Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr5
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: 39371879
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2227820 characters in sequence are not A, C, G, or T
File 28 of 103
Found at i:10490360 original size:26 final size:26
Alignment explanation
Indices: 10490286--10490361 Score: 73
Period size: 26 Copynumber: 2.8 Consensus size: 26
10490276 TTTTGGCTGA
* *
10490286 TTTTTTTCCTTTCTTCCTTTCCCGTTTC
1 TTTTTTT-CTTTCTTCCTCT-CCTTTTC
* *
10490314 TTTCTCTCTTTCTT-CTGCTCCTTTTC
1 TTTTTTTCTTTCTTCCT-CTCCTTTTC
*
10490340 TTTTTTTCTTCCTTCCTCTCCT
1 TTTTTTTCTTTCTTCCTCTCCT
10490362 CTAGCTGGCC
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
26 24 0.62
27 10 0.26
28 5 0.13
ACGTcount: A:0.00, C:0.34, G:0.03, T:0.63
Consensus pattern (26 bp):
TTTTTTTCTTTCTTCCTCTCCTTTTC
Found at i:10490402 original size:34 final size:34
Alignment explanation
Indices: 10490358--10490426 Score: 104
Period size: 34 Copynumber: 2.0 Consensus size: 34
10490348 TTCCTTCCTC
* *
10490358 TCCTCTAGCTGGCCTTCTTTCTCTCTTTT-TCTTT
1 TCCTCCAGCTGGCCTTCCTTCTCT-TTTTCTCTTT
10490392 TCCTCCAGCTGGCCTTCCTTCTCTTTTTCTCTTT
1 TCCTCCAGCTGGCCTTCCTTCTCTTTTTCTCTTT
10490426 T
1 T
10490427 TTTTTTCTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 4 0.12
34 28 0.88
ACGTcount: A:0.03, C:0.35, G:0.09, T:0.54
Consensus pattern (34 bp):
TCCTCCAGCTGGCCTTCCTTCTCTTTTTCTCTTT
Found at i:10490449 original size:13 final size:13
Alignment explanation
Indices: 10490405--10490453 Score: 50
Period size: 13 Copynumber: 3.9 Consensus size: 13
10490395 TCCAGCTGGC
10490405 CTTCCTTCTCTTT
1 CTTCCTTCTCTTT
10490418 -TTCTCTT-T-TTT
1 CTTC-CTTCTCTTT
* *
10490429 TTTTCTTCTCTTT
1 CTTCCTTCTCTTT
10490442 CTTCCTTCTCTT
1 CTTCCTTCTCTT
10490454 CCGACACTGC
Statistics
Matches: 29, Mismatches: 3, Indels: 8
0.73 0.08 0.20
Matches are distributed among these distances:
11 6 0.21
12 7 0.24
13 16 0.55
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (13 bp):
CTTCCTTCTCTTT
Found at i:10490531 original size:16 final size:15
Alignment explanation
Indices: 10490485--10490531 Score: 60
Period size: 16 Copynumber: 3.0 Consensus size: 15
10490475 TCTCTCTCTC
10490485 TTCTTCTTTTTTTCT
1 TTCTTCTTTTTTTCT
10490500 TTCCTT-TTTTTCTTCT
1 TT-CTTCTTTTT-TTCT
10490516 TTCTTCTTTCTTTTCT
1 TTCTTCTTT-TTTTCT
10490532 CTTTAATTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 10 0.36
16 16 0.57
17 2 0.07
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (15 bp):
TTCTTCTTTTTTTCT
Found at i:10490606 original size:15 final size:15
Alignment explanation
Indices: 10490583--10490613 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
10490573 CTTTTCAGAC
10490583 TTTTCTTCTTTCTTT
1 TTTTCTTCTTTCTTT
*
10490598 TTTTTTTCTTTCTTT
1 TTTTCTTCTTTCTTT
10490613 T
1 T
10490614 CTACTCTTGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (15 bp):
TTTTCTTCTTTCTTT
Found at i:10490810 original size:19 final size:20
Alignment explanation
Indices: 10490774--10490825 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
10490764 TTTTTATGAA
10490774 TATTATTA-TTACTATTAT-AT
1 TATTATTATTTA-T-TTATAAT
10490794 ATATTA-TATTTATTTATAAT
1 -TATTATTATTTATTTATAAT
10490814 TATTATTATTTA
1 TATTATTATTTA
10490826 ATTGTTATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
19 9 0.32
20 11 0.39
21 8 0.29
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (20 bp):
TATTATTATTTATTTATAAT
Found at i:10492873 original size:42 final size:43
Alignment explanation
Indices: 10492794--10492874 Score: 119
Period size: 42 Copynumber: 1.9 Consensus size: 43
10492784 TTGACTCGGC
*
10492794 TATGTGCGAGTAAAGAGTGCGCATAAGCCGATGATGACCCGAT
1 TATGTGCGAGTAAAGAGTGCGCATAACCCGATGATGACCCGAT
** *
10492837 TATGTGCGAGTAGGGAGTG-GCATAACCCGGTGATGACC
1 TATGTGCGAGTAAAGAGTGCGCATAACCCGATGATGACC
10492875 TAGCCATGTG
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
42 17 0.50
43 17 0.50
ACGTcount: A:0.27, C:0.19, G:0.33, T:0.21
Consensus pattern (43 bp):
TATGTGCGAGTAAAGAGTGCGCATAACCCGATGATGACCCGAT
Found at i:10499603 original size:30 final size:30
Alignment explanation
Indices: 10499568--10499624 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
10499558 ATATGGTTTT
10499568 AATGGGATTGTGATAACTACCCATTATTGG
1 AATGGGATTGTGATAACTACCCATTATTGG
* *
10499598 AATGGGATTGTGATAATTATCCATTAT
1 AATGGGATTGTGATAACTACCCATTAT
10499625 CTTTGAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.32, C:0.11, G:0.21, T:0.37
Consensus pattern (30 bp):
AATGGGATTGTGATAACTACCCATTATTGG
Found at i:10502854 original size:203 final size:203
Alignment explanation
Indices: 10502498--10502906 Score: 800
Period size: 203 Copynumber: 2.0 Consensus size: 203
10502488 TTTGAATAAA
10502498 CTAAGTGTATGAAAGAATACACCATGACACTTAGGCAAATTGTTAGAAAAATGATTGATGAATCT
1 CTAAGTGTATGAAAGAATACACCATGACACTTAGGCAAATTGTTAGAAAAATGATTGATGAATCT
10502563 TAAAGTTTGAAGTTTAAACGAAGATTTGATTTTATATTTGAGTTATATGAATGATTTGAAGTATT
66 TAAAGTTTGAAGTTTAAACGAAGATTTGATTTTATATTTGAGTTATATGAATGATTTGAAGTATT
*
10502628 TGTGTTAATGAAAATGAATTAATACTCCAAGAAGTGAAAACTAGAATCTGGGCATGATCTATTGA
131 TGTGTTAATGAAAATGAATTAATACTCCAAGAAGTGAAAACTAGAATCTGGGCATGATCTATCGA
10502693 TAGATGTG
196 TAGATGTG
10502701 CTAAGTGTATGAAAGAATACACCATGACACTTAGGCAAATTGTTAGAAAAATGATTGATGAATCT
1 CTAAGTGTATGAAAGAATACACCATGACACTTAGGCAAATTGTTAGAAAAATGATTGATGAATCT
10502766 TAAAGTTTGAAGTTTAAACGAAGATTTGATTTTATATTTGAGTTATATGAATGATTTGAAGTATT
66 TAAAGTTTGAAGTTTAAACGAAGATTTGATTTTATATTTGAGTTATATGAATGATTTGAAGTATT
*
10502831 TGTGTTAATGAAAATGGATTAATACTCCAAGAAGTGAAAACTAGAATCTGGGCATGATCTATCGA
131 TGTGTTAATGAAAATGAATTAATACTCCAAGAAGTGAAAACTAGAATCTGGGCATGATCTATCGA
10502896 TAGATGTG
196 TAGATGTG
10502904 CTA
1 CTA
10502907 CATCTATCAA
Statistics
Matches: 204, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
203 204 1.00
ACGTcount: A:0.38, C:0.08, G:0.20, T:0.34
Consensus pattern (203 bp):
CTAAGTGTATGAAAGAATACACCATGACACTTAGGCAAATTGTTAGAAAAATGATTGATGAATCT
TAAAGTTTGAAGTTTAAACGAAGATTTGATTTTATATTTGAGTTATATGAATGATTTGAAGTATT
TGTGTTAATGAAAATGAATTAATACTCCAAGAAGTGAAAACTAGAATCTGGGCATGATCTATCGA
TAGATGTG
Found at i:10507885 original size:43 final size:43
Alignment explanation
Indices: 10507837--10507959 Score: 131
Period size: 43 Copynumber: 2.9 Consensus size: 43
10507827 TTGTGTGGTA
* * *
10507837 ATGATGACCCAACTATGTGTGATGT-GGGAGTGCACATGAGCTG
1 ATGATGACCCAACTATGTG-CAAGTAGGGAGTGCACATAAGCTG
** *
10507880 ATGATGACCCGGCTATGTGCAAGTAGGGAGTGCGCATAAGCTG
1 ATGATGACCCAACTATGTGCAAGTAGGGAGTGCACATAAGCTG
** * * *
10507923 ATGATGACCCGGCCATGTGCGAGTAAGGAGTGCACAT
1 ATGATGACCCAACTATGTGCAAGTAGGGAGTGCACAT
10507960 GACGATGAAT
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
42 3 0.04
43 66 0.96
ACGTcount: A:0.26, C:0.19, G:0.33, T:0.22
Consensus pattern (43 bp):
ATGATGACCCAACTATGTGCAAGTAGGGAGTGCACATAAGCTG
Found at i:10511996 original size:36 final size:36
Alignment explanation
Indices: 10511948--10512022 Score: 105
Period size: 36 Copynumber: 2.1 Consensus size: 36
10511938 GGATTCTTGA
* * *
10511948 TTTTTAATGAGATCAAACGATAACCTTTACACTGAC
1 TTTTTAACGAGATCAAACGATAACCCTTACACTAAC
* *
10511984 TTTTTAACGAGATCAAGCGATAACCCTTATACTAAC
1 TTTTTAACGAGATCAAACGATAACCCTTACACTAAC
10512020 TTT
1 TTT
10512023 CAAGGCTAAG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.35, C:0.20, G:0.11, T:0.35
Consensus pattern (36 bp):
TTTTTAACGAGATCAAACGATAACCCTTACACTAAC
Found at i:10518173 original size:17 final size:17
Alignment explanation
Indices: 10518151--10518186 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
10518141 AAATATGAAT
10518151 TTATAAAATAAATGGAA
1 TTATAAAATAAATGGAA
*
10518168 TTATAAAATAAATTGAA
1 TTATAAAATAAATGGAA
10518185 TT
1 TT
10518187 TTTTATAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (17 bp):
TTATAAAATAAATGGAA
Found at i:10530809 original size:35 final size:34
Alignment explanation
Indices: 10530754--10530858 Score: 138
Period size: 34 Copynumber: 3.1 Consensus size: 34
10530744 TACTCAGCCA
* *
10530754 ATGTGCACTCTCTACACGCACAAGGCAATATCATC
1 ATGTGCACTCCCTACTCGCACAA-GCAATATCATC
* **
10530789 ATGTACACTCCCTACTCGCACACTCAATATCATC
1 ATGTGCACTCCCTACTCGCACAAGCAATATCATC
* *
10530823 GTGTGCACTCCCTACTCGCACAAGCAATACCATC
1 ATGTGCACTCCCTACTCGCACAAGCAATATCATC
10530857 AT
1 AT
10530859 CCACACTTTC
Statistics
Matches: 59, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
34 40 0.68
35 19 0.32
ACGTcount: A:0.30, C:0.35, G:0.11, T:0.24
Consensus pattern (34 bp):
ATGTGCACTCCCTACTCGCACAAGCAATATCATC
Found at i:10531983 original size:25 final size:25
Alignment explanation
Indices: 10531952--10532003 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
10531942 GTGTCATAGG
10531952 ATCATTCTCATCCATAACTTACATC
1 ATCATTCTCATCCATAACTTACATC
*
10531977 ATCATTCTCATCCATAACTTGCATC
1 ATCATTCTCATCCATAACTTACATC
10532002 AT
1 AT
10532004 AAAGTAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.31, C:0.31, G:0.02, T:0.37
Consensus pattern (25 bp):
ATCATTCTCATCCATAACTTACATC
Found at i:10532124 original size:84 final size:84
Alignment explanation
Indices: 10532014--10532167 Score: 218
Period size: 84 Copynumber: 1.8 Consensus size: 84
10532004 AAAGTAAAAA
* * *
10532014 TCATCCTCATGCATAGCCCATAGTGTATATGAAATTCTCAACACATATATCTCATGGCATACATA
1 TCATCCTCATGCATAGCCCATAGTGTACATGAAATTCTCAACACATACATCTCATAGCATACATA
10532079 TCATAGTTTATATAATAAT
66 TCATAGTTTATATAATAAT
* * * * * * *
10532098 TCATCCTCATGCTTAGCTCGTAGTGTACATGATATTCTCAACACATACATCTTATAGCATTCATT
1 TCATCCTCATGCATAGCCCATAGTGTACATGAAATTCTCAACACATACATCTCATAGCATACATA
10532163 TCATA
66 TCATA
10532168 TCTCATTTCA
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
84 60 1.00
ACGTcount: A:0.32, C:0.22, G:0.10, T:0.36
Consensus pattern (84 bp):
TCATCCTCATGCATAGCCCATAGTGTACATGAAATTCTCAACACATACATCTCATAGCATACATA
TCATAGTTTATATAATAAT
Found at i:10532186 original size:84 final size:84
Alignment explanation
Indices: 10532011--10532191 Score: 211
Period size: 84 Copynumber: 2.2 Consensus size: 84
10532001 CATAAAGTAA
* * *
10532011 AAATCATCCTCATGCATAGCCCATAGTGTATATGAAATTCTCAACACATATATCTCATGGCATAC
1 AAATCATCCTCATGCATAGCCCATAGTGTACATGAAATTCTCAACACATACATCTCATAGCATAC
*
10532076 ATATCATAGTTTATATAAT
66 ATATCATAGTTCATATAAT
* * * * * * *
10532095 AATTCATCCTCATGCTTAGCTCGTAGTGTACATGATATTCTCAACACATACATCTTATAGCATTC
1 AAATCATCCTCATGCATAGCCCATAGTGTACATGAAATTCTCAACACATACATCTCATAGCATAC
* * *
10532160 ATTTCATA-TCTCATTTCAT
66 ATATCATAGT-TCATATAAT
*
10532179 AAATCATCATCAT
1 AAATCATCCTCAT
10532192 AACATGGGAG
Statistics
Matches: 80, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
83 1 0.01
84 79 0.99
ACGTcount: A:0.34, C:0.22, G:0.08, T:0.36
Consensus pattern (84 bp):
AAATCATCCTCATGCATAGCCCATAGTGTACATGAAATTCTCAACACATACATCTCATAGCATAC
ATATCATAGTTCATATAAT
Found at i:10538630 original size:20 final size:19
Alignment explanation
Indices: 10538602--10538675 Score: 69
Period size: 20 Copynumber: 3.7 Consensus size: 19
10538592 AGTTGTTACT
*
10538602 TATCAATAGATGTGTCCATC
1 TATCGATAGATGTG-CCATC
10538622 TATCGATAGAT-TAGCCTATC
1 TATCGATAGATGT-GCC-ATC
* *
10538642 TATCGATAGATTATGAACATC
1 TATCGATAGA-TGTG-CCATC
10538663 TATCGATAGATGT
1 TATCGATAGATGT
10538676 TCTTTAGTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
19 3 0.07
20 26 0.57
21 15 0.33
22 2 0.04
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.35
Consensus pattern (19 bp):
TATCGATAGATGTGCCATC
Found at i:10542158 original size:32 final size:32
Alignment explanation
Indices: 10542117--10542183 Score: 134
Period size: 32 Copynumber: 2.1 Consensus size: 32
10542107 ATAGAACTTT
10542117 CTTTTACAGCTGTTTAATTCTGGGTGACTCTC
1 CTTTTACAGCTGTTTAATTCTGGGTGACTCTC
10542149 CTTTTACAGCTGTTTAATTCTGGGTGACTCTC
1 CTTTTACAGCTGTTTAATTCTGGGTGACTCTC
10542181 CTT
1 CTT
10542184 CTCTCTGAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.15, C:0.22, G:0.18, T:0.45
Consensus pattern (32 bp):
CTTTTACAGCTGTTTAATTCTGGGTGACTCTC
Found at i:10546042 original size:29 final size:30
Alignment explanation
Indices: 10545974--10546042 Score: 88
Period size: 29 Copynumber: 2.3 Consensus size: 30
10545964 GAATAACAAT
* *
10545974 ATTTATTTGATCTAAAATAAAAGTATAAGG
1 ATTTATTTGATCTAAAATAAAAGAATAAGA
*
10546004 ATTTGA-TTGATC-ATAATAAAAGAATAAGA
1 ATTT-ATTTGATCTAAAATAAAAGAATAAGA
10546033 ATTTATTTGA
1 ATTTATTTGA
10546043 CTTCTTTTGA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
28 1 0.03
29 22 0.65
30 10 0.29
31 1 0.03
ACGTcount: A:0.46, C:0.03, G:0.13, T:0.38
Consensus pattern (30 bp):
ATTTATTTGATCTAAAATAAAAGAATAAGA
Found at i:10555308 original size:19 final size:20
Alignment explanation
Indices: 10555284--10555323 Score: 73
Period size: 19 Copynumber: 2.0 Consensus size: 20
10555274 CCATTTGACT
10555284 TATTGGAGTATGATTT-AAG
1 TATTGGAGTATGATTTGAAG
10555303 TATTGGAGTATGATTTGAAG
1 TATTGGAGTATGATTTGAAG
10555323 T
1 T
10555324 TTAGAAGTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.30, C:0.00, G:0.28, T:0.42
Consensus pattern (20 bp):
TATTGGAGTATGATTTGAAG
Found at i:10558129 original size:21 final size:21
Alignment explanation
Indices: 10558104--10558153 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
10558094 AAGAATATAA
10558104 TCGACCCTAAGAACGATGTAG
1 TCGACCCTAAGAACGATGTAG
* ** *
10558125 TCGACCTTAAGAGTGTTGTAG
1 TCGACCCTAAGAACGATGTAG
10558146 TCGACCCT
1 TCGACCCT
10558154 CAAGTTTCAC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (21 bp):
TCGACCCTAAGAACGATGTAG
Found at i:10562017 original size:20 final size:20
Alignment explanation
Indices: 10561994--10562035 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
10561984 ATCTATGGAA
* * *
10561994 AGATGGCTAGATCTATCCAT
1 AGATGGCCAAATCTATCAAT
10562014 AGATGGCCAAATCTATCAAT
1 AGATGGCCAAATCTATCAAT
10562034 AG
1 AG
10562036 CTTAAATTAG
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:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (20 bp):
AGATGGCCAAATCTATCAAT
Found at i:10563573 original size:18 final size:18
Alignment explanation
Indices: 10563552--10563610 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
10563542 CCAACAACTT
10563552 AATTAAACAATTTTAATC
1 AATTAAACAATTTTAATC
** * *
10563570 AATTACGCCCAA--TGAATG
1 AATTA--AACAATTTTAATC
10563588 AATTAAACAATTTTAATC
1 AATTAAACAATTTTAATC
10563606 AATTA
1 AATTA
10563611 TGCCCAATGA
Statistics
Matches: 29, Mismatches: 8, Indels: 8
0.64 0.18 0.18
Matches are distributed among these distances:
16 3 0.10
18 23 0.79
20 3 0.10
ACGTcount: A:0.47, C:0.14, G:0.05, T:0.34
Consensus pattern (18 bp):
AATTAAACAATTTTAATC
Found at i:10563580 original size:36 final size:36
Alignment explanation
Indices: 10563534--10563678 Score: 152
Period size: 36 Copynumber: 4.1 Consensus size: 36
10563524 CCAATAAATT
10563534 AATTAAGCCCAACAACTTAATTAAACAATTTTAATC
1 AATTAAGCCCAACAACTTAATTAAACAATTTTAATC
* * *
10563570 AATTACGCCCAATGAA-TGAATTAAACAATTTTAATC
1 AATTAAGCCCAA-CAACTTAATTAAACAATTTTAATC
* ** * *
10563606 AATTATGCCCAATGACTTAATTAAATAA-TTTAATT
1 AATTAAGCCCAACAACTTAATTAAACAATTTTAATC
* * *
10563641 AATTAAGCTCAGCAAATTAATTAAA-ACATTTTAATC
1 AATTAAGCCCAACAACTTAATTAAACA-ATTTTAATC
10563677 AA
1 AA
10563679 GGACTTGTGA
Statistics
Matches: 89, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
34 1 0.01
35 27 0.30
36 59 0.66
37 2 0.02
ACGTcount: A:0.46, C:0.15, G:0.06, T:0.33
Consensus pattern (36 bp):
AATTAAGCCCAACAACTTAATTAAACAATTTTAATC
Found at i:10566096 original size:60 final size:60
Alignment explanation
Indices: 10565601--10566250 Score: 511
Period size: 60 Copynumber: 10.7 Consensus size: 60
10565591 TCATTTTTTT
* * *
10565601 TTAAATCGTAA-CTGTTTTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAGTTACAAAA-A
1 TTAAATCG-AACCTATTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAGTTTCAAAATA
* * * * * * *
10565660 -TATAATCGAACCTATTGTAAGATAGGTCGGGCCTAGATTTAGTTTAGAAATTTCAAAATT
1 TTA-AATCGAACCTATTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAGTTTCAAAATA
* * * ** * * *
10565720 TTAAAATCAAACTTGTTACGAGATAGGTCAAGCCTAGATTAAGTCTAGGAATTTCAAAATT
1 TT-AAATCGAACCTATTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAGTTTCAAAATA
* * * * * * *
10565781 TTAAAATCGAACCTGTTGTAAGATAGGTTGAGCTTAAATTAAGTCTAGGAGTTTTAAAATT
1 TT-AAATCGAACCTATTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAGTTTCAAAATA
* * ** * * * * *
10565842 TTATAATCGAACTTGTCATGAGATAGGTCGAGCTTAAATTAAGTTTAAGAGTTTTAAAATA
1 TTA-AATCGAACCTATTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAGTTTCAAAATA
* * * * * *
10565903 TTAAATTGAACCTATT-TGCAGATAAGTTGAGCCTAGATGAATTCTAAGAGTTTCAAAATA
1 TTAAATCGAACCTATTGTG-AGATAGGTCGAGCCTAGATTAAGTCTAGGAGTTTCAAAATA
* * * * * * *
10565963 TTAAATTGAACCTATTTTGAGATAATAAGTCAAGTCTAGAATTAAGTTTAGGAATTTCAAAATA
1 TTAAATCGAACCTATTGTGAG---ATAGGTCGAGCCTAG-ATTAAGTCTAGGAGTTTCAAAATA
* * * * * *
10566027 TTAAATCAAACCTATTGTGAGATAAGTCAAGCTTAGATTAAGTATAGGAGTTTTAAAATA
1 TTAAATCGAACCTATTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAGTTTCAAAATA
* * * * * *
10566087 TTAAATCAAACCAATTAT-ATTATAGGTCGAGCCTAGATTAAGTCTAGAAGTTTTAAAATA
1 TTAAATCGAACCTATTGTGA-GATAGGTCGAGCCTAGATTAAGTCTAGGAGTTTCAAAATA
* * * * * *
10566147 TTAAATCGAA-CTAGTTGTGAGATAGGCCAAACCTAGGTTAACTCTAAGAGTTTCAAAATA
1 TTAAATCGAACCTA-TTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAGTTTCAAAATA
* * * * * *
10566207 TTAAATCGAATCTGTTGTAAGATAGATTGAGCCTTGATTAAGTC
1 TTAAATCGAACCTATTGTGAGATAGGTCGAGCCTAGATTAAGTC
10566251 AAAAATTGTT
Statistics
Matches: 477, Mismatches: 98, Indels: 31
0.79 0.16 0.05
Matches are distributed among these distances:
58 4 0.01
59 48 0.10
60 206 0.43
61 169 0.35
62 1 0.00
63 12 0.03
64 37 0.08
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.34
Consensus pattern (60 bp):
TTAAATCGAACCTATTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAGTTTCAAAATA
Found at i:10566586 original size:4 final size:4
Alignment explanation
Indices: 10566577--10566627 Score: 52
Period size: 4 Copynumber: 12.8 Consensus size: 4
10566567 TTTAGAATAA
**
10566577 AAAT AAAT AAAAT TCAT AAAAT AAA- A-AT AAAT AAAT AAAT AAAT AAAT
1 AAAT AAAT -AAAT AAAT A-AAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
10566625 AAA
1 AAA
10566628 ACAAACAAAC
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
2 1 0.03
3 2 0.05
4 29 0.74
5 7 0.18
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:10566633 original size:4 final size:4
Alignment explanation
Indices: 10566626--10566652 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
10566616 TAAATAAATA
10566626 AAAC AAAC AAAC AAAC AAAC AAAC AAA
1 AAAC AAAC AAAC AAAC AAAC AAAC AAA
10566653 GTAAAATCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.22, G:0.00, T:0.00
Consensus pattern (4 bp):
AAAC
Found at i:10575960 original size:32 final size:33
Alignment explanation
Indices: 10575922--10576023 Score: 109
Period size: 32 Copynumber: 3.1 Consensus size: 33
10575912 AACCTTTAGT
10575922 AATGGTTTTTCATGGGATCAACCAAAACCCAA-
1 AATGGTTTTTCATGGGATCAACCAAAACCCAAC
* ** * *
10575954 AGTGGTTTTTCAAAGGCTCAACCACAACCTACAAC
1 AATGGTTTTTCATGGGATCAACCAAAACC--CAAC
*
10575989 AATGGTTTTT-ATCGGGATGAACCAAAACCCAAC
1 AATGGTTTTTCAT-GGGATCAACCAAAACCCAAC
10576022 AA
1 AA
10576024 CCAACTTTTC
Statistics
Matches: 55, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
32 24 0.44
33 6 0.11
34 4 0.07
35 21 0.38
ACGTcount: A:0.37, C:0.24, G:0.16, T:0.24
Consensus pattern (33 bp):
AATGGTTTTTCATGGGATCAACCAAAACCCAAC
Found at i:10580391 original size:19 final size:20
Alignment explanation
Indices: 10580367--10580404 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
10580357 CTATAAATAC
10580367 CTTGAATTTT-CAGCAGCTT
1 CTTGAATTTTCCAGCAGCTT
10580386 CTTGAATTTTCCAGCAGCT
1 CTTGAATTTTCCAGCAGCT
10580405 GGTCTTCTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.21, C:0.24, G:0.16, T:0.39
Consensus pattern (20 bp):
CTTGAATTTTCCAGCAGCTT
Found at i:10581278 original size:43 final size:43
Alignment explanation
Indices: 10581199--10581280 Score: 119
Period size: 43 Copynumber: 1.9 Consensus size: 43
10581189 TTGACTCGGC
* **
10581199 TATGTGCGAGTAGGGAGTGCACATAAGTCGAGGATGACCCGAT
1 TATGCGCGAGTAGGGAGTGCACATAACCCGAGGATGACCCGAT
* *
10581242 TATGCGCGAGTAGGGAGTGCGCATAACCCGATGATGACC
1 TATGCGCGAGTAGGGAGTGCACATAACCCGAGGATGACC
10581281 TAGCCATGTA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.27, C:0.20, G:0.34, T:0.20
Consensus pattern (43 bp):
TATGCGCGAGTAGGGAGTGCACATAACCCGAGGATGACCCGAT
Found at i:10581760 original size:39 final size:40
Alignment explanation
Indices: 10581684--10581769 Score: 138
Period size: 39 Copynumber: 2.2 Consensus size: 40
10581674 TGCATTCTCA
* * *
10581684 CTGCAGCGAGAAACTTTCTGTTTTCTGGGTTGCAATTTCG
1 CTGCAGCGAGAAACATTCTGATTTCTGGGTTGAAATTTCG
10581724 CTGCAGCGAGAAACATTCT-ATTTCTGGGTTGAAATTTCG
1 CTGCAGCGAGAAACATTCTGATTTCTGGGTTGAAATTTCG
10581763 CTGCAGC
1 CTGCAGC
10581770 AAGATTGAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
39 25 0.58
40 18 0.42
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.34
Consensus pattern (40 bp):
CTGCAGCGAGAAACATTCTGATTTCTGGGTTGAAATTTCG
Found at i:10583885 original size:2 final size:2
Alignment explanation
Indices: 10583868--10583911 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
10583858 CATATACATG
* *
10583868 TA TA TG TA TG TA 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 TA TA TA TA TA TA
10583910 TA
1 TA
10583912 NNNNNNNNNN
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10588859 original size:13 final size:13
Alignment explanation
Indices: 10588841--10588865 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10588831 TTCTAGAAAA
10588841 TTTATAAAATCAT
1 TTTATAAAATCAT
10588854 TTTATAAAATCA
1 TTTATAAAATCA
10588866 CAATTTCTCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:10594346 original size:36 final size:38
Alignment explanation
Indices: 10594264--10594362 Score: 112
Period size: 36 Copynumber: 2.7 Consensus size: 38
10594254 TTCCCCCGGC
* * *
10594264 TCATGTGCACTCCTACACCGCACATTACAATATCATCA
1 TCATGTGCACTCCCACACCGCACACTACAACATCATCA
* * *
10594302 TCAGGTGCACTCCCACACCGCAC-CT-CACCATCATCG
1 TCATGTGCACTCCCACACCGCACACTACAACATCATCA
* *
10594338 TCATGTGCACTTCCACACCACACAC
1 TCATGTGCACTCCCACACCGCACAC
10594363 GGCATATATC
Statistics
Matches: 51, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
36 28 0.55
37 2 0.04
38 21 0.41
ACGTcount: A:0.27, C:0.41, G:0.10, T:0.21
Consensus pattern (38 bp):
TCATGTGCACTCCCACACCGCACACTACAACATCATCA
Found at i:10605483 original size:2 final size:2
Alignment explanation
Indices: 10605476--10605524 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
10605466 CATATACATG
10605476 TA TA TA TA TA TA 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 TA TA TA TA TA TA
10605518 TA TA TA T
1 TA TA TA T
10605525 TGCATTAACA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:10606376 original size:2 final size:2
Alignment explanation
Indices: 10606371--10606415 Score: 54
Period size: 2 Copynumber: 22.5 Consensus size: 2
10606361 AAATCACAAA
** **
10606371 TG TG TG TG TG TG CA TG TG TG TG TG TG CA TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
10606413 TG T
1 TG T
10606416 ATGTAGTTCG
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.04, C:0.04, G:0.44, T:0.47
Consensus pattern (2 bp):
TG
Found at i:10606389 original size:14 final size:14
Alignment explanation
Indices: 10606370--10606410 Score: 82
Period size: 14 Copynumber: 2.9 Consensus size: 14
10606360 CAAATCACAA
10606370 ATGTGTGTGTGTGC
1 ATGTGTGTGTGTGC
10606384 ATGTGTGTGTGTGC
1 ATGTGTGTGTGTGC
10606398 ATGTGTGTGTGTG
1 ATGTGTGTGTGTG
10606411 TGTGTATGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.07, C:0.05, G:0.44, T:0.44
Consensus pattern (14 bp):
ATGTGTGTGTGTGC
Found at i:10610297 original size:15 final size:16
Alignment explanation
Indices: 10610277--10610307 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
10610267 GGTCATGAAT
10610277 AAAATCAAA-AATAAA
1 AAAATCAAACAATAAA
10610292 AAAATCAAACAATAAA
1 AAAATCAAACAATAAA
10610308 TTATGATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.77, C:0.10, G:0.00, T:0.13
Consensus pattern (16 bp):
AAAATCAAACAATAAA
Found at i:10611331 original size:17 final size:17
Alignment explanation
Indices: 10611309--10611343 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
10611299 TAGGGACTAA
*
10611309 ATTAAATAAAAATATAT
1 ATTAAACAAAAATATAT
10611326 ATTAAACAAAAATATAT
1 ATTAAACAAAAATATAT
10611343 A
1 A
10611344 GTGCATAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (17 bp):
ATTAAACAAAAATATAT
Found at i:10612107 original size:19 final size:20
Alignment explanation
Indices: 10612078--10612116 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
10612068 CTGAAATATT
10612078 AAATAAAATAAAAAAATAAA
1 AAATAAAATAAAAAAATAAA
*
10612098 AAAT-AAATAAAAAATTAAA
1 AAATAAAATAAAAAAATAAA
10612117 GGGGTGGAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (20 bp):
AAATAAAATAAAAAAATAAA
Found at i:10616730 original size:29 final size:29
Alignment explanation
Indices: 10616698--10616770 Score: 78
Period size: 30 Copynumber: 2.5 Consensus size: 29
10616688 AATTATTAAT
*
10616698 TATAAAATTTATTTAACT-TAAAATAAATA
1 TATAAAATTTATTTAAATGTAAAATAAA-A
* *
10616727 TATAAAAATTTAATTAAATGTAATATAAAA
1 TAT-AAAATTTATTTAAATGTAAAATAAAA
10616757 -ATAAATATTTATTT
1 TATAAA-ATTTATTT
10616771 TATTTTTTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
28 3 0.08
29 12 0.32
30 14 0.38
31 8 0.22
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (29 bp):
TATAAAATTTATTTAAATGTAAAATAAAA
Found at i:10618128 original size:12 final size:12
Alignment explanation
Indices: 10618088--10618129 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
10618078 ATATATACTA
*
10618088 AGAAAATAATTG
1 AGAAAAGAATTG
*
10618100 AGAGAAGAATTTG
1 AGAAAAGAA-TTG
10618113 -GAAAAGAATTG
1 AGAAAAGAATTG
10618124 AGAAAA
1 AGAAAA
10618130 AAACTTCTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
11 3 0.12
12 19 0.76
13 3 0.12
ACGTcount: A:0.57, C:0.00, G:0.24, T:0.19
Consensus pattern (12 bp):
AGAAAAGAATTG
Found at i:10622894 original size:43 final size:43
Alignment explanation
Indices: 10622846--10622964 Score: 141
Period size: 43 Copynumber: 2.8 Consensus size: 43
10622836 TAACCAGCTC
* **** *
10622846 ATGCGCACTCCCTACTTGCACATGGTTGGGTCATCAC-CGGGTT
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCATC-CTCGGCTT
10622889 ATGCGCACTCCCTACTCGCACATAACCGGGTCATCCTCGGCTT
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCATCCTCGGCTT
* * *
10622932 ATGCGCACTCCCTACTCTCACATAGCCGAGTCA
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCA
10622965 ATATAATTAC
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
42 1 0.02
43 65 0.98
ACGTcount: A:0.19, C:0.36, G:0.20, T:0.24
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCGCACATAACCGGGTCATCCTCGGCTT
Found at i:10642081 original size:43 final size:43
Alignment explanation
Indices: 10642033--10642202 Score: 223
Period size: 43 Copynumber: 4.0 Consensus size: 43
10642023 TGTGATAATT
* * *
10642033 ATGACCCAGCTATGTGCAGTGTAAGAGTGCACATGAGCTGATG
1 ATGACCCAGCCATGTGCGGTGTAGGAGTGCACATGAGCTGATG
*** * *
10642076 ATGACCCAGTTGTGTGCGGTGTAGGAGTGCACATGAGCTAATA
1 ATGACCCAGCCATGTGCGGTGTAGGAGTGCACATGAGCTGATG
* *
10642119 ATGACCCAACCATGTGCGGTGTAGGAGTGCGCATGAGCTGATG
1 ATGACCCAGCCATGTGCGGTGTAGGAGTGCACATGAGCTGATG
* * *
10642162 ATGACCCATCCATGTGCGGTGTGGGAGTGCACATAAGCTGA
1 ATGACCCAGCCATGTGCGGTGTAGGAGTGCACATGAGCTGA
10642203 GAGAGACTTG
Statistics
Matches: 110, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 110 1.00
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.23
Consensus pattern (43 bp):
ATGACCCAGCCATGTGCGGTGTAGGAGTGCACATGAGCTGATG
Found at i:10657908 original size:43 final size:43
Alignment explanation
Indices: 10657794--10657959 Score: 216
Period size: 43 Copynumber: 4.0 Consensus size: 43
10657784 TGTGATAATT
* * * *
10657794 ATGACCCAACTATGTGCGGTGTAGGGGTGCACATGAGTTGATG
1 ATGACCCAGCCATGTGCGGTGTAGGAGTGCACATGAGCTGATG
10657837 ATGA---A-CCATGTGCGGTGTAGGAGTGCACATGAGCTGATG
1 ATGACCCAGCCATGTGCGGTGTAGGAGTGCACATGAGCTGATG
*
10657876 ATGACCCAGCCATTTGCGGTGTAGGAGTGCACATGAGCTGATG
1 ATGACCCAGCCATGTGCGGTGTAGGAGTGCACATGAGCTGATG
* * *
10657919 ATGACCCAGCCATGTGCAGTGT-GGAATGGCACATAAGCTGA
1 ATGACCCAGCCATGTGCGGTGTAGGAGT-GCACATGAGCTGA
10657960 GAGAGACTTG
Statistics
Matches: 110, Mismatches: 8, Indels: 10
0.86 0.06 0.08
Matches are distributed among these distances:
39 35 0.32
40 1 0.01
42 5 0.05
43 69 0.63
ACGTcount: A:0.25, C:0.19, G:0.33, T:0.23
Consensus pattern (43 bp):
ATGACCCAGCCATGTGCGGTGTAGGAGTGCACATGAGCTGATG
Found at i:10674319 original size:17 final size:17
Alignment explanation
Indices: 10674289--10674325 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
10674279 AGCAAAATAT
10674289 GCACACACTAAGGGGGA
1 GCACACACTAAGGGGGA
* *
10674306 GCACATACTTAGGGGGA
1 GCACACACTAAGGGGGA
10674323 GCA
1 GCA
10674326 ATCCTCATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.32, C:0.22, G:0.35, T:0.11
Consensus pattern (17 bp):
GCACACACTAAGGGGGA
Found at i:10674793 original size:72 final size:73
Alignment explanation
Indices: 10674676--10674870 Score: 252
Period size: 72 Copynumber: 2.7 Consensus size: 73
10674666 ATTGAGAAAT
* ** * *
10674676 AGAACCGACTTAGTCGACCAAGATGTGAGTTAGTCGACTAAATGCTCTTTGCCAAAATCT-GGAC
1 AGAACCAACTTAGTCGACCAAGAAATGAGTTAGTTGACTAAATGCTCTCTGCCAAAATCTAGGAC
**
10674740 TTCAAGAC
66 CACAAGAC
* *
10674748 AGAACCAACTTAGTCGACCAAGAAATGAGTTAGTTGACTAAATGCTCTCTGCCAGAATCTATGAC
1 AGAACCAACTTAGTCGACCAAGAAATGAGTTAGTTGACTAAATGCTCTCTGCCAAAATCTAGGAC
*
10674813 CAGAAGAC
66 CACAAGAC
*
10674821 AGAACCAACTTAGTCGACCAAGAAGA-AAGTTAGTTGACTAAGA-GCTCTCT
1 AGAACCAACTTAGTCGACCAAGAA-ATGAGTTAGTTGACTAA-ATGCTCTCT
10674871 ATCTGCAATT
Statistics
Matches: 109, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
72 54 0.50
73 53 0.49
74 2 0.02
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23
Consensus pattern (73 bp):
AGAACCAACTTAGTCGACCAAGAAATGAGTTAGTTGACTAAATGCTCTCTGCCAAAATCTAGGAC
CACAAGAC
Found at i:10677053 original size:18 final size:18
Alignment explanation
Indices: 10677030--10677066 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
10677020 CCATTGAAGT
*
10677030 TCCATCAAATTGCGTTGA
1 TCCATCAAATTACGTTGA
10677048 TCCATCAAATTACGTTGA
1 TCCATCAAATTACGTTGA
10677066 T
1 T
10677067 TCACTTGAAA
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:0.30, C:0.22, G:0.14, T:0.35
Consensus pattern (18 bp):
TCCATCAAATTACGTTGA
Found at i:10687173 original size:26 final size:23
Alignment explanation
Indices: 10687137--10687184 Score: 60
Period size: 26 Copynumber: 2.0 Consensus size: 23
10687127 GTAGGCATTC
*
10687137 TAATTTTATTATAATAATAATATAAT
1 TAATTATATTA-AA-AAT-ATATAAT
10687163 TAATTATATTAAAAATATATAA
1 TAATTATATTAAAAATATATAA
10687185 AAATTAGGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 6 0.29
24 3 0.14
25 2 0.10
26 10 0.48
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (23 bp):
TAATTATATTAAAAATATATAAT
Found at i:10691879 original size:85 final size:85
Alignment explanation
Indices: 10691753--10691939 Score: 302
Period size: 85 Copynumber: 2.2 Consensus size: 85
10691743 ATTCCAATCA
* *
10691753 TTAATTCTAGCATATTACCAATAATTTTAATTGAAAATCCAAATAATAATTCTAAACATTAATTT
1 TTAATTCTAGCATATTACCAATAATTTTAATTGAAAATCCAAACAATAATTCTAAACATTAATTC
*
10691818 CCAAACATTACTCTTAATGT
66 CCAAACATAACTCTTAATGT
* * *
10691838 TTAATTCTAGCATATTGCCAATCATTTTAATTGAAAGTCCAAACAATAATTCTAAACATTAATTC
1 TTAATTCTAGCATATTACCAATAATTTTAATTGAAAATCCAAACAATAATTCTAAACATTAATTC
* *
10691903 CCAAACATAATTTTTAATGT
66 CCAAACATAACTCTTAATGT
10691923 TTAATTCTAGCATATTA
1 TTAATTCTAGCATATTA
10691940 AAATCCAAAC
Statistics
Matches: 93, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.41, C:0.16, G:0.05, T:0.39
Consensus pattern (85 bp):
TTAATTCTAGCATATTACCAATAATTTTAATTGAAAATCCAAACAATAATTCTAAACATTAATTC
CCAAACATAACTCTTAATGT
Found at i:10691980 original size:13 final size:13
Alignment explanation
Indices: 10691945--10691983 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
10691935 TATTAAAATC
10691945 CAAACAATAATTCT
1 CAAAC-ATAATTCT
*
10691959 C-ACCATAATTCT
1 CAAACATAATTCT
10691971 CAAACATAATTCT
1 CAAACATAATTCT
10691984 TACTGTTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 9 0.41
13 12 0.55
14 1 0.05
ACGTcount: A:0.44, C:0.26, G:0.00, T:0.31
Consensus pattern (13 bp):
CAAACATAATTCT
Found at i:10691980 original size:67 final size:68
Alignment explanation
Indices: 10691875--10692005 Score: 201
Period size: 67 Copynumber: 1.9 Consensus size: 68
10691865 TAATTGAAAG
* *
10691875 TCCAAACAATAATTCTAAACATTAATTCCCAAACATAATTTTTAATGTTTAATTCTAGCATATTA
1 TCCAAACAATAATTCTAAACATTAATTCCCAAACATAATTCTTAATGTTTAATTATAGCATATTA
10691940 AAA
66 AAA
* * * *
10691943 TCCAAACAATAATTCTCACCA-TAATTCTCAAACATAATTCTTACTGTTTAATTATAGCATATT
1 TCCAAACAATAATTCTAAACATTAATTCCCAAACATAATTCTTAATGTTTAATTATAGCATATT
10692006 GCCAATTATT
Statistics
Matches: 57, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
67 38 0.67
68 19 0.33
ACGTcount: A:0.41, C:0.18, G:0.03, T:0.37
Consensus pattern (68 bp):
TCCAAACAATAATTCTAAACATTAATTCCCAAACATAATTCTTAATGTTTAATTATAGCATATTA
AAA
Found at i:10692040 original size:84 final size:84
Alignment explanation
Indices: 10691939--10692306 Score: 558
Period size: 84 Copynumber: 4.4 Consensus size: 84
10691929 CTAGCATATT
* * * *
10691939 AAAATCCAAACAATAATTCTCACCATAATTCTCAAACATAATTCTTACTGTTTAATTATAGCATA
1 AAAATCCAAACAATAATTCTCAACATAATTCCCAAACATAATTCTTAATGTTTAATTCTAGCATA
* *
10692004 TTGCCAATTATTTTAATTG
66 TTACCAATCATTTTAATTG
* *
10692023 AAAGTCCAAACAATAATTCTAAACATTAATTCCCAAACATAATT-TTAATGTTTAATTCTAGCAT
1 AAAATCCAAACAATAATTCTCAACA-TAATTCCCAAACATAATTCTTAATGTTTAATTCTAGCAT
10692087 ATTACCAATCATTTTAATTG
65 ATTACCAATCATTTTAATTG
* * * *
10692107 AAAATCCAAACAATAATTATGAACATAATTGCCAAACATAATTCTTAATGTTTAATTCTAACATA
1 AAAATCCAAACAATAATTCTCAACATAATTCCCAAACATAATTCTTAATGTTTAATTCTAGCATA
* *
10692172 ATACTAATCATTTTAATTG
66 TTACCAATCATTTTAATTG
* *
10692191 AAAATCCAAACAATAATTCTCAACATAATTCCCAAACATAATTCTTAATGTATAATTCTAGCACA
1 AAAATCCAAACAATAATTCTCAACATAATTCCCAAACATAATTCTTAATGTTTAATTCTAGCATA
10692256 TTACCAATCATTTTAATTG
66 TTACCAATCATTTTAATTG
*
10692275 AAAATCCAAACAATAATTCCCAAACATAATTC
1 AAAATCCAAACAATAATTCTC-AACATAATTC
10692307 TTAATGTTTA
Statistics
Matches: 257, Mismatches: 24, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
83 17 0.07
84 213 0.83
85 27 0.11
ACGTcount: A:0.43, C:0.18, G:0.04, T:0.35
Consensus pattern (84 bp):
AAAATCCAAACAATAATTCTCAACATAATTCCCAAACATAATTCTTAATGTTTAATTCTAGCATA
TTACCAATCATTTTAATTG
Found at i:10692220 original size:12 final size:13
Alignment explanation
Indices: 10692197--10692235 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
10692187 ATTGAAAATC
10692197 CAAACAATAATTCT
1 CAAAC-ATAATTCT
*
10692211 C-AACATAATTCC
1 CAAACATAATTCT
10692223 CAAACATAATTCT
1 CAAACATAATTCT
10692236 TAATGTATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 8 0.36
13 13 0.59
14 1 0.05
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.28
Consensus pattern (13 bp):
CAAACATAATTCT
Found at i:10692358 original size:72 final size:72
Alignment explanation
Indices: 10692215--10692365 Score: 198
Period size: 72 Copynumber: 2.1 Consensus size: 72
10692205 AATTCTCAAC
* *
10692215 ATAATTCCCAAACATAATTCTTAATGTATAATTCTAGCACATTACCAATCATTTTAATTGAAAAT
1 ATAATTCCCAAACATAATTCTTAATGTATAATTCTAGCACATTACAAATCAATTTAATTGAAAAT
*
10692280 CCAAACA
66 CAAAACA
* * * *
10692287 ATAATTCCCAAACATAATTCTTAATGTTTAATTCTAGC-CTATTGCAAATTAATTTAATTGATTA
1 ATAATTCCCAAACATAATTCTTAATGTATAATTCTAGCAC-ATTACAAATCAATTTAATTGA-AA
*
10692351 GT-AAAACA
64 ATCAAAACA
10692359 ATAATTC
1 ATAATTC
10692366 TAAACATTAA
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
71 1 0.01
72 66 0.96
73 2 0.03
ACGTcount: A:0.42, C:0.17, G:0.05, T:0.36
Consensus pattern (72 bp):
ATAATTCCCAAACATAATTCTTAATGTATAATTCTAGCACATTACAAATCAATTTAATTGAAAAT
CAAAACA
Found at i:10700015 original size:23 final size:26
Alignment explanation
Indices: 10699965--10700016 Score: 65
Period size: 23 Copynumber: 2.1 Consensus size: 26
10699955 ATTAATTATT
* *
10699965 TTAATTATTATATATTTTTAATATAA
1 TTAATTATTATATATTATTAATAAAA
10699991 TTAATTA-TAT-TATTATT-ATAAAA
1 TTAATTATTATATATTATTAATAAAA
10700014 TTA
1 TTA
10700017 CCAGACTTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 8 0.33
24 6 0.25
25 3 0.12
26 7 0.29
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (26 bp):
TTAATTATTATATATTATTAATAAAA
Found at i:10707831 original size:19 final size:20
Alignment explanation
Indices: 10707804--10707848 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
10707794 CCATTTGACT
10707804 TATTAGAGTATGATTT-AAG
1 TATTAGAGTATGATTTGAAG
*
10707823 TATTGGAGTATGATTTGAAG
1 TATTAGAGTATGATTTGAAG
10707843 T-TTAGA
1 TATTAGA
10707849 AGTGAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 19 0.83
20 4 0.17
ACGTcount: A:0.33, C:0.00, G:0.24, T:0.42
Consensus pattern (20 bp):
TATTAGAGTATGATTTGAAG
Found at i:10709100 original size:13 final size:13
Alignment explanation
Indices: 10709082--10709106 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10709072 GGAAAATGAG
10709082 ATTTTATAAAATA
1 ATTTTATAAAATA
10709095 ATTTTATAAAAT
1 ATTTTATAAAAT
10709107 TTTTGAAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTTTATAAAATA
Found at i:10710566 original size:22 final size:23
Alignment explanation
Indices: 10710541--10710585 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
10710531 GTTGTAAAAG
10710541 AATTGACATC-TCAAA-ATAGAAA
1 AATTGA-ATCTTCAAAGATAGAAA
*
10710563 AATTGATTCTTCAAAGATAGAAA
1 AATTGAATCTTCAAAGATAGAAA
10710586 GCTATAGACT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 2 0.10
22 11 0.55
23 7 0.35
ACGTcount: A:0.51, C:0.11, G:0.11, T:0.27
Consensus pattern (23 bp):
AATTGAATCTTCAAAGATAGAAA
Found at i:10715662 original size:18 final size:18
Alignment explanation
Indices: 10715636--10715683 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 18
10715626 GTAACTGGTG
*
10715636 AAAAGAATATTTTGA-AAT
1 AAAATAATATTTT-ATAAT
10715654 AAAATAATATTTTATTAAT
1 AAAATAATATTTTA-TAAT
10715673 AAAATAATATT
1 AAAATAATATT
10715684 AAATAGTAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 1 0.04
18 12 0.44
19 14 0.52
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (18 bp):
AAAATAATATTTTATAAT
Found at i:10717455 original size:42 final size:42
Alignment explanation
Indices: 10717400--10717567 Score: 165
Period size: 42 Copynumber: 4.0 Consensus size: 42
10717390 TGTTGATGTG
* * *
10717400 GACCCGGCTATGTGCGAGTAGGAGTGTACGTAAGCCGATGAT
1 GACCCAGCTATGTGCGAGTAGGAGTGCACATAAGCCGATGAT
* ** * *
10717442 GACCCAACTATGTGTAAGTAGGAGTGCGCATAAGCCAATGAT
1 GACCCAGCTATGTGCGAGTAGGAGTGCACATAAGCCGATGAT
** * *
10717484 GACCTGGCTATGTGTGAGTGGGAGTGCACATAAGCCGATGAT
1 GACCCAGCTATGTGCGAGTAGGAGTGCACATAAGCCGATGAT
* * * * * *
10717526 GACCCAGCCATGTGCTAGTGGGGAGTACACATGAGCTGATGA
1 GACCCAGCTATGTGCGAGT-AGGAGTGCACATAAGCCGATGA
10717568 CGATGGGAGA
Statistics
Matches: 102, Mismatches: 23, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
42 83 0.81
43 19 0.19
ACGTcount: A:0.27, C:0.19, G:0.33, T:0.21
Consensus pattern (42 bp):
GACCCAGCTATGTGCGAGTAGGAGTGCACATAAGCCGATGAT
Found at i:10719260 original size:14 final size:14
Alignment explanation
Indices: 10719241--10719288 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
10719231 AGAAGAAAAG
10719241 AGAAAGGAGAGGAA
1 AGAAAGGAGAGGAA
* *
10719255 AGAAAGAAGA-AAA
1 AGAAAGGAGAGGAA
*
10719268 GAGAAAGGAAAGGAA
1 -AGAAAGGAGAGGAA
10719283 AGAAAG
1 AGAAAG
10719289 AAAGAAAGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
13 2 0.07
14 23 0.85
15 2 0.07
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (14 bp):
AGAAAGGAGAGGAA
Found at i:10719261 original size:4 final size:4
Alignment explanation
Indices: 10719252--10719299 Score: 55
Period size: 4 Copynumber: 12.0 Consensus size: 4
10719242 GAAAGGAGAG
*
10719252 GAAA GAAA G-AA GAAA -AGA GAAA GGAAA GGAAA GAAA GAAA GAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA -GAAA -GAAA GAAA GAAA GAAA GAAA
10719300 AAGAGAGAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
3 5 0.13
4 25 0.64
5 9 0.23
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:10719270 original size:28 final size:28
Alignment explanation
Indices: 10719230--10719310 Score: 114
Period size: 28 Copynumber: 3.0 Consensus size: 28
10719220 GCCCATAACC
10719230 AAGAAGAAAAGAGAAAGGAGAGGAAAGA
1 AAGAAGAAAAGAGAAAGGAGAGGAAAGA
*
10719258 AAGAAGAAAAGAGAAAGGAAAGGAAAGA
1 AAGAAGAAAAGAGAAAGGAGAGGAAAGA
*
10719286 AAGAA-AGAAAGA-AAAAGAGA-GAAAG
1 AAGAAGA-AAAGAGAAAGGAGAGGAAAG
10719311 GAAGGAATGT
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
26 5 0.10
27 7 0.14
28 37 0.76
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (28 bp):
AAGAAGAAAAGAGAAAGGAGAGGAAAGA
Found at i:10721935 original size:19 final size:18
Alignment explanation
Indices: 10721898--10721962 Score: 66
Period size: 18 Copynumber: 3.8 Consensus size: 18
10721888 GTGGCGAGTA
*
10721898 AAAAGAATATTTTAAAAT
1 AAAATAATATTTTAAAAT
*
10721916 AAAATAATATTTTATTAAT
1 AAAATAATATTTTA-AAAT
*
10721935 AAAATAATA--ATAAAAT
1 AAAATAATATTTTAAAAT
10721951 -AAA-AATATTTTA
1 AAAATAATATTTTA
10721963 TTATTATCGA
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
14 4 0.10
15 3 0.08
16 5 0.13
17 2 0.05
18 13 0.33
19 12 0.31
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (18 bp):
AAAATAATATTTTAAAAT
Found at i:10726581 original size:36 final size:36
Alignment explanation
Indices: 10726535--10726625 Score: 139
Period size: 36 Copynumber: 2.5 Consensus size: 36
10726525 CAGTGTCATG
10726535 GTGAAGGTTACGCTTGATCCT-GATAAAAGGCATGTT
1 GTGAAGGTTACGCTTGATCCTAG-TAAAAGGCATGTT
*
10726571 GTGAAGGTTACGTTTGATCCTAGTAAAAGGCATGTT
1 GTGAAGGTTACGCTTGATCCTAGTAAAAGGCATGTT
* *
10726607 GTAAAGGTTATGCTTGATC
1 GTGAAGGTTACGCTTGATC
10726626 TTGTTGAAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
36 49 0.98
37 1 0.02
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.33
Consensus pattern (36 bp):
GTGAAGGTTACGCTTGATCCTAGTAAAAGGCATGTT
Found at i:10727706 original size:31 final size:32
Alignment explanation
Indices: 10727649--10727731 Score: 89
Period size: 31 Copynumber: 2.7 Consensus size: 32
10727639 TTCTCAAGAG
* * * *
10727649 GATCAAACATAACCTTACACTGCCTTTTATGA
1 GATCAAGCATAACCTCACACTACCTTTTAGGA
*
10727681 GATCAAGCATAA-CTCACACTACCTTTTAGGG
1 GATCAAGCATAACCTCACACTACCTTTTAGGA
* *
10727712 GATCAAGTACAACC-CACACT
1 GATCAAGCATAACCTCACACT
10727732 TTCTTTTCAA
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
31 31 0.72
32 12 0.28
ACGTcount: A:0.35, C:0.28, G:0.12, T:0.25
Consensus pattern (32 bp):
GATCAAGCATAACCTCACACTACCTTTTAGGA
Found at i:10728794 original size:95 final size:93
Alignment explanation
Indices: 10728562--10728859 Score: 551
Period size: 93 Copynumber: 3.2 Consensus size: 93
10728552 GCTCTTTTAA
10728562 AAAGTTGTCTCGATACATTCAATCCTATTCTTGAACTTCAATACACACTCTCTGGAAAAATGACA
1 AAAGTTGTCTCGATACATTCAATCCTATTCTTGAACTTCAATACACACTCTCTGGAAAAATGACA
10728627 CTTGTTAAATGGAGTGTCGATACCATCC
66 CTTGTTAAATGGAGTGTCGATACCATCC
*
10728655 AAAGTTGTCTCGATACATTCAATCCTATTCTTGAACTTCAATACACATTCTCTGGAAAAATGACA
1 AAAGTTGTCTCGATACATTCAATCCTATTCTTGAACTTCAATACACACTCTCTGGAAAAATGACA
10728720 CTTGTTAAATGGAGTGTCGATACCATCC
66 CTTGTTAAATGGAGTGTCGATACCATCC
10728748 TAAAAGTTGTCTCGATACATTCAATCCTATTCTTGAACTTCAATACACACTCTCTGGAAAAATGA
1 --AAAGTTGTCTCGATACATTCAATCCTATTCTTGAACTTCAATACACACTCTCTGGAAAAATGA
10728813 CACTTGTTAAATGGAGTGTCGATACCATCC
64 CACTTGTTAAATGGAGTGTCGATACCATCC
* *
10728843 AAAGTTGTGTCAATACA
1 AAAGTTGTCTCGATACA
10728860 CCTTCATACT
Statistics
Matches: 199, Mismatches: 4, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
93 107 0.54
95 92 0.46
ACGTcount: A:0.33, C:0.21, G:0.14, T:0.32
Consensus pattern (93 bp):
AAAGTTGTCTCGATACATTCAATCCTATTCTTGAACTTCAATACACACTCTCTGGAAAAATGACA
CTTGTTAAATGGAGTGTCGATACCATCC
Found at i:10731194 original size:21 final size:20
Alignment explanation
Indices: 10731179--10731216 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
10731169 CAAAGATTTT
10731179 TTTTAATTGGTTAAAGCA-TA
1 TTTTAATTGGTTAAAG-ATTA
*
10731199 TTTTAATTTGTTAAAGAT
1 TTTTAATTGGTTAAAGAT
10731217 GAAGTGAGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 1 0.06
20 15 0.94
ACGTcount: A:0.34, C:0.03, G:0.13, T:0.50
Consensus pattern (20 bp):
TTTTAATTGGTTAAAGATTA
Found at i:10735448 original size:28 final size:28
Alignment explanation
Indices: 10735417--10735475 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
10735407 TTCAGAGCAT
*
10735417 AGGGGTAAAACGGTAATTTTGCCACC-CC
1 AGGGGCAAAACGGTAATTTT-CCACCACC
**
10735445 AGGGGCAAAATTGTAATTTTCCACCACC
1 AGGGGCAAAACGGTAATTTTCCACCACC
10735473 AGG
1 AGG
10735476 ACACTTGTCC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 5 0.19
28 22 0.81
ACGTcount: A:0.31, C:0.24, G:0.24, T:0.22
Consensus pattern (28 bp):
AGGGGCAAAACGGTAATTTTCCACCACC
Found at i:10739022 original size:27 final size:27
Alignment explanation
Indices: 10738992--10739049 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 27
10738982 TTGGAGCATA
* *
10738992 AGGGTAAAATGGTAATTTTGCCACC-CC
1 AGGGCAAAATGATAATTTT-CCACCACC
*
10739019 AGGGGCAAAATTATAATTTTCCACCACC
1 A-GGGCAAAATGATAATTTTCCACCACC
10739047 AGG
1 AGG
10739050 ACATTTTTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
27 8 0.31
28 18 0.69
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.24
Consensus pattern (27 bp):
AGGGCAAAATGATAATTTTCCACCACC
Found at i:10740191 original size:13 final size:13
Alignment explanation
Indices: 10740173--10740197 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10740163 GGAGAAATTG
10740173 TGATTTTATAAAA
1 TGATTTTATAAAA
10740186 TGATTTTATAAA
1 TGATTTTATAAA
10740198 TTTTCTGAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:10745925 original size:16 final size:16
Alignment explanation
Indices: 10745895--10745928 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
10745885 TCTCTTTTGG
**
10745895 TTTATTTCATTTGTAT
1 TTTATTTCACATGTAT
10745911 TTTATTTCACATGTAT
1 TTTATTTCACATGTAT
10745927 TT
1 TT
10745929 CCATGCATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.09, G:0.06, T:0.65
Consensus pattern (16 bp):
TTTATTTCACATGTAT
Found at i:10746460 original size:15 final size:15
Alignment explanation
Indices: 10746410--10746461 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
10746400 TTACTTACCA
*
10746410 TTTGACCCTTTAAACT
1 TTTGATCCTTTAAA-T
*
10746426 TTTCATCCTTTACAA-
1 TTTGATCCTTTA-AAT
*
10746441 ATTGATCCTTTAAAT
1 TTTGATCCTTTAAAT
10746456 TTTGAT
1 TTTGAT
10746462 AATTACAACT
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
14 2 0.07
15 15 0.52
16 10 0.34
17 2 0.07
ACGTcount: A:0.27, C:0.19, G:0.06, T:0.48
Consensus pattern (15 bp):
TTTGATCCTTTAAAT
Found at i:10751193 original size:188 final size:188
Alignment explanation
Indices: 10750876--10751251 Score: 698
Period size: 188 Copynumber: 2.0 Consensus size: 188
10750866 GTTATCATGT
*
10750876 TATGTCATCATCAATTATAATATGTCAACATGTCACATCATCATTAATTAGCATGTTAGCATATC
1 TATGTCATCATCAATTATAATATATCAACATGTCACATCATCATTAATTAGCATGTTAGCATATC
10750941 ATGTCAGCGCCACATGGTATAGAATGACAAATGACATTTTGATTAAATCTATTATTAGTCATAAA
66 ATGTCAGCGCCACATGGTATAGAATGACAAATGACATTTTGATTAAATCTATTATTAGTCATAAA
10751006 AGCTTATTTGACTTAAAATAAAAGTACAGTGGCTTAATTAAATGTAATAAAAATATAA
131 AGCTTATTTGACTTAAAATAAAAGTACAGTGGCTTAATTAAATGTAATAAAAATATAA
* *
10751064 TATGTCATCATCAATTATAATATATTAACATGTCACATCATCATTAATTAGCATGTTAGCATCTC
1 TATGTCATCATCAATTATAATATATCAACATGTCACATCATCATTAATTAGCATGTTAGCATATC
* * *
10751129 ATGTCAGCGTCACATGGTATAGAATGACAAATGATATTTTGATTAAGTCTATTATTAGTCATAAA
66 ATGTCAGCGCCACATGGTATAGAATGACAAATGACATTTTGATTAAATCTATTATTAGTCATAAA
10751194 AGCTTATTTGACTTAAAATAAAAGTACAGTGGCTTAATTAAATGTAATAAAAATATAA
131 AGCTTATTTGACTTAAAATAAAAGTACAGTGGCTTAATTAAATGTAATAAAAATATAA
10751252 GAGCTTATTT
Statistics
Matches: 182, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
188 182 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (188 bp):
TATGTCATCATCAATTATAATATATCAACATGTCACATCATCATTAATTAGCATGTTAGCATATC
ATGTCAGCGCCACATGGTATAGAATGACAAATGACATTTTGATTAAATCTATTATTAGTCATAAA
AGCTTATTTGACTTAAAATAAAAGTACAGTGGCTTAATTAAATGTAATAAAAATATAA
Found at i:10789271 original size:2 final size:2
Alignment explanation
Indices: 10789264--10789311 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
10789254 TTTGGAGTAT
*
10789264 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10789306 TA TA TA
1 TA TA TA
10789312 ATTGAAATAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10796159 original size:18 final size:18
Alignment explanation
Indices: 10796136--10796170 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10796126 TCCTAATAGA
10796136 TTTTAAAGTAGAAAAAAT
1 TTTTAAAGTAGAAAAAAT
**
10796154 TTTTAATTTAGAAAAAA
1 TTTTAAAGTAGAAAAAA
10796171 AAAATTAAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.09, T:0.37
Consensus pattern (18 bp):
TTTTAAAGTAGAAAAAAT
Found at i:10797381 original size:3 final size:3
Alignment explanation
Indices: 10797373--10797397 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
10797363 GCCAACAGCT
10797373 GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA G
10797398 CTTAGAAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:10799056 original size:20 final size:21
Alignment explanation
Indices: 10799020--10799058 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
10799010 TTACAGTTAT
10799020 TTAACACTTGTAATCCATGCC
1 TTAACACTTGTAATCCATGCC
10799041 TTAACACTTG-AATCCATG
1 TTAACACTTGTAATCCATG
10799059 TCTTGACAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.31, C:0.26, G:0.10, T:0.33
Consensus pattern (21 bp):
TTAACACTTGTAATCCATGCC
Found at i:10802056 original size:20 final size:20
Alignment explanation
Indices: 10802022--10802059 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
10802012 GAAATTAAGA
**
10802022 CAAATGTATTGATACATTGC
1 CAAATGTATCAATACATTGC
10802042 CAAATGTATCAATACATT
1 CAAATGTATCAATACATT
10802060 ACAAACAGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.34
Consensus pattern (20 bp):
CAAATGTATCAATACATTGC
Found at i:10803608 original size:2 final size:2
Alignment explanation
Indices: 10803601--10803716 Score: 85
Period size: 2 Copynumber: 57.0 Consensus size: 2
10803591 TATGTGTTTA
10803601 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GAT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT
* ** * * * * * *
10803644 TT GG GT -T AT CT AC ACC ACT CACT AA AT AT -T NT -T AT AT AT AT
1 AT AT AT AT AT AT AT A-T A-T -A-T AT AT AT AT AT AT AT AT AT AT
10803685 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10803717 GATTTGGGTT
Statistics
Matches: 98, Mismatches: 10, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
1 3 0.03
2 86 0.88
3 6 0.06
4 3 0.03
ACGTcount: A:0.43, C:0.06, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:10803726 original size:76 final size:75
Alignment explanation
Indices: 10803601--10803749 Score: 289
Period size: 76 Copynumber: 2.0 Consensus size: 75
10803591 TATGTGTTTA
10803601 ATATATATATATATATATATATATATATATATATATATATGATTTGGGTTATCTACACCACTCAC
1 ATATATATATATATATATATATATATATATATATATATATGATTTGGGTTATCTACACCACTCAC
10803666 TAAATATTNTT
66 TAAATATT-TT
10803677 ATATATATATATATATATATATATATATATATATATATATGATTTGGGTTATCTACACCACTCAC
1 ATATATATATATATATATATATATATATATATATATATATGATTTGGGTTATCTACACCACTCAC
10803742 TAAATATT
66 TAAATATT
10803750 ATAATACTCA
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 73 1.00
ACGTcount: A:0.40, C:0.09, G:0.05, T:0.44
Consensus pattern (75 bp):
ATATATATATATATATATATATATATATATATATATATATGATTTGGGTTATCTACACCACTCAC
TAAATATTTT
Found at i:10807539 original size:22 final size:22
Alignment explanation
Indices: 10807480--10807539 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
10807470 GACAAAAGGT
*
10807480 TTCTCGCTGCAGTGAGAATGAA
1 TTCTCGCTGCAGCGAGAATGAA
* * *
10807502 TTCTTGCTGCAACGAGAATGTA
1 TTCTCGCTGCAGCGAGAATGAA
*
10807524 TTCTCGCTGTAGCGAG
1 TTCTCGCTGCAGCGAG
10807540 TTACAAGACT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (22 bp):
TTCTCGCTGCAGCGAGAATGAA
Found at i:10807900 original size:43 final size:43
Alignment explanation
Indices: 10807839--10807922 Score: 150
Period size: 43 Copynumber: 2.0 Consensus size: 43
10807829 ATATCATCAT
*
10807839 CATCAGCTCATGTGCACTCCCACACCGCACATAGCTGGGTCAG
1 CATCAACTCATGTGCACTCCCACACCGCACATAGCTGGGTCAG
*
10807882 CATCAACTCATGTGCACTCCCACATCGCACATAGCTGGGTC
1 CATCAACTCATGTGCACTCCCACACCGCACATAGCTGGGTC
10807923 CACATTATCA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.24, C:0.37, G:0.19, T:0.20
Consensus pattern (43 bp):
CATCAACTCATGTGCACTCCCACACCGCACATAGCTGGGTCAG
Found at i:10811017 original size:2 final size:2
Alignment explanation
Indices: 10811010--10811114 Score: 185
Period size: 2 Copynumber: 53.0 Consensus size: 2
10811000 AAACAAAAAC
10811010 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
10811052 AT AT A- AT AT AT AT AN AA AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10811093 AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
10811115 TAAACATGTA
Statistics
Matches: 99, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
1 1 0.01
2 98 0.99
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10814575 original size:31 final size:31
Alignment explanation
Indices: 10814540--10814603 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
10814530 TGATAAAAAC
10814540 ATAAAATTTCTTGCTTCCAACAATTTTGAAA
1 ATAAAATTTCTTGCTTCCAACAATTTTGAAA
10814571 ATAAAATTTCTTGCTTCCAACAATTTTGAAA
1 ATAAAATTTCTTGCTTCCAACAATTTTGAAA
10814602 AT
1 AT
10814604 TTTATTTTTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.39, C:0.16, G:0.06, T:0.39
Consensus pattern (31 bp):
ATAAAATTTCTTGCTTCCAACAATTTTGAAA
Found at i:10819337 original size:2 final size:2
Alignment explanation
Indices: 10819324--10819405 Score: 128
Period size: 2 Copynumber: 40.5 Consensus size: 2
10819314 TTTTACTGCA
*
10819324 AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
10819366 AT AT AT AT AT GT CT AT AT CAT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT A
10819406 NNNNNNNNNN
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
2 72 0.97
3 2 0.03
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10827928 original size:20 final size:20
Alignment explanation
Indices: 10827903--10827948 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
10827893 CTTCTAAACC
10827903 TCAAATCATACTCCAATAAG
1 TCAAATCATACTCCAATAAG
*
10827923 TCAAATTATACTCCAATAAG
1 TCAAATCATACTCCAATAAG
10827943 TCAAAT
1 TCAAAT
10827949 GAGGCCAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.46, C:0.22, G:0.04, T:0.28
Consensus pattern (20 bp):
TCAAATCATACTCCAATAAG
Found at i:10831692 original size:13 final size:13
Alignment explanation
Indices: 10831674--10831700 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
10831664 TACTCTCGTG
10831674 CGAAATATTTTAT
1 CGAAATATTTTAT
10831687 CGAAATATTTTAT
1 CGAAATATTTTAT
10831700 C
1 C
10831701 ATAAATTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.11, G:0.07, T:0.44
Consensus pattern (13 bp):
CGAAATATTTTAT
Found at i:10834117 original size:25 final size:25
Alignment explanation
Indices: 10834089--10834137 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
10834079 CGTAGGAGAA
*
10834089 TCCGTTGGAAATTTCCAACGAAAAT
1 TCCGATGGAAATTTCCAACGAAAAT
*
10834114 TCCGATGGTAATTTCCAACGAAAA
1 TCCGATGGAAATTTCCAACGAAAA
10834138 CTTCTGTCGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (25 bp):
TCCGATGGAAATTTCCAACGAAAAT
Found at i:10834176 original size:63 final size:62
Alignment explanation
Indices: 10834037--10834179 Score: 155
Period size: 63 Copynumber: 2.3 Consensus size: 62
10834027 CATTGCAAAT
* * * *
10834037 TTCCAACAGAAAATTCTGTTAGTAAATTCCAACCGAAAATTTCGTAGGAGAATCCGTTGGAAAT
1 TTCCAA-AGAAAATTCCGATAGTAAATTCCAACCGAAAACTTCGTAGGAG-ATCCGTTGGAAAC
* * * *
10834101 TTCCAACGAAAATTCCGATGGTAATTTCCAA-CGAAAACTTCTGTCGGATG-TCCGTTGGAAAC
1 TTCCAAAGAAAATTCCGATAGTAAATTCCAACCGAAAACTTC-GTAGGA-GATCCGTTGGAAAC
10834163 TTCCAATAGAAAATTCC
1 TTCCAA-AGAAAATTCC
10834180 TCAGTGAATA
Statistics
Matches: 67, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
62 26 0.39
63 34 0.51
64 7 0.10
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (62 bp):
TTCCAAAGAAAATTCCGATAGTAAATTCCAACCGAAAACTTCGTAGGAGATCCGTTGGAAAC
Found at i:10851745 original size:2 final size:2
Alignment explanation
Indices: 10851740--10851788 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
10851730 ATATATCACN
10851740 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10851782 AT AT AT A
1 AT AT AT A
10851789 GCTTTAATTG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:10853163 original size:18 final size:18
Alignment explanation
Indices: 10853112--10853156 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
10853102 ATTTTAAACT
*
10853112 TTAATTTATAATTTATTAG
1 TTAATTT-TAATTAATTAG
*
10853131 TTAATTTTAATTAATTAT
1 TTAATTTTAATTAATTAG
10853149 TTAATTTT
1 TTAATTTT
10853157 CTTTAATACT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 17 0.71
19 7 0.29
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (18 bp):
TTAATTTTAATTAATTAG
Found at i:10857388 original size:31 final size:30
Alignment explanation
Indices: 10857350--10857428 Score: 90
Period size: 31 Copynumber: 2.6 Consensus size: 30
10857340 TTATAGAGAT
10857350 TAAATTGAATAAAAATATATAG-TACAGGAAC
1 TAAATTGAATAAAAATATAT-GTTA-AGGAAC
* * *
10857381 TAAATTGAATAAAATTGAGATGTTAAGGGAC
1 TAAATTGAATAAAAAT-ATATGTTAAGGAAC
10857412 TAAATTGAA-AAAAATAT
1 TAAATTGAATAAAAATAT
10857429 TTGAAAAATA
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
29 1 0.02
30 5 0.12
31 30 0.73
32 5 0.12
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (30 bp):
TAAATTGAATAAAAATATATGTTAAGGAAC
Found at i:10878297 original size:43 final size:43
Alignment explanation
Indices: 10878227--10878361 Score: 171
Period size: 43 Copynumber: 3.1 Consensus size: 43
10878217 TTCAGTACGA
* * *
10878227 TTCAATATATCGTTATTCACTTGGGCCACATGCCTCTTAGCATG
1 TTCAGTATA-CGTTACTCATTTGGGCCACATGCCTCTTAGCATG
* * * *
10878271 TTTAGTATACGTTACTCATTTAGGCCACATACCTTTTAGCATG
1 TTCAGTATACGTTACTCATTTGGGCCACATGCCTCTTAGCATG
* *
10878314 TTCAGTATACCTTACTCATTTGGGCCACATGCCCCATTAGCATG
1 TTCAGTATACGTTACTCATTTGGGCCACATGCCTC-TTAGCATG
10878358 TTCA
1 TTCA
10878362 ATTTATCACT
Statistics
Matches: 77, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
43 58 0.75
44 19 0.25
ACGTcount: A:0.24, C:0.25, G:0.15, T:0.36
Consensus pattern (43 bp):
TTCAGTATACGTTACTCATTTGGGCCACATGCCTCTTAGCATG
Found at i:10880965 original size:19 final size:20
Alignment explanation
Indices: 10880936--10880975 Score: 73
Period size: 19 Copynumber: 2.0 Consensus size: 20
10880926 TCACTTCTAA
10880936 ACTTCAAATCATACTCCAAT
1 ACTTCAAATCATACTCCAAT
10880956 ACTT-AAATCATACTCCAAT
1 ACTTCAAATCATACTCCAAT
10880975 A
1 A
10880976 AGTCAAATGG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.42, C:0.28, G:0.00, T:0.30
Consensus pattern (20 bp):
ACTTCAAATCATACTCCAAT
Found at i:10883470 original size:17 final size:17
Alignment explanation
Indices: 10883448--10883492 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
10883438 GTCTCACCAA
10883448 AAAAAATAAAGAT-AAGT
1 AAAAAATAAA-ATAAAGT
**
10883465 AAAAAATTGAATAAAGT
1 AAAAAATAAAATAAAGT
10883482 AAAAAATAAAA
1 AAAAAATAAAA
10883493 AATAAAAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 2 0.09
17 21 0.91
ACGTcount: A:0.73, C:0.00, G:0.09, T:0.18
Consensus pattern (17 bp):
AAAAAATAAAATAAAGT
Found at i:10883509 original size:6 final size:7
Alignment explanation
Indices: 10883448--10883508 Score: 50
Period size: 7 Copynumber: 7.7 Consensus size: 7
10883438 GTCTCACCAA
10883448 AAAAAAT
1 AAAAAAT
10883455 AAAGATAAGT
1 AAA-A-AA-T
10883465 AAAAAATT
1 AAAAAA-T
*
10883473 GAATAAAGT
1 -AA-AAAAT
10883482 AAAAAAT
1 AAAAAAT
10883489 AAAAAAT
1 AAAAAAT
10883496 AAAAAAAT
1 -AAAAAAT
10883504 AAAAA
1 AAAAA
10883509 TCTAAAAAAG
Statistics
Matches: 45, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
7 19 0.42
8 13 0.29
9 6 0.13
10 7 0.16
ACGTcount: A:0.77, C:0.00, G:0.07, T:0.16
Consensus pattern (7 bp):
AAAAAAT
Found at i:10883515 original size:15 final size:15
Alignment explanation
Indices: 10883448--10883517 Score: 52
Period size: 15 Copynumber: 4.4 Consensus size: 15
10883438 GTCTCACCAA
*
10883448 AAAAAATAAAGATAAGT
1 AAAAAATAAA-A-AATT
* *
10883465 AAAAAATTGAATAAAGT
1 AAAAAA-T-AAAAAATT
*
10883482 AAAAAATAAAAAATA
1 AAAAAATAAAAAATT
10883497 AAAAAAT-AAAAATCT
1 AAAAAATAAAAAAT-T
10883512 AAAAAA
1 AAAAAA
10883518 GAGAAAGATA
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
14 6 0.13
15 18 0.40
16 1 0.02
17 16 0.36
18 2 0.04
19 2 0.04
ACGTcount: A:0.76, C:0.01, G:0.06, T:0.17
Consensus pattern (15 bp):
AAAAAATAAAAAATT
Found at i:10887265 original size:21 final size:21
Alignment explanation
Indices: 10887238--10887325 Score: 68
Period size: 21 Copynumber: 3.9 Consensus size: 21
10887228 TGCACAATGC
10887238 CTTAATTAAGACAAGAGTTGT
1 CTTAATTAAGACAAGAGTTGT
* * *
10887259 CTCAATTTAGATAAGGTACTTGTGTTGT
1 CTTAATTAAGACAA-G-A---GT--TGT
*
10887287 CTTAATTAAGACAAGAATTGT
1 CTTAATTAAGACAAGAGTTGT
*
10887308 CTTAATTTAGACAAGAGT
1 CTTAATTAAGACAAGAGT
10887326 ATATGTGTAG
Statistics
Matches: 51, Mismatches: 9, Indels: 14
0.69 0.12 0.19
Matches are distributed among these distances:
21 30 0.59
22 1 0.02
23 2 0.04
26 3 0.06
27 1 0.02
28 14 0.27
ACGTcount: A:0.35, C:0.10, G:0.18, T:0.36
Consensus pattern (21 bp):
CTTAATTAAGACAAGAGTTGT
Found at i:10889415 original size:19 final size:20
Alignment explanation
Indices: 10889388--10889433 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
10889378 AGGAGACAAG
*
10889388 ATAAAATTTTTA-GAATAAA
1 ATAATATTTTTATGAATAAA
*
10889407 ATAATA-TTTTATTAATAAA
1 ATAATATTTTTATGAATAAA
10889426 ATAATATT
1 ATAATATT
10889434 AAAATATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 5 0.22
19 17 0.74
20 1 0.04
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (20 bp):
ATAATATTTTTATGAATAAA
Found at i:10900110 original size:8 final size:8
Alignment explanation
Indices: 10900097--10900122 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
10900087 TAATAAAATA
10900097 TTATTATT
1 TTATTATT
10900105 TTATTATT
1 TTATTATT
10900113 TTATTATT
1 TTATTATT
10900121 TT
1 TT
10900123 CTAGCCATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (8 bp):
TTATTATT
Found at i:10901271 original size:16 final size:16
Alignment explanation
Indices: 10901225--10901271 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
10901215 TCATTTGTTA
* *
10901225 TTATTTAATTATTATT
1 TTATTTCATTATTTTT
*
10901241 TTATTTCATTTTTTTT
1 TTATTTCATTATTTTT
10901257 TTATTATCA-TATTTT
1 TTATT-TCATTATTTT
10901272 CTATTTTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
16 23 0.88
17 3 0.12
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.72
Consensus pattern (16 bp):
TTATTTCATTATTTTT
Found at i:10901278 original size:21 final size:20
Alignment explanation
Indices: 10901232--10901301 Score: 57
Period size: 19 Copynumber: 3.9 Consensus size: 20
10901222 TTATTATTTA
10901232 ATTATTA-TTTTATT-TCAT
1 ATTATTATTTTTATTATCAT
10901250 -TT-TT-TTTTTATTATCAT
1 ATTATTATTTTTATTATCAT
* *
10901267 ATT-TTCTATTTTATT-TCTT
1 ATTATTAT-TTTTATTATCAT
10901286 ATTATTATTTTT-TTAT
1 ATTATTATTTTTATTAT
10901302 ACTTTACATT
Statistics
Matches: 43, Mismatches: 2, Indels: 13
0.74 0.03 0.22
Matches are distributed among these distances:
16 9 0.21
17 6 0.14
18 6 0.14
19 12 0.28
20 10 0.23
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.73
Consensus pattern (20 bp):
ATTATTATTTTTATTATCAT
Found at i:10901298 original size:27 final size:26
Alignment explanation
Indices: 10901232--10901299 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 26
10901222 TTATTATTTA
*
10901232 ATTATTATTTTATTTCATTTTTTTTTT
1 ATTATTATTTT-TTTCATTTTTTTCTT
* *
10901259 ATTATCA-TATTTTCTATTTTATTTCTT
1 ATTATTATTTTTTTC-ATTTT-TTTCTT
10901286 ATTATTATTTTTTT
1 ATTATTATTTTTTT
10901300 ATACTTTACA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
25 4 0.12
26 7 0.21
27 17 0.52
28 5 0.15
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.74
Consensus pattern (26 bp):
ATTATTATTTTTTTCATTTTTTTCTT
Found at i:10902460 original size:34 final size:34
Alignment explanation
Indices: 10902421--10902494 Score: 112
Period size: 34 Copynumber: 2.2 Consensus size: 34
10902411 CACTCTAAAT
* *
10902421 TCCCTATGCGTAGATCGGTATTTCTTCCTCTCTC
1 TCCCTAAGCGTAGATCGCTATTTCTTCCTCTCTC
* *
10902455 TCCCTAAGCGTCGATCGCTATTTCTTCCTCTTTC
1 TCCCTAAGCGTAGATCGCTATTTCTTCCTCTCTC
10902489 TCCCTA
1 TCCCTA
10902495 CGCCCGTCGA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.12, C:0.35, G:0.12, T:0.41
Consensus pattern (34 bp):
TCCCTAAGCGTAGATCGCTATTTCTTCCTCTCTC
Found at i:10905350 original size:47 final size:47
Alignment explanation
Indices: 10905282--10905660 Score: 282
Period size: 47 Copynumber: 8.0 Consensus size: 47
10905272 AATTTCTTTA
* ** * *
10905282 AAGTTGCATAGCCTCAATTAAAGATGAGGAGCTTTTTCAATTATTTT
1 AAGTTGCGTAGCCTCGTTTAAAGACGAGGAGCTTTTTCAATCATTTT
* * * *
10905329 AAGTTGTGTAGCCTCTTTTAAAGAAGAGGAG-ATTTTCTAATCATTTT
1 AAGTTGCGTAGCCTCGTTTAAAGACGAGGAGCTTTTTC-AATCATTTT
* * *** * * * *
10905376 AAATTACGTAGCCTTAATTAGAGACGAGGAACTTTTCTAAATCATTTC
1 AAGTTGCGTAGCCTCGTTTAAAGACGAGGAGCTTTT-TCAATCATTTT
* * * *
10905424 AAGTTGCATAACCTCGTTTAGAA-ACGAGGAGCTTTTCCAATCAATTT
1 AAGTTGCGTAGCCTCGTTTA-AAGACGAGGAGCTTTTTCAATCATTTT
* * * * * *
10905471 AAGTTGTGTAGTCTCGTTTAGAGACAATGAGCTTTTCCAATCATTTT
1 AAGTTGCGTAGCCTCGTTTAAAGACGAGGAGCTTTTTCAATCATTTT
* * * * *
10905518 AAGTTGTGTAGTCTCG-TTAAGAGATGAAGAGC-TTTTCTAATAATTTT
1 AAGTTGCGTAGCCTCGTTTAA-AGACGAGGAGCTTTTTC-AATCATTTT
* * * *
10905565 AAGTTACATAGCCTCG-TTAAGAGATGAAGAGCTTTTTCAATCATTTT
1 AAGTTGCGTAGCCTCGTTTAA-AGACGAGGAGCTTTTTCAATCATTTT
* * * * * *
10905612 AAGTTGCGTAGCCTCGTTTACAGACAAGAAGCCTTTCCAATTATTTT
1 AAGTTGCGTAGCCTCGTTTAAAGACGAGGAGCTTTTTCAATCATTTT
10905659 AA
1 AA
10905661 AATTTGCGTA
Statistics
Matches: 262, Mismatches: 61, Indels: 18
0.77 0.18 0.05
Matches are distributed among these distances:
46 13 0.05
47 203 0.77
48 44 0.17
49 2 0.01
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.37
Consensus pattern (47 bp):
AAGTTGCGTAGCCTCGTTTAAAGACGAGGAGCTTTTTCAATCATTTT
Found at i:10905395 original size:94 final size:94
Alignment explanation
Indices: 10905290--10905631 Score: 321
Period size: 94 Copynumber: 3.6 Consensus size: 94
10905280 TAAAGTTGCA
* * * *
10905290 TAGCCTCAATTAAAGATGAGGAGCTTTTTCAATTATTTTAAGTTGTGTAGCCTCTTTTAAAGAAG
1 TAGCCTCAATTAAAGACGAGGAGCTTTTTCAATCATTTTAAGTTGCGTAGCCTCGTTTAAAGAAG
* *
10905355 AGGAGATTTTCTAATCATTTTAAATTACG
66 AGGAGCTTTTCTAATCATTTTAAGTTACG
* * * * * * *
10905384 TAGCCTTAATTAGAGACGAGGAACTTTTCTAAATCATTTCAAGTTGCATAACCTCGTTTAGAA-A
1 TAGCCTCAATTAAAGACGAGGAGCTTTT-TCAATCATTTTAAGTTGCGTAGCCTCGTTTA-AAGA
* * * **
10905448 CGAGGAGCTTTTCCAATCAATTTAAGTTGTG
64 AGAGGAGCTTTTCTAATCATTTTAAGTTACG
* ** * * * * * * *
10905479 TAGTCTCGTTTAGAGACAATGAGCTTTTCCAATCATTTTAAGTTGTGTAGTCTCG-TTAAGAGAT
1 TAGCCTCAATTAAAGACGAGGAGCTTTTTCAATCATTTTAAGTTGCGTAGCCTCGTTTAA-AGAA
* * *
10905543 GAAGAGCTTTTCTAATAATTTTAAGTTACA
65 GAGGAGCTTTTCTAATCATTTTAAGTTACG
* * *
10905573 TAGCCTC-GTTAAGAGATGAAGAGCTTTTTCAATCATTTTAAGTTGCGTAGCCTCGTTTA
1 TAGCCTCAATTAA-AGACGAGGAGCTTTTTCAATCATTTTAAGTTGCGTAGCCTCGTTTA
10905632 CAGACAAGAA
Statistics
Matches: 193, Mismatches: 49, Indels: 11
0.76 0.19 0.04
Matches are distributed among these distances:
92 1 0.01
93 7 0.04
94 110 0.57
95 73 0.38
96 2 0.01
ACGTcount: A:0.30, C:0.14, G:0.18, T:0.37
Consensus pattern (94 bp):
TAGCCTCAATTAAAGACGAGGAGCTTTTTCAATCATTTTAAGTTGCGTAGCCTCGTTTAAAGAAG
AGGAGCTTTTCTAATCATTTTAAGTTACG
Found at i:10905658 original size:94 final size:94
Alignment explanation
Indices: 10905262--10905660 Score: 315
Period size: 94 Copynumber: 4.2 Consensus size: 94
10905252 AGTTGCATAA
* * * *
10905262 GAGCTTTTCCAATTTC-TTTAAAGTTGCATAGCCTCAATTAA-AGATGAGGAGCTTTTTCAATTA
1 GAGCTTTTCCAA--TCATTTTAAGTTACATAGCCTC-ATTAAGAGATGAAGAGCTTTTTCAATCA
* * *
10905325 TTTTAAGTTGTGTAGCCTCTTTTAAAGA-AGAG
63 TTTTAAGTTGCGTAGCCTCGTTTAGAGACA-AG
* * * * * * * * *
10905357 GAGATTTTCTAATCATTTTAAATTACGTAGCCTTAATT-AGAGACGAGGAACTTTTCTAAATCAT
1 GAGCTTTTCCAATCATTTTAAGTTACATAGCC-TCATTAAGAGATGAAGAGCTTTT-TCAATCAT
* * * * *
10905421 TTCAAGTTGCATAACCTCGTTTAGAAACGAG
64 TTTAAGTTGCGTAGCCTCGTTTAGAGACAAG
* *** * * * * *
10905452 GAGCTTTTCCAATCAATTTAAGTTGTGTAGTCTCGTTTAGAGA-CAATGAGCTTTTCCAATCATT
1 GAGCTTTTCCAATCATTTTAAGTTACATAGCCTCATTAAGAGATGAA-GAGCTTTTTCAATCATT
* * * *
10905516 TTAAGTTGTGTAGTCTCGTTAAGAGATGAA-
65 TTAAGTTGCGTAGCCTCGTTTAGAGA-CAAG
* * *
10905546 GAGCTTTTCTAATAATTTTAAGTTACATAGCCTCGTTAAGAGATGAAGAGCTTTTTCAATCATTT
1 GAGCTTTTCCAATCATTTTAAGTTACATAGCCTCATTAAGAGATGAAGAGCTTTTTCAATCATTT
*
10905611 TAAGTTGCGTAGCCTCGTTTACAGACAAG
66 TAAGTTGCGTAGCCTCGTTTAGAGACAAG
* * *
10905640 AAGCCTTTCCAATTATTTTAA
1 GAGCTTTTCCAATCATTTTAA
10905661 AATTTGCGTA
Statistics
Matches: 233, Mismatches: 61, Indels: 21
0.74 0.19 0.07
Matches are distributed among these distances:
93 5 0.02
94 149 0.64
95 79 0.34
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.37
Consensus pattern (94 bp):
GAGCTTTTCCAATCATTTTAAGTTACATAGCCTCATTAAGAGATGAAGAGCTTTTTCAATCATTT
TAAGTTGCGTAGCCTCGTTTAGAGACAAG
Found at i:10912231 original size:4 final size:4
Alignment explanation
Indices: 10912222--10912257 Score: 72
Period size: 4 Copynumber: 9.0 Consensus size: 4
10912212 TGATAGGACA
10912222 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
10912258 CATCCATTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
GTAT
Found at i:10934217 original size:19 final size:19
Alignment explanation
Indices: 10934180--10934217 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
10934170 CCATTTAACT
* *
10934180 TATTGGAGTATGATTTGAG
1 TATTGGAGTATAATCTGAG
10934199 TATTGGAGTATAATCTGAG
1 TATTGGAGTATAATCTGAG
10934218 GGTTTGGCAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.29, C:0.03, G:0.29, T:0.39
Consensus pattern (19 bp):
TATTGGAGTATAATCTGAG
Found at i:10934424 original size:28 final size:29
Alignment explanation
Indices: 10934383--10934442 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
10934373 GTCTATGGGA
* *
10934383 AATTTTTCAGTTTT-TGGGGCAAAAATGT
1 AATTTTTCACTTTTAGGGGGCAAAAATGT
* *
10934411 AATTTTTGACTTTTACGGGGGCAAAAGTGT
1 AATTTTTCACTTTTA-GGGGGCAAAAATGT
10934441 AA
1 AA
10934443 ATTTAAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.30, C:0.08, G:0.23, T:0.38
Consensus pattern (29 bp):
AATTTTTCACTTTTAGGGGGCAAAAATGT
Found at i:10935606 original size:13 final size:13
Alignment explanation
Indices: 10935588--10935612 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10935578 AGAGAAATTG
10935588 TGATTTTATAAAA
1 TGATTTTATAAAA
10935601 TGATTTTATAAA
1 TGATTTTATAAA
10935613 TTTTCTGAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:10936836 original size:15 final size:16
Alignment explanation
Indices: 10936816--10936856 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
10936806 CAGAGATTTT
10936816 GATTTTAAAG-CTTTG
1 GATTTTAAAGTCTTTG
*
10936831 GATTTTAAAGTTTTTG
1 GATTTTAAAGTCTTTG
10936847 G-TTTTAAAGT
1 GATTTTAAAGT
10936857 TGTTTTAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 19 0.79
16 5 0.21
ACGTcount: A:0.27, C:0.02, G:0.20, T:0.51
Consensus pattern (16 bp):
GATTTTAAAGTCTTTG
Found at i:10936857 original size:15 final size:15
Alignment explanation
Indices: 10936812--10936857 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
10936802 AGATCAGAGA
*
10936812 TTTTGATTTTAAAG-
1 TTTTGGTTTTAAAGT
*
10936826 CTTTGGATTTTAAAGT
1 TTTTGG-TTTTAAAGT
10936842 TTTTGGTTTTAAAGT
1 TTTTGGTTTTAAAGT
10936857 T
1 T
10936858 GTTTTAAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 4 0.15
15 18 0.67
16 5 0.19
ACGTcount: A:0.24, C:0.02, G:0.17, T:0.57
Consensus pattern (15 bp):
TTTTGGTTTTAAAGT
Found at i:10936917 original size:14 final size:15
Alignment explanation
Indices: 10936892--10936924 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
10936882 TGCGTGGCCC
10936892 AAGTTAAGTTAAGTT
1 AAGTTAAGTTAAGTT
10936907 AAGTT-AGTTAAGTT
1 AAGTTAAGTTAAGTT
10936921 AAGT
1 AAGT
10936925 CAGGTTAGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.39, C:0.00, G:0.21, T:0.39
Consensus pattern (15 bp):
AAGTTAAGTTAAGTT
Found at i:10936931 original size:19 final size:19
Alignment explanation
Indices: 10936893--10936932 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
10936883 GCGTGGCCCA
*
10936893 AGTTAAGTTAAGTTAAGTT
1 AGTTAAGTTAAGTCAAGTT
*
10936912 AGTTAAGTTAAGTCAGGTT
1 AGTTAAGTTAAGTCAAGTT
10936931 AG
1 AG
10936933 GTAGAATAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.35, C:0.03, G:0.25, T:0.38
Consensus pattern (19 bp):
AGTTAAGTTAAGTCAAGTT
Found at i:10936934 original size:5 final size:5
Alignment explanation
Indices: 10936892--10936924 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
10936882 TGCGTGGCCC
10936892 AAGTT AAGTT AAGTT AAGTT -AGTT AAGTT AAGT
1 AAGTT AAGTT AAGTT AAGTT AAGTT AAGTT AAGT
10936925 CAGGTTAGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.39, C:0.00, G:0.21, T:0.39
Consensus pattern (5 bp):
AAGTT
Found at i:10940717 original size:19 final size:19
Alignment explanation
Indices: 10940680--10940717 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
10940670 CCATTTAACT
* *
10940680 TATTGGAGTATGATTTGAG
1 TATTGGAGTATAATCTGAG
10940699 TATTGGAGTATAATCTGAG
1 TATTGGAGTATAATCTGAG
10940718 GGTTTGGCAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.29, C:0.03, G:0.29, T:0.39
Consensus pattern (19 bp):
TATTGGAGTATAATCTGAG
Found at i:10942105 original size:13 final size:13
Alignment explanation
Indices: 10942087--10942111 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10942077 AGAGAAATTG
10942087 TGATTTTATAAAA
1 TGATTTTATAAAA
10942100 TGATTTTATAAA
1 TGATTTTATAAA
10942112 TTTTCTGAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Done.