Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
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: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 81 of 161
Found at i:25509080 original size:18 final size:19
Alignment explanation
Indices: 25509059--25509108 Score: 68
Period size: 18 Copynumber: 2.7 Consensus size: 19
25509049 AAATTAGCTG
*
25509059 AATTAATCGAATTAACC-A
1 AATTAACCGAATTAACCTA
*
25509077 AATTACCCGAATT-ACCTA
1 AATTAACCGAATTAACCTA
25509095 AATTAACCGAATTA
1 AATTAACCGAATTA
25509109 TTTGTATAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 3 0.11
18 24 0.89
ACGTcount: A:0.46, C:0.20, G:0.06, T:0.28
Consensus pattern (19 bp):
AATTAACCGAATTAACCTA
Found at i:25509139 original size:6 final size:6
Alignment explanation
Indices: 25509128--25509174 Score: 58
Period size: 6 Copynumber: 7.5 Consensus size: 6
25509118 AATTATATGT
* *
25509128 TTTTTA TTTTTA TTTTTA TTTTTA GTTTTA GTTTTAGA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA -TTTT-TA TTTTTA TTT
25509175 ATTAAATTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
6 27 0.77
7 7 0.20
8 1 0.03
ACGTcount: A:0.17, C:0.00, G:0.06, T:0.77
Consensus pattern (6 bp):
TTTTTA
Found at i:25518866 original size:17 final size:19
Alignment explanation
Indices: 25518834--25518875 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 19
25518824 TAAAGTTATG
*
25518834 ATAATTGTATATTTAA-AA
1 ATAATTATATATTTAATAA
25518852 ATAATTATA-ATTTAATAA
1 ATAATTATATATTTAATAA
25518870 A-AATTA
1 ATAATTA
25518876 AGATGATTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 11 0.50
18 11 0.50
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (19 bp):
ATAATTATATATTTAATAA
Found at i:25528955 original size:40 final size:40
Alignment explanation
Indices: 25528911--25529004 Score: 143
Period size: 40 Copynumber: 2.4 Consensus size: 40
25528901 TACTTGCTCG
* * *
25528911 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACC
1 AATGCCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACA
*
25528951 AATGCTTTCGGGACTTAGCCCGGAAATAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACA
*
25528991 AATGCCTTTGGGAC
1 AATGCCTTCGGGAC
25529005 ATGCCTTCGG
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.22
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACA
Found at i:25529037 original size:53 final size:53
Alignment explanation
Indices: 25528952--25529057 Score: 160
Period size: 53 Copynumber: 2.0 Consensus size: 53
25528942 ACTCGCACCA
* *
25528952 ATGCTTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATGCCTTT-GGGAC
1 ATGCCTTCGGGACATAGCCCGGAAATAGTAACTCGCACAAATG-CTTTCGGGAC
* *
25529005 ATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATGCTTTCGGGAC
1 ATGCCTTCGGGACATAGCCCGGAAATAGTAACTCGCACAAATGCTTTCGGGAC
25529058 TTAGCCCGGA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
52 4 0.08
53 44 0.92
ACGTcount: A:0.25, C:0.26, G:0.25, T:0.24
Consensus pattern (53 bp):
ATGCCTTCGGGACATAGCCCGGAAATAGTAACTCGCACAAATGCTTTCGGGAC
Found at i:25529065 original size:40 final size:40
Alignment explanation
Indices: 25529005--25529186 Score: 258
Period size: 40 Copynumber: 4.5 Consensus size: 40
25528995 CCTTTGGGAC
* * *
25529005 ATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACCA
1 ATGCCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAA
*
25529045 ATGCTTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAA
1 ATGCCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAA
* * *
25529085 ATGCCTTTGGGACTTAGCCCGGATATAGTAACTCGGACAA
1 ATGCCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAA
* * *
25529125 ATGCCTTCGGGACTTAGCCC-GAAACTAGTCACTAGCGCAA
1 ATGCCTTCGGGACTTAGCCCGGAAA-TAGTAACTCGCACAA
25529165 ATGCCTTCGGGACTTAGCCCGG
1 ATGCCTTCGGGACTTAGCCCGG
25529187 TTATCATCCA
Statistics
Matches: 126, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 3 0.02
40 122 0.97
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.24, T:0.22
Consensus pattern (40 bp):
ATGCCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAA
Found at i:25529071 original size:93 final size:93
Alignment explanation
Indices: 25528912--25529097 Score: 372
Period size: 93 Copynumber: 2.0 Consensus size: 93
25528902 ACTTGCTCGA
25528912 ATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATGCTTTCGGGACTTAGCCCGGAAA
1 ATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATGCTTTCGGGACTTAGCCCGGAAA
25528977 TAGTAACTCGCACAAATGCCTTTGGGAC
66 TAGTAACTCGCACAAATGCCTTTGGGAC
25529005 ATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATGCTTTCGGGACTTAGCCCGGAAA
1 ATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATGCTTTCGGGACTTAGCCCGGAAA
25529070 TAGTAACTCGCACAAATGCCTTTGGGAC
66 TAGTAACTCGCACAAATGCCTTTGGGAC
25529098 TTAGCCCGGA
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
93 93 1.00
ACGTcount: A:0.27, C:0.27, G:0.24, T:0.23
Consensus pattern (93 bp):
ATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATGCTTTCGGGACTTAGCCCGGAAA
TAGTAACTCGCACAAATGCCTTTGGGAC
Found at i:25530492 original size:60 final size:60
Alignment explanation
Indices: 25530399--25530514 Score: 214
Period size: 60 Copynumber: 1.9 Consensus size: 60
25530389 CCAAGCTCTC
*
25530399 CCCTTCCTTTCTTTCCTCTATTCGGCCAAAGATGTTCAAGAATGAACACTTGTTTTCTTT
1 CCCTTCCTTTCGTTCCTCTATTCGGCCAAAGATGTTCAAGAATGAACACTTGTTTTCTTT
*
25530459 CCCTTCCTTTCGTTCCTCTATTCGGCCAAAGATGTTCAAGAATGAACACTTTTTTT
1 CCCTTCCTTTCGTTCCTCTATTCGGCCAAAGATGTTCAAGAATGAACACTTGTTTT
25530515 TGTTTTCTTT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
60 54 1.00
ACGTcount: A:0.21, C:0.27, G:0.12, T:0.41
Consensus pattern (60 bp):
CCCTTCCTTTCGTTCCTCTATTCGGCCAAAGATGTTCAAGAATGAACACTTGTTTTCTTT
Found at i:25537210 original size:40 final size:40
Alignment explanation
Indices: 25537151--25537408 Score: 351
Period size: 40 Copynumber: 6.5 Consensus size: 40
25537141 AAGCCAAGTA
* * * * *
25537151 CCTTCGGGATTTA-ACCGGATATAGCT-ACTTGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * *
25537190 CCTTCGAGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
25537230 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAAGG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
25537270 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
25537310 CCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
25537350 CCTTCGGGACTTAGCCC-GAAACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
25537390 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
25537409 TTATCATCCA
Statistics
Matches: 197, Mismatches: 18, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
39 13 0.07
40 183 0.93
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:25538696 original size:50 final size:50
Alignment explanation
Indices: 25538621--25538715 Score: 181
Period size: 50 Copynumber: 1.9 Consensus size: 50
25538611 CCAAGCTCTC
*
25538621 CCCTTCCTTTCTTTCCTCTATTCGGCCAAAGATGTTCAAGAATGATCTTT
1 CCCTTCCTTTCGTTCCTCTATTCGGCCAAAGATGTTCAAGAATGATCTTT
25538671 CCCTTCCTTTCGTTCCTCTATTCGGCCAAAGATGTTCAAGAATGA
1 CCCTTCCTTTCGTTCCTCTATTCGGCCAAAGATGTTCAAGAATGA
25538716 ACACTTTTTT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 44 1.00
ACGTcount: A:0.21, C:0.28, G:0.14, T:0.37
Consensus pattern (50 bp):
CCCTTCCTTTCGTTCCTCTATTCGGCCAAAGATGTTCAAGAATGATCTTT
Found at i:25545213 original size:47 final size:47
Alignment explanation
Indices: 25545152--25545452 Score: 451
Period size: 47 Copynumber: 6.4 Consensus size: 47
25545142 CAGCCAAGAC
*
25545152 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
25545199 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
25545246 AGTGTATATATATGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
25545293 AGTGTATATGTGTGATAAGGTCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
25545340 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* * * * * * *
25545387 AGTGTATATATGTGACAGGGCCGAGT-GGCGAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCG-ATGTGATGAATGTGAA
* *
25545434 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
25545453 TCCCGAAGGG
Statistics
Matches: 232, Mismatches: 21, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
46 3 0.01
47 229 0.99
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
Found at i:25545627 original size:37 final size:37
Alignment explanation
Indices: 25545571--25545649 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
25545561 CCGAGCTCTA
* *
25545571 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
25545608 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
25545645 AAGAC
1 AAGAC
25545650 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:25559685 original size:53 final size:52
Alignment explanation
Indices: 25559572--25559711 Score: 181
Period size: 53 Copynumber: 2.6 Consensus size: 52
25559562 GATACCGTGC
*
25559572 AAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGT
1 AAGACCATGCCAAGGCATGGC-ATTGGTAA-G-TTCTAAGGCAAGGAAACCATGT
* * **
25559627 AAGACCATTCCAAGGCATGGCATTGGTGAGTTCATAAGGCAAGGCTACCATGT
1 AAGACCATGCCAAGGCATGGCATTGGTAAGTTC-TAAGGCAAGGAAACCATGT
* *
25559680 AAGACCATGCCAAGACATGGCAATGGTAAGTT
1 AAGACCATGCCAAGGCATGGCATTGGTAAGTT
25559712 TCAAAAGGAT
Statistics
Matches: 75, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
52 3 0.04
53 45 0.60
54 7 0.09
55 20 0.27
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (52 bp):
AAGACCATGCCAAGGCATGGCATTGGTAAGTTCTAAGGCAAGGAAACCATGT
Found at i:25564666 original size:49 final size:47
Alignment explanation
Indices: 25564492--25565237 Score: 1109
Period size: 47 Copynumber: 15.6 Consensus size: 47
25564482 CCCTTCGGGA
* * * * *
25564492 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
25564539 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * **
25564586 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATGCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATCGGCCATTAGGC
*
25564633 CTTATCACATATATATACACTTTCACATACATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
25564682 CTTATCACATATATCCACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
25564729 CTTATCACATATATCCACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
25564776 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
25564823 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATCGGCCATTAGGC
* *
25564870 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
25564919 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
25564966 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
25565015 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
25565064 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
25565113 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
25565162 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
25565211 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
25565238 TATTCAAATA
Statistics
Matches: 664, Mismatches: 25, Indels: 20
0.94 0.04 0.03
Matches are distributed among these distances:
46 2 0.00
47 334 0.50
49 326 0.49
50 2 0.00
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:25564685 original size:96 final size:95
Alignment explanation
Indices: 25564492--25565237 Score: 1117
Period size: 96 Copynumber: 7.8 Consensus size: 95
25564482 CCCTTCGGGA
* * * * *
25564492 CTTATCAC-ATTTATACACTTCCACATCCATCACATTGGCCATTCGGCCTTATCACATATATACA
1 CTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
* *
25564556 CTTTCACATTCATCACATTGGCCATTCGGC
66 CTTTCACATTCATCACATCGGCCATTAGGC
* * * **
25564586 CTTATCTC-ATATATGCA-TGTTCACATTCATCACATTGGCCATGCGGCCTTATCACATATATAT
1 CTTATCACAATATATACACT-TTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
*
25564649 ACACTTTCACATACATCACATCGGCCATTAGGC
63 ACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
25564682 CTTATCAC-ATATATCCACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATCCA
1 CTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
*
25564746 CTTTCACATTCATCACATCGGCTATTAGGC
66 CTTTCACATTCATCACATCGGCCATTAGGC
* * * *
25564776 CTTATCAC-ATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACACA
1 CTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
* *
25564840 -TGTTCACATTCATCACATTGGCCATTCGGC
66 CT-TTCACATTCATCACATCGGCCATTAGGC
* *
25564870 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACA-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
25564935 ACTTTCACATTCATCACATCGGCCATTAGGC
65 ACTTTCACATTCATCACATCGGCCATTAGGC
25564966 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACA-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
25565031 ACACTTTCACATTCATCACATCGGCCATTAGGC
63 ACACTTTCACATTCATCACATCGGCCATTAGGC
25565064 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACA-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
25565129 ACACTTTCACATTCATCACATCGGCCATTAGGC
63 ACACTTTCACATTCATCACATCGGCCATTAGGC
25565162 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACA-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
25565227 ACTTTCACATT
65 ACTTTCACATT
25565238 TATTCAAATA
Statistics
Matches: 608, Mismatches: 34, Indels: 18
0.92 0.05 0.03
Matches are distributed among these distances:
93 2 0.00
94 173 0.28
96 237 0.39
97 2 0.00
98 194 0.32
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (95 bp):
CTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
CTTTCACATTCATCACATCGGCCATTAGGC
Found at i:25564706 original size:38 final size:42
Alignment explanation
Indices: 25564520--25565224 Score: 467
Period size: 49 Copynumber: 14.8 Consensus size: 42
25564510 TTCCACATCC
* *
25564520 ATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATT
1 ATCACATCGGCCATTAGGCCTTATCACATATAT-C-C--TCACATT
* * * *
25564566 CATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATT
1 -ATCACATCGGCCATTAGGCCTTATCACATATAT-C---CTCACATT
* ** *
25564613 CATCACATTGGCCATGCGGCCTTATCACATATATATACACTTTCACATAC
1 -ATCACATCGGCCATTAGGCCTTATCAC--ATATAT-C-C--TCACAT-T
25564663 ATCACATCGGCCATTAGGCCTTATCACATATATCCACTTTCACATT
1 ATCACATCGGCCATTAGGCCTTATCACATATAT-C-C--TCACATT
*
25564709 CATCACATCGGCTATTAGGCCTTATCACATATATCCACTTTCACATT
1 -ATCACATCGGCCATTAGGCCTTATCACATATAT-C-C--TCACATT
*
25564756 CATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATT
1 -ATCACATCGGCCATTAGGCCTTATCACATATAT-C-C--TCACATT
* * *
25564803 CATCACATTGGCCATTCGGCCTTATCACACATA-CACATGTTCACATT
1 -ATCACATCGGCCATTAGGCCTTATCACATATATC-C----TCACATT
* *
25564850 CATCACATTGGCCATTCGGCCTTATCACATATATATACACTTTCACATT
1 -ATCACATCGGCCATTAGGCCTTATCAC--ATATAT-C-C--TCACATT
* *
25564899 CATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATT
1 -ATCACATCGGCCATTAGGCCTTATCACATATAT-C-C--TCACATT
25564946 CATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATT
1 -ATCACATCGGCCATTAGGCCTTATCAC--ATATAT-C-C--TCACATT
25564995 CATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATT
1 -ATCACATCGGCCATTAGGCCTTATCAC--ATATAT-C-C--TCACATT
25565044 CATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATT
1 -ATCACATCGGCCATTAGGCCTTATCAC--ATATAT-C-C--TCACATT
25565093 CATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATT
1 -ATCACATCGGCCATTAGGCCTTATCAC--ATATAT-C-C--TCACATT
25565142 CATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATT
1 -ATCACATCGGCCATTAGGCCTTATCAC--ATATAT-C-C--TCACATT
25565191 CATCACATCGGCCATTAGGCCTTATCACATATAT
1 -ATCACATCGGCCATTAGGCCTTATCACATATAT
25565225 ACACTTTCAC
Statistics
Matches: 616, Mismatches: 26, Indels: 32
0.91 0.04 0.05
Matches are distributed among these distances:
45 3 0.00
47 290 0.47
49 320 0.52
51 3 0.00
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (42 bp):
ATCACATCGGCCATTAGGCCTTATCACATATATCCTCACATT
Found at i:25566632 original size:85 final size:85
Alignment explanation
Indices: 25566503--25566766 Score: 519
Period size: 85 Copynumber: 3.1 Consensus size: 85
25566493 TATTTTATTG
*
25566503 CCCATGCCCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
25566568 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
25566588 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
25566653 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
25566673 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
25566738 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
25566758 CCCATGCTC
1 CCCATGCTC
25566767 ATGGCCGGCC
Statistics
Matches: 178, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 178 1.00
ACGTcount: A:0.27, C:0.27, G:0.08, T:0.38
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:25568102 original size:40 final size:40
Alignment explanation
Indices: 25568046--25568222 Score: 259
Period size: 40 Copynumber: 4.4 Consensus size: 40
25568036 GATGATAACG
* *
25568046 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
**
25568086 GGGCTAAGTCGTGAAGGCATTTGTGCGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
*
25568126 GGGCTAAATCCCGAAGGCATTTGTGCGAGTTACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCC
**
25568166 GGGCTAAGTCCCGAAGGCATTTGTGCGAACTACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCC
25568206 GGGCTAAGTCCCGAAGG
1 GGGCTAAGTCCCGAAGG
25568223 TACTTGGTTT
Statistics
Matches: 126, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
39 2 0.02
40 124 0.98
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
Found at i:25576472 original size:51 final size:51
Alignment explanation
Indices: 25576409--25576508 Score: 148
Period size: 51 Copynumber: 2.0 Consensus size: 51
25576399 CTACGACATA
* * *
25576409 ACATGTAACACATCCATAATGAACTCGGACCTCTCAATGAGCTCGGATGTT
1 ACATGTAACACATCCACAATGAACTCAGACCTCTCAACGAGCTCGGATGTT
*
25576460 ACATG-AATCACATCCACCATGAACTCAGACCTCTCAACGAGCTCGGATG
1 ACATGTAA-CACATCCACAATGAACTCAGACCTCTCAACGAGCTCGGATG
25576509 CCACATATCT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
50 2 0.05
51 42 0.95
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.22
Consensus pattern (51 bp):
ACATGTAACACATCCACAATGAACTCAGACCTCTCAACGAGCTCGGATGTT
Found at i:25581813 original size:43 final size:46
Alignment explanation
Indices: 25581759--25581876 Score: 163
Period size: 45 Copynumber: 2.7 Consensus size: 46
25581749 CGGGCTTCAG
* *
25581759 GCCTAGCAGGCTATAATGCTGGTGAAATGA-TA-TCG-GGCTTTGA
1 GCCTAGCAGGCTATAATGCCGGTGAAATGATTATTCGAGCCTTTGA
* * *
25581802 GCTTAGTAGGCTATGATGCCGGTGAAAT-ATTATTCGAGCCTTTGA
1 GCCTAGCAGGCTATAATGCCGGTGAAATGATTATTCGAGCCTTTGA
25581847 GCCTAGCAGGCTATAATGCCGGTGAAATGA
1 GCCTAGCAGGCTATAATGCCGGTGAAATGA
25581877 AATGTTATGT
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
42 1 0.02
43 26 0.41
44 3 0.05
45 32 0.51
46 1 0.02
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (46 bp):
GCCTAGCAGGCTATAATGCCGGTGAAATGATTATTCGAGCCTTTGA
Found at i:25582189 original size:38 final size:37
Alignment explanation
Indices: 25582146--25582348 Score: 203
Period size: 38 Copynumber: 5.4 Consensus size: 37
25582136 ATGATATTTG
*
25582146 TATCCGGCTTAAAGACCGCAGGCTAT-ATGCTGG-AATTA
1 TATCCGGGTTAAA-ACCGCAGGCT-TCATGCTGGTAA-TA
* * *
25582184 TATCCGAGTTAAATCCTGCAGGCTTCGTGCTGGTAATA
1 TATCCGGGTTAAAACC-GCAGGCTTCATGCTGGTAATA
* *
25582222 TATCGGGGTTAAATCCCGCAGGCTTCATGCTGGTAATA
1 TATCCGGGTTAAA-ACCGCAGGCTTCATGCTGGTAATA
** *
25582260 TATCCGGGTTAATTCCTGCAGGCTTCGTGCTGGTAATA
1 TATCCGGGTTAAAACC-GCAGGCTTCATGCTGGTAATA
* * * * *
25582298 TATCCGAGTTAAATCCTGCAGGTTTCGTGCTGGTATTA
1 TATCCGGGTTAAAACC-GCAGGCTTCATGCTGGTAATA
25582336 TATCCGGGTTAAA
1 TATCCGGGTTAAA
25582349 TCCCGCAAGC
Statistics
Matches: 143, Mismatches: 17, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
37 5 0.03
38 134 0.94
39 4 0.03
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.32
Consensus pattern (37 bp):
TATCCGGGTTAAAACCGCAGGCTTCATGCTGGTAATA
Found at i:25582349 original size:38 final size:38
Alignment explanation
Indices: 25582173--25582376 Score: 275
Period size: 38 Copynumber: 5.4 Consensus size: 38
25582163 GCAGGCTATA
*
25582173 TGCTGG-AATTATATCCGAGTTAAATCCTGCAGGCTTCG
1 TGCTGGTAA-TATATCCGGGTTAAATCCTGCAGGCTTCG
* * *
25582211 TGCTGGTAATATATCGGGGTTAAATCCCGCAGGCTTCA
1 TGCTGGTAATATATCCGGGTTAAATCCTGCAGGCTTCG
*
25582249 TGCTGGTAATATATCCGGGTTAATTCCTGCAGGCTTCG
1 TGCTGGTAATATATCCGGGTTAAATCCTGCAGGCTTCG
* *
25582287 TGCTGGTAATATATCCGAGTTAAATCCTGCAGGTTTCG
1 TGCTGGTAATATATCCGGGTTAAATCCTGCAGGCTTCG
* * * * *
25582325 TGCTGGTATTATATCCGGGTTAAATCCCGCAAGCCTAG
1 TGCTGGTAATATATCCGGGTTAAATCCTGCAGGCTTCG
*
25582363 TGCTGGTATTATAT
1 TGCTGGTAATATAT
25582377 TCAGGCCTTT
Statistics
Matches: 147, Mismatches: 18, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
38 145 0.99
39 2 0.01
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.33
Consensus pattern (38 bp):
TGCTGGTAATATATCCGGGTTAAATCCTGCAGGCTTCG
Found at i:25582440 original size:45 final size:45
Alignment explanation
Indices: 25582374--25582545 Score: 174
Period size: 45 Copynumber: 3.9 Consensus size: 45
25582364 GCTGGTATTA
* * *
25582374 TATTCAGGCCTTTGAGTCTAGCAGGCTATTATGCCGGTGAGACAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGACAC
* *
25582419 TATTCGGGCCTTTGGGCCTAGCAGGCTATAATGCCGGTGAGATAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGACAC
* * * *
25582464 TATTCGGG-CTTTCGAGCC-AACAGGCTATAATGCCGATGAAATGA-
1 TATTCGGGCCTTT-GAGCCTAGCAGGCTATAATGCCGGTGAGA-CAC
* * * *
25582508 TAATCGGGCC-TCGATCCTAGCAGGCGA-AATGCCGGTGA
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
25582546 TTTTAGAAAA
Statistics
Matches: 107, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
43 14 0.13
44 39 0.36
45 54 0.50
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (45 bp):
TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGACAC
Found at i:25586839 original size:50 final size:49
Alignment explanation
Indices: 25586720--25586943 Score: 194
Period size: 50 Copynumber: 4.6 Consensus size: 49
25586710 TGATATGTGT
25586720 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-C-ACATTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTCGACA-TATGAGA
* * * *
25586766 GCCAATGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGACT-TGAAA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-CTCGACA-TATGAGA
* ** *
25586816 GCTAGTGTAAGACCATGTTTGGGACATGGCATCAGTTTCGATATATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATC-GGCTCGACATATGAGA
* * * **
25586866 G-TCAGTGTAAGACCATGTTTGGGACATGGCATCGACTTTGATGTAT--GA
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGC-TCGACATATGAGA
* * *
25586914 GCCAGTGTAAGACCATGTCTTGGACGTGGC
1 GCTAGTGTAAGACCATGTCTGGGACATGGC
25586944 GTCTGCATCT
Statistics
Matches: 148, Mismatches: 20, Indels: 18
0.80 0.11 0.10
Matches are distributed among these distances:
46 10 0.07
47 14 0.09
48 34 0.23
49 4 0.03
50 82 0.55
51 4 0.03
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (49 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTCGACATATGAGA
Found at i:25586876 original size:100 final size:96
Alignment explanation
Indices: 25586720--25586899 Score: 252
Period size: 100 Copynumber: 1.8 Consensus size: 96
25586710 TGATATGTGT
*
25586720 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAATGTAAGACCATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCCAATGTAAGACCATGTC
25586785 TGGGACATGGCATCGGCCTCGAGACTTGAAA
66 TGGGACATGGCATCGGCCTCGAGACTTGAAA
* *** * *
25586816 GCTAGTGTAAGACCATGTTTGGGACATGGCATCAGTTTCGATATATGAGAGTCAGTGTAAGACCA
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCAC-AT-TATGAGAGCCAATGTAAGACCA
*
25586881 TGTTTGGGACATGGCATCG
62 TGTCTGGGACATGGCATCG
25586900 ACTTTGATGT
Statistics
Matches: 72, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
96 12 0.17
97 13 0.18
98 7 0.10
99 2 0.03
100 38 0.53
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (96 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCCAATGTAAGACCATGTC
TGGGACATGGCATCGGCCTCGAGACTTGAAA
Found at i:25596763 original size:20 final size:21
Alignment explanation
Indices: 25596727--25596772 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
25596717 AGAGCGAAAG
*
25596727 GAAC-AAG-AAATGTGCCAAA
1 GAACAAAGAAAATGGGCCAAA
25596746 -AACAAAGAAAATGGGCCAAA
1 GAACAAAGAAAATGGGCCAAA
25596766 GAACAAA
1 GAACAAA
25596773 ATCAACATGG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 3 0.13
19 3 0.13
20 11 0.48
21 6 0.26
ACGTcount: A:0.59, C:0.15, G:0.20, T:0.07
Consensus pattern (21 bp):
GAACAAAGAAAATGGGCCAAA
Found at i:25610465 original size:51 final size:51
Alignment explanation
Indices: 25610388--25610586 Score: 301
Period size: 51 Copynumber: 3.9 Consensus size: 51
25610378 AGGATACACG
* *
25610388 GTGGCCTTCACATAGTACCACCCTTGTAG-CCAAAGTTATTTTATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGT-GTCCAAAGCTATTTTATTCACAAA
25610439 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
* * * * * *
25610490 GTGGCTTTGACATAGTACCACTCTTGTGTCCAAAGATATTATATTTACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
*
25610541 GTGACCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTC
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTC
25610587 CTAAGGTTCA
Statistics
Matches: 132, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
50 1 0.01
51 131 0.99
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (51 bp):
GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
Found at i:25610647 original size:28 final size:28
Alignment explanation
Indices: 25610614--25610704 Score: 109
Period size: 28 Copynumber: 3.4 Consensus size: 28
25610604 AATTTCTCAT
*
25610614 TTAGCACAATGCCATGGACTTATTTCAG
1 TTAGCACAATGCCATGGACTTATTTCAC
* *
25610642 TTAGCACATTGTCATGGACTTATTTCAC
1 TTAGCACAATGCCATGGACTTATTTCAC
*
25610670 TTAG----ATGCCATGGTCTTATTTCAC
1 TTAGCACAATGCCATGGACTTATTTCAC
*
25610694 TTAGCATAATG
1 TTAGCACAATG
25610705 TAATATCCTA
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
24 21 0.40
28 32 0.60
ACGTcount: A:0.26, C:0.20, G:0.16, T:0.37
Consensus pattern (28 bp):
TTAGCACAATGCCATGGACTTATTTCAC
Found at i:25610687 original size:24 final size:25
Alignment explanation
Indices: 25610622--25610700 Score: 97
Period size: 24 Copynumber: 3.1 Consensus size: 25
25610612 ATTTAGCACA
*
25610622 ATGCCATGGACTTATTTCAGTTAGCAC
1 ATGCCATGGACTTATTTCACTTAG--C
*
25610649 ATTGTCATGGACTTATTTCACTTAG-
1 A-TGCCATGGACTTATTTCACTTAGC
*
25610674 ATGCCATGGTCTTATTTCACTTAGC
1 ATGCCATGGACTTATTTCACTTAGC
25610699 AT
1 AT
25610701 AATGTAATAT
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
24 21 0.46
25 3 0.07
27 1 0.02
28 21 0.46
ACGTcount: A:0.24, C:0.20, G:0.16, T:0.39
Consensus pattern (25 bp):
ATGCCATGGACTTATTTCACTTAGC
Found at i:25616536 original size:37 final size:37
Alignment explanation
Indices: 25616494--25616573 Score: 142
Period size: 37 Copynumber: 2.2 Consensus size: 37
25616484 AATTTTACTC
25616494 AACAATTATTCTATGATTCCTAAGGAATTTAGGCTCT
1 AACAATTATTCTATGATTCCTAAGGAATTTAGGCTCT
* *
25616531 GACAATTCTTCTATGATTCCTAAGGAATTTAGGCTCT
1 AACAATTATTCTATGATTCCTAAGGAATTTAGGCTCT
25616568 AACAAT
1 AACAAT
25616574 GGTCGATTGT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (37 bp):
AACAATTATTCTATGATTCCTAAGGAATTTAGGCTCT
Found at i:25617527 original size:27 final size:27
Alignment explanation
Indices: 25617497--25617683 Score: 173
Period size: 27 Copynumber: 6.9 Consensus size: 27
25617487 CCTGTAGGGT
*
25617497 AAAATGACAGTTTTGCCCTTATGTGGC
1 AAAATGACAGTTTTGCCCTTATGTGTC
*
25617524 AAAATGACAGTTTTGCCCTTATGTGGC
1 AAAATGACAGTTTTGCCCTTATGTGTC
* *
25617551 AAAATGACTA-TTTTGCCCTTATTTGTT
1 AAAATGAC-AGTTTTGCCCTTATGTGTC
* * *
25617578 AAATTGA-TGATTTTGCCCTTATGTGAC
1 AAAATGACAG-TTTTGCCCTTATGTGTC
* * * *
25617605 AAAATGACTA-TTTTTCCTTTATGCGTT
1 AAAATGAC-AGTTTTGCCCTTATGTGTC
* ** *
25617632 AAATTGATGGTTTTACCCTTATGTGTC
1 AAAATGACAGTTTTGCCCTTATGTGTC
* *
25617659 AAAATGACATTTTTGCCCCTATGTG
1 AAAATGACAGTTTTGCCCTTATGTG
25617684 ATGTATGTTT
Statistics
Matches: 126, Mismatches: 28, Indels: 12
0.76 0.17 0.07
Matches are distributed among these distances:
27 125 0.99
28 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.41
Consensus pattern (27 bp):
AAAATGACAGTTTTGCCCTTATGTGTC
Found at i:25617651 original size:81 final size:81
Alignment explanation
Indices: 25617497--25617684 Score: 193
Period size: 81 Copynumber: 2.3 Consensus size: 81
25617487 CCTGTAGGGT
* * *
25617497 AAAATGACAGTTTTGCCCTTATGTGGCAAAATGACAGTTTTGCCCTTATGTGGCAAAATGACTAT
1 AAAATGACATTTTTGCCCTTATGTGACAAAATGACAGTTTTGCCCTTATGCGGCAAAATGACTAT
* * *
25617562 TTTGCCCTTATTTGTT
66 TTTACCCTTATGTGTC
* * * * ** *
25617578 AAATTGATGA-TTTTGCCCTTATGTGACAAAATGACTA-TTTTTCCTTTATGCGTTAAATTGA-T
1 AAAATGA-CATTTTTGCCCTTATGTGACAAAATGAC-AGTTTTGCCCTTATGCGGCAAAATGACT
*
25617640 GGTTTTACCCTTATGTGTC
64 -ATTTTACCCTTATGTGTC
*
25617659 AAAATGACATTTTTGCCCCTATGTGA
1 AAAATGACATTTTTGCCCTTATGTGA
25617685 TGTATGTTTA
Statistics
Matches: 87, Mismatches: 16, Indels: 8
0.78 0.14 0.07
Matches are distributed among these distances:
80 2 0.02
81 83 0.95
82 2 0.02
ACGTcount: A:0.26, C:0.16, G:0.17, T:0.40
Consensus pattern (81 bp):
AAAATGACATTTTTGCCCTTATGTGACAAAATGACAGTTTTGCCCTTATGCGGCAAAATGACTAT
TTTACCCTTATGTGTC
Found at i:25618559 original size:27 final size:27
Alignment explanation
Indices: 25618542--25618607 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
25618532 AAATTATTGG
*
25618542 AATACCCTTGTAGTGTAAAATGACCGT
1 AATACCCTTGTAGTGTAAAATGACTGT
* *
25618569 AATGCCCTTGTAGTGTAAAATGAGTGT
1 AATACCCTTGTAGTGTAAAATGACTGT
*
25618596 AATACCTTTGTA
1 AATACCCTTGTA
25618608 TGGTAGAATG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.33
Consensus pattern (27 bp):
AATACCCTTGTAGTGTAAAATGACTGT
Found at i:25618888 original size:22 final size:22
Alignment explanation
Indices: 25618853--25618895 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
25618843 TTGCGATATT
* *
25618853 TACGGCCTTTAGCCGTCCTGTC
1 TACGGCATTGAGCCGTCCTGTC
25618875 TACGGCATTGAGCCGTCCTGT
1 TACGGCATTGAGCCGTCCTGT
25618896 TGACTTAGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.12, C:0.33, G:0.26, T:0.30
Consensus pattern (22 bp):
TACGGCATTGAGCCGTCCTGTC
Found at i:25620267 original size:43 final size:43
Alignment explanation
Indices: 25620219--25620376 Score: 167
Period size: 43 Copynumber: 3.7 Consensus size: 43
25620209 ATTACCGAGA
* * *
25620219 TGTGATTACATGTAAGACCATGTTTGGGACATTGACATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
**
25620262 TGTGATTATGTGTAAGACCATGTCTGGGACATTGGCATCGTTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCG-TAT
* * * * * *
25620306 T-CGATTTCGTGTAAGACCCTATCTGGGACAGTGGCATCG-AT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* *
25620347 ATGTGATAACATGTAAGACCATATCTGGGA
1 -TGTGATTACATGTAAGACCATGTCTGGGA
25620377 TATCGTATTG
Statistics
Matches: 96, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
41 2 0.02
42 1 0.01
43 89 0.93
44 4 0.04
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
Found at i:25624589 original size:11 final size:11
Alignment explanation
Indices: 25624573--25624599 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
25624563 GGTAAATTGA
25624573 TTGATTATTCT
1 TTGATTATTCT
25624584 TTGATTATTCT
1 TTGATTATTCT
25624595 TTGAT
1 TTGAT
25624600 GATAACTAAA
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:0.07, G:0.11, T:0.63
Consensus pattern (11 bp):
TTGATTATTCT
Found at i:25624967 original size:20 final size:20
Alignment explanation
Indices: 25624939--25624997 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 20
25624929 TTTCAAAATT
*
25624939 AAGTGAAAATGATTTTAACC
1 AAGTCAAAATGATTTTAACC
* *
25624959 AAGTCAAAATGATTTCAATC
1 AAGTCAAAATGATTTTAACC
* * *
25624979 AAGTTAAACTCATTTTAAC
1 AAGTCAAAATGATTTTAAC
25624998 ACATCAAAAC
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.44, C:0.14, G:0.10, T:0.32
Consensus pattern (20 bp):
AAGTCAAAATGATTTTAACC
Found at i:25626261 original size:29 final size:29
Alignment explanation
Indices: 25626224--25626291 Score: 100
Period size: 29 Copynumber: 2.3 Consensus size: 29
25626214 TTGGCACTTA
* *
25626224 GGTTGAATGTTTTGGCATGTGTTAGGCGT
1 GGTTTAATGTTTTGGCATGTGTTAGGCAT
*
25626253 GGTTTAATGTTTTGGCATGTGTTGGGCAT
1 GGTTTAATGTTTTGGCATGTGTTAGGCAT
*
25626282 GTTTTAATGT
1 GGTTTAATGT
25626292 GTTTTTAAAG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.15, C:0.06, G:0.34, T:0.46
Consensus pattern (29 bp):
GGTTTAATGTTTTGGCATGTGTTAGGCAT
Found at i:25626788 original size:17 final size:17
Alignment explanation
Indices: 25626756--25626788 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
25626746 TTATTAAATG
25626756 AGTAGTTTAATGATGTA
1 AGTAGTTTAATGATGTA
25626773 AGTAGCTTTAAT-ATGT
1 AGTAG-TTTAATGATGT
25626789 GTTGTAATAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.33, C:0.03, G:0.21, T:0.42
Consensus pattern (17 bp):
AGTAGTTTAATGATGTA
Found at i:25627519 original size:75 final size:75
Alignment explanation
Indices: 25627440--25627683 Score: 391
Period size: 75 Copynumber: 3.2 Consensus size: 75
25627430 TGTTCTAGAG
* **
25627440 TTTCTTCTGTGAATAAAAATGTTGTACTTATTGATGTTCTA-CAATAATAAGGCGTGGGCATGCC
1 TTTCTTCTGTGAACAAAAATGTTGTACTTCCTGATGTTC-AGCAATAATAAGGCGTGGGCATGCC
25627504 TTAATCTTGAA
65 TTAATCTTGAA
* *
25627515 TTTCTTCTGTGAAAAAAAAATGTTGTACTTCCTAATGTTCAGCAATAATAAGGCGTGGGCATGCC
1 TTTCTTCTGTG-AACAAAAATGTTGTACTTCCTGATGTTCAGCAATAATAAGGCGTGGGCATGCC
25627580 TTAATCTTGAA
65 TTAATCTTGAA
*
25627591 TTTTTTCTGTGAACAAAAATGTTGTACTTCCTGATGTTCAGCAATAATAAGGCGTGGGCATGCCT
1 TTTCTTCTGTGAACAAAAATGTTGTACTTCCTGATGTTCAGCAATAATAAGGCGTGGGCATGCCT
*
25627656 TATTCTTGAA
66 TAATCTTGAA
*
25627666 TTTCTTCTATGAACAAAA
1 TTTCTTCTGTGAACAAAA
25627684 CTGTGTTACA
Statistics
Matches: 157, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
75 89 0.57
76 68 0.43
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.37
Consensus pattern (75 bp):
TTTCTTCTGTGAACAAAAATGTTGTACTTCCTGATGTTCAGCAATAATAAGGCGTGGGCATGCCT
TAATCTTGAA
Found at i:25627712 original size:75 final size:75
Alignment explanation
Indices: 25627410--25627683 Score: 388
Period size: 75 Copynumber: 3.6 Consensus size: 75
25627400 GAAGTTTAAG
* * * * * * * **
25627410 AATAAGCCGTAGGCACGCCTTGTTCTAGAGTTTCTTCTGTGAATAAAAATGTTGTACTTATTGAT
1 AATAAGGCGTGGGCATGCCTTATTCTTGAATTTCTTCTGTGAACAAAAATGTTGTACTTCCTGAT
25627475 GTTCTA-CAAT
66 GTTC-AGCAAT
* * *
25627485 AATAAGGCGTGGGCATGCCTTAATCTTGAATTTCTTCTGTGAAAAAAAAATGTTGTACTTCCTAA
1 AATAAGGCGTGGGCATGCCTTATTCTTGAATTTCTTCTGTG-AACAAAAATGTTGTACTTCCTGA
25627550 TGTTCAGCAAT
65 TGTTCAGCAAT
* *
25627561 AATAAGGCGTGGGCATGCCTTAATCTTGAATTTTTTCTGTGAACAAAAATGTTGTACTTCCTGAT
1 AATAAGGCGTGGGCATGCCTTATTCTTGAATTTCTTCTGTGAACAAAAATGTTGTACTTCCTGAT
25627626 GTTCAGCAAT
66 GTTCAGCAAT
*
25627636 AATAAGGCGTGGGCATGCCTTATTCTTGAATTTCTTCTATGAACAAAA
1 AATAAGGCGTGGGCATGCCTTATTCTTGAATTTCTTCTGTGAACAAAA
25627684 CTGTGTTACA
Statistics
Matches: 180, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
75 112 0.62
76 68 0.38
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (75 bp):
AATAAGGCGTGGGCATGCCTTATTCTTGAATTTCTTCTGTGAACAAAAATGTTGTACTTCCTGAT
GTTCAGCAAT
Found at i:25629826 original size:42 final size:43
Alignment explanation
Indices: 25629775--25629856 Score: 139
Period size: 42 Copynumber: 1.9 Consensus size: 43
25629765 TCTCATAATG
25629775 ATGAACTCAGACCACAACTC-ATGAGTTCAAATCACATAAATC
1 ATGAACTCAGACCACAACTCAATGAGTTCAAATCACATAAATC
* *
25629817 ATGAACTCAGACCACAACTCAATGAGTTTAGATCACATAA
1 ATGAACTCAGACCACAACTCAATGAGTTCAAATCACATAA
25629857 TTTTCCCTAG
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
42 20 0.54
43 17 0.46
ACGTcount: A:0.43, C:0.24, G:0.11, T:0.22
Consensus pattern (43 bp):
ATGAACTCAGACCACAACTCAATGAGTTCAAATCACATAAATC
Found at i:25629832 original size:22 final size:21
Alignment explanation
Indices: 25629775--25629833 Score: 57
Period size: 22 Copynumber: 2.8 Consensus size: 21
25629765 TCTCATAATG
*
25629775 ATGAACTCAGACCAC-AACTC
1 ATGAACTCAGACCACAAAATC
** * *
25629795 ATGAGTTCAAATCACATAAATC
1 ATGAACTCAGACCACA-AAATC
25629817 ATGAACTCAGACCACAA
1 ATGAACTCAGACCACAA
25629834 CTCAATGAGT
Statistics
Matches: 28, Mismatches: 9, Indels: 3
0.70 0.22 0.08
Matches are distributed among these distances:
20 11 0.39
21 1 0.04
22 16 0.57
ACGTcount: A:0.44, C:0.27, G:0.10, T:0.19
Consensus pattern (21 bp):
ATGAACTCAGACCACAAAATC
Found at i:25635873 original size:21 final size:20
Alignment explanation
Indices: 25635849--25635888 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
25635839 TATGATCTTT
25635849 AATGATTGATGATAGATTATG
1 AATGATTGATGATAG-TTATG
*
25635870 AATGTTTGATGATAGTTAT
1 AATGATTGATGATAGTTAT
25635889 ATAAGTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.35, C:0.00, G:0.23, T:0.42
Consensus pattern (20 bp):
AATGATTGATGATAGTTATG
Found at i:25635896 original size:20 final size:21
Alignment explanation
Indices: 25635854--25635896 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
25635844 TCTTTAATGA
*
25635854 TTGATGATAGATTATGAATGT
1 TTGATGATAGATTATGAAAGT
25635875 TTGATGATAG-TTAT-ATAAGT
1 TTGATGATAGATTATGA-AAGT
25635895 TT
1 TT
25635897 TGTTAAGTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 9 0.45
21 10 0.50
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.47
Consensus pattern (21 bp):
TTGATGATAGATTATGAAAGT
Found at i:25638229 original size:43 final size:42
Alignment explanation
Indices: 25638121--25638218 Score: 119
Period size: 42 Copynumber: 2.3 Consensus size: 42
25638111 ACATAGGATT
*
25638121 TCGATATGTGATTTCGTGTAAGACCATGTTTGGGACATCGACA
1 TCGATATGTGA-TTCGTGTAAGACCATGTCTGGGACATCGACA
* * *
25638164 TC-ATATATGAGTTCGTGTAAGACCCTGTCTGGGACAGT-GGCA
1 TCGATATGTGA-TTCGTGTAAGACCATGTCTGGGACA-TCGACA
25638206 TCGATATGTGATT
1 TCGATATGTGATT
25638219 ACAGGTAAGA
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
42 37 0.79
43 10 0.21
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (42 bp):
TCGATATGTGATTCGTGTAAGACCATGTCTGGGACATCGACA
Found at i:25645925 original size:30 final size:30
Alignment explanation
Indices: 25645890--25645946 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
25645880 CGAGACTAGA
*
25645890 GGCAAAATCATAATTTTGCAAAGGTTTAGG
1 GGCAAAATCATAATTTTGCAAAAGTTTAGG
** *
25645920 GGCAAAATTGTAATTTTTCAAAAGTTT
1 GGCAAAATCATAATTTTGCAAAAGTTT
25645947 GTGTTAGGGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (30 bp):
GGCAAAATCATAATTTTGCAAAAGTTTAGG
Found at i:25646823 original size:54 final size:54
Alignment explanation
Indices: 25646759--25647181 Score: 742
Period size: 54 Copynumber: 7.9 Consensus size: 54
25646749 TTGGTAAGAG
*
25646759 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGAAATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
25646813 AAGGAAATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGAAATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
25646867 AAGGAAATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGAAATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
25646921 AAGGAAATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGAAATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
25646975 AAGGAAATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGAAATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
25647029 AAGGAAATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGAAATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
*
25647083 AAGGAAATCATGTAAGACCATGCCAAGGCATGGCATTTG-TGAGTT-TATAAGGC
1 AAGGAAATCATGTAAGACCATGCCAAGGCATGGCA-TTGATAAGTTCTATAAGGC
* * * * * * *
25647136 AAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTTC
1 AAGGAAATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTC
25647182 AAAAAGGAAA
Statistics
Matches: 357, Mismatches: 9, Indels: 6
0.96 0.02 0.02
Matches are distributed among these distances:
52 2 0.01
53 43 0.12
54 309 0.87
55 3 0.01
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.22
Consensus pattern (54 bp):
AAGGAAATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
Found at i:25649084 original size:3 final size:3
Alignment explanation
Indices: 25649076--25649105 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
25649066 AGTATAGCAA
25649076 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
25649106 CACAACTCTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:25653834 original size:37 final size:37
Alignment explanation
Indices: 25653784--25653862 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
25653774 TTATTACGAA
* *
25653784 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
25653821 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
25653858 GTCTT
1 GTCTT
25653863 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:25654059 original size:47 final size:47
Alignment explanation
Indices: 25653981--25654595 Score: 1059
Period size: 47 Copynumber: 13.1 Consensus size: 47
25653971 CCCTTCGGGA
** * * * * * * *
25653981 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
* * *
25654028 CCTGTCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
25654075 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
* *
25654122 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
* *
25654169 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
25654216 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
25654263 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
25654310 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
25654357 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
25654404 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
25654451 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
25654498 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
* *
25654545 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
25654592 CTTA
1 CTTA
25654596 CTATCATTTC
Statistics
Matches: 547, Mismatches: 21, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 547 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
Found at i:25661351 original size:28 final size:28
Alignment explanation
Indices: 25661311--25661374 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
25661301 CGGGAAGTAG
*
25661311 TTGGGCCTGATGGGCCATATGAA-TGTGA
1 TTGGGCCTGATGGGCCATATGAACT-AGA
*
25661339 TTGGGCCTGATGGGCCATGTGAACTAGA
1 TTGGGCCTGATGGGCCATATGAACTAGA
25661367 TTGGGCCT
1 TTGGGCCT
25661375 AAAGGGGCCA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
28 32 0.97
29 1 0.03
ACGTcount: A:0.19, C:0.17, G:0.36, T:0.28
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATATGAACTAGA
Found at i:25661721 original size:27 final size:27
Alignment explanation
Indices: 25661691--25661924 Score: 185
Period size: 27 Copynumber: 8.7 Consensus size: 27
25661681 TAATAAAGAG
*
25661691 AAATTACCGAAATACCCCTGGTTTGTA
1 AAATTATCGAAATACCCCTGGTTTGTA
* * ***
25661718 AAATTACCGAAGTACCCCCAATTTGTA
1 AAATTATCGAAATACCCCTGGTTTGTA
**
25661745 AAATTATCGAAATACCCCCAGTTTGTA
1 AAATTATCGAAATACCCCTGGTTTGTA
* ** *
25661772 AAATTA-CCAAAGTA-CCCTCAATTTATA
1 AAATTATCGAAA-TACCCCT-GGTTTGTA
*
25661799 AAATTATCAAAATA-CCCTCGGTTTGTA
1 AAATTATCGAAATACCCCT-GGTTTGTA
* * *
25661826 AAATTA-CTGAAACACCCCCGATTTGTA
1 AAATTATC-GAAATACCCCTGGTTTGTA
* *
25661853 AAATTATCGAAATA-CCCTTGTAGTGTA
1 AAATTATCGAAATACCCCTGGT-TTGTA
* *
25661880 AAATTATTGAAATACCCCT-G-TAGTA
1 AAATTATCGAAATACCCCTGGTTTGTA
*
25661905 AAATTATTGAAATACCCCTG
1 AAATTATCGAAATACCCCTG
25661925 TAGTGTAAAA
Statistics
Matches: 171, Mismatches: 27, Indels: 19
0.79 0.12 0.09
Matches are distributed among these distances:
25 22 0.13
26 12 0.07
27 125 0.73
28 12 0.07
ACGTcount: A:0.38, C:0.21, G:0.11, T:0.30
Consensus pattern (27 bp):
AAATTATCGAAATACCCCTGGTTTGTA
Found at i:25661773 original size:54 final size:54
Alignment explanation
Indices: 25661691--25661869 Score: 250
Period size: 54 Copynumber: 3.3 Consensus size: 54
25661681 TAATAAAGAG
* *
25661691 AAATTACCGAAATACCCCTGGTTTGTAAAATTACCGAAGTACCCCCAATTTGTA
1 AAATTATCGAAATACCCCCGGTTTGTAAAATTACCGAAGTACCCCCAATTTGTA
* * * *
25661745 AAATTATCGAAATACCCCCAGTTTGTAAAATTACCAAAGTACCCTCAATTTATA
1 AAATTATCGAAATACCCCCGGTTTGTAAAATTACCGAAGTACCCCCAATTTGTA
* * * ** *
25661799 AAATTATCAAAATACCCTCGGTTTGTAAAATTACTGAAACACCCCCGATTTGTA
1 AAATTATCGAAATACCCCCGGTTTGTAAAATTACCGAAGTACCCCCAATTTGTA
25661853 AAATTATCGAAATACCC
1 AAATTATCGAAATACCC
25661870 TTGTAGTGTA
Statistics
Matches: 108, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 108 1.00
ACGTcount: A:0.39, C:0.23, G:0.10, T:0.28
Consensus pattern (54 bp):
AAATTATCGAAATACCCCCGGTTTGTAAAATTACCGAAGTACCCCCAATTTGTA
Found at i:25661870 original size:54 final size:54
Alignment explanation
Indices: 25661691--25661921 Score: 240
Period size: 54 Copynumber: 4.3 Consensus size: 54
25661681 TAATAAAGAG
* * *
25661691 AAATTACCGAAATACCC-CTGGTTTGTAAAATTACCGAAGTACCCCCAATTTGTA
1 AAATTATCGAAATACCCTC-GGTTTGTAAAATTACTGAAATACCCCCAATTTGTA
* * * * *
25661745 AAATTATCGAAATACCCCCAGTTTGTAAAATTAC-CAAAGTACCCTCAATTTATA
1 AAATTATCGAAATACCCTCGGTTTGTAAAATTACTGAAA-TACCCCCAATTTGTA
* * *
25661799 AAATTATCAAAATACCCTCGGTTTGTAAAATTACTGAAACACCCCCGATTTGTA
1 AAATTATCGAAATACCCTCGGTTTGTAAAATTACTGAAATACCCCCAATTTGTA
* * * *
25661853 AAATTATCGAAATACCCT-TGTAGTGTAAAATTATTGAAATA-CCCC--TGTAGTA
1 AAATTATCGAAATACCCTCGGT-TTGTAAAATTACTGAAATACCCCCAAT-TTGTA
*
25661905 AAATTATTGAAATACCC
1 AAATTATCGAAATACCC
25661922 CTGTAGTGTA
Statistics
Matches: 151, Mismatches: 21, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
51 1 0.01
52 20 0.13
53 8 0.05
54 118 0.78
55 4 0.03
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.30
Consensus pattern (54 bp):
AAATTATCGAAATACCCTCGGTTTGTAAAATTACTGAAATACCCCCAATTTGTA
Found at i:25662412 original size:11 final size:11
Alignment explanation
Indices: 25662396--25662421 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
25662386 ATTGCATGTA
25662396 TGATATTATTG
1 TGATATTATTG
25662407 TGATATTATTG
1 TGATATTATTG
25662418 TGAT
1 TGAT
25662422 GTAGGCTTCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.19, T:0.54
Consensus pattern (11 bp):
TGATATTATTG
Found at i:25668037 original size:28 final size:28
Alignment explanation
Indices: 25667942--25668048 Score: 112
Period size: 27 Copynumber: 3.9 Consensus size: 28
25667932 CTTCCAGAAT
* * * *
25667942 AGATA-TTGTGACAGAGTCACCAGATAC
1 AGATATTTGTGGCATAGCCACCAGAAAC
* *
25667969 AGATA-TTGTGGCAGAGCCACCAG-AAT
1 AGATATTTGTGGCATAGCCACCAGAAAC
*
25667995 AGATATTTCTGGCATAGCCACCAGAAAC
1 AGATATTTGTGGCATAGCCACCAGAAAC
* *
25668023 AGGTATTTGTGGCATAGCCTCCAGAA
1 AGATATTTGTGGCATAGCCACCAGAA
25668049 CGCTTCCTCC
Statistics
Matches: 68, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.09
27 37 0.54
28 25 0.37
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.22
Consensus pattern (28 bp):
AGATATTTGTGGCATAGCCACCAGAAAC
Found at i:25675064 original size:36 final size:36
Alignment explanation
Indices: 25675024--25675098 Score: 141
Period size: 36 Copynumber: 2.1 Consensus size: 36
25675014 ATTAGCCCAT
25675024 TTATGTGTTTTTGAATAAATTTGATTGAATATGAGA
1 TTATGTGTTTTTGAATAAATTTGATTGAATATGAGA
*
25675060 TTATGTGTTTTTGGATAAATTTGATTGAATATGAGA
1 TTATGTGTTTTTGAATAAATTTGATTGAATATGAGA
25675096 TTA
1 TTA
25675099 AATAAGTTAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.20, T:0.48
Consensus pattern (36 bp):
TTATGTGTTTTTGAATAAATTTGATTGAATATGAGA
Found at i:25677994 original size:46 final size:46
Alignment explanation
Indices: 25677944--25678119 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
25677934 TGGTTGAGCA
25677944 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
25677990 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
25678035 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
25678083 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
25678120 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:25678100 original size:93 final size:93
Alignment explanation
Indices: 25677941--25678112 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
25677931 GGATGGTTGA
* *
25677941 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
25678006 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
25678034 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
25678099 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
25678113 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:25685570 original size:46 final size:46
Alignment explanation
Indices: 25685520--25685881 Score: 357
Period size: 46 Copynumber: 7.8 Consensus size: 46
25685510 TGATTGAGCA
* *
25685520 TCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGG
* * * *
25685566 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAGATGTAT-C-TAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATGCGAAGG
*
25685611 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGG
* * * *
25685659 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAGATGTAT-C-TAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATGCGAAGG
*
25685704 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGG
* * * *
25685752 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAGATGTAT-C-TAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATGCGAAGG
* *
25685797 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGG
* *
25685845 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
25685882 GCGGGTTACA
Statistics
Matches: 260, Mismatches: 34, Indels: 44
0.77 0.10 0.13
Matches are distributed among these distances:
45 11 0.04
46 136 0.52
47 104 0.40
48 9 0.03
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGG
Found at i:25685632 original size:47 final size:47
Alignment explanation
Indices: 25685566--25685827 Score: 324
Period size: 47 Copynumber: 5.6 Consensus size: 47
25685556 GATGCGAATG
25685566 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTATCTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTATCTAGGCA
* * * * *
25685613 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATGCGAATG--
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAGATGTAT-C-TAGGCA
25685659 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTATCTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTATCTAGGCA
* * * * *
25685706 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATGCGAATG--
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAGATGTAT-C-TAGGCA
25685752 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTATCTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTATCTAGGCA
25685799 TCCGAACTCGTTGAGTTGAGTCCGAGTTC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC
25685828 ACTTATGGAT
Statistics
Matches: 181, Mismatches: 20, Indels: 28
0.79 0.09 0.12
Matches are distributed among these distances:
45 6 0.03
46 70 0.39
47 99 0.55
48 6 0.03
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTATCTAGGCA
Found at i:25685676 original size:93 final size:93
Alignment explanation
Indices: 25685517--25685874 Score: 664
Period size: 93 Copynumber: 3.8 Consensus size: 93
25685507 GGATGATTGA
*
25685517 GCATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
25685582 TGAGTCCGAGTTCGTGAGATGTATCTAG
66 TGAGTCCGAGTTCGTGAGATGTATCTAG
25685610 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
25685675 TGAGTCCGAGTTCGTGAGATGTATCTAG
66 TGAGTCCGAGTTCGTGAGATGTATCTAG
25685703 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
25685768 TGAGTCCGAGTTCGTGAGATGTATCTAG
66 TGAGTCCGAGTTCGTGAGATGTATCTAG
* * *
25685796 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC-GAACTCGTTGAG
25685860 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
25685875 CTTATGGGCG
Statistics
Matches: 260, Mismatches: 4, Indels: 2
0.98 0.02 0.01
Matches are distributed among these distances:
92 2 0.01
93 258 0.99
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTATCTAG
Found at i:25700843 original size:40 final size:40
Alignment explanation
Indices: 25700797--25701082 Score: 421
Period size: 40 Copynumber: 7.2 Consensus size: 40
25700787 CCGAATACAC
* * * *
25700797 ATCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
* * * *
25700837 AACACCAGCACGAGTGCTCTTCGGGACTTAACCCTGG-TAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCC-GGATAT
* * * *
25700877 AACTCTAGCACGAATGCTCTTCGAGACTTAGCCCGGGTAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
25700917 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
25700957 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
*
25700997 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCTGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
* *
25701037 ATCACTAGCACGAATGCTATTCGGGACTTAGCCCAGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
25701077 ATCACT
1 ATCACT
25701083 CTCAATTCTC
Statistics
Matches: 226, Mismatches: 18, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 2 0.01
40 222 0.98
41 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
Found at i:25702419 original size:37 final size:37
Alignment explanation
Indices: 25702364--25703206 Score: 1641
Period size: 37 Copynumber: 22.8 Consensus size: 37
25702354 CGAATAGTCC
* * * * *
25702364 CCACTCGTAGTTAGCGGGTCTCACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
25702401 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
25702438 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
25702475 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
25702512 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
25702549 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
25702586 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
25702623 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
25702660 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
25702697 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
25702734 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
25702771 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
25702808 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
25702845 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
25702882 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
25702919 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
25702956 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
25702993 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
25703030 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
25703067 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
25703104 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
25703141 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
25703178 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
25703207 ATATATTTCC
Statistics
Matches: 801, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
37 801 1.00
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.24
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
Found at i:25712447 original size:40 final size:40
Alignment explanation
Indices: 25712366--25712542 Score: 227
Period size: 40 Copynumber: 4.5 Consensus size: 40
25712356 CAACCAAGTA
* * *
25712366 CCTTCGGGATTTAG-CCGGACATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
25712405 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
25712445 CCTTCGGGACTTAGCCCGGATATAGTAACT-GCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
25712484 CCTTCGGGGCTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
* *
25712524 CCGTCGGGGCTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
25712543 TTATCATCCG
Statistics
Matches: 126, Mismatches: 8, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
38 1 0.01
39 49 0.39
40 76 0.60
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:25712497 original size:79 final size:80
Alignment explanation
Indices: 25712366--25712542 Score: 227
Period size: 79 Copynumber: 2.2 Consensus size: 80
25712356 CAACCAAGTA
* * *
25712366 CCTTCGGGATTTAG-CCGGACATAGCTACTCGCTCAAATGCCTTCGGGACTTAGCCCGG-TTATA
1 CCTTCGGGACTTAGCCCGGACATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TA
*
25712429 GTAACTCGCACAAATG
65 GTAACTAGCACAAATG
* *
25712445 CCTTCGGGACTTAGCCCGGATATAG-TAACT-GCACAAATGCCTTCGGGGCTTAGCCCGGAATTA
1 CCTTCGGGACTTAGCCCGGACATAGCT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTA
*
25712508 GTCACTAGCACAAATG
65 GTAACTAGCACAAATG
* *
25712524 CCGTCGGGGCTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
25712543 TTATCATCCG
Statistics
Matches: 86, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
79 73 0.85
80 13 0.15
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.23
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGACATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAG
TAACTAGCACAAATG
Found at i:25714701 original size:27 final size:27
Alignment explanation
Indices: 25714671--25714848 Score: 160
Period size: 27 Copynumber: 6.6 Consensus size: 27
25714661 ATATTGAGCC
* *
25714671 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
25714698 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
25714725 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
25714753 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
25714780 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * * *
25714807 CGCACACTGAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
25714834 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
25714849 GTACAATTTA
Statistics
Matches: 124, Mismatches: 24, Indels: 6
0.81 0.16 0.04
Matches are distributed among these distances:
27 100 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:25714810 original size:82 final size:81
Alignment explanation
Indices: 25714692--25714847 Score: 206
Period size: 82 Copynumber: 1.9 Consensus size: 81
25714682 TGCTATATAA
* * * *
25714692 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTGAGTGCAACATAGTCA-AATCGCA
25714757 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
25714774 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTGAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTGAGTGCAACATAGTCAAATCGCA
*
25714838 CCCTTAGTGC
65 CACTTAGTGC
25714848 TGTACAATTT
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
81 17 0.27
82 47 0.73
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTGAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:25728306 original size:26 final size:26
Alignment explanation
Indices: 25728277--25728329 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
25728267 GAGAAAAGAA
25728277 AGAATAAGTTGCACAAGAAGTCGGCT
1 AGAATAAGTTGCACAAGAAGTCGGCT
25728303 AGAATAAGTTGCACAAGAAGTCGGCT
1 AGAATAAGTTGCACAAGAAGTCGGCT
25728329 A
1 A
25728330 ACAATTATTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.40, C:0.15, G:0.26, T:0.19
Consensus pattern (26 bp):
AGAATAAGTTGCACAAGAAGTCGGCT
Found at i:25728384 original size:16 final size:17
Alignment explanation
Indices: 25728363--25728401 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
25728353 CCAAAATAGC
* *
25728363 ACAAAAAGCAGAGAAG-
1 ACAAAAAGAAAAGAAGA
25728379 ACAAAAAGAAAAGAAGA
1 ACAAAAAGAAAAGAAGA
25728396 ACAAAA
1 ACAAAA
25728402 CAAATACCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.72, C:0.10, G:0.18, T:0.00
Consensus pattern (17 bp):
ACAAAAAGAAAAGAAGA
Found at i:25731739 original size:40 final size:40
Alignment explanation
Indices: 25731656--25731898 Score: 256
Period size: 40 Copynumber: 6.1 Consensus size: 40
25731646 ATACTATTTG
* * * *
25731656 ATTCAGGGTTACCAAAGTATAAATA-GGGCAC-TATGTGC
1 ATTCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGC
*
25731694 ATTCAGGGGTATCGAAGTACAAACAGGGGCACGTATGTGC
1 ATTCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGC
* * * **
25731734 ATTCAGGAGTACCAAAGTACAAACAAGGGCATATATGTGC
1 ATTCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGC
** * * * *
25731774 ATTCAAAGGTGCCAAAGTACAAATAGGGGCACATATGTGC
1 ATTCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGC
* * * * *
25731814 ACTCAGGGGTACCGAAGTACAAATACGGGCCCGTATGTAC
1 ATTCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGC
* * *
25731854 ATTCAGGGGTTCTGAAGTACAAAAAGGGGCACGTATGTGC
1 ATTCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGC
25731894 ATTCA
1 ATTCA
25731899 ACAATAATTA
Statistics
Matches: 169, Mismatches: 34, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
38 20 0.12
39 6 0.04
40 143 0.85
ACGTcount: A:0.34, C:0.18, G:0.27, T:0.21
Consensus pattern (40 bp):
ATTCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGC
Found at i:25731740 original size:20 final size:20
Alignment explanation
Indices: 25731681--25731740 Score: 52
Period size: 20 Copynumber: 3.0 Consensus size: 20
25731671 AGTATAAATA
25731681 GGGCAC-TATGTGCATTCAG
1 GGGCACGTATGTGCATTCAG
* * * **
25731700 GGGTATCG-AAGTACAAACAG
1 GGGCA-CGTATGTGCATTCAG
25731720 GGGCACGTATGTGCATTCAG
1 GGGCACGTATGTGCATTCAG
25731740 G
1 G
25731741 AGTACCAAAG
Statistics
Matches: 28, Mismatches: 10, Indels: 5
0.65 0.23 0.12
Matches are distributed among these distances:
19 6 0.21
20 22 0.79
ACGTcount: A:0.27, C:0.18, G:0.33, T:0.22
Consensus pattern (20 bp):
GGGCACGTATGTGCATTCAG
Found at i:25731857 original size:120 final size:118
Alignment explanation
Indices: 25731667--25731899 Score: 315
Period size: 120 Copynumber: 2.0 Consensus size: 118
25731657 TTCAGGGTTA
* * * *
25731667 CCAAAGTATAAATAGGGCACTATGTGCATTCAGGGGTATCGAAGTACAAACAGGGGCACGTATGT
1 CCAAAGTACAAATAGGGCACTATGTGCACTCAGGGGTACCGAAGTACAAACACGGGCACGTATGT
* *
25731732 GCATTCAGGAGTACCAAAGTACAAACAA-GGGCATATATGTGCATTCAAAGGTG
66 ACATTCAGGAGTACCAAAGTACAAA-AAGGGGCACATATGTGCATTCAAAGGTG
* *
25731785 CCAAAGTACAAATAGGGGCACATATGTGCACTCAGGGGTACCGAAGTACAAATACGGGCCCGTAT
1 CCAAAGTACAAATA-GGGCAC-TATGTGCACTCAGGGGTACCGAAGTACAAACACGGGCACGTAT
* * ** *
25731850 GTACATTCAGGGGTTCTGAAGTACAAAAAGGGGCACGTATGTGCATTCAA
64 GTACATTCAGGAGTACCAAAGTACAAAAAGGGGCACATATGTGCATTCAA
25731900 CAATAATTAT
Statistics
Matches: 99, Mismatches: 13, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
118 13 0.13
119 8 0.08
120 78 0.79
ACGTcount: A:0.34, C:0.18, G:0.27, T:0.21
Consensus pattern (118 bp):
CCAAAGTACAAATAGGGCACTATGTGCACTCAGGGGTACCGAAGTACAAACACGGGCACGTATGT
ACATTCAGGAGTACCAAAGTACAAAAAGGGGCACATATGTGCATTCAAAGGTG
Found at i:25744535 original size:29 final size:27
Alignment explanation
Indices: 25744517--25744586 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
25744507 ATATTAAGTC
25744517 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
25744544 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
25744572 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
25744587 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:25744580 original size:28 final size:28
Alignment explanation
Indices: 25744517--25744614 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
25744507 ATATTAAGTC
*
25744517 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
25744544 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
25744572 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
25744601 CGCACACTTAGTGC
1 CGCACACTTAGTGC
25744615 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:25751633 original size:40 final size:40
Alignment explanation
Indices: 25751410--25751632 Score: 376
Period size: 40 Copynumber: 5.6 Consensus size: 40
25751400 TGGATGATAA
* * *
25751410 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
*
25751450 CCGGGGTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
25751490 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
25751530 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
25751570 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
25751610 CCGGGCTATGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
25751633 GAGGAAGTAG
Statistics
Matches: 175, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
39 1 0.01
40 174 0.99
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:25769273 original size:24 final size:24
Alignment explanation
Indices: 25769246--25769293 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
25769236 CCCACTTTTT
25769246 CGGGTTTTCAGCCTTT-CAGCTTTC
1 CGGGTTTTCAGCCTTTGCAG-TTTC
25769270 CGGGTTTTCAGCCTTTGCAGTTTC
1 CGGGTTTTCAGCCTTTGCAGTTTC
25769294 AAATCCAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 20 0.87
25 3 0.13
ACGTcount: A:0.08, C:0.27, G:0.23, T:0.42
Consensus pattern (24 bp):
CGGGTTTTCAGCCTTTGCAGTTTC
Found at i:25775023 original size:15 final size:15
Alignment explanation
Indices: 25775005--25775045 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
25774995 TATATCTGTG
25775005 AAATTTTCGTGTTTT
1 AAATTTTCGTGTTTT
25775020 AAATTTTCGTGTTTT
1 AAATTTTCGTGTTTT
25775035 AAATTTATCGT
1 AAATTT-TCGT
25775046 TTGAGTGTCG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 21 0.84
16 4 0.16
ACGTcount: A:0.24, C:0.07, G:0.12, T:0.56
Consensus pattern (15 bp):
AAATTTTCGTGTTTT
Found at i:25776241 original size:56 final size:56
Alignment explanation
Indices: 25776178--25776288 Score: 161
Period size: 56 Copynumber: 2.0 Consensus size: 56
25776168 ACCATGCCAT
** *
25776178 CGATATATGTGTGTGAGTAAGACCACGTT-TAATACGTTGGCATCGATATGTGATTC
1 CGATATATGTGTGCAAGTAAGACCA-GTTCTAATACGTTGACATCGATATGTGATTC
* *
25776234 CGATATATGTGTGCAAGTAAGACCAGTTCTAGTATGTTGACATCGATATGTGATT
1 CGATATATGTGTGCAAGTAAGACCAGTTCTAATACGTTGACATCGATATGTGATT
25776289 ACATGTAAGA
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
55 3 0.06
56 46 0.94
ACGTcount: A:0.28, C:0.14, G:0.24, T:0.34
Consensus pattern (56 bp):
CGATATATGTGTGCAAGTAAGACCAGTTCTAATACGTTGACATCGATATGTGATTC
Found at i:25776968 original size:6 final size:6
Alignment explanation
Indices: 25776957--25776986 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
25776947 TATGGTTATG
*
25776957 TTTGGT TGTGGT TTTGGT TTTGGT TTTGGT
1 TTTGGT TTTGGT TTTGGT TTTGGT TTTGGT
25776987 GATTCGGCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.37, T:0.63
Consensus pattern (6 bp):
TTTGGT
Found at i:25779224 original size:40 final size:39
Alignment explanation
Indices: 25779137--25779259 Score: 131
Period size: 39 Copynumber: 3.1 Consensus size: 39
25779127 ATACTAGTTG
* * * * * *
25779137 ATTCAGGGTTACCAAAGTATAAATAGGGCACGTATGTGC
1 ATTCAGGGGTATCGAAGTACAAACAGGGCACGTATATGC
* *
25779176 GTTCAGGGGTA-CTGAAGTACAAACAAGGGCACGTATATGT
1 ATTCAGGGGTATC-GAAGTACAAAC-AGGGCACGTATATGC
* *
25779216 ATTTAGGGGTATCGAAGTACAAACAGGGCACGTATGTGC
1 ATTCAGGGGTATCGAAGTACAAACAGGGCACGTATATGC
25779255 ATTCA
1 ATTCA
25779260 AAAACAATTA
Statistics
Matches: 69, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
38 1 0.01
39 34 0.49
40 33 0.48
41 1 0.01
ACGTcount: A:0.33, C:0.15, G:0.28, T:0.24
Consensus pattern (39 bp):
ATTCAGGGGTATCGAAGTACAAACAGGGCACGTATATGC
Found at i:25781738 original size:25 final size:25
Alignment explanation
Indices: 25781692--25781742 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
25781682 CCCTTATAAT
** *
25781692 GTCAAAATGACCATTTTGCCCCTAG
1 GTCAAAATGACCATGATACCCCTAG
25781717 GTCAAAATGACCATGATACCCCTAG
1 GTCAAAATGACCATGATACCCCTAG
25781742 G
1 G
25781743 GATATGCTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (25 bp):
GTCAAAATGACCATGATACCCCTAG
Found at i:25786297 original size:39 final size:40
Alignment explanation
Indices: 25786253--25786334 Score: 157
Period size: 39 Copynumber: 2.1 Consensus size: 40
25786243 TGGGTTAAGC
25786253 CCCTAACTGAAATTGAAACTATTATTGAAATGGGCTT-GG
1 CCCTAACTGAAATTGAAACTATTATTGAAATGGGCTTAGG
25786292 CCCTAACTGAAATTGAAACTATTATTGAAATGGGCTTAGG
1 CCCTAACTGAAATTGAAACTATTATTGAAATGGGCTTAGG
25786332 CCC
1 CCC
25786335 AGACTATGAC
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
39 37 0.88
40 5 0.12
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (40 bp):
CCCTAACTGAAATTGAAACTATTATTGAAATGGGCTTAGG
Found at i:25800276 original size:221 final size:221
Alignment explanation
Indices: 25799893--25800313 Score: 833
Period size: 221 Copynumber: 1.9 Consensus size: 221
25799883 GCTACCTAAG
25799893 TCACAATAAATCATGATTCGGCATAACCTTTTTATGATTAATCTTTTCATGCACTAATCCTTAAG
1 TCACAATAAATCATGATTCGGCATAACCTTTTTATGATTAATCTTTTCATGCACTAATCCTTAAG
25799958 TCCTTTATCTCCGGATTGAACACAAGTCATGGAATAGTCACACTTGTATAGTCCATTCCATGTTC
66 TCCTTTATCTCCGGATTGAACACAAGTCATGGAATAGTCACACTTGTATAGTCCATTCCATGTTC
*
25800023 CTTGAAATCTTAAGTAGACCATGATATACAAATAAGTATGACATCTCATATCAGCTTATTTGAGC
131 CTTGAAATCTTAAGTAGACCATGATATACAAATAAGTATGACATCTCATATCAACTTATTTGAGC
25800088 ATGGCCATGCATTTCTAGTCTCACTC
196 ATGGCCATGCATTTCTAGTCTCACTC
25800114 TCACAATAAATCATGATTCGGCATAACCTTTTTATGATTAATCTTTTCATGCACTAATCCTTAAG
1 TCACAATAAATCATGATTCGGCATAACCTTTTTATGATTAATCTTTTCATGCACTAATCCTTAAG
25800179 TCCTTTATCTCCGGATTGAACACAAGTCATGGAATAGTCACACTTGTATAGTCCATTCCATGTTC
66 TCCTTTATCTCCGGATTGAACACAAGTCATGGAATAGTCACACTTGTATAGTCCATTCCATGTTC
25800244 CTTGAAATCTTAAGTAGACCATGATATACAAATAAGTATGACATCTCATATCAACTTATTTGAGC
131 CTTGAAATCTTAAGTAGACCATGATATACAAATAAGTATGACATCTCATATCAACTTATTTGAGC
25800309 ATGGC
196 ATGGC
25800314 ATATTAATCA
Statistics
Matches: 199, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
221 199 1.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.35
Consensus pattern (221 bp):
TCACAATAAATCATGATTCGGCATAACCTTTTTATGATTAATCTTTTCATGCACTAATCCTTAAG
TCCTTTATCTCCGGATTGAACACAAGTCATGGAATAGTCACACTTGTATAGTCCATTCCATGTTC
CTTGAAATCTTAAGTAGACCATGATATACAAATAAGTATGACATCTCATATCAACTTATTTGAGC
ATGGCCATGCATTTCTAGTCTCACTC
Found at i:25809330 original size:25 final size:25
Alignment explanation
Indices: 25809290--25809384 Score: 111
Period size: 25 Copynumber: 3.8 Consensus size: 25
25809280 TATGCTCATA
* *
25809290 TGAGCTGTA-AACGGTAACCTCCTC
1 TGAGCTGAATAACGGTAAGCTCCTC
* *
25809314 TGAGTTGAATAATGGTAAGCTCCTC
1 TGAGCTGAATAACGGTAAGCTCCTC
** * *
25809339 CAAGCTGAATAACAGTAAGCTCATC
1 TGAGCTGAATAACGGTAAGCTCCTC
25809364 TGAGCTGAATAACGGTAAGCT
1 TGAGCTGAATAACGGTAAGCT
25809385 TATACAAGCT
Statistics
Matches: 57, Mismatches: 13, Indels: 1
0.80 0.18 0.01
Matches are distributed among these distances:
24 7 0.12
25 50 0.88
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (25 bp):
TGAGCTGAATAACGGTAAGCTCCTC
Found at i:25809373 original size:50 final size:50
Alignment explanation
Indices: 25809303--25809412 Score: 130
Period size: 50 Copynumber: 2.2 Consensus size: 50
25809293 GCTGTAAACG
* * * * * *
25809303 GTAACCTCCTCTGAGTTGAATAATGGTAAGCTCCTCCAAGCTGAATAACA
1 GTAAGCTCATCTGAGCTGAATAACGGTAAGCTCATACAAGCTGAATAACA
* * * *
25809353 GTAAGCTCATCTGAGCTGAATAACGGTAAGCTTATACAAGCTGAGTATCG
1 GTAAGCTCATCTGAGCTGAATAACGGTAAGCTCATACAAGCTGAATAACA
25809403 GTAAGCTCAT
1 GTAAGCTCAT
25809413 AAGAGCTAAA
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (50 bp):
GTAAGCTCATCTGAGCTGAATAACGGTAAGCTCATACAAGCTGAATAACA
Found at i:25809394 original size:25 final size:24
Alignment explanation
Indices: 25809319--25809412 Score: 98
Period size: 25 Copynumber: 3.8 Consensus size: 24
25809309 TCCTCTGAGT
* *
25809319 TGAATAATGGTAAGCTCCTCCAAGC
1 TGAATAACGGTAAGCTCAT-CAAGC
* *
25809344 TGAATAACAGTAAGCTCATCTGAGC
1 TGAATAACGGTAAGCTCATC-AAGC
*
25809369 TGAATAACGGTAAGCTTATACAAGC
1 TGAATAACGGTAAGCTCAT-CAAGC
* *
25809394 TGAGTATCGGTAAGCTCAT
1 TGAATAACGGTAAGCTCAT
25809413 AAGAGCTAAA
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
24 1 0.02
25 55 0.96
26 1 0.02
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (24 bp):
TGAATAACGGTAAGCTCATCAAGC
Found at i:25809419 original size:25 final size:25
Alignment explanation
Indices: 25809283--25809419 Score: 91
Period size: 25 Copynumber: 5.5 Consensus size: 25
25809273 GTACATGTAT
* *
25809283 GCTCATATGAGCTGTA-AACGGTAA
1 GCTCATAAGAGCTGAATAACGGTAA
* * ** * *
25809307 CCTCCTCTGAGTTGAATAATGGTAA
1 GCTCATAAGAGCTGAATAACGGTAA
* * *
25809332 GCTCCTCCA-AGCTGAATAACAGTAA
1 GCTCAT-AAGAGCTGAATAACGGTAA
**
25809357 GCTCATCTGAGCTGAATAACGGTAA
1 GCTCATAAGAGCTGAATAACGGTAA
* * *
25809382 GCTTATACA-AGCTGAGTATCGGTAA
1 GCTCATA-AGAGCTGAATAACGGTAA
25809407 GCTCATAAGAGCT
1 GCTCATAAGAGCT
25809420 AAAATCGGTA
Statistics
Matches: 88, Mismatches: 20, Indels: 9
0.75 0.17 0.08
Matches are distributed among these distances:
24 13 0.15
25 74 0.84
26 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (25 bp):
GCTCATAAGAGCTGAATAACGGTAA
Found at i:25819126 original size:27 final size:27
Alignment explanation
Indices: 25819096--25819273 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
25819086 ATATTGAGTC
* * * *
25819096 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
25819123 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
25819150 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
25819178 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
25819205 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
25819232 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
25819259 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
25819274 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:25819235 original size:82 final size:81
Alignment explanation
Indices: 25819117--25819272 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
25819107 TGCTATATAA
* *
25819117 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
25819182 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
25819199 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
25819263 CACTTAGTGC
65 CACTTAGTGC
25819273 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:25827500 original size:27 final size:27
Alignment explanation
Indices: 25827470--25827647 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
25827460 ATATTGAGCC
* * *
25827470 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAAAT
*
25827497 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
*
25827524 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAA-T
** * *
25827552 CGCACACTTAGTGCCGCATGATCAATT
1 CGCACACTTAGTGCTACATAATCAAAT
* **
25827579 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAAAT
* *
25827606 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
25827633 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
25827648 GTACAATTTA
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAAAT
Found at i:25827609 original size:82 final size:81
Alignment explanation
Indices: 25827490--25827646 Score: 235
Period size: 82 Copynumber: 1.9 Consensus size: 81
25827480 GTGCTATATA
* *
25827490 ATCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGC
1 ATCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGC
25827555 ACACTTAGTGCCGCATG
65 ACACTTAGTGCCGCATG
* * **
25827572 ATCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGC
1 ATCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGC
25827636 ACACTTAGTGC
65 ACACTTAGTGC
25827647 TGTACAATTT
Statistics
Matches: 68, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 52 0.76
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
ATCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
CACTTAGTGCCGCATG
Found at i:25836617 original size:28 final size:28
Alignment explanation
Indices: 25836586--25836658 Score: 87
Period size: 27 Copynumber: 2.6 Consensus size: 28
25836576 AAAGTGACTA
25836586 GCGAACCCCA-CTTCACAAAAACCAACTG
1 GCGAACCCCAGC-TCACAAAAACCAACTG
** *
25836614 GCGAACCTTAGCTCAC-CAAACCAACTG
1 GCGAACCCCAGCTCACAAAAACCAACTG
*
25836641 GTGAACCCCAGCTCACAA
1 GCGAACCCCAGCTCACAA
25836659 TGAATTTGGC
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
27 23 0.64
28 12 0.33
29 1 0.03
ACGTcount: A:0.36, C:0.38, G:0.14, T:0.12
Consensus pattern (28 bp):
GCGAACCCCAGCTCACAAAAACCAACTG
Found at i:25841328 original size:18 final size:17
Alignment explanation
Indices: 25841302--25841340 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
25841292 ATTTTCCTTC
25841302 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
25841319 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
25841337 CACA
1 CACA
25841341 ATTTATATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:25845559 original size:21 final size:21
Alignment explanation
Indices: 25845533--25845574 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
25845523 TCAACTTGCT
25845533 AGCAAGTCAAACATTTTGACA
1 AGCAAGTCAAACATTTTGACA
25845554 AGCAAGTCAAACATTTTGACA
1 AGCAAGTCAAACATTTTGACA
25845575 CTAACTCCGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.19, G:0.14, T:0.24
Consensus pattern (21 bp):
AGCAAGTCAAACATTTTGACA
Found at i:25851798 original size:29 final size:29
Alignment explanation
Indices: 25851749--25851809 Score: 104
Period size: 29 Copynumber: 2.1 Consensus size: 29
25851739 GCAAATACCA
*
25851749 TAGCCAATAGTTCATTTTCATTAGTAGTG
1 TAGCCAATAGTTCATTCTCATTAGTAGTG
*
25851778 TAGCCAATAGTTCCTTCTCATTAGTAGTG
1 TAGCCAATAGTTCATTCTCATTAGTAGTG
25851807 TAG
1 TAG
25851810 TTCAATTGCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.26, C:0.16, G:0.18, T:0.39
Consensus pattern (29 bp):
TAGCCAATAGTTCATTCTCATTAGTAGTG
Found at i:25858404 original size:44 final size:42
Alignment explanation
Indices: 25858259--25858425 Score: 140
Period size: 43 Copynumber: 3.9 Consensus size: 42
25858249 CGAAAGCTCC
* ***
25858259 TACAATGCCAACGTCCCAGACGTGGTCTTACATGCAATCAAA
1 TACAATGCCAACGTCCCAGACATGGTCTTACACAAAATCAAA
** * *
25858301 TATTGATTCC-ACTGTCCCAGACAGGGTCTTACACAAAATCAAA
1 TA-CAATGCCAAC-GTCCCAGACATGGTCTTACACAAAATCAAA
* * * *
25858344 TACAATGCCGATGTCCCGGACATGGTATTACACATAAATCATAA
1 TACAATGCCAACGTCCCAGACATGGTCTTACACA-AAATCA-AA
* *
25858388 GT-CGATGCCAACGTCCCAGACGTGGTCTTACACGAAAA
1 -TACAATGCCAACGTCCCAGACATGGTCTTACAC-AAAA
25858426 CACATATCGG
Statistics
Matches: 97, Mismatches: 21, Indels: 12
0.75 0.16 0.09
Matches are distributed among these distances:
42 27 0.28
43 38 0.39
44 30 0.31
45 2 0.02
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (42 bp):
TACAATGCCAACGTCCCAGACATGGTCTTACACAAAATCAAA
Found at i:25858494 original size:32 final size:32
Alignment explanation
Indices: 25858456--25858520 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
25858446 ATGACATATG
*
25858456 TATCCTAACTATTCCTATGATTCATACGGGGC
1 TATCCTAACTATTCCTATGATTCATAAGGGGC
25858488 TATCCTAACTATTCCTATGATTCATAAGGGGC
1 TATCCTAACTATTCCTATGATTCATAAGGGGC
25858520 T
1 T
25858521 TTTCGGACAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.35
Consensus pattern (32 bp):
TATCCTAACTATTCCTATGATTCATAAGGGGC
Found at i:25860765 original size:24 final size:24
Alignment explanation
Indices: 25860665--25860765 Score: 148
Period size: 24 Copynumber: 4.2 Consensus size: 24
25860655 AAGTCTATCA
*
25860665 GGAGAGGATTTAGGAGTTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
* *
25860689 GGATAGGATTTAGGAGTTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
25860713 GGATAGGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
* *
25860737 AGAGAGGATTTAGGAGCTGATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
25860761 GGAGA
1 GGAGA
25860766 ACAGTGTTGG
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 71 1.00
ACGTcount: A:0.34, C:0.02, G:0.40, T:0.25
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:25861410 original size:23 final size:23
Alignment explanation
Indices: 25861384--25861482 Score: 110
Period size: 23 Copynumber: 4.3 Consensus size: 23
25861374 ATAAGTTCCA
**
25861384 CACTGATATGTAGCCAAATTTAC
1 CACTGATATGTAGCCAAAGCTAC
*
25861407 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCAAAGCTAC
**
25861430 CACTG-TAATGTAGCCGTAGCTAC
1 CACTGAT-ATGTAGCCAAAGCTAC
* * *
25861453 CACTGAAACGTAGCCGAAGCTAC
1 CACTGATATGTAGCCAAAGCTAC
25861476 CACTGAT
1 CACTGAT
25861483 CAATAACACT
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
22 1 0.02
23 65 0.98
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.23
Consensus pattern (23 bp):
CACTGATATGTAGCCAAAGCTAC
Found at i:25865965 original size:21 final size:21
Alignment explanation
Indices: 25865939--25865980 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
25865929 TCAACTTGCT
25865939 AGCAAGTCAAACATTTTGACA
1 AGCAAGTCAAACATTTTGACA
25865960 AGCAAGTCAAACATTTTGACA
1 AGCAAGTCAAACATTTTGACA
25865981 CTAACTCCGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.19, G:0.14, T:0.24
Consensus pattern (21 bp):
AGCAAGTCAAACATTTTGACA
Found at i:25872204 original size:29 final size:29
Alignment explanation
Indices: 25872155--25872215 Score: 104
Period size: 29 Copynumber: 2.1 Consensus size: 29
25872145 GCAAATACCA
*
25872155 TAGCCAATAGTTCATTTTCATTAGTAGTG
1 TAGCCAATAGTTCATTCTCATTAGTAGTG
*
25872184 TAGCCAATAGTTCCTTCTCATTAGTAGTG
1 TAGCCAATAGTTCATTCTCATTAGTAGTG
25872213 TAG
1 TAG
25872216 TTCAATTGCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.26, C:0.16, G:0.18, T:0.39
Consensus pattern (29 bp):
TAGCCAATAGTTCATTCTCATTAGTAGTG
Found at i:25880161 original size:30 final size:29
Alignment explanation
Indices: 25880127--25880196 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 29
25880117 ACAAACCAAG
*
25880127 AGAAAGAAAAGAAGAAAAATATGGAGAAAA
1 AGAAAGAAAAGAAGAAAAACAT-GAGAAAA
*
25880157 AGAAAGAACAA-AAGAAAAACGTGAGAAAA
1 AGAAAGAA-AAGAAGAAAAACATGAGAAAA
25880186 A-AAAGCAAAAG
1 AGAAAG-AAAAG
25880197 GAATGATGCA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
28 6 0.17
29 10 0.29
30 17 0.49
31 2 0.06
ACGTcount: A:0.70, C:0.04, G:0.21, T:0.04
Consensus pattern (29 bp):
AGAAAGAAAAGAAGAAAAACATGAGAAAA
Found at i:25886380 original size:40 final size:39
Alignment explanation
Indices: 25886349--25886558 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
25886339 GGACTAAGAT
* *
25886349 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
25886389 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
25886429 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
25886469 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
25886509 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
25886548 CCGAAGGCATT
1 CCGAAGGCATT
25886559 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:25886512 original size:120 final size:120
Alignment explanation
Indices: 25886296--25886558 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
25886286 TTGAATGCTG
* *
25886296 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
25886360 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
25886416 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
25886479 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
25886535 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
25886559 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:25886578 original size:79 final size:80
Alignment explanation
Indices: 25886297--25886593 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
25886287 TGAATGCTGT
* ** * * * **
25886297 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
25886360 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
25886377 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
25886441 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
25886457 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
25886521 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
25886536 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
25886594 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:25894331 original size:40 final size:40
Alignment explanation
Indices: 25894301--25894510 Score: 314
Period size: 40 Copynumber: 5.3 Consensus size: 40
25894291 GGACTAAGAT
* * * *
25894301 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
25894341 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
25894381 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* *
25894421 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* * * * *
25894461 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
25894500 CCGAAGGCATT
1 CCGAAGGCATT
25894511 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 11, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 34 0.21
40 125 0.79
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
Found at i:25894530 original size:79 final size:80
Alignment explanation
Indices: 25894301--25894545 Score: 253
Period size: 80 Copynumber: 3.1 Consensus size: 80
25894291 GGACTAAGAT
* * * * * ** * *
25894301 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTA-TT
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAG-GAGCT
25894365 AAATCCGGGTTAAGTC
65 AAATCCGGGTTAAGTC
* * * ** ** *
25894381 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
25894446 AATCCGGGTTATGTC
66 AATCCGGGTTAAGTC
* * *
25894461 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
25894525 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
25894539 CCGAAGG
1 CCGAAGG
25894546 TACGTGATTT
Statistics
Matches: 144, Mismatches: 20, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
78 14 0.10
79 47 0.33
80 83 0.58
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Found at i:25898197 original size:20 final size:20
Alignment explanation
Indices: 25898160--25898198 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
25898150 CAAACCCCCA
* *
25898160 AAAACCCACATGCTCGTGTG
1 AAAACCCACACGCCCGTGTG
*
25898180 AAAACGCACACGCCCGTGT
1 AAAACCCACACGCCCGTGT
25898199 ACAAACCGCT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.31, C:0.33, G:0.21, T:0.15
Consensus pattern (20 bp):
AAAACCCACACGCCCGTGTG
Found at i:25898987 original size:22 final size:22
Alignment explanation
Indices: 25898962--25899007 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
25898952 ACATAAACAT
*
25898962 TCAATTATATTGGCACAATCAA
1 TCAATTATATTGGCACAATAAA
*
25898984 TCAATTATATTGGCATAATAAA
1 TCAATTATATTGGCACAATAAA
25899006 TC
1 TC
25899008 CATGGCAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.15, G:0.09, T:0.35
Consensus pattern (22 bp):
TCAATTATATTGGCACAATAAA
Found at i:25901223 original size:40 final size:40
Alignment explanation
Indices: 25901140--25901444 Score: 305
Period size: 40 Copynumber: 7.6 Consensus size: 40
25901130 TCGAATGATG
* * * *
25901140 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
25901180 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
25901220 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
25901260 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
25901300 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
** * ** **
25901341 -CCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGA-TGTA
1 TCCGGGCTAAGTCCCGAAG-GCATTTGTGCGAGTTACTAAA
** * ** **
25901380 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGA-TGTA
1 TCCGGGCTAAGTCCCGAAG-GCATTTGTGCGAGTTACTAAA
25901420 TCCGGGCTAAGTCCCGAAGAGCATT
1 TCCGGGCTAAGTCCCGAAG-GCATT
25901445 CATGCTAGCG
Statistics
Matches: 242, Mismatches: 17, Indels: 12
0.89 0.06 0.04
Matches are distributed among these distances:
39 2 0.01
40 219 0.90
41 21 0.09
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:25901445 original size:40 final size:40
Alignment explanation
Indices: 25901341--25901471 Score: 262
Period size: 40 Copynumber: 3.3 Consensus size: 40
25901331 GTTACTATAA
25901341 CCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGTAT
25901381 CCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGTAT
25901421 CCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGTAT
25901461 CCGGGCTAAGT
1 CCGGGCTAAGT
25901472 GAAAATCTAT
Statistics
Matches: 91, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 91 1.00
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.22
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGTAT
Found at i:25901551 original size:47 final size:47
Alignment explanation
Indices: 25901500--25901912 Score: 727
Period size: 47 Copynumber: 8.7 Consensus size: 47
25901490 TTAGGATTCT
25901500 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
25901547 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
25901596 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
25901643 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
25901690 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
25901737 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
25901784 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
25901831 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
25901878 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
25901913 TCCCGAAGGG
Statistics
Matches: 352, Mismatches: 12, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
47 306 0.87
49 46 0.13
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:25903248 original size:28 final size:29
Alignment explanation
Indices: 25903199--25903254 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 29
25903189 ATGTTTTCGT
* *
25903199 TGATGAATCTTTGAGATTTTAGGTGTTAAA
1 TGATGAA-CTTTGAGATATTAGATGTTAAA
*
25903229 TGATGAA-TTTGAGGTATTAGATGTTA
1 TGATGAACTTTGAGATATTAGATGTTA
25903255 TTTATAAGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 16 0.70
30 7 0.30
ACGTcount: A:0.30, C:0.02, G:0.25, T:0.43
Consensus pattern (29 bp):
TGATGAACTTTGAGATATTAGATGTTAAA
Found at i:25906818 original size:24 final size:24
Alignment explanation
Indices: 25906791--25906863 Score: 64
Period size: 24 Copynumber: 3.2 Consensus size: 24
25906781 TTACATTTTT
25906791 ATTTCTCAAAATATCATTCGATTC
1 ATTTCTCAAAATATCATTCGATTC
* *** *
25906815 ATTTATC-TTTTCTACATT-G-TT-
1 ATTTCTCAAAATAT-CATTCGATTC
25906836 ATTTCTCAAAATATCATTCGATTC
1 ATTTCTCAAAATATCATTCGATTC
25906860 ATTT
1 ATTT
25906864 ATCTTTTCTA
Statistics
Matches: 34, Mismatches: 10, Indels: 10
0.63 0.19 0.19
Matches are distributed among these distances:
21 10 0.29
22 5 0.15
23 5 0.15
24 14 0.41
ACGTcount: A:0.29, C:0.18, G:0.04, T:0.49
Consensus pattern (24 bp):
ATTTCTCAAAATATCATTCGATTC
Found at i:25906838 original size:45 final size:45
Alignment explanation
Indices: 25906782--25906874 Score: 177
Period size: 45 Copynumber: 2.1 Consensus size: 45
25906772 GTGTATTAAT
*
25906782 TACATTTTTATTTCTCAAAATATCATTCGATTCATTTATCTTTTC
1 TACATTGTTATTTCTCAAAATATCATTCGATTCATTTATCTTTTC
25906827 TACATTGTTATTTCTCAAAATATCATTCGATTCATTTATCTTTTC
1 TACATTGTTATTTCTCAAAATATCATTCGATTCATTTATCTTTTC
25906872 TAC
1 TAC
25906875 TTAATTATGA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.27, C:0.18, G:0.03, T:0.52
Consensus pattern (45 bp):
TACATTGTTATTTCTCAAAATATCATTCGATTCATTTATCTTTTC
Found at i:25916417 original size:21 final size:21
Alignment explanation
Indices: 25916393--25916435 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
25916383 AAAAATTGGC
25916393 AAATAATATTT-CAAAAAATAA
1 AAAT-ATATTTACAAAAAATAA
* *
25916414 AAATATTTTTAGAAAAAATAA
1 AAATATATTTACAAAAAATAA
25916435 A
1 A
25916436 TTTTATGGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (21 bp):
AAATATATTTACAAAAAATAA
Found at i:25919819 original size:51 final size:51
Alignment explanation
Indices: 25919762--25919903 Score: 225
Period size: 51 Copynumber: 2.8 Consensus size: 51
25919752 ACTTTATGTA
25919762 ATGATGCAAACTTTAACTAACATGAGAGTTACATAAAGCATGTCATAATTT
1 ATGATGCAAACTTTAACTAACATGAGAGTTACATAAAGCATGTCATAATTT
* * * *
25919813 ATGATGCAAAATTTAACTAAAACGAGAGTAACATAAAGCATGTCATAATTT
1 ATGATGCAAACTTTAACTAACATGAGAGTTACATAAAGCATGTCATAATTT
*
25919864 ATGATGC-AAC-TTAACTAACATGAGAGTTACATAATGCATG
1 ATGATGCAAACTTTAACTAACATGAGAGTTACATAAAGCATG
25919904 ACTTTATTTA
Statistics
Matches: 82, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
49 26 0.32
50 2 0.02
51 54 0.66
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.29
Consensus pattern (51 bp):
ATGATGCAAACTTTAACTAACATGAGAGTTACATAAAGCATGTCATAATTT
Found at i:25921718 original size:28 final size:29
Alignment explanation
Indices: 25921678--25921732 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 29
25921668 CTCTCTTTTA
25921678 TTTCTTTCACTCT-ATTT-TTCTTTTTCAG
1 TTTCTTTCACTCTCATTTCTT-TTTTTCAG
**
25921706 TTTCTTTTTCTCTCATTTCTTTTTTTC
1 TTTCTTTCACTCTCATTTCTTTTTTTC
25921733 TTATCTCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 11 0.48
29 10 0.43
30 2 0.09
ACGTcount: A:0.07, C:0.22, G:0.02, T:0.69
Consensus pattern (29 bp):
TTTCTTTCACTCTCATTTCTTTTTTTCAG
Done.