Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 41 of 208
Found at i:15850690 original size:28 final size:28
Alignment explanation
Indices: 15850600--15850690 Score: 71
Period size: 28 Copynumber: 3.2 Consensus size: 28
15850590 GTGATTCCGT
15850600 GTAAGACCATAGCTGGGCTATGGCATCG
1 GTAAGACCATAGCTGGGCTATGGCATCG
** * * *
15850628 GTAAG-TGATATG-TGTGATATGTG-ATTCCAT
1 GTAAGACCATA-GCTGGGCTATG-GCA-T-C-G
15850658 GTAAGACCATAGCTGGGCTATGGCATCG
1 GTAAGACCATAGCTGGGCTATGGCATCG
15850686 GTAAG
1 GTAAG
15850691 TGATATGTGA
Statistics
Matches: 45, Mismatches: 10, Indels: 16
0.63 0.14 0.23
Matches are distributed among these distances:
27 11 0.24
28 13 0.29
29 2 0.04
30 8 0.18
31 11 0.24
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.27
Consensus pattern (28 bp):
GTAAGACCATAGCTGGGCTATGGCATCG
Found at i:15850713 original size:49 final size:49
Alignment explanation
Indices: 15850641--15850783 Score: 223
Period size: 49 Copynumber: 2.9 Consensus size: 49
15850631 AGTGATATGT
* * *
15850641 GTGATATGTGATTCCATGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
* *
15850690 GTGATATGTGATTTCGTGTAAGACCATAGTTGGGCTATGGCATCGGTAT
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
* *
15850739 GTGATTTGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCG
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCG
15850784 AGAAAACGAA
Statistics
Matches: 87, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 87 1.00
ACGTcount: A:0.24, C:0.14, G:0.29, T:0.32
Consensus pattern (49 bp):
GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
Found at i:15853993 original size:52 final size:48
Alignment explanation
Indices: 15853974--15854176 Score: 265
Period size: 46 Copynumber: 4.3 Consensus size: 48
15853964 TGACAAGTGG
* *
15853974 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
15854020 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-A---A
* *
15854072 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
** *
15854118 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
15854164 AAAGTGATAAGTG
1 AAAGTGATAAGTG
15854177 GCTACACTTA
Statistics
Matches: 144, Mismatches: 7, Indels: 12
0.88 0.04 0.07
Matches are distributed among these distances:
46 100 0.69
52 44 0.31
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
Found at i:15854028 original size:98 final size:98
Alignment explanation
Indices: 15853908--15854176 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
15853898 TTTGAGTACT
*
15853908 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
15853973 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
**
15854006 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
15854071 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
15854104 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGT
*
15854169 GATAAGTG
65 GAAAAGTG
15854177 GCTACACTTA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 149 0.93
99 11 0.07
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:15854184 original size:37 final size:37
Alignment explanation
Indices: 15854140--15854285 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
15854130 GATAGCTTTA
*
15854140 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
15854177 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
15854214 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
15854251 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
15854286 ATCATACGTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:15856857 original size:14 final size:13
Alignment explanation
Indices: 15856825--15856857 Score: 50
Period size: 12 Copynumber: 2.5 Consensus size: 13
15856815 GCGCTATCCA
15856825 TCATTATACACTG
1 TCATTATACACTG
15856838 -CATTATACACTG
1 TCATTATACACTG
15856850 CTCATTAT
1 -TCATTAT
15856858 TATTTATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 12 0.67
14 6 0.33
ACGTcount: A:0.30, C:0.24, G:0.06, T:0.39
Consensus pattern (13 bp):
TCATTATACACTG
Found at i:15863015 original size:39 final size:39
Alignment explanation
Indices: 15862961--15863038 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
15862951 CCTGACAGAA
15862961 TGTTTGAATTTTAAGAAGTTAAGGGGGGGAAATCCCTTT
1 TGTTTGAATTTTAAGAAGTTAAGGGGGGGAAATCCCTTT
15863000 TGTTTGAATTTTAAGAAGTTAAGGGGGGGAAATCCCTTT
1 TGTTTGAATTTTAAGAAGTTAAGGGGGGGAAATCCCTTT
15863039 CTTGGACTGG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.28, C:0.08, G:0.28, T:0.36
Consensus pattern (39 bp):
TGTTTGAATTTTAAGAAGTTAAGGGGGGGAAATCCCTTT
Found at i:15867113 original size:16 final size:15
Alignment explanation
Indices: 15867092--15867122 Score: 53
Period size: 15 Copynumber: 2.0 Consensus size: 15
15867082 ATGTAATTAT
15867092 AAAAATAGTTAAAATA
1 AAAAATA-TTAAAATA
15867108 AAAAATATTAAAATA
1 AAAAATATTAAAATA
15867123 TTATATGAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (15 bp):
AAAAATATTAAAATA
Found at i:15887591 original size:2 final size:2
Alignment explanation
Indices: 15887584--15887629 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
15887574 AATGAAAGAC
15887584 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
15887626 GA GA
1 GA GA
15887630 TGTAGTAAGA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:15888225 original size:21 final size:21
Alignment explanation
Indices: 15888196--15888236 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
15888186 GTTTGCCCCA
*
15888196 AAGCACAAAGAACAGAAAAGAT
1 AAGCACAAAGAA-AAAAAAGAT
15888218 AAGC-CAAAGAAAAAAAAGA
1 AAGCACAAAGAAAAAAAAGA
15888237 AGAAAAACAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.68, C:0.12, G:0.17, T:0.02
Consensus pattern (21 bp):
AAGCACAAAGAAAAAAAAGAT
Found at i:15891550 original size:21 final size:21
Alignment explanation
Indices: 15891519--15891587 Score: 84
Period size: 21 Copynumber: 3.3 Consensus size: 21
15891509 TGAGCTGCAC
*
15891519 TTTAACCCTTATGGGTTTCCG
1 TTTAGCCCTTATGGGTTTCCG
* * *
15891540 TTTAGCTCTTATGAGCTTCCG
1 TTTAGCCCTTATGGGTTTCCG
* *
15891561 TTCAACCCTTATGGGTTTCCG
1 TTTAGCCCTTATGGGTTTCCG
15891582 TTTAGC
1 TTTAGC
15891588 ACTTGTGTGC
Statistics
Matches: 37, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.14, C:0.25, G:0.19, T:0.42
Consensus pattern (21 bp):
TTTAGCCCTTATGGGTTTCCG
Found at i:15891555 original size:42 final size:42
Alignment explanation
Indices: 15891476--15891587 Score: 136
Period size: 42 Copynumber: 2.7 Consensus size: 42
15891466 ATGAGTTTCT
* ** * * *
15891476 GTTTAACCCTAATGGGTTTTAGTTCAGTTCTTTTGAGCTGCAC
1 GTTTAACCCTTATGGGTTTCCGTTTAGCTCTTATGAGCTGC-C
*
15891519 -TTTAACCCTTATGGGTTTCCGTTTAGCTCTTATGAGCTTCC
1 GTTTAACCCTTATGGGTTTCCGTTTAGCTCTTATGAGCTGCC
*
15891560 GTTCAACCCTTATGGGTTTCCGTTTAGC
1 GTTTAACCCTTATGGGTTTCCGTTTAGC
15891588 ACTTGTGTGC
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
41 1 0.02
42 59 0.98
ACGTcount: A:0.16, C:0.22, G:0.20, T:0.42
Consensus pattern (42 bp):
GTTTAACCCTTATGGGTTTCCGTTTAGCTCTTATGAGCTGCC
Found at i:15894682 original size:101 final size:101
Alignment explanation
Indices: 15894502--15894695 Score: 253
Period size: 101 Copynumber: 1.9 Consensus size: 101
15894492 GAATTGACGG
* ** * * * *
15894502 ATAAGACCATGGTTGGACTGTGGCAATTTTTATATGTAAGACCATAGCTGGGATATGACATTTTA
1 ATAAGACCATAGTTGGACCATGACAATATTTATAAGTAAGACCATAGCTGGGATATGACATTCTA
* *
15894567 ATGAAAAAATCATAACTGGGTTATGGCATTTTGAAC
66 ATGAAAAAACCATAACTGAGTTATGGCATTTTGAAC
* * * *
15894603 ATAAGACCATAGTTGGACCATGACAGTATTTATAAGTAAGACCATAGCTGGGATGTGGCATTCTG
1 ATAAGACCATAGTTGGACCATGACAATATTTATAAGTAAGACCATAGCTGGGATATGACATTCTA
* *
15894668 ATGATAAGACCATAACTGAGTTATGGCA
66 ATGAAAAAACCATAACTGAGTTATGGCA
15894696 CTACGAATGT
Statistics
Matches: 78, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
101 78 1.00
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.30
Consensus pattern (101 bp):
ATAAGACCATAGTTGGACCATGACAATATTTATAAGTAAGACCATAGCTGGGATATGACATTCTA
ATGAAAAAACCATAACTGAGTTATGGCATTTTGAAC
Found at i:15900565 original size:46 final size:44
Alignment explanation
Indices: 15900506--15900620 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
15900496 ACAGGACAGA
* *
15900506 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
15900552 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
15900596 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
15900621 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:15900601 original size:44 final size:45
Alignment explanation
Indices: 15900506--15900639 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
15900496 ACAGGACAGA
* *
15900506 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
15900552 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
15900596 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
15900640 CAGGGTATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:15907948 original size:46 final size:44
Alignment explanation
Indices: 15907889--15908003 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
15907879 ACAGGACAGA
* *
15907889 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
15907935 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
15907979 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
15908004 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:15907984 original size:44 final size:45
Alignment explanation
Indices: 15907889--15908022 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
15907879 ACAGGACAGA
* *
15907889 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
15907935 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
15907979 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
15908023 CAGGGTATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:15916098 original size:9 final size:9
Alignment explanation
Indices: 15916080--15916173 Score: 120
Period size: 9 Copynumber: 10.4 Consensus size: 9
15916070 GTAGTGATTC
15916080 AATTCGGTT
1 AATTCGGTT
*
15916089 AATTCAGTT
1 AATTCGGTT
15916098 AATTCGAG-T
1 AATTCG-GTT
15916107 AATTCGGTT
1 AATTCGGTT
*
15916116 AATTCGGGT
1 AATTCGGTT
*
15916125 AATCCGGTT
1 AATTCGGTT
15916134 AATTCGGTT
1 AATTCGGTT
15916143 AATTCGAG-T
1 AATTCG-GTT
*
15916152 AATTCGGGT
1 AATTCGGTT
15916161 AATTCGGTT
1 AATTCGGTT
15916170 AATT
1 AATT
15916174 TTTAACCAAA
Statistics
Matches: 74, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
8 2 0.03
9 70 0.95
10 2 0.03
ACGTcount: A:0.27, C:0.12, G:0.22, T:0.39
Consensus pattern (9 bp):
AATTCGGTT
Found at i:15920258 original size:16 final size:15
Alignment explanation
Indices: 15920232--15920263 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
15920222 TTTTAATGTG
15920232 ACATAATTATATTTA
1 ACATAATTATATTTA
15920247 ACATATATTATATTTA
1 ACATA-ATTATATTTA
15920263 A
1 A
15920264 AAAGTTAGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (15 bp):
ACATAATTATATTTA
Found at i:15921040 original size:31 final size:31
Alignment explanation
Indices: 15921002--15921063 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
15920992 TATTCGGGTC
15921002 GCGGGTCGGAGACCCGGATCCCTTTTAGGAT
1 GCGGGTCGGAGACCCGGATCCCTTTTAGGAT
**
15921033 GCGGGTCGGAGACTTGGATCCCTTTTAGGAT
1 GCGGGTCGGAGACCCGGATCCCTTTTAGGAT
15921064 ACAGGTCAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.16, C:0.23, G:0.35, T:0.26
Consensus pattern (31 bp):
GCGGGTCGGAGACCCGGATCCCTTTTAGGAT
Found at i:15926208 original size:56 final size:56
Alignment explanation
Indices: 15926140--15926253 Score: 192
Period size: 56 Copynumber: 2.0 Consensus size: 56
15926130 TCACCCGCCC
* * *
15926140 TTTCTGTTGTTCCTGTTCCTCAACTCAAAACTCAAGCTACTAATTGGCTATTGTCT
1 TTTCTATTGTTCCTCTTCCTCAACTCAAAACTCAAGCTAATAATTGGCTATTGTCT
*
15926196 TTTCTATTGTTCCTCTTTCTCAACTCAAAACTCAAGCTAATAATTGGCTATTGTCT
1 TTTCTATTGTTCCTCTTCCTCAACTCAAAACTCAAGCTAATAATTGGCTATTGTCT
15926252 TT
1 TT
15926254 GTTTCATAGC
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 54 1.00
ACGTcount: A:0.23, C:0.24, G:0.11, T:0.43
Consensus pattern (56 bp):
TTTCTATTGTTCCTCTTCCTCAACTCAAAACTCAAGCTAATAATTGGCTATTGTCT
Found at i:15927075 original size:354 final size:355
Alignment explanation
Indices: 15926417--15927123 Score: 1308
Period size: 354 Copynumber: 2.0 Consensus size: 355
15926407 AAAACAAGAA
*
15926417 AACAGTAAAGTGAAATACAAAGCCTCATTTGGTCTACATAGAATATCATGCCAAGGTTGGAAAGG
1 AACAGTAAAGTGAAATACAAAGCCTCATTTGGTCCACATAGAATATCATGCCAAGGTTGGAAAGG
* *
15926482 GAACAACTGTTTCTAAAAGCAGCCCCAAACCAATGAAAACTAGAGATCTAAAAACCCTTCAATGA
66 AAACAACTGTTTCTAAAAGCAGCCCAAAACCAATGAAAACTAGAGATCTAAAAACCCTTCAATGA
15926547 CTCATCAATTGAAATTTATACTCGAGGGTCCGAGCAGAAGAAACAATAAAGATTGGAAATAAATC
131 CTCATCAATTGAAATTTATACTCGAGGGTCCGAGCAGAAGAAACAATAAAGATTGGAAATAAATC
*
15926612 ATAGGTCTCACTGGCCAAAAGCAAGAGAAGGAAGAAAAATGGGTAAGAAAACATAGGCCAACAAT
196 ATAGGTCTCACTGGCCAAAAGCAAGAGAAGGAAGAAAAATGGGTAAGAAAACAAAGGCCAACAAT
*
15926677 TCAGGCATGCTTTGAACTCAACACTTACTAGGACCATGAGAATCTCTCTTTATGTCATTAAGGTT
261 TCAGGCATGCTTTGAACTCAACACTTACTAGGACCATGAGAATCTCTCTTTATGTCATTAAGGAT
15926742 ACCTACAAAGTACACTGTAAATAGTATTAC
326 ACCTACAAAGTACACTGTAAATAGTATTAC
* **
15926772 AACAGT-ATGTGAAATACAAAGCCTCATTTGGTCCACATAGAATATCATGCTTAGGTTGGAAAGG
1 AACAGTAAAGTGAAATACAAAGCCTCATTTGGTCCACATAGAATATCATGCCAAGGTTGGAAAGG
15926836 AAACAACTGTTTCTAAAAGCAGCCCAAAACCAATGAAAACTAGAGATCTAAAAACCCTTCAATGA
66 AAACAACTGTTTCTAAAAGCAGCCCAAAACCAATGAAAACTAGAGATCTAAAAACCCTTCAATGA
*
15926901 CTCATCAATTGAAATTTATACTCTAGGGTCCGAGCAGAAGAAACAATAAAGATTGGAAATAAATC
131 CTCATCAATTGAAATTTATACTCGAGGGTCCGAGCAGAAGAAACAATAAAGATTGGAAATAAATC
* *
15926966 ATAGGTCTCACTTGCCAAAAGCAAGAGAAGGAAGAAAAATGGGTAAGATAACAAAGGCCAACAAT
196 ATAGGTCTCACTGGCCAAAAGCAAGAGAAGGAAGAAAAATGGGTAAGAAAACAAAGGCCAACAAT
15927031 TCAGGCATGCTTTGAACTCAACACTTACTAGGACCATGAGAATCTCTCTTTATGTCATTAAGGAT
261 TCAGGCATGCTTTGAACTCAACACTTACTAGGACCATGAGAATCTCTCTTTATGTCATTAAGGAT
15927096 ACCTACAAAGTACACTGTAAATAGTATT
326 ACCTACAAAGTACACTGTAAATAGTATT
15927124 CACTTTTTTT
Statistics
Matches: 341, Mismatches: 11, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
354 335 0.98
355 6 0.02
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.23
Consensus pattern (355 bp):
AACAGTAAAGTGAAATACAAAGCCTCATTTGGTCCACATAGAATATCATGCCAAGGTTGGAAAGG
AAACAACTGTTTCTAAAAGCAGCCCAAAACCAATGAAAACTAGAGATCTAAAAACCCTTCAATGA
CTCATCAATTGAAATTTATACTCGAGGGTCCGAGCAGAAGAAACAATAAAGATTGGAAATAAATC
ATAGGTCTCACTGGCCAAAAGCAAGAGAAGGAAGAAAAATGGGTAAGAAAACAAAGGCCAACAAT
TCAGGCATGCTTTGAACTCAACACTTACTAGGACCATGAGAATCTCTCTTTATGTCATTAAGGAT
ACCTACAAAGTACACTGTAAATAGTATTAC
Found at i:15929877 original size:23 final size:23
Alignment explanation
Indices: 15929851--15929904 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 23
15929841 CCAAAACCCT
15929851 AAAAATCCAAAAACTCTA-AACTC
1 AAAAATCCAAAAAC-CTACAACTC
*
15929874 AAAAATCCAAAAACCTACAAGTC
1 AAAAATCCAAAAACCTACAACTC
15929897 AAGAAATC
1 AA-AAATC
15929905 ACAAGCCATG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
22 3 0.11
23 20 0.71
24 5 0.18
ACGTcount: A:0.57, C:0.24, G:0.04, T:0.15
Consensus pattern (23 bp):
AAAAATCCAAAAACCTACAACTC
Found at i:15930400 original size:150 final size:146
Alignment explanation
Indices: 15930211--15930495 Score: 376
Period size: 149 Copynumber: 1.9 Consensus size: 146
15930201 AATTTAATTA
* * * *
15930211 AAAAATTATTAAAATATTTCTATACATAAAATAATATATATTATTATGAGGGTGTTTTTATCTTT
1 AAAAATTACTAAAATATTTATATACATAAAATAAGATATATTATCATGAGGGTGTTTTTATCTTT
* * * *
15930276 TTATATTTTTATT-TAAATTTTATA-TTAATATTAAGTCCTAAATTATGTTGGTATCACAAGTTA
66 TTACATTTTT-TTATAAA-TCTATACTT-ATATTAAGTCCTAAACTATGTTGATATCACAAGTTA
15930339 ACATACACTAGTTCTGTTG
128 ACATACACTAGTTCTGTTG
* *
15930358 AAAAATTACTAAAATATATTATATATATAAACTGAGAGATATATTATCATGAGGGTGTTTTTATC
1 AAAAATTACTAAAATAT-TTATATACATAAAAT-A-AGATATATTATCATGAGGGTGTTTTTATC
* * *
15930423 TTTTTGCATTTTTTTATAAATCTATACTTATATTAAGTCTTAAACTGTGTTGATATCACAAGTTA
63 TTTTTACATTTTTTTATAAATCTATACTTATATTAAGTCCTAAACTATGTTGATATCACAAGTTA
*
15930488 ATATACAC
128 ACATACAC
15930496 CAATGCAAGT
Statistics
Matches: 119, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
147 16 0.13
148 12 0.10
149 47 0.39
150 44 0.37
ACGTcount: A:0.37, C:0.08, G:0.09, T:0.45
Consensus pattern (146 bp):
AAAAATTACTAAAATATTTATATACATAAAATAAGATATATTATCATGAGGGTGTTTTTATCTTT
TTACATTTTTTTATAAATCTATACTTATATTAAGTCCTAAACTATGTTGATATCACAAGTTAACA
TACACTAGTTCTGTTG
Found at i:15931236 original size:31 final size:32
Alignment explanation
Indices: 15931192--15931254 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
15931182 TTTAGAAAAC
15931192 AAACTTTATTTTTTATTAAAAT-TCAATTTTT
1 AAACTTTATTTTTTATTAAAATCTCAATTTTT
* *
15931223 AAAC-TTATATTTTTATTCAAATCTCTATTTTT
1 AAACTTTAT-TTTTTATTAAAATCTCAATTTTT
15931255 TAAATGGATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 4 0.14
31 16 0.57
32 8 0.29
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.57
Consensus pattern (32 bp):
AAACTTTATTTTTTATTAAAATCTCAATTTTT
Found at i:15948838 original size:18 final size:20
Alignment explanation
Indices: 15948806--15948843 Score: 53
Period size: 18 Copynumber: 2.0 Consensus size: 20
15948796 GTTAATTTTA
*
15948806 ATTTTTCAATATTATTTAAT
1 ATTTTTCAATATTATGTAAT
15948826 ATTTTTC-AT-TTATGTAAT
1 ATTTTTCAATATTATGTAAT
15948844 TTTAATTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 8 0.47
19 2 0.12
20 7 0.41
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.61
Consensus pattern (20 bp):
ATTTTTCAATATTATGTAAT
Found at i:15950988 original size:8 final size:9
Alignment explanation
Indices: 15950971--15951001 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
15950961 TTGAATAAGG
15950971 TAATATTTT
1 TAATATTTT
15950980 TAATATTTT
1 TAATATTTT
15950989 T-ATATTTT
1 TAATATTTT
15950997 TAATA
1 TAATA
15951002 AAATAGAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.38
9 13 0.62
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (9 bp):
TAATATTTT
Found at i:15954872 original size:46 final size:46
Alignment explanation
Indices: 15954798--15955020 Score: 356
Period size: 46 Copynumber: 4.8 Consensus size: 46
15954788 ACAATGCTAT
* * *
15954798 AACTCAGTATGGTTTTCTTCACTAAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTTACTGAAATATCATACCTACTTTTCAC
* * *
15954844 AACTCTGTATGGTTTTCATTACTGAAATATCATACCTACTTCTCAC
1 AACTCAGTATGGTTTTCTTTACTGAAATATCATACCTACTTTTCAC
15954890 AACTCAGTATGGTTTTCTTTACTGAAATATCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTTACTGAAATATCATACCTACTTTTCAC
15954936 AACTCAGTATGGTTTTCTTTACTGAAATATCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTTACTGAAATATCATACCTACTTTTCAC
* * * *
15954982 AACTTAATATGGTTTGCTTTACTGAAATACCATACCTAC
1 AACTCAGTATGGTTTTCTTTACTGAAATATCATACCTAC
15955021 GTTCCACACT
Statistics
Matches: 164, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 164 1.00
ACGTcount: A:0.30, C:0.23, G:0.09, T:0.39
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTTACTGAAATATCATACCTACTTTTCAC
Found at i:15957541 original size:26 final size:25
Alignment explanation
Indices: 15957506--15957571 Score: 69
Period size: 26 Copynumber: 2.6 Consensus size: 25
15957496 GCAGCTCTTA
* * *
15957506 TGAGCATCCCGTTATATGGCTCTTCG
1 TGAGCTTCCCGTTA-AAGACTCTTCG
*
15957532 TGAGCTTCCCGATTAAAGACTCTTTG
1 TGAGCTTCCCG-TTAAAGACTCTTCG
*
15957558 TGAGCTTCCTGTTA
1 TGAGCTTCCCGTTA
15957572 GTGTTTGCTT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
25 3 0.09
26 28 0.82
27 3 0.09
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.36
Consensus pattern (25 bp):
TGAGCTTCCCGTTAAAGACTCTTCG
Found at i:15958219 original size:30 final size:31
Alignment explanation
Indices: 15958182--15958268 Score: 95
Period size: 31 Copynumber: 2.8 Consensus size: 31
15958172 TTTTTTTTAA
*
15958182 TTTTTTAAATTTTAAAATATTTTTAAAATAC
1 TTTTTTAAATTTTAAAATAATTTTAAAATAC
* ***
15958213 TTTTTAAAATTTT-TTTTAATTTTAAAATAC
1 TTTTTTAAATTTTAAAATAATTTTAAAATAC
*
15958243 TTTTTTTAATTTTTAAAATAAATTTT
1 -TTTTTTAAATTTTAAAAT-AATTTT
15958269 TCGTATTTAT
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
30 13 0.30
31 23 0.53
32 1 0.02
33 6 0.14
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (31 bp):
TTTTTTAAATTTTAAAATAATTTTAAAATAC
Found at i:15958228 original size:11 final size:11
Alignment explanation
Indices: 15958191--15958227 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
15958181 ATTTTTTAAA
15958191 TTTTAAAATAT
1 TTTTAAAATAT
15958202 TTTTAAAATACT
1 TTTTAAAATA-T
15958214 TTTTAAAAT-T
1 TTTTAAAATAT
15958224 TTTT
1 TTTT
15958228 TTAATTTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 5 0.20
11 10 0.40
12 10 0.40
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:15958228 original size:12 final size:12
Alignment explanation
Indices: 15958191--15958231 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
15958181 ATTTTTTAAA
15958191 TTTTAAAA-TAT
1 TTTTAAAATTAT
15958202 TTTTAAAA-TACT
1 TTTTAAAATTA-T
*
15958214 TTTTAAAATTTT
1 TTTTAAAATTAT
15958226 TTTTAA
1 TTTTAA
15958232 TTTTAAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
11 10 0.37
12 16 0.59
13 1 0.04
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (12 bp):
TTTTAAAATTAT
Found at i:15958248 original size:20 final size:20
Alignment explanation
Indices: 15958182--15958262 Score: 85
Period size: 20 Copynumber: 4.0 Consensus size: 20
15958172 TTTTTTTTAA
*
15958182 TTTTTTAAATTTTAAAATAT
1 TTTTTTAATTTTTAAAATAT
* *
15958202 TTTTAAAATACTTTTTAAAAT-T
1 TTTT---TTAATTTTTAAAATAT
15958224 TTTTTTAA-TTTTAAAATACT
1 TTTTTTAATTTTTAAAATA-T
15958244 TTTTTTAATTTTTAAAATA
1 TTTTTTAATTTTTAAAATA
15958263 AATTTTTCGT
Statistics
Matches: 50, Mismatches: 5, Indels: 11
0.76 0.08 0.17
Matches are distributed among these distances:
18 9 0.18
19 2 0.04
20 13 0.26
21 10 0.20
22 5 0.10
23 11 0.22
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTTTTAATTTTTAAAATAT
Found at i:15958268 original size:20 final size:20
Alignment explanation
Indices: 15958225--15958269 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
15958215 TTTAAAATTT
**
15958225 TTTTTAATTTTAAAATACTT
1 TTTTTAATTTTAAAATACAA
15958245 TTTTTAATTTTTAAAATA-AA
1 TTTTTAA-TTTTAAAATACAA
15958265 TTTTT
1 TTTTT
15958270 CGTATTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTTTAATTTTAAAATACAA
Found at i:15958268 original size:21 final size:20
Alignment explanation
Indices: 15958224--15958269 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
15958214 TTTTAAAATT
**
15958224 TTTTTTAATTTTAAAATACT
1 TTTTTTAATTTTAAAATAAA
15958244 TTTTTTAATTTTTAAAATAAA
1 TTTTTTAA-TTTTAAAATAAA
15958265 TTTTT
1 TTTTT
15958270 CGTATTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 8 0.35
21 15 0.65
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTTTTAATTTTAAAATAAA
Found at i:15958269 original size:41 final size:41
Alignment explanation
Indices: 15958179--15958269 Score: 98
Period size: 41 Copynumber: 2.2 Consensus size: 41
15958169 TTATTTTTTT
*
15958179 TAATTTTTTAAATTTTAAAATATTTTTAAAATACTTTTTAAAA
1 TAATTTTTTAAATTTTAAAATATTTTT--AATAATTTTTAAAA
* *
15958222 T--TTTTTTTAATTTTAAAATACTTTTT-TTAATTTTTAAAA
1 TAATTTTTTAAATTTTAAAATA-TTTTTAATAATTTTTAAAA
*
15958261 TAAATTTTT
1 TAATTTTTT
15958270 CGTATTTATT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
39 12 0.29
41 23 0.56
42 5 0.12
43 1 0.02
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.59
Consensus pattern (41 bp):
TAATTTTTTAAATTTTAAAATATTTTTAATAATTTTTAAAA
Found at i:15960176 original size:126 final size:126
Alignment explanation
Indices: 15959950--15960223 Score: 363
Period size: 126 Copynumber: 2.2 Consensus size: 126
15959940 TAAGGCCAAA
* * *
15959950 CAGGAACTACTGTAGAAAAAAAGCGTCCACGTGGGAGGTTTTTTCATCAAATTTACTGACAGTGC
1 CAGGAACTACTGTAGAAAAAAAGAGTCCACGTGAGAGCTTTTTTCATCAAATTTACTGACAGTGC
* * *
15960015 ATCCTGCTTGAAGCGTTTTTAACACCATTTGTTCAGATTTGTCTTCTCAAAATTATTTTTT
66 ATCCTGCTAGAAGCGTTTTTAACACCATTTGTTCAGAATCGTCTTCTCAAAATTATTTTTT
* * * ** *
15960076 CAGGAACTACTATAGAAAAAGAGAGTCCACGTGAGAGCTTTTTTCAGT-AATTTTGTTGACTGTG
1 CAGGAACTACTGTAGAAAAAAAGAGTCCACGTGAGAGCTTTTTTCA-TCAAATTTACTGACAGTG
* * **
15960140 CATCTTGCTAGAAGCGTTTTTTACATTATCTT-TTCAGAATCGTCTTCTCAAAATTATTTTTT
65 CATCCTGCTAGAAGCGTTTTTAACACCAT-TTGTTCAGAATCGTCTTCTCAAAATTATTTTTT
*
15960202 CAGAAACTACTGTAGAAAAAAA
1 CAGGAACTACTGTAGAAAAAAA
15960224 CAAAAGTTTT
Statistics
Matches: 127, Mismatches: 19, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
126 124 0.98
127 3 0.02
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (126 bp):
CAGGAACTACTGTAGAAAAAAAGAGTCCACGTGAGAGCTTTTTTCATCAAATTTACTGACAGTGC
ATCCTGCTAGAAGCGTTTTTAACACCATTTGTTCAGAATCGTCTTCTCAAAATTATTTTTT
Found at i:15960352 original size:34 final size:32
Alignment explanation
Indices: 15960278--15960395 Score: 123
Period size: 34 Copynumber: 3.6 Consensus size: 32
15960268 CACAAATTTA
**
15960278 TTTTAAAAAAACTAAACCATAATTTAATTAATT
1 TTTTAAAAACCCTAAACCATAATTTAATTAA-T
*
15960311 TTCTTAAAAACCCTAATCCATAATTTAATTAAT
1 TT-TTAAAAACCCTAAACCATAATTTAATTAAT
* *
15960344 TAATTTAAAACCCCAAAAACC-TAATTTAATT-AT
1 T--TTTAAAAACCC-TAAACCATAATTTAATTAAT
15960377 TTTTAGAAAACCCTAAACC
1 TTTTA-AAAACCCTAAACC
15960396 TTAAACCTAC
Statistics
Matches: 72, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
31 9 0.12
32 6 0.08
33 7 0.10
34 45 0.62
35 5 0.07
ACGTcount: A:0.47, C:0.17, G:0.01, T:0.36
Consensus pattern (32 bp):
TTTTAAAAACCCTAAACCATAATTTAATTAAT
Found at i:15991497 original size:3 final size:3
Alignment explanation
Indices: 15991489--15991516 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
15991479 GCATTTAATC
15991489 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
15991517 AAGTAGATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:15992585 original size:57 final size:56
Alignment explanation
Indices: 15992512--15992621 Score: 202
Period size: 57 Copynumber: 1.9 Consensus size: 56
15992502 TTGTACATTA
15992512 ATTTATAGTGATTTATTAATCATTTGTACTATGTATCATGTTTTTGTATTATTGTT
1 ATTTATAGTGATTTATTAATCATTTGTACTATGTATCATGTTTTTGTATTATTGTT
*
15992568 ATTTATTATTGATTTATTAATCATTTGTACTATGTATCATGTTTTTGTATTATT
1 ATTTA-TAGTGATTTATTAATCATTTGTACTATGTATCATGTTTTTGTATTATT
15992622 CCTATTAATA
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
56 5 0.10
57 47 0.90
ACGTcount: A:0.25, C:0.05, G:0.11, T:0.58
Consensus pattern (56 bp):
ATTTATAGTGATTTATTAATCATTTGTACTATGTATCATGTTTTTGTATTATTGTT
Found at i:15993426 original size:33 final size:34
Alignment explanation
Indices: 15993383--15993448 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 34
15993373 ATCTTTTCAA
* *
15993383 AATTTTTTAGG-AAATATTTGTTTCAATATTTTT
1 AATTTGTTAGGAAAATATTTATTTCAATATTTTT
*
15993416 AATTTGTTAGGAAAATATTTATTTTAATATTTT
1 AATTTGTTAGGAAAATATTTATTTCAATATTTT
15993449 AGTGTATTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 10 0.34
34 19 0.66
ACGTcount: A:0.33, C:0.02, G:0.09, T:0.56
Consensus pattern (34 bp):
AATTTGTTAGGAAAATATTTATTTCAATATTTTT
Found at i:15996100 original size:31 final size:30
Alignment explanation
Indices: 15996028--15996104 Score: 77
Period size: 31 Copynumber: 2.5 Consensus size: 30
15996018 AAATTTAACA
*
15996028 AGTTAATGACTTAAATAAAAACTTTCGAAT
1 AGTTAATGACTTAAATAAAAACTTTCAAAT
* * *
15996058 AGTTTACTGACTTAAA-AGAAAATTTTTAAAT
1 AG-TTAATGACTTAAATA-AAAACTTTCAAAT
15996089 AGTTCAATGAC-TAAAT
1 AGTT-AATGACTTAAAT
15996105 TATAGTTTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
30 9 0.24
31 29 0.76
ACGTcount: A:0.45, C:0.09, G:0.10, T:0.35
Consensus pattern (30 bp):
AGTTAATGACTTAAATAAAAACTTTCAAAT
Found at i:15996912 original size:20 final size:19
Alignment explanation
Indices: 15996858--15996903 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
15996848 CTTGACTTTT
*
15996858 TTTTTTAAA-TAGATCTT-A
1 TTTTTTAAATTAAAT-TTAA
15996876 TTTTTTAAATTAAATTTAA
1 TTTTTTAAATTAAATTTAA
15996895 TTTTTTAAA
1 TTTTTTAAA
15996904 CTTATATTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 11 0.44
19 14 0.56
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (19 bp):
TTTTTTAAATTAAATTTAA
Found at i:15997441 original size:5 final size:5
Alignment explanation
Indices: 15997431--15997467 Score: 74
Period size: 5 Copynumber: 7.4 Consensus size: 5
15997421 TTTAAGGAAG
15997431 GATGA GATGA GATGA GATGA GATGA GATGA GATGA GA
1 GATGA GATGA GATGA GATGA GATGA GATGA GATGA GA
15997468 AATGTGTGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.41, C:0.00, G:0.41, T:0.19
Consensus pattern (5 bp):
GATGA
Found at i:16004658 original size:18 final size:19
Alignment explanation
Indices: 16004624--16004659 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
16004614 CAAAATTTAT
*
16004624 ATTTTTAAAAAATTATAAA
1 ATTTCTAAAAAATTATAAA
16004643 ATTTCTAAAAAA-TATAA
1 ATTTCTAAAAAATTATAA
16004660 CGAATATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (19 bp):
ATTTCTAAAAAATTATAAA
Found at i:16005761 original size:35 final size:35
Alignment explanation
Indices: 16005715--16005784 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
16005705 TATCTTACCT
16005715 AAGCTTTCTGGACCAATAATAGATGATGGAGCTAG
1 AAGCTTTCTGGACCAATAATAGATGATGGAGCTAG
16005750 AAGCTTTCTGGACCAATAATAGATGATGGAGCTAG
1 AAGCTTTCTGGACCAATAATAGATGATGGAGCTAG
16005785 TATCAAGCAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.34, C:0.14, G:0.26, T:0.26
Consensus pattern (35 bp):
AAGCTTTCTGGACCAATAATAGATGATGGAGCTAG
Found at i:16008869 original size:74 final size:74
Alignment explanation
Indices: 16008706--16008861 Score: 195
Period size: 74 Copynumber: 2.1 Consensus size: 74
16008696 GATAATTAGA
* * * * * * **
16008706 AAAAGATGAATAATTATGGTACATTTGAAAAACTAGTGGAACTAAACTATTTAGTTGGAAAATTC
1 AAAACATGAATAATTATGGGACATTTAAAAAACAAGTGCAACTAAACTATTTAGTTGAAAAATAA
*
16008771 ATAAATGAG
66 ACAAATGAG
* * *
16008780 AGAACATGAATAATTATGGGGCATTTAAAAAACAAGTGCAACTAAATTATTTAGTTGAAAAATAA
1 AAAACATGAATAATTATGGGACATTTAAAAAACAAGTGCAACTAAACTATTTAGTTGAAAAATAA
*
16008845 ACAAATGGG
66 ACAAATGAG
16008854 AAAACATG
1 AAAACATG
16008862 GGTAATTAAA
Statistics
Matches: 68, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
74 68 1.00
ACGTcount: A:0.48, C:0.08, G:0.17, T:0.27
Consensus pattern (74 bp):
AAAACATGAATAATTATGGGACATTTAAAAAACAAGTGCAACTAAACTATTTAGTTGAAAAATAA
ACAAATGAG
Found at i:16011662 original size:115 final size:113
Alignment explanation
Indices: 16010969--16011642 Score: 836
Period size: 114 Copynumber: 5.9 Consensus size: 113
16010959 AAAAATAAAC
* * * * *
16010969 TTTAGCGGCGTTTTTCACAAAGCGCCTCAAAA-AACCTAAGCCCAACGACGCCGTATT-CTGAGC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAATAAACTAAACCCAACGACGCCGT-TTCCTGAGC
** *
16011032 TTTCGCAAATTTAGTGGCGATTTTAGTAAGCGCCGCTAATGCTCAGTGCT
65 TTTCGCGGATTTAGTGGCGTTTTTAGTAAGCGCCGCTAATGCTCAG-GCT
* *
16011082 TTTAGTGGCGTTTTTGAGAAAGCGCCGCAAAATAAACTAAACCCAACAACGCCGTTTCCTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAATAAACTAAACCCAACGACGCCGTTTCCTGAGCT
*
16011147 TTCACGGATTTAGTGGCGTTTTTTAGTAAGCGCCGCTAATGCTCAGGCT
66 TTCGCGGATTTAGTGGCG-TTTTTAGTAAGCGCCGCTAATGCTCAGGCT
* *
16011196 TTTAGCGGCGTTTTTGATAAAGCGCCGCAAAATAAACTAAACCCAACGATGCCGTTTCCTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAATAAACTAAACCCAACGACGCCGTTTCCTGAGCT
*
16011261 TTCGCGGATTTAATGGCGTTTTTTAGTAAGCGCCGCTAATGCTCAGGCT
66 TTCGCGGATTTAGTGGCG-TTTTTAGTAAGCGCCGCTAATGCTCAGGCT
* * *
16011310 TTTAGCGGCTTTTTTGAGAAAGCGCCGCAAAATAAACTAAACCCAACGATGTCGTTTCCTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAATAAACTAAACCCAACGACGCCGTTTCCTGAGCT
* * * * *
16011375 TTCACGGATTTAGTGGCATTTTTTAGCAAGCGCCGCTAATGCTTAGGGCA
66 TTCGCGGATTTAGTGGC-GTTTTTAGTAAGCGCCGCTAATGCTCA-GGCT
* * * * **
16011425 GTT-GCGGCGTTTTTGATG-AAGCGCCACAAAATAAACTAAGCCCAACGATGCCGTTTTTTGAGC
1 TTTAGCGGCGTTTTTGA-GAAAGCGCCGCAAAATAAACTAAACCCAACGACGCCGTTTCCTGAGC
* * * *
16011488 TTTCGCGAATTTAGTGGCGTTTCTTAATAAAGCGCCGCTAATGATGAGGGC-
65 TTTCGCGGATTTAGTGGCGTTT-TTAGT-AAGCGCCGCTAATGCTCA-GGCT
* * * * ** *
16011539 TTTAGCGGCATTTTTGAGGAAGCGCCGCAAAATAAACTAAGCCCAACGACACTATTTTCTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAATAAACTAAACCCAACGACGCCGTTTCCTGAGCT
* * *
16011604 TTTGCGGCTTTAGTGGCGTTTTTAGGGAAGCGCCGCTAA
66 TTCGCGGATTTAGTGGCGTTTTTA-GTAAGCGCCGCTAA
16011643 AAGCCCTGAG
Statistics
Matches: 497, Mismatches: 53, Indels: 21
0.87 0.09 0.04
Matches are distributed among these distances:
113 33 0.07
114 342 0.69
115 122 0.25
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.29
Consensus pattern (113 bp):
TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAATAAACTAAACCCAACGACGCCGTTTCCTGAGCT
TTCGCGGATTTAGTGGCGTTTTTAGTAAGCGCCGCTAATGCTCAGGCT
Found at i:16011866 original size:23 final size:23
Alignment explanation
Indices: 16011840--16011886 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
16011830 TATGGTTTAA
* *
16011840 GGTTTAGGTGTTAGAGGGTTAGG
1 GGTTTAGGGGTTAGACGGTTAGG
*
16011863 GGTTTAGGGGTTAGACGTTTAGG
1 GGTTTAGGGGTTAGACGGTTAGG
16011886 G
1 G
16011887 TTAAGAGCTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.17, C:0.02, G:0.47, T:0.34
Consensus pattern (23 bp):
GGTTTAGGGGTTAGACGGTTAGG
Found at i:16012164 original size:7 final size:7
Alignment explanation
Indices: 16012154--16012200 Score: 58
Period size: 7 Copynumber: 6.4 Consensus size: 7
16012144 GATTTAAGGT
16012154 TTAGGGG
1 TTAGGGG
16012161 TTAGGGG
1 TTAGGGG
16012168 TTTAGGGG
1 -TTAGGGG
16012176 TTTAGGGG
1 -TTAGGGG
**
16012184 TTAGACG
1 TTAGGGG
16012191 TTAGGGG
1 TTAGGGG
16012198 TTA
1 TTA
16012201 AGAGTTAAGG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
7 20 0.57
8 15 0.43
ACGTcount: A:0.17, C:0.02, G:0.47, T:0.34
Consensus pattern (7 bp):
TTAGGGG
Found at i:16012171 original size:15 final size:15
Alignment explanation
Indices: 16012151--16012199 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
16012141 TGGGATTTAA
16012151 GGTTTAGGGGTTAGG
1 GGTTTAGGGGTTAGG
16012166 GGTTTAGGGGTTTAGG
1 GGTTTAGGGG-TTAGG
**
16012182 GG-TTAGACGTTAGG
1 GGTTTAGGGGTTAGG
16012196 GGTT
1 GGTT
16012200 AAGAGTTAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
14 7 0.23
15 16 0.53
16 7 0.23
ACGTcount: A:0.14, C:0.02, G:0.49, T:0.35
Consensus pattern (15 bp):
GGTTTAGGGGTTAGG
Found at i:16012172 original size:8 final size:8
Alignment explanation
Indices: 16012151--16012185 Score: 63
Period size: 8 Copynumber: 4.5 Consensus size: 8
16012141 TGGGATTTAA
16012151 GGTTTAGG
1 GGTTTAGG
16012159 GG-TTAGG
1 GGTTTAGG
16012166 GGTTTAGG
1 GGTTTAGG
16012174 GGTTTAGG
1 GGTTTAGG
16012182 GGTT
1 GGTT
16012186 AGACGTTAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 7 0.27
8 19 0.73
ACGTcount: A:0.11, C:0.00, G:0.51, T:0.37
Consensus pattern (8 bp):
GGTTTAGG
Found at i:16012794 original size:106 final size:105
Alignment explanation
Indices: 16012606--16012975 Score: 546
Period size: 106 Copynumber: 3.5 Consensus size: 105
16012596 TAAATAAATT
* * * * *
16012606 ATAAAAAATTATT-TACATAGCAAAACGGCGCCCTTTTTTTATCAAAATGAAATAGCGGCGTTTT
1 ATAAAAAATT-TTGTGCATAGCAAAACGGCG-TCATTTTGT-TCAAAATGAAATTGCGGCGTTTT
* * *
16012670 TCATTAAAACGCCACAAAAAGTAAATCAATTTATAAAAAACAAA
63 TC-TAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAACAAA
* *
16012714 ATAAAAAATTTTGTGCATAGCAAAACGGCGTCATTTTGTTCAAATTGAAGTTGCGGCGTTTTGTC
1 ATAAAAAATTTTGTGCATAGCAAAACGGCGTCATTTTGTTCAAAATGAAATTGCGGCGTTTT-TC
16012779 TAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAACAAA
65 TAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAACAAA
* *
16012820 ATAAAAAATTTTGTGCATAGCAAAACGGCGTCATTTCGTTCAAATTGAAATTGCGGCGTTTTTCC
1 ATAAAAAATTTTGTGCATAGCAAAACGGCGTCATTTTGTTCAAAATGAAATTGCGGCGTTTTT-C
* *
16012885 TACAAACGCTGCAAAAAATAAATCAATTTA-AAAAAACAAA
65 TAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAACAAA
16012925 ATAAAAAATTTTGTGCATAGCAAAACGGCGTCATTTTGTTCAAAATGAAAT
1 ATAAAAAATTTTGTGCATAGCAAAACGGCGTCATTTTGTTCAAAATGAAAT
16012976 AATATTTTGC
Statistics
Matches: 243, Mismatches: 16, Indels: 9
0.91 0.06 0.03
Matches are distributed among these distances:
105 60 0.25
106 147 0.60
107 10 0.04
108 26 0.11
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.28
Consensus pattern (105 bp):
ATAAAAAATTTTGTGCATAGCAAAACGGCGTCATTTTGTTCAAAATGAAATTGCGGCGTTTTTCT
AAAAACGCCGCAAAAAATAAATCAATTTATAAAAAACAAA
Found at i:16013370 original size:99 final size:104
Alignment explanation
Indices: 16013120--16013371 Score: 304
Period size: 99 Copynumber: 2.5 Consensus size: 104
16013110 TGAAATAGCG
* *
16013120 GCGTTTTTCGTAAAAACGCCGCAAAAAAGTAAATCAATTTATAAAAAACAAAATAACAAAATTTT
1 GCGTTTTACATAAAAACGCCGCAAAAAA-TAAATCAATTTATAAAAAACAAAATAACAAAATTTT
16013185 GTGCATAGAAAAACGGCGTCATTTGGTCAAATTGAAGTTGCA
65 GTGCATAGAAAAACGGCGTCA-TTGG-CAAATTGAAGTTGCA
* *
16013227 GCGTTTTCCCTAAAAACGCCGCAAAAAATAAATCAATTTA-AAAAAACAAAATAA-AAAATTTTG
1 GCGTTTTACATAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAACAAAATAACAAAATTTTG
* ** **
16013290 TGCATAGCAAAACGGCGT-A-T-G-AAATAAT-ATTTTGTG
66 TGCATAGAAAAACGGCGTCATTGGCAAAT--TGAAGTTGCA
* *
16013326 GCGTTTTATATAAAAACGCCGCAAAAAATAAAT-AAGTTATAAAAAA
1 GCGTTTTACATAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAA
16013372 TTATTTGCAT
Statistics
Matches: 131, Mismatches: 11, Indels: 14
0.84 0.07 0.09
Matches are distributed among these distances:
98 9 0.07
99 40 0.31
100 2 0.02
101 1 0.01
103 1 0.01
104 26 0.20
105 14 0.11
106 12 0.09
107 26 0.20
ACGTcount: A:0.47, C:0.13, G:0.14, T:0.26
Consensus pattern (104 bp):
GCGTTTTACATAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAACAAAATAACAAAATTTTG
TGCATAGAAAAACGGCGTCATTGGCAAATTGAAGTTGCA
Found at i:16016323 original size:23 final size:23
Alignment explanation
Indices: 16016293--16016346 Score: 101
Period size: 23 Copynumber: 2.4 Consensus size: 23
16016283 CTAGGTCCAA
16016293 CTATTGAATCATTAGTTTTGATT
1 CTATTGAATCATTAGTTTTGATT
16016316 CTATTGAATCATTAGTTTTGATT
1 CTATTGAATCATTAGTTTTGATT
16016339 CTA-TGAAT
1 CTATTGAAT
16016347 GATTTTGAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 5 0.16
23 26 0.84
ACGTcount: A:0.28, C:0.09, G:0.13, T:0.50
Consensus pattern (23 bp):
CTATTGAATCATTAGTTTTGATT
Found at i:16017961 original size:30 final size:32
Alignment explanation
Indices: 16017918--16017982 Score: 89
Period size: 30 Copynumber: 2.1 Consensus size: 32
16017908 TATAACTTGC
* *
16017918 ATAATTTACATAACTTATAAATTTTTA-ATAT
1 ATAACTTACATAACTTATAAATATTTATATAT
*
16017949 ATAACTTA-ATAACTTATTAATATTTATATAT
1 ATAACTTACATAACTTATAAATATTTATATAT
16017980 ATA
1 ATA
16017983 TTAAAAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
30 16 0.53
31 14 0.47
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (32 bp):
ATAACTTACATAACTTATAAATATTTATATAT
Found at i:16017968 original size:23 final size:22
Alignment explanation
Indices: 16017927--16017971 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
16017917 CATAATTTAC
*
16017927 ATAACTTATAAATTTTTAATAT
1 ATAACTTATAAATTATTAATAT
*
16017949 ATAACTTAATAACTTATTAATAT
1 ATAACTT-ATAAATTATTAATAT
16017972 TTATATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (22 bp):
ATAACTTATAAATTATTAATAT
Found at i:16018014 original size:20 final size:20
Alignment explanation
Indices: 16017949--16018033 Score: 72
Period size: 20 Copynumber: 4.4 Consensus size: 20
16017939 TTTTTAATAT
16017949 ATAACTTA-ATA-ACTTATTA
1 ATAACTTATATATACTT-TTA
* *
16017968 AT-ATTTATATATA-TATTA
1 ATAACTTATATATACTTTTA
* *
16017986 AAAATTTATATATACTTTTA
1 ATAACTTATATATACTTTTA
*
16018006 ATAACTTATATATAAC-TTTC
1 ATAACTTATATAT-ACTTTTA
16018026 ATAACTTA
1 ATAACTTA
16018034 CATAATAACA
Statistics
Matches: 54, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
18 8 0.15
19 17 0.31
20 27 0.50
21 2 0.04
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (20 bp):
ATAACTTATATATACTTTTA
Found at i:16018031 original size:9 final size:9
Alignment explanation
Indices: 16018017--16018720 Score: 143
Period size: 9 Copynumber: 80.9 Consensus size: 9
16018007 TAACTTATAT
*
16018017 ATAACTTTC
1 ATAACTTAC
16018026 ATAACTTAC
1 ATAACTTAC
*
16018035 ATAA-TAAC
1 ATAACTTAC
16018043 ATAATAACTTAC
1 ---ATAACTTAC
16018055 ATAA--TAC
1 ATAACTTAC
*
16018062 ATAGCTTAC
1 ATAACTTAC
** *
16018071 ACGACTTGC
1 ATAACTTAC
16018080 ATAA--TAC
1 ATAACTTAC
*
16018087 ACAACTTAC
1 ATAACTTAC
*
16018096 ATAAATTAC
1 ATAACTTAC
16018105 ATAA--TAC
1 ATAACTTAC
*
16018112 ATAACTTTC
1 ATAACTTAC
16018121 ATAACTTAC
1 ATAACTTAC
*
16018130 ATAATAACTTAA
1 ---ATAACTTAC
*
16018142 ATAAATTAC
1 ATAACTTAC
16018151 ATAA--TAC
1 ATAACTTAC
**
16018158 AT-TTTTA-
1 ATAACTTAC
* *
16018165 ATCACTTAT
1 ATAACTTAC
*
16018174 ATAAAACTTTC
1 AT--AACTTAC
16018185 ATAACTTAC
1 ATAACTTAC
16018194 ATAA--TAC
1 ATAACTTAC
*
16018201 ATAACCTAC
1 ATAACTTAC
* *
16018210 ATGACTTGC
1 ATAACTTAC
16018219 ATAA--TAC
1 ATAACTTAC
* *
16018226 ACAACTTGC
1 ATAACTTAC
*
16018235 ATAAATTAC
1 ATAACTTAC
16018244 ATAA--TAC
1 ATAACTTAC
**
16018251 AT-TTTTA-
1 ATAACTTAC
* *
16018258 AAAACTTATAT
1 ATAAC-T-TAC
*
16018269 ATAACTTTC
1 ATAACTTAC
16018278 ATAACTTAC
1 ATAACTTAC
*
16018287 ATAA-TAAC
1 ATAACTTAC
16018295 ATAATAACTTAC
1 ---ATAACTTAC
16018307 ATAA--TAC
1 ATAACTTAC
* *
16018314 ATAGCCTAC
1 ATAACTTAC
* **
16018323 ATGACTTGT
1 ATAACTTAC
16018332 ATAA--TAC
1 ATAACTTAC
*
16018339 ACAACTTAC
1 ATAACTTAC
*
16018348 ATAAATTAC
1 ATAACTTAC
16018357 ATAA--TAC
1 ATAACTTAC
*
16018364 ATAACTTTC
1 ATAACTTAC
16018373 ATAACTTAC
1 ATAACTTAC
*
16018382 ATTA--TAC
1 ATAACTTAC
*
16018389 ATAACTTAT
1 ATAACTTAC
*
16018398 A-AATCATATC
1 ATAA-CTTA-C
16018408 ATAACTTAC
1 ATAACTTAC
16018417 ATAAC-T-C
1 ATAACTTAC
*
16018424 A-AATTTATC
1 ATAACTTA-C
*
16018433 A-ATCATGT-C
1 ATAAC-T-TAC
* *
16018442 ATAGCTTATAT
1 ATAAC-T-TAC
16018453 ATACACTTAC
1 ATA-ACTTAC
16018463 ATAA--TAC
1 ATAACTTAC
*
16018470 ATAACTTAAATA
1 ATAACTT--A-C
*
16018482 ATAACCTAC
1 ATAACTTAC
16018491 ATAACTTAC
1 ATAACTTAC
*
16018500 ATAGAAACTTAT
1 AT---AACTTAC
*
16018512 ATAGAAACTTGC
1 AT---AACTTAC
*
16018524 ATAGCTTACC
1 ATAACTTA-C
*
16018534 A-CACTTA-
1 ATAACTTAC
* *
16018541 AAAACTTAG
1 ATAACTTAC
16018550 ATAA--TAC
1 ATAACTTAC
* *
16018557 ATAGCCTAC
1 ATAACTTAC
*
16018566 ATAACTTAT
1 ATAACTTAC
16018575 ATAACTTAC
1 ATAACTTAC
16018584 ATAA--TAC
1 ATAACTTAC
**
16018591 ACCACTTAC
1 ATAACTTAC
16018600 AT-A---A-
1 ATAACTTAC
*
16018604 ATAACTTGC
1 ATAACTTAC
16018613 ATAA--TAC
1 ATAACTTAC
* *
16018620 ATAGCCTAC
1 ATAACTTAC
16018629 ATAACTTAC
1 ATAACTTAC
*
16018638 TTAACTTAC
1 ATAACTTAC
16018647 ATAA--TAC
1 ATAACTTAC
**
16018654 ACCACTTAC
1 ATAACTTAC
*
16018663 ATAACTTAA
1 ATAACTTAC
16018672 ATAACTTAC
1 ATAACTTAC
16018681 ATAA--TAC
1 ATAACTTAC
*
16018688 TTAACTTTA-
1 ATAAC-TTAC
16018697 ATAA--TAC
1 ATAACTTAC
*
16018704 ACAACTTAC
1 ATAACTTAC
16018713 ATAACTTA
1 ATAACTTA
16018721 ATTACATTAT
Statistics
Matches: 499, Mismatches: 114, Indels: 164
0.64 0.15 0.21
Matches are distributed among these distances:
4 2 0.00
5 2 0.00
6 4 0.01
7 106 0.21
8 22 0.04
9 276 0.55
10 22 0.04
11 26 0.05
12 39 0.08
ACGTcount: A:0.45, C:0.19, G:0.03, T:0.33
Consensus pattern (9 bp):
ATAACTTAC
Found at i:16018049 original size:20 final size:20
Alignment explanation
Indices: 16018004--16018064 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 20
16017994 TATATACTTT
* *
16018004 TAATAACTTATAT-ATAACTT
1 TAATAACTTACATAATAAC-A
*
16018024 TCATAACTTACATAATAACA
1 TAATAACTTACATAATAACA
16018044 TAATAACTTACATAAT-ACA
1 TAATAACTTACATAATAACA
16018063 TA
1 TA
16018065 GCTTACACGA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
19 5 0.14
20 26 0.72
21 5 0.14
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (20 bp):
TAATAACTTACATAATAACA
Found at i:16018082 original size:25 final size:25
Alignment explanation
Indices: 16018048--16018135 Score: 104
Period size: 25 Copynumber: 3.5 Consensus size: 25
16018038 ATAACATAAT
*
16018048 AACTTACATAATACATAGCTTACAC
1 AACTTACATAATACATAACTTACAC
* * * *
16018073 GACTTGCATAATACACAACTTACAT
1 AACTTACATAATACATAACTTACAC
* * *
16018098 AAATTACATAATACATAACTTTCAT
1 AACTTACATAATACATAACTTACAC
16018123 AACTTACATAATA
1 AACTTACATAATA
16018136 ACTTAAATAA
Statistics
Matches: 52, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 52 1.00
ACGTcount: A:0.45, C:0.20, G:0.03, T:0.31
Consensus pattern (25 bp):
AACTTACATAATACATAACTTACAC
Found at i:16018107 original size:50 final size:48
Alignment explanation
Indices: 16018046--16018252 Score: 187
Period size: 50 Copynumber: 4.4 Consensus size: 48
16018036 TAATAACATA
* *
16018046 ATAACTTACATAATACATAGCTTACACGACTTGCATAATACACAACTTAC
1 ATAAATTACATAATACATAACTTACACGACTTGCATAATA-A-AACTTAC
* ** * *
16018096 ATAAATTACATAATACATAACTTTCATAACTTACATAAT--AACTTAA
1 ATAAATTACATAATACATAACTTACACGACTTGCATAATAAAACTTAC
** *
16018142 ATAAATTACATAATACAT-TTTTA-ATC-ACTT--AT-ATAAAACTTTC
1 ATAAATTACATAATACATAACTTACA-CGACTTGCATAATAAAACTTAC
* * * *
16018185 ATAACTTACATAATACATAACCTACATGACTTGCATAATACACAACTTGC
1 ATAAATTACATAATACATAACTTACACGACTTGCATAATA-A-AACTTAC
16018235 ATAAATTACATAATACAT
1 ATAAATTACATAATACAT
16018253 TTTTAAAAAC
Statistics
Matches: 126, Mismatches: 20, Indels: 22
0.75 0.12 0.13
Matches are distributed among these distances:
41 2 0.02
42 2 0.02
43 22 0.17
44 7 0.06
45 7 0.06
46 24 0.19
47 2 0.02
48 3 0.02
49 1 0.01
50 56 0.44
ACGTcount: A:0.45, C:0.19, G:0.03, T:0.33
Consensus pattern (48 bp):
ATAAATTACATAATACATAACTTACACGACTTGCATAATAAAACTTAC
Found at i:16018216 original size:25 final size:25
Alignment explanation
Indices: 16018184--16018393 Score: 129
Period size: 25 Copynumber: 8.9 Consensus size: 25
16018174 ATAAAACTTT
16018184 CATAACTTACATAATACATAACCTA
1 CATAACTTACATAATACATAACCTA
* * * * *
16018209 CATGACTTGCATAATACACAACTTG
1 CATAACTTACATAATACATAACCTA
* ***
16018234 CATAAATTACATAATACAT-TTTTA
1 CATAACTTACATAATACATAACCTA
* * *
16018258 -AAAACTT--AT-AT--ATAACTTT
1 CATAACTTACATAATACATAACCTA
*
16018277 CATAACTTAC---ATA-ATAACATA
1 CATAACTTACATAATACATAACCTA
*
16018298 -ATAACTTACATAATACATAGCCTA
1 CATAACTTACATAATACATAACCTA
* ** * *
16018322 CATGACTTGTATAATACACAACTTA
1 CATAACTTACATAATACATAACCTA
* * *
16018347 CATAAATTACATAATACATAACTTT
1 CATAACTTACATAATACATAACCTA
*
16018372 CATAACTTACATTATACATAAC
1 CATAACTTACATAATACATAAC
16018394 TTATAAATCA
Statistics
Matches: 139, Mismatches: 36, Indels: 20
0.71 0.18 0.10
Matches are distributed among these distances:
18 2 0.01
19 2 0.01
20 19 0.14
21 8 0.06
23 8 0.06
24 8 0.06
25 92 0.66
ACGTcount: A:0.45, C:0.19, G:0.03, T:0.33
Consensus pattern (25 bp):
CATAACTTACATAATACATAACCTA
Found at i:16018265 original size:93 final size:89
Alignment explanation
Indices: 16018025--16018298 Score: 280
Period size: 93 Copynumber: 3.0 Consensus size: 89
16018015 ATATAACTTT
* * ** **
16018025 CATAACTTACATAATAACAT-AATAACTTACATAATACATAGCTTACACGACTTGCATAATACAC
1 CATAACTTACATAATAACTTAAATAAATTACATAATACAT-TTTTA-AAAACTT--AT-ATA-A-
* * * *
16018089 AACTTACATAAATTACATAATACATAACTTT
59 AACTTTCATAACTTACATAATACATAACCTA
**
16018120 CATAACTTACATAATAACTTAAATAAATTACATAATACATTTTTAATCACTTATATAAAACTTTC
1 CATAACTTACATAATAACTTAAATAAATTACATAATACATTTTTAAAAACTTATATAAAACTTTC
16018185 ATAACTTACATAATACATAACCTA
66 ATAACTTACATAATACATAACCTA
* * ** *
16018209 CATGACTTGCATAATACACAACTTGCATAAATTACATAATACATTTTTAAAAACTTATATATAAC
1 CATAACTTACATAAT----AACTTAAATAAATTACATAATACATTTTTAAAAACTTATATAAAAC
16018274 TTTCATAACTTACATAATAACATAA
62 TTTCATAACTTACATAAT-ACATAA
16018299 TAACTTACAT
Statistics
Matches: 156, Mismatches: 17, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
89 40 0.26
90 1 0.01
91 3 0.02
92 2 0.01
93 59 0.38
94 11 0.07
95 22 0.14
96 18 0.12
ACGTcount: A:0.46, C:0.18, G:0.02, T:0.34
Consensus pattern (89 bp):
CATAACTTACATAATAACTTAAATAAATTACATAATACATTTTTAAAAACTTATATAAAACTTTC
ATAACTTACATAATACATAACCTA
Found at i:16018301 original size:20 final size:19
Alignment explanation
Indices: 16018278--16018316 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
16018268 TATAACTTTC
16018278 ATAACTTACATAATAACATA
1 ATAACTTACATAAT-ACATA
16018298 ATAACTTACATAATACATA
1 ATAACTTACATAATACATA
16018317 GCCTACATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (19 bp):
ATAACTTACATAATACATA
Found at i:16018411 original size:113 final size:112
Alignment explanation
Indices: 16018185--16018420 Score: 309
Period size: 113 Copynumber: 2.1 Consensus size: 112
16018175 TAAAACTTTC
*
16018185 ATAACTTACATAATACATAACCTACATGACTTGCATAATACACAACTTGCATAAATTACATAATA
1 ATAACTTACATAATACATAACCTACATGACTTGCATAATACACAACTTACATAAATTACATAATA
* * *
16018250 CATTTTTAAAAACTTATATATAACTTTCATAACTTACATAATAACATA
66 CATCTTTAAAAACTTACATATAAC-TACATAACTTACATAATAACATA
* *
16018298 ATAACTTACATAATACATAGCCTACATGACTTGTATAATACACAACTTACATAAATTACATAATA
1 ATAACTTACATAATACATAACCTACATGACTTGCATAATACACAACTTACATAAATTACATAATA
* * * * * *
16018363 CATAACTTTCATAACTTACAT-T-A-TACATAACTTATA-AATCATATC
66 CAT--CTTTAAAAACTTACATATAACTACATAACTTACATAATAACATA
16018408 ATAACTTACATAA
1 ATAACTTACATAA
16018421 CTCAAATTTA
Statistics
Matches: 109, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
110 19 0.17
111 11 0.10
113 66 0.61
114 1 0.01
115 12 0.11
ACGTcount: A:0.46, C:0.18, G:0.03, T:0.33
Consensus pattern (112 bp):
ATAACTTACATAATACATAACCTACATGACTTGCATAATACACAACTTACATAAATTACATAATA
CATCTTTAAAAACTTACATATAACTACATAACTTACATAATAACATA
Found at i:16018508 original size:12 final size:12
Alignment explanation
Indices: 16018493--16018527 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
16018483 TAACCTACAT
16018493 AACTTACATAGA
1 AACTTACATAGA
*
16018505 AACTTATATAGA
1 AACTTACATAGA
*
16018517 AACTTGCATAG
1 AACTTACATAG
16018528 CTTACCACAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.29
Consensus pattern (12 bp):
AACTTACATAGA
Found at i:16018588 original size:34 final size:33
Alignment explanation
Indices: 16018536--16018687 Score: 161
Period size: 34 Copynumber: 4.7 Consensus size: 33
16018526 AGCTTACCAC
*
16018536 ACTTAAA-AACTTAGATAATACATAGCCTACATA
1 ACTTAAATAACTTACATAATACATA-CCTACATA
* *
16018569 ACTTATATAACTTACATAATAC--ACC-AC-TT
1 ACTTAAATAACTTACATAATACATACCTACATA
* *
16018598 ACATAAATAACTTGCATAATACATAGCCTACATA
1 ACTTAAATAACTTACATAATACATA-CCTACATA
** * *
16018632 ACTTACTTAACTTACATAATACACCACTTACATA
1 ACTTAAATAACTTACATAATACA-TACCTACATA
16018666 ACTTAAATAACTTACATAATAC
1 ACTTAAATAACTTACATAATAC
16018688 TTAACTTTAA
Statistics
Matches: 97, Mismatches: 15, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
29 20 0.21
30 2 0.02
31 3 0.03
32 3 0.03
33 8 0.08
34 60 0.62
35 1 0.01
ACGTcount: A:0.45, C:0.22, G:0.03, T:0.30
Consensus pattern (33 bp):
ACTTAAATAACTTACATAATACATACCTACATA
Found at i:16018599 original size:16 final size:16
Alignment explanation
Indices: 16018577--16018716 Score: 90
Period size: 16 Copynumber: 8.7 Consensus size: 16
16018567 TAACTTATAT
16018577 AACTTACATAATACAC
1 AACTTACATAATACAC
* *
16018593 CACTTACAT-A-A-AT
1 AACTTACATAATACAC
* *
16018606 AACTTGCATAATACAT
1 AACTTACATAATACAC
* * **
16018622 AGCCTACATAACTTACTT
1 AACTTACATAA--TACAC
16018640 AACTTACATAATACAC
1 AACTTACATAATACAC
* * *
16018656 CACTTACATAACTTAAAT
1 AACTTACATAA--TACAC
**
16018674 AACTTACATAATACTT
1 AACTTACATAATACAC
16018690 AACTTTA-ATAATACAC
1 AAC-TTACATAATACAC
16018706 AACTTACATAA
1 AACTTACATAA
16018717 CTTAATTACA
Statistics
Matches: 95, Mismatches: 20, Indels: 18
0.71 0.15 0.14
Matches are distributed among these distances:
13 8 0.08
14 2 0.02
15 5 0.05
16 51 0.54
17 3 0.03
18 26 0.27
ACGTcount: A:0.46, C:0.22, G:0.01, T:0.31
Consensus pattern (16 bp):
AACTTACATAATACAC
Found at i:16018654 original size:25 final size:24
Alignment explanation
Indices: 16018626--16018722 Score: 90
Period size: 25 Copynumber: 3.9 Consensus size: 24
16018616 ATACATAGCC
* *
16018626 TACATAACTTACTTAACTTACATAA
1 TACACAACTTACATAACTTA-ATAA
*
16018651 TACACCACTTACATAACTTAAATAA
1 TACACAACTTACATAACTT-AATAA
* *
16018676 CTTACATAA--TACTTAACTTTAATAA
1 --TACACAACTTACATAAC-TTAATAA
16018701 TACACAACTTACATAACTTAAT
1 TACACAACTTACATAACTTAAT
16018723 TACATTATAC
Statistics
Matches: 58, Mismatches: 8, Indels: 13
0.73 0.10 0.16
Matches are distributed among these distances:
23 6 0.10
24 5 0.09
25 39 0.67
26 3 0.05
27 5 0.09
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.34
Consensus pattern (24 bp):
TACACAACTTACATAACTTAATAA
Found at i:16020484 original size:21 final size:21
Alignment explanation
Indices: 16020459--16020508 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
16020449 CTGCAGCTTA
*
16020459 AAGCAGATGCGGCAGCGAGAG
1 AAGCAGAGGCGGCAGCGAGAG
* *
16020480 AAGCAGAGGCTGCAGCGAGGG
1 AAGCAGAGGCGGCAGCGAGAG
16020501 AAGCAGAG
1 AAGCAGAG
16020509 CAGCATAGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.34, C:0.18, G:0.44, T:0.04
Consensus pattern (21 bp):
AAGCAGAGGCGGCAGCGAGAG
Found at i:16023314 original size:46 final size:46
Alignment explanation
Indices: 16023247--16023362 Score: 173
Period size: 46 Copynumber: 2.5 Consensus size: 46
16023237 GGTGTAGCAG
* *
16023247 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCA
1 CTTATTACTTTGTCACTTGATCAGATAACTGTAGCTAAAGCTACCA
16023293 CTTATTACTTTGTCACTTGATCAGATAACTGTAGCTAAAGCTACCA
1 CTTATTACTTTGTCACTTGATCAGATAACTGTAGCTAAAGCTACCA
* *
16023339 CTT-TTCACTTTTTCA-ATGATCAGA
1 CTTATT-ACTTTGTCACTTGATCAGA
16023363 AGTACTCAAA
Statistics
Matches: 65, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
45 10 0.15
46 55 0.85
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.36
Consensus pattern (46 bp):
CTTATTACTTTGTCACTTGATCAGATAACTGTAGCTAAAGCTACCA
Found at i:16026224 original size:19 final size:19
Alignment explanation
Indices: 16026208--16026246 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 19
16026198 TTTTTAAATA
16026208 ATATTGATAAATTTAAAAC
1 ATATTGATAAATTTAAAAC
16026227 ATATTGATAACAATTTAAAA
1 ATATTGAT-A-AATTTAAAA
16026247 AATGTATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 8 0.44
20 1 0.06
21 9 0.50
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.36
Consensus pattern (19 bp):
ATATTGATAAATTTAAAAC
Found at i:16026254 original size:23 final size:19
Alignment explanation
Indices: 16026200--16026249 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 19
16026190 TATATGTATT
*
16026200 TTTAAATAATATTGATAAA
1 TTTAAAAAATATTGATAAA
*
16026219 TTTAAAACATATTGATAACAA
1 TTTAAAAAATATTGAT-A-AA
16026240 TTTAAAAAAT
1 TTTAAAAAAT
16026250 GTATTATTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 14 0.54
20 1 0.04
21 11 0.42
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.38
Consensus pattern (19 bp):
TTTAAAAAATATTGATAAA
Found at i:16028854 original size:50 final size:50
Alignment explanation
Indices: 16028738--16028930 Score: 287
Period size: 50 Copynumber: 3.8 Consensus size: 50
16028728 GATAATAACA
* ** * *
16028738 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * *
16028789 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
16028839 TGTCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
16028889 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
16028931 TTACCCAAAT
Statistics
Matches: 127, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
50 94 0.74
51 33 0.26
ACGTcount: A:0.20, C:0.30, G:0.23, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:16029046 original size:13 final size:13
Alignment explanation
Indices: 16029025--16029055 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
16029015 GCTTAGATCA
*
16029025 TCATCAAATAAAT
1 TCATAAAATAAAT
16029038 TCATAAAATAAAT
1 TCATAAAATAAAT
16029051 TCATA
1 TCATA
16029056 GTTGCTGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:16030065 original size:46 final size:46
Alignment explanation
Indices: 16029956--16030370 Score: 482
Period size: 46 Copynumber: 9.5 Consensus size: 46
16029946 TACATATGAT
*
16029956 CACTTATCACTTGTC-C-C-TGATCAGATAAGTGTAGCT-AGACTAC
1 CACTTATCACTT-TCTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* * * *
16029999 TACTTATCACTTTGTCACTTGATCAGATAAGGGTAGCTAAGGGTAC
1 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
*
16030045 CACTTATCACTTTCTCACTTGATCAGATAAGAGTAGCTAAGGCTAC
1 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
*
16030091 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAA
1 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
*
16030137 CACTTATCACTTTGTCACTTGATCAGATAA--GTA--T-A-G----
1 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* *
16030173 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* * * *
16030219 CGCTTATCACTTTGTCTCTTGATTAGATAA--GT-G-T-A-G----
1 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* *
16030255 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAATGCTAC
1 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* *
16030301 CACTTATCATTTTCTCACTTGATCAGATAAGTGTAGCTAATGCTAC
1 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
*
16030347 CACTTATCACTTTATCACTTGATC
1 CACTTATCACTTTCTCACTTGATC
16030371 GAGAAGTACT
Statistics
Matches: 323, Mismatches: 25, Indels: 45
0.82 0.06 0.11
Matches are distributed among these distances:
36 55 0.17
38 5 0.02
39 1 0.00
40 4 0.01
41 4 0.01
42 5 0.02
43 13 0.04
44 6 0.02
45 18 0.06
46 212 0.66
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
Found at i:16030178 original size:36 final size:36
Alignment explanation
Indices: 16030137--16030291 Score: 166
Period size: 36 Copynumber: 4.0 Consensus size: 36
16030127 CTAAGGCTAA
16030137 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
*
16030173 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAG
1 CACTTATCACTTTGTCACTTGATCAGATAA--GTA--T--AG
* * *
16030215 CTACCGCTTATCACTTTGTCTCTTGATTAGATAAGTGTAG
1 C-A---CTTATCACTTTGTCACTTGATCAGATAAGTATAG
* *
16030255 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
16030291 C
1 C
16030292 TAATGCTACC
Statistics
Matches: 101, Mismatches: 8, Indels: 20
0.78 0.06 0.16
Matches are distributed among these distances:
36 61 0.60
38 3 0.03
39 1 0.01
40 4 0.04
42 4 0.04
43 1 0.01
44 2 0.02
46 25 0.25
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.37
Consensus pattern (36 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
Found at i:16030185 original size:82 final size:82
Alignment explanation
Indices: 16030091--16030337 Score: 404
Period size: 82 Copynumber: 3.0 Consensus size: 82
16030081 CTAAGGCTAC
* * *
16030091 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAACACTTATCACTTTGTCACT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
*
16030156 TGATCAGATAAGTATAG
66 TGATCAGATAAGTGTAG
* *
16030173 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCGCTTATCACTTTGTCTCT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
*
16030238 TGATTAGATAAGTGTAG
66 TGATCAGATAAGTGTAG
* * *
16030255 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAATGCTACCACTTATCATTTTCTCACT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
16030320 TGATCAGATAAGTGTAG
66 TGATCAGATAAGTGTAG
16030337 C
1 C
16030338 TAATGCTACC
Statistics
Matches: 152, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
82 152 1.00
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.36
Consensus pattern (82 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
TGATCAGATAAGTGTAG
Found at i:16030185 original size:128 final size:123
Alignment explanation
Indices: 16030000--16030370 Score: 419
Period size: 128 Copynumber: 2.9 Consensus size: 123
16029990 CTAGACTACT
*
16030000 ACTTATCACTTTGTCACTTGATCAGATAAGGGTAGCTAAGGGTACCACTTATCACTTTCTCACTT
1 ACTTATCACTTTGTCACTTGATCAGATAA-GGTA-CTAA---TGCCACTTATCACTTTCTCACTT
* * *
16030065 GATCAGATAAGAGTAGCTAAGGCTACCACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTA
61 GATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACTTGATCAGATAA--GT-G-T-
16030130 AGGCTAAC
121 A-G----C
*
16030138 ACTTATCACTTTGTCACTTGATCAGATAA-GTA-T-A-G-CACTTATCACTTTTTCACTTGATCA
1 ACTTATCACTTTGTCACTTGATCAGATAAGGTACTAATGCCACTTATCACTTTCTCACTTGATCA
* * * *
16030198 GATAAGTGTAGCTAAAGCTACCGCTTATCACTTTGTCTCTTGATTAGATAAGTGTAGC
66 GATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACTTGATCAGATAAGTGTAGC
* *
16030256 ACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAATGCTACCACTTATCATTTTCTCACTT
1 ACTTATCACTTTGTCACTTGATCAGATAAG-GTA-CTAATG---CCACTTATCACTTTCTCACTT
*
16030321 GATCAGATAAGTGTAGCTAATGCTACCACTTATCACTTTATCACTTGATC
61 GATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACTTGATC
16030371 GAGAAGTACT
Statistics
Matches: 207, Mismatches: 16, Indels: 30
0.82 0.06 0.12
Matches are distributed among these distances:
118 29 0.14
120 3 0.01
122 2 0.01
123 2 0.01
124 2 0.01
125 1 0.00
126 2 0.01
128 132 0.64
133 1 0.00
134 1 0.00
136 3 0.01
138 29 0.14
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (123 bp):
ACTTATCACTTTGTCACTTGATCAGATAAGGTACTAATGCCACTTATCACTTTCTCACTTGATCA
GATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACTTGATCAGATAAGTGTAGC
Found at i:16032138 original size:11 final size:10
Alignment explanation
Indices: 16032113--16032137 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
16032103 TAAAAAAATT
16032113 AAAAATTAAA
1 AAAAATTAAA
16032123 AAAAATTAAA
1 AAAAATTAAA
16032133 AAAAA
1 AAAAA
16032138 AACAAAATGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (10 bp):
AAAAATTAAA
Found at i:16032144 original size:17 final size:17
Alignment explanation
Indices: 16032104--16032145 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
16032094 ATAAATATTT
*
16032104 AAAAAAATTAAAAATTA
1 AAAAAAATTAAAAATAA
16032121 AAAAAAATTAAAAA-AA
1 AAAAAAATTAAAAATAA
16032137 AAACAAAAT
1 AAA-AAAAT
16032146 GGACTAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 4 0.17
17 19 0.83
ACGTcount: A:0.81, C:0.02, G:0.00, T:0.17
Consensus pattern (17 bp):
AAAAAAATTAAAAATAA
Found at i:16032546 original size:18 final size:17
Alignment explanation
Indices: 16032519--16032559 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
16032509 AATCGAATGG
16032519 AAAAAA-AAAAGAAAAT
1 AAAAAATAAAAGAAAAT
*
16032535 AAGAAAATAAAATAAAAT
1 AA-AAAATAAAAGAAAAT
16032553 AAAAAAT
1 AAAAAAT
16032560 TTCTGGTGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 2 0.09
17 9 0.41
18 11 0.50
ACGTcount: A:0.83, C:0.00, G:0.05, T:0.12
Consensus pattern (17 bp):
AAAAAATAAAAGAAAAT
Found at i:16033136 original size:44 final size:44
Alignment explanation
Indices: 16033062--16033149 Score: 131
Period size: 44 Copynumber: 2.0 Consensus size: 44
16033052 TTAGGGTTTT
* *
16033062 TCTGCTTAACTTTGTAGTGTTGGGCCAGGAACCGTTTTGGGCCG
1 TCTGCTTAACTTTGTAATGTTGGACCAGGAACCGTTTTGGGCCG
* * *
16033106 TCTGTTTAACTTTGTAATGTTGGACTAGGAACTGTTTTGGGCCG
1 TCTGCTTAACTTTGTAATGTTGGACCAGGAACCGTTTTGGGCCG
16033150 ATTGGGCCTT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.16, C:0.17, G:0.30, T:0.38
Consensus pattern (44 bp):
TCTGCTTAACTTTGTAATGTTGGACCAGGAACCGTTTTGGGCCG
Found at i:16038411 original size:31 final size:31
Alignment explanation
Indices: 16038376--16038458 Score: 94
Period size: 35 Copynumber: 2.5 Consensus size: 31
16038366 ATATTGTTTC
* *
16038376 AAATTTTTTTTAGTTAATGTTTTTAATTAAT
1 AAATTTTTTTTAATTAATCTTTTTAATTAAT
*
16038407 AAATTTTTTATTTTTAATTCATCTTTTTAATTAAT
1 AAA---TTT-TTTTTAATTAATCTTTTTAATTAAT
*
16038442 AAATTTTTATTAATTAA
1 AAATTTTTTTTAATTAA
16038459 AAATATGAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
31 12 0.28
32 3 0.07
34 3 0.07
35 25 0.58
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.60
Consensus pattern (31 bp):
AAATTTTTTTTAATTAATCTTTTTAATTAAT
Found at i:16038456 original size:18 final size:18
Alignment explanation
Indices: 16038398--16038462 Score: 64
Period size: 17 Copynumber: 3.7 Consensus size: 18
16038388 GTTAATGTTT
16038398 TTAATTAATAAATTTTTTA
1 TTAATTAATAAA-TTTTTA
* ** *
16038417 TT-TTTAATTCATCTTT-
1 TTAATTAATAAATTTTTA
16038433 TTAATTAATAAATTTTTA
1 TTAATTAATAAATTTTTA
16038451 TTAATTAA-AAAT
1 TTAATTAATAAAT
16038463 ATGAATTAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
16 2 0.06
17 18 0.50
18 14 0.39
19 2 0.06
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (18 bp):
TTAATTAATAAATTTTTA
Found at i:16046368 original size:15 final size:15
Alignment explanation
Indices: 16046350--16046384 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
16046340 AGAAAACAAG
16046350 GAAGAAGAGAAGAAA
1 GAAGAAGAGAAGAAA
*
16046365 GAAGCAGAGAAGAAA
1 GAAGAAGAGAAGAAA
*
16046380 CAAGA
1 GAAGA
16046385 TGCAGGAGAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.63, C:0.06, G:0.31, T:0.00
Consensus pattern (15 bp):
GAAGAAGAGAAGAAA
Found at i:16046402 original size:18 final size:17
Alignment explanation
Indices: 16046355--16046404 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 17
16046345 ACAAGGAAGA
16046355 AGAGAAGAAAGAAGCAG
1 AGAGAAGAAAGAAGCAG
*
16046372 AGAAGAA-ACAAGATGCAGG
1 AG-AGAAGA-AAGAAGCA-G
16046391 AGAGAAGAAAGAAG
1 AGAGAAGAAAGAAG
16046405 AAGATCAAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
17 3 0.11
18 20 0.74
19 4 0.15
ACGTcount: A:0.58, C:0.06, G:0.34, T:0.02
Consensus pattern (17 bp):
AGAGAAGAAAGAAGCAG
Found at i:16047041 original size:69 final size:69
Alignment explanation
Indices: 16046930--16047070 Score: 273
Period size: 69 Copynumber: 2.0 Consensus size: 69
16046920 AAAGAAGGTG
*
16046930 TAATGTCCACGACCATGAGAGAGGTGCAGGAAAATTAAGAAGTGACCATTGTAATTTTACATTTA
1 TAATGTCCACGACCATGAGAGAGGTGCAGGAAAATTAAGAAGTGACCATTGCAATTTTACATTTA
16046995 CTTT
66 CTTT
16046999 TAATGTCCACGACCATGAGAGAGGTGCAGGAAAATTAAGAAGTGACCATTGCAATTTTACATTTA
1 TAATGTCCACGACCATGAGAGAGGTGCAGGAAAATTAAGAAGTGACCATTGCAATTTTACATTTA
16047064 CTTT
66 CTTT
16047068 TAA
1 TAA
16047071 CAAATAACTA
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 71 1.00
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (69 bp):
TAATGTCCACGACCATGAGAGAGGTGCAGGAAAATTAAGAAGTGACCATTGCAATTTTACATTTA
CTTT
Found at i:16047503 original size:18 final size:18
Alignment explanation
Indices: 16047480--16047516 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
16047470 ATGCTGGAAA
16047480 AATGAGGCTAATTAAGAC
1 AATGAGGCTAATTAAGAC
*
16047498 AATGAGGCTAGTTAAGAC
1 AATGAGGCTAATTAAGAC
16047516 A
1 A
16047517 TGATCGATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.43, C:0.11, G:0.24, T:0.22
Consensus pattern (18 bp):
AATGAGGCTAATTAAGAC
Found at i:16050264 original size:16 final size:18
Alignment explanation
Indices: 16050234--16050267 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
16050224 TGCATATTTG
16050234 TTTTATATTTAAATAATT
1 TTTTATATTTAAATAATT
16050252 TTTTA-ATTT-AATAATT
1 TTTTATATTTAAATAATT
16050268 CTAAATGTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TTTTATATTTAAATAATT
Found at i:16051257 original size:15 final size:16
Alignment explanation
Indices: 16051234--16051267 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
16051224 CAACGAATTT
16051234 AATAAAAT-AATTTTA
1 AATAAAATAAATTTTA
*
16051249 AATATAATAAATTTTA
1 AATAAAATAAATTTTA
16051265 AAT
1 AAT
16051268 TTTAAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
AATAAAATAAATTTTA
Found at i:16068735 original size:31 final size:31
Alignment explanation
Indices: 16068654--16068724 Score: 97
Period size: 31 Copynumber: 2.3 Consensus size: 31
16068644 CCTAAAGCGG
* * **
16068654 GAACAGTTGCCTAATCTAGGTCCCCGTGTAA
1 GAACAATTGCCTAATTTAGGTCCCAATGTAA
*
16068685 GAACAATTGCCTAATTTAGGTCCCAATGTGA
1 GAACAATTGCCTAATTTAGGTCCCAATGTAA
16068716 GAACAATTG
1 GAACAATTG
16068725 TCAAGTTTAG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (31 bp):
GAACAATTGCCTAATTTAGGTCCCAATGTAA
Found at i:16073097 original size:40 final size:40
Alignment explanation
Indices: 16073050--16073127 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
16073040 TCACACCATG
* * *
16073050 TGGGGATAAAATTGACCCACCCATCCCTGCACACCATATA
1 TGGGGATAAAATCGACCCACCCAACCCTACACACCATATA
* *
16073090 TGGGGATATAATCGACCCATCCAACCCTACACACCATA
1 TGGGGATAAAATCGACCCACCCAACCCTACACACCATA
16073128 AGGTACCACA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.33, C:0.33, G:0.14, T:0.19
Consensus pattern (40 bp):
TGGGGATAAAATCGACCCACCCAACCCTACACACCATATA
Found at i:16074831 original size:16 final size:16
Alignment explanation
Indices: 16074812--16074845 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
16074802 AAATAAGTGT
16074812 TGTAATAGTTCTTCAA
1 TGTAATAGTTCTTCAA
*
16074828 TGTAATATTTCTTCAA
1 TGTAATAGTTCTTCAA
16074844 TG
1 TG
16074846 AAACAATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.47
Consensus pattern (16 bp):
TGTAATAGTTCTTCAA
Found at i:16074914 original size:18 final size:18
Alignment explanation
Indices: 16074891--16074926 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
16074881 GAGCAATAGA
*
16074891 GGAGCCACAAAATTAGTT
1 GGAGCCAAAAAATTAGTT
16074909 GGAGCCAAAAAATTAGTT
1 GGAGCCAAAAAATTAGTT
16074927 ATGTACTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.42, C:0.14, G:0.22, T:0.22
Consensus pattern (18 bp):
GGAGCCAAAAAATTAGTT
Found at i:16078663 original size:16 final size:18
Alignment explanation
Indices: 16078642--16078679 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
16078632 TTTTTTTTAG
16078642 ATTTTAAGA-TTA-TTTT
1 ATTTTAAGATTTATTTTT
*
16078658 ATTTTAATATTTATTTTT
1 ATTTTAAGATTTATTTTT
16078676 ATTT
1 ATTT
16078680 GAAAAGACAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 3 0.16
18 8 0.42
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (18 bp):
ATTTTAAGATTTATTTTT
Found at i:16081717 original size:26 final size:26
Alignment explanation
Indices: 16081678--16081759 Score: 137
Period size: 26 Copynumber: 3.2 Consensus size: 26
16081668 TGATACAAAT
* *
16081678 TGATAATAGATTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
16081704 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
16081730 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
16081756 TGAT
1 TGAT
16081760 GGGAATTTCA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:16085780 original size:3 final size:3
Alignment explanation
Indices: 16085772--16085809 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
16085762 AAATGATTAA
16085772 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
16085810 AACTAAAGTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:16087180 original size:76 final size:73
Alignment explanation
Indices: 16087073--16087319 Score: 234
Period size: 76 Copynumber: 3.3 Consensus size: 73
16087063 AAATCTACTA
* ** *
16087073 TCGGTTTATCTGTTTAGCGCTGGGT-TCAAATCTTTGTCGGTTAATTCAGCTAGTGTTGGGCACA
1 TCGGTTTATTTGACTAGCGCTGAGTGT-AAATCTTTGTCGGTTAATTC-GCTAGTGTTGGG-ACA
16087137 CATTTAATATCG
63 CATTTAATAT-G
*
16087149 TCGGTTTATTTGACTAGCGCTGAGTGTAAATCTTTGTCGGTTAATTTGGCTAGTGTTGGGAACAC
1 TCGGTTTATTTGACTAGCGCTGAGTGTAAATCTTTGTCGGTTAA-TTCGCTAGTGTTGGG-ACAC
*
16087214 ATTTAATATTT
64 ATTTAATA-TG
* * * * * * * *
16087225 TCGGTTTATTCGACTAGC-TTTAGATGCAAATCTTTGTCGATTTATTCGACTAGTGTAGGG-CGC
1 TCGGTTTATTTGACTAGCGCTGAG-TGTAAATCTTTGTCGGTTAATTCG-CTAGTGTTGGGACAC
*
16087288 ATCT-AT-TG
64 ATTTAATATG
*
16087296 TCGGTTTACTTGACTAGCGCTGAG
1 TCGGTTTATTTGACTAGCGCTGAG
16087320 CACAAATCTT
Statistics
Matches: 143, Mismatches: 22, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
71 17 0.12
72 3 0.02
73 2 0.01
74 5 0.03
75 6 0.04
76 106 0.74
77 4 0.03
ACGTcount: A:0.21, C:0.16, G:0.24, T:0.40
Consensus pattern (73 bp):
TCGGTTTATTTGACTAGCGCTGAGTGTAAATCTTTGTCGGTTAATTCGCTAGTGTTGGGACACAT
TTAATATG
Found at i:16087311 original size:35 final size:34
Alignment explanation
Indices: 16087254--16087504 Score: 110
Period size: 36 Copynumber: 7.1 Consensus size: 34
16087244 TTAGATGCAA
*
16087254 ATCTTTGTCGATTTA-TTCGACTAGTGTAGGGCGC
1 ATCTTTGTCGATTTACTT-GACTAGTGTAGGGCAC
* * *
16087288 ATCTATTGTCGGTTTACTTGACTAGCGCT-GAGCAC
1 ATCT-TTGTCGATTTACTTGACTAGTG-TAGGGCAC
* * * *
16087323 AAATCTTTATCGATTTATTTGACTAGTGCAAGGCAC
1 --ATCTTTGTCGATTTACTTGACTAGTGTAGGGCAC
* ** ** * *
16087359 ATCTATTGTCGGTTTACCCGACTAGCACTGGGCGCAA
1 ATCT-TTGTCGATTTACTTGACTAG-TGTAGG-GCAC
* * * * *
16087396 ATCTTTATCCATTTATTTGATTAGTGCAGGGCAC
1 ATCTTTGTCGATTTACTTGACTAGTGTAGGGCAC
* * * ** * *
16087430 ATCTACTATCGGTTTACCCGACTAGCGCTAGGCGCAA
1 ATCT-TTGTCGATTTACTTGACTAGTG-TAGG-GCAC
* * * *
16087467 ATCTTTATCAATTTATTTGACTAGTGCAGGGCAC
1 ATCTTTGTCGATTTACTTGACTAGTGTAGGGCAC
16087501 ATCT
1 ATCT
16087505 ACTGTCAGTT
Statistics
Matches: 152, Mismatches: 53, Indels: 24
0.66 0.23 0.10
Matches are distributed among these distances:
34 22 0.14
35 55 0.36
36 57 0.38
37 18 0.12
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.34
Consensus pattern (34 bp):
ATCTTTGTCGATTTACTTGACTAGTGTAGGGCAC
Found at i:16087326 original size:71 final size:71
Alignment explanation
Indices: 16087250--16087537 Score: 391
Period size: 71 Copynumber: 4.1 Consensus size: 71
16087240 AGCTTTAGAT
* * * * * **
16087250 GCAAATCTTTGTCGATTTATTCGACTAGTGTAGGGCGCATCTATTGTCGGTTTACTTGACTAGCG
1 GCAAATCTTTATCGATTTATTTGACTAGTGCAGGGCACATCTACTGTCGGTTTACCCGACTAGCG
16087315 CTGAGC
66 CTGAGC
* * * *
16087321 ACAAATCTTTATCGATTTATTTGACTAGTGCAAGGCACATCTATTGTCGGTTTACCCGACTAGCA
1 GCAAATCTTTATCGATTTATTTGACTAGTGCAGGGCACATCTACTGTCGGTTTACCCGACTAGCG
*
16087386 CTGGGC
66 CTGAGC
* * *
16087392 GCAAATCTTTATCCATTTATTTGATTAGTGCAGGGCACATCTACTATCGGTTTACCCGACTAGCG
1 GCAAATCTTTATCGATTTATTTGACTAGTGCAGGGCACATCTACTGTCGGTTTACCCGACTAGCG
16087457 CT-AGGC
66 CTGA-GC
* *
16087463 GCAAATCTTTATCAATTTATTTGACTAGTGCAGGGCACATCTACTGTCAGTTTA-CCGACTAGCG
1 GCAAATCTTTATCGATTTATTTGACTAGTGCAGGGCACATCTACTGTCGGTTTACCCGACTAGCG
*
16087527 CTGGGC
66 CTGAGC
16087533 GCAAA
1 GCAAA
16087538 AATTTGTTAC
Statistics
Matches: 192, Mismatches: 23, Indels: 5
0.87 0.10 0.02
Matches are distributed among these distances:
70 19 0.10
71 173 0.90
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.32
Consensus pattern (71 bp):
GCAAATCTTTATCGATTTATTTGACTAGTGCAGGGCACATCTACTGTCGGTTTACCCGACTAGCG
CTGAGC
Found at i:16092107 original size:25 final size:23
Alignment explanation
Indices: 16092071--16092126 Score: 62
Period size: 25 Copynumber: 2.4 Consensus size: 23
16092061 TTAACCCTAC
16092071 TTTTA-TATTATATATTGAAAAATTA
1 TTTTATTA-TATATATT--AAAATTA
*
16092096 TTTTATTATATATATTAATATTA
1 TTTTATTATATATATTAAAATTA
16092119 -TTTATTAT
1 TTTTATTAT
16092127 CTATTGTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
22 8 0.28
23 6 0.21
25 13 0.45
26 2 0.07
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (23 bp):
TTTTATTATATATATTAAAATTA
Found at i:16092264 original size:23 final size:24
Alignment explanation
Indices: 16092238--16092314 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 24
16092228 GTTTTTTACA
16092238 TATATACTTT-TATTATCTTATAT
1 TATATACTTTATATTATCTTATAT
*
16092261 TATAT-CTATTATATT-TCTTATTT
1 TATATACT-TTATATTATCTTATAT
* * *
16092284 CCTATATA-TTTAAATTATATTTTAT
1 --TATATACTTTATATTATCTTATAT
16092309 TATATA
1 TATATA
16092315 ACGTTTATTA
Statistics
Matches: 43, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
22 2 0.05
23 20 0.47
24 10 0.23
25 11 0.26
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (24 bp):
TATATACTTTATATTATCTTATAT
Found at i:16092885 original size:33 final size:31
Alignment explanation
Indices: 16092813--16092885 Score: 89
Period size: 30 Copynumber: 2.4 Consensus size: 31
16092803 ATTGATATTG
*
16092813 TATTATT-C-TTTTTGTATGTCATGCATTAT
1 TATTATTACTTTTTTGTATATCATGCATTAT
*
16092842 T-TTATTACTTTTTTGTATATCATGTATTATT
1 TATTATTACTTTTTTGTATATCATGCATTA-T
16092873 TAATTATTACTTT
1 T-ATTATTACTTT
16092886 GTATGTTTGT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
28 5 0.14
29 2 0.05
30 18 0.49
31 2 0.05
33 10 0.27
ACGTcount: A:0.23, C:0.08, G:0.07, T:0.62
Consensus pattern (31 bp):
TATTATTACTTTTTTGTATATCATGCATTAT
Found at i:16093655 original size:20 final size:21
Alignment explanation
Indices: 16093630--16093668 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
16093620 CTCCCGTTTT
*
16093630 CATTTTTTAAAA-TCGATTCC
1 CATTTTTCAAAACTCGATTCC
16093650 CATTTTTCAAAACTCGATT
1 CATTTTTCAAAACTCGATT
16093669 TGAAAATGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.31, C:0.21, G:0.05, T:0.44
Consensus pattern (21 bp):
CATTTTTCAAAACTCGATTCC
Found at i:16095405 original size:27 final size:23
Alignment explanation
Indices: 16095344--16095410 Score: 62
Period size: 25 Copynumber: 2.7 Consensus size: 23
16095334 TTAGTATTTA
16095344 ATTAATTTTTTAAATTTAAAAAT
1 ATTAATTTTTTAAATTTAAAAAT
16095367 ATTAATTCTTTTTATATATTTTAAATAAT
1 ATTAA-T-TTTTTA-A-A-TTTAAA-AAT
* *
16095396 TTTAATTTTTAAAAT
1 ATTAATTTTTTAAAT
16095411 GTTTTTATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 11
0.73 0.04 0.22
Matches are distributed among these distances:
23 5 0.14
24 2 0.06
25 7 0.19
26 2 0.06
27 6 0.17
28 7 0.19
29 7 0.19
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (23 bp):
ATTAATTTTTTAAATTTAAAAAT
Found at i:16095862 original size:2 final size:2
Alignment explanation
Indices: 16095857--16095886 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
16095847 ATTAAGTGTG
16095857 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
16095887 AGTATTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:16098638 original size:29 final size:28
Alignment explanation
Indices: 16098592--16098649 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 28
16098582 CCGAACATAT
16098592 TATGTTATAAAAATATTATATTAATTATA
1 TATGTTATAAAAATATTATA-TAATTATA
* *
16098621 TATGTTA-AATAATAATTATATATTTATA
1 TATGTTATAAAAAT-ATTATATAATTATA
16098649 T
1 T
16098650 TTATATTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 13 0.50
29 13 0.50
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (28 bp):
TATGTTATAAAAATATTATATAATTATA
Found at i:16101119 original size:3 final size:3
Alignment explanation
Indices: 16101058--16101100 Score: 52
Period size: 3 Copynumber: 14.3 Consensus size: 3
16101048 AATTTAGAAA
* *
16101058 TAT TAT TAT TAT TAT TAT TAT TAT TTT TGT TA- TAGT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT T
16101101 TTAAGACCTT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
2 2 0.06
3 31 0.89
4 2 0.06
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:16122276 original size:44 final size:44
Alignment explanation
Indices: 16122228--16122317 Score: 99
Period size: 44 Copynumber: 2.0 Consensus size: 44
16122218 ACTCATATCC
* * * *
16122228 TCAACTTGCCCCACTACAACTTCAGGGGGATAAGATTCGTGACT
1 TCAACCTGCCCCACTACAACTTCAGAGAGACAAGATTCGTGACT
*** * *
16122272 TCAACCTGCTTTACTGCAACTTCAGAGAGACAAGATTTGTGACT
1 TCAACCTGCCCCACTACAACTTCAGAGAGACAAGATTCGTGACT
16122316 TC
1 TC
16122318 GCTTCCATCT
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.28
Consensus pattern (44 bp):
TCAACCTGCCCCACTACAACTTCAGAGAGACAAGATTCGTGACT
Found at i:16122529 original size:44 final size:43
Alignment explanation
Indices: 16122480--16122635 Score: 168
Period size: 44 Copynumber: 3.6 Consensus size: 43
16122470 ATCTACTCTG
* * * *
16122480 CTGTAACCTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCA
1 CTGTAACCTCAGGGAGATAAGATCCTTT-CTTCAATCTGCTCCA
* * ** * * *
16122524 CTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCG
1 CTGTAACCTCAGGGAGATAAGATCCTTTCTTCAATCTGCTCCA
* **
16122567 CTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCA
1 CTGTAACCTCAGGGAGATAAGATC-CTTTCTTCAATCTGCTCCA
16122611 CTGTAACCTCAGGGAGATAAGATCC
1 CTGTAACCTCAGGGAGATAAGATCC
16122636 GAAGTTCTTT
Statistics
Matches: 91, Mismatches: 20, Indels: 3
0.80 0.18 0.03
Matches are distributed among these distances:
43 31 0.34
44 60 0.66
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (43 bp):
CTGTAACCTCAGGGAGATAAGATCCTTTCTTCAATCTGCTCCA
Found at i:16122584 original size:87 final size:87
Alignment explanation
Indices: 16122468--16122678 Score: 228
Period size: 87 Copynumber: 2.4 Consensus size: 87
16122458 AGACTCGATA
* * * * * * *
16122468 CGATCTACTCTGCTGTAACCTCAGAGAGATAAGATC-CTTTATTTTAATCCGCTCCACTGTAACT
1 CGATCTACTCCGCTGTAATCTCAGGGAGATAAGATCTC-TGACTTCAATCCGCTCCACTGTAACC
*
16122532 TCAGGGAGATAGGAT-AGTGTCTT
65 TCAGGGAGATAAGATCAGT-TCTT
* * *
16122555 CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCT
1 CGATCTACTCCGCTGTAATCTCAGGGAGATAAGATCTCTGACTTCAATCCGCTCCACTGTAACCT
16122620 CAGGGAGATAAGATCCGAAGTTCTT
66 CAGGGAGATAAGAT-C--AGTTCTT
* * * *
16122645 TGGTCTATTCCACTGTAATCTCAGGGAGATAAGA
1 CGATCTACTCCGCTGTAATCTCAGGGAGATAAGA
16122679 CCTGATGTGA
Statistics
Matches: 103, Mismatches: 16, Indels: 7
0.82 0.13 0.06
Matches are distributed among these distances:
87 66 0.64
88 1 0.01
90 33 0.32
91 3 0.03
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (87 bp):
CGATCTACTCCGCTGTAATCTCAGGGAGATAAGATCTCTGACTTCAATCCGCTCCACTGTAACCT
CAGGGAGATAAGATCAGTTCTT
Found at i:16144260 original size:18 final size:18
Alignment explanation
Indices: 16144171--16144261 Score: 128
Period size: 18 Copynumber: 5.1 Consensus size: 18
16144161 CGTTTACGGC
* *
16144171 ACTATTCACGTATACGGC
1 ACTATTCACGTATACAGT
16144189 ACTATTCACGTATACAGT
1 ACTATTCACGTATACAGT
* **
16144207 ACTATTCACGTATGCAAC
1 ACTATTCACGTATACAGT
16144225 ACTATTCACGTATACAGT
1 ACTATTCACGTATACAGT
*
16144243 ACTGTTCACGTATACAGT
1 ACTATTCACGTATACAGT
16144261 A
1 A
16144262 GTTGGGATTG
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 64 1.00
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.31
Consensus pattern (18 bp):
ACTATTCACGTATACAGT
Found at i:16151682 original size:6 final size:6
Alignment explanation
Indices: 16151671--16151698 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
16151661 TTAACGGAAC
16151671 AAGTTG AAGTTG AAGTTG AAGTTG AAGT
1 AAGTTG AAGTTG AAGTTG AAGTTG AAGT
16151699 CTAAGCCCGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.32, T:0.32
Consensus pattern (6 bp):
AAGTTG
Found at i:16162620 original size:5 final size:5
Alignment explanation
Indices: 16162610--16162651 Score: 75
Period size: 5 Copynumber: 8.4 Consensus size: 5
16162600 GACCTTTCAC
*
16162610 TAGTA TAGTA TAGTA TGGTA TAGTA TAGTA TAGTA TAGTA TA
1 TAGTA TAGTA TAGTA TAGTA TAGTA TAGTA TAGTA TAGTA TA
16162652 TGACAACTGA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 35 1.00
ACGTcount: A:0.38, C:0.00, G:0.21, T:0.40
Consensus pattern (5 bp):
TAGTA
Found at i:16166424 original size:40 final size:39
Alignment explanation
Indices: 16166354--16166488 Score: 121
Period size: 40 Copynumber: 3.4 Consensus size: 39
16166344 ACCAGTTTGG
* * *
16166354 CACCTAGTGCCTCATCGGATAATTCGAAGTAATAAATTGA
1 CACCCAGTGCCTCATCGGATAATCCAAAGT-ATAAATTGA
* * * * *
16166394 CACCTAGTGTCTCATCGGCTAAACCAAAG--TAAATTGG
1 CACCCAGTGCCTCATCGGATAATCCAAAGTATAAATTGA
* * *
16166431 CACCCAGTACCTCATCGAATTAATCCAAACTAGTAAATTGA
1 CACCCAGTGCCTCATCGGA-TAATCCAAAGTA-TAAATTGA
*
16166472 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
16166489 ACTCGAAGTC
Statistics
Matches: 75, Mismatches: 16, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
37 21 0.28
38 8 0.11
40 24 0.32
41 22 0.29
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (39 bp):
CACCCAGTGCCTCATCGGATAATCCAAAGTATAAATTGA
Found at i:16166791 original size:17 final size:17
Alignment explanation
Indices: 16166769--16166801 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
16166759 ATAAAAATTT
16166769 CAACAATTAATAACTAA
1 CAACAATTAATAACTAA
16166786 CAACAATTAATAACTA
1 CAACAATTAATAACTA
16166802 GCTTCGGATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.58, C:0.18, G:0.00, T:0.24
Consensus pattern (17 bp):
CAACAATTAATAACTAA
Found at i:16172412 original size:91 final size:92
Alignment explanation
Indices: 16172250--16172416 Score: 219
Period size: 91 Copynumber: 1.8 Consensus size: 92
16172240 ATTTAAGTCC
* * * * *
16172250 CTTTTTTTTTGTGCATTCAATTGAGCACTTCAACTTTTAAAATGCATCAAAAAGTCCCTCAAACT
1 CTTTTTTTTTGTCCACTCAATTGAGCACTTCAACTTTTAAAATGCATAAAAAAGACCCTCAAAAT
16172315 ACTTCAAAAAAAGCTTAAGGGCCCTTG
66 ACTTCAAAAAAAGCTTAAGGGCCCTTG
* * * * *
16172342 CTTTTTTTTT-TCCACTCAATTGGGCACTTGAACTTTTAACATGTATAAAAAAGACCCTTAAAAT
1 CTTTTTTTTTGTCCACTCAATTGAGCACTTCAACTTTTAAAATGCATAAAAAAGACCCTCAAAAT
**
16172406 TTTTCAAAAAA
66 ACTTCAAAAAA
16172417 GTAATTAAAC
Statistics
Matches: 63, Mismatches: 12, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
91 53 0.84
92 10 0.16
ACGTcount: A:0.34, C:0.20, G:0.10, T:0.36
Consensus pattern (92 bp):
CTTTTTTTTTGTCCACTCAATTGAGCACTTCAACTTTTAAAATGCATAAAAAAGACCCTCAAAAT
ACTTCAAAAAAAGCTTAAGGGCCCTTG
Found at i:16172484 original size:19 final size:19
Alignment explanation
Indices: 16172460--16172509 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
16172450 AAAATATAAA
16172460 TAATAATAAATAATAAATTT
1 TAATAA-AAATAATAAATTT
*
16172480 T-ATAAAAATTATTAAATTT
1 TAATAAAAA-TAATAAATTT
16172499 TAATAAAAATA
1 TAATAAAAATA
16172510 TAAGAAATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 3 0.11
19 16 0.59
20 8 0.30
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
TAATAAAAATAATAAATTT
Done.