Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 81 of 218
Found at i:23971858 original size:21 final size:22
Alignment explanation
Indices: 23971817--23971858 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
23971807 ATCTTTATTA
23971817 TTCATATATACATAAGTACATT
1 TTCATATATACATAAGTACATT
* *
23971839 TTCATA-ATATATATGTACAT
1 TTCATATATACATAAGTACAT
23971859 ATATATTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.40, C:0.12, G:0.05, T:0.43
Consensus pattern (22 bp):
TTCATATATACATAAGTACATT
Found at i:23972282 original size:44 final size:43
Alignment explanation
Indices: 23972195--23972288 Score: 104
Period size: 44 Copynumber: 2.1 Consensus size: 43
23972185 TGCTTGATGA
23972195 TCATTTATTTATTTGTATATCAATAATTTTAATTTTTTAGTTAT
1 TCATTTATTTATTTGTATATCAATAATTTT-ATTTTTTAGTTAT
* *
23972239 TTATTTATTTATTATTGTATAT-ACATGATTTT-TTTTATT-GTTAT
1 TCATTTATTTA-T-TTGTATATCA-ATAATTTTATTTT-TTAGTTAT
23972283 TCATTT
1 TCATTT
23972289 TTTTTGCTAA
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
44 24 0.56
45 4 0.09
46 15 0.35
ACGTcount: A:0.27, C:0.04, G:0.05, T:0.64
Consensus pattern (43 bp):
TCATTTATTTATTTGTATATCAATAATTTTATTTTTTAGTTAT
Found at i:23979006 original size:29 final size:29
Alignment explanation
Indices: 23978948--23979006 Score: 68
Period size: 29 Copynumber: 2.0 Consensus size: 29
23978938 TTGTTCATTG
*
23978948 ATATTGATAAAAAATATTTAAATATTTAA
1 ATATTGATAAAAAATATTTAAATATGTAA
*
23978977 ATATT-ATAAAAAAATGCTTTAAAT-TGTAA
1 ATATTGAT-AAAAAAT-ATTTAAATATGTAA
23979006 A
1 A
23979007 AACTAGTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
28 2 0.08
29 17 0.65
30 7 0.27
ACGTcount: A:0.54, C:0.02, G:0.05, T:0.39
Consensus pattern (29 bp):
ATATTGATAAAAAATATTTAAATATGTAA
Found at i:23979026 original size:29 final size:29
Alignment explanation
Indices: 23978954--23979026 Score: 71
Period size: 29 Copynumber: 2.5 Consensus size: 29
23978944 ATTGATATTG
* * *
23978954 ATAAAAAAT-ATTTAAATATTTAAATATT
1 ATAAAAAATCATTTAAATATGTAAAAACT
23978982 ATAAAAAAATGC-TTTAAAT-TGTAAAAACT
1 AT-AAAAAAT-CATTTAAATATGTAAAAACT
23979011 AGTAAAAAATCATTTA
1 A-TAAAAAATCATTTA
23979027 TTTTTTTAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
28 3 0.08
29 26 0.70
30 8 0.22
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.36
Consensus pattern (29 bp):
ATAAAAAATCATTTAAATATGTAAAAACT
Found at i:23986944 original size:105 final size:105
Alignment explanation
Indices: 23986833--23987059 Score: 280
Period size: 105 Copynumber: 2.2 Consensus size: 105
23986823 ATTAATGCAT
* * * *
23986833 TATATGTGACAACATCAGGCTCAATGCCTTTCTTTCTCATTGTATCAACAATATCTTCAGCTT-T
1 TATATGTGACAACATCAGGCTCAATGCCTTGCTTTCGCATTGCATCAACAATATCTACAGCTTCT
23986897 AGAAACCATTCCCTC-T-TTGCAATGTGCATCAACCAATATAC
66 -GAAACCA--CCCTCTTCTTGCAATGTGCATCAACCAATATAC
* * * *
23986938 TGTATGTGACAACATTAGGTTCAATGCCTTGCTTTCGCATTGCATCAACAGTATCTACAGCTTCT
1 TATATGTGACAACATCAGGCTCAATGCCTTGCTTTCGCATTGCATCAACAATATCTACAGCTTCT
* * * *
23987003 GAAATCACCCTCTTCTTGCAATGTGCATCTATCAATATAT
66 GAAACCACCCTCTTCTTGCAATGTGCATCAACCAATATAC
* *
23987043 TATACGTGACAATATCA
1 TATATGTGACAACATCA
23987060 AGAGAAATAT
Statistics
Matches: 103, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
103 5 0.05
104 1 0.01
105 96 0.93
106 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.34
Consensus pattern (105 bp):
TATATGTGACAACATCAGGCTCAATGCCTTGCTTTCGCATTGCATCAACAATATCTACAGCTTCT
GAAACCACCCTCTTCTTGCAATGTGCATCAACCAATATAC
Found at i:24002512 original size:37 final size:37
Alignment explanation
Indices: 24002462--24002539 Score: 156
Period size: 37 Copynumber: 2.1 Consensus size: 37
24002452 TTTCAATCCC
24002462 TATGCATTACTTATTTAAATTAATATATGTATATCAT
1 TATGCATTACTTATTTAAATTAATATATGTATATCAT
24002499 TATGCATTACTTATTTAAATTAATATATGTATATCAT
1 TATGCATTACTTATTTAAATTAATATATGTATATCAT
24002536 TATG
1 TATG
24002540 TACCTTAATT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.37, C:0.08, G:0.06, T:0.49
Consensus pattern (37 bp):
TATGCATTACTTATTTAAATTAATATATGTATATCAT
Found at i:24004449 original size:131 final size:131
Alignment explanation
Indices: 24004243--24004536 Score: 374
Period size: 131 Copynumber: 2.2 Consensus size: 131
24004233 TATTGTTTAC
* * **
24004243 TTTATATATCATGAACAATCTTATTTGAGTTAGCTGATTTAATATCACTACTTCAAACAGCTTGT
1 TTTAT-TATCATGAACAATCTTATTTGAGTTAGCTGATTTAAGATCACTACTCCAAACAGCTCAT
* * * *
24004308 TGATTTAATATCGCAGTTGATATAGTTAAGGTTTGCTGATATGAAT-TCGCAACCTAAGTTCATT
65 TGATTTAATATCGCAGCTGATATAGTTAAAGTTCGCTAAT-TGAATATCGCAACCTAAGTTCATT
24004372 CAA
129 CAA
* *
24004375 TTTATTATCATGAACAATCTTATTTGGGTTAGCTGATTTAAGATCGCTACTCCAAACAGCTCATT
1 TTTATTATCATGAACAATCTTATTTGAGTTAGCTGATTTAAGATCACTACTCCAAACAGCTCATT
* * * * *
24004440 GGTTTAATATCGCAGCTGATATTGTTAAAGTTCGCTAATTTAATATTGCAACCTAAGTTCATTCG
66 GATTTAATATCGCAGCTGATATAGTTAAAGTTCGCTAATTGAATATCGCAACCTAAGTTCATTCA
24004505 A
131 A
* ** * * *
24004506 TTCAACAACATGAACAATCTCATTTGTGTTA
1 TTTATTATCATGAACAATCTTATTTGAGTTA
24004537 CCTAATTTTC
Statistics
Matches: 140, Mismatches: 21, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
130 4 0.03
131 131 0.94
132 5 0.04
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.38
Consensus pattern (131 bp):
TTTATTATCATGAACAATCTTATTTGAGTTAGCTGATTTAAGATCACTACTCCAAACAGCTCATT
GATTTAATATCGCAGCTGATATAGTTAAAGTTCGCTAATTGAATATCGCAACCTAAGTTCATTCA
A
Found at i:24013013 original size:104 final size:104
Alignment explanation
Indices: 24012756--24013072 Score: 445
Period size: 104 Copynumber: 3.0 Consensus size: 104
24012746 TTATGACTTA
* * * * ** *
24012756 AGCTGGATTTTAGTAATTGATAATGGGTTAATGAAATGGGGTTATTGTTGATGGTTAAATTATGT
1 AGCTGGATTTTAGTAATTGCTAGTGGATTAATGAAATGGGGTTATTGTTGATTGTTAAACAATGG
* * *
24012821 AGGAATTTTGTGGGTTTACAGCTTAAAAAATTGGTGGTTTC
66 AGGAAATTTATGGGTTTACAGCTT--AAAATTGGTGGTTTT
* *
24012862 AGCTAGATTTTAGTAATTGCTAGTGGATTTATGAAATGGGGTTATTGTTGATTGTTAAACAATGG
1 AGCTGGATTTTAGTAATTGCTAGTGGATTAATGAAATGGGGTTATTGTTGATTGTTAAACAATGG
*
24012927 AGGAAATTTATGGGTTTATAGCTTAAAATTGGTGGTTTT
66 AGGAAATTTATGGGTTTACAGCTTAAAATTGGTGGTTTT
* * *
24012966 AGCTGGATTTTAGTATTTGCTAGTGGATTAATGAAATGGGGTGATTGTTGATTATTAAACAATGG
1 AGCTGGATTTTAGTAATTGCTAGTGGATTAATGAAATGGGGTTATTGTTGATTGTTAAACAATGG
* *
24013031 AAGAAATTTATGGGTTTACAGCTTAAAATTGGCGGCTTTT
66 AGGAAATTTATGGGTTTACAGCTTAAAATTGGTGG-TTTT
24013071 AG
1 AG
24013073 TTATTGCTAC
Statistics
Matches: 189, Mismatches: 21, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
104 106 0.56
105 6 0.03
106 77 0.41
ACGTcount: A:0.29, C:0.05, G:0.26, T:0.40
Consensus pattern (104 bp):
AGCTGGATTTTAGTAATTGCTAGTGGATTAATGAAATGGGGTTATTGTTGATTGTTAAACAATGG
AGGAAATTTATGGGTTTACAGCTTAAAATTGGTGGTTTT
Found at i:24014329 original size:14 final size:14
Alignment explanation
Indices: 24014306--24014339 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
24014296 GATTTGCTTC
*
24014306 TTCTTCTTTTTTTT
1 TTCTTTTTTTTTTT
24014320 TTCTTTTTTTTTTT
1 TTCTTTTTTTTTTT
*
24014334 TGCTTT
1 TTCTTT
24014340 AAATGCAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.00, C:0.12, G:0.03, T:0.85
Consensus pattern (14 bp):
TTCTTTTTTTTTTT
Found at i:24015305 original size:33 final size:33
Alignment explanation
Indices: 24015263--24015327 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
24015253 TTTCGAGTGA
24015263 TTGGATCTAGATATTATAGATCAACTGAGACAG
1 TTGGATCTAGATATTATAGATCAACTGAGACAG
*
24015296 TTGGATCTAGATATTATAGATCAATTGAGACA
1 TTGGATCTAGATATTATAGATCAACTGAGACA
24015328 ATTCACCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.37, C:0.11, G:0.20, T:0.32
Consensus pattern (33 bp):
TTGGATCTAGATATTATAGATCAACTGAGACAG
Found at i:24016382 original size:27 final size:27
Alignment explanation
Indices: 24016349--24016421 Score: 92
Period size: 32 Copynumber: 2.5 Consensus size: 27
24016339 TATGTCGAAT
24016349 TTGTTAGATATTGATTATGTTTTAAGC
1 TTGTTAGATATTGATTATGTTTTAAGC
24016376 TTGTTAGATATTGAATTTATTATGTTTTAAGC
1 TTGTTAGATATTG-----ATTATGTTTTAAGC
*
24016408 TTGTTGGATATTGA
1 TTGTTAGATATTGA
24016422 AATGATTGAC
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
27 14 0.35
32 26 0.65
ACGTcount: A:0.26, C:0.03, G:0.19, T:0.52
Consensus pattern (27 bp):
TTGTTAGATATTGATTATGTTTTAAGC
Found at i:24016401 original size:32 final size:32
Alignment explanation
Indices: 24016362--24016422 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
24016352 TTAGATATTG
24016362 ATTATGTTTTAAGCTTGTTAGATATTGAATTT
1 ATTATGTTTTAAGCTTGTTAGATATTGAATTT
*
24016394 ATTATGTTTTAAGCTTGTTGGATATTGAA
1 ATTATGTTTTAAGCTTGTTAGATATTGAA
24016423 ATGATTGACA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.28, C:0.03, G:0.18, T:0.51
Consensus pattern (32 bp):
ATTATGTTTTAAGCTTGTTAGATATTGAATTT
Found at i:24020475 original size:19 final size:20
Alignment explanation
Indices: 24020425--24020488 Score: 69
Period size: 19 Copynumber: 3.3 Consensus size: 20
24020415 ATCCAAACAC
* *
24020425 CAGAAAAGTAAATCATTTCT
1 CAGAAAAGAAAATCATTTTT
*
24020445 -AGAAAAGTAAATCATTTTT
1 CAGAAAAGAAAATCATTTTT
* *
24020464 CAGAAAA-AAAATTATTTTC
1 CAGAAAAGAAAATCATTTTT
24020483 CAGAAA
1 CAGAAA
24020489 TCATTTTTCG
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
19 33 0.85
20 6 0.15
ACGTcount: A:0.50, C:0.11, G:0.09, T:0.30
Consensus pattern (20 bp):
CAGAAAAGAAAATCATTTTT
Found at i:24021862 original size:105 final size:105
Alignment explanation
Indices: 24021541--24021961 Score: 492
Period size: 104 Copynumber: 4.0 Consensus size: 105
24021531 TCCCTACTTG
* * ***
24021541 TATGTGACAACATTAGGCTCAATGCCTTGCTTTCTCATTGTGTCAACAATATCTGGTGCTTCA-A
1 TATGTGACAACATCAGGCTCAATGCCTTGCTTTCTCATTCTGTCAACAATATCTTCAGCTTCAGA
* *
24021605 AACCATCCCCTTCTTGCAATGTGCATCAACCAATATACTA
66 AACCATTCCCTCCTTGCAATGTGCATCAACCAATATACTA
* * * *
24021645 TGA-GTGTCAACGTCAGGTTCAATACCTTGCTTTCTCA-TCGTGTCAACAATATCTTCAGCTT-A
1 T-ATGTGACAACATCAGGCTCAATGCCTTGCTTTCTCATTC-TGTCAACAATATCTTCAGCTTCA
* * * **
24021707 GGAACCATTCCCTCCTTGCAATGCGCATTAACCAATATGTTA
64 GAAACCATTCCCTCCTTGCAATGTGCATCAACCAATATACTA
* * * *
24021749 TATGTGACAACATCAGGCTCAATGCCTAGCTTTTTCATACTGTCAACAATATCTTCAGCTTTAGA
1 TATGTGACAACATCAGGCTCAATGCCTTGCTTTCTCATTCTGTCAACAATATCTTCAGCTTCAGA
* * *
24021814 AATCATTCCCTTCTTGCAATATGCATCAACCAATATACTA
66 AACCATTCCCTCCTTGCAATGTGCATCAACCAATATACTA
* * ** * *
24021854 TATGTGACAACATCAGGCTCAATGCCTTGCTTTCTCATTGTGTTAACAATATCTAGAACTTCAAA
1 TATGTGACAACATCAGGCTCAATGCCTTGCTTTCTCATTCTGTCAACAATATCTTCAGCTTCAGA
* * *
24021919 AATCATTCCCTCCTTG-AAGTGTGCATCAATCAATATATTA
66 AACCATTCCCTCCTTGCAA-TGTGCATCAACCAATATACTA
24021959 TAT
1 TAT
24021962 ATAAAAATAT
Statistics
Matches: 265, Mismatches: 45, Indels: 13
0.82 0.14 0.04
Matches are distributed among these distances:
103 3 0.01
104 134 0.51
105 128 0.48
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.33
Consensus pattern (105 bp):
TATGTGACAACATCAGGCTCAATGCCTTGCTTTCTCATTCTGTCAACAATATCTTCAGCTTCAGA
AACCATTCCCTCCTTGCAATGTGCATCAACCAATATACTA
Found at i:24042902 original size:12 final size:12
Alignment explanation
Indices: 24042885--24042914 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
24042875 CCTCATATGC
24042885 TCGTGTGCTAGG
1 TCGTGTGCTAGG
24042897 TCGTGTGCTAGG
1 TCGTGTGCTAGG
*
24042909 CCGTGT
1 TCGTGT
24042915 AACTGCTAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.20, G:0.40, T:0.33
Consensus pattern (12 bp):
TCGTGTGCTAGG
Found at i:24048913 original size:28 final size:28
Alignment explanation
Indices: 24048882--24049028 Score: 133
Period size: 28 Copynumber: 5.2 Consensus size: 28
24048872 AGGCTTATTC
24048882 TTTCATATTACGCCACAAAGACATTTCT
1 TTTCATATTACGCCACAAAGACATTTCT
* * * *
24048910 TTTCATA-AATCGTCACAAAGGCTTATTC-
1 TTTCATATTA-CGCCACAAAGACAT-TTCT
*
24048938 TTTCATATTACGCCACAAAGGCATTTCT
1 TTTCATATTACGCCACAAAGACATTTCT
* * *
24048966 TTTCATGAAT-CGCCACAGAG-GATTAT-T
1 TTTCAT-ATTACGCCACAAAGACATT-TCT
*
24048993 CTTTCATATTATGCCACAAAGACATTTCT
1 -TTTCATATTACGCCACAAAGACATTTCT
24049022 TTTCATA
1 TTTCATA
24049029 GATTGCCACA
Statistics
Matches: 95, Mismatches: 14, Indels: 20
0.74 0.11 0.16
Matches are distributed among these distances:
27 10 0.11
28 75 0.79
29 10 0.11
ACGTcount: A:0.31, C:0.22, G:0.10, T:0.37
Consensus pattern (28 bp):
TTTCATATTACGCCACAAAGACATTTCT
Found at i:24048913 original size:56 final size:56
Alignment explanation
Indices: 24048852--24049027 Score: 282
Period size: 56 Copynumber: 3.1 Consensus size: 56
24048842 CAAGGTTATC
24048852 CTTTTCATGAATCGCTACAGAGGCTTATTCTTTCATATTACGCCACAAAGACATTT
1 CTTTTCATGAATCGCTACAGAGGCTTATTCTTTCATATTACGCCACAAAGACATTT
* * *
24048908 CTTTTCATAAATCG-TCACAAAGGCTTATTCTTTCATATTACGCCACAAAGGCATTT
1 CTTTTCATGAATCGCT-ACAGAGGCTTATTCTTTCATATTACGCCACAAAGACATTT
* * *
24048964 CTTTTCATGAATCGCCACAGAGGATTATTCTTTCATATTATGCCACAAAGACATTT
1 CTTTTCATGAATCGCTACAGAGGCTTATTCTTTCATATTACGCCACAAAGACATTT
24049020 CTTTTCAT
1 CTTTTCAT
24049028 AGATTGCCAC
Statistics
Matches: 109, Mismatches: 9, Indels: 4
0.89 0.07 0.03
Matches are distributed among these distances:
55 1 0.01
56 108 0.99
ACGTcount: A:0.29, C:0.23, G:0.11, T:0.37
Consensus pattern (56 bp):
CTTTTCATGAATCGCTACAGAGGCTTATTCTTTCATATTACGCCACAAAGACATTT
Found at i:24059901 original size:39 final size:39
Alignment explanation
Indices: 24059858--24060029 Score: 211
Period size: 39 Copynumber: 4.4 Consensus size: 39
24059848 ATAGAAATAT
*
24059858 GGTGATTATTC-GAGCTATATGCCTAACAGGCTTTGTGCC
1 GGTGATTATTCAG-GCTATGTGCCTAACAGGCTTTGTGCC
* * *
24059897 GGTGATTATTCAGGCCATGTGCCTAGCAGGCTTTATGCC
1 GGTGATTATTCAGGCTATGTGCCTAACAGGCTTTGTGCC
* * ** *
24059936 GGTGGTTATTCGGGCTATGTGCCTAGTAAGCTTTGTGCC
1 GGTGATTATTCAGGCTATGTGCCTAACAGGCTTTGTGCC
**
24059975 GGTGATTATTCAGGCTATGTGCCTAACAGGCTTTGTGTT
1 GGTGATTATTCAGGCTATGTGCCTAACAGGCTTTGTGCC
* *
24060014 GTTGATTATTCCGGCT
1 GGTGATTATTCAGGCT
24060030 TTGTACCGGT
Statistics
Matches: 113, Mismatches: 19, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
39 112 0.99
40 1 0.01
ACGTcount: A:0.17, C:0.19, G:0.28, T:0.35
Consensus pattern (39 bp):
GGTGATTATTCAGGCTATGTGCCTAACAGGCTTTGTGCC
Found at i:24060067 original size:78 final size:78
Alignment explanation
Indices: 24059985--24060153 Score: 207
Period size: 78 Copynumber: 2.2 Consensus size: 78
24059975 GGTGATTATT
* * * * *
24059985 CAGGCTATGTGCCTAACAGGCTTTGTGTTGTTGATTATTCCGGCTTTGTACCGG-TGATTATTCA
1 CAGGCTATGTGCCTAACAAGCTTCGTGCTGGTGATTATTCAGGCTTTGT-CCGGATGATTATTC-
*
24060049 GGCT-ATGTGCCTAG
64 GGCTCATATGCCTAG
* *
24060063 CAGGCTATGTGCCTAGCAAGCTTCGTGCTGGTGATTATTCAGGCTTTGTGCGGATGATTATTCGG
1 CAGGCTATGTGCCTAACAAGCTTCGTGCTGGTGATTATTCAGGCTTTGTCCGGATGATTATTCGG
*
24060128 GTCATATGCCTAG
66 CTCATATGCCTAG
* *
24060141 CAAGCTTTGTGCC
1 CAGGCTATGTGCC
24060154 GGTGATTATT
Statistics
Matches: 78, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
77 6 0.08
78 72 0.92
ACGTcount: A:0.17, C:0.20, G:0.28, T:0.35
Consensus pattern (78 bp):
CAGGCTATGTGCCTAACAAGCTTCGTGCTGGTGATTATTCAGGCTTTGTCCGGATGATTATTCGG
CTCATATGCCTAG
Found at i:24060068 original size:16 final size:16
Alignment explanation
Indices: 24060047--24060080 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
24060037 GGTGATTATT
24060047 CAGGCTATGTGCCTAG
1 CAGGCTATGTGCCTAG
24060063 CAGGCTATGTGCCTAG
1 CAGGCTATGTGCCTAG
24060079 CA
1 CA
24060081 AGCTTCGTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.21, C:0.26, G:0.29, T:0.24
Consensus pattern (16 bp):
CAGGCTATGTGCCTAG
Found at i:24060090 original size:16 final size:16
Alignment explanation
Indices: 24060050--24060084 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
24060040 GATTATTCAG
*
24060050 GCTATGTGCCTAGCAG
1 GCTATGTGCCTAGCAA
24060066 GCTATGTGCCTAGCAA
1 GCTATGTGCCTAGCAA
24060082 GCT
1 GCT
24060085 TCGTGCTGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.20, C:0.26, G:0.29, T:0.26
Consensus pattern (16 bp):
GCTATGTGCCTAGCAA
Found at i:24060113 original size:23 final size:23
Alignment explanation
Indices: 24060082--24060125 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
24060072 TGCCTAGCAA
24060082 GCTTCGTGCTGG-TGATTATTCAG
1 GCTTCGTGC-GGATGATTATTCAG
*
24060105 GCTTTGTGCGGATGATTATTC
1 GCTTCGTGCGGATGATTATTC
24060126 GGGTCATATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.14, C:0.16, G:0.30, T:0.41
Consensus pattern (23 bp):
GCTTCGTGCGGATGATTATTCAG
Found at i:24060148 original size:39 final size:39
Alignment explanation
Indices: 24060105--24060181 Score: 104
Period size: 39 Copynumber: 2.0 Consensus size: 39
24060095 GATTATTCAG
24060105 GCTTTGTG-CGGATGATTATTCGGG-TCATATGCCTAGCAA
1 GCTTTGTGCCGG-TGATTATTCGGGCT-ATATGCCTAGCAA
* *
24060144 GCTTTGTGCCGGTGATTATTTGGGCTATGTGCCTAGCA
1 GCTTTGTGCCGGTGATTATTCGGGCTATATGCCTAGCA
24060182 GGCTATATGC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
39 30 0.88
40 4 0.12
ACGTcount: A:0.17, C:0.18, G:0.30, T:0.35
Consensus pattern (39 bp):
GCTTTGTGCCGGTGATTATTCGGGCTATATGCCTAGCAA
Found at i:24060193 original size:39 final size:39
Alignment explanation
Indices: 24060117--24060193 Score: 93
Period size: 39 Copynumber: 2.0 Consensus size: 39
24060107 TTTGTGCGGA
* *
24060117 TGATTATTCGGGTCATATGCCTAGCAAGCTTTGTGCCGG
1 TGATTATTCGGGTCATATGCCTAGCAAGCTATATGCCGG
* * *
24060156 TGATTATTTGGG-CTATGTGCCTAGCAGGCTATATGCCG
1 TGATTATTCGGGTC-ATATGCCTAGCAAGCTATATGCCG
24060194 ATGTATTGAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
38 1 0.03
39 31 0.97
ACGTcount: A:0.18, C:0.19, G:0.29, T:0.34
Consensus pattern (39 bp):
TGATTATTCGGGTCATATGCCTAGCAAGCTATATGCCGG
Found at i:24068234 original size:7 final size:7
Alignment explanation
Indices: 24068219--24068256 Score: 58
Period size: 7 Copynumber: 5.3 Consensus size: 7
24068209 ATTCATTACT
24068219 TTTAGGG
1 TTTAGGG
*
24068226 TTTAAGG
1 TTTAGGG
24068233 TTTAGGG
1 TTTAGGG
24068240 TTTTAGGG
1 -TTTAGGG
24068248 TTTAGGG
1 TTTAGGG
24068255 TT
1 TT
24068257 AAAAATTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
7 21 0.75
8 7 0.25
ACGTcount: A:0.16, C:0.00, G:0.37, T:0.47
Consensus pattern (7 bp):
TTTAGGG
Found at i:24068249 original size:15 final size:15
Alignment explanation
Indices: 24068219--24068256 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
24068209 ATTCATTACT
24068219 TTTAGGG-TTTAAGG
1 TTTAGGGTTTTAAGG
*
24068233 TTTAGGGTTTTAGGG
1 TTTAGGGTTTTAAGG
24068248 TTTAGGGTT
1 TTTAGGGTT
24068257 AAAAATTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 7 0.32
15 15 0.68
ACGTcount: A:0.16, C:0.00, G:0.37, T:0.47
Consensus pattern (15 bp):
TTTAGGGTTTTAAGG
Found at i:24068548 original size:25 final size:26
Alignment explanation
Indices: 24068477--24068540 Score: 94
Period size: 28 Copynumber: 2.4 Consensus size: 26
24068467 AATAAACACC
*
24068477 AAAAAATATTTTAAAAATAAAAATAATA
1 AAAAAATATTTT-AAAAT-TAAATAATA
24068505 AAAAAATATTTTAAAATTAAATAAT-
1 AAAAAATATTTTAAAATTAAATAATA
24068530 AAAAAATATTT
1 AAAAAATATTT
24068541 ATTTATTATA
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
25 11 0.31
26 7 0.20
27 5 0.14
28 12 0.34
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (26 bp):
AAAAAATATTTTAAAATTAAATAATA
Found at i:24070170 original size:7 final size:7
Alignment explanation
Indices: 24070158--24070197 Score: 80
Period size: 7 Copynumber: 5.7 Consensus size: 7
24070148 TTATATATAT
24070158 AATACTA
1 AATACTA
24070165 AATACTA
1 AATACTA
24070172 AATACTA
1 AATACTA
24070179 AATACTA
1 AATACTA
24070186 AATACTA
1 AATACTA
24070193 AATAC
1 AATAC
24070198 CAATCGACTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.57, C:0.15, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:24071368 original size:11 final size:11
Alignment explanation
Indices: 24071352--24071464 Score: 85
Period size: 11 Copynumber: 10.5 Consensus size: 11
24071342 AAATAGGGAT
24071352 TTGAGAGGAAA
1 TTGAGAGGAAA
*
24071363 TTGAGAGCAAA
1 TTGAGAGGAAA
**
24071374 TTGAGATTAAA
1 TTGAGAGGAAA
* *
24071385 -T-A-TGG-AT
1 TTGAGAGGAAA
24071392 TTGAGA-GAAA
1 TTGAGAGGAAA
24071402 TTTG-GAAGGAAA
1 -TTGAG-AGGAAA
*
24071414 TTGAGAGCAAA
1 TTGAGAGGAAA
*
24071425 TTGAGAGGAAC
1 TTGAGAGGAAA
24071436 TTGAGAGGAAA
1 TTGAGAGGAAA
*
24071447 TTGAGAGAATAA
1 TTGAGAGGA-AA
24071459 TTGAGA
1 TTGAGA
24071465 AAGGATTAAT
Statistics
Matches: 79, Mismatches: 14, Indels: 17
0.72 0.13 0.15
Matches are distributed among these distances:
7 1 0.01
8 1 0.01
9 3 0.04
10 3 0.04
11 58 0.73
12 13 0.16
ACGTcount: A:0.43, C:0.03, G:0.30, T:0.24
Consensus pattern (11 bp):
TTGAGAGGAAA
Found at i:24071429 original size:33 final size:34
Alignment explanation
Indices: 24071392--24071464 Score: 96
Period size: 33 Copynumber: 2.2 Consensus size: 34
24071382 AAATATGGAT
* *
24071392 TTGAGAGAAATTTG-GAAGGAAATTGAGAGCA-AA
1 TTGAGAGAAACTTGAG-AGGAAATTGAGAGAATAA
*
24071425 TTGAGAGGAACTTGAGAGGAAATTGAGAGAATAA
1 TTGAGAGAAACTTGAGAGGAAATTGAGAGAATAA
24071459 TTGAGA
1 TTGAGA
24071465 AAGGATTAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
33 26 0.74
34 9 0.26
ACGTcount: A:0.44, C:0.03, G:0.32, T:0.22
Consensus pattern (34 bp):
TTGAGAGAAACTTGAGAGGAAATTGAGAGAATAA
Found at i:24072104 original size:16 final size:16
Alignment explanation
Indices: 24072083--24072118 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
24072073 TTTGGTTCGC
24072083 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
24072099 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
24072115 TGTA
1 TGTA
24072119 ATAACAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:24072450 original size:153 final size:153
Alignment explanation
Indices: 24072267--24072553 Score: 493
Period size: 153 Copynumber: 1.9 Consensus size: 153
24072257 TTGGTAAATG
* * *
24072267 ATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTATTATCAATAATAAATATTTTAATCAT
1 ATTATTGCTATTGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCAT
* * *
24072332 ATTTAAACATAAATATTATTAAACCCATTCTAATTAAAATATATAATTTCATAAAATTCTTAATA
66 ATTTAAACATAAATATTATTAAACACATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
24072397 ATTAGCAGAAATTTATTTTGGTA
131 ATTAGCAGAAATTTATTTTGGTA
24072420 ATTATTGCTATTGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCAT
1 ATTATTGCTATTGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCAT
* * *
24072485 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
66 ATTTAAACATAAATATTATTAAACACATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
24072550 ATTA
131 ATTA
24072554 ATATTCTTAT
Statistics
Matches: 125, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
153 125 1.00
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.46
Consensus pattern (153 bp):
ATTATTGCTATTGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCAT
ATTTAAACATAAATATTATTAAACACATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
ATTAGCAGAAATTTATTTTGGTA
Found at i:24072524 original size:16 final size:16
Alignment explanation
Indices: 24072487--24072528 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
24072477 TTAATCATAT
*
24072487 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
24072503 TT-AAATATATTATAA
1 TTAAAATATATTATAA
24072518 TTAAAATATAT
1 TTAAAATATAT
24072529 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:24072535 original size:14 final size:15
Alignment explanation
Indices: 24072496--24072537 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
24072486 TTTAAACATA
*
24072496 ATTATTATTAAATAT
1 ATTATAATTAAATAT
24072511 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
24072525 A-TATAATTTAATA
1 ATTATAATTAAATA
24072538 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:24072749 original size:24 final size:25
Alignment explanation
Indices: 24072703--24072750 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
24072693 TATGAATTTG
24072703 TATAATTTAAAATAATAATTATTACA
1 TATAATTTAAAAT-ATAATTATTACA
24072729 TATAATTTAATAAT-TAA-TATTA
1 TATAATTTAA-AATATAATTATTA
24072751 AATTTCATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 5 0.24
25 3 0.14
26 10 0.48
27 3 0.14
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (25 bp):
TATAATTTAAAATATAATTATTACA
Found at i:24072754 original size:92 final size:92
Alignment explanation
Indices: 24072658--24072886 Score: 227
Period size: 92 Copynumber: 2.5 Consensus size: 92
24072648 TGATTTAATA
* * * *
24072658 AAATTT-AAAATAATT-ATAACTAATAAATTATATTTTATGAATTTGTATAATTTAAAATAA-TA
1 AAATTTCAAAA-AATTCATAA-TAATAAATTATATTATATGAATTTATACAATTAAAAATAATTA
*
24072720 ATTATTACATATAATTTAATAATTAATATT
64 A-TATTAAATATAATTTAATAATTAATATT
* * * * *
24072750 AAATTTCATAAAATTCTTGATAATAAATTTTCTTATATGAATTTATACAATTAAAAATAATTAAT
1 AAATTTCAAAAAATTCATAATAATAAATTATATTATATGAATTTATACAATTAAAAATAATTAAT
* *
24072815 ATTAAATATAATTTAAT-AGTGATA-T
66 ATTAAATATAATTTAATAATTAATATT
* * *
24072840 ATAATTTCATAAAATTCTTAATAATAAAATGT-TCTTATATGAATTTA
1 A-AATTTCAAAAAATTCATAATAAT-AAAT-TATATTATATGAATTTA
24072887 CTAAAATCAA
Statistics
Matches: 118, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
90 2 0.02
91 27 0.23
92 80 0.68
93 9 0.08
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (92 bp):
AAATTTCAAAAAATTCATAATAATAAATTATATTATATGAATTTATACAATTAAAAATAATTAAT
ATTAAATATAATTTAATAATTAATATT
Found at i:24072820 original size:16 final size:17
Alignment explanation
Indices: 24072799--24072832 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
24072789 AATTTATACA
24072799 ATTAAAAATAA-TTAAT
1 ATTAAAAATAATTTAAT
*
24072815 ATTAAATATAATTTAAT
1 ATTAAAAATAATTTAAT
24072832 A
1 A
24072833 GTGATATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATTAAAAATAATTTAAT
Found at i:24074317 original size:12 final size:12
Alignment explanation
Indices: 24074300--24074333 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
24074290 CTAGATACAT
24074300 AAAATGAAACCC
1 AAAATGAAACCC
24074312 AAAATGAAACCC
1 AAAATGAAACCC
24074324 AAAATGAAAC
1 AAAATGAAAC
24074334 AACAAGGTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.62, C:0.21, G:0.09, T:0.09
Consensus pattern (12 bp):
AAAATGAAACCC
Found at i:24075408 original size:77 final size:77
Alignment explanation
Indices: 24075281--24075441 Score: 295
Period size: 77 Copynumber: 2.1 Consensus size: 77
24075271 GGAAGAACAA
* * *
24075281 ATTAAAATGATTGTCTATTTATAGATATACACACATACTTATAGCTATATATAACCAAAATGTCA
1 ATTAAAATGATTGTCTATGTATAGATATACACACATACTTATACCTATATATAACCAAAACGTCA
24075346 TGATTCATCTAG
66 TGATTCATCTAG
24075358 ATTAAAATGATTGTCTATGTATAGATATACACACATACTTATACCTATATATAACCAAAACGTCA
1 ATTAAAATGATTGTCTATGTATAGATATACACACATACTTATACCTATATATAACCAAAACGTCA
24075423 TGATTCATCTAG
66 TGATTCATCTAG
24075435 ATTAAAA
1 ATTAAAA
24075442 GTAAATTTTT
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
77 81 1.00
ACGTcount: A:0.42, C:0.15, G:0.09, T:0.35
Consensus pattern (77 bp):
ATTAAAATGATTGTCTATGTATAGATATACACACATACTTATACCTATATATAACCAAAACGTCA
TGATTCATCTAG
Found at i:24082413 original size:10 final size:9
Alignment explanation
Indices: 24082355--24082414 Score: 52
Period size: 10 Copynumber: 6.4 Consensus size: 9
24082345 GACTAAAGTG
24082355 ATTTTTATA
1 ATTTTTATA
*
24082364 ATCTTTA-A
1 ATTTTTATA
*
24082372 ATATATTTATT
1 AT-T-TTTATA
24082383 ATTTTT-TA
1 ATTTTTATA
24082391 ATTTTTATGA
1 ATTTTTAT-A
24082401 ATTTTTAATA
1 ATTTTT-ATA
24082411 ATTT
1 ATTT
24082415 ATTTACTTGA
Statistics
Matches: 41, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
8 10 0.24
9 10 0.24
10 17 0.41
11 4 0.10
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (9 bp):
ATTTTTATA
Found at i:24084931 original size:24 final size:24
Alignment explanation
Indices: 24084904--24084952 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
24084894 ATTCACATAT
24084904 TTTAATAATTTTAAAAAAGTAAAA
1 TTTAATAATTTTAAAAAAGTAAAA
24084928 TTTAATAATTTTAAAAAAGTAAAA
1 TTTAATAATTTTAAAAAAGTAAAA
24084952 T
1 T
24084953 AATTTAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (24 bp):
TTTAATAATTTTAAAAAAGTAAAA
Found at i:24085118 original size:21 final size:21
Alignment explanation
Indices: 24085070--24085125 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
24085060 CACCATTGTT
*
24085070 TCTAATCTCATCGCTACAGTA
1 TCTAATCTCACCGCTACAGTA
*
24085091 TCCAATCTCACCGCTACAGTAA
1 TCTAATCTCACCGCTACAGT-A
24085113 T-TAATCTCACCGC
1 TCTAATCTCACCGC
24085126 CACCGCTGCT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
21 29 0.94
22 2 0.06
ACGTcount: A:0.29, C:0.34, G:0.09, T:0.29
Consensus pattern (21 bp):
TCTAATCTCACCGCTACAGTA
Found at i:24087388 original size:15 final size:15
Alignment explanation
Indices: 24087347--24087388 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
24087337 AAATATTTAG
*
24087347 ATTCAATATTTAGAA
1 ATTCAATATTTAAAA
*
24087362 ATTTAATA-TTAAAA
1 ATTCAATATTTAAAA
*
24087376 ATTCAACATTTAA
1 ATTCAATATTTAA
24087389 TTTTTCATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.50, C:0.07, G:0.02, T:0.40
Consensus pattern (15 bp):
ATTCAATATTTAAAA
Found at i:24088180 original size:17 final size:18
Alignment explanation
Indices: 24088158--24088198 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
24088148 ATATGTTTTT
*
24088158 AAAATTTTATTAAA-TTA
1 AAAATTTTAATAAACTTA
24088175 AAAATTTTAATAAACTTTA
1 AAAATTTTAATAAAC-TTA
24088194 AAAAT
1 AAAAT
24088199 ACAATTATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 13 0.62
19 8 0.38
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (18 bp):
AAAATTTTAATAAACTTA
Found at i:24088250 original size:15 final size:15
Alignment explanation
Indices: 24088232--24088272 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
24088222 TTTATATTAT
24088232 TTATTTTTAATATAA
1 TTATTTTTAATATAA
*
24088247 TTATTCTTT-TTATAA
1 TTATT-TTTAATATAA
24088262 TTATTTTTAAT
1 TTATTTTTAAT
24088273 TAGTAAAATG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 3 0.14
15 16 0.73
16 3 0.14
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (15 bp):
TTATTTTTAATATAA
Found at i:24088485 original size:17 final size:19
Alignment explanation
Indices: 24088463--24088504 Score: 61
Period size: 17 Copynumber: 2.3 Consensus size: 19
24088453 TCTATTAAAT
24088463 ATAATAAATATTTAA-TAA
1 ATAATAAATATTTAACTAA
*
24088481 A-AATAAGTATTTAACTAA
1 ATAATAAATATTTAACTAA
24088499 ATAATA
1 ATAATA
24088505 TTATTTGTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 12 0.57
18 5 0.24
19 4 0.19
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (19 bp):
ATAATAAATATTTAACTAA
Found at i:24099579 original size:58 final size:58
Alignment explanation
Indices: 24099489--24099651 Score: 186
Period size: 58 Copynumber: 2.8 Consensus size: 58
24099479 TTGTTATTAA
* * * * * *
24099489 ATTTTAATAGAATTATTACTAAATATAATTTAAT-AAAATAAATAAATATTTTAATCAT
1 ATTTTAATATAATTATTATTAAATAAAATTTAATAAAAAT-AATAAATAATTTAATAAC
* *
24099547 ATTTTAACATAATTATTATTAAATAAAATTTAATAAAAATAATATATAATTTAATAAC
1 ATTTTAATATAATTATTATTAAATAAAATTTAATAAAAATAATAAATAATTTAATAAC
* *
24099605 ATTCTTAATATAATTATTATTAAAATATGAA-TTAATAAAAATCATAA
1 ATT-TTAATATAATTATTATT-AAATA-AAATTTAATAAAAATAATAA
24099652 TATATAATAT
Statistics
Matches: 89, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
58 47 0.53
59 21 0.24
60 19 0.21
61 2 0.02
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.42
Consensus pattern (58 bp):
ATTTTAATATAATTATTATTAAATAAAATTTAATAAAAATAATAAATAATTTAATAAC
Found at i:24100779 original size:29 final size:27
Alignment explanation
Indices: 24100726--24100979 Score: 122
Period size: 28 Copynumber: 9.1 Consensus size: 27
24100716 GATTGTGTGT
* * *
24100726 CCCTTATTTT-AGATTTTATAGTTTTG
1 CCCTTATTTTCAGATTTTACAATTTTA
*
24100752 CCCTTATTTAATCAGATTTTACAATTTTT
1 CCCTTATTT--TCAGATTTTACAATTTTA
* *
24100781 CCCTTATTTTTAGATTTTACATTTTTA
1 CCCTTATTTTCAGATTTTACAATTTTA
* * **
24100808 CCCCTATTTTTCAAATTTTACAAAGTT-
1 CCCTTA-TTTTCAGATTTTACAATTTTA
* * *
24100835 CCCTTTGTTTCTCAGATTTTATAGTTTT-
1 CCC-TTATTT-TCAGATTTTACAATTTTA
* *
24100863 CCCTCTATTTTTTAGATTTTATAATTTT-
1 CCCT-TA-TTTTCAGATTTTACAATTTTA
* * * * *
24100891 GCCTCAGTTTCTTAAATTTTACAATTTTC
1 CCCTTA-TTT-TCAGATTTTACAATTTTA
* * * * *
24100920 CCCTAATTTTTAGATTCTATAGTTTT-
1 CCCTTATTTTCAGATTTTACAATTTTA
* *
24100946 CCCTTATTTTTTCAAAGTTTACAATTTTGA
1 CCCTTA--TTTTCAGATTTTACAATTTT-A
24100976 CCCT
1 CCCT
24100980 AAAGTTTATT
Statistics
Matches: 174, Mismatches: 40, Indels: 24
0.73 0.17 0.10
Matches are distributed among these distances:
26 14 0.08
27 44 0.25
28 83 0.48
29 29 0.17
30 4 0.02
ACGTcount: A:0.23, C:0.18, G:0.06, T:0.53
Consensus pattern (27 bp):
CCCTTATTTTCAGATTTTACAATTTTA
Found at i:24100827 original size:55 final size:53
Alignment explanation
Indices: 24100725--24100956 Score: 191
Period size: 56 Copynumber: 4.2 Consensus size: 53
24100715 CGATTGTGTG
* * *
24100725 TCCCTTA-TTTTAGATTTTATAGTTTTGCCCTTATTTAATCAGATTTTACAATTTT
1 TCCCTTATTTTTAGATTTTACAGTTTT-CCCCTATTT-TTCAGATTTTACAA-TTT
* * **
24100780 TCCCTTATTTTTAGATTTTACATTTTTACCCCTATTTTTCAAATTTTACAAAGT
1 TCCCTTATTTTTAGATTTTACAGTTTT-CCCCTATTTTTCAGATTTTACAATTT
* * *
24100834 TCCCTT-TGTTTCTCAGATTTTATAGTTTTCCCTCTATTTTTTAGATTTTATAATTT
1 TCCCTTAT-TTT-T-AGATTTTACAGTTTTCCC-CTATTTTTCAGATTTTACAATTT
* * * * * * *
24100890 TGCCTCAGTTTCTTAAATTTTACAATTTTCCCCTAATTTTT-AGATTCTATAGTTT
1 TCCCTTA-TTT-TTAGATTTTACAGTTTTCCCCT-ATTTTTCAGATTTTACAATTT
24100945 TCCCTTATTTTT
1 TCCCTTATTTTT
24100957 TCAAAGTTTA
Statistics
Matches: 144, Mismatches: 24, Indels: 20
0.77 0.13 0.11
Matches are distributed among these distances:
53 3 0.02
54 13 0.09
55 42 0.29
56 81 0.56
57 3 0.02
58 2 0.01
ACGTcount: A:0.22, C:0.17, G:0.06, T:0.55
Consensus pattern (53 bp):
TCCCTTATTTTTAGATTTTACAGTTTTCCCCTATTTTTCAGATTTTACAATTT
Found at i:24100967 original size:55 final size:56
Alignment explanation
Indices: 24100859--24100973 Score: 144
Period size: 55 Copynumber: 2.1 Consensus size: 56
24100849 GATTTTATAG
* * * *
24100859 TTTTCCCTCTATTTTTTAGATTTTATAATTTTGCCTCAGTTTCTTAAATTTTACAA
1 TTTTCCCTCTAATTTTTAGATTCTATAATTTTCCCTCAGTTTCTTAAAGTTTACAA
* * *
24100915 TTTTCCC-CTAATTTTTAGATTCTATAGTTTTCCCTTA-TTTTTTCAAAGTTTACAA
1 TTTTCCCTCTAATTTTTAGATTCTATAATTTTCCCTCAGTTTCTT-AAAGTTTACAA
24100970 TTTT
1 TTTT
24100974 GACCCTAAAG
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
54 5 0.10
55 39 0.76
56 7 0.14
ACGTcount: A:0.23, C:0.17, G:0.05, T:0.56
Consensus pattern (56 bp):
TTTTCCCTCTAATTTTTAGATTCTATAATTTTCCCTCAGTTTCTTAAAGTTTACAA
Found at i:24101658 original size:133 final size:133
Alignment explanation
Indices: 24101418--24101670 Score: 337
Period size: 133 Copynumber: 1.9 Consensus size: 133
24101408 GCACGGTAGT
* * * * * * **
24101418 AGTGTTTATCCTTTAACTACAAATTTGGTGTACATCCACAACTTATCGATAGCTTTTACCTGCAA
1 AGTGTTTATCCTTTAACTAAAAAATTGCTATACATCCACAACTCATCGACAAATTTTACCTGCAA
* * * * *
24101483 TAATGTTTTGCATTTACATCCTAGTGTCAAATTTTATCTGCGATATTTTGCTGTGTTCCCACAGT
66 TAATGTTGTGCATCTACAGCCCAGTGTCAAATTTTATCTGCGATATTTTACTGTGTTCCCACAGT
24101548 GGC
131 GGC
* *
24101551 AGTGTTTATCCTTTAACTAAAAAATTGCTATACATCCACAACTCATTGACAAATTTTACTTGCAA
1 AGTGTTTATCCTTTAACTAAAAAATTGCTATACATCCACAACTCATCGACAAATTTTACCTGCAA
* *
24101616 TAATGTTGTGCATCTACAGCCCAGTGAT-AGATTTTATTTGCGATATTTTACTGTG
66 TAATGTTGTGCATCTACAGCCCAGTG-TCAAATTTTATCTGCGATATTTTACTGTG
24101671 CACCCTCAGC
Statistics
Matches: 102, Mismatches: 17, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
133 101 0.99
134 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.39
Consensus pattern (133 bp):
AGTGTTTATCCTTTAACTAAAAAATTGCTATACATCCACAACTCATCGACAAATTTTACCTGCAA
TAATGTTGTGCATCTACAGCCCAGTGTCAAATTTTATCTGCGATATTTTACTGTGTTCCCACAGT
GGC
Found at i:24102336 original size:253 final size:253
Alignment explanation
Indices: 24101888--24102394 Score: 996
Period size: 253 Copynumber: 2.0 Consensus size: 253
24101878 GTGCATACAG
24101888 TCTGGATTTTCTGTGATGTCATATTTATACCTATATATAAATTGTTGAGTGAACTAAAATACCGA
1 TCTGGATTTTCTGTGATGTCATATTTATACCTATATATAAATTGTTGAGTGAACTAAAATACCGA
**
24101953 TATTCTGAAATTCCTATTATGATTTCTGAGATTCTATTGATGGTTAACCTGGAAAATCGATACTT
66 TATTCTGAAATTCCTATTATGATTTCTGAGATTCTATTGATGGTTAACCTAAAAAATCGATACTT
24102018 TGATTTGTCAGTTGATTATTATTATTCTATGTGTTATTATGACTTATCGAGTGTTTTGACTAGTT
131 TGATTTGTCAGTTGATTATTATTATTCTATGTGTTATTATGACTTATCGAGTGTTTTGACTAGTT
24102083 TTGCTTGTGATAGAACTCACCCTAAGCTTCACAGCTCACTCCCTTTTTAATTTCTATC
196 TTGCTTGTGATAGAACTCACCCTAAGCTTCACAGCTCACTCCCTTTTTAATTTCTATC
24102141 TCTGGATTTTCTGTGATGTCATATTTATACCTATATATAAATTGTTGAGTGAACTAAAATACCGA
1 TCTGGATTTTCTGTGATGTCATATTTATACCTATATATAAATTGTTGAGTGAACTAAAATACCGA
24102206 TATTCTGAAATTCCTATTATGATTTCTGAGATTCTATTGATGGTTAACCTAAAAAATCGATACTT
66 TATTCTGAAATTCCTATTATGATTTCTGAGATTCTATTGATGGTTAACCTAAAAAATCGATACTT
24102271 TGATTTGTCAGTTGATTATTATTATTCTATGTGTTATTATGACTTATCGAGTGTTTTGACTAGTT
131 TGATTTGTCAGTTGATTATTATTATTCTATGTGTTATTATGACTTATCGAGTGTTTTGACTAGTT
24102336 TTGCTTGTGATAGAACTCACCCTAAGCTTCACAGCTCACTCCCTTTTTAATTTCTATC
196 TTGCTTGTGATAGAACTCACCCTAAGCTTCACAGCTCACTCCCTTTTTAATTTCTATC
24102394 T
1 T
24102395 TTTTAGATAA
Statistics
Matches: 252, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
253 252 1.00
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.43
Consensus pattern (253 bp):
TCTGGATTTTCTGTGATGTCATATTTATACCTATATATAAATTGTTGAGTGAACTAAAATACCGA
TATTCTGAAATTCCTATTATGATTTCTGAGATTCTATTGATGGTTAACCTAAAAAATCGATACTT
TGATTTGTCAGTTGATTATTATTATTCTATGTGTTATTATGACTTATCGAGTGTTTTGACTAGTT
TTGCTTGTGATAGAACTCACCCTAAGCTTCACAGCTCACTCCCTTTTTAATTTCTATC
Found at i:24104268 original size:26 final size:25
Alignment explanation
Indices: 24104237--24104313 Score: 91
Period size: 27 Copynumber: 3.0 Consensus size: 25
24104227 CATGAATTTC
24104237 TCAAAATTTTACTAGGGGTAAAATTA
1 TCAAAATTTTACT-GGGGTAAAATTA
* *
24104263 TCAAAATTTTATTGGGAGATAAAATCA
1 TCAAAATTTTACTGGG-G-TAAAATTA
* *
24104290 TCAAACTTTTACTGGAGTAAAATT
1 TCAAAATTTTACTGGGGTAAAATT
24104314 GGGATGAGAA
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
25 9 0.21
26 14 0.33
27 20 0.47
ACGTcount: A:0.42, C:0.09, G:0.14, T:0.35
Consensus pattern (25 bp):
TCAAAATTTTACTGGGGTAAAATTA
Found at i:24106410 original size:20 final size:20
Alignment explanation
Indices: 24106385--24106426 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
24106375 GCAAAATTCT
*
24106385 AATTTTGAAATTATACCAAA
1 AATTTTGAAAGTATACCAAA
**
24106405 AATTTTGAGGGTATACCAAA
1 AATTTTGAAAGTATACCAAA
24106425 AA
1 AA
24106427 AATAAAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.10, G:0.12, T:0.31
Consensus pattern (20 bp):
AATTTTGAAAGTATACCAAA
Found at i:24106439 original size:19 final size:19
Alignment explanation
Indices: 24106417--24106469 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
24106407 TTTTGAGGGT
24106417 ATACCAAAAAAATAAAGAA
1 ATACCAAAAAAATAAAGAA
* * *
24106436 ATACCAAAAATTATGATGAA
1 ATACCAAAAA-AATAAAGAA
*
24106456 TTACCAAAAAAATA
1 ATACCAAAAAAATA
24106470 TGAGTGGATA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
19 12 0.44
20 15 0.56
ACGTcount: A:0.64, C:0.11, G:0.06, T:0.19
Consensus pattern (19 bp):
ATACCAAAAAAATAAAGAA
Found at i:24106487 original size:23 final size:23
Alignment explanation
Indices: 24106461--24106540 Score: 69
Period size: 22 Copynumber: 3.6 Consensus size: 23
24106451 ATGAATTACC
24106461 AAAAAAATATGAGTGGATACG-A
1 AAAAAAATATGAGTGGATACGAA
* *
24106483 AAAAAAATAAGAGT--ATACCAA
1 AAAAAAATATGAGTGGATACGAA
* *
24106504 AAACAAAACATGA-AGGATTACGAA
1 AAA-AAAATATGAGTGGA-TACGAA
*
24106528 AAAAAAAGATGAG
1 AAAAAAATATGAG
24106541 CATAAACCAA
Statistics
Matches: 45, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
20 4 0.09
21 4 0.09
22 20 0.44
23 9 0.20
24 8 0.18
ACGTcount: A:0.61, C:0.07, G:0.17, T:0.14
Consensus pattern (23 bp):
AAAAAAATATGAGTGGATACGAA
Found at i:24109974 original size:13 final size:15
Alignment explanation
Indices: 24109943--24109974 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
24109933 TCATATATAA
24109943 TTTATTAATCAATAT
1 TTTATTAATCAATAT
24109958 TTTATTAAT-AA-AT
1 TTTATTAATCAATAT
24109971 TTTA
1 TTTA
24109975 CACTAATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 6 0.35
14 2 0.12
15 9 0.53
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (15 bp):
TTTATTAATCAATAT
Found at i:24110842 original size:7 final size:7
Alignment explanation
Indices: 24110832--24110856 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
24110822 AATTTTATTA
24110832 TTACATT
1 TTACATT
24110839 TTACATT
1 TTACATT
24110846 TTACATT
1 TTACATT
24110853 TTAC
1 TTAC
24110857 CTTTCCCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.16, G:0.00, T:0.56
Consensus pattern (7 bp):
TTACATT
Found at i:24111324 original size:20 final size:20
Alignment explanation
Indices: 24111299--24111414 Score: 62
Period size: 22 Copynumber: 5.8 Consensus size: 20
24111289 CTAGTGCTTT
24111299 TCATTTTCCAGATTTTGAAG
1 TCATTTTCCAGATTTTGAAG
* *
24111319 TCATTTT-AATATATTTGAAG
1 TCATTTTCCAGAT-TTTGAAG
*** *
24111339 TCATTTT---GAAGGT-AAT
1 TCATTTTCCAGATTTTGAAG
* *
24111355 TCATTTTCCAGACTTTGGCATG
1 TCATTTTCCAGA-TTTTG-AAG
*
24111377 TCATTTTCCAGATTTTGGCATG
1 TCATTTTCCAGATTTT-G-AAG
*
24111399 TCATTTTCCCGATTTT
1 TCATTTTCCAGATTTT
24111415 ATTTTATTTC
Statistics
Matches: 73, Mismatches: 15, Indels: 14
0.72 0.15 0.14
Matches are distributed among these distances:
16 9 0.12
17 1 0.01
18 1 0.01
19 5 0.07
20 21 0.29
21 3 0.04
22 33 0.45
ACGTcount: A:0.23, C:0.16, G:0.15, T:0.47
Consensus pattern (20 bp):
TCATTTTCCAGATTTTGAAG
Found at i:24111348 original size:11 final size:11
Alignment explanation
Indices: 24111310--24111349 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
24111300 CATTTTCCAG
24111310 ATTTTGAAGTC
1 ATTTTGAAGTC
24111321 ATTTT-AA-T-
1 ATTTTGAAGTC
24111329 ATATTTGAAGTC
1 AT-TTTGAAGTC
24111341 ATTTTGAAG
1 ATTTTGAAG
24111350 GTAATTCATT
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
8 2 0.08
9 4 0.16
10 4 0.16
11 13 0.52
12 2 0.08
ACGTcount: A:0.33, C:0.05, G:0.15, T:0.47
Consensus pattern (11 bp):
ATTTTGAAGTC
Found at i:24111412 original size:22 final size:22
Alignment explanation
Indices: 24111355--24111414 Score: 102
Period size: 22 Copynumber: 2.7 Consensus size: 22
24111345 TGAAGGTAAT
*
24111355 TCATTTTCCAGACTTTGGCATG
1 TCATTTTCCAGATTTTGGCATG
24111377 TCATTTTCCAGATTTTGGCATG
1 TCATTTTCCAGATTTTGGCATG
*
24111399 TCATTTTCCCGATTTT
1 TCATTTTCCAGATTTT
24111415 ATTTTATTTC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.17, C:0.22, G:0.15, T:0.47
Consensus pattern (22 bp):
TCATTTTCCAGATTTTGGCATG
Found at i:24113980 original size:9 final size:9
Alignment explanation
Indices: 24113963--24114017 Score: 74
Period size: 9 Copynumber: 6.1 Consensus size: 9
24113953 TAAGTTTTCG
24113963 AATTCGAAT
1 AATTCGAAT
*
24113972 AACTCGAAT
1 AATTCGAAT
* *
24113981 AACTCAAAT
1 AATTCGAAT
*
24113990 AATTTGAAT
1 AATTCGAAT
24113999 AATTCGAAT
1 AATTCGAAT
24114008 AATTCGAAT
1 AATTCGAAT
24114017 A
1 A
24114018 TCAAATTATA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 40 1.00
ACGTcount: A:0.47, C:0.13, G:0.09, T:0.31
Consensus pattern (9 bp):
AATTCGAAT
Found at i:24114303 original size:7 final size:7
Alignment explanation
Indices: 24114291--24114331 Score: 73
Period size: 7 Copynumber: 5.9 Consensus size: 7
24114281 TCTCTTTCCA
24114291 TCCCACC
1 TCCCACC
24114298 TCCCACC
1 TCCCACC
24114305 TCCCACC
1 TCCCACC
24114312 TCCCACC
1 TCCCACC
*
24114319 TCCCATC
1 TCCCACC
24114326 TCCCAC
1 TCCCAC
24114332 TTACCCCAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.15, C:0.68, G:0.00, T:0.17
Consensus pattern (7 bp):
TCCCACC
Found at i:24115079 original size:5 final size:5
Alignment explanation
Indices: 24115069--24115100 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
24115059 AAATTTTTTT
*
24115069 ATTCG ATTCG ATTCG ATTCG ATTTG ATTCG AT
1 ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG AT
24115101 CGAACGTTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.22, C:0.16, G:0.19, T:0.44
Consensus pattern (5 bp):
ATTCG
Found at i:24129639 original size:20 final size:22
Alignment explanation
Indices: 24129602--24129648 Score: 62
Period size: 20 Copynumber: 2.2 Consensus size: 22
24129592 GCCATACAGC
*
24129602 TGTGTGCCTCCTTTCACATGAG
1 TGTGTGCCTCCTTCCACATGAG
*
24129624 TGTGTGCCT-C-TCCACATGGG
1 TGTGTGCCTCCTTCCACATGAG
24129644 TGTGT
1 TGTGT
24129649 TGACCCCCAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 13 0.57
21 1 0.04
22 9 0.39
ACGTcount: A:0.11, C:0.26, G:0.28, T:0.36
Consensus pattern (22 bp):
TGTGTGCCTCCTTCCACATGAG
Found at i:24136990 original size:24 final size:24
Alignment explanation
Indices: 24136958--24137007 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
24136948 TTTTAAACAA
24136958 TTAATGAATATTACTATAAGATAT
1 TTAATGAATATTACTATAAGATAT
24136982 TTAATGAATATTACTATAAGATAT
1 TTAATGAATATTACTATAAGATAT
24137006 TT
1 TT
24137008 TTTGTACTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.44, C:0.04, G:0.08, T:0.44
Consensus pattern (24 bp):
TTAATGAATATTACTATAAGATAT
Found at i:24141451 original size:21 final size:21
Alignment explanation
Indices: 24141426--24141469 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
24141416 CAAGGTTTCT
*
24141426 TCCAGCTGCCAAGTGGCTTCC
1 TCCAGCTCCCAAGTGGCTTCC
24141447 TCCAGCTCCCAAGTGGCTTCC
1 TCCAGCTCCCAAGTGGCTTCC
24141468 TC
1 TC
24141470 AATACCATGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.14, C:0.41, G:0.20, T:0.25
Consensus pattern (21 bp):
TCCAGCTCCCAAGTGGCTTCC
Found at i:24143387 original size:207 final size:207
Alignment explanation
Indices: 24143032--24143446 Score: 681
Period size: 207 Copynumber: 2.0 Consensus size: 207
24143022 CAAGCTCTTA
*
24143032 TGATCAGTGCGTATATGGAACTTTTCTGAATAAAAGTACTGGTTTAGGATTTTTAGAGCAAAGGT
1 TGATCAGTGCATATATGGAACTTTTCTGAATAAAAGTACTGGTTTAGGATTTTTAGAGCAAAGGT
* * ** *
24143097 AGCAGCTACCAATTCTAGATTGGGCATCAGATAGTTCTTCTCGTGTGAATTTAACTGTCGAGAAG
66 AACAACTACCAATTCTAGATCAGGCATCAGATAGTTCTTCTCATGTGAATTTAACTGTCGAGAAG
24143162 CATAAGCAATCACCTTACCTTCTTGCACCGAAATGCAACCTAATCCACTGAGCGAAGCATTACTA
131 CATAAGCAATCACCTTACCTTCTTGCACCGAAATGCAACCTAATCCACTGAGCGAAGCATTACTA
24143227 TAAACAACGAAT
196 TAAACAACGAAT
* *
24143239 TGATCAGTGCATATATGGAATTTTTCTGAATAAAAGTA-TTGTTTCCA-GATTTTTAGAGCAAAG
1 TGATCAGTGCATATATGGAACTTTTCTGAATAAAAGTACTGGTTT--AGGATTTTTAGAGCAAAG
* *
24143302 GTAACAACTACCAATTCTAGATCAGGCGTTAGATAGTTCTTCTCATGTGAATTTAACTGTCGAGA
64 GTAACAACTACCAATTCTAGATCAGGCATCAGATAGTTCTTCTCATGTGAATTTAACTGTCGAGA
* * *
24143367 AGCATAAGCAATCACCTTACCTTTTTGCACCGAAATGCAACTTAATCCACTGAGCGAATCATTAC
129 AGCATAAGCAATCACCTTACCTTCTTGCACCGAAATGCAACCTAATCCACTGAGCGAAGCATTAC
24143432 TATAAACAACGAAT
194 TATAAACAACGAAT
24143446 T
1 T
24143447 CCTTTCCAGA
Statistics
Matches: 193, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
206 5 0.03
207 187 0.97
208 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (207 bp):
TGATCAGTGCATATATGGAACTTTTCTGAATAAAAGTACTGGTTTAGGATTTTTAGAGCAAAGGT
AACAACTACCAATTCTAGATCAGGCATCAGATAGTTCTTCTCATGTGAATTTAACTGTCGAGAAG
CATAAGCAATCACCTTACCTTCTTGCACCGAAATGCAACCTAATCCACTGAGCGAAGCATTACTA
TAAACAACGAAT
Found at i:24147770 original size:21 final size:21
Alignment explanation
Indices: 24147746--24147786 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
24147736 AGAAAATTAC
*
24147746 TAAAAAAATAAAAAATAAAAG
1 TAAAAAAACAAAAAATAAAAG
* *
24147767 TAAAAAGACAAGAAATAAAA
1 TAAAAAAACAAAAAATAAAA
24147787 TCAGTGATCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.78, C:0.02, G:0.07, T:0.12
Consensus pattern (21 bp):
TAAAAAAACAAAAAATAAAAG
Found at i:24156237 original size:18 final size:18
Alignment explanation
Indices: 24156186--24156244 Score: 75
Period size: 20 Copynumber: 3.2 Consensus size: 18
24156176 TAAATTACGA
24156186 TTTTAACCCTCACAATGC
1 TTTTAACCCTCACAATGC
* *
24156204 TTTTGTCACACTCACAATGC
1 -TTT-TAACCCTCACAATGC
24156224 TTTTAACCCTCACAATG-
1 TTTTAACCCTCACAATGC
24156241 TTTT
1 TTTT
24156245 TGCTCCCACA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
17 4 0.11
18 12 0.34
19 6 0.17
20 13 0.37
ACGTcount: A:0.25, C:0.29, G:0.07, T:0.39
Consensus pattern (18 bp):
TTTTAACCCTCACAATGC
Found at i:24156245 original size:18 final size:18
Alignment explanation
Indices: 24156186--24156245 Score: 75
Period size: 18 Copynumber: 3.2 Consensus size: 18
24156176 TAAATTACGA
24156186 TTTTAACCCTCACAATGCT
1 TTTTAACCCTCACAATG-T
* * *
24156205 TTTGTCACACTCACAATGC
1 TTT-TAACCCTCACAATGT
24156224 TTTTAACCCTCACAATGT
1 TTTTAACCCTCACAATGT
24156242 TTTT
1 TTTT
24156246 GCTCCCACAA
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
18 16 0.47
19 6 0.18
20 12 0.35
ACGTcount: A:0.25, C:0.28, G:0.07, T:0.40
Consensus pattern (18 bp):
TTTTAACCCTCACAATGT
Found at i:24160367 original size:29 final size:31
Alignment explanation
Indices: 24160326--24160387 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 31
24160316 ATTTCTGAAC
*
24160326 TTTAGGGCAAAAAT-GTAATTATG-CAAAAG
1 TTTAGGGCAAAAATCATAATTATGTCAAAAG
*
24160355 TTTAGGG-ACAAAATCATAATTTTGTCAAAAG
1 TTTAGGGCA-AAAATCATAATTATGTCAAAAG
24160386 TT
1 TT
24160388 GAGTCGAACC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 1 0.04
29 12 0.43
30 7 0.25
31 8 0.29
ACGTcount: A:0.42, C:0.08, G:0.18, T:0.32
Consensus pattern (31 bp):
TTTAGGGCAAAAATCATAATTATGTCAAAAG
Found at i:24161026 original size:50 final size:50
Alignment explanation
Indices: 24160861--24161045 Score: 221
Period size: 51 Copynumber: 3.7 Consensus size: 50
24160851 CGATGAACAT
* *
24160861 GTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATA-ATGGTCAC
1 GTGTGTAGTACTATGTGAAGGCTACTACGTGTACCG-TAAA-ACTTGGTCAC
* * * * *
24160912 ATGTGTAGTACTAAGTGAAGGATACTATGTGTACTG-AAAAGCTTTGGTCAC
1 GTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGTAAAA-C-TTGGTCAC
* * *
24160963 GTGTGTAGTACTATGTGAAGGCTCCTACGTGAACCGTAAAACTTGATCAC
1 GTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGTAAAACTTGGTCAC
*
24161013 GTTTGTAGTACTATGTGAAGGCTACTACGTGTA
1 GTGTGTAGTACTATGTGAAGGCTACTACGTGTA
24161046 TCGAATGATA
Statistics
Matches: 112, Mismatches: 18, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
48 1 0.01
49 3 0.03
50 37 0.33
51 67 0.60
52 4 0.04
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (50 bp):
GTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGTAAAACTTGGTCAC
Found at i:24170575 original size:153 final size:153
Alignment explanation
Indices: 24170297--24170585 Score: 479
Period size: 153 Copynumber: 1.9 Consensus size: 153
24170287 CATCGATCAA
* * *
24170297 TTGATGAGTACTTCAAGAAAAGATGGTCAAATGAAAGAAAAAGTACAATTGATCTTTCACTTGTT
1 TTGATGAGTACTTCAAGAAAAGATGGTCAAATGAAAGAAAAAGTACAATTGATCTCTCACCTATT
* * *
24170362 ATGAAATGTTATTGGTGTAGTTCAAAAGATCATGAGGGTTTTCTATGTCCAATTAAATGTCCAAC
66 ATGAAATGTTATTGGTGTAGCTCAAAAGATCATGAGGGTTTACGATGTCCAATTAAATGTCCAAC
24170427 TAGAAAGTAATTATGAATTTCAG
131 TAGAAAGTAATTATGAATTTCAG
* *
24170450 TTGATGAGTACTTCAAGAAGAGATGGTCAAATGAAAGAAAGAGTACAATTGATCTCTCACCTATT
1 TTGATGAGTACTTCAAGAAAAGATGGTCAAATGAAAGAAAAAGTACAATTGATCTCTCACCTATT
* * *
24170515 GTGAAATGTTATTGGTGTAGCTCAAAAGATCATGCGGGTTTACGGTGTCCAATTAAATGTCCAAC
66 ATGAAATGTTATTGGTGTAGCTCAAAAGATCATGAGGGTTTACGATGTCCAATTAAATGTCCAAC
24170580 TAGAAA
131 TAGAAA
24170586 TTATGACTTT
Statistics
Matches: 125, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
153 125 1.00
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.31
Consensus pattern (153 bp):
TTGATGAGTACTTCAAGAAAAGATGGTCAAATGAAAGAAAAAGTACAATTGATCTCTCACCTATT
ATGAAATGTTATTGGTGTAGCTCAAAAGATCATGAGGGTTTACGATGTCCAATTAAATGTCCAAC
TAGAAAGTAATTATGAATTTCAG
Found at i:24170917 original size:22 final size:21
Alignment explanation
Indices: 24170892--24170933 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
24170882 ACAAGACACT
*
24170892 ACATCAACATCATAAATTTTAC
1 ACATCAAC-GCATAAATTTTAC
*
24170914 ACATCTACGCATAAATTTTA
1 ACATCAACGCATAAATTTTA
24170934 AGCAAGGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.43, C:0.21, G:0.02, T:0.33
Consensus pattern (21 bp):
ACATCAACGCATAAATTTTAC
Found at i:24171530 original size:30 final size:30
Alignment explanation
Indices: 24171470--24171558 Score: 91
Period size: 25 Copynumber: 3.1 Consensus size: 30
24171460 ATTTCTCATG
* * *
24171470 CCAATATCTCGATACCTATATCTTTTACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
24171501 CCAATATTTGATACCCATA-CATTTGAC-TT
1 CCAATATTTGATACCCATATC-TTTGACTTT
24171530 ----TATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
24171556 CCA
1 CCA
24171559 TAAATATGGA
Statistics
Matches: 49, Mismatches: 3, Indels: 14
0.74 0.05 0.21
Matches are distributed among these distances:
25 21 0.43
26 3 0.06
29 3 0.06
30 15 0.31
31 7 0.14
ACGTcount: A:0.27, C:0.25, G:0.06, T:0.43
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:24182167 original size:21 final size:24
Alignment explanation
Indices: 24182125--24182167 Score: 65
Period size: 21 Copynumber: 1.9 Consensus size: 24
24182115 GGATAATATG
24182125 TTTTGATATAACAAATTAAAGTGT
1 TTTTGATATAACAAATTAAAGTGT
24182149 TTTTGA-ATAA-AAA-TAAAGT
1 TTTTGATATAACAAATTAAAGT
24182168 TGAGCAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.32
22 3 0.16
23 4 0.21
24 6 0.32
ACGTcount: A:0.47, C:0.02, G:0.12, T:0.40
Consensus pattern (24 bp):
TTTTGATATAACAAATTAAAGTGT
Found at i:24182338 original size:20 final size:21
Alignment explanation
Indices: 24182313--24182363 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
24182303 TATCAATCCA
* *
24182313 GTATCGATACT-TTTCTTATG
1 GTATCGATACTATTTCCTAAG
24182333 GTATCGATA-TATTTCCTAAG
1 GTATCGATACTATTTCCTAAG
24182353 GTATCGATACT
1 GTATCGATACT
24182364 CCTGCTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 1 0.04
20 25 0.93
21 1 0.04
ACGTcount: A:0.25, C:0.16, G:0.16, T:0.43
Consensus pattern (21 bp):
GTATCGATACTATTTCCTAAG
Found at i:24186489 original size:40 final size:40
Alignment explanation
Indices: 24186428--24186568 Score: 221
Period size: 40 Copynumber: 3.5 Consensus size: 40
24186418 TGTTATTCTC
* *
24186428 TCTGTCTGGTGTGTTTCGGTTGGATTAGCTTTTATGAGCT
1 TCTGTCTGGTGTGTTTCGGTTGGACTAGCTCTTATGAGCT
* *
24186468 TCTATCTGGTGTGTTTTGGTTGGACTAGCTCTTATGAGCT
1 TCTGTCTGGTGTGTTTCGGTTGGACTAGCTCTTATGAGCT
*
24186508 TCTGTCTGGTGTGTTTCAGTTGGACTAGCTCTTATGAGCT
1 TCTGTCTGGTGTGTTTCGGTTGGACTAGCTCTTATGAGCT
*
24186548 TATGTCTGGTGTG-TTCGGTTG
1 TCTGTCTGGTGTGTTTCGGTTG
24186569 ATCTGACGAT
Statistics
Matches: 92, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 7 0.08
40 85 0.92
ACGTcount: A:0.11, C:0.14, G:0.30, T:0.45
Consensus pattern (40 bp):
TCTGTCTGGTGTGTTTCGGTTGGACTAGCTCTTATGAGCT
Found at i:24188095 original size:20 final size:20
Alignment explanation
Indices: 24188070--24188117 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 20
24188060 TCGATCCGAA
*
24188070 ATCGATACT-TTTCTTAAGGT
1 ATCGATA-TATTTCCTAAGGT
24188090 ATCGATATATTTCCTAAGGT
1 ATCGATATATTTCCTAAGGT
24188110 ATCGATAT
1 ATCGATAT
24188118 TCTTGCAGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 1 0.04
20 25 0.96
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.42
Consensus pattern (20 bp):
ATCGATATATTTCCTAAGGT
Found at i:24190074 original size:7 final size:7
Alignment explanation
Indices: 24190062--24190101 Score: 80
Period size: 7 Copynumber: 5.7 Consensus size: 7
24190052 CTTACAGTAC
24190062 ACACAAT
1 ACACAAT
24190069 ACACAAT
1 ACACAAT
24190076 ACACAAT
1 ACACAAT
24190083 ACACAAT
1 ACACAAT
24190090 ACACAAT
1 ACACAAT
24190097 ACACA
1 ACACA
24190102 TATATGTATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.57, C:0.30, G:0.00, T:0.12
Consensus pattern (7 bp):
ACACAAT
Found at i:24193175 original size:15 final size:15
Alignment explanation
Indices: 24193155--24193185 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
24193145 GTGTCCACGA
24193155 TGGGAGAATTTGTGT
1 TGGGAGAATTTGTGT
24193170 TGGGAGAATTTGTGT
1 TGGGAGAATTTGTGT
24193185 T
1 T
24193186 TGTACTTATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.39, T:0.42
Consensus pattern (15 bp):
TGGGAGAATTTGTGT
Found at i:24196437 original size:16 final size:15
Alignment explanation
Indices: 24196418--24196469 Score: 54
Period size: 14 Copynumber: 3.4 Consensus size: 15
24196408 AGGTAAATGA
24196418 ATAATTCAATAAATTT
1 ATAATTC-ATAAATTT
*
24196434 ATAA-TCATAAATGT
1 ATAATTCATAAATTT
24196448 AT-ATTCATGATAATTT
1 ATAATTCAT-A-AATTT
24196464 ATAATT
1 ATAATT
24196470 TTATATTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
13 1 0.03
14 13 0.43
15 3 0.10
16 10 0.33
17 3 0.10
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (15 bp):
ATAATTCATAAATTT
Found at i:24198539 original size:16 final size:16
Alignment explanation
Indices: 24198518--24198549 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
24198508 CAATTTTGAA
*
24198518 ATTCAATCTATATTTT
1 ATTCAATATATATTTT
24198534 ATTCAATATATATTTT
1 ATTCAATATATATTTT
24198550 CCCAGTCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.09, G:0.00, T:0.56
Consensus pattern (16 bp):
ATTCAATATATATTTT
Found at i:24200532 original size:18 final size:18
Alignment explanation
Indices: 24200509--24200555 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
24200499 ACGCAATAAA
*
24200509 ACACATATATCCATATAT
1 ACACATATATACATATAT
24200527 ACACATATATACATATAT
1 ACACATATATACATATAT
*
24200545 ATACATATATA
1 ACACATATATA
24200556 TACCTAAGCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.49, C:0.17, G:0.00, T:0.34
Consensus pattern (18 bp):
ACACATATATACATATAT
Found at i:24200533 original size:10 final size:10
Alignment explanation
Indices: 24200509--24200558 Score: 68
Period size: 10 Copynumber: 5.2 Consensus size: 10
24200499 ACGCAATAAA
24200509 ACACATATAT
1 ACACATATAT
24200519 -C-CATATAT
1 ACACATATAT
24200527 ACACATATAT
1 ACACATATAT
*
24200537 ACATATATAT
1 ACACATATAT
*
24200547 ACATATATAT
1 ACACATATAT
24200557 AC
1 AC
24200559 CTAAGCCTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
8 7 0.19
9 2 0.05
10 28 0.76
ACGTcount: A:0.48, C:0.18, G:0.00, T:0.34
Consensus pattern (10 bp):
ACACATATAT
Found at i:24202390 original size:27 final size:29
Alignment explanation
Indices: 24202352--24202408 Score: 91
Period size: 27 Copynumber: 2.0 Consensus size: 29
24202342 ATAAACAAAA
*
24202352 AAAAAAGGAGAGAT-GA-GATGTTCTTAC
1 AAAAAAGAAGAGATGGATGATGTTCTTAC
24202379 AAAAAAGAAGAGATGGATGATGTTCTTAC
1 AAAAAAGAAGAGATGGATGATGTTCTTAC
24202408 A
1 A
24202409 TCAAAATTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 13 0.48
28 2 0.07
29 12 0.44
ACGTcount: A:0.46, C:0.07, G:0.25, T:0.23
Consensus pattern (29 bp):
AAAAAAGAAGAGATGGATGATGTTCTTAC
Found at i:24202493 original size:13 final size:13
Alignment explanation
Indices: 24202459--24202495 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
24202449 TGATTTGTTG
24202459 TTTTAT-TATGTTA
1 TTTTATGTAT-TTA
24202472 TTTTA-GTATTTA
1 TTTTATGTATTTA
24202484 TTTTATGTATTT
1 TTTTATGTATTT
24202496 TTAAGTAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 8 0.36
13 14 0.64
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.70
Consensus pattern (13 bp):
TTTTATGTATTTA
Found at i:24206486 original size:21 final size:22
Alignment explanation
Indices: 24206436--24206488 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
24206426 AGTTTATGGT
* *
24206436 TTTAAGGTTT-GATATTTATGG
1 TTTAAGGTTTAGACATTTATGA
* *
24206457 CTTAGGGTTTAG-CATTTATGA
1 TTTAAGGTTTAGACATTTATGA
24206478 TTTAAGGTTTA
1 TTTAAGGTTTA
24206489 TAGTGCATGG
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
21 24 0.96
22 1 0.04
ACGTcount: A:0.25, C:0.04, G:0.23, T:0.49
Consensus pattern (22 bp):
TTTAAGGTTTAGACATTTATGA
Found at i:24206886 original size:14 final size:14
Alignment explanation
Indices: 24206867--24206894 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
24206857 GTATCAAATT
24206867 TTTAAATAATATTA
1 TTTAAATAATATTA
24206881 TTTAAATAATATTA
1 TTTAAATAATATTA
24206895 GTAATGTCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TTTAAATAATATTA
Found at i:24206930 original size:29 final size:29
Alignment explanation
Indices: 24206832--24206946 Score: 107
Period size: 29 Copynumber: 4.1 Consensus size: 29
24206822 AAAATTTTAA
24206832 CAATTAAAAATAATGTCATATTAATGTAT
1 CAATTAAAAATAATGTCATATTAATGTAT
** * *
24206861 CAAATTTTTAAATAATATTAT-TTAA---AT
1 C-AA-TTAAAAATAATGTCATATTAATGTAT
** *
24206888 -AA-TATTAGTAATGTCATATTAATGTAT
1 CAATTAAAAATAATGTCATATTAATGTAT
24206915 CAATTAAAAATAATGTCATATTAATGTAT
1 CAATTAAAAATAATGTCATATTAATGTAT
24206944 CAA
1 CAA
24206947 ATTTATAAAT
Statistics
Matches: 66, Mismatches: 12, Indels: 16
0.70 0.13 0.17
Matches are distributed among these distances:
23 10 0.15
24 4 0.06
25 2 0.03
27 4 0.06
28 2 0.03
29 26 0.39
30 6 0.09
31 12 0.18
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (29 bp):
CAATTAAAAATAATGTCATATTAATGTAT
Found at i:24207996 original size:11 final size:10
Alignment explanation
Indices: 24207974--24208003 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
24207964 TTGGCTGTTT
24207974 AGATTGTGTA
1 AGATTGTGTA
24207984 AGATTGATGTA
1 AGATTG-TGTA
24207995 AGATTGTGT
1 AGATTGTGT
24208004 GCTTGGTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.30, C:0.00, G:0.30, T:0.40
Consensus pattern (10 bp):
AGATTGTGTA
Found at i:24208048 original size:36 final size:36
Alignment explanation
Indices: 24208001--24208087 Score: 156
Period size: 36 Copynumber: 2.4 Consensus size: 36
24207991 TGTAAGATTG
24208001 TGTGCTTGGTATATATTTAACAACAATGCTTTATTC
1 TGTGCTTGGTATATATTTAACAACAATGCTTTATTC
* *
24208037 TGTGCTTGGTATATATTTGACAACACTGCTTTATTC
1 TGTGCTTGGTATATATTTAACAACAATGCTTTATTC
24208073 TGTGCTTGGTATATA
1 TGTGCTTGGTATATA
24208088 ATTGAAATTC
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 49 1.00
ACGTcount: A:0.24, C:0.14, G:0.17, T:0.45
Consensus pattern (36 bp):
TGTGCTTGGTATATATTTAACAACAATGCTTTATTC
Found at i:24210168 original size:46 final size:45
Alignment explanation
Indices: 24210104--24210320 Score: 209
Period size: 36 Copynumber: 5.2 Consensus size: 45
24210094 TTTGAGTACT
* * *
24210104 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAACTATACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAACTACACTTA
24210150 TCTGATCAAGTGAAAAAGTGATAA---GT-G-----CTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAACTACACTTA
* * *
24210186 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAACTACACTTA
24210232 TCTGATCAAGTGAAAAAGTGATAA---GT-GC-T-A-T--ACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAACTACACTTA
* *
24210268 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAACTACACTTA
*
24210313 TATGATCA
1 TCTGATCA
24210321 GGGACAAATG
Statistics
Matches: 141, Mismatches: 11, Indels: 39
0.74 0.06 0.20
Matches are distributed among these distances:
36 58 0.41
38 1 0.01
39 4 0.03
40 4 0.03
41 1 0.01
42 3 0.02
43 5 0.04
45 12 0.09
46 53 0.38
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.30
Consensus pattern (45 bp):
TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAACTACACTTA
Found at i:24210241 original size:82 final size:82
Alignment explanation
Indices: 24210104--24210320 Score: 373
Period size: 82 Copynumber: 2.7 Consensus size: 82
24210094 TTTGAGTACT
* * *
24210104 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAACTATACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
24210169 GATAAGTGCTACACTTA
66 GATAAGTGCTACACTTA
24210186 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
*
24210251 GATAAGTGCTATACTTA
66 GATAAGTGCTACACTTA
* *
24210268 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTATATGATCA
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCA
24210321 GGGACAAATG
Statistics
Matches: 129, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
81 20 0.16
82 109 0.84
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.30
Consensus pattern (82 bp):
TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
GATAAGTGCTACACTTA
Found at i:24211860 original size:20 final size:22
Alignment explanation
Indices: 24211821--24211864 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 22
24211811 TATATATTAT
24211821 TTTTTAAATATTAAAACCTATA
1 TTTTTAAATATTAAAACCTATA
*
24211843 TTTTT-AATA-TATAACCTATA
1 TTTTTAAATATTAAAACCTATA
24211863 TT
1 TT
24211865 AGAATGTGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 12 0.57
21 4 0.19
22 5 0.24
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (22 bp):
TTTTTAAATATTAAAACCTATA
Found at i:24212339 original size:20 final size:21
Alignment explanation
Indices: 24212297--24212343 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
24212287 TTATAAATAT
24212297 TATATTTTAAATATTAAAACC
1 TATATTTTAAATATTAAAACC
* *
24212318 TATATTTTTAATA-TATAACC
1 TATATTTTAAATATTAAAACC
24212338 TATATT
1 TATATT
24212344 AGTATGGATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 12 0.50
21 12 0.50
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.49
Consensus pattern (21 bp):
TATATTTTAAATATTAAAACC
Found at i:24212343 original size:121 final size:120
Alignment explanation
Indices: 24211794--24212675 Score: 1353
Period size: 120 Copynumber: 7.3 Consensus size: 120
24211784 ATTCATATGC
*
24211794 AATTTTAAA-ATTAATTATATATATTATTTTTTAAATATTAAAACCTATATTTTTAATATATAAC
1 AATTTTAAACA-TAATTATATATATTATATTTTAAATATTAAAACCTATATTTTTAATATATAAC
* * * *
24211858 CTATATTAGAATGTG-TATATAACCTATATTTCAAATTCATGT-TTAGTAACTTTTTA
65 CTATATTAGTATG-GATATGTAACCTATATTTCAAATTCAT-TACTAATAACTTTTTA
* * * *
24211914 AATTTTAAACATAATTATTTATTTTATATTTTAAATATTAAAACTTATATTTTTAATATGTAACC
1 AATTTTAAACATAATTATATATATTATATTTTAAATATTAAAACCTATATTTTTAATATATAACC
*
24211979 TATATTAGTATGGATATATAACCTATATTTCAAATTCATTACTAATAACTTTTTA
66 TATATTAGTATGGATATGTAACCTATATTTCAAATTCATTACTAATAACTTTTTA
* * * * * *
24212034 AATTTTAAAAATATTTAAAAATATTATATTTTAAATATTAAAACCTATATTGTTCATATATAACC
1 AATTTTAAACATAATTATATATATTATATTTTAAATATTAAAACCTATATTTTTAATATATAACC
* * *
24212099 --TATTAATATGGGTATATAACCTATATTTCAAATTCATTACTAATAAC-TTTTA
66 TATATTAGTATGGATATGTAACCTATATTTCAAATTCATTACTAATAACTTTTTA
* * *
24212151 AATTTTAAACATAATTATTTATTTTATATTTTTAAATATTAAAACCTATATTTTTAATATATCAC
1 AATTTTAAACATAATTATATATATTATA-TTTTAAATATTAAAACCTATATTTTTAATATATAAC
24212216 CTATATTAGTATGGATATGTAACCTATATTTCAAATTCATTACTAATAACTTTTTTA
65 CTATATTAGTATGGATATGTAACCTATATTTCAAATTCATTACTAATAAC-TTTTTA
* *
24212273 AATTTTATACATAATTATAAATATTATATTTTAAATATTAAAACCTATATTTTTAATATATAACC
1 AATTTTAAACATAATTATATATATTATATTTTAAATATTAAAACCTATATTTTTAATATATAACC
*
24212338 TATATTAGTATGGATATGTAACCTATATTTCAAATTTATTACTAATAACTTTTTA
66 TATATTAGTATGGATATGTAACCTATATTTCAAATTCATTACTAATAACTTTTTA
* * *
24212393 AATTTTAAACATAATTATTTATTTTATATTTTTAAATATTAAAACCTATATTTTTAATATATCAC
1 AATTTTAAACATAATTATATATATTATA-TTTTAAATATTAAAACCTATATTTTTAATATATAAC
24212458 CTATATTAGTATGGATATGTAACCTATATTTCAAATTCATTACTAATAACTTTTTTA
65 CTATATTAGTATGGATATGTAACCTATATTTCAAATTCATTACTAATAAC-TTTTTA
* *
24212515 AATTTTATACATAATTATAAATATTATATTTTAAATATTAAAACCTATATTTTTAATATATAACC
1 AATTTTAAACATAATTATATATATTATATTTTAAATATTAAAACCTATATTTTTAATATATAACC
*
24212580 TATATTAGTATGGATATGTAACCTATATTTCAAATTTATTACTAATAACTTTTTA
66 TATATTAGTATGGATATGTAACCTATATTTCAAATTCATTACTAATAACTTTTTA
* *
24212635 AATTTTAAACATAATTATTTATTTTATATTTTTAAATATTA
1 AATTTTAAACATAATTATATATATTATA-TTTTAAATATTA
24212676 TACATAATTA
Statistics
Matches: 697, Mismatches: 54, Indels: 21
0.90 0.07 0.03
Matches are distributed among these distances:
117 27 0.04
118 79 0.11
119 2 0.00
120 265 0.38
121 265 0.38
122 59 0.08
ACGTcount: A:0.41, C:0.09, G:0.03, T:0.48
Consensus pattern (120 bp):
AATTTTAAACATAATTATATATATTATATTTTAAATATTAAAACCTATATTTTTAATATATAACC
TATATTAGTATGGATATGTAACCTATATTTCAAATTCATTACTAATAACTTTTTA
Found at i:24212448 original size:242 final size:242
Alignment explanation
Indices: 24211805--24212675 Score: 1486
Period size: 242 Copynumber: 3.6 Consensus size: 242
24211795 ATTTTAAAAT
* * *
24211805 TAATTATATATATTATTTTTTAAATATTAAAACCTATATTTTTAATATATAACCTATATTAGAAT
1 TAATTATAAATATTATATTTTAAATATTAAAACCTATATTTTTAATATATAACCTATATTAGTAT
* *
24211870 GTG-TATATAACCTATATTTCAAATTCATGT-TTAGTAACTTTTTAAATTTTAAACATAATTATT
66 G-GATATATAACCTATATTTCAAATTCAT-TACTAATAACTTTTTAAATTTTAAACATAATTATT
* * * *
24211933 TATTTTATA-TTTTAAATATTAAAACTTATATTTTTAATATGTAACCTATATTAGTATGGATATA
129 TATTTTATATTTTTAAATATTAAAACCTATATTTTTAATATATCACCTATATTAGTATGGATATG
* *
24211997 TAACCTATATTTCAAATTCATTACTAATAAC-TTTTTAAATTTTAAAAA
194 TAACCTATATTTCAAATTCATTACTAATAACTTTTTTAAATTTTATACA
* * * * *
24212045 TATTTAAAAATATTATATTTTAAATATTAAAACCTATATTGTTCATATATAACC--TATTAATAT
1 TAATTATAAATATTATATTTTAAATATTAAAACCTATATTTTTAATATATAACCTATATTAGTAT
*
24212108 GGGTATATAACCTATATTTCAAATTCATTACTAATAAC-TTTTAAATTTTAAACATAATTATTTA
66 GGATATATAACCTATATTTCAAATTCATTACTAATAACTTTTTAAATTTTAAACATAATTATTTA
24212172 TTTTATATTTTTAAATATTAAAACCTATATTTTTAATATATCACCTATATTAGTATGGATATGTA
131 TTTTATATTTTTAAATATTAAAACCTATATTTTTAATATATCACCTATATTAGTATGGATATGTA
24212237 ACCTATATTTCAAATTCATTACTAATAACTTTTTTAAATTTTATACA
196 ACCTATATTTCAAATTCATTACTAATAACTTTTTTAAATTTTATACA
24212284 TAATTATAAATATTATATTTTAAATATTAAAACCTATATTTTTAATATATAACCTATATTAGTAT
1 TAATTATAAATATTATATTTTAAATATTAAAACCTATATTTTTAATATATAACCTATATTAGTAT
* *
24212349 GGATATGTAACCTATATTTCAAATTTATTACTAATAACTTTTTAAATTTTAAACATAATTATTTA
66 GGATATATAACCTATATTTCAAATTCATTACTAATAACTTTTTAAATTTTAAACATAATTATTTA
24212414 TTTTATATTTTTAAATATTAAAACCTATATTTTTAATATATCACCTATATTAGTATGGATATGTA
131 TTTTATATTTTTAAATATTAAAACCTATATTTTTAATATATCACCTATATTAGTATGGATATGTA
24212479 ACCTATATTTCAAATTCATTACTAATAACTTTTTTAAATTTTATACA
196 ACCTATATTTCAAATTCATTACTAATAACTTTTTTAAATTTTATACA
24212526 TAATTATAAATATTATATTTTAAATATTAAAACCTATATTTTTAATATATAACCTATATTAGTAT
1 TAATTATAAATATTATATTTTAAATATTAAAACCTATATTTTTAATATATAACCTATATTAGTAT
* *
24212591 GGATATGTAACCTATATTTCAAATTTATTACTAATAACTTTTTAAATTTTAAACATAATTATTTA
66 GGATATATAACCTATATTTCAAATTCATTACTAATAACTTTTTAAATTTTAAACATAATTATTTA
24212656 TTTTATATTTTTAAATATTA
131 TTTTATATTTTTAAATATTA
24212676 TACATAATTA
Statistics
Matches: 600, Mismatches: 24, Indels: 12
0.94 0.04 0.02
Matches are distributed among these distances:
237 35 0.06
238 121 0.20
239 65 0.11
240 48 0.08
241 43 0.07
242 288 0.48
ACGTcount: A:0.40, C:0.09, G:0.03, T:0.48
Consensus pattern (242 bp):
TAATTATAAATATTATATTTTAAATATTAAAACCTATATTTTTAATATATAACCTATATTAGTAT
GGATATATAACCTATATTTCAAATTCATTACTAATAACTTTTTAAATTTTAAACATAATTATTTA
TTTTATATTTTTAAATATTAAAACCTATATTTTTAATATATCACCTATATTAGTATGGATATGTA
ACCTATATTTCAAATTCATTACTAATAACTTTTTTAAATTTTATACA
Found at i:24212581 original size:20 final size:21
Alignment explanation
Indices: 24212539--24212585 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
24212529 TTATAAATAT
24212539 TATATTTTAAATATTAAAACC
1 TATATTTTAAATATTAAAACC
* *
24212560 TATATTTTTAATA-TATAACC
1 TATATTTTAAATATTAAAACC
24212580 TATATT
1 TATATT
24212586 AGTATGGATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 12 0.50
21 12 0.50
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.49
Consensus pattern (21 bp):
TATATTTTAAATATTAAAACC
Found at i:24212653 original size:34 final size:33
Alignment explanation
Indices: 24212615--24212687 Score: 76
Period size: 34 Copynumber: 2.2 Consensus size: 33
24212605 TATTTCAAAT
*
24212615 TTATTACTAATA-ACTTTTTAAATTTTAAACATAA
1 TTATTA-TAATATA-TTTTTAAATATTAAACATAA
** *
24212649 TTATTTATTTTATATTTTTAAATATTATACATAA
1 TTA-TTATAATATATTTTTAAATATTAAACATAA
24212683 TTATT
1 TTATT
24212688 TATTTTTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
33 2 0.06
34 27 0.82
35 4 0.12
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (33 bp):
TTATTATAATATATTTTTAAATATTAAACATAA
Found at i:24212688 original size:34 final size:34
Alignment explanation
Indices: 24212629--24212693 Score: 112
Period size: 34 Copynumber: 1.9 Consensus size: 34
24212619 TACTAATAAC
*
24212629 TTTTTAAATTTTAAACATAATTATTTATTTTATA
1 TTTTTAAATATTAAACATAATTATTTATTTTATA
*
24212663 TTTTTAAATATTATACATAATTATTTATTTT
1 TTTTTAAATATTAAACATAATTATTTATTTT
24212694 TAAATATTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (34 bp):
TTTTTAAATATTAAACATAATTATTTATTTTATA
Found at i:24212689 original size:21 final size:22
Alignment explanation
Indices: 24212664--24212734 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 22
24212654 TATTTTATAT
24212664 TTTTAAATATTATACATAATTATTTA
1 TTTTAAATATTATACAT-A--A-TTA
*
24212690 TTTTTAAATATTATACATAA-AA
1 -TTTTAAATATTATACATAATTA
*
24212712 TTTTAAATTTTATACATAATTA
1 TTTTAAATATTATACATAATTA
24212734 T
1 T
24212735 AAATGTTATA
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
21 18 0.45
22 3 0.08
24 1 0.03
26 1 0.03
27 17 0.43
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (22 bp):
TTTTAAATATTATACATAATTA
Found at i:24212716 original size:27 final size:27
Alignment explanation
Indices: 24212661--24212714 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
24212651 ATTTATTTTA
*
24212661 TATTTTTAAATATTATACATAATTATT
1 TATTTTTAAATATTATACATAAATATT
24212688 TATTTTTAAATATTATACATAAA-ATT
1 TATTTTTAAATATTATACATAAATATT
24212714 T
1 T
24212715 TAAATTTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 4 0.15
27 22 0.85
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.54
Consensus pattern (27 bp):
TATTTTTAAATATTATACATAAATATT
Found at i:24212737 original size:19 final size:20
Alignment explanation
Indices: 24212694--24212744 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
24212684 TATTTATTTT
*
24212694 TAAATATTATACATAAAATTT
1 TAAATATTATACAT-AAATTA
*
24212715 TAAATTTTATACAT-AATTA
1 TAAATATTATACATAAATTA
*
24212734 TAAATGTTATA
1 TAAATATTATA
24212745 TTTTTAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 14 0.52
21 13 0.48
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (20 bp):
TAAATATTATACATAAATTA
Found at i:24212831 original size:9 final size:9
Alignment explanation
Indices: 24212817--24213195 Score: 260
Period size: 9 Copynumber: 42.1 Consensus size: 9
24212807 ACTAATTTCC
*
24212817 ACATAACAT
1 ACATAACTT
*
24212826 ACATAACTC
1 ACATAACTT
*
24212835 ACATAACAT
1 ACATAACTT
*
24212844 ATATAACTT
1 ACATAACTT
24212853 A-ATAACTT
1 ACATAACTT
* *
24212861 ATATATATCAT
1 ACATA-A-CTT
24212872 A-ACTCAACTT
1 ACA-T-AACTT
*
24212882 ACATAACTC
1 ACATAACTT
24212891 ACATAACTT
1 ACATAACTT
24212900 ACATAACTT
1 ACATAACTT
24212909 ACATAACTT
1 ACATAACTT
24212918 ACATAACTT
1 ACATAACTT
24212927 ACATAA--T
1 ACATAACTT
*
24212934 ACATAA-AT
1 ACATAACTT
* * *
24212942 ATATATCAT
1 ACATAACTT
*
24212951 ATCACAACTT
1 A-CATAACTT
*
24212961 ACATAACTC
1 ACATAACTT
24212970 ACATAACTT
1 ACATAACTT
24212979 ACATAA--T
1 ACATAACTT
*
24212986 ACATAA-AT
1 ACATAACTT
* *
24212994 ATATATCATT
1 ACATAAC-TT
*
24213004 TCATAACTT
1 ACATAACTT
*
24213013 ACATAACTC
1 ACATAACTT
*
24213022 ACGTAACTT
1 ACATAACTT
24213031 ACATAACTT
1 ACATAACTT
*
24213040 ACA-AA-AT
1 ACATAACTT
*
24213047 ACATAAATAT
1 ACATAACT-T
* * *
24213057 ATATATCAT
1 ACATAACTT
24213066 ATCATAACTT
1 A-CATAACTT
*
24213076 ACATAACTC
1 ACATAACTT
*
24213085 ACGTAACTT
1 ACATAACTT
24213094 ACATAACTT
1 ACATAACTT
24213103 A-ATAACTT
1 ACATAACTT
* *
24213111 ATATATATCAT
1 ACATA-A-CTT
24213122 ATCATAACTT
1 A-CATAACTT
*
24213132 ACATAACTC
1 ACATAACTT
24213141 ACATAACTT
1 ACATAACTT
24213150 ACATAACTT
1 ACATAACTT
*
24213159 ACATAA-AT
1 ACATAACTT
* * *
24213167 ATATATCAT
1 ACATAACTT
24213176 ATCATAACTT
1 A-CATAACTT
*
24213186 ACATAGCTT
1 ACATAACTT
24213195 A
1 A
24213196 TTTATACTTA
Statistics
Matches: 293, Mismatches: 55, Indels: 44
0.75 0.14 0.11
Matches are distributed among these distances:
7 18 0.06
8 35 0.12
9 189 0.65
10 37 0.13
11 10 0.03
12 4 0.01
ACGTcount: A:0.46, C:0.20, G:0.01, T:0.33
Consensus pattern (9 bp):
ACATAACTT
Found at i:24212960 original size:52 final size:52
Alignment explanation
Indices: 24212901--24213190 Score: 366
Period size: 52 Copynumber: 5.2 Consensus size: 52
24212891 ACATAACTTA
*
24212901 CATAACTTACATAACTTACATAACTTACATAATACATAAATATATATCATAT
1 CATAACTTACATAACTCACATAACTTACATAATACATAAATATATATCATAT
* *
24212953 CACAACTTACATAACTCACATAACTTACATAATACATAAATATATATCATTT
1 CATAACTTACATAACTCACATAACTTACATAATACATAAATATATATCATAT
*
24213005 CATAACTTACATAACTCACGTAACTTACATAACTTACAAAATACATAAATATATATATCATAT
1 CATAACTTACAT-A---AC-T--C--ACATAACTTACATAATACAT-AA-ATATATATCATAT
*
24213068 CATAACTTACATAACTCACGTAACTTACATAACTTA-ATAACTTATATATATCATAT
1 CATAACTTACATAACTCACATAACTTACATAA--TACATAA---ATATATATCATAT
24213124 CATAACTTACATAACTCACATAACTTACATAACTTACATAAATATATATCATAT
1 CATAACTTACATAACTCACATAACTTACATAA--TACATAAATATATATCATAT
24213178 CATAACTTACATA
1 CATAACTTACATA
24213191 GCTTATTTAT
Statistics
Matches: 213, Mismatches: 9, Indels: 30
0.85 0.04 0.12
Matches are distributed among these distances:
52 60 0.28
53 1 0.00
54 41 0.19
55 2 0.01
56 54 0.25
57 5 0.02
58 1 0.00
59 3 0.01
61 19 0.09
62 3 0.01
63 24 0.11
ACGTcount: A:0.46, C:0.20, G:0.01, T:0.33
Consensus pattern (52 bp):
CATAACTTACATAACTCACATAACTTACATAATACATAAATATATATCATAT
Found at i:24218636 original size:21 final size:21
Alignment explanation
Indices: 24218608--24218664 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
24218598 CTACACCTTA
*
24218608 AAGCAGAGGCAGCAGCGAGGG
1 AAGCAGAGGCAGCAGCAAGGG
* *
24218629 AAGTAGAGGCAGCAGTAAGGG
1 AAGCAGAGGCAGCAGCAAGGG
24218650 AAGCAGA-GCAG-AGCA
1 AAGCAGAGGCAGCAGCA
24218665 GAGAAAAAAG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
19 3 0.10
20 4 0.13
21 24 0.77
ACGTcount: A:0.39, C:0.16, G:0.42, T:0.04
Consensus pattern (21 bp):
AAGCAGAGGCAGCAGCAAGGG
Found at i:24219036 original size:44 final size:42
Alignment explanation
Indices: 24218988--24219101 Score: 142
Period size: 43 Copynumber: 2.6 Consensus size: 42
24218978 GAACGGTACT
24218988 TTTAGCAGCATTTGTGATAAAAAGCGCCGCTAAAGGTCATGTTC
1 TTTAGC-GCATTTGT-ATAAAAAGCGCCGCTAAAGGTCATGTTC
* *
24219032 TTTAGCGGCATTT-TCTATAAAAGCGCCGCTATAGGTCATGTTC
1 TTTAGC-GCATTTGTATA-AAAAGCGCCGCTAAAGGTCATGTTC
24219075 TTTAGCGACATTTGCTAT-AAAAGCGCC
1 TTTAGCG-CATTTG-TATAAAAAGCGCC
24219102 TTTAGCGGCG
Statistics
Matches: 62, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
42 3 0.05
43 45 0.73
44 12 0.19
45 2 0.03
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (42 bp):
TTTAGCGCATTTGTATAAAAAGCGCCGCTAAAGGTCATGTTC
Found at i:24219068 original size:43 final size:43
Alignment explanation
Indices: 24219007--24219101 Score: 163
Period size: 43 Copynumber: 2.2 Consensus size: 43
24218997 ATTTGTGATA
* *
24219007 AAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCATTTTCTAT
1 AAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGACATTTGCTAT
*
24219050 AAAAGCGCCGCTATAGGTCATGTTCTTTAGCGACATTTGCTAT
1 AAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGACATTTGCTAT
24219093 AAAAGCGCC
1 AAAAGCGCC
24219102 TTTAGCGGCG
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 49 1.00
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.29
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGACATTTGCTAT
Found at i:24219106 original size:27 final size:26
Alignment explanation
Indices: 24219074--24219127 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
24219064 AGGTCATGTT
*
24219074 CTTTAGCGACATTTGCTATAAAAGCGC
1 CTTTAGCGAC-GTTGCTATAAAAGCGC
*
24219101 CTTTAGCGGCGTTGCTATAAAAGCGC
1 CTTTAGCGACGTTGCTATAAAAGCGC
24219127 C
1 C
24219128 GCTAAATGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 16 0.64
27 9 0.36
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (26 bp):
CTTTAGCGACGTTGCTATAAAAGCGC
Found at i:24220339 original size:34 final size:35
Alignment explanation
Indices: 24220284--24220350 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
24220274 CAAACACTAG
*
24220284 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
24220319 AAAACATTTTCCCG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
24220351 TATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.45, C:0.15, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:24223922 original size:42 final size:42
Alignment explanation
Indices: 24223863--24223951 Score: 160
Period size: 42 Copynumber: 2.1 Consensus size: 42
24223853 TCATTCCTGG
24223863 CTTGGCTTTCCTTTTTGTCTTGACTCTATCCCTTCCAGCTGT
1 CTTGGCTTTCCTTTTTGTCTTGACTCTATCCCTTCCAGCTGT
* *
24223905 CTTGGCTTTCCTTTTTGTCTTGATTCTATGCCTTCCAGCTGT
1 CTTGGCTTTCCTTTTTGTCTTGACTCTATCCCTTCCAGCTGT
24223947 CTTGG
1 CTTGG
24223952 TGAAGACTGT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.07, C:0.28, G:0.17, T:0.48
Consensus pattern (42 bp):
CTTGGCTTTCCTTTTTGTCTTGACTCTATCCCTTCCAGCTGT
Found at i:24224518 original size:26 final size:26
Alignment explanation
Indices: 24224489--24224648 Score: 214
Period size: 26 Copynumber: 6.2 Consensus size: 26
24224479 GTAGTGGACT
*
24224489 TAAATTATCGAAATACCCTCGATGAG
1 TAAATTATCGAAATACCCTCGATGGG
*
24224515 TAAATTATTGAAATACCCTCGATGGG
1 TAAATTATCGAAATACCCTCGATGGG
*
24224541 TAAATTATCGAAATACCCTCAATGGG
1 TAAATTATCGAAATACCCTCGATGGG
* * *
24224567 TAAATTATCAAAATAACCTTGATGGG
1 TAAATTATCGAAATACCCTCGATGGG
* *
24224593 TAAATTATCAAAATACCCTGGATGGG
1 TAAATTATCGAAATACCCTCGATGGG
* *
24224619 TAAATTACCGAAATACCAC-CGAAGGG
1 TAAATTATCGAAATACC-CTCGATGGG
24224645 TAAA
1 TAAA
24224649 ATGACCGTTA
Statistics
Matches: 119, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
26 118 0.99
27 1 0.01
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (26 bp):
TAAATTATCGAAATACCCTCGATGGG
Found at i:24224855 original size:27 final size:27
Alignment explanation
Indices: 24224816--24224880 Score: 89
Period size: 27 Copynumber: 2.4 Consensus size: 27
24224806 ATGGAGGAAG
24224816 TACTGTTACTGGTGGCTCTGCCACA-A
1 TACTGTTACTGGTGGCTCTGCCACATA
* *
24224842 TTACTGTTATTGGTGGCTTTGCCACATA
1 -TACTGTTACTGGTGGCTCTGCCACATA
24224870 TACTG-TACTGG
1 TACTGTTACTGG
24224881 CAGCTCTGTT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
26 5 0.15
27 28 0.82
28 1 0.03
ACGTcount: A:0.18, C:0.22, G:0.23, T:0.37
Consensus pattern (27 bp):
TACTGTTACTGGTGGCTCTGCCACATA
Found at i:24224904 original size:26 final size:26
Alignment explanation
Indices: 24224875--24224924 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
24224865 ACATATACTG
* *
24224875 TACTGGCAGCTCTGTTGCAATATTTT
1 TACTGGCAGCTATGCTGCAATATTTT
24224901 TACTGGCAGCTATGCTGCAATATT
1 TACTGGCAGCTATGCTGCAATATT
24224925 GGTGTGTGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.38
Consensus pattern (26 bp):
TACTGGCAGCTATGCTGCAATATTTT
Found at i:24225435 original size:18 final size:18
Alignment explanation
Indices: 24225412--24225456 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
24225402 AAACAAATAA
*
24225412 GTTTTCATAACAAACACT
1 GTTTTCAAAACAAACACT
24225430 GTTTTCAAAACAAACACAT
1 GTTTTCAAAACAAACAC-T
*
24225449 ATTTTCAA
1 GTTTTCAA
24225457 CTTCAAAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 16 0.67
19 8 0.33
ACGTcount: A:0.42, C:0.20, G:0.04, T:0.33
Consensus pattern (18 bp):
GTTTTCAAAACAAACACT
Found at i:24235137 original size:12 final size:13
Alignment explanation
Indices: 24235110--24235151 Score: 54
Period size: 12 Copynumber: 3.4 Consensus size: 13
24235100 GGTTTTCTCA
24235110 AAATGGAAAT-AG
1 AAATGGAAATGAG
24235122 AAATGGAAATGA-
1 AAATGGAAATGAG
24235134 AAAT-GAGAATGAG
1 AAATGGA-AATGAG
24235147 AAATG
1 AAATG
24235152 TTTCTTTTGC
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 2 0.08
12 19 0.73
13 5 0.19
ACGTcount: A:0.57, C:0.00, G:0.26, T:0.17
Consensus pattern (13 bp):
AAATGGAAATGAG
Found at i:24235137 original size:18 final size:19
Alignment explanation
Indices: 24235110--24235151 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
24235100 GGTTTTCTCA
*
24235110 AAATGGAAAT-AGAAATG-G
1 AAATGAAAATGAG-AATGAG
24235128 AAATGAAAATGAGAATGAG
1 AAATGAAAATGAGAATGAG
24235147 AAATG
1 AAATG
24235152 TTTCTTTTGC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.57, C:0.00, G:0.26, T:0.17
Consensus pattern (19 bp):
AAATGAAAATGAGAATGAG
Found at i:24236765 original size:9 final size:9
Alignment explanation
Indices: 24236746--24236782 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
24236736 TGAGTTTTCA
*
24236746 AATTTGAAT
1 AATTCGAAT
*
24236755 AACTCGAAT
1 AATTCGAAT
24236764 AATTCGAAT
1 AATTCGAAT
24236773 AATTCGAAT
1 AATTCGAAT
24236782 A
1 A
24236783 TCAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Done.