:537431 original size:35 final size:36
Alignment explanation
Indices: 537385--537457 Score: 105
Period size: 35 Copynumber: 2.1 Consensus size: 36
537375 TATTTCAAAA
**
537385 TGGTATCGATACTTGCC-TTATGGTATCGATAC-CCT
1 TGGTATCGATACTACCCTTTA-GGTATCGATACTCCT
537420 TGGTATCGATACTACCCTTTAGGTATCGATACTCCT
1 TGGTATCGATACTACCCTTTAGGTATCGATACTCCT
537456 TG
1 TG
537458 AATAACTTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
35 26 0.76
36 8 0.24
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.37
Consensus pattern (36 bp):
TGGTATCGATACTACCCTTTAGGTATCGATACTCCT
Found at i:543710 original size:21 final size:21
Alignment explanation
Indices: 543686--543729 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
543676 AAAGATCTCA
543686 TATATGTCCCAAAGGACCTCG
1 TATATGTCCCAAAGGACCTCG
*
543707 TATATGTCCCGAAGGACCTCG
1 TATATGTCCCAAAGGACCTCG
543728 TA
1 TA
543730 GAACCCTTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (21 bp):
TATATGTCCCAAAGGACCTCG
Found at i:560298 original size:232 final size:229
Alignment explanation
Indices: 559885--560568 Score: 965
Period size: 232 Copynumber: 2.9 Consensus size: 229
559875 AGTTTCTTAC
* * * *
559885 TTGGTAAGTTATTCGGGCCATCAGTAAGTCTTTTGAGCATGATGCTTAAATCTTTCTGGTCATCT
1 TTGGTAACTCATTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCATT-TGGTCATCT
* * * * * *
559950 ATAAGCCTTTCAAGCAATATCATAAGTCCATCGGGTCATCCATAAGACCTTCGGGTAGGATGTTT
65 GTAAGTCTTTCGAGCAATATGATAAGTCCTTC-GGTCATCCATAAGACCTTCGGGCA-GATGTTT
*
560015 TCACATGTTTTTCAAAAAAAGAGAAAAATTTCTCATTTAAATCTGAAAATTGAAATTTTTGAAAA
128 TCACATGTTTTTC-AAAAAAGAGAAAAGTTTCTCATTTAAATCTGAAAATTGAAATTTTTGAAAA
*
560080 CTAAGAAAAGTTTCTTACCTAGTAAACTATTTCCAAAA
192 GTAAGAAAAGTTTCTTACCTAGTAAACTATTTCCAAAA
* * *
560118 TTGGTAACTCCTTCGGGCCATTAGTAAGTCTATCGAGCATGATGCTTAAATCATTTGAGTCATCT
1 TTGGTAACTCATTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCATTTG-GTCATCT
* *
560183 GTAAGTCTTTCGATCAAGATGATAAGTCCTTCGGTCATCCATAAGACCTTCGGGCAGAATGTTTT
65 GTAAGTCTTTCGAGCAATATGATAAGTCCTTCGGTCATCCATAAGACCTTCGGGCAG-ATGTTTT
* * * * *
560248 CACATGTCTCTCGAAAAATGAGAAAAGTTTCTCATTTAAATCTAAAAATTGAATTTTTTG-AAAG
129 CACATGTTTTTC-AAAAAAGAGAAAAGTTTCTCATTTAAATCTGAAAATTGAAATTTTTGAAAAG
560312 TAAGAAAAGTTTCTTACCTAGTAAACTATTTCCAAAA
193 TAAGAAAAGTTTCTTACCTAGTAAACTATTTCCAAAA
* * * * * *
560349 TTGGTAAGTCATTTGGGCCATCAGTAAGTCTTTCGAGCATGATACTTAAATCCTTCGGGTCATTT
1 TTGGTAACTCATTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCATT-TGGTCATCT
*
560414 GTAAGTCTTTCGAGCAATATGATAAGTCCTTCGGACCATCCATAAGACCTTCGGGCATGATGTTT
65 GTAAGTCTTTCGAGCAATATGATAAGTCCTTCGG-TCATCCATAAGACCTTCGGGCA-GATGTTT
* * * *
560479 TCAAATGTTTTTTCAAAAAAGAGGAAAGTTTCTCATCTAAATCTGAAAATTGAAATTTTTTAAAA
128 TCACATG-TTTTTCAAAAAAGAGAAAAGTTTCTCATTTAAATCTGAAAATTGAAATTTTTGAAAA
560544 GTAAGAAAAGTTTCTTACCTAGTAA
192 GTAAGAAAAGTTTCTTACCTAGTAA
560569 GACCATCTCC
Statistics
Matches: 400, Mismatches: 44, Indels: 14
0.87 0.10 0.03
Matches are distributed among these distances:
231 127 0.32
232 160 0.40
233 113 0.28
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.34
Consensus pattern (229 bp):
TTGGTAACTCATTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCATTTGGTCATCTG
TAAGTCTTTCGAGCAATATGATAAGTCCTTCGGTCATCCATAAGACCTTCGGGCAGATGTTTTCA
CATGTTTTTCAAAAAAGAGAAAAGTTTCTCATTTAAATCTGAAAATTGAAATTTTTGAAAAGTAA
GAAAAGTTTCTTACCTAGTAAACTATTTCCAAAA
Found at i:560754 original size:21 final size:20
Alignment explanation
Indices: 560714--560767 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 20
560704 TTAATTTTAC
* *
560714 AAATATAAAAAAATCTGAAA
1 AAATACAAAAAAATCCGAAA
560734 AAATACAAAACAAATCCGAAA
1 AAATACAAAA-AAATCCGAAA
*
560755 AATTACAAAAAAA
1 AAATACAAAAAAA
560768 ATAATATGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
20 12 0.40
21 18 0.60
ACGTcount: A:0.70, C:0.11, G:0.04, T:0.15
Consensus pattern (20 bp):
AAATACAAAAAAATCCGAAA
Found at i:560769 original size:21 final size:21
Alignment explanation
Indices: 560720--560769 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
560710 TTACAAATAT
*
560720 AAAAAAATCTGAAAAAATACA
1 AAAAAAATCCGAAAAAATACA
* *
560741 AAACAAATCCGAAAAATTACA
1 AAAAAAATCCGAAAAAATACA
560762 AAAAAAAT
1 AAAAAAAT
560770 AATATGATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.70, C:0.12, G:0.04, T:0.14
Consensus pattern (21 bp):
AAAAAAATCCGAAAAAATACA
Found at i:560813 original size:20 final size:23
Alignment explanation
Indices: 560769--560813 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 23
560759 ACAAAAAAAA
560769 TAATATGATTATTTATCTAATTT
1 TAATATGATTATTTATCTAATTT
560792 TAATAT-ATT-TTTATCT-ATTT
1 TAATATGATTATTTATCTAATTT
560812 TA
1 TA
560814 TAATTTAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 6 0.27
21 7 0.32
22 3 0.14
23 6 0.27
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.60
Consensus pattern (23 bp):
TAATATGATTATTTATCTAATTT
Found at i:561911 original size:134 final size:134
Alignment explanation
Indices: 561671--562379 Score: 807
Period size: 134 Copynumber: 5.3 Consensus size: 134
561661 GCAAATCAAA
* ** *
561671 CTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACATTTCCATATCTAATTTTCCCTCA
1 CTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACGTCCCCATATCTGATTTTCCCTCA
** * * * *
561736 AGAAGCAGCATAACAGATCACTCTTTTTTC-AGATTTGATCTTCCCTGAGGAACAGTGGAACAAG
66 AGAATAAGCAGAACAGATCCCTC-TCTTTCAAGATTTGATCTTCCCTGAGTAACAGTGGAACAAG
561800 TCTGC
130 TCTGC
* * * * **
561805 CTCGATTCAATCTTCCTTGGAGAACAGTGGAATGAATCAATGTCCCCATATATGATTTTCATTCA
1 CTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACGTCCCCATATCTGATTTTCCCTCA
* * * * *
561870 ATAATAAACAAAACATATCCCTCTCTTTCAAGATTTGATCTTCCCTGAGTAACAGTAGAACAAGT
66 AGAATAAGCAGAACAGATCCCTCTCTTTCAAGATTTGATCTTCCCTGAGTAACAGTGGAACAAGT
561935 CTGC
131 CTGC
* * * ** *
561939 CTCGATTCAATATTCCCTGAAGAATAGTGGAATGAATCAATGTCCTTAGATCTGATTTTCCCTCA
1 CTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACGTCCCCATATCTGATTTTCCCTCA
* * * * * * *
562004 AGAATTAGCAGAACAAATCCCTATCCTTCAAGATTTGATCTTCCTTGAGTAATAATGGAACAAG-
66 AGAATAAGCAGAACAGATCCCTCTCTTTCAAGATTTGATCTTCCCTGAGTAACAGTGGAACAAGT
*
562068 ATGC
131 CTGC
*
562072 CTCGATTCAATCTTCCCTGAAGAACTA-TGGAATGAATCAACGTCCCCAGATCTGATTTTCCCT-
1 CTCGATTCAATCTTCCCTGAAGAAC-AGTGGAATGAATCAACGTCCCCATATCTGATTTTCCCTC
* * *
562135 AAGGAATAAGC-GTAACAGATCCCTCTCTTTCAAGATTTGATCTTCCCTAAGTAACAATGGAATA
65 AA-GAATAAGCAG-AACAGATCCCTCTCTTTCAAGATTTGATCTTCCCTGAGTAACAGTGGAACA
*
562199 AGTCTTC
128 AGTCTGC
* * * * * * *** *
562206 CTCAATTCAATCTTCTCTAAAGAACGGTGGAACGAATCAACATTTTCATATATGATTTTCCCTCA
1 CTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACGTCCCCATATCTGATTTTCCCTCA
* ** * * * * *
562271 GGAAGCAGTAGAACATATCCCTCTTTTTCCAGATTTGATCTTCCCTGAGTAACAGTGGAAGAAGT
66 AGAATAAGCAGAACAGATCCCTCTCTTTCAAGATTTGATCTTCCCTGAGTAACAGTGGAACAAGT
562336 CTGC
131 CTGC
* *
562340 CTCGATTCAATCATCCCTGAAGAACAGTGGAATGAGTCAA
1 CTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAA
562380 ACTTTCTCGA
Statistics
Matches: 481, Mismatches: 86, Indels: 16
0.83 0.15 0.03
Matches are distributed among these distances:
132 3 0.01
133 117 0.24
134 359 0.75
135 2 0.00
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.30
Consensus pattern (134 bp):
CTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACGTCCCCATATCTGATTTTCCCTCA
AGAATAAGCAGAACAGATCCCTCTCTTTCAAGATTTGATCTTCCCTGAGTAACAGTGGAACAAGT
CTGC
Found at i:562181 original size:267 final size:266
Alignment explanation
Indices: 561671--562379 Score: 845
Period size: 267 Copynumber: 2.6 Consensus size: 266
561661 GCAAATCAAA
* *
561671 CTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACAT--TTCCATATCTAATTTTCCCT
1 CTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAATATCCTT--ATATCTGATTTTCCCT
* * *
561734 CAAGAAGCAGCATAACAGATCACTCTTTTTTCAGATTTGATCTTCCCTGAGGAACAGTGGAACAA
64 CAAGAAGCAGCAGAACAAATC-C-CTTTTTTCAGATTTGATCTTCCCTGAGTAACAGTGGAACAA
* * * *
561799 GTCTGCCTCGATTCAATCTTCCTTGGAGAACAGTGGAATGAATCAATGTCCCCATATATGATTTT
127 GTCTGCCTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACGTCCCCAGATATGATTTT
* * * * *
561864 CATTCAATAATAAACAAAACATATCCCTCTCTTTCAAGATTTGATCTTCCCTGAGTAACAGTAGA
192 CACTCAAGAATAAACAAAACAGATCCCTCTCTTTCAAGATTTGATCTTCCCTAAGTAACAATAGA
561929 ACAAGTCTGC
257 ACAAGTCTGC
* * * *
561939 CTCGATTCAATATTCCCTGAAGAATAGTGGAATGAATCAATGTCCTTAGATCTGATTTTCCCTCA
1 CTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAATATCCTTATATCTGATTTTCCCTCA
** ** * * *
562004 AGAATTAGCAGAACAAATCCCTATCCTTCAAGATTTGATCTTCCTTGAGTAATAATGGAACAAG-
66 AGAAGCAGCAGAACAAATCCCT-TTTTTC-AGATTTGATCTTCCCTGAGTAACAGTGGAACAAGT
* *
562068 ATGCCTCGATTCAATCTTCCCTGAAGAACTA-TGGAATGAATCAACGTCCCCAGATCTGATTTTC
129 CTGCCTCGATTCAATCTTCCCTGAAGAAC-AGTGGAATGAATCAACGTCCCCAGATATGATTTTC
* * ** *
562132 CCT-AAGGAATAAGCGTAACAGATCCCTCTCTTTCAAGATTTGATCTTCCCTAAGTAACAATGGA
193 ACTCAA-GAATAAACAAAACAGATCCCTCTCTTTCAAGATTTGATCTTCCCTAAGTAACAATAGA
* *
562196 ATAAGTCTTC
257 ACAAGTCTGC
* * * * * * * *
562206 CTCAATTCAATCTTCTCTAAAGAACGGTGGAACGAATCAACAT-TTTCATATATGATTTTCCCTC
1 CTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAATATCCTT-ATATCTGATTTTCCCTC
* * * *
562270 AGGAAGCAGTAGAACATATCCCTCTTTTTCCAGATTTGATCTTCCCTGAGTAACAGTGGAAGAAG
65 AAGAAGCAGCAGAACAAATCCCT-TTTTT-CAGATTTGATCTTCCCTGAGTAACAGTGGAACAAG
* *
562335 TCTGCCTCGATTCAATCATCCCTGAAGAACAGTGGAATGAGTCAA
128 TCTGCCTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAA
562380 ACTTTCTCGA
Statistics
Matches: 370, Mismatches: 61, Indels: 20
0.82 0.14 0.04
Matches are distributed among these distances:
266 6 0.02
267 221 0.60
268 141 0.38
270 2 0.01
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.30
Consensus pattern (266 bp):
CTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAATATCCTTATATCTGATTTTCCCTCA
AGAAGCAGCAGAACAAATCCCTTTTTTCAGATTTGATCTTCCCTGAGTAACAGTGGAACAAGTCT
GCCTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACGTCCCCAGATATGATTTTCACT
CAAGAATAAACAAAACAGATCCCTCTCTTTCAAGATTTGATCTTCCCTAAGTAACAATAGAACAA
GTCTGC
Found at i:562586 original size:16 final size:16
Alignment explanation
Indices: 562561--562592 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
562551 TTTTAACAAT
*
562561 ATTATTATTATTATTA
1 ATTATAATTATTATTA
562577 ATTATAATTATTATTA
1 ATTATAATTATTATTA
562593 CTTTTTCTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
ATTATAATTATTATTA
Found at i:563977 original size:30 final size:29
Alignment explanation
Indices: 563933--564004 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 29
563923 ATCTATCTTT
563933 TTTATTTA-TTTTAATTT-GGCCACATAA
1 TTTATTTATTTTTAATTTAGGCCACATAA
* * *
563960 TATTAGTTTATTTTTAATTTAGTCCCCATGA
1 T-TTA-TTTATTTTTAATTTAGGCCACATAA
563991 TTTATTTATTTTTA
1 TTTATTTATTTTTA
564005 TTCTTTGTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
27 1 0.03
28 3 0.08
29 14 0.37
30 12 0.32
31 8 0.21
ACGTcount: A:0.26, C:0.10, G:0.07, T:0.57
Consensus pattern (29 bp):
TTTATTTATTTTTAATTTAGGCCACATAA
Found at i:564806 original size:131 final size:131
Alignment explanation
Indices: 564592--564957 Score: 443
Period size: 131 Copynumber: 2.8 Consensus size: 131
564582 ATCAATATTG
* * * * *
564592 AGAATAGTAATATATTTTCATTTCGGTTGGAGTAATAAATGATTGCTTTAAGGCATGAGAGGTCA
1 AGAATAGTGATATCTCTTCATTTCGATTGGAGTAATAAATGATTGCTTTAAGGTATGAGAGGTCA
* * * * *
564657 TTTA-TCATCAATTGGAAATAATTTGATATTA-CAATTTTCTCTCAAATTAAT-ATTGATTTTTA
66 TTTATTC-TCGATTGGAAATAATTAGATATTATC-ATTTTCACTCAAATCAATAATT-AATTTTA
**
564719 AGTG
128 AGAC
* * * *
564723 GGGATAGTGATATCTCTTCATTTCGATTGGAGCAATAAATGACTGCTTTAAGGTATGAGAGGTCA
1 AGAATAGTGATATCTCTTCATTTCGATTGGAGTAATAAATGATTGCTTTAAGGTATGAGAGGTCA
* * * * *
564788 TTTATTCTCGAGTAGAAATCATTAGATATTATCATTTTCACTCGAATCGATAATTAATTTTAAGA
66 TTTATTCTCGATTGGAAATAATTAGATATTATCATTTTCACTCAAATCAATAATTAATTTTAAGA
564853 C
131 C
* *
564854 AGAATAGTGATATCTCTTCATTTC-ATTTGAAGTAATAAATGATTGTTTTAAGGTATGAGAGGTC
1 AGAATAGTGATATCTCTTCATTTCGA-TTGGAGTAATAAATGATTGCTTTAAGGTATGAGAGGTC
* *
564918 ATTTATTCTCGATTGGAAATAATTGGATATTATCGTTTTC
65 ATTTATTCTCGATTGGAAATAATTAGATATTATCATTTTC
564958 TCTCTTAAAA
Statistics
Matches: 199, Mismatches: 32, Indels: 8
0.83 0.13 0.03
Matches are distributed among these distances:
130 1 0.01
131 192 0.96
132 6 0.03
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (131 bp):
AGAATAGTGATATCTCTTCATTTCGATTGGAGTAATAAATGATTGCTTTAAGGTATGAGAGGTCA
TTTATTCTCGATTGGAAATAATTAGATATTATCATTTTCACTCAAATCAATAATTAATTTTAAGA
C
Found at i:571741 original size:22 final size:21
Alignment explanation
Indices: 571696--571741 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
571686 AAATATGATT
*
571696 ATAATTTTAATTATAATTAAA
1 ATAATTTTAATTATAAGTAAA
571717 ATAATTTT-ATTATTTAAGTAAA
1 ATAATTTTAATTA--TAAGTAAA
571739 ATA
1 ATA
571742 TAATTAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 4 0.18
21 8 0.36
22 10 0.45
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (21 bp):
ATAATTTTAATTATAAGTAAA
Found at i:573751 original size:5 final size:5
Alignment explanation
Indices: 573743--573773 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
573733 ATTAAAAATA
573743 ATATT ATATT ATATT ATATT ATATT ATATT A
1 ATATT ATATT ATATT ATATT ATATT ATATT A
573774 CATTTTAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
ATATT
Found at i:573755 original size:22 final size:23
Alignment explanation
Indices: 573710--573758 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
573700 ATTGATTACT
573710 TATT-AAAATAAGAATATTATTA
1 TATTAAAAATAAGAATATTATTA
* *
573732 TATTAAAAATAATATTA-TATTA
1 TATTAAAAATAAGAATATTATTA
573754 TATTA
1 TATTA
573759 TATTATATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 14 0.58
23 10 0.42
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (23 bp):
TATTAAAAATAAGAATATTATTA
Found at i:573901 original size:23 final size:23
Alignment explanation
Indices: 573874--573918 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
573864 AAAACAGAAA
*
573874 TATAATATCATATATTATTATAC
1 TATAATATAATATATTATTATAC
* *
573897 TATAATTTAATATATTTTTATA
1 TATAATATAATATATTATTATA
573919 ATACTAAAAA
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:0.04, G:0.00, T:0.53
Consensus pattern (23 bp):
TATAATATAATATATTATTATAC
Found at i:573958 original size:23 final size:23
Alignment explanation
Indices: 573932--573976 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
573922 CTAAAAAGTA
*
573932 TAATATTATATTATTAA-AATTAT
1 TAATAATATATT-TTAATAATTAT
573955 TAATAATATATTTTAATAATTA
1 TAATAATATATTTTAATAATTA
573977 ATATTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
TAATAATATATTTTAATAATTAT
Found at i:573972 original size:13 final size:15
Alignment explanation
Indices: 573944--573984 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
573934 ATATTATATT
*
573944 ATTAAAATTATTAATA
1 ATTAATATT-TTAATA
573960 A-T-ATATTTTAATA
1 ATTAATATTTTAATA
573973 ATTAATATTTTA
1 ATTAATATTTTA
573985 TTAAAATTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
13 7 0.32
14 5 0.23
15 9 0.41
16 1 0.05
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
ATTAATATTTTAATA
Found at i:579593 original size:2 final size:2
Alignment explanation
Indices: 579586--579661 Score: 152
Period size: 2 Copynumber: 38.0 Consensus size: 2
579576 TGTTCTTTTA
579586 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
579628 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
579662 CCAACAATTT
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 74 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:585048 original size:23 final size:23
Alignment explanation
Indices: 585016--585059 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
585006 CAAACAACCG
* *
585016 AAAACGTGTCATAGAGGTAGAGA
1 AAAACATGTCATAAAGGTAGAGA
585039 AAAACATGTCATAAAGGTAGA
1 AAAACATGTCATAAAGGTAGA
585060 AGAATACGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.48, C:0.09, G:0.25, T:0.18
Consensus pattern (23 bp):
AAAACATGTCATAAAGGTAGAGA
Found at i:586198 original size:60 final size:59
Alignment explanation
Indices: 586146--586260 Score: 140
Period size: 60 Copynumber: 1.9 Consensus size: 59
586136 ACTATGACTA
* *
586146 TCATTCTAAATTAATCATCAAACTTTTGAACATTTCAATTTCATCTCCAAACTATAACAT
1 TCATTCTAAATTAATCACCAAACTTTTGAACATTCCAATTTCATC-CCAAACTATAACAT
* ** * * * *
586206 TTATTCTAAATTGGTCCCCAAATTTTTGGACATTCCAATTTTATCCCAAACTATA
1 TCATTCTAAATTAATCACCAAACTTTTGAACATTCCAATTTCATCCCAAACTATA
586261 TGTATATACT
Statistics
Matches: 46, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
59 10 0.22
60 36 0.78
ACGTcount: A:0.35, C:0.22, G:0.04, T:0.39
Consensus pattern (59 bp):
TCATTCTAAATTAATCACCAAACTTTTGAACATTCCAATTTCATCCCAAACTATAACAT
Found at i:587576 original size:17 final size:17
Alignment explanation
Indices: 587556--587591 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
587546 TTCACGTGTA
587556 TTAGTTTAAAATAAGTT
1 TTAGTTTAAAATAAGTT
587573 TTAGTTTAAAATAAGTT
1 TTAGTTTAAAATAAGTT
587590 TT
1 TT
587592 TTTTATATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (17 bp):
TTAGTTTAAAATAAGTT
Found at i:588600 original size:10 final size:10
Alignment explanation
Indices: 588568--588599 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
588558 ATTTAATTTA
588568 TTTGAATGCT
1 TTTGAATGCT
588578 TTTGAATGCT
1 TTTGAATGCT
588588 TTTGAATG-T
1 TTTGAATGCT
588597 TTT
1 TTT
588600 TAAATTTACA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.19, C:0.06, G:0.19, T:0.56
Consensus pattern (10 bp):
TTTGAATGCT
Found at i:589173 original size:60 final size:60
Alignment explanation
Indices: 589109--589297 Score: 188
Period size: 60 Copynumber: 3.1 Consensus size: 60
589099 TATTTGGATG
* * * *
589109 AATTTGGGGATGAAATTGGAATATTTAAAAGTTTAGGGACAAATTTGGAAAGTGTGTCAT
1 AATTTGGGGATGAAATTGGAATATTTAAAAGTTTAAGGACAAATTTAGAAAGAGAGTCAT
* * ** * * *
589169 AATTTAGGGATGAAATTAGG-ATGTCCAAATGTTTAAGGACTAATTTAGAATGAGAGTCAT
1 AATTTGGGGATGAAATT-GGAATATTTAAAAGTTTAAGGACAAATTTAGAAAGAGAGTCAT
* * *
589229 AATTTGGGGATGAAATTGGAATATTCT-AAAGTTTAAGAACCAATTTA-AAATGA-AGGTTAT
1 AATTTGGGGATGAAATTGGAATATT-TAAAAGTTTAAGGACAAATTTAGAAA-GAGA-GTCAT
589289 AATTTGGGG
1 AATTTGGGG
589298 GAAATATGAT
Statistics
Matches: 104, Mismatches: 20, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
59 5 0.05
60 97 0.93
61 2 0.02
ACGTcount: A:0.38, C:0.05, G:0.24, T:0.33
Consensus pattern (60 bp):
AATTTGGGGATGAAATTGGAATATTTAAAAGTTTAAGGACAAATTTAGAAAGAGAGTCAT
Found at i:589511 original size:2 final size:2
Alignment explanation
Indices: 589504--589583 Score: 160
Period size: 2 Copynumber: 40.0 Consensus size: 2
589494 TATACGGTAA
589504 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
589546 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
589584 CGAAAAATCC
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 78 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:598236 original size:22 final size:22
Alignment explanation
Indices: 598205--598286 Score: 75
Period size: 23 Copynumber: 3.9 Consensus size: 22
598195 TATAAGGCAG
598205 AGGG-AATCGATACCCCCTTGA
1 AGGGAAATCGATACCCCCTTGA
*
598226 AGGGAAATCGATTCCCCCTTTGA
1 AGGGAAATCGATACCCCC-TTGA
* *
598249 A-GGAGAACCGATTCCCCC-T--
1 AGGGA-AATCGATACCCCCTTGA
*
598268 AGGGGAATCGATACCCCCT
1 AGGGAAATCGATACCCCCT
598287 GGGGTTCTGG
Statistics
Matches: 51, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
19 12 0.24
20 2 0.04
21 5 0.10
22 15 0.29
23 17 0.33
ACGTcount: A:0.27, C:0.30, G:0.23, T:0.20
Consensus pattern (22 bp):
AGGGAAATCGATACCCCCTTGA
Found at i:598248 original size:23 final size:23
Alignment explanation
Indices: 598205--598267 Score: 78
Period size: 23 Copynumber: 2.8 Consensus size: 23
598195 TATAAGGCAG
*
598205 AGGG-AATCGATACCCCC-TTGA
1 AGGGAAATCGATTCCCCCTTTGA
598226 AGGGAAATCGATTCCCCCTTTGA
1 AGGGAAATCGATTCCCCCTTTGA
*
598249 A-GGAGAACCGATTCCCCCT
1 AGGGA-AATCGATTCCCCCT
598268 AGGGGAATCG
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.11
22 15 0.41
23 18 0.49
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (23 bp):
AGGGAAATCGATTCCCCCTTTGA
Found at i:600467 original size:2 final size:2
Alignment explanation
Indices: 600460--600485 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
600450 CAGTTTAAGC
600460 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
600486 ATCAATTGGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:600629 original size:20 final size:20
Alignment explanation
Indices: 600604--600644 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
600594 TTAGAGTAAG
600604 GGGGAGTAATTTCAAAACTT
1 GGGGAGTAATTTCAAAACTT
600624 GGGGAGTAATTTCAAAACTT
1 GGGGAGTAATTTCAAAACTT
600644 G
1 G
600645 ATTTCAAAAT
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:0.34, C:0.10, G:0.27, T:0.29
Consensus pattern (20 bp):
GGGGAGTAATTTCAAAACTT
Found at i:600892 original size:22 final size:23
Alignment explanation
Indices: 600867--600910 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
600857 AATTAAGTTT
600867 TAATCTTA-AAACAATTTCAAAA
1 TAATCTTACAAACAATTTCAAAA
* **
600889 TAATTTTACAAAGTATTTCAAA
1 TAATCTTACAAACAATTTCAAA
600911 CCGTTTCAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.50, C:0.11, G:0.02, T:0.36
Consensus pattern (23 bp):
TAATCTTACAAACAATTTCAAAA
Found at i:602584 original size:2 final size:2
Alignment explanation
Indices: 602577--602610 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
602567 GTTAAGTTTG
602577 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
602611 CTACATTCTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:602651 original size:22 final size:22
Alignment explanation
Indices: 602621--602668 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
602611 CTACATTCTG
602621 CAAAAATGATAGATTCTCTTTT
1 CAAAAATGATAGATTCTCTTTT
*
602643 CAAAGATGATAGATTCTCTTTT
1 CAAAAATGATAGATTCTCTTTT
602665 CAAA
1 CAAA
602669 TGTGAGAGCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.38
Consensus pattern (22 bp):
CAAAAATGATAGATTCTCTTTT
Found at i:603470 original size:82 final size:82
Alignment explanation
Indices: 603335--603495 Score: 279
Period size: 82 Copynumber: 2.0 Consensus size: 82
603325 AAAACAAGAG
*
603335 CAAAAGCAAATCTGAACTCCACGAAAGAGTAGTGGAACAGATTTTTCAGCAAAGTATGA-AATCT
1 CAAAAGCAAATATGAACTCCACGAAAGAGTAGTGGAACAGATTTTTCAGCAAAGTATGAGAA-CT
*
603399 TCATGGAAGAATAGTCAA
65 TCACGGAAGAATAGTCAA
603417 CAAAAGCAAATATGAACTCCACGAAAGAGTAGTGGAACAGATTTTTCAGCAAAGTATGAGAACTT
1 CAAAAGCAAATATGAACTCCACGAAAGAGTAGTGGAACAGATTTTTCAGCAAAGTATGAGAACTT
*
603482 CACGGAAGAGTAGT
66 CACGGAAGAATAGT
603496 GGAGTTATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
82 73 0.97
83 2 0.03
ACGTcount: A:0.42, C:0.16, G:0.21, T:0.21
Consensus pattern (82 bp):
CAAAAGCAAATATGAACTCCACGAAAGAGTAGTGGAACAGATTTTTCAGCAAAGTATGAGAACTT
CACGGAAGAATAGTCAA
Found at i:603897 original size:21 final size:20
Alignment explanation
Indices: 603869--603907 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
603859 TATACGTTAT
603869 TATAATTAATAATTATATTA
1 TATAATTAATAATTATATTA
* *
603889 TATATATTATTATTTATAT
1 TATA-ATTAATAATTATAT
603908 AGCCTGAAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TATAATTAATAATTATATTA
Found at i:605207 original size:18 final size:18
Alignment explanation
Indices: 605172--605209 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
605162 TATTTTAGTC
*
605172 ATTAATTATTATTATAAT
1 ATTAATTATTAGTATAAT
605190 ATTAATTA-TAGTATTAAT
1 ATTAATTATTAGTA-TAAT
605208 AT
1 AT
605210 ACTTTTATCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (18 bp):
ATTAATTATTAGTATAAT
Found at i:605284 original size:26 final size:27
Alignment explanation
Indices: 605246--605299 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 27
605236 AATATAGTTT
605246 TAATATTAAATGTTATAATA-GTATTAA
1 TAATATTAAATGTTA-AATATGTATTAA
* *
605273 TAATATT-TATGTTAAATATTTATTAA
1 TAATATTAAATGTTAAATATGTATTAA
605299 T
1 T
605300 TATTTTAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 4 0.17
26 13 0.54
27 7 0.29
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (27 bp):
TAATATTAAATGTTAAATATGTATTAA
Found at i:609325 original size:17 final size:20
Alignment explanation
Indices: 609284--609322 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
609274 AAATATGATT
609284 ATAATTTTAATTATAATTAAA
1 ATAATTTTAATTAT-ATTAAA
609305 ATAATTTT-ATTAT-TTAAA
1 ATAATTTTAATTATATTAAA
609323 TAAAATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.28
20 5 0.28
21 8 0.44
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
ATAATTTTAATTATATTAAA
Found at i:609329 original size:22 final size:21
Alignment explanation
Indices: 609284--609329 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
609274 AAATATGATT
*
609284 ATAATTTTAATTATAATTAAA
1 ATAATTTTAATTATAAATAAA
609305 ATAATTTT-ATTATTTAAATAAA
1 ATAATTTTAATTA--TAAATAAA
609327 ATA
1 ATA
609330 TAATTAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 4 0.18
21 8 0.36
22 10 0.45
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
ATAATTTTAATTATAAATAAA
Found at i:609718 original size:21 final size:21
Alignment explanation
Indices: 609666--609710 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
609656 GTTTTCAGAT
*
609666 TCGCAACGCGAACTTCGACTA
1 TCGCAATGCGAACTTCGACTA
609687 TCGCAATGCGAACTTCGACTA
1 TCGCAATGCGAACTTCGACTA
609708 TCG
1 TCG
609711 GATTGCGATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.27, C:0.31, G:0.20, T:0.22
Consensus pattern (21 bp):
TCGCAATGCGAACTTCGACTA
Found at i:609753 original size:21 final size:20
Alignment explanation
Indices: 609733--610326 Score: 708
Period size: 21 Copynumber: 28.9 Consensus size: 20
609723 CATATTCGCA
609733 TTGCGATAG-TCCAAGTTCG
1 TTGCGATAGTTCCAAGTTCG
* *
609752 CATTGCGAT-TTTCCAAATTCG
1 --TTGCGATAGTTCCAAGTTCG
*
609773 TTGCGATAGTCTCCAAATTCG
1 TTGCGATAGT-TCCAAGTTCG
*
609794 TTGCGATAGTCTCCAAATTCG
1 TTGCGATAGT-TCCAAGTTCG
609815 TTGCGATAGTATCCAAGTTCG
1 TTGCGATAGT-TCCAAGTTCG
609836 TTGCGATAGTCTCCAAGTTCG
1 TTGCGATAGT-TCCAAGTTCG
*
609857 TCGCGATAGTCTCCAAGTTCG
1 TTGCGATAGT-TCCAAGTTCG
*
609878 TTGCGATAGTCTCCAAATTCG
1 TTGCGATAGT-TCCAAGTTCG
609899 TTGCGATAGTCTCCAAGTTCG
1 TTGCGATAGT-TCCAAGTTCG
609920 TTGCGATAGTCTCCAAGTTCG
1 TTGCGATAGT-TCCAAGTTCG
609941 TTGCGATAGTCTCCAAGTTCG
1 TTGCGATAGT-TCCAAGTTCG
*
609962 TTGCGATAGTCTCCAAATTCG
1 TTGCGATAGT-TCCAAGTTCG
*
609983 TTGCGATAGTCTCCAAATTCG
1 TTGCGATAGT-TCCAAGTTCG
610004 TTGCGATAGTCTCCAAGTTCG
1 TTGCGATAGT-TCCAAGTTCG
610025 TTGCGATAGTCTCCAAGTTCG
1 TTGCGATAGT-TCCAAGTTCG
610046 TTGCGATAGTCTCCAAGTTCG
1 TTGCGATAGT-TCCAAGTTCG
*
610067 TTGCGATAGTCTCCAAATTCG
1 TTGCGATAGT-TCCAAGTTCG
*
610088 TTGCGATAGTCTCCAAATTCG
1 TTGCGATAGT-TCCAAGTTCG
*
610109 TTGCGATAGTCTCCAAATTCG
1 TTGCGATAGT-TCCAAGTTCG
610130 TTGCG--A--T---AG-TC-
1 TTGCGATAGTTCCAAGTTCG
* *
610141 -TGCGATAGTCTCCAAATTCA
1 TTGCGATAGT-TCCAAGTTCG
610161 TTGCGATAGTCTCCAAGTTCG
1 TTGCGATAGT-TCCAAGTTCG
610182 TTGCGATAGTCTCCAAGTTCG
1 TTGCGATAGT-TCCAAGTTCG
*
610203 TTGCGATAGTCTCCAAATTCG
1 TTGCGATAGT-TCCAAGTTCG
*
610224 TTGCGATAGTCTCCAAATTCG
1 TTGCGATAGT-TCCAAGTTCG
*
610245 TTGCGATAGTCTCCAAATTCG
1 TTGCGATAGT-TCCAAGTTCG
610266 TTGCGATAGTATCCAAGTTCG
1 TTGCGATAGT-TCCAAGTTCG
610287 TTGCGATAGTCTCCAAGTTCG
1 TTGCGATAGT-TCCAAGTTCG
610308 TTGCGATAGTCTCCAAGTT
1 TTGCGATAGT-TCCAAGTT
610327 TATGGGTTCC
Statistics
Matches: 538, Mismatches: 21, Indels: 28
0.92 0.04 0.05
Matches are distributed among these distances:
10 4 0.01
12 3 0.01
13 1 0.00
15 1 0.00
16 1 0.00
18 1 0.00
19 10 0.02
20 1 0.00
21 516 0.96
ACGTcount: A:0.22, C:0.23, G:0.21, T:0.33
Consensus pattern (20 bp):
TTGCGATAGTTCCAAGTTCG
Found at i:609809 original size:42 final size:42
Alignment explanation
Indices: 609733--610323 Score: 902
Period size: 42 Copynumber: 13.9 Consensus size: 42
609723 CATATTCGCA
*
609733 TTGCGATAG--TCCAAGTTCGCATTGCGAT--TTTCCAAATTCG
1 TTGCGATAGTCTCCAAGTTCG--TTGCGATAGTCTCCAAATTCG
*
609773 TTGCGATAGTCTCCAAATTCGTTGCGATAGTCTCCAAATTCG
1 TTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAATTCG
* *
609815 TTGCGATAGTATCCAAGTTCGTTGCGATAGTCTCCAAGTTCG
1 TTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAATTCG
*
609857 TCGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAATTCG
1 TTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAATTCG
*
609899 TTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAGTTCG
1 TTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAATTCG
609941 TTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAATTCG
1 TTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAATTCG
* *
609983 TTGCGATAGTCTCCAAATTCGTTGCGATAGTCTCCAAGTTCG
1 TTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAATTCG
*
610025 TTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAGTTCG
1 TTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAATTCG
*
610067 TTGCGATAGTCTCCAAATTCGTTGCGATAGTCTCCAAATTCG
1 TTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAATTCG
*
610109 TTGCGATAGTCTCCAAATTCGTTGCGATAGTCTGCGATAGTCTCCAAATTCA
1 TTGCGATAGTCTCC-AA---GTT-C----GT-TGCGATAGTCTCCAAATTCG
*
610161 TTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAGTTCG
1 TTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAATTCG
*
610203 TTGCGATAGTCTCCAAATTCGTTGCGATAGTCTCCAAATTCG
1 TTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAATTCG
* * *
610245 TTGCGATAGTCTCCAAATTCGTTGCGATAGTATCCAAGTTCG
1 TTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAATTCG
610287 TTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAA
1 TTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAA
610324 GTTTATGGGT
Statistics
Matches: 511, Mismatches: 26, Indels: 26
0.91 0.05 0.05
Matches are distributed among these distances:
40 16 0.03
42 447 0.87
43 4 0.01
46 2 0.00
47 2 0.00
48 3 0.01
51 4 0.01
52 33 0.06
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.33
Consensus pattern (42 bp):
TTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAATTCG
Found at i:609836 original size:63 final size:63
Alignment explanation
Indices: 609733--610326 Score: 912
Period size: 63 Copynumber: 9.6 Consensus size: 63
609723 CATATTCGCA
* *
609733 TTGCGATAG--TCCAAGTTCGCATTGCGAT--TTTCCAAATTCGTTGCGATAGTCTCCAAATTCG
1 TTGCGATAGTCTCCAAGTTCG--TTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAATTCG
* * *
609794 TTGCGATAGTCTCCAAATTCGTTGCGATAGTATCCAAGTTCGTTGCGATAGTCTCCAAGTTCG
1 TTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAATTCG
* * *
609857 TCGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAATTCGTTGCGATAGTCTCCAAGTTCG
1 TTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAATTCG
609920 TTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAATTCG
1 TTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAATTCG
* *
609983 TTGCGATAGTCTCCAAATTCGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAGTTCG
1 TTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAATTCG
*
610046 TTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAATTCGTTGCGATAGTCTCCAAATTCG
1 TTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAATTCG
* *
610109 TTGCGATAGTCTCCAAATTCGTTGCG--A---T---AG-TC--TGCGATAGTCTCCAAATTCA
1 TTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAATTCG
610161 TTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAATTCG
1 TTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAATTCG
* * * *
610224 TTGCGATAGTCTCCAAATTCGTTGCGATAGTCTCCAAATTCGTTGCGATAGTATCCAAGTTCG
1 TTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAATTCG
610287 TTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAGTT
1 TTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAGTT
610327 TATGGGTTCC
Statistics
Matches: 491, Mismatches: 27, Indels: 28
0.90 0.05 0.05
Matches are distributed among these distances:
52 44 0.09
54 3 0.01
55 1 0.00
57 1 0.00
58 1 0.00
60 2 0.00
61 19 0.04
63 420 0.86
ACGTcount: A:0.22, C:0.23, G:0.21, T:0.33
Consensus pattern (63 bp):
TTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAATTCG
Found at i:610148 original size:31 final size:31
Alignment explanation
Indices: 610110--610172 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
610100 CCAAATTCGT
*
610110 TGCGATAGTCTCCAAATTCGTTGCGATAGTC
1 TGCGATAGTCTCCAAATTCATTGCGATAGTC
610141 TGCGATAGTCTCCAAATTCATTGCGATAGTC
1 TGCGATAGTCTCCAAATTCATTGCGATAGTC
610172 T
1 T
610173 CCAAGTTCGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (31 bp):
TGCGATAGTCTCCAAATTCATTGCGATAGTC
Found at i:610913 original size:16 final size:17
Alignment explanation
Indices: 610892--610923 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
610882 AGAGCAACAT
610892 TTTTTTTTA-AAATTCA
1 TTTTTTTTACAAATTCA
610908 TTTTTTTTACAAATTC
1 TTTTTTTTACAAATTC
610924 TAATTCTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.28, C:0.09, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTTTTTTACAAATTCA
Found at i:614428 original size:24 final size:24
Alignment explanation
Indices: 614398--614468 Score: 97
Period size: 24 Copynumber: 3.0 Consensus size: 24
614388 ATTTCCGACT
*
614398 TGAATTCTGTTCTGATTTTTGATC
1 TGAATTCTGTTCTGATTTCTGATC
* * *
614422 TGGATTCTGTTCTGATATCTGTTC
1 TGAATTCTGTTCTGATTTCTGATC
*
614446 TGAATTCTGTTTTGATTTCTGAT
1 TGAATTCTGTTCTGATTTCTGAT
614469 ATCTCCGTTT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.15, C:0.13, G:0.18, T:0.54
Consensus pattern (24 bp):
TGAATTCTGTTCTGATTTCTGATC
Found at i:614465 original size:12 final size:12
Alignment explanation
Indices: 614402--614466 Score: 69
Period size: 12 Copynumber: 5.4 Consensus size: 12
614392 CCGACTTGAA
614402 TTCTGTTCTGAT
1 TTCTGTTCTGAT
* *
614414 TTTTGATCTGGA-
1 TTCTGTTCT-GAT
614426 TTCTGTTCTGAT
1 TTCTGTTCTGAT
* *
614438 ATCTGTTCTGAA
1 TTCTGTTCTGAT
*
614450 TTCTGTTTTGAT
1 TTCTGTTCTGAT
614462 TTCTG
1 TTCTG
614467 ATATCTCCGT
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
11 2 0.05
12 38 0.90
13 2 0.05
ACGTcount: A:0.12, C:0.14, G:0.18, T:0.55
Consensus pattern (12 bp):
TTCTGTTCTGAT
Found at i:615952 original size:21 final size:21
Alignment explanation
Indices: 615926--615980 Score: 110
Period size: 21 Copynumber: 2.6 Consensus size: 21
615916 TTACACTACA
615926 GGTACCGATACCCTATGAAGG
1 GGTACCGATACCCTATGAAGG
615947 GGTACCGATACCCTATGAAGG
1 GGTACCGATACCCTATGAAGG
615968 GGTACCGATACCC
1 GGTACCGATACCC
615981 CCACACTCCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.18
Consensus pattern (21 bp):
GGTACCGATACCCTATGAAGG
Found at i:619999 original size:19 final size:22
Alignment explanation
Indices: 619953--620006 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 22
619943 TCTGTAATAA
619953 GTATCGATACCCCCCTTGAATGG
1 GTATCGATA-CCCCCTTGAATGG
619976 GTATCGATACCCCC-TG-AT-G
1 GTATCGATACCCCCTTGAATGG
619995 GTATCGATACCC
1 GTATCGATACCC
620007 TCTTCGGGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
19 13 0.42
20 2 0.06
21 2 0.06
22 5 0.16
23 9 0.29
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.26
Consensus pattern (22 bp):
GTATCGATACCCCCTTGAATGG
Found at i:624725 original size:22 final size:22
Alignment explanation
Indices: 624684--624750 Score: 107
Period size: 22 Copynumber: 3.0 Consensus size: 22
624674 CTCGTATAAA
624684 TGCACCGAAGTGCCCCGTAGAAT
1 TGCACCGAAGTG-CCCGTAGAAT
*
624707 TGTACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
*
624729 TGCACCGTAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
624751 GATGTCCATA
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
22 30 0.73
23 11 0.27
ACGTcount: A:0.25, C:0.27, G:0.27, T:0.21
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:626464 original size:21 final size:21
Alignment explanation
Indices: 626440--626484 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
626430 TCTTGTTCGT
* *
626440 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
626461 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
626482 TTG
1 TTG
626485 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:629601 original size:22 final size:22
Alignment explanation
Indices: 629560--629626 Score: 116
Period size: 22 Copynumber: 3.0 Consensus size: 22
629550 CTCGTATAAA
629560 TGCACCGAAGTGCCCCGTAGAAT
1 TGCACCGAAGTG-CCCGTAGAAT
629583 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
*
629605 TGCACCGTAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
629627 GATGTCCATA
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
22 31 0.72
23 12 0.28
ACGTcount: A:0.25, C:0.28, G:0.27, T:0.19
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:631349 original size:21 final size:21
Alignment explanation
Indices: 631325--631369 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
631315 TCTTGTTCGT
* *
631325 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
631346 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
631367 TTG
1 TTG
631370 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:633188 original size:23 final size:24
Alignment explanation
Indices: 633129--633196 Score: 70
Period size: 23 Copynumber: 2.9 Consensus size: 24
633119 AAAATAAATT
* *
633129 TTTATAAATTATATTAATTACTTA
1 TTTATTAATTATATGAATTACTTA
*
633153 TTTATTAA-AATATGAA-TA-TTA
1 TTTATTAATTATATGAATTACTTA
*
633174 TATTATTAATTATATTAATTACT
1 T-TTATTAATTATATGAATTACT
633197 ATTAAAATAA
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
21 4 0.11
22 9 0.26
23 12 0.34
24 9 0.26
25 1 0.03
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.53
Consensus pattern (24 bp):
TTTATTAATTATATGAATTACTTA
Found at i:633407 original size:23 final size:23
Alignment explanation
Indices: 633372--633416 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
633362 AAAACAGAAA
*
633372 TATAATATCATATATTATTATAC
1 TATAATATAATATATTATTATAC
* * *
633395 TATAATTTAATATGTTTTTATA
1 TATAATATAATATATTATTATA
633417 ATACTAAAAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.53
Consensus pattern (23 bp):
TATAATATAATATATTATTATAC
Found at i:633447 original size:23 final size:23
Alignment explanation
Indices: 633423--633466 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
633413 TATAATACTA
*
633423 AAAAGTA-TAATATTATATTTTT
1 AAAAGTATTAATAATATATTTTT
*
633445 AAAATTATTAATAATATATTTT
1 AAAAGTATTAATAATATATTTT
633467 AATAATAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (23 bp):
AAAAGTATTAATAATATATTTTT
Found at i:633470 original size:13 final size:14
Alignment explanation
Indices: 633452--633480 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
633442 TTTAAAATTA
633452 TTAATAAT-ATATT
1 TTAATAATAATATT
633465 TTAATAATAATATT
1 TTAATAATAATATT
633479 TT
1 TT
633481 TATTAAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TTAATAATAATATT
Found at i:633474 original size:16 final size:15
Alignment explanation
Indices: 633453--633482 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
633443 TTAAAATTAT
633453 TAATAATATATTTTAA
1 TAATAATAT-TTTTAA
633469 TAATAATATTTTTA
1 TAATAATATTTTTA
633483 TTAAAATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TAATAATATTTTTAA
Found at i:635257 original size:87 final size:84
Alignment explanation
Indices: 635161--635424 Score: 268
Period size: 84 Copynumber: 3.1 Consensus size: 84
635151 TTGGGACCAT
* * *
635161 TAATTTTTTCAATACCACATTTTCATATTTATAATTGACG-ATCCTAATTTTTTTCTAATCTCAC
1 TAATTTTTCCAATACCAC-TTTTCACATTTATAATTGACGCA-CCTAA--TCTTT-TAAT-TCAC
*
635225 TTTTTACCTTTATAATT-AAGCTTC
60 TTTTTACCTTTAAAATTGAAGCTTC
* * * *
635249 TAATTTTTCCAATATCACTTTTTACCTTTATAATTGAGGCACCTAATCTTTTAATTCACTTTTTA
1 TAATTTTTCCAATACCACTTTTCACATTTATAATTGACGCACCTAATCTTTTAATTCACTTTTTA
*
635314 CCTTTAAAATTGAGGCTTC
66 CCTTTAAAATTGAAGCTTC
** * * * *
635333 TAATTTTTTTAAT-CTCACTTTTTACCTTTAAAATTGAGGTC-CCTAATCTTTTAATTCACTTTT
1 TAATTTTTCCAATAC-CACTTTTCACATTTATAATTGACG-CACCTAATCTTTTAATTCACTTTT
*
635396 TACCTTTAAAATTGAGACCTT-
64 TACCTTTAAAATTGA-AGCTTC
635417 TAATTTTT
1 TAATTTTT
635425 TAATCTCACT
Statistics
Matches: 156, Mismatches: 15, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
83 20 0.13
84 89 0.57
85 8 0.05
87 22 0.14
88 17 0.11
ACGTcount: A:0.28, C:0.18, G:0.05, T:0.49
Consensus pattern (84 bp):
TAATTTTTCCAATACCACTTTTCACATTTATAATTGACGCACCTAATCTTTTAATTCACTTTTTA
CCTTTAAAATTGAAGCTTC
Found at i:635267 original size:42 final size:42
Alignment explanation
Indices: 635210--635480 Score: 302
Period size: 42 Copynumber: 6.5 Consensus size: 42
635200 GATCCTAATT
*
635210 TTTTTCTAATCTCACTTTTTACCTTTATAATT-AAGCTTCTAA
1 TTTTT-TAATCTCACTTTTTACCTTTAAAATTGAAGCTTCTAA
* * * * **
635252 TTTTTCCAATATCACTTTTTACCTTTATAATTGAGGCACCTAA
1 TTTTT-TAATCTCACTTTTTACCTTTAAAATTGAAGCTTCTAA
* *
635295 TCTTTTAAT-TCACTTTTTACCTTTAAAATTGAGGCTTCTAA
1 TTTTTTAATCTCACTTTTTACCTTTAAAATTGAAGCTTCTAA
* *
635336 TTTTTTTAATCTCACTTTTTACCTTTAAAATTG-AGGTCCCTAA
1 -TTTTTTAATCTCACTTTTTACCTTTAAAATTGAAGCT-TCTAA
* *
635379 TCTTTTAAT-TCACTTTTTACCTTTAAAATTGAGACCTT-TAA
1 TTTTTTAATCTCACTTTTTACCTTTAAAATTGA-AGCTTCTAA
*
635420 TTTTTTAATCTCACTTTTTACCTTTAAAATTG-AGGTATCTAA
1 TTTTTTAATCTCACTTTTTACCTTTAAAATTGAAGCT-TCTAA
* *
635462 TTTTTCAATCACACTTTTT
1 TTTTTTAATCTCACTTTTT
635481 TACTTTTATA
Statistics
Matches: 197, Mismatches: 23, Indels: 18
0.83 0.10 0.08
Matches are distributed among these distances:
40 2 0.01
41 63 0.32
42 93 0.47
43 39 0.20
ACGTcount: A:0.27, C:0.18, G:0.06, T:0.49
Consensus pattern (42 bp):
TTTTTTAATCTCACTTTTTACCTTTAAAATTGAAGCTTCTAA
Found at i:635351 original size:84 final size:85
Alignment explanation
Indices: 635216--635480 Score: 364
Period size: 84 Copynumber: 3.2 Consensus size: 85
635206 AATTTTTTTC
* * ** * *
635216 TAATCTCACTTTTTACCTTTATAATT-AAGCTTCTAATTTTTCCAATATCACTTTTTACCTTTAT
1 TAATCTCACTTTTTACCTTTAAAATTGAGGCTTCTAATTTTTTTAATCTCACTTTTTACCTTTAA
635280 AATTGAGGCACCTAATCTTT
66 AATTGAGGCACCTAATCTTT
635300 TAAT-TCACTTTTTACCTTTAAAATTGAGGCTTCTAATTTTTTTAATCTCACTTTTTACCTTTAA
1 TAATCTCACTTTTTACCTTTAAAATTGAGGCTTCTAATTTTTTTAATCTCACTTTTTACCTTTAA
635364 AATTGAGGTC-CCTAATCTTT
66 AATTGAGG-CACCTAATCTTT
*
635384 TAAT-TCACTTTTTACCTTTAAAATTGAGACCTT-TAA-TTTTTTAATCTCACTTTTTACCTTTA
1 TAATCTCACTTTTTACCTTTAAAATTGAG-GCTTCTAATTTTTTTAATCTCACTTTTTACCTTTA
* *
635446 AAATTGAGGTATCTAAT-TTT
65 AAATTGAGGCACCTAATCTTT
*
635466 TCAATCACACTTTTT
1 T-AATCTCACTTTTT
635481 TACTTTTATA
Statistics
Matches: 165, Mismatches: 10, Indels: 12
0.88 0.05 0.06
Matches are distributed among these distances:
82 4 0.02
83 63 0.38
84 94 0.57
85 4 0.02
ACGTcount: A:0.28, C:0.18, G:0.06, T:0.49
Consensus pattern (85 bp):
TAATCTCACTTTTTACCTTTAAAATTGAGGCTTCTAATTTTTTTAATCTCACTTTTTACCTTTAA
AATTGAGGCACCTAATCTTT
Found at i:635481 original size:126 final size:125
Alignment explanation
Indices: 635204--635507 Score: 368
Period size: 126 Copynumber: 2.4 Consensus size: 125
635194 ATTGACGATC
*
635204 CTAATTTTTTTCTAATCTCACTTTTTACCTTTATAATTAAGCTTCTAATTTTTCCAATATCACTT
1 CTAA-TTTTTTC-AATCTCACTTTTTACCTTTATAATTAAGCTCCTAATTTTT-CAATATCACTT
*
635269 TTTACCTTTATAATTGAGGCACCTAATCTTTTAATTCACTTTTTACCTTTAAAATTGAGGCTT
63 TTTACCTTTAAAATTGAGGCACCTAATCTTTTAATTCACTTTTTACCTTTAAAATTGAGGCTT
* * * *
635332 CTAATTTTTTTAATCTCACTTTTTACCTTTAAAATTGAGGTCCCTAATCTTTT-AAT-TCACTTT
1 CTAATTTTTTCAATCTCACTTTTTACCTTTATAATTAAGCT-CCTAAT-TTTTCAATATCACTTT
*
635395 TTACCTTTAAAATTGA-G-ACCTTTAATTTTTTAATCTCACTTTTTACCTTTAAAATTGAGG-TA
64 TTACCTTTAAAATTGAGGCACC--TAATCTTTTAAT-TCACTTTTTACCTTTAAAATTGAGGCT-
635457 T
125 T
* * * *
635458 CTAA-TTTTTCAATCACACTTTTTTACTTTTATAATTTAAACCCCTAATTT
1 CTAATTTTTTCAATCTCAC-TTTTTACCTTTATAA-TTAAGCTCCTAATTT
635508 AATTATTTTC
Statistics
Matches: 153, Mismatches: 15, Indels: 19
0.82 0.08 0.10
Matches are distributed among these distances:
123 3 0.02
124 1 0.01
125 48 0.31
126 79 0.52
127 14 0.09
128 8 0.05
ACGTcount: A:0.28, C:0.18, G:0.05, T:0.49
Consensus pattern (125 bp):
CTAATTTTTTCAATCTCACTTTTTACCTTTATAATTAAGCTCCTAATTTTTCAATATCACTTTTT
ACCTTTAAAATTGAGGCACCTAATCTTTTAATTCACTTTTTACCTTTAAAATTGAGGCTT
Found at i:637615 original size:18 final size:20
Alignment explanation
Indices: 637584--637620 Score: 51
Period size: 18 Copynumber: 1.9 Consensus size: 20
637574 TTAACTACAA
*
637584 TTAATATTATAATT-AATAT
1 TTAATATTAGAATTCAATAT
637603 TTAA-ATTAGAATTCAATA
1 TTAATATTAGAATTCAATA
637621 CTACAATTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (20 bp):
TTAATATTAGAATTCAATAT
Found at i:644306 original size:12 final size:12
Alignment explanation
Indices: 644291--644336 Score: 56
Period size: 12 Copynumber: 3.6 Consensus size: 12
644281 CGGTTTTTTT
*
644291 ACCGGATAAAAA
1 ACCGGTTAAAAA
644303 ACCGGTTTGAAAAAA
1 ACCGG-TT--AAAAA
644318 ACCGGTTAAAAA
1 ACCGGTTAAAAA
644330 ACCGGTT
1 ACCGGTT
644337 TTTATCCGGA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
12 17 0.57
13 1 0.03
14 2 0.07
15 10 0.33
ACGTcount: A:0.46, C:0.17, G:0.20, T:0.17
Consensus pattern (12 bp):
ACCGGTTAAAAA
Found at i:644318 original size:15 final size:13
Alignment explanation
Indices: 644297--644337 Score: 57
Period size: 12 Copynumber: 3.1 Consensus size: 13
644287 TTTTACCGGA
644297 TAAAAAACCGGTT
1 TAAAAAACCGGTT
644310 TGAAAAAAACCGG-T
1 T--AAAAAACCGGTT
644324 TAAAAAACCGGTT
1 TAAAAAACCGGTT
644337 T
1 T
644338 TTATCCGGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 10 0.40
13 3 0.12
14 2 0.08
15 10 0.40
ACGTcount: A:0.46, C:0.15, G:0.17, T:0.22
Consensus pattern (13 bp):
TAAAAAACCGGTT
Found at i:646652 original size:21 final size:21
Alignment explanation
Indices: 646628--646667 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
646618 TTTATTTTAT
646628 AACTTTATTTCAATTATCGTA
1 AACTTTATTTCAATTATCGTA
*
646649 AACTTTGTTTCAATTATCG
1 AACTTTATTTCAATTATCG
646668 AACTTGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.15, G:0.07, T:0.47
Consensus pattern (21 bp):
AACTTTATTTCAATTATCGTA
Found at i:646715 original size:33 final size:33
Alignment explanation
Indices: 646662--646760 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
646652 TTTGTTTCAA
646662 TTATCGAACTT-GAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
646694 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
* * *
646727 TTATCAAACTTGGAAGTATTTAAGTATTTCAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
646760 T
1 T
646761 ATGTTGAGTT
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 11 0.17
33 52 0.83
ACGTcount: A:0.32, C:0.07, G:0.15, T:0.45
Consensus pattern (33 bp):
TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
Found at i:646789 original size:13 final size:13
Alignment explanation
Indices: 646746--646800 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
646736 TTGGAAGTAT
646746 TTAAGTATTTCAA
1 TTAAGTATTTCAA
* *
646759 TTATGTTGAGTT-AA
1 TTAAG-T-ATTTCAA
646773 TTAAGTATTTCAA
1 TTAAGTATTTCAA
*
646786 TTAAGTATTTGAA
1 TTAAGTATTTCAA
646799 TT
1 TT
646801 TATCGAACTT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
12 3 0.09
13 21 0.62
14 7 0.21
15 3 0.09
ACGTcount: A:0.35, C:0.04, G:0.13, T:0.49
Consensus pattern (13 bp):
TTAAGTATTTCAA
Found at i:647222 original size:15 final size:15
Alignment explanation
Indices: 647197--647253 Score: 69
Period size: 15 Copynumber: 3.6 Consensus size: 15
647187 ATCTGGAATA
*
647197 TTAAAATCGGTTTTT
1 TTAAAACCGGTTTTT
*
647212 TTATAACCGGTTTTT
1 TTAAAACCGGTTTTT
647227 TTAAAAAAACCGGTTTTT
1 TT---AAAACCGGTTTTT
647245 TTAAAACCG
1 TTAAAACCG
647254 AAACCGGTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
15 22 0.61
18 14 0.39
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.44
Consensus pattern (15 bp):
TTAAAACCGGTTTTT
Found at i:647262 original size:21 final size:18
Alignment explanation
Indices: 647216--647250 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
647206 GTTTTTTTAT
647216 AACCGGTTTTTTTAAAAA
1 AACCGGTTTTTTTAAAAA
647234 AACCGGTTTTTTTAAAA
1 AACCGGTTTTTTTAAAA
647251 CCGAAACCGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.40
Consensus pattern (18 bp):
AACCGGTTTTTTTAAAAA
Found at i:647370 original size:15 final size:17
Alignment explanation
Indices: 647344--647375 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
647334 TTCTATGGGA
647344 AAAAACCGGAT-CGGAT
1 AAAAACCGGATCCGGAT
647360 AAAAACC-GATCCGGAT
1 AAAAACCGGATCCGGAT
647376 CGGATTGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 3 0.20
16 12 0.80
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (17 bp):
AAAAACCGGATCCGGAT
Found at i:649022 original size:60 final size:60
Alignment explanation
Indices: 648941--649092 Score: 143
Period size: 60 Copynumber: 2.5 Consensus size: 60
648931 ATTGATCTCT
**
648941 AAACTTTTAAATGTTCAAATTTCATCAGTAAACTATGA-CTATCATTCTAAATTACTCATC
1 AAACTTTTAAATGTTCAAATTTCATCACCAAACTATGACCT-TCATTCTAAATTACTCATC
* * **
649001 AAACTTTTGAATAT-TTC-AATTTCATCTCCAAACTATGACCTTTATTCTAAATTGA-TCCCC
1 AAACTTTT-AA-ATGTTCAAATTTCATCACCAAACTATGACCTTCATTCTAAATT-ACTCATC
** *
649061 AAACTTTTTAAACATTCCAATTTCATC-CCAAA
1 AAAC-TTTTAAATGTTCAAATTTCATCACCAAA
649093 GTATACATAT
Statistics
Matches: 78, Mismatches: 7, Indels: 14
0.79 0.07 0.14
Matches are distributed among these distances:
59 1 0.01
60 54 0.69
61 21 0.27
62 2 0.03
ACGTcount: A:0.36, C:0.22, G:0.04, T:0.38
Consensus pattern (60 bp):
AAACTTTTAAATGTTCAAATTTCATCACCAAACTATGACCTTCATTCTAAATTACTCATC
Found at i:649380 original size:60 final size:59
Alignment explanation
Indices: 649211--649380 Score: 214
Period size: 60 Copynumber: 2.8 Consensus size: 59
649201 CTTGGATGAA
* * * * *
649211 TTTGGGGATGAAATTGGAATATTAAAAGTTCAAGGACCAATTTGGAAGGAGTGTCATAG
1 TTTGGGGATGAAATTAGAATATTAAAAGTTTAAGGACCAATTTAGAATGAGAGTCATAG
* * * *
649270 TTTAGGGATGAAATTAGGATGTTCAAAAGTTTAAGGACTAATTTAGAATGAGAGTCATAG
1 TTTGGGGATGAAATTAGAATATT-AAAAGTTTAAGGACCAATTTAGAATGAGAGTCATAG
* * *
649330 TTTGGGGATGAAATTATAATATTAAAAAGTTTAAGAACCAATTTAAAATGA
1 TTTGGGGATGAAATTAGAATATT-AAAAGTTTAAGGACCAATTTAGAATGA
649381 AGTTTATAAT
Statistics
Matches: 93, Mismatches: 17, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
59 19 0.20
60 74 0.80
ACGTcount: A:0.40, C:0.05, G:0.24, T:0.31
Consensus pattern (59 bp):
TTTGGGGATGAAATTAGAATATTAAAAGTTTAAGGACCAATTTAGAATGAGAGTCATAG
Found at i:649682 original size:2 final size:2
Alignment explanation
Indices: 649675--649706 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
649665 AATACCGGTA
649675 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
649707 TAAAACAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:650228 original size:29 final size:29
Alignment explanation
Indices: 650196--650287 Score: 89
Period size: 30 Copynumber: 3.1 Consensus size: 29
650186 AAATGGATTT
*
650196 AGTTTAGTGA-CAAATTATAAGATTTTAAA
1 AGTTTAGTGACCAAAATATAA-ATTTTAAA
* * * *
650225 AGTTTGGTAACCAAAGTATAAACTTTAAAA
1 AGTTTAGTGACCAAAATATAAA-TTTTAAA
*
650255 AGTTTAGGGACCAAAATAGT-AATTTTAAA
1 AGTTTAGTGACCAAAATA-TAAATTTTAAA
650284 AGTT
1 AGTT
650288 ACTATTGGTT
Statistics
Matches: 51, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
29 19 0.37
30 31 0.61
31 1 0.02
ACGTcount: A:0.45, C:0.07, G:0.15, T:0.34
Consensus pattern (29 bp):
AGTTTAGTGACCAAAATATAAATTTTAAA
Found at i:651052 original size:11 final size:11
Alignment explanation
Indices: 651036--651062 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
651026 TATGCATCGA
651036 TGCACTCTTAG
1 TGCACTCTTAG
651047 TGCACTCTTAG
1 TGCACTCTTAG
651058 TGCAC
1 TGCAC
651063 CGATGCACTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.19, C:0.30, G:0.19, T:0.33
Consensus pattern (11 bp):
TGCACTCTTAG
Found at i:659741 original size:45 final size:46
Alignment explanation
Indices: 659692--659782 Score: 148
Period size: 45 Copynumber: 2.0 Consensus size: 46
659682 GAACATCGAA
* * *
659692 TGCATTTTATGCATCGATGCAC-ATACCATGCATCGATGCACTCAG
1 TGCATTTGATGCATCGATGCACAAGACCATACATCGATGCACTCAG
659737 TGCATTTGATGCATCGATGCACAAGACCATACATCGATGCACTCAG
1 TGCATTTGATGCATCGATGCACAAGACCATACATCGATGCACTCAG
659783 GCTTTTTCAA
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
45 21 0.50
46 21 0.50
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (46 bp):
TGCATTTGATGCATCGATGCACAAGACCATACATCGATGCACTCAG
Found at i:661159 original size:30 final size:30
Alignment explanation
Indices: 661116--661183 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 30
661106 AAGCCTTAGA
* *
661116 AAAATTTGAGGACC-ATTATG-TAATTTTTG
1 AAAAGTTGAGGACCAATT-TGATAATTTTGG
661145 AAAAGTTGAGGGACCAATTTGATAATTTTGG
1 AAAAGTTGA-GGACCAATTTGATAATTTTGG
661176 AAAAGTTG
1 AAAAGTTG
661184 TGAATGGTTG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
29 8 0.24
30 7 0.21
31 19 0.56
ACGTcount: A:0.37, C:0.06, G:0.22, T:0.35
Consensus pattern (30 bp):
AAAAGTTGAGGACCAATTTGATAATTTTGG
Found at i:662340 original size:33 final size:34
Alignment explanation
Indices: 662297--662364 Score: 120
Period size: 33 Copynumber: 2.0 Consensus size: 34
662287 GGGTTATATG
*
662297 AAAAGGGATCTATGAGATCATACAAGAATGTTAT
1 AAAAGGGATCTATGAAATCATACAAGAATGTTAT
662331 AAAA-GGATCTATGAAATCATACAAGAATGTTAT
1 AAAAGGGATCTATGAAATCATACAAGAATGTTAT
662364 A
1 A
662365 CAAGCTACAT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 29 0.88
34 4 0.12
ACGTcount: A:0.47, C:0.09, G:0.18, T:0.26
Consensus pattern (34 bp):
AAAAGGGATCTATGAAATCATACAAGAATGTTAT
Found at i:662561 original size:38 final size:38
Alignment explanation
Indices: 662519--662657 Score: 172
Period size: 38 Copynumber: 3.7 Consensus size: 38
662509 TTCGAGACAT
*
662519 ATGATAGGTCATTCGGGACATAGATGACATCCTTTGGG
1 ATGATAGGTCATTCGGGACACAGATGACATCCTTTGGG
* **
662557 ATGATAGGT-ACTTCGGGACACAGATGATATCCTTTAAG
1 ATGATAGGTCA-TTCGGGACACAGATGACATCCTTTGGG
* * * * *
662595 ATGATAGGTCCTTTGGGACACATATGACATCATTCGGG
1 ATGATAGGTCATTCGGGACACAGATGACATCCTTTGGG
*
662633 ATGATAGGTCATTCGAGACACAGAT
1 ATGATAGGTCATTCGGGACACAGAT
662658 TTCACATGCC
Statistics
Matches: 83, Mismatches: 16, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
37 1 0.01
38 82 0.99
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (38 bp):
ATGATAGGTCATTCGGGACACAGATGACATCCTTTGGG
Found at i:665701 original size:12 final size:12
Alignment explanation
Indices: 665673--665754 Score: 69
Period size: 13 Copynumber: 6.4 Consensus size: 12
665663 TATAAAAACA
665673 AAAAAGAAGAAG
1 AAAAAGAAGAAG
665685 AAAAAAGAAGAAG
1 -AAAAAGAAGAAG
*
665698 AAAAAGAAATAAG
1 AAAAAG-AAGAAG
665711 AAAAAGAA-AA-
1 AAAAAGAAGAAG
*
665721 AATAGAAGAAAAAATAG
1 AA-A-AAG--AAGA-AG
665738 AAAAAGAAGAAG
1 AAAAAGAAGAAG
665750 AAAAA
1 AAAAA
665755 ATAGAAAAAA
Statistics
Matches: 59, Mismatches: 2, Indels: 17
0.76 0.03 0.22
Matches are distributed among these distances:
10 2 0.03
11 3 0.05
12 18 0.31
13 26 0.44
14 2 0.03
15 4 0.07
16 2 0.03
17 2 0.03
ACGTcount: A:0.78, C:0.00, G:0.18, T:0.04
Consensus pattern (12 bp):
AAAAAGAAGAAG
Found at i:665760 original size:12 final size:11
Alignment explanation
Indices: 665672--665765 Score: 72
Period size: 12 Copynumber: 8.4 Consensus size: 11
665662 GTATAAAAAC
665672 AAAAAAGAAGAA
1 AAAAAAGAAG-A
665684 GAAAAAAGAAGA
1 -AAAAAAGAAGA
665696 AGAAAAAGAA-A
1 A-AAAAAGAAGA
*
665707 TAAGAAA-AAGA
1 -AAAAAAGAAGA
665718 AAAAATAGAAGA
1 AAAAA-AGAAGA
665730 AAAAATAG-A-A
1 AAAAA-AGAAGA
*
665740 AAAGAAGAAGA
1 AAAAAAGAAGA
665751 AAAAATAGAA-A
1 AAAAA-AGAAGA
665762 AAAA
1 AAAA
665766 CTTAAAAAAT
Statistics
Matches: 69, Mismatches: 4, Indels: 18
0.76 0.04 0.20
Matches are distributed among these distances:
9 2 0.03
10 12 0.17
11 19 0.28
12 26 0.38
13 10 0.14
ACGTcount: A:0.79, C:0.00, G:0.17, T:0.04
Consensus pattern (11 bp):
AAAAAAGAAGA
Found at i:665774 original size:21 final size:21
Alignment explanation
Indices: 665673--665763 Score: 98
Period size: 21 Copynumber: 4.2 Consensus size: 21
665663 TATAAAAACA
*
665673 AAAAAGAAGAAGAAAAAAGAAG
1 AAAAAGAAGAAGAAAAAA-TAG
*
665695 AAGAAA-AAGAA-ATAAGAAAAAG
1 AA-AAAGAAGAAGA-AA-AAATAG
665717 AAAAA-ATAGAAGAAAAAATAG
1 AAAAAGA-AGAAGAAAAAATAG
665738 AAAAAGAAGAAGAAAAAATAG
1 AAAAAGAAGAAGAAAAAATAG
665759 AAAAA
1 AAAAA
665764 AACTTAAAAA
Statistics
Matches: 62, Mismatches: 1, Indels: 13
0.82 0.01 0.17
Matches are distributed among these distances:
21 34 0.55
22 21 0.34
23 7 0.11
ACGTcount: A:0.78, C:0.00, G:0.18, T:0.04
Consensus pattern (21 bp):
AAAAAGAAGAAGAAAAAATAG
Found at i:665786 original size:52 final size:52
Alignment explanation
Indices: 665686--665785 Score: 125
Period size: 52 Copynumber: 1.9 Consensus size: 52
665676 AAGAAGAAGA
* *
665686 AAAAAGAAGAAGAAAAAGAAATAAGAAAAAGAAAAAATAGAAGAAAAAATAG
1 AAAAAGAAGAAGAAAAAGAAAGAAGAAAAAGAAAAAATAGAAAAAAAAATAG
* *
665738 AAAAAGAAGAAGAAAAA-ATAGAA-AAAAACTTAAAAAAT-GAAAAAAAAA
1 AAAAAGAAGAAGAAAAAGAAAGAAGAAAAA--GAAAAAATAGAAAAAAAAA
665786 AATGAGAGAT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
50 5 0.12
51 13 0.31
52 24 0.57
ACGTcount: A:0.78, C:0.01, G:0.14, T:0.07
Consensus pattern (52 bp):
AAAAAGAAGAAGAAAAAGAAAGAAGAAAAAGAAAAAATAGAAAAAAAAATAG
Found at i:665787 original size:33 final size:33
Alignment explanation
Indices: 665673--665788 Score: 127
Period size: 33 Copynumber: 3.6 Consensus size: 33
665663 TATAAAAACA
*
665673 AAAAAGAAGAAG-AAAAA-AGAAGAAGAAAA-AG
1 AAAAAGAAAAAGAAAAAATAGAAGAA-AAAATAG
665704 AAATAAGAAAAAGAAAAAATAGAAGAAAAAATAG
1 AAA-AAGAAAAAGAAAAAATAGAAGAAAAAATAG
* *
665738 AAAAAGAAGAAGAAAAAATAGAA-AAAAACTTA-
1 AAAAAGAAAAAGAAAAAATAGAAGAAAAA-ATAG
665770 AAAAATGAAAAA-AAAAAAT
1 AAAAA-GAAAAAGAAAAAAT
665789 GAGAGATGCT
Statistics
Matches: 75, Mismatches: 4, Indels: 11
0.83 0.04 0.12
Matches are distributed among these distances:
31 3 0.04
32 25 0.33
33 35 0.47
34 12 0.16
ACGTcount: A:0.78, C:0.01, G:0.15, T:0.07
Consensus pattern (33 bp):
AAAAAGAAAAAGAAAAAATAGAAGAAAAAATAG
Found at i:667050 original size:30 final size:30
Alignment explanation
Indices: 667016--667090 Score: 73
Period size: 30 Copynumber: 2.5 Consensus size: 30
667006 AAATGAATTT
* **
667016 AGTTTAGTGACCAAATTATAAGA-TTTTGAA
1 AGTTTAGTGACCAAAGTATAA-ACTTTAAAA
*
667046 AGTTTTA-TGACTAAAGTATAAACTTTAAAA
1 AG-TTTAGTGACCAAAGTATAAACTTTAAAA
*
667076 AGTTTAGGGACCAAA
1 AGTTTAGTGACCAAA
667091 ATGGTAATTT
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
29 5 0.14
30 27 0.75
31 4 0.11
ACGTcount: A:0.43, C:0.08, G:0.16, T:0.33
Consensus pattern (30 bp):
AGTTTAGTGACCAAAGTATAAACTTTAAAA
Found at i:670417 original size:23 final size:23
Alignment explanation
Indices: 670391--670447 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
670381 ACATTTGTTA
*
670391 ATGTTTATTTAGTGTTCGA-AAAC
1 ATGTTTATTTAGCGTTC-ATAAAC
* *
670414 ATGTTCATTTAGCGTTCATGAAC
1 ATGTTTATTTAGCGTTCATAAAC
*
670437 ATGTTTGTTTA
1 ATGTTTATTTA
670448 TATATTCACG
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
22 1 0.04
23 27 0.96
ACGTcount: A:0.26, C:0.11, G:0.18, T:0.46
Consensus pattern (23 bp):
ATGTTTATTTAGCGTTCATAAAC
Found at i:670703 original size:38 final size:38
Alignment explanation
Indices: 670661--670745 Score: 109
Period size: 38 Copynumber: 2.2 Consensus size: 38
670651 TTGAAAAAAG
670661 TAAACGAACGAGT-GAATAAACGAGCTTGTTCATGAACA
1 TAAACGAACGAGTCG-ATAAACGAGCTTGTTCATGAACA
* * * *
670699 TAAACGAACGAGTCGATAAATGTGCTTGTTCGTGAACT
1 TAAACGAACGAGTCGATAAACGAGCTTGTTCATGAACA
*
670737 TAAATGAAC
1 TAAACGAAC
670746 TGAACAATCC
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
38 40 0.98
39 1 0.02
ACGTcount: A:0.39, C:0.15, G:0.21, T:0.25
Consensus pattern (38 bp):
TAAACGAACGAGTCGATAAACGAGCTTGTTCATGAACA
Found at i:672058 original size:64 final size:64
Alignment explanation
Indices: 671990--672140 Score: 225
Period size: 64 Copynumber: 2.4 Consensus size: 64
671980 CACCCCCATT
* *
671990 TCGAATGCAATTTATGCATCGATGCAC-TGCCATGCATCGATGCACTAAGGATT-TTATGGAAAC
1 TCGAATGCATTTTATGCATCGATGCACATACCATGCATCGATGCACTAAGGATTGTT-T-GAAAC
672053 A
64 A
* * *
672054 TCGAATGCATTTTATGCATCGATGCACATACCATGTATCGATGCACTCAGGCTTGTTTGAAACA
1 TCGAATGCATTTTATGCATCGATGCACATACCATGCATCGATGCACTAAGGATTGTTTGAAACA
672118 TCGAATGCATTTTATGCATCGAT
1 TCGAATGCATTTTATGCATCGAT
672141 TCACCCTTAG
Statistics
Matches: 80, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
64 55 0.69
65 23 0.29
66 2 0.03
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (64 bp):
TCGAATGCATTTTATGCATCGATGCACATACCATGCATCGATGCACTAAGGATTGTTTGAAACA
Found at i:677929 original size:20 final size:21
Alignment explanation
Indices: 677904--677972 Score: 68
Period size: 21 Copynumber: 3.2 Consensus size: 21
677894 TTGTGCATAA
677904 TGCATTGATACACTATGAA-G
1 TGCATTGATACACTATGAAGG
* *
677924 TGCATTGATGCACCCCTATGAATG
1 TGCATTGAT--A-CACTATGAAGG
* *
677948 TGCATCGATACACCATGAAGG
1 TGCATTGATACACTATGAAGG
677969 TGCA
1 TGCA
677973 CCGATGCACT
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
20 9 0.22
21 12 0.30
22 2 0.05
23 8 0.20
24 9 0.22
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (21 bp):
TGCATTGATACACTATGAAGG
Found at i:677967 original size:44 final size:44
Alignment explanation
Indices: 677904--678000 Score: 133
Period size: 44 Copynumber: 2.2 Consensus size: 44
677894 TTGTGCATAA
* * **
677904 TGCATTGATACACTATGAA-GTGCATTGATGCACCCCTATGAATG
1 TGCATCGATACACCATGAAGGTGCACCGATGCACCCCT-TGAATG
*
677948 TGCATCGATACACCATGAAGGTGCACCGATGCACTCCTTGAATG
1 TGCATCGATACACCATGAAGGTGCACCGATGCACCCCTTGAATG
677992 TGCATCGAT
1 TGCATCGAT
678001 GCACTCAGCT
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 32 0.68
45 15 0.32
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.27
Consensus pattern (44 bp):
TGCATCGATACACCATGAAGGTGCACCGATGCACCCCTTGAATG
Found at i:677994 original size:23 final size:23
Alignment explanation
Indices: 677919--678006 Score: 92
Period size: 23 Copynumber: 3.9 Consensus size: 23
677909 TGATACACTA
* *
677919 TGAA-GTGCATTGATGCACCCCT
1 TGAATGTGCATCGATGCACTCCT
* *
677941 ATGAATGTGCATCGAT--ACACCA
1 -TGAATGTGCATCGATGCACTCCT
* *
677963 TGAAGGTGCACCGATGCACTCCT
1 TGAATGTGCATCGATGCACTCCT
677986 TGAATGTGCATCGATGCACTC
1 TGAATGTGCATCGATGCACTC
678007 AGCTGTGCAT
Statistics
Matches: 53, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
21 13 0.25
22 4 0.08
23 27 0.51
24 9 0.17
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (23 bp):
TGAATGTGCATCGATGCACTCCT
Found at i:679585 original size:27 final size:27
Alignment explanation
Indices: 679540--679594 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
679530 ACTCCGAGAG
* *
679540 CTAGCTCTTCACGAGCTCCTCCTGCAC
1 CTAGCTCTTCACGAGCTCCACCTCCAC
*
679567 CTAGCTCTTCTCGTA-CTCCACCTCCAC
1 CTAGCTCTTCACG-AGCTCCACCTCCAC
679594 C
1 C
679595 GGCACCAGCT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 23 0.96
28 1 0.04
ACGTcount: A:0.15, C:0.47, G:0.11, T:0.27
Consensus pattern (27 bp):
CTAGCTCTTCACGAGCTCCACCTCCAC
Found at i:679654 original size:15 final size:15
Alignment explanation
Indices: 679634--679663 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
679624 TTCAACAGCT
679634 TATGCAAGATATTGA
1 TATGCAAGATATTGA
679649 TATGCAAGATATTGA
1 TATGCAAGATATTGA
679664 CGATCACGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.07, G:0.20, T:0.33
Consensus pattern (15 bp):
TATGCAAGATATTGA
Found at i:680758 original size:64 final size:65
Alignment explanation
Indices: 680659--680779 Score: 201
Period size: 64 Copynumber: 1.9 Consensus size: 65
680649 TTTTATGCTG
680659 CATCGATGCACTAAGGATTTTATGGAAACATCGAATGCATTTTATGCATCGATGCACAAACCATA
1 CATCGATGCACTAAGGATTTTATGGAAACATCGAATGCATTTTATGCATCGATGCACAAACCATA
* *
680724 CATCGATGCACTCAGGCTTGTT-T-GAAACATCGAATGCATTTTATGCATCGATGCAC
1 CATCGATGCACTAAGGATT-TTATGGAAACATCGAATGCATTTTATGCATCGATGCAC
680780 CCTTAGTGCA
Statistics
Matches: 53, Mismatches: 2, Indels: 3
0.91 0.03 0.05
Matches are distributed among these distances:
64 33 0.62
65 18 0.34
66 2 0.04
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.29
Consensus pattern (65 bp):
CATCGATGCACTAAGGATTTTATGGAAACATCGAATGCATTTTATGCATCGATGCACAAACCATA
Found at i:685603 original size:60 final size:60
Alignment explanation
Indices: 685457--685603 Score: 154
Period size: 60 Copynumber: 2.5 Consensus size: 60
685447 AACAAACTAA
* * ***** * *
685457 ATAGTCGGGTGACTATTTTGTAACTTTTAATAGTCGGGTGACTCAACCAAGCAACACCCT
1 ATAGTCGAGAGACTATTTTGTAACTTTTAATAGTCAAACCACTCAACAAAACAACACCCT
* * *
685517 ATAGTCGA-AGAGTCATTTTATAACTTTTAATAGTCAAACCACTCAACAAAACATCACCCT
1 ATAGTCGAGAGACT-ATTTTGTAACTTTTAATAGTCAAACCACTCAACAAAACAACACCCT
685577 ATAGTCGAGAGACTATTTGTGT-ACTTT
1 ATAGTCGAGAGACTATTT-TGTAACTTT
685604 ACCCCCAATA
Statistics
Matches: 70, Mismatches: 14, Indels: 6
0.78 0.16 0.07
Matches are distributed among these distances:
59 3 0.04
60 61 0.87
61 6 0.09
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (60 bp):
ATAGTCGAGAGACTATTTTGTAACTTTTAATAGTCAAACCACTCAACAAAACAACACCCT
Found at i:687091 original size:60 final size:59
Alignment explanation
Indices: 686993--687175 Score: 194
Period size: 60 Copynumber: 3.1 Consensus size: 59
686983 CACATGTCCT
* * *
686993 CAAAGTATGAC-TT-ATTTTAAATTAGTC-CCTAAACTTTTAAATATTTCAATTTCATCC
1 CAAACTATGACATTCATTCTAAATTAGTCTCC-AAACTTTTAAACATTTCAATTTCATCC
* * * *
687050 CTAAACTATGA-TTATCATTCTAAATTAGTCTTCAAAGTTTTAAGCATTTCAATTTCATCCC
1 C-AAACTATGACAT-TCATTCTAAATTAGTCTCCAAACTTTTAAACATTTCAATTTCAT-CC
* * * *
687111 CAAACTATGACATTCATTCTAAATTGGTGTCCAAACTTTTTGAACATTTCAATTTTATCC
1 CAAACTATGACATTCATTCTAAATTAGTCTCCAAAC-TTTTAAACATTTCAATTTCATCC
687171 CAAAC
1 CAAAC
687176 GGTACGTATA
Statistics
Matches: 104, Mismatches: 14, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
57 1 0.01
58 9 0.09
59 1 0.01
60 70 0.67
61 23 0.22
ACGTcount: A:0.34, C:0.20, G:0.07, T:0.40
Consensus pattern (59 bp):
CAAACTATGACATTCATTCTAAATTAGTCTCCAAACTTTTAAACATTTCAATTTCATCC
Found at i:692437 original size:30 final size:30
Alignment explanation
Indices: 692401--692471 Score: 115
Period size: 30 Copynumber: 2.4 Consensus size: 30
692391 AATGAAAGTT
692401 TAGGTACTAAAACGGATCAAACTGATAGTA
1 TAGGTACTAAAACGGATCAAACTGATAGTA
* * *
692431 TAGGTACTAAAACGTATCAAATTGATAGTT
1 TAGGTACTAAAACGGATCAAACTGATAGTA
692461 TAGGTACTAAA
1 TAGGTACTAAA
692472 TTCATTTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.42, C:0.11, G:0.18, T:0.28
Consensus pattern (30 bp):
TAGGTACTAAAACGGATCAAACTGATAGTA
Found at i:694195 original size:22 final size:22
Alignment explanation
Indices: 694170--694466 Score: 393
Period size: 22 Copynumber: 13.6 Consensus size: 22
694160 CTATTTTAAA
*
694170 ATTTATTTAAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
*
694192 ATTTATTTTAAAATATGGA--A
1 ATTTATTTTAAAATATGGATTG
** *
694212 AAATATATTAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
*
694234 ATTTATTTAAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
*
694256 ATTTATTTAAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
* ***
694278 ATTTATTTTAAAATATGAAAAA
1 ATTTATTTTAAAATATGGATTG
*
694300 ATTTATTTAAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
* ***
694322 ATTTATTTTAAAATATGAAAAA
1 ATTTATTTTAAAATATGGATTG
694344 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
694366 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
*
694388 ATTTATTTTAAAATATGTATTG
1 ATTTATTTTAAAATATGGATTG
**
694410 ATTTATTTTAAAATATGGA-AA
1 ATTTATTTTAAAATATGGATTG
694431 ATTTTATTTTAAAATATGGATTG
1 A-TTTATTTTAAAATATGGATTG
694454 ATTTATTTTAAAA
1 ATTTATTTTAAAA
694467 AATTTATTAT
Statistics
Matches: 236, Mismatches: 35, Indels: 8
0.85 0.13 0.03
Matches are distributed among these distances:
20 16 0.07
21 1 0.00
22 218 0.92
23 1 0.00
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (22 bp):
ATTTATTTTAAAATATGGATTG
Found at i:694215 original size:44 final size:44
Alignment explanation
Indices: 694167--694466 Score: 451
Period size: 44 Copynumber: 6.9 Consensus size: 44
694157 AATCTATTTT
694167 AAAATTTATTTAAAAATATGGATTGATTTATTTTAAAATATGGA
1 AAAATTTATTTAAAAATATGGATTGATTTATTTTAAAATATGGA
* *
694211 AAAATATA-TT-AAAATATGGATTGATTTATTTAAAAATATGGA
1 AAAATTTATTTAAAAATATGGATTGATTTATTTTAAAATATGGA
*** *
694253 TTGATTTATTTAAAAATATGGATTGATTTATTTTAAAATATGAA
1 AAAATTTATTTAAAAATATGGATTGATTTATTTTAAAATATGGA
*
694297 AAAATTTATTTAAAAATATGGATTGATTTATTTTAAAATATGAA
1 AAAATTTATTTAAAAATATGGATTGATTTATTTTAAAATATGGA
*
694341 AAAATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGA
1 AAAATTTATTTAAAAATATGGATTGATTTATTTTAAAATATGGA
*** * *
694385 TTGATTTATTTTAAAATATGTATTGATTTATTTTAAAATATGGA
1 AAAATTTATTTAAAAATATGGATTGATTTATTTTAAAATATGGA
* *
694429 AAATTTTATTTTAAAATATGGATTGATTTATTTTAAAA
1 AAAATTTATTTAAAAATATGGATTGATTTATTTTAAAA
694467 AATTTATTAT
Statistics
Matches: 232, Mismatches: 22, Indels: 4
0.90 0.09 0.02
Matches are distributed among these distances:
42 35 0.15
43 4 0.02
44 193 0.83
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.46
Consensus pattern (44 bp):
AAAATTTATTTAAAAATATGGATTGATTTATTTTAAAATATGGA
Done.