Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001502.1 Hibiscus syriacus cultivar Beakdansim tig00002946_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: 82593
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.34
Found at i:3023 original size:28 final size:28
Alignment explanation
Indices: 2987--3141 Score: 123
Period size: 28 Copynumber: 5.2 Consensus size: 28
2977 AAAAAATATA
*
2987 ATATAGTTTTTAAAACAATTTTAAAAAT
1 ATATAGTTTTTAAAATAATTTTAAAAAT
*
3015 ATATAG-TTTTAAGATAATTTTGAAAAATAT
1 ATATAGTTTTTAAAATAATTTT--AAAA-AT
*
3045 AATATAAATTTTTAAAAATATAGTTTTAAAAACGT
1 -ATAT-AGTTTTT-AAAATA-A-TTTTAAAAA--T
* * * *
3080 AATATATTTTTTAAAATGATTTTGAAAAC
1 -ATATAGTTTTTAAAATAATTTTAAAAAT
* *
3109 ATATAGTTTTTAAAATAATTTTGAAAAC
1 ATATAGTTTTTAAAATAATTTTAAAAAT
3137 ATATA
1 ATATA
3142 ATATATAGTT
Statistics
Matches: 106, Mismatches: 10, Indels: 22
0.77 0.07 0.16
Matches are distributed among these distances:
27 13 0.12
28 37 0.35
29 4 0.04
30 2 0.02
31 12 0.11
32 2 0.02
33 10 0.09
34 15 0.14
35 7 0.07
36 4 0.04
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.43
Consensus pattern (28 bp):
ATATAGTTTTTAAAATAATTTTAAAAAT
Found at i:3083 original size:94 final size:97
Alignment explanation
Indices: 2985--3158 Score: 264
Period size: 94 Copynumber: 1.8 Consensus size: 97
2975 TTAAAAAATA
* *
2985 TAATATAGTTTTTAAAACAATTTTAAAAATATATAG-TTTTAAGATAATTTTGAAAA-ATATAAT
1 TAATATAGTTTTTAAAACAATTTTAAAAACATATAGTTTTTAAAATAATTTTGAAAACATATAAT
3048 ATA-AATTTTTAAAAATATAGTTTTAAAAACG
66 ATATAATTTTTAAAAATATAGTTTTAAAAACG
* ** *
3079 TAATATATTTTTTAAAATGATTTTGAAAACATATAGTTTTTAAAATAATTTTGAAAACATATAAT
1 TAATATAGTTTTTAAAACAATTTTAAAAACATATAGTTTTTAAAATAATTTTGAAAACATATAAT
*
3144 ATATAGTTTTTAAAA
66 ATATAATTTTTAAAA
3159 TAATATATAG
Statistics
Matches: 70, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
94 31 0.44
95 19 0.27
96 10 0.14
97 10 0.14
ACGTcount: A:0.48, C:0.02, G:0.06, T:0.43
Consensus pattern (97 bp):
TAATATAGTTTTTAAAACAATTTTAAAAACATATAGTTTTTAAAATAATTTTGAAAACATATAAT
ATATAATTTTTAAAAATATAGTTTTAAAAACG
Found at i:3161 original size:19 final size:19
Alignment explanation
Indices: 3139--3178 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
3129 TTGAAAACAT
3139 ATAATATATAGTTTTTAAA
1 ATAATATATAGTTTTTAAA
3158 ATAATATATAGTTTTTAAA
1 ATAATATATAGTTTTTAAA
3177 AT
1 AT
3179 GGTTTTTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (19 bp):
ATAATATATAGTTTTTAAA
Found at i:4592 original size:16 final size:18
Alignment explanation
Indices: 4558--4593 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
4548 TATTTTAGAT
4558 TTCCTTTTATTTATTTAA
1 TTCCTTTTATTTATTTAA
4576 TTCCTTTT-TTT-TTTAA
1 TTCCTTTTATTTATTTAA
4592 TT
1 TT
4594 TTTCTTCAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.39
17 3 0.17
18 8 0.44
ACGTcount: A:0.17, C:0.11, G:0.00, T:0.72
Consensus pattern (18 bp):
TTCCTTTTATTTATTTAA
Found at i:17185 original size:149 final size:149
Alignment explanation
Indices: 17014--17282 Score: 333
Period size: 149 Copynumber: 1.8 Consensus size: 149
17004 ATTATTAGGA
* * ** ** ** * *
17014 CCTTTTTTTTATCATTTCAAATTTATATCTACAGTTATCAATATTATTATGT-ACAAGTTTTGAT
1 CCTTTTTTTAATCATTTCAAATTTAAATAGACAAATATCAATATTAACATATCA-AAGTTTCGAT
* * *
17078 AATTTCGATTTCCATCCTATCTTCAACGGTAATATACATAAAGGAATCGATATTATTATAACATA
65 AATTTCGATTCCCAACCTATCTTCAACGGTAATATACACAAAGGAATCGATATTATTATAACATA
17143 TAGATATTTACGCTTTCGAC
130 TAGATATTTACGCTTTCGAC
* * *
17163 CCTTTTTTTAATCATTTTAAATTTAAATAGATAAATATCGATATTAACATATCAAAGTTTCGATA
1 CCTTTTTTTAATCATTTCAAATTTAAATAGACAAATATCAATATTAACATATCAAAGTTTCGATA
* * * * *
17228 TTTTCGATTCCCAACTTATCTTCAACGGTATTATACACAAATGTATCGATATTAT
66 ATTTCGATTCCCAACCTATCTTCAACGGTAATATACACAAAGGAATCGATATTAT
17283 AAAATAACGT
Statistics
Matches: 98, Mismatches: 21, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
149 97 0.99
150 1 0.01
ACGTcount: A:0.34, C:0.15, G:0.08, T:0.42
Consensus pattern (149 bp):
CCTTTTTTTAATCATTTCAAATTTAAATAGACAAATATCAATATTAACATATCAAAGTTTCGATA
ATTTCGATTCCCAACCTATCTTCAACGGTAATATACACAAAGGAATCGATATTATTATAACATAT
AGATATTTACGCTTTCGAC
Found at i:18347 original size:18 final size:18
Alignment explanation
Indices: 18321--18373 Score: 88
Period size: 18 Copynumber: 2.9 Consensus size: 18
18311 TGAATATTTA
*
18321 TCCCAAAGGACCACTAAG
1 TCCCGAAGGACCACTAAG
*
18339 TCCCGAAGGACCACTATG
1 TCCCGAAGGACCACTAAG
18357 TCCCGAAGGACCACTAA
1 TCCCGAAGGACCACTAA
18374 TAATCGCTCG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.34, C:0.34, G:0.19, T:0.13
Consensus pattern (18 bp):
TCCCGAAGGACCACTAAG
Found at i:18637 original size:2 final size:2
Alignment explanation
Indices: 18630--18683 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
18620 TATAACATTA
18630 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
18672 AT AT AT AT AT AT
1 AT AT AT AT AT AT
18684 GCATGTGCAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19091 original size:63 final size:63
Alignment explanation
Indices: 18995--19134 Score: 178
Period size: 63 Copynumber: 2.2 Consensus size: 63
18985 CTTAACGGGT
* * *
18995 GTATTGATACACTACCTGTGTTTCGGTACCCAAATTACATTCG-AAGTTTTCA-TTCTAAAGGGG
1 GTATCGATACACTACCTGTGTATCGATACCCAAATTACATTCGAAAGTTTTCACTTC--AAGGGG
* *
19058 GTATCGATACACTGCCTAG-GTATCGATACCCAAATTACATTCGAAATTTTTCAGCTTCAAGGGG
1 GTATCGATACACTACCT-GTGTATCGATACCCAAATTACATTCGAAAGTTTTCA-CTTCAAGGGG
19122 GTATCGATACACT
1 GTATCGATACACT
19135 CATGAAGGTA
Statistics
Matches: 68, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
63 37 0.54
64 28 0.41
66 3 0.04
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.32
Consensus pattern (63 bp):
GTATCGATACACTACCTGTGTATCGATACCCAAATTACATTCGAAAGTTTTCACTTCAAGGGG
Found at i:19301 original size:160 final size:160
Alignment explanation
Indices: 19037--19517 Score: 899
Period size: 160 Copynumber: 3.0 Consensus size: 160
19027 AATTACATTC
* * *
19037 GAAGTTTTCATTCTAAAGGGGGTATCGATACACTGCCTAGGTATCGATACCCAAATTACATTCGA
1 GAAGTTTTCATTTTAAAGGGGGTATTGATACACTGCCTAGGTATCGATACCCAAATTACATTCAA
*
19102 AATTTTTCAGCTTCAAGGGGGTATCGATACACTCATGAAGGTATCAATACCCTTTTGAATATTTC
66 AATTTTTAAGCTTCAAGGGGGTATCGATACACTCATGAAGGTATCAATACCCTTTTGAATATTTC
19167 CTGAATTTTACCGTGGATGTATTGGTACCT
131 CTGAATTTTACCGTGGATGTATTGGTACCT
19197 GAAGTTTTCATTTTAAAGGGGGTATTGATACACTGCCTAGGTATCGATACCCAAATTACATTCAA
1 GAAGTTTTCATTTTAAAGGGGGTATTGATACACTGCCTAGGTATCGATACCCAAATTACATTCAA
19262 AATTTTTAAGCTTCAAGGGGGTATCGATACACTCATGAAGGTATCAATACCCTTTTGAATATTTC
66 AATTTTTAAGCTTCAAGGGGGTATCGATACACTCATGAAGGTATCAATACCCTTTTGAATATTTC
19327 CTGAATTTTACCGTGGATGTATTGGTACCT
131 CTGAATTTTACCGTGGATGTATTGGTACCT
19357 GAAGTTTTCATTTTAAAGGGGGTATTGATACACTGCCTAGGTATCGATACCCAAATTACATTCAA
1 GAAGTTTTCATTTTAAAGGGGGTATTGATACACTGCCTAGGTATCGATACCCAAATTACATTCAA
* *
19422 AATTTTTAAGCTTCAAGGGGGTATCGATACACTCATGAAGGCATCGATACCCTTTTGAATATTTC
66 AATTTTTAAGCTTCAAGGGGGTATCGATACACTCATGAAGGTATCAATACCCTTTTGAATATTTC
*
19487 CTGAATTTTACCCTGGATGTATTGGTACCT
131 CTGAATTTTACCGTGGATGTATTGGTACCT
19517 G
1 G
19518 TTGAATGTTT
Statistics
Matches: 314, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
160 314 1.00
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (160 bp):
GAAGTTTTCATTTTAAAGGGGGTATTGATACACTGCCTAGGTATCGATACCCAAATTACATTCAA
AATTTTTAAGCTTCAAGGGGGTATCGATACACTCATGAAGGTATCAATACCCTTTTGAATATTTC
CTGAATTTTACCGTGGATGTATTGGTACCT
Found at i:25535 original size:18 final size:18
Alignment explanation
Indices: 25506--25564 Score: 64
Period size: 18 Copynumber: 3.3 Consensus size: 18
25496 GCCCATGTAT
*
25506 CCACTAAATCCCGAAGGA
1 CCACTAAGTCCCGAAGGA
* *
25524 CTACTAAGTCCCGAAAGA
1 CCACTAAGTCCCGAAGGA
* * *
25542 CCACTATGTCTCGAAGAA
1 CCACTAAGTCCCGAAGGA
25560 CCACT
1 CCACT
25565 GTCCATATTA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.36, C:0.32, G:0.15, T:0.17
Consensus pattern (18 bp):
CCACTAAGTCCCGAAGGA
Found at i:26197 original size:63 final size:64
Alignment explanation
Indices: 26112--26250 Score: 178
Period size: 63 Copynumber: 2.2 Consensus size: 64
26102 TTTTCGGGCA
* *
26112 TATCGATACACTACCTGCGTATCGGTACCCAAATTAGATTCG-AAGTTTT-C-ATTTAAAAGGGG
1 TATCGATACACTACCTGCGTATCGATACCCAAATTACATTCGAAAGTTTTCCGATTT--AAGGGG
26174 G
64 G
* * *
26175 TATCGATACACTGCCTAG-GTATCGATACCCAAATTACATTCGAAATTTTTCCGCTTTAAGGGGG
1 TATCGATACACTACCT-GCGTATCGATACCCAAATTACATTCGAAAGTTTTCCGATTTAAGGGGG
26239 TATCGATACACT
1 TATCGATACACT
26251 CATGAAGGTA
Statistics
Matches: 67, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
63 37 0.55
64 26 0.39
65 1 0.01
66 3 0.04
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (64 bp):
TATCGATACACTACCTGCGTATCGATACCCAAATTACATTCGAAAGTTTTCCGATTTAAGGGGG
Found at i:35184 original size:21 final size:21
Alignment explanation
Indices: 35158--35203 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
35148 TCTTCAACGG
35158 TATTATACACA-AAGGTATCGA
1 TATTATACA-ATAAGGTATCGA
*
35179 TATTATACAATAATGTATCGA
1 TATTATACAATAAGGTATCGA
35200 TATT
1 TATT
35204 TAATATTACG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 1 0.04
21 22 0.96
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.37
Consensus pattern (21 bp):
TATTATACAATAAGGTATCGA
Found at i:35990 original size:262 final size:262
Alignment explanation
Indices: 35471--38015 Score: 3349
Period size: 262 Copynumber: 9.8 Consensus size: 262
35461 TGTTAACAAC
* * * *
35471 TTAACATTACAAGTTGCAACTTATTTCATTTAGAACTGTGATATTATTGGTCACAATCGTATCTA
1 TTAACATTACAAGTCGCAACTTATTTCATTTAGAACCGTGATATTATTGGGCACAACCGTATCTA
* * * * *
35536 TATAACAAATCATAAAACTATATGCTCTTAACTTATTTTATTATCATGGGAAACTCCAAGGCTCC
66 TATACCAAATCATAAAACTTTGTGCTCTTAACTTATTTTATTATCGTGGGGAACTCCAAGGCTCC
* *
35601 A-----T----CTTTCATAATATTTTAGACGCAATCACTTTTATTTTTTAAAATAATAATATTCC
131 ATCGGCTAAAACTTTCATAATATTTTAGGCGCAATCACTTTTATTTTTTAAAATAATAATATTTC
* * * * * * * *
35657 ATATTACAACATGTTTTCTTA-GGTGGCCATAACATTCTAGGCACAATCTATTATATTGATACAC
196 AGATTGCAACATGCTTTCTTATGG-GGCCATGACATTCTGGGCGCAATCTATTCTATTAATACAC
35721 ATG
260 ATG
* * * *
35724 TTAACATTACAAGTCGCAACCTATTTCATTTAGAATCATGATATTATTGGGCACGACCGTATCTA
1 TTAACATTACAAGTCGCAACTTATTTCATTTAGAACCGTGATATTATTGGGCACAACCGTATCTA
* **
35789 TATACAAAATCATAAAACTTTGTGCTCTTAACTTATTTTATTATCGTGGGGTCCTCCAAGGCTCC
66 TATACCAAATCATAAAACTTTGTGCTCTTAACTTATTTTATTATCGTGGGGAACTCCAAGGCTCC
* * *
35854 ATCGGCTAAAAGTTTCATAATATTTTAGGCGTAATCACTTTTATTTTTTAAAATAATAATATTTA
131 ATCGGCTAAAACTTTCATAATATTTTAGGCGCAATCACTTTTATTTTTTAAAATAATAATATTTC
* * * *
35919 AAATTGCAACATGCTTTCTTATGGGGCCATAACCTTCTGGGTGCAATCTATTCTATTAATACACA
196 AGATTGCAACATGCTTTCTTATGGGGCCATGACATTCTGGGCGCAATCTATTCTATTAATACACA
35984 TG
261 TG
* ***
35986 TTAACATTACAAGTCTCAACTTATTTCATTTAGAACCGTGATATTATTGGTTGCAACCGTATCTA
1 TTAACATTACAAGTCGCAACTTATTTCATTTAGAACCGTGATATTATTGGGCACAACCGTATCTA
* * * * *
36051 -ATACCAAATCATAAAACTTTGTGCTCTTAACCTATTTTATTTTTGTAGGGGAATTCCAATGCTC
66 TATACCAAATCATAAAACTTTGTGCTCTTAACTTATTTTATTATCGT-GGGGAACTCCAAGGCTC
*
36115 CATCGGATAAAACTTTCATAATA-TTTAGGCGCAATCACTTTTATTTTTTGAAAATAATAATATT
130 CATCGGCTAAAACTTTCATAATATTTTAGGCGCAATCACTTTTATTTTTT-AAAATAATAATATT
* * *
36179 TCAGATTGTAACATGTTTTCTTATGGGGCCATGACATTCTGGGCGCAATCTATTATATTAATACA
194 TCAGATTGCAACATGCTTTCTTATGGGGCCATGACATTCTGGGCGCAATCTATTCTATTAATACA
36244 CATG
259 CATG
** * *** **
36248 TT-AC---AC--GTCGCAACTTATTTCATTTAGAATTGTGATATTATTTGGTGTAATTGTATCTA
1 TTAACATTACAAGTCGCAACTTATTTCATTTAGAACCGTGATATTATTGGGCACAACCGTATCTA
* * *
36307 TATACTAAGTCATAAAACTTTGTGCTCTTAACTTATTTTATTATCGTGGGGACCTCCAAGGCTCC
66 TATACCAAATCATAAAACTTTGTGCTCTTAACTTATTTTATTATCGTGGGGAACTCCAAGGCTCC
36372 A-CTGGCTAAAACTTTCATAATATTTTAGGCGCAATCACTTTTATTTTTTTAAAATAATAATATT
131 ATC-GGCTAAAACTTTCATAATATTTTAGGCGCAATCACTTTTA-TTTTTTAAAATAATAATATT
* * * * * **
36436 TCATATTACAACATACTTTCTTATGGGGCCATGACATTTTGGGCTCAAAATATTCTATTAATACA
194 TCAGATTGCAACATGCTTTCTTATGGGGCCATGACATTCTGGGCGCAATCTATTCTATTAATACA
36501 CATG
259 CATG
* * * * * *
36505 TTAACATTACAAGTCACAACTTATTTCATTTAGAACCATTATATTATTGGTCGCAACCATATCTA
1 TTAACATTACAAGTCGCAACTTATTTCATTTAGAACCGTGATATTATTGGGCACAACCGTATCTA
* *
36570 TATACCAACTCATAAAACTTTGTGCTCTTAACCTATTTTATTATCGTGGGGAACTCCAAGGCTCC
66 TATACCAAATCATAAAACTTTGTGCTCTTAACTTATTTTATTATCGTGGGGAACTCCAAGGCTCC
36635 ATCGGCTAAAACTTTCATAATATTTTAGGCGCAATCACTTTTATTTTTTAAAATAATAATATTTC
131 ATCGGCTAAAACTTTCATAATATTTTAGGCGCAATCACTTTTATTTTTTAAAATAATAATATTTC
* * * *
36700 AGATTGTAGCATGTTTTCTTATGGGGCCATGACATTCTGGGCGCAATCTATTATATTAATACACA
196 AGATTGCAACATGCTTTCTTATGGGGCCATGACATTCTGGGCGCAATCTATTCTATTAATACACA
36765 TG
261 TG
** * *** *
36767 ------TTACAAGTCGCAACTTATTTCATTTAGAATTGTGATATTATTTGGTGTAACTGTATCTA
1 TTAACATTACAAGTCGCAACTTATTTCATTTAGAACCGTGATATTATTGGGCACAACCGTATCTA
* *
36826 TATACTAAATCATAAAACTTTGTGCTCTTAACTTATTTTATTATCGTGGGGACCTCCAAGGCTCC
66 TATACCAAATCATAAAACTTTGTGCTCTTAACTTATTTTATTATCGTGGGGAACTCCAAGGCTCC
* *
36891 ACCGGCTAAAACTTTCATAATATTTTAGGCGCAATCATTTTTATTTTTTAAAATAATAATATTTC
131 ATCGGCTAAAACTTTCATAATATTTTAGGCGCAATCACTTTTATTTTTTAAAATAATAATATTTC
* * * * * **
36956 AGATTACAACATACTTTCTTATGGGGCCATAACATTTTGGGCTCAAAATATTCTATTAATACACA
196 AGATTGCAACATGCTTTCTTATGGGGCCATGACATTCTGGGCGCAATCTATTCTATTAATACACA
37021 TG
261 TG
* * * *
37023 TTAACATTACAAGTCACAACTTATTTCATTTAGAACCGTTATATTATTGGTCGCAACCGTATCTA
1 TTAACATTACAAGTCGCAACTTATTTCATTTAGAACCGTGATATTATTGGGCACAACCGTATCTA
* *
37088 TATACCAACTCATAAAACTTTGTGCTCTTAACCTATTTTATTATCGTGGGGAACTCCAAGGCTCC
66 TATACCAAATCATAAAACTTTGTGCTCTTAACTTATTTTATTATCGTGGGGAACTCCAAGGCTCC
37153 ATCGGCTAAAACTTTCATAATATTTTAGGCGCAATCACTTTTATTTTTTAAAATAATAATATTTC
131 ATCGGCTAAAACTTTCATAATATTTTAGGCGCAATCACTTTTATTTTTTAAAATAATAATATTTC
* * * * *
37218 AGATTGCAACATGTTTTCTTA-GGGGGCGTGACATTATGGGCGTAATCTATTCT-TCTAATACAC
196 AGATTGCAACATGCTTTCTTATGGGGCCATGACATTCTGGGCGCAATCTATTCTAT-TAATACAC
37281 ATG
260 ATG
* * * *** *
37284 TTAACAATACAAGTCGCAACTTATTTCATTTAGAACTGTAATATTATTGGGTGTAACTGTATCTA
1 TTAACATTACAAGTCGCAACTTATTTCATTTAGAACCGTGATATTATTGGGCACAACCGTATCTA
* * * *
37349 TATACCAAATCATAAAAC--TGTGTTCTTAACTTATTTTATTAGCTTGGGGAACTCCAAGGTTCC
66 TATACCAAATCATAAAACTTTGTGCTCTTAACTTATTTTATTATCGTGGGGAACTCCAAGGCTCC
** * **
37412 ATCGAATAAAACTTTTATAATATTTTAGGCATAATCACTTTTATTTTTTAAAATAATAATATTTC
131 ATCGGCTAAAACTTTCATAATATTTTAGGCGCAATCACTTTTATTTTTTAAAATAATAATATTTC
* * * * * * ** *
37477 ATATTGCTACGTGCTTTCTTAGGGGGGTCATGACATTTTGGGCATAATCTATTAC-ATTAATATA
196 AGATTGCAACATGCTTTCTTA-TGGGGCCATGACATTCTGGGCGCAATCTATT-CTATTAATACA
37541 CATG
259 CATG
* * * * * *
37545 TTAACATTACAAGTCACAACTTATTTCATTTAGAACCATGATAATATTGGTCGCAACAGTATCTA
1 TTAACATTACAAGTCGCAACTTATTTCATTTAGAACCGTGATATTATTGGGCACAACCGTATCTA
37610 TATACCAAATCATAAAACTTTGTGCTCTTAACTTATTTTATTATCGTGGGGAACTCCAAGGCTCC
66 TATACCAAATCATAAAACTTTGTGCTCTTAACTTATTTTATTATCGTGGGGAACTCCAAGGCTCC
* * *
37675 ATCGGCTAAAACTTTCATAATATTTTAGGCGCAATCACTTTTATTTTTGAAAATAATAATGTTCC
131 ATCGGCTAAAACTTTCATAATATTTTAGGCGCAATCACTTTTATTTTTTAAAATAATAATATTTC
** *
37740 AGATTTTAACATGCTTTCTTA-GGGGACTATGACATTCTGGGCGCAATCTATTCTATTAATACAC
196 AGATTGCAACATGCTTTCTTATGGGG-CCATGACATTCTGGGCGCAATCTATTCTATTAATACAC
37804 ATG
260 ATG
** * * * *
37807 TTAACATTACAAGTCGCAACTTATTTCATTTA-AAGCTTTGATATTATTTGTCGCAACCGTATCA
1 TTAACATTACAAGTCGCAACTTATTTCATTTAGAA-CCGTGATATTATTGGGCACAACCGTATCT
* * *
37871 ATATACCAAATTATAAAACTTTGTGCTCTTAACTTATTTTATTATCGT-GAGAACTCCAAGGATC
65 ATATACCAAATCATAAAACTTTGTGCTCTTAACTTATTTTATTATCGTGGGGAACTCCAAGGCTC
* * * * * *
37935 TATCAGCTAAAACTTTCATAATATTTTAGGCCCAATCACTTTTATTTGTTAAAATAATACT-GTT
130 CATCGGCTAAAACTTTCATAATATTTTAGGCGCAATCACTTTTATTTTTTAAAATAATAATATTT
37999 CAGATTGCAACATGCTT
195 CAGATTGCAACATGCTT
38016 CTGGAACTTA
Statistics
Matches: 2007, Mismatches: 246, Indels: 71
0.86 0.11 0.03
Matches are distributed among these distances:
253 115 0.06
255 1 0.00
256 307 0.15
257 136 0.07
258 11 0.01
259 117 0.06
260 17 0.01
261 365 0.18
262 678 0.34
263 259 0.13
264 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (262 bp):
TTAACATTACAAGTCGCAACTTATTTCATTTAGAACCGTGATATTATTGGGCACAACCGTATCTA
TATACCAAATCATAAAACTTTGTGCTCTTAACTTATTTTATTATCGTGGGGAACTCCAAGGCTCC
ATCGGCTAAAACTTTCATAATATTTTAGGCGCAATCACTTTTATTTTTTAAAATAATAATATTTC
AGATTGCAACATGCTTTCTTATGGGGCCATGACATTCTGGGCGCAATCTATTCTATTAATACACA
TG
Found at i:36695 original size:519 final size:520
Alignment explanation
Indices: 35471--37993 Score: 3603
Period size: 518 Copynumber: 4.9 Consensus size: 520
35461 TGTTAACAAC
** * * *
35471 TTAACATTACAAGTTGCAACTTATTTCATTTAGAACTGTGATATTATTGGTCACAATCGTATCTA
1 TTAACATTACAAGTCACAACTTATTTCATTTAGAACCGTGATATTATTGGTCGCAACCGTATCTA
* * * * * *
35536 TATAACAAATCATAAAACTATATGCTCTTAACTTATTTTATTATCATGGGAAACTCCAAGGCTCC
66 TATACCAAATCATAAAACTTTGTGCTCTTAACCTATTTTATTATCGTGGGGAACTCCAAGGCTCC
* *
35601 A-----T----CTTTCATAATATTTTAGACGCAATCACTTTTATTTTTTAAAATAATAATATTCC
131 ATCGGCTAAAACTTTCATAATATTTTAGGCGCAATCACTTTTATTTTTTAAAATAATAATATTTC
* ** * * * *
35657 ATATTACAACATGTTTTCTTAGGTGGCCATAACATTCTAGGCACAATCTATTATATTGATACACA
196 AGATTGTAACATGTTTTCTTAGG-GGCCATGACATTCTGGGCGCAATCTATTATATTAATACACA
* ** * *
35722 TGTTAACATTACAAGTCGCAACCTATTTCATTTAGAATCATGATATTA-TTGG-GCACGACCGTA
260 TGTTAAC--TAC-AGTCGCAACTTATTTCATTTAGAATTGTGATATTATTTGGTGTA--ACTGTA
* *
35785 TCTATATACAAAATCATAAAACTTTGTGCTCTTAACTTATTTTATTATCGTGGGGTCCTCCAAGG
320 TCTATATACCAAATCATAAAACTTTGTGCTCTTAACTTATTTTATTATCGTGGGGACCTCCAAGG
* *
35850 CTCCATCGGCTAAAAGTTTCATAATATTTTAGGCGTAATCACTTTTATTTTTTAAAATAATAATA
385 CTCCATCGGCTAAAACTTTCATAATATTTTAGGCGCAATCACTTTTATTTTTTAAAATAATAATA
* * * * * * **
35915 TTTAAAATTGCAACATGCTTTCTTATGGGGCCATAACCTTCTGGG-TGCAATCTATTCTATTAAT
450 TTTCATATTACAACATACTTTCTTATGGGGCCATAACATTTTGGGCT-CAAAATATTCTATTAAT
35979 ACACATG
514 ACACATG
* *
35986 TTAACATTACAAGTCTCAACTTATTTCATTTAGAACCGTGATATTATTGGTTGCAACCGTATCTA
1 TTAACATTACAAGTCACAACTTATTTCATTTAGAACCGTGATATTATTGGTCGCAACCGTATCTA
* * * *
36051 -ATACCAAATCATAAAACTTTGTGCTCTTAACCTATTTTATTTTTGTAGGGGAATTCCAATGCTC
66 TATACCAAATCATAAAACTTTGTGCTCTTAACCTATTTTATTATCGT-GGGGAACTCCAAGGCTC
*
36115 CATCGGATAAAACTTTCATAATA-TTTAGGCGCAATCACTTTTATTTTTTGAAAATAATAATATT
130 CATCGGCTAAAACTTTCATAATATTTTAGGCGCAATCACTTTTATTTTTT-AAAATAATAATATT
36179 TCAGATTGTAACATGTTTTCTTATGGGGCCATGACATTCTGGGCGCAATCTATTATATTAATACA
194 TCAGATTGTAACATGTTTTCTTA-GGGGCCATGACATTCTGGGCGCAATCTATTATATTAATACA
*
36244 CATGTT-AC-AC-GTCGCAACTTATTTCATTTAGAATTGTGATATTATTTGGTGTAATTGTATCT
258 CATGTTAACTACAGTCGCAACTTATTTCATTTAGAATTGTGATATTATTTGGTGTAACTGTATCT
* *
36306 ATATACTAAGTCATAAAACTTTGTGCTCTTAACTTATTTTATTATCGTGGGGACCTCCAAGGCTC
323 ATATACCAAATCATAAAACTTTGTGCTCTTAACTTATTTTATTATCGTGGGGACCTCCAAGGCTC
36371 CA-CTGGCTAAAACTTTCATAATATTTTAGGCGCAATCACTTTTATTTTTTTAAAATAATAATAT
388 CATC-GGCTAAAACTTTCATAATATTTTAGGCGCAATCACTTTTA-TTTTTTAAAATAATAATAT
*
36435 TTCATATTACAACATACTTTCTTATGGGGCCATGACATTTTGGGCTCAAAATATTCTATTAATAC
451 TTCATATTACAACATACTTTCTTATGGGGCCATAACATTTTGGGCTCAAAATATTCTATTAATAC
36500 ACATG
516 ACATG
* * *
36505 TTAACATTACAAGTCACAACTTATTTCATTTAGAACCATTATATTATTGGTCGCAACCATATCTA
1 TTAACATTACAAGTCACAACTTATTTCATTTAGAACCGTGATATTATTGGTCGCAACCGTATCTA
*
36570 TATACCAACTCATAAAACTTTGTGCTCTTAACCTATTTTATTATCGTGGGGAACTCCAAGGCTCC
66 TATACCAAATCATAAAACTTTGTGCTCTTAACCTATTTTATTATCGTGGGGAACTCCAAGGCTCC
36635 ATCGGCTAAAACTTTCATAATATTTTAGGCGCAATCACTTTTATTTTTTAAAATAATAATATTTC
131 ATCGGCTAAAACTTTCATAATATTTTAGGCGCAATCACTTTTATTTTTTAAAATAATAATATTTC
*
36700 AGATTGTAGCATGTTTTCTTATGGGGCCATGACATTCTGGGCGCAATCTATTATATTAATACACA
196 AGATTGTAACATGTTTTCTTA-GGGGCCATGACATTCTGGGCGCAATCTATTATATTAATACACA
36765 TGTT-AC-A-AGTCGCAACTTATTTCATTTAGAATTGTGATATTATTTGGTGTAACTGTATCTAT
260 TGTTAACTACAGTCGCAACTTATTTCATTTAGAATTGTGATATTATTTGGTGTAACTGTATCTAT
*
36827 ATACTAAATCATAAAACTTTGTGCTCTTAACTTATTTTATTATCGTGGGGACCTCCAAGGCTCCA
325 ATACCAAATCATAAAACTTTGTGCTCTTAACTTATTTTATTATCGTGGGGACCTCCAAGGCTCCA
* *
36892 CCGGCTAAAACTTTCATAATATTTTAGGCGCAATCATTTTTATTTTTTAAAATAATAATATTTCA
390 TCGGCTAAAACTTTCATAATATTTTAGGCGCAATCACTTTTATTTTTTAAAATAATAATATTTCA
*
36957 GATTACAACATACTTTCTTATGGGGCCATAACATTTTGGGCTCAAAATATTCTATTAATACACAT
455 TATTACAACATACTTTCTTATGGGGCCATAACATTTTGGGCTCAAAATATTCTATTAATACACAT
37022 G
520 G
*
37023 TTAACATTACAAGTCACAACTTATTTCATTTAGAACCGTTATATTATTGGTCGCAACCGTATCTA
1 TTAACATTACAAGTCACAACTTATTTCATTTAGAACCGTGATATTATTGGTCGCAACCGTATCTA
*
37088 TATACCAACTCATAAAACTTTGTGCTCTTAACCTATTTTATTATCGTGGGGAACTCCAAGGCTCC
66 TATACCAAATCATAAAACTTTGTGCTCTTAACCTATTTTATTATCGTGGGGAACTCCAAGGCTCC
37153 ATCGGCTAAAACTTTCATAATATTTTAGGCGCAATCACTTTTATTTTTTAAAATAATAATATTTC
131 ATCGGCTAAAACTTTCATAATATTTTAGGCGCAATCACTTTTATTTTTTAAAATAATAATATTTC
* * * * * *
37218 AGATTGCAACATGTTTTCTTAGGGGGCGTGACATTATGGGCGTAATCTATTCT-TCTAATACACA
196 AGATTGTAACATGTTTTCTTAGGGGCCATGACATTCTGGGCGCAATCTATTATAT-TAATACACA
* * *
37282 TGTTAACAATACAAGTCGCAACTTATTTCATTTAGAACTGTAATATTATTGGGTGTAACTGTATC
260 TGTTAAC--TAC-AGTCGCAACTTATTTCATTTAGAATTGTGATATTATTTGGTGTAACTGTATC
* * * * *
37347 TATATACCAAATCATAAAAC--TGTGTTCTTAACTTATTTTATTAGCTTGGGGAACTCCAAGGTT
322 TATATACCAAATCATAAAACTTTGTGCTCTTAACTTATTTTATTATCGTGGGGACCTCCAAGGCT
** * **
37410 CCATCGAATAAAACTTTTATAATATTTTAGGCATAATCACTTTTATTTTTTAAAATAATAATATT
387 CCATCGGCTAAAACTTTCATAATATTTTAGGCGCAATCACTTTTATTTTTTAAAATAATAATATT
* * * * * * * **
37475 TCATATTGCTACGTGCTTTCTTAGGGGGGTCATGACATTTTGGGCAT-AATCTATTAC-ATTAAT
452 TCATATTACAACATACTTTCTTA-TGGGGCCATAACATTTTGGGC-TCAAAATATT-CTATTAAT
*
37538 ATACATG
514 ACACATG
* * *
37545 TTAACATTACAAGTCACAACTTATTTCATTTAGAACCATGATAATATTGGTCGCAACAGTATCTA
1 TTAACATTACAAGTCACAACTTATTTCATTTAGAACCGTGATATTATTGGTCGCAACCGTATCTA
*
37610 TATACCAAATCATAAAACTTTGTGCTCTTAACTTATTTTATTATCGTGGGGAACTCCAAGGCTCC
66 TATACCAAATCATAAAACTTTGTGCTCTTAACCTATTTTATTATCGTGGGGAACTCCAAGGCTCC
* * *
37675 ATCGGCTAAAACTTTCATAATATTTTAGGCGCAATCACTTTTATTTTTGAAAATAATAATGTTCC
131 ATCGGCTAAAACTTTCATAATATTTTAGGCGCAATCACTTTTATTTTTTAAAATAATAATATTTC
* * * *
37740 AGATTTTAACATGCTTTCTTAGGGGACTATGACATTCTGGGCGCAATCTATTCTATTAATACACA
196 AGATTGTAACATGTTTTCTTAGGGG-CCATGACATTCTGGGCGCAATCTATTATATTAATACACA
* *
37805 TGTTAACATTACAAGTCGCAACTTATTTCATTTA-AAGCTT-TGATATTATTT-GTCGCAACCGT
260 TGTTAAC--TAC-AGTCGCAACTTATTTCATTTAGAA--TTGTGATATTATTTGGT-GTAACTGT
* * * *
37867 ATCAATATACCAAATTATAAAACTTTGTGCTCTTAACTTATTTTATTATCGT-GAGAACTCCAAG
319 ATCTATATACCAAATCATAAAACTTTGTGCTCTTAACTTATTTTATTATCGTGGGGACCTCCAAG
* * * * *
37931 GATCTATCAGCTAAAACTTTCATAATATTTTAGGCCCAATCACTTTTATTTGTTAAAATAATA
384 GCTCCATCGGCTAAAACTTTCATAATATTTTAGGCGCAATCACTTTTATTTTTTAAAATAATA
37994 CTGTTCAGAT
Statistics
Matches: 1834, Mismatches: 136, Indels: 67
0.90 0.07 0.03
Matches are distributed among these distances:
514 39 0.02
515 75 0.04
516 1 0.00
517 41 0.02
518 441 0.24
519 422 0.23
520 76 0.04
521 115 0.06
522 248 0.14
523 198 0.11
524 152 0.08
525 26 0.01
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (520 bp):
TTAACATTACAAGTCACAACTTATTTCATTTAGAACCGTGATATTATTGGTCGCAACCGTATCTA
TATACCAAATCATAAAACTTTGTGCTCTTAACCTATTTTATTATCGTGGGGAACTCCAAGGCTCC
ATCGGCTAAAACTTTCATAATATTTTAGGCGCAATCACTTTTATTTTTTAAAATAATAATATTTC
AGATTGTAACATGTTTTCTTAGGGGCCATGACATTCTGGGCGCAATCTATTATATTAATACACAT
GTTAACTACAGTCGCAACTTATTTCATTTAGAATTGTGATATTATTTGGTGTAACTGTATCTATA
TACCAAATCATAAAACTTTGTGCTCTTAACTTATTTTATTATCGTGGGGACCTCCAAGGCTCCAT
CGGCTAAAACTTTCATAATATTTTAGGCGCAATCACTTTTATTTTTTAAAATAATAATATTTCAT
ATTACAACATACTTTCTTATGGGGCCATAACATTTTGGGCTCAAAATATTCTATTAATACACATG
Found at i:39969 original size:58 final size:59
Alignment explanation
Indices: 39430--40070 Score: 875
Period size: 59 Copynumber: 10.9 Consensus size: 59
39420 TATATTTCCC
* * * * * * *
39430 ATACGAAAATCCATAGACTTAGTATGAGTTTCTTATCTTTTTTGCACATAAAGTGCCCA
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACAAAGTGCCCA
* * *
39489 ATAAGGAAATTCATACACTTAGTATGAATTTCTTAACATATTTGCACACAAAAGTGTCCA
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACAC-AAAGTGCCCA
*
39549 ATGCGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACAAAGTGCCCA
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACAAAGTGCCCA
* *
39608 ATACGGAAACTCATACACTTAGTATGATTTTCTTAACATTTTTGCACACAAAGTGCCCA
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACAAAGTGCCCA
* * *
39667 ATGCGAAAACTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACAAAGTGCCCA
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACAAAGTGCCCA
* *
39726 ATACAGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTTTTTGCACACAAAGTGCCCA
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAAC---ATTTTTGCACACAAAGTGCCCA
* * ** *
39788 ATATGAAAATTCATACACTTAGTATGAATTTCTT-ATTTTTTTG--CAC--A-TACCCA
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACAAAGTGCCCA
*
39841 ATACGAAAATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACAAAGTGCCCA
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACAAAGTGCCCA
** * *
39900 ATACAAAAATTCATACACTTAGTATGAATTTCTTATC-TTTTTGCACATAAAGTGCCCA
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACAAAGTGCCCA
* * *
39958 ATACGGAAATTCATACACTTAGTATGAATTTCTTATC-TTTTTGCACAAAAAGTGCCAA
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACAAAGTGCCCA
* * * *
40016 ATACGGAAATTTATACATTTAGTATGAATTTCATAACATTTTTGCAAACAAAGTG
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACAAAGTG
40071 TCATTTGGTA
Statistics
Matches: 524, Mismatches: 47, Indels: 22
0.88 0.08 0.04
Matches are distributed among these distances:
53 38 0.07
54 8 0.02
56 6 0.01
58 115 0.22
59 249 0.48
60 55 0.10
61 1 0.00
62 52 0.10
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.34
Consensus pattern (59 bp):
ATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACAAAGTGCCCA
Found at i:40513 original size:20 final size:20
Alignment explanation
Indices: 40488--40543 Score: 67
Period size: 22 Copynumber: 2.7 Consensus size: 20
40478 CGATGTTGCC
*
40488 TGGTATCGATACCCTTACCA
1 TGGTATCGATACCCATACCA
*
40508 TGGTATCGATACTACCATACTA
1 TGGTATCGATAC--CCATACCA
*
40530 TGGTACCGATACCC
1 TGGTATCGATACCC
40544 CCTTCCGGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
20 14 0.45
22 17 0.55
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.29
Consensus pattern (20 bp):
TGGTATCGATACCCATACCA
Found at i:40558 original size:95 final size:95
Alignment explanation
Indices: 40437--40618 Score: 319
Period size: 95 Copynumber: 1.9 Consensus size: 95
40427 TTATATTATA
* * *
40437 GTACTGATACCCCCTTCCGATATCGATACCAATTTTAGATTCGATGTTGCCTGGTATCGATACCC
1 GTACCGATACCCCCTTCCGATATCGATACCAATTTTAGATTCGATGTGGCCTAGTATCGATACCC
40502 TTACCATGGTATCGATACTACCATACTATG
66 TTACCATGGTATCGATACTACCATACTATG
*
40532 GTACCGATACCCCCTTCCGGTATCGATACCAATTTTAGATTCGATGTGGCCTAGTATCGATACCC
1 GTACCGATACCCCCTTCCGATATCGATACCAATTTTAGATTCGATGTGGCCTAGTATCGATACCC
*
40597 TTACCATGGTATCGATATTACC
66 TTACCATGGTATCGATACTACC
40619 TCTTCGGTAT
Statistics
Matches: 82, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
95 82 1.00
ACGTcount: A:0.25, C:0.27, G:0.16, T:0.32
Consensus pattern (95 bp):
GTACCGATACCCCCTTCCGATATCGATACCAATTTTAGATTCGATGTGGCCTAGTATCGATACCC
TTACCATGGTATCGATACTACCATACTATG
Found at i:43261 original size:20 final size:20
Alignment explanation
Indices: 43236--43389 Score: 184
Period size: 20 Copynumber: 7.7 Consensus size: 20
43226 ACAATACGTA
43236 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
43256 AAATCGCAACGAGAATACGT
1 AAATCGCAACGCGTATCCGT
*
43276 AAATCGCAACGCGTATCTGT
1 AAATCGCAACGCGTATCCGT
* * *
43296 AAATCGCAACGAGAATACGT
1 AAATCGCAACGCGTATCCGT
*
43316 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* *
43336 AAATCGCAACGAC-AATACGT
1 AAATCGCAACG-CGTATCCGT
43356 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
*
43377 AAATAGCAACGCG
1 AAATCGCAACGCG
43390 ATTTTTAAAG
Statistics
Matches: 110, Mismatches: 21, Indels: 6
0.80 0.15 0.04
Matches are distributed among these distances:
20 93 0.85
21 17 0.15
ACGTcount: A:0.38, C:0.25, G:0.19, T:0.18
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:43291 original size:40 final size:41
Alignment explanation
Indices: 43194--43387 Score: 288
Period size: 40 Copynumber: 4.8 Consensus size: 41
43184 ATGCGAAATA
*
43194 AAAATCGCAACGCG-ATCTC-CAGAATCGCAACGACAATACGT
1 AAAATCGCAACGCGTATC-CGTA-AATCGCAACGACAATACGT
*
43235 AAAATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGT
1 AAAATCGCAACGCGTATCCGTAAATCGCAACGACAATACGT
* *
43276 -AAATCGCAACGCGTATCTGTAAATCGCAACGAGAATACGT
1 AAAATCGCAACGCGTATCCGTAAATCGCAACGACAATACGT
*
43316 -AAATCGCAATGCGTATCCGTAAATCGCAACGACAATACGT
1 AAAATCGCAACGCGTATCCGTAAATCGCAACGACAATACGT
*
43356 AAAATCGCAACGCGTATCCGTAAATAGCAACG
1 AAAATCGCAACGCGTATCCGTAAATCGCAACG
43388 CGATTTTTAA
Statistics
Matches: 142, Mismatches: 8, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
40 76 0.54
41 62 0.44
42 4 0.03
ACGTcount: A:0.39, C:0.25, G:0.19, T:0.18
Consensus pattern (41 bp):
AAAATCGCAACGCGTATCCGTAAATCGCAACGACAATACGT
Found at i:43975 original size:20 final size:20
Alignment explanation
Indices: 43950--43990 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
43940 TTCTAAACTT
*
43950 AAAATCGCAACATGAAAATG
1 AAAATCGCAACACGAAAATG
43970 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
43990 A
1 A
43991 CTATCACAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.56, C:0.17, G:0.15, T:0.12
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:44000 original size:20 final size:20
Alignment explanation
Indices: 43950--44000 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
43940 TTCTAAACTT
* *
43950 AAAATCGCAACATGAAAATG
1 AAAATCACAACACGAAAATG
*
43970 AAAATCGCAACACGAAAATG
1 AAAATCACAACACGAAAATG
**
43990 ACTATCACAAC
1 AAAATCACAAC
44001 GAGAGAATCG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.53, C:0.22, G:0.12, T:0.14
Consensus pattern (20 bp):
AAAATCACAACACGAAAATG
Found at i:44074 original size:33 final size:33
Alignment explanation
Indices: 44032--44186 Score: 193
Period size: 33 Copynumber: 4.5 Consensus size: 33
44022 CAAAATCGCA
44032 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* * *
44065 TTGCGATTTTAATTTCGCATTGTGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
44098 TTGCGATTTTCATTTCGCGTTGCGATTATCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
**
44131 TTGCGATAGTCATTTCCGCGTTGCGATTTTCATTCTCTCG
1 TTGCGATTTTCATTT-CGCGTTGCG------ATTCTCTCG
44171 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
44187 AACCAAAAGA
Statistics
Matches: 103, Mismatches: 12, Indels: 8
0.84 0.10 0.07
Matches are distributed among these distances:
33 72 0.70
34 9 0.09
39 1 0.01
40 21 0.20
ACGTcount: A:0.12, C:0.22, G:0.19, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:44163 original size:20 final size:20
Alignment explanation
Indices: 44096--44186 Score: 81
Period size: 20 Copynumber: 4.9 Consensus size: 20
44086 GTGATTCTCT
44096 CGTTGCGATTTTCATTT-CG
1 CGTTGCGATTTTCATTTCCG
*
44115 CGTTGCGA--TT-A--T-CT
1 CGTTGCGATTTTCATTTCCG
**
44129 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATTTTCATTTCCG
*
44149 CGTTGCGATTTTCA-TTCTCT
1 CGTTGCGATTTTCATTTC-CG
44169 CGTTGCGATTTTCATTTC
1 CGTTGCGATTTTCATTTC
44187 AACCAAAAGA
Statistics
Matches: 58, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
14 10 0.17
16 2 0.03
17 3 0.05
19 12 0.21
20 28 0.48
21 3 0.05
ACGTcount: A:0.12, C:0.23, G:0.20, T:0.45
Consensus pattern (20 bp):
CGTTGCGATTTTCATTTCCG
Found at i:44260 original size:16 final size:16
Alignment explanation
Indices: 44239--44270 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
44229 TAAACTACTA
44239 CTCTTTATGTTTATTG
1 CTCTTTATGTTTATTG
44255 CTCTTTATGTTTATTG
1 CTCTTTATGTTTATTG
44271 TTTTTTGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.12, G:0.12, T:0.62
Consensus pattern (16 bp):
CTCTTTATGTTTATTG
Found at i:46239 original size:42 final size:42
Alignment explanation
Indices: 46163--46242 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 42
46153 GACTTGCCTG
* * *
46163 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCCCCTA
* * *
46205 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCC
1 TCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
46243 AATGTCATCG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.21, C:0.39, G:0.17, T:0.23
Consensus pattern (42 bp):
TCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCCCCTA
Found at i:46812 original size:13 final size:13
Alignment explanation
Indices: 46794--46825 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
46784 TTCACTTGAA
46794 GAATCAATGAGAT
1 GAATCAATGAGAT
46807 GAATCAATGAGAT
1 GAATCAATGAGAT
46820 GAATCA
1 GAATCA
46826 TTTGCGTTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.47, C:0.09, G:0.22, T:0.22
Consensus pattern (13 bp):
GAATCAATGAGAT
Found at i:47659 original size:14 final size:14
Alignment explanation
Indices: 47639--47675 Score: 58
Period size: 14 Copynumber: 2.6 Consensus size: 14
47629 GATTGTTTAA
47639 TTGATTTGTAAAA-
1 TTGATTTGTAAAAG
47652 TATGATTTGTAAAAG
1 T-TGATTTGTAAAAG
47667 TTGATTTGT
1 TTGATTTGT
47676 TTAATTGATG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 1 0.05
14 20 0.91
15 1 0.05
ACGTcount: A:0.32, C:0.00, G:0.19, T:0.49
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:47806 original size:19 final size:19
Alignment explanation
Indices: 47782--47866 Score: 92
Period size: 19 Copynumber: 4.7 Consensus size: 19
47772 AAAACTCACT
*
47782 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
47801 ATCGCAA--CG--A-GAGA
1 ATCGCAACGCGAAATGAAA
*
47815 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
47834 ATCGCAACGCGAAACT-AAA
1 ATCGCAACGCGAAA-TGAAA
47853 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
47867 CTAAATTCGC
Statistics
Matches: 57, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
14 10 0.18
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 40 0.70
20 1 0.02
ACGTcount: A:0.46, C:0.21, G:0.21, T:0.12
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:47883 original size:19 final size:19
Alignment explanation
Indices: 47814--47876 Score: 92
Period size: 19 Copynumber: 3.3 Consensus size: 19
47804 GCAACGAGAG
*
47814 AATCGCAATGCGAAA-TGAA
1 AATCGCAACGCGAAACT-AA
47833 AATCGCAACGCGAAACTAA
1 AATCGCAACGCGAAACTAA
47852 AATCGCAACGCGAAACTAA
1 AATCGCAACGCGAAACTAA
*
47871 ATTCGC
1 AATCGC
47877 GTTGCGATTT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
19 40 0.98
20 1 0.02
ACGTcount: A:0.44, C:0.24, G:0.17, T:0.14
Consensus pattern (19 bp):
AATCGCAACGCGAAACTAA
Found at i:47949 original size:14 final size:14
Alignment explanation
Indices: 47897--47984 Score: 59
Period size: 14 Copynumber: 5.6 Consensus size: 14
47887 TCATTTCGCT
*
47897 TTGCGATTCCCTCG
1 TTGCGATTCTCTCG
*
47911 TTGCGATTTTCATTTCG
1 TTGCGA--TTC-TCTCG
47928 CATTGCGATTCTCTCG
1 --TTGCGATTCTCTCG
*
47944 TTGCGATTTTCATTTCG
1 TTGCGA--TTC-TCTCG
47961 CATTGCGATTCTCTCG
1 --TTGCGATTCTCTCG
47977 TTGCGATT
1 TTGCGATT
47985 TTCATTTCGC
Statistics
Matches: 59, Mismatches: 5, Indels: 20
0.70 0.06 0.24
Matches are distributed among these distances:
14 20 0.34
16 14 0.24
17 13 0.22
19 12 0.20
ACGTcount: A:0.11, C:0.25, G:0.19, T:0.44
Consensus pattern (14 bp):
TTGCGATTCTCTCG
Found at i:48028 original size:20 final size:19
Alignment explanation
Indices: 47872--48076 Score: 144
Period size: 19 Copynumber: 11.7 Consensus size: 19
47862 CGAAACTAAA
47872 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
47891 TTCGCTTTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* *
47906 -CCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
47924 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
*
47939 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
47957 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
*
47972 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* **
47990 TTCGCATTGCGATAGTCAT
1 TTCGCGTTGCGATTTTCAT
*
48009 TTCCGCGTTGCAATTTTCAT
1 TT-CGCGTTGCGATTTTCAT
48029 ATTCGCGTTGCGATTTTCA-
1 -TTCGCGTTGCGATTTTCAT
48048 ----CGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
48063 TTCGCATTGCGATT
1 TTCGCGTTGCGATT
48077 CTCTCGTTGC
Statistics
Matches: 141, Mismatches: 23, Indels: 44
0.68 0.11 0.21
Matches are distributed among these distances:
14 40 0.28
16 9 0.06
17 9 0.06
19 53 0.38
20 28 0.20
21 2 0.01
ACGTcount: A:0.13, C:0.23, G:0.19, T:0.44
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:48053 original size:14 final size:14
Alignment explanation
Indices: 48034--48061 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
48024 TTCATATTCG
48034 CGTTGCGATTTTCA
1 CGTTGCGATTTTCA
48048 CGTTGCGATTTTCA
1 CGTTGCGATTTTCA
48062 TTTCGCATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.21, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTTTCA
Found at i:48061 original size:106 final size:99
Alignment explanation
Indices: 47876--48089 Score: 311
Period size: 106 Copynumber: 2.1 Consensus size: 99
47866 ACTAAATTCG
* * *
47876 CGTTGCGATTTTCATTTCGCTTTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGCGATTCTC
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCGCGTTGCAATTTTCATTTCGCATTGCGATTCTC
*
47941 TCGTTGCGATTTTCATTTCGCATTGCGATTCTCT
66 ACGTTGCGATTTTCATTTCGCATTGCGATTCTCT
*
47975 CGTTGCGATTTTCATTTCGCATTGCGATAGTCATTTCCGCGTTGCAATTTTCATATTCGCGTTGC
1 CGTTGCGATTTTCATTTCGCATTGCGAT--TC----CCGCGTTGCAATTTTCAT-TTCGCATTGC
*
48040 GATTTTCACGTTGCGATTTTCATTTCGCATTGCGATTCTCT
59 GATTCTCACGTTGCGATTTTCATTTCGCATTGCGATTCTCT
48081 CGTTGCGAT
1 CGTTGCGAT
48090 AGTAATTTCC
Statistics
Matches: 102, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
99 27 0.26
101 2 0.02
105 16 0.16
106 57 0.56
ACGTcount: A:0.13, C:0.24, G:0.19, T:0.44
Consensus pattern (99 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCCGCGTTGCAATTTTCATTTCGCATTGCGATTCTC
ACGTTGCGATTTTCATTTCGCATTGCGATTCTCT
Found at i:48098 original size:33 final size:33
Alignment explanation
Indices: 47876--48089 Score: 302
Period size: 33 Copynumber: 6.3 Consensus size: 33
47866 ACTAAATTCG
* *
47876 CGTTGCGATTTTCATTTCGCTTTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
47909 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
47942 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
*
47975 CGTTGCGATTTTCATTTCGCATTGCGATAGTCATTTCCG
1 CGTTGCGATTTTCATTTCGCATTGCGAT--TC---T-CT
* * * *
48014 CGTTGCAATTTTCATATTCGCGTTGCGATTTTCA
1 CGTTGCGATTTTCAT-TTCGCATTGCGATTCTCT
48048 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
48081 CGTTGCGAT
1 CGTTGCGAT
48090 AGTAATTTCC
Statistics
Matches: 163, Mismatches: 11, Indels: 14
0.87 0.06 0.07
Matches are distributed among these distances:
33 116 0.71
34 15 0.09
35 3 0.02
38 2 0.01
39 15 0.09
40 12 0.07
ACGTcount: A:0.13, C:0.24, G:0.19, T:0.44
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
Found at i:48098 original size:106 final size:106
Alignment explanation
Indices: 47909--48116 Score: 310
Period size: 106 Copynumber: 2.0 Consensus size: 106
47899 GCGATTCCCT
* *
47909 CGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTCTC
1 CGTTGCAATTTTCATTTCGCATTGCGATTCTCACGTTGCGATTTTCATTTCGCATTGCGATTCTC
** * *
47974 TCGTTGCGATTTTCATTT-CGCATTGCGATAGTCATTTCCG
66 TCGTTGCGATAGTAATTTCCGCATTGCGATAGACATTTCCG
* *
48014 CGTTGCAATTTTCATATTCGCGTTGCGATTTTCACGTTGCGATTTTCATTTCGCATTGCGATTCT
1 CGTTGCAATTTTCAT-TTCGCATTGCGATTCTCACGTTGCGATTTTCATTTCGCATTGCGATTCT
**
48079 CTCGTTGCGATAGTAATTTCCGTGTTGCGATAGACATT
65 CTCGTTGCGATAGTAATTTCCGCATTGCGATAGACATT
48117 AAGATGATTG
Statistics
Matches: 91, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
105 14 0.15
106 62 0.68
107 15 0.16
ACGTcount: A:0.15, C:0.22, G:0.20, T:0.43
Consensus pattern (106 bp):
CGTTGCAATTTTCATTTCGCATTGCGATTCTCACGTTGCGATTTTCATTTCGCATTGCGATTCTC
TCGTTGCGATAGTAATTTCCGCATTGCGATAGACATTTCCG
Found at i:48155 original size:20 final size:20
Alignment explanation
Indices: 48082--48155 Score: 71
Period size: 20 Copynumber: 3.6 Consensus size: 20
48072 CGATTCTCTC
*
48082 GTTGCGATAGTAATTTCCGT
1 GTTGCGATAGTCATTTCCGT
* **
48102 GTTGCGATAGACA-TTAAGAT
1 GTTGCGATAGTCATTTCCG-T
48122 GATTGCGA-ACGTCATTTCCGT
1 G-TTGCGATA-GTCATTTCCGT
48143 GTTGCGATAGTCA
1 GTTGCGATAGTCA
48156 AATGAATGCC
Statistics
Matches: 42, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
19 3 0.07
20 24 0.57
21 12 0.29
22 3 0.07
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (20 bp):
GTTGCGATAGTCATTTCCGT
Found at i:50419 original size:14 final size:14
Alignment explanation
Indices: 50400--50426 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
50390 TCCCGTGGCA
50400 TTTTCTTTGGGGAC
1 TTTTCTTTGGGGAC
50414 TTTTCTTTGGGGA
1 TTTTCTTTGGGGA
50427 TTTCTTCTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.11, G:0.30, T:0.52
Consensus pattern (14 bp):
TTTTCTTTGGGGAC
Found at i:50657 original size:24 final size:24
Alignment explanation
Indices: 50623--50676 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
50613 CTGAAAAATC
50623 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
50647 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
50671 ATCAAA
1 ATCAAA
50677 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:50690 original size:24 final size:24
Alignment explanation
Indices: 50623--50690 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
50613 CTGAAAAATC
* * *
50623 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
50647 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
50671 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
50691 TAGTACTCAT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:51550 original size:20 final size:19
Alignment explanation
Indices: 51529--51765 Score: 147
Period size: 20 Copynumber: 11.8 Consensus size: 19
51519 GCGATAGTCA
51529 GAATCTCGTTGCGATTTAC
1 GAATCTCGTTGCGATTTAC
* * *
51548 AGATTCGCATTGCGATTTAC
1 -GAATCTCGTTGCGATTTAC
*
51568 GTAT-TCGCATTGCGATTTAC
1 GAATCTCG--TTGCGATTTAC
* *
51588 GTAT-TCGCATTGTGATTTAC
1 GAATCTCG--TTGCGATTTAC
* * *
51608 GGATACGCATTGCGATTTAC
1 GAAT-CTCGTTGCGATTTAC
*
51628 GTATTCTCGTTGCGATTTAC
1 G-AATCTCGTTGCGATTTAC
*
51648 -AGATACGCGTTGCGATTTAC
1 GA-AT-CTCGTTGCGATTTAC
*
51668 GTATTCTCGTTGCGATTTAC
1 G-AATCTCGTTGCGATTTAC
* *
51688 GGATACGCGTTGCGATTTTAC
1 GAAT-CTCGTTGCGA-TTTAC
* *
51709 GTATTGTCGTTGCGATTTAC
1 G-AATCTCGTTGCGATTTAC
*
51729 GAATACGCGTTGCGATTTTAC
1 GAAT-CTCGTTGCGA-TTTAC
*
51750 GGATACTCGTTGCGAT
1 GAAT-CTCGTTGCGAT
51766 AGTCAGAATC
Statistics
Matches: 171, Mismatches: 32, Indels: 28
0.74 0.14 0.12
Matches are distributed among these distances:
18 2 0.01
19 6 0.04
20 126 0.74
21 34 0.20
22 3 0.02
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.38
Consensus pattern (19 bp):
GAATCTCGTTGCGATTTAC
Found at i:51581 original size:40 final size:40
Alignment explanation
Indices: 51535--51765 Score: 286
Period size: 40 Copynumber: 5.7 Consensus size: 40
51525 GTCAGAATCT
* * *
51535 CGTTGCGATTTACAG-ATTCGCATTGCGATTTACGTATTCG
1 CGTTGCGATTTAC-GTATTCGCGTTGCGATTTACGGATACG
* * *
51575 CATTGCGATTTACGTATTCGCATTGTGATTTACGGATACG
1 CGTTGCGATTTACGTATTCGCGTTGCGATTTACGGATACG
* * *
51615 CATTGCGATTTACGTATTCTCGTTGCGATTTACAGATACG
1 CGTTGCGATTTACGTATTCGCGTTGCGATTTACGGATACG
*
51655 CGTTGCGATTTACGTATTCTCGTTGCGATTTACGGATACG
1 CGTTGCGATTTACGTATTCGCGTTGCGATTTACGGATACG
*
51695 CGTTGCGATTTTACGTATT-GTCGTTGCGATTTACGAATACG
1 CGTTGCGA-TTTACGTATTCG-CGTTGCGATTTACGGATACG
* * *
51736 CGTTGCGATTTTACGGATACTCGTTGCGAT
1 CGTTGCGA-TTTACGTATTCGCGTTGCGAT
51766 AGTCAGAATC
Statistics
Matches: 172, Mismatches: 15, Indels: 7
0.89 0.08 0.04
Matches are distributed among these distances:
39 1 0.01
40 116 0.67
41 55 0.32
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.38
Consensus pattern (40 bp):
CGTTGCGATTTACGTATTCGCGTTGCGATTTACGGATACG
Found at i:51605 original size:60 final size:59
Alignment explanation
Indices: 51537--51765 Score: 228
Period size: 60 Copynumber: 3.8 Consensus size: 59
51527 CAGAATCTCG
*
51537 TTGCGATTTACAGATTCGCATTGCGATTTACGTATTCGCATTGCGATTTACGTATTCGCA
1 TTGCGATTTAC-GATTCGCATTGCGATTTACGTATTCGCGTTGCGATTTACGTATTCGCA
* * * * *
51597 TTGTGATTTACGGATACGCATTGCGATTTACGTATTCTCGTTGCGATTTACAG-ATACGCG
1 TTGCGATTTAC-GATTCGCATTGCGATTTACGTATTCGCGTTGCGATTTAC-GTATTCGCA
* * * * *
51657 TTGCGATTTACGTATTCTCGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATT-GTCG
1 TTGCGATTTACG-ATTCGCATTGCGATTTACGTATTCGCGTTGCGA-TTTACGTATTCG-CA
* * * * *
51718 TTGCGATTTACGAATACGCGTTGCGATTTTACGGATACTCGTTGCGAT
1 TTGCGATTTACG-ATTCGCATTGCGA-TTTACGTATTCGCGTTGCGAT
51766 AGTCAGAATC
Statistics
Matches: 144, Mismatches: 19, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
59 1 0.01
60 90 0.62
61 34 0.24
62 19 0.13
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.38
Consensus pattern (59 bp):
TTGCGATTTACGATTCGCATTGCGATTTACGTATTCGCGTTGCGATTTACGTATTCGCA
Found at i:51879 original size:21 final size:20
Alignment explanation
Indices: 51794--51889 Score: 70
Period size: 21 Copynumber: 4.7 Consensus size: 20
51784 ATTTATATGT
* *
51794 TCGCGTTGCGATTTTCATAT
1 TCGCATTGCGATTTTCATAA
** *
51814 TCGCATTGCGATTATGGAAAA
1 TCGCATTGCGATT-TTCATAA
*
51835 TCGCAATGCGAATTTGT-ACT-A
1 TCGCATTGCG-ATTT-TCA-TAA
51856 TCGCATTGCGATTCTTCATAA
1 TCGCATTGCGATT-TTCATAA
*
51877 TCGCGTTGCGATT
1 TCGCATTGCGATT
51890 CTGGGAACTG
Statistics
Matches: 59, Mismatches: 10, Indels: 13
0.72 0.12 0.16
Matches are distributed among these distances:
20 17 0.29
21 39 0.66
22 3 0.05
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.36
Consensus pattern (20 bp):
TCGCATTGCGATTTTCATAA
Found at i:51887 original size:42 final size:42
Alignment explanation
Indices: 51794--51887 Score: 95
Period size: 42 Copynumber: 2.3 Consensus size: 42
51784 ATTTATATGT
*
51794 TCGCGTTGCG-ATTTTCATATTCGCATTGCGATTATGGAAAA
1 TCGCGTTGCGAATTTTCATATTCGCATTGCGATTATGCAAAA
** * * *
51835 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTCTTCATAA
1 TCGCGTTGCGAATTT-TCA-TATTCGCATTGCGATTATGCAAAA
51877 TCGCGTTGCGA
1 TCGCGTTGCGA
51888 TTCTGGGAAC
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
41 8 0.19
42 31 0.74
43 3 0.07
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.35
Consensus pattern (42 bp):
TCGCGTTGCGAATTTTCATATTCGCATTGCGATTATGCAAAA
Found at i:51925 original size:20 final size:19
Alignment explanation
Indices: 51876--51929 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
51866 ATTCTTCATA
51876 ATCGCGTTGCGATTCTGGG
1 ATCGCGTTGCGATTCTGGG
* **
51895 AACTGATTTGCGATTCTGGAG
1 ATC-GCGTTGCGATTCTGG-G
51916 ATCGCGTTGCGATT
1 ATCGCGTTGCGATT
51930 TATATTTCTC
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
19 2 0.07
20 22 0.81
21 3 0.11
ACGTcount: A:0.17, C:0.19, G:0.31, T:0.33
Consensus pattern (19 bp):
ATCGCGTTGCGATTCTGGG
Found at i:52995 original size:17 final size:17
Alignment explanation
Indices: 52973--53025 Score: 106
Period size: 17 Copynumber: 3.1 Consensus size: 17
52963 GAAGCATTTA
52973 TGGTTTGATATGAGTTC
1 TGGTTTGATATGAGTTC
52990 TGGTTTGATATGAGTTC
1 TGGTTTGATATGAGTTC
53007 TGGTTTGATATGAGTTC
1 TGGTTTGATATGAGTTC
53024 TG
1 TG
53026 CGAAGTTCTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 36 1.00
ACGTcount: A:0.17, C:0.06, G:0.30, T:0.47
Consensus pattern (17 bp):
TGGTTTGATATGAGTTC
Found at i:53211 original size:12 final size:12
Alignment explanation
Indices: 53196--53220 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
53186 CTGATAAAAA
53196 AAATAAAATTTT
1 AAATAAAATTTT
53208 AAATAAAATTTT
1 AAATAAAATTTT
53220 A
1 A
53221 TCGAATATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
AAATAAAATTTT
Found at i:63069 original size:21 final size:20
Alignment explanation
Indices: 63043--63081 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
63033 CAACTGTATA
*
63043 GTTATGAGTTGGTTAGAGGTT
1 GTTATGAGTTAGTT-GAGGTT
63064 GTTATGAGTTAGTTGAGG
1 GTTATGAGTTAGTTGAGG
63082 GTAGAGTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.21, C:0.00, G:0.38, T:0.41
Consensus pattern (20 bp):
GTTATGAGTTAGTTGAGGTT
Found at i:68208 original size:21 final size:20
Alignment explanation
Indices: 68182--68220 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
68172 CAGCTGTATA
*
68182 GTTATGAGTTGGTTAGAGGTT
1 GTTATGAGTTAGTT-GAGGTT
68203 GTTATGAGTTAGTTGAGG
1 GTTATGAGTTAGTTGAGG
68221 GTAGAGTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.21, C:0.00, G:0.38, T:0.41
Consensus pattern (20 bp):
GTTATGAGTTAGTTGAGGTT
Found at i:72929 original size:21 final size:21
Alignment explanation
Indices: 72905--72946 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
72895 GGTACTCATG
*
72905 GGGTATTGATACTTGACCCTA
1 GGGTATTCATACTTGACCCTA
72926 GGGTATTCATACTTGACCCTA
1 GGGTATTCATACTTGACCCTA
72947 CTCACTTTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.33
Consensus pattern (21 bp):
GGGTATTCATACTTGACCCTA
Found at i:76163 original size:22 final size:21
Alignment explanation
Indices: 76120--76165 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 21
76110 TACTCAACAC
76120 ATAAATTTAATGTATAATAAT
1 ATAAATTTAATGTATAATAAT
76141 ATAATATTATAATGTA-AATAAT
1 ATAA-ATT-TAATGTATAATAAT
76163 ATA
1 ATA
76166 CAATATTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 4 0.17
22 12 0.52
23 7 0.30
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.41
Consensus pattern (21 bp):
ATAAATTTAATGTATAATAAT
Done.