Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 47 of 203
Found at i:15284430 original size:14 final size:15
Alignment explanation
Indices: 15284391--15284431 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
15284381 GATTTTTATT
* *
15284391 CTTTTAACATTAT-C
1 CTTTAAACATTTTAC
15284405 CTTTAAACATTTTAC
1 CTTTAAACATTTTAC
15284420 CTTTAAA-ATTTT
1 CTTTAAACATTTT
15284432 GAAAATTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 16 0.67
15 8 0.33
ACGTcount: A:0.32, C:0.17, G:0.00, T:0.51
Consensus pattern (15 bp):
CTTTAAACATTTTAC
Found at i:15291511 original size:48 final size:48
Alignment explanation
Indices: 15291455--15291549 Score: 154
Period size: 48 Copynumber: 2.0 Consensus size: 48
15291445 TGGATGCGTA
*
15291455 TTTGTTGGGGGTAAAGGAGAGGACTGAATAGTAGGAAAAGCTAGAGTG
1 TTTGTTGGGGGTAAAGGAGAGGACTGAACAGTAGGAAAAGCTAGAGTG
* * *
15291503 TTTGTTGGGGGTAAAGGAGATGATTGAACAGTAGGAAAGGCTAGAGT
1 TTTGTTGGGGGTAAAGGAGAGGACTGAACAGTAGGAAAAGCTAGAGT
15291550 ATTAGTGGGT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.33, C:0.04, G:0.39, T:0.24
Consensus pattern (48 bp):
TTTGTTGGGGGTAAAGGAGAGGACTGAACAGTAGGAAAAGCTAGAGTG
Found at i:15299457 original size:45 final size:43
Alignment explanation
Indices: 15299382--15299502 Score: 170
Period size: 43 Copynumber: 2.7 Consensus size: 43
15299372 AAGAGGTAGG
15299382 CAACTTTTTTTTTGCGCTGTTTGCTTTTTTTTTAAAGATTTTTCT
1 CAACTTTTTTTTTGCGCTGTTTGC--TTTTTTTAAAGATTTTTCT
* **
15299427 CAACTCTTTTTTTTTGCGCTGTTTACTTTTTTTTTAGATTTTTCT
1 CAA--CTTTTTTTTTGCGCTGTTTGCTTTTTTTAAAGATTTTTCT
*
15299472 CAACTTTTTTTTTGCGCTTTTTGCTTTTTTT
1 CAACTTTTTTTTTGCGCTGTTTGCTTTTTTT
15299503 TATTAACTAA
Statistics
Matches: 69, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
43 26 0.38
45 23 0.33
47 20 0.29
ACGTcount: A:0.11, C:0.15, G:0.10, T:0.64
Consensus pattern (43 bp):
CAACTTTTTTTTTGCGCTGTTTGCTTTTTTTAAAGATTTTTCT
Found at i:15299503 original size:45 final size:45
Alignment explanation
Indices: 15299382--15299503 Score: 194
Period size: 47 Copynumber: 2.7 Consensus size: 45
15299372 AAGAGGTAGG
15299382 CAACTTTTTTTTTGCGCTGTTTGCTTTTTTTTTAAAGATTTTTCT
1 CAACTTTTTTTTTGCGCTGTTTGCTTTTTTTTTAAAGATTTTTCT
*
15299427 CAACTCTTTTTTTTTGCGCTGTTTACTTTTTTTTT--AGATTTTTCT
1 CAA--CTTTTTTTTTGCGCTGTTTGCTTTTTTTTTAAAGATTTTTCT
*
15299472 CAACTTTTTTTTTGCGCTTTTTGCTTTTTTTT
1 CAACTTTTTTTTTGCGCTGTTTGCTTTTTTTT
15299504 ATTAACTAAT
Statistics
Matches: 72, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
43 27 0.38
45 16 0.22
47 29 0.40
ACGTcount: A:0.11, C:0.15, G:0.10, T:0.65
Consensus pattern (45 bp):
CAACTTTTTTTTTGCGCTGTTTGCTTTTTTTTTAAAGATTTTTCT
Found at i:15300125 original size:31 final size:31
Alignment explanation
Indices: 15300032--15300127 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
15300022 GGCAAATTAC
*
15300032 AAGAGTAATTGAATCCTAATAAAACTCTTTC
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
15300063 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
15300095 AAGAGTAATTGAATCCTAATAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
15300126 AA
1 AA
15300128 ATTATCTAAG
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.46, C:0.14, G:0.09, T:0.31
Consensus pattern (31 bp):
AAGAGTAATTGAATCCTAATAAAACTCTTTA
Found at i:15300903 original size:30 final size:25
Alignment explanation
Indices: 15300848--15300897 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
15300838 CATCAAAATG
15300848 TCTCGAGTCTTGATGTCCTTAACAA
1 TCTCGAGTCTTGATGTCCTTAACAA
15300873 TCTCGAGTCTTGATGTCCTTAACAA
1 TCTCGAGTCTTGATGTCCTTAACAA
15300898 CACAATAGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (25 bp):
TCTCGAGTCTTGATGTCCTTAACAA
Found at i:15303847 original size:3 final size:3
Alignment explanation
Indices: 15303839--15303876 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
15303829 TTGCGGTCCT
15303839 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
15303877 TGTTTAATTA
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:15304627 original size:21 final size:21
Alignment explanation
Indices: 15304601--15304651 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
15304591 GTTGTTATTA
*
15304601 TTATTTTTAATTTT-CACAAT
1 TTATTTTTAATTTTGCAAAAT
*
15304621 TT-TATTTTAATTTTGTAAAAT
1 TTAT-TTTTAATTTTGCAAAAT
15304642 TTATTTTTAA
1 TTATTTTTAA
15304652 AAATATCAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 1 0.04
20 12 0.46
21 12 0.46
22 1 0.04
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (21 bp):
TTATTTTTAATTTTGCAAAAT
Found at i:15310645 original size:3 final size:3
Alignment explanation
Indices: 15310603--15310627 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
15310593 ACAATAACTA
15310603 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
15310628 GAACATCCAA
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:15330575 original size:5 final size:5
Alignment explanation
Indices: 15330561--15330723 Score: 319
Period size: 5 Copynumber: 32.8 Consensus size: 5
15330551 AATGTTTAAG
15330561 TATA- TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
15330610 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
15330660 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
15330710 TATAT TATAT TATA
1 TATAT TATAT TATA
15330724 AAATAAAGAA
Statistics
Matches: 158, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
4 4 0.03
5 154 0.97
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:15330755 original size:24 final size:25
Alignment explanation
Indices: 15330723--15330773 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
15330713 ATTATATTAT
* * *
15330723 AAAATAAAGAAATAAAA-GAAATAG
1 AAAAGAAAGAAAGAAAACGAAACAG
15330747 AAAAGAAAGAAAGAAAACGAAACAG
1 AAAAGAAAGAAAGAAAACGAAACAG
15330772 AA
1 AA
15330774 GGGAAAAAGG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 15 0.65
25 8 0.35
ACGTcount: A:0.75, C:0.04, G:0.16, T:0.06
Consensus pattern (25 bp):
AAAAGAAAGAAAGAAAACGAAACAG
Found at i:15331810 original size:40 final size:40
Alignment explanation
Indices: 15331689--15331828 Score: 144
Period size: 40 Copynumber: 3.5 Consensus size: 40
15331679 GACTTCTAGT
* * * *
15331689 CGATGAGACACTGGGTGTCAATTTATTACTTTGGATATATT
1 CGATGAGGCACTGGGTGTCAAATTATTACTTCGGAT-TATC
* * *
15331730 CGATGAGGCACTGGGTG-CCAA-T-TTACTTCGGTTTAGC
1 CGATGAGGCACTGGGTGTCAAATTATTACTTCGGATTATC
*
15331767 CGATG-GGACACTGGGTGTCAAATTATTACTTCGAATTATC
1 CGATGAGG-CACTGGGTGTCAAATTATTACTTCGGATTATC
**
15331807 CGATGAGGCACTTAGTGTCAAA
1 CGATGAGGCACTGGGTGTCAAA
15331829 CTGGTGTGTT
Statistics
Matches: 81, Mismatches: 13, Indels: 11
0.77 0.12 0.10
Matches are distributed among these distances:
36 2 0.02
37 16 0.20
38 12 0.15
39 2 0.02
40 31 0.38
41 18 0.22
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (40 bp):
CGATGAGGCACTGGGTGTCAAATTATTACTTCGGATTATC
Found at i:15333653 original size:46 final size:45
Alignment explanation
Indices: 15333555--15333716 Score: 220
Period size: 46 Copynumber: 3.6 Consensus size: 45
15333545 TACGTATGAT
* * * *
15333555 CACTTATTACTTGTC-CTTAATCAGATAAGCGTAGCT-AGGCTAC
1 CACTTATCACTTTTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
15333598 CACTTATCACTATTTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
1 CACTTATCACT-TTTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* *
15333644 CACTTATCACTTTTTCACTTGATCAAATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC-TTTTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
*
15333690 CACTTATCACTTTATCTCTTGATCAGA
1 CACTTATCACTTT-TCACTTGATCAGA
15333717 AGTACTCAAA
Statistics
Matches: 106, Mismatches: 8, Indels: 7
0.88 0.07 0.06
Matches are distributed among these distances:
43 10 0.09
44 3 0.03
45 22 0.21
46 70 0.66
47 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.35
Consensus pattern (45 bp):
CACTTATCACTTTTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
Found at i:15339620 original size:27 final size:27
Alignment explanation
Indices: 15339567--15339620 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
15339557 TAAATATATA
**
15339567 TATTTTTTAATTTTAAAATAATTTTTT
1 TATTTTTTAATTTTAAAATAAAGTTTT
*
15339594 TATTTTTTATTTTTAAAATAAAGTTTT
1 TATTTTTTAATTTTAAAATAAAGTTTT
15339621 GGTGTTTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (27 bp):
TATTTTTTAATTTTAAAATAAAGTTTT
Found at i:15340299 original size:17 final size:17
Alignment explanation
Indices: 15340269--15340302 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
15340259 TTTCAAAAAA
*
15340269 ATTAAAAATAATTTTTT
1 ATTAAAAACAATTTTTT
*
15340286 ATTAAAAACGATTTTTT
1 ATTAAAAACAATTTTTT
15340303 TAAATTCTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (17 bp):
ATTAAAAACAATTTTTT
Found at i:15352439 original size:19 final size:18
Alignment explanation
Indices: 15352411--15352447 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
15352401 AAATATATAA
*
15352411 TAATATTTTATATTTCTT
1 TAATATTTTATAATTCTT
15352429 TAATGATTTTATAATTCTT
1 TAAT-ATTTTATAATTCTT
15352448 GTTATTCATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (18 bp):
TAATATTTTATAATTCTT
Found at i:15366091 original size:53 final size:51
Alignment explanation
Indices: 15365993--15366165 Score: 179
Period size: 53 Copynumber: 3.3 Consensus size: 51
15365983 CATACATAAG
* *
15365993 AGGACTATGACTCATCAAACTTTATCAAAAGTAAAGTTCAATAATTTACAAA
1 AGGACAATGACTCATCAAACTTTAT-AAAAGTAAAGTACAATAATTTACAAA
* *
15366045 AGGACAATGACTCACTCATACTTTA-ATAAAGTAAAAGTACAATAATTTACAAG
1 AGGACAATGACTCA-TCAAACTTTATA-AAAGT-AAAGTACAATAATTTACAAA
* * * * * *
15366098 AGGGCGATGACTCATACAAACTTTTATAAAAGTAAAGGATAATAATTTATAAGC
1 AGGACAATGACTCAT-CAAAC-TTTATAAAAGTAAAGTACAATAATTTACAA-A
15366152 A-GACAATGACTCAT
1 AGGACAATGACTCAT
15366166 TCAATTAGTG
Statistics
Matches: 101, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
51 1 0.01
52 19 0.19
53 70 0.69
54 10 0.10
55 1 0.01
ACGTcount: A:0.46, C:0.14, G:0.13, T:0.27
Consensus pattern (51 bp):
AGGACAATGACTCATCAAACTTTATAAAAGTAAAGTACAATAATTTACAAA
Found at i:15367958 original size:6 final size:7
Alignment explanation
Indices: 15367939--15367968 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
15367929 AAATATCTAA
15367939 AATTTTT
1 AATTTTT
15367946 AATTTTT
1 AATTTTT
15367953 AATTTTT
1 AATTTTT
15367960 AATTTTT
1 AATTTTT
15367967 AA
1 AA
15367969 AAAAAAATAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (7 bp):
AATTTTT
Found at i:15380441 original size:22 final size:23
Alignment explanation
Indices: 15380411--15380453 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
15380401 AGTATGATTA
15380411 AAAACTATTACGATTAAAAACAC
1 AAAACTATTACGATTAAAAACAC
*
15380434 AAAA-TATTAGGATTAAAAAC
1 AAAACTATTACGATTAAAAAC
15380454 TAAAGTCATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.58, C:0.12, G:0.07, T:0.23
Consensus pattern (23 bp):
AAAACTATTACGATTAAAAACAC
Found at i:15388695 original size:22 final size:22
Alignment explanation
Indices: 15388670--15388733 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 22
15388660 CTTCCATTCG
15388670 TCCCATAAAGGGCTCTCATACA
1 TCCCATAAAGGGCTCTCATACA
** * * * *
15388692 TCCCACGAGGGGCACTCAAACG
1 TCCCATAAAGGGCTCTCATACA
*
15388714 TCCGATAAAGGGCTCTCATA
1 TCCCATAAAGGGCTCTCATA
15388734 TACTGGTGCG
Statistics
Matches: 30, Mismatches: 12, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.30, C:0.31, G:0.20, T:0.19
Consensus pattern (22 bp):
TCCCATAAAGGGCTCTCATACA
Found at i:15394321 original size:26 final size:26
Alignment explanation
Indices: 15394270--15394321 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
15394260 TCAGGATACT
**
15394270 CGGGCTCGAGAAGTCGCCTTGGGAAA
1 CGGGCTCGAGAAGTCGCCTTAAGAAA
15394296 CGGGCTCGAGAAGTCGCCTTAAGAAA
1 CGGGCTCGAGAAGTCGCCTTAAGAAA
15394322 GAGTCTACTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.27, C:0.23, G:0.35, T:0.15
Consensus pattern (26 bp):
CGGGCTCGAGAAGTCGCCTTAAGAAA
Found at i:15399473 original size:30 final size:30
Alignment explanation
Indices: 15399437--15399498 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
15399427 AGTCTATGTT
*
15399437 GACGATATGATCGCAAAGTCTAGATCGGAA
1 GACGATATGATCGCAAAGTCTAGAACGGAA
*
15399467 GACGATATGATCGCGAAGTCTAGAACGGAA
1 GACGATATGATCGCAAAGTCTAGAACGGAA
15399497 GA
1 GA
15399499 AGAGCATGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.29, T:0.18
Consensus pattern (30 bp):
GACGATATGATCGCAAAGTCTAGAACGGAA
Found at i:15403656 original size:87 final size:85
Alignment explanation
Indices: 15403395--15403685 Score: 249
Period size: 87 Copynumber: 3.4 Consensus size: 85
15403385 AAGAATTGCA
*
15403395 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAATATAGTAATCCTATCTCCCTGAGATTA
1 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAA-ACA-T-ATCCTATCTCCCTGAGATTA
15403460 CAGTGGAGCGGA-T----TAAAG
63 CAGTGGAGCGGATTAAAATAAAG
* ** * * * ** * *
15403478 GATCTTATCTCTCTGA-AGTTACAGTAGAGCAGATCGCACCAGGTCTTATTTCCCTGAGATTACA
1 GATCTTATCTCCCTGAGA-TTACAGCGGAGCAGATTGAAACATATCCTATCTCCCTGAGATTACA
* * * **
15403542 GTGGAACAGACTAAAGAATTTCA-
65 GTGGAGCGGA-TTAA-AA-TAAAG
*
15403565 GATCTTATCTCCCTGAGATTACAACGGAGCAGATTGAAGACACTATCCTATCTCCCTGA-AGTTA
1 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAA-ACA-TATCCTATCTCCCTGAGA-TTA
15403629 CAGTGGAGCGGATTAAAATAAAG
63 CAGTGGAGCGGATTAAAATAAAG
* *
15403652 GATCTTATCTCCCTGA-AGTTACAGCAGAGTAGAT
1 GATCTTATCTCCCTGAGA-TTACAGCGGAGCAGAT
15403686 CGCATCAAGT
Statistics
Matches: 158, Mismatches: 35, Indels: 26
0.72 0.16 0.12
Matches are distributed among these distances:
80 27 0.17
82 2 0.01
83 31 0.20
86 3 0.02
87 61 0.39
88 9 0.06
89 25 0.16
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.27
Consensus pattern (85 bp):
GATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAACATATCCTATCTCCCTGAGATTACAG
TGGAGCGGATTAAAATAAAG
Found at i:15403720 original size:174 final size:170
Alignment explanation
Indices: 15403350--15403727 Score: 528
Period size: 170 Copynumber: 2.2 Consensus size: 170
15403340 CATTATACAG
* * **
15403350 GTCTTATTCCCCTGAGATTACGGTGGAACAGACCGAAGAATTGCAGATCTTATCTCCCTGAGATT
1 GTCTTATTTCCCTGAGATTACAGTGGAACAGACTAAAGAATTGCAGATCTTATCTCCCTGAGATT
* * * *
15403415 ACAGCGGAGCAGATTGAATATAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAGGA
66 ACAACGGAGCAGATTGAAGACACTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAGGA
* * *
15403480 TCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCACCAG
131 TCTTATCTCCCTGAAGTTACAGCAGAGCAGATCGCACCAA
*
15403520 GTCTTATTTCCCTGAGATTACAGTGGAACAGACTAAAGAATTTCAGATCTTATCTCCCTGAGATT
1 GTCTTATTTCCCTGAGATTACAGTGGAACAGACTAAAGAATTGCAGATCTTATCTCCCTGAGATT
15403585 ACAACGGAGCAGATTGAAGACACT-ATCCTATCTCCCTGA-AGTTACAGTGGAGCGGATTAAAAT
66 ACAACGGAGCAGATTGAAGACACTAATCCTATCTCCCTGAGA-TTACAGTGGAGCGGA-T----T
* *
15403648 AAAGGATCTTATCTCCCTGAAGTTACAGCAGAGTAGATCGCATCAA
125 AAAGGATCTTATCTCCCTGAAGTTACAGCAGAGCAGATCGCACCAA
* *
15403694 GTCTTATTTCCCTGAAGA-TGCAGTGGAATAGACT
1 GTCTTATTTCCCTG-AGATTACAGTGGAACAGACT
15403728 GAAAACANNN
Statistics
Matches: 185, Mismatches: 16, Indels: 10
0.88 0.08 0.05
Matches are distributed among these distances:
168 1 0.01
169 30 0.16
170 81 0.44
174 70 0.38
175 3 0.02
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (170 bp):
GTCTTATTTCCCTGAGATTACAGTGGAACAGACTAAAGAATTGCAGATCTTATCTCCCTGAGATT
ACAACGGAGCAGATTGAAGACACTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAGGA
TCTTATCTCCCTGAAGTTACAGCAGAGCAGATCGCACCAA
Found at i:15410092 original size:15 final size:15
Alignment explanation
Indices: 15410072--15410105 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
15410062 CCTATTTTTT
*
15410072 TTAATGTGTTAGAAA
1 TTAATGTGTTACAAA
15410087 TTAATGTGTTACAAA
1 TTAATGTGTTACAAA
15410102 TTAA
1 TTAA
15410106 ATGTATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.41, C:0.03, G:0.15, T:0.41
Consensus pattern (15 bp):
TTAATGTGTTACAAA
Found at i:15410174 original size:21 final size:21
Alignment explanation
Indices: 15410145--15410187 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
15410135 TAAAAGTTAA
*
15410145 AACATTATATTAAAACAATAT
1 AACAGTATATTAAAACAATAT
*
15410166 AACAGTATATTATAACAATAT
1 AACAGTATATTAAAACAATAT
15410187 A
1 A
15410188 TTAAAACAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.56, C:0.09, G:0.02, T:0.33
Consensus pattern (21 bp):
AACAGTATATTAAAACAATAT
Found at i:15410208 original size:15 final size:13
Alignment explanation
Indices: 15410141--15410226 Score: 94
Period size: 13 Copynumber: 7.0 Consensus size: 13
15410131 AATTTAAAAG
*
15410141 TTAAAACATTATA
1 TTAAAACAATATA
15410154 TTAAAAC-A-ATA
1 TTAAAACAATATA
*
15410165 -T--AACAGTATA
1 TTAAAACAATATA
*
15410175 TTATAACAATATA
1 TTAAAACAATATA
15410188 TTAAAACAATATA
1 TTAAAACAATATA
15410201 TTAAAA-AAGTATA
1 TTAAAACAA-TATA
15410214 TTAAAACAATATA
1 TTAAAACAATATA
15410227 ACCGAACTCA
Statistics
Matches: 62, Mismatches: 4, Indels: 14
0.77 0.05 0.17
Matches are distributed among these distances:
8 3 0.05
10 4 0.06
11 4 0.06
12 2 0.03
13 47 0.76
14 2 0.03
ACGTcount: A:0.58, C:0.07, G:0.02, T:0.33
Consensus pattern (13 bp):
TTAAAACAATATA
Found at i:15411504 original size:7 final size:7
Alignment explanation
Indices: 15411492--15411516 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
15411482 TATTAATGAC
15411492 AAAATAA
1 AAAATAA
15411499 AAAATAA
1 AAAATAA
15411506 AAAATAA
1 AAAATAA
15411513 AAAA
1 AAAA
15411517 AAATTATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAATAA
Found at i:15414179 original size:49 final size:49
Alignment explanation
Indices: 15414126--15414277 Score: 134
Period size: 49 Copynumber: 3.1 Consensus size: 49
15414116 CACCAATTTG
15414126 AGCACATCAAATATTGATCATTAATCTAGATATATTAAACCAAATATTA
1 AGCACATCAAATATTGATCATTAATCTAGATATATTAAACCAAATATTA
* * ** * **** *
15414175 AGCACA-CATAAT-TGAGAACAAGAAACTA-AGTAT-TTGCTGCATAAT-TTG
1 AGCACATCA-AATAT-TGATCATTAATCTAGA-TATATTAAACCA-AATATTA
*
15414223 AGCACATCAAATATTGATCATTAATCTAGATATATTAAACCAAACATTA
1 AGCACATCAAATATTGATCATTAATCTAGATATATTAAACCAAATATTA
15414272 AGCACA
1 AGCACA
15414278 CATAATTGAG
Statistics
Matches: 73, Mismatches: 21, Indels: 18
0.65 0.19 0.16
Matches are distributed among these distances:
48 33 0.45
49 40 0.55
ACGTcount: A:0.45, C:0.16, G:0.10, T:0.29
Consensus pattern (49 bp):
AGCACATCAAATATTGATCATTAATCTAGATATATTAAACCAAATATTA
Found at i:15414286 original size:97 final size:97
Alignment explanation
Indices: 15414120--15414315 Score: 374
Period size: 97 Copynumber: 2.0 Consensus size: 97
15414110 TTCAATCACC
*
15414120 AATTTGAGCACATCAAATATTGATCATTAATCTAGATATATTAAACCAAATATTAAGCACACATA
1 AATTTGAGCACATCAAATATTGATCATTAATCTAGATATATTAAACCAAACATTAAGCACACATA
15414185 ATTGAGAACAAGAAACTAAGTATTTGCTGCAT
66 ATTGAGAACAAGAAACTAAGTATTTGCTGCAT
15414217 AATTTGAGCACATCAAATATTGATCATTAATCTAGATATATTAAACCAAACATTAAGCACACATA
1 AATTTGAGCACATCAAATATTGATCATTAATCTAGATATATTAAACCAAACATTAAGCACACATA
*
15414282 ATTGAGAACAAGAAACTAAGTATTTGTTGCAT
66 ATTGAGAACAAGAAACTAAGTATTTGCTGCAT
15414314 AA
1 AA
15414316 ATATAAATCA
Statistics
Matches: 97, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
97 97 1.00
ACGTcount: A:0.45, C:0.14, G:0.11, T:0.30
Consensus pattern (97 bp):
AATTTGAGCACATCAAATATTGATCATTAATCTAGATATATTAAACCAAACATTAAGCACACATA
ATTGAGAACAAGAAACTAAGTATTTGCTGCAT
Found at i:15416407 original size:343 final size:344
Alignment explanation
Indices: 15415751--15416437 Score: 1092
Period size: 343 Copynumber: 2.0 Consensus size: 344
15415741 CACTCTTTTC
15415751 CTCCACTAGAGATTCTAATGATGGATGATTATGCGGGTTTATTTTTGTAGAATTCATGTGCATCT
1 CTCCACTAGAGATTCTAATGATGGATGATTATGCGGGTTTATTTTTGTAGAATTCATGTGCATCT
* * * *
15415816 TCCTTACGATCAACGTGAGGATAGTTCTCATTACTATGCCTATAACAGCGACAGTGATAACAAAT
66 CCCTTACGATAAACGTGAGGATAGTTCTCATTACTATGCCTATAACAACCACAGTGATAACAAAT
* * *
15415881 CAATGGTAACCCTCATATTCTACATATTGTGCAAAACCACCAATACTTATAAATGCTTGAAGCAG
131 CAATGGTAACCCTCATATTCCACATACTGTGCAAAACCACCAATACTTATAAATGCTTGAAGCAA
* * *
15415946 TTTGTTAAAATCTAAAACTATGGCAAACCTAGCAAACTTCCCTTACCTCCCTTCTTTACTGTTAT
196 TTTGTTAAAATCTAAAACTATGGAAAACCTAGCAAACTTCCCTCACCTCCATTCTTTACTGTTAT
* * *
15416011 AGTCCACTTTGGCTACTTGACTAAGAACACCCGCAATGACCCTTAATAACTTCTTGGAATAATAG
261 AATCCACTTTGGCTACTCGACTAAGAACACCCGCAATGACCCTTAACAACTTCTTGGAATAATAG
*
15416076 CGACAAGGAGCCTTGGTAA
326 CGACAAGGAGCCTTAGTAA
* * *
15416095 NCTCCACTAGAGCTTCTAATGATGGATGATTATGCTGGTTTATTTTTGTAGAATTCGTGTGCATC
1 -CTCCACTAGAGATTCTAATGATGGATGATTATGCGGGTTTATTTTTGTAGAATTCATGTGCATC
* * * *
15416160 TCCCCTT-CGATAAACTTGATGATAGTTCTCATTACTATGCCTATAACAACCACAGTGATAATAG
65 T-CCCTTACGATAAACGTGAGGATAGTTCTCATTACTATGCCTATAACAACCACAGTGATAACAA
*
15416224 ATCAATGGTAA-CCTTATATTCCACATACTGTGCAAAACCACCAATACTTAT-AATGCTTGAAGC
129 ATCAATGGTAACCCTCATATTCCACATACTGTGCAAAACCACCAATACTTATAAATGCTTGAAGC
* * *
15416287 AATTTGTTAAAATCTAAAACTATGGAAAACCTAGCAAACTTCCCTCGCCTCTATTCTTTATTGTT
194 AATTTGTTAAAATCTAAAACTATGGAAAACCTAGCAAACTTCCCTCACCTCCATTCTTTACTGTT
* *
15416352 ATAATCCAGTTTGGCTACTCGACTAAGAACACCCGCAATGACCCTTAACAACTTCTTGGTATAAT
259 ATAATCCACTTTGGCTACTCGACTAAGAACACCCGCAATGACCCTTAACAACTTCTTGGAATAAT
15416417 AGCGACAAGGAGCCTTAGTAA
324 AGCGACAAGGAGCCTTAGTAA
15416438 TCTTATCCAA
Statistics
Matches: 314, Mismatches: 27, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
343 150 0.48
344 37 0.12
345 123 0.39
346 4 0.01
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.31
Consensus pattern (344 bp):
CTCCACTAGAGATTCTAATGATGGATGATTATGCGGGTTTATTTTTGTAGAATTCATGTGCATCT
CCCTTACGATAAACGTGAGGATAGTTCTCATTACTATGCCTATAACAACCACAGTGATAACAAAT
CAATGGTAACCCTCATATTCCACATACTGTGCAAAACCACCAATACTTATAAATGCTTGAAGCAA
TTTGTTAAAATCTAAAACTATGGAAAACCTAGCAAACTTCCCTCACCTCCATTCTTTACTGTTAT
AATCCACTTTGGCTACTCGACTAAGAACACCCGCAATGACCCTTAACAACTTCTTGGAATAATAG
CGACAAGGAGCCTTAGTAA
Found at i:15427421 original size:18 final size:18
Alignment explanation
Indices: 15427387--15427460 Score: 71
Period size: 18 Copynumber: 4.1 Consensus size: 18
15427377 AAAATTAAAA
* *
15427387 AAAATTCAAAATAATTTTT
1 AAAATTAAAAAT-ATTTAT
15427406 AAAATTAAAAATATTTAT
1 AAAATTAAAAATATTTAT
*
15427424 AAAA-AATAAAATATTTAT
1 AAAATTA-AAAATATTTAT
*
15427442 AAAA-AATAAAATATTTAT
1 AAAATTA-AAAATATTTAT
15427460 A
1 A
15427461 TTTTTAAAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
17 1 0.02
18 39 0.76
19 11 0.22
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.36
Consensus pattern (18 bp):
AAAATTAAAAATATTTAT
Found at i:15427445 original size:36 final size:39
Alignment explanation
Indices: 15427385--15427460 Score: 97
Period size: 36 Copynumber: 2.0 Consensus size: 39
15427375 ACAAAATTAA
* *
15427385 AAAAAATTCAAAATAATTT-TTAAAATTAAAAATATTTAT
1 AAAAAATTCAAAATAATTTATAAAAAAT-AAAATATTTAT
15427424 AAAAAA-T-AAAAT-ATTTATAAAAAATAAAATATTTAT
1 AAAAAATTCAAAATAATTTATAAAAAATAAAATATTTAT
15427460 A
1 A
15427461 TTTTTAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 16 0.47
37 11 0.32
38 1 0.03
39 6 0.18
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.36
Consensus pattern (39 bp):
AAAAAATTCAAAATAATTTATAAAAAATAAAATATTTAT
Found at i:15427473 original size:19 final size:20
Alignment explanation
Indices: 15427449--15427492 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
15427439 TATAAAAAAT
* *
15427449 AAAATAT-TTATATTTTTAA
1 AAAATATATAATAATTTTAA
15427468 AAAATATATAATAATTTTAA
1 AAAATATATAATAATTTTAA
15427488 AAAAT
1 AAAAT
15427493 TCCAAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
AAAATATATAATAATTTTAA
Found at i:15433963 original size:18 final size:18
Alignment explanation
Indices: 15433940--15433976 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
15433930 AAATATTTTT
15433940 CACTTTTGGGGACCAAAG
1 CACTTTTGGGGACCAAAG
15433958 CACTTTTGGGGACCAAAG
1 CACTTTTGGGGACCAAAG
15433976 C
1 C
15433977 CTCCACTCGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (18 bp):
CACTTTTGGGGACCAAAG
Found at i:15443865 original size:6 final size:6
Alignment explanation
Indices: 15443854--15443939 Score: 172
Period size: 6 Copynumber: 14.3 Consensus size: 6
15443844 CTATTGCAGG
15443854 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
15443902 TACATA TACATA TACATA TACATA TACATA TACATA TA
1 TACATA TACATA TACATA TACATA TACATA TACATA TA
15443940 TGTATATGTT
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 80 1.00
ACGTcount: A:0.50, C:0.16, G:0.00, T:0.34
Consensus pattern (6 bp):
TACATA
Found at i:15456179 original size:22 final size:22
Alignment explanation
Indices: 15456153--15456199 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
15456143 TTTTTTATCC
*
15456153 TTCCATTCTACCCTCTCCTTTA
1 TTCCATCCTACCCTCTCCTTTA
15456175 TTCCATCCTACCCTCTCCTTTA
1 TTCCATCCTACCCTCTCCTTTA
15456197 TTC
1 TTC
15456200 ATTTTAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.13, C:0.43, G:0.00, T:0.45
Consensus pattern (22 bp):
TTCCATCCTACCCTCTCCTTTA
Found at i:15456894 original size:15 final size:16
Alignment explanation
Indices: 15456874--15456906 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
15456864 ATTCTTATAT
*
15456874 ATATTTTT-TCTAAAA
1 ATATTTTTATATAAAA
15456889 ATATTTTTATATAAAA
1 ATATTTTTATATAAAA
15456905 AT
1 AT
15456907 TTTAAGTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (16 bp):
ATATTTTTATATAAAA
Found at i:15465965 original size:15 final size:15
Alignment explanation
Indices: 15465934--15465975 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
15465924 AGTGATCCAC
15465934 ATAAAAATAATTAAAAT
1 ATAAAAAT-A-TAAAAT
*
15465951 ATATAAATATAAAAT
1 ATAAAAATATAAAAT
15465966 ATAAAAATAT
1 ATAAAAATAT
15465976 TTTTTTAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 15 0.65
16 1 0.04
17 7 0.30
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
ATAAAAATATAAAAT
Found at i:15465972 original size:8 final size:8
Alignment explanation
Indices: 15465934--15465975 Score: 50
Period size: 8 Copynumber: 5.2 Consensus size: 8
15465924 AGTGATCCAC
15465934 ATAAAAAT
1 ATAAAAAT
*
15465942 AATTAAAAT
1 -ATAAAAAT
*
15465951 ATATAAAT
1 ATAAAAAT
15465959 AT-AAAAT
1 ATAAAAAT
15465966 ATAAAAAT
1 ATAAAAAT
15465974 AT
1 AT
15465976 TTTTTTAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
7 6 0.21
8 15 0.54
9 7 0.25
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (8 bp):
ATAAAAAT
Found at i:15468015 original size:24 final size:24
Alignment explanation
Indices: 15467986--15468039 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
15467976 TCTTTCTAGA
*
15467986 ATATTTAGTACTTATGAGTATAAT
1 ATATTTAGTACTTATGAGCATAAT
* **
15468010 ATATTTAGTATTTATTTGCATAAT
1 ATATTTAGTACTTATGAGCATAAT
15468034 ATATTT
1 ATATTT
15468040 GACTTTAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.35, C:0.04, G:0.09, T:0.52
Consensus pattern (24 bp):
ATATTTAGTACTTATGAGCATAAT
Found at i:15483628 original size:7 final size:7
Alignment explanation
Indices: 15483616--15483643 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
15483606 AATACAGAAA
15483616 AATAAAT
1 AATAAAT
15483623 AATAAAT
1 AATAAAT
15483630 AATAAAT
1 AATAAAT
15483637 AATAAAT
1 AATAAAT
15483644 TTAAATTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
AATAAAT
Found at i:15483629 original size:21 final size:21
Alignment explanation
Indices: 15483604--15483643 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
15483594 AATATTTTTT
15483604 TAAATACAGAAA-AATAAATAA
1 TAAATA-AGAAATAATAAATAA
*
15483625 TAAATAATAAATAATAAAT
1 TAAATAAGAAATAATAAAT
15483644 TTAAATTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.25
Consensus pattern (21 bp):
TAAATAAGAAATAATAAATAA
Found at i:15490556 original size:11 final size:11
Alignment explanation
Indices: 15490540--15490582 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
15490530 TACAAAATAT
*
15490540 TTATTTTTTTA
1 TTATTTTTTTG
*
15490551 TTATTTTGTTG
1 TTATTTTTTTG
* *
15490562 CTATTTTCTTG
1 TTATTTTTTTG
15490573 TTATTTTTTT
1 TTATTTTTTT
15490583 TCACTATTTT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.12, C:0.05, G:0.07, T:0.77
Consensus pattern (11 bp):
TTATTTTTTTG
Found at i:15496231 original size:3 final size:3
Alignment explanation
Indices: 15496223--15496262 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
15496213 ACTCAATCAC
15496223 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
15496263 TAGGTTATGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:15496316 original size:14 final size:14
Alignment explanation
Indices: 15496284--15496326 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
15496274 TGATAGATTG
* *
15496284 AAAAATTAAGTGTCA
1 AAAAATTAAGTAT-T
15496299 AAAAATTAAGTATT
1 AAAAATTAAGTATT
15496313 AAAAATTAAGTATT
1 AAAAATTAAGTATT
15496327 GAATTTAAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
14 14 0.54
15 12 0.46
ACGTcount: A:0.56, C:0.02, G:0.09, T:0.33
Consensus pattern (14 bp):
AAAAATTAAGTATT
Found at i:15496727 original size:23 final size:24
Alignment explanation
Indices: 15496701--15496752 Score: 61
Period size: 25 Copynumber: 2.2 Consensus size: 24
15496691 TAAAATAGTT
* *
15496701 TTAACTATT-TAAATATATATTTA
1 TTAACTATTAAAAAAATATATTTA
*
15496724 TTAATTATTCAAAAAAATATATTTA
1 TTAACTATT-AAAAAAATATATTTA
15496749 TTAA
1 TTAA
15496753 ATAATTTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 8 0.33
25 16 0.67
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (24 bp):
TTAACTATTAAAAAAATATATTTA
Found at i:15499545 original size:15 final size:15
Alignment explanation
Indices: 15499527--15499569 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
15499517 CACTGTCGAA
*
15499527 TTCATCATCATCTTC
1 TTCATCATCATCTCC
* *
15499542 TTCATCCTCCTCTCC
1 TTCATCATCATCTCC
*
15499557 TTCATCAGCATCT
1 TTCATCATCATCT
15499570 GAAAAGTAAG
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.16, C:0.40, G:0.02, T:0.42
Consensus pattern (15 bp):
TTCATCATCATCTCC
Found at i:15502054 original size:55 final size:55
Alignment explanation
Indices: 15501970--15502083 Score: 183
Period size: 55 Copynumber: 2.1 Consensus size: 55
15501960 CCAAAAGTGC
* * * *
15501970 TTTTACATCTAGAAGGATAACTGATTTTTGGGGTTAAAACTACGGTGAAAAATTG
1 TTTTACACCTAGAAAGATAACTGAATTTTGGGGTCAAAACTACGGTGAAAAATTG
*
15502025 TTTTACACCTAGAAAGATAATTGAATTTTGGGGTCAAAACTACGGTGAAAAATTG
1 TTTTACACCTAGAAAGATAACTGAATTTTGGGGTCAAAACTACGGTGAAAAATTG
15502080 TTTT
1 TTTT
15502084 TCTACTTAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.35, C:0.10, G:0.20, T:0.35
Consensus pattern (55 bp):
TTTTACACCTAGAAAGATAACTGAATTTTGGGGTCAAAACTACGGTGAAAAATTG
Found at i:15502249 original size:30 final size:30
Alignment explanation
Indices: 15502188--15502260 Score: 76
Period size: 30 Copynumber: 2.4 Consensus size: 30
15502178 CCATTATATA
* *
15502188 AATATAATTTGTCATTGTATTAAATTATTT
1 AATATAATTTATCATTATATTAAATTATTT
* *
15502218 AATATAATTTATTATTATATTTAAGTT-TTT
1 AATATAATTTATCATTATA-TTAAATTATTT
* *
15502248 AAAATATTTTATC
1 AATATAATTTATC
15502261 TATCATTAAT
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
30 29 0.83
31 6 0.17
ACGTcount: A:0.38, C:0.03, G:0.04, T:0.55
Consensus pattern (30 bp):
AATATAATTTATCATTATATTAAATTATTT
Found at i:15505738 original size:13 final size:13
Alignment explanation
Indices: 15505720--15505748 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
15505710 AAACATCTTT
15505720 CAATAAAATATTA
1 CAATAAAATATTA
15505733 CAATAAAATATTA
1 CAATAAAATATTA
15505746 CAA
1 CAA
15505749 AGAAAAGTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.28
Consensus pattern (13 bp):
CAATAAAATATTA
Found at i:15508715 original size:15 final size:16
Alignment explanation
Indices: 15508690--15508719 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
15508680 TCTATTAATT
15508690 TATTAATAATTTTAAG
1 TATTAATAATTTTAAG
15508706 TATT-ATAATTTTAA
1 TATTAATAATTTTAA
15508720 TCTTTTAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
TATTAATAATTTTAAG
Found at i:15509018 original size:11 final size:11
Alignment explanation
Indices: 15509000--15509038 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
15508990 ATTTTTAATC
15509000 AAATATATATT
1 AAATATATATT
**
15509011 TTATATATATT
1 AAATATATATT
15509022 AAATATATATT
1 AAATATATATT
*
15509033 CAATAT
1 AAATAT
15509039 GGACCGGGCT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (11 bp):
AAATATATATT
Found at i:15509728 original size:30 final size:31
Alignment explanation
Indices: 15509684--15509754 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 31
15509674 TAGTAAATAT
* *
15509684 AAAATTATATTTTAACCCTATAAAAATGATA
1 AAAATTATAATTTAACCATATAAAAATGATA
* * *
15509715 AAAATT-TAATTTAATCATTTAAAAATTATA
1 AAAATTATAATTTAACCATATAAAAATGATA
*
15509745 AAAATAATAA
1 AAAATTATAA
15509755 ACTATTAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
30 24 0.73
31 9 0.27
ACGTcount: A:0.56, C:0.06, G:0.01, T:0.37
Consensus pattern (31 bp):
AAAATTATAATTTAACCATATAAAAATGATA
Found at i:15510367 original size:18 final size:17
Alignment explanation
Indices: 15510344--15510377 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
15510334 TCTTTCAGTC
15510344 TTTCAGTATTTCCTTTCA
1 TTTCAGTATTT-CTTTCA
15510362 TTTCAGTATTTCTTTC
1 TTTCAGTATTTCTTTC
15510378 TTTTATTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.15, C:0.21, G:0.06, T:0.59
Consensus pattern (17 bp):
TTTCAGTATTTCTTTCA
Found at i:15513572 original size:69 final size:70
Alignment explanation
Indices: 15513482--15513621 Score: 255
Period size: 71 Copynumber: 2.0 Consensus size: 70
15513472 ACTGTTCTTG
15513482 CTTTAAGTAGGCAATTTTGAAATGCTCTCATAG-TTTTTTTTTTACCCAATTTGACATTTTTAAG
1 CTTTAAGTAGGCAATTTTGAAATGCTCTCATAGTTTTTTTTTTTACCCAATTTGACATTTTTAAG
15513546 GTAAT
66 GTAAT
*
15513551 CTTTAAGTAGGCCATTTTGAAATGCTCTCATAGTTTTTTTTTTTTACCCAATTTGACATTTTTAA
1 CTTTAAGTAGGCAATTTTGAAATGCTCTCATAG-TTTTTTTTTTTACCCAATTTGACATTTTTAA
15513616 GGTAAT
65 GGTAAT
15513622 GTAGTTTCTG
Statistics
Matches: 68, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
69 32 0.47
71 36 0.53
ACGTcount: A:0.26, C:0.14, G:0.13, T:0.47
Consensus pattern (70 bp):
CTTTAAGTAGGCAATTTTGAAATGCTCTCATAGTTTTTTTTTTTACCCAATTTGACATTTTTAAG
GTAAT
Found at i:15514511 original size:19 final size:19
Alignment explanation
Indices: 15514489--15514525 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
15514479 ATTTAAATAA
15514489 TTTTTAA-TTTTAAAATTT
1 TTTTTAACTTTTAAAATTT
15514507 TTTTTAACTTTTAAAATTT
1 TTTTTAACTTTTAAAATTT
15514526 AAAAATTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (19 bp):
TTTTTAACTTTTAAAATTT
Found at i:15521824 original size:21 final size:21
Alignment explanation
Indices: 15521800--15521841 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
15521790 GAAATTAAAG
*
15521800 TGTTTTAATTTTACTTTAATT
1 TGTTTTAATTTCACTTTAATT
15521821 TGTTTTAATTTCACTTTAATT
1 TGTTTTAATTTCACTTTAATT
15521842 ACAAAATTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.07, G:0.05, T:0.64
Consensus pattern (21 bp):
TGTTTTAATTTCACTTTAATT
Found at i:15523519 original size:28 final size:29
Alignment explanation
Indices: 15523460--15523521 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
15523450 AAAAAGCCCT
*
15523460 TTTTTTCAATATTTATCGAAATGGGCCGA
1 TTTTTTCAATATTTACCGAAATGGGCCGA
* *
15523489 TTTTTT-AATTATTTACCGGAATGGGTC-A
1 TTTTTTCAA-TATTTACCGAAATGGGCCGA
15523517 TTTTT
1 TTTTT
15523522 CGCGAAATCG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 8 0.28
29 21 0.72
ACGTcount: A:0.24, C:0.11, G:0.16, T:0.48
Consensus pattern (29 bp):
TTTTTTCAATATTTACCGAAATGGGCCGA
Found at i:15528030 original size:3 final size:3
Alignment explanation
Indices: 15527960--15528015 Score: 103
Period size: 3 Copynumber: 18.7 Consensus size: 3
15527950 TTATATTAGT
*
15527960 ATA ATA ATA GTA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
15528008 ATA ATA AT
1 ATA ATA AT
15528016 TAACTTAAAT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:15530994 original size:118 final size:118
Alignment explanation
Indices: 15530870--15531085 Score: 301
Period size: 118 Copynumber: 1.8 Consensus size: 118
15530860 TATAACAAAT
* * * *
15530870 TCTAAATCAACCCAAATAAAATCAAACCCTAAAAATATATTATTTAAATTTAAAAT-GGCTACAT
1 TCTAAATCAACCCAAATAAAATCAAACCCTAAAAATAAATGATTTAAAATTAAAATACG-TACAT
* * *
15530934 AT-TCTTTTTAGAAAATTCAAAGCAAAAATCCAAGAAAAAAAAGATTATTTTCCG
65 ATAT-ATTATAGAAAATTCAAAGCAAAAAACCAAGAAAAAAAAGATTATTTTCCG
* ** *
15530988 TCTAAATCAACCCAAATAAAATCCAACCCTCTAAATAAATGATTTAAAATTAAAATACGTATATA
1 TCTAAATCAACCCAAATAAAATCAAACCCTAAAAATAAATGATTTAAAATTAAAATACGTACATA
15531053 TATATTATAGAAAATTCAAAGCAAAAAACCAAG
66 TATATTATAGAAAATTCAAAGCAAAAAACCAAG
15531086 CAATAGGAGA
Statistics
Matches: 85, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
118 83 0.98
119 2 0.02
ACGTcount: A:0.51, C:0.16, G:0.06, T:0.28
Consensus pattern (118 bp):
TCTAAATCAACCCAAATAAAATCAAACCCTAAAAATAAATGATTTAAAATTAAAATACGTACATA
TATATTATAGAAAATTCAAAGCAAAAAACCAAGAAAAAAAAGATTATTTTCCG
Found at i:15544391 original size:67 final size:67
Alignment explanation
Indices: 15544280--15544413 Score: 241
Period size: 67 Copynumber: 2.0 Consensus size: 67
15544270 CTTTGAAATT
* * *
15544280 ATGTGTGATGCAAGTGATCGAAGTGTGGGAGCTGTTTTTGGCCAAAGAATAGAGAAATAGCCTCA
1 ATGTGTGATGCAAGTGATCGAAGTGTGGGAGCTGTTCTTAGCCAAAGAATAGAGAAAGAGCCTCA
15544345 TG
66 TG
15544347 ATGTGTGATGCAAGTGATCGAAGTGTGGGAGCTGTTCTTAGCCAAAGAATAGAGAAAGAGCCTCA
1 ATGTGTGATGCAAGTGATCGAAGTGTGGGAGCTGTTCTTAGCCAAAGAATAGAGAAAGAGCCTCA
15544412 TG
66 TG
15544414 TTATCTACTA
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
67 64 1.00
ACGTcount: A:0.31, C:0.13, G:0.31, T:0.25
Consensus pattern (67 bp):
ATGTGTGATGCAAGTGATCGAAGTGTGGGAGCTGTTCTTAGCCAAAGAATAGAGAAAGAGCCTCA
TG
Found at i:15546542 original size:19 final size:19
Alignment explanation
Indices: 15546510--15546566 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
15546500 AATTTTCCTA
* *
15546510 TTATTATTATTATTATTA-T
1 TTATTTTTACTATT-TTATT
15546529 TTATTTTTACTATTTTATT
1 TTATTTTTACTATTTTATT
*
15546548 TTATTTTCA-T-TTTTATT
1 TTATTTTTACTATTTTATT
15546565 TT
1 TT
15546567 TACAGGAAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
17 9 0.26
18 4 0.12
19 21 0.62
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.74
Consensus pattern (19 bp):
TTATTTTTACTATTTTATT
Found at i:15546542 original size:31 final size:30
Alignment explanation
Indices: 15546494--15546569 Score: 84
Period size: 31 Copynumber: 2.5 Consensus size: 30
15546484 AAAAAAAAAA
* *
15546494 CATTTTAATTTTCCTATTATTATTATTATTATT
1 CATTTTATTTTTACTATT-TTATT-TTATT-TT
15546527 -A-TTTATTTTTACTATTTTATTTTATTTT
1 CATTTTATTTTTACTATTTTATTTTATTTT
15546555 CATTTTTATTTTTAC
1 CA-TTTTATTTTTAC
15546570 AGGAAACATT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
28 2 0.05
29 6 0.16
30 5 0.13
31 24 0.63
32 1 0.03
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (30 bp):
CATTTTATTTTTACTATTTTATTTTATTTT
Found at i:15546565 original size:6 final size:6
Alignment explanation
Indices: 15546510--15546568 Score: 57
Period size: 6 Copynumber: 9.5 Consensus size: 6
15546500 AATTTTCCTA
* * *
15546510 TTATTA TTATTA TTATTAT TTATTT TTACTATT TTA-TT TTATTT TCATTT
1 TTATTT TTATTT TTATT-T TTATTT TTA-T-TT TTATTT TTATTT TTATTT
15546560 TTATTT TTA
1 TTATTT TTA
15546569 CAGGAAACAT
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
5 5 0.11
6 30 0.65
7 6 0.13
8 5 0.11
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (6 bp):
TTATTT
Found at i:15559733 original size:18 final size:19
Alignment explanation
Indices: 15559694--15559744 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
15559684 CTCTCAACAA
* *
15559694 AAAATACAAAATAATTTTT
1 AAAATTCAAAATAATTTAT
15559713 AAAATTCAAAAT-ATTTAT
1 AAAATTCAAAATAATTTAT
15559731 AAACATTTCAAAAT
1 AAA-A-TTCAAAAT
15559745 TTATATGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 8 0.29
19 12 0.43
20 8 0.29
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.35
Consensus pattern (19 bp):
AAAATTCAAAATAATTTAT
Found at i:15560730 original size:39 final size:40
Alignment explanation
Indices: 15560597--15560731 Score: 132
Period size: 40 Copynumber: 3.4 Consensus size: 40
15560587 CGTTTGGATA
* * ** * * *
15560597 AAAAACACCGCTAAAAATCAATCATTAGCAGCGC-TATCTA
1 AAAAACGCCGCTAAAAATCGAGAATTAGCGGCGCTTTTC-C
* * *
15560637 AAAAACGCCGCTAAAGATCGAGTATTAGCGGCGCTTTTCT
1 AAAAACGCCGCTAAAAATCGAGAATTAGCGGCGCTTTTCC
*
15560677 AAAAACGCCACTAAAAAT-GAGAATTAGCGGCG-TTTTCC
1 AAAAACGCCGCTAAAAATCGAGAATTAGCGGCGCTTTTCC
15560715 AAAAAGCGCCGCTAAAA
1 AAAAA-CGCCGCTAAAA
15560732 CCTAAACCTA
Statistics
Matches: 80, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
38 10 0.12
39 23 0.29
40 44 0.55
41 3 0.04
ACGTcount: A:0.40, C:0.23, G:0.17, T:0.20
Consensus pattern (40 bp):
AAAAACGCCGCTAAAAATCGAGAATTAGCGGCGCTTTTCC
Found at i:15560828 original size:41 final size:41
Alignment explanation
Indices: 15560771--15560924 Score: 290
Period size: 41 Copynumber: 3.8 Consensus size: 41
15560761 TTTTTGGGGA
*
15560771 TTTAGCGGCGCTTTTGAAGAAGCGCCGCTAATGCTCTGTTC
1 TTTAGCGGCGCTTTTGAAGAAGCGCCGCTAATGCTCTGGTC
*
15560812 TTTAGCGGCGCTTTTGAAGAAGCGCCGCTAATACTCTGGTC
1 TTTAGCGGCGCTTTTGAAGAAGCGCCGCTAATGCTCTGGTC
15560853 TTTAGCGGCGCTTTTGAAGAAGCGCCGCTAATGCTCTGGTC
1 TTTAGCGGCGCTTTTGAAGAAGCGCCGCTAATGCTCTGGTC
15560894 TTTAGCGGCGCTTTTGAAGAAGCGCCGCTAA
1 TTTAGCGGCGCTTTTGAAGAAGCGCCGCTAA
15560925 AAACATTTTA
Statistics
Matches: 110, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 110 1.00
ACGTcount: A:0.19, C:0.24, G:0.28, T:0.29
Consensus pattern (41 bp):
TTTAGCGGCGCTTTTGAAGAAGCGCCGCTAATGCTCTGGTC
Found at i:15561228 original size:14 final size:14
Alignment explanation
Indices: 15561211--15561260 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
15561201 AGGGTTTTTA
15561211 GTTTAAGGAGTTGG
1 GTTTAAGGAGTTGG
* *
15561225 GTTTAGGGA-TTATG
1 GTTTAAGGAGTT-GG
15561239 GTTTAAGG-GTTGG
1 GTTTAAGGAGTTGG
15561252 GATTTAAGG
1 G-TTTAAGG
15561261 TTTAGGGGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
13 4 0.14
14 25 0.86
ACGTcount: A:0.22, C:0.00, G:0.40, T:0.38
Consensus pattern (14 bp):
GTTTAAGGAGTTGG
Found at i:15561242 original size:28 final size:27
Alignment explanation
Indices: 15561197--15561257 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 27
15561187 TATCACTATA
* *
15561197 GTTTAGGGTTTTTAGTTTAAGGAGTTGG
1 GTTTAGGGATTATAGTTTAAGG-GTTGG
*
15561225 GTTTAGGGATTATGGTTTAAGGGTTGG
1 GTTTAGGGATTATAGTTTAAGGGTTGG
15561252 GATTTA
1 G-TTTA
15561258 AGGTTTAGGG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 6 0.21
28 23 0.79
ACGTcount: A:0.20, C:0.00, G:0.36, T:0.44
Consensus pattern (27 bp):
GTTTAGGGATTATAGTTTAAGGGTTGG
Found at i:15561264 original size:21 final size:22
Alignment explanation
Indices: 15561227--15561279 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
15561217 GGAGTTGGGT
*
15561227 TTAGGGA-TTATGGTTTAAGGG
1 TTAGGGATTTAAGGTTTAAGGG
*
15561248 TT-GGGATTTAAGGTTTAGGGG
1 TTAGGGATTTAAGGTTTAAGGG
*
15561269 TTAGGGGTTTA
1 TTAGGGATTTA
15561280 GGGGTTAGTC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 4 0.15
21 16 0.59
22 7 0.26
ACGTcount: A:0.21, C:0.00, G:0.40, T:0.40
Consensus pattern (22 bp):
TTAGGGATTTAAGGTTTAAGGG
Found at i:15561279 original size:15 final size:15
Alignment explanation
Indices: 15561259--15561287 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
15561249 TGGGATTTAA
15561259 GGTTTAGGGGTTAGG
1 GGTTTAGGGGTTAGG
15561274 GGTTTAGGGGTTAG
1 GGTTTAGGGGTTAG
15561288 TCGACGTGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.00, G:0.52, T:0.34
Consensus pattern (15 bp):
GGTTTAGGGGTTAGG
Found at i:15561556 original size:15 final size:15
Alignment explanation
Indices: 15561536--15561564 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
15561526 TGAGATTTAA
15561536 GGTTTAGGGGTTAGG
1 GGTTTAGGGGTTAGG
15561551 GGTTTAGGGGTTAG
1 GGTTTAGGGGTTAG
15561565 ATGTTAAGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.00, G:0.52, T:0.34
Consensus pattern (15 bp):
GGTTTAGGGGTTAGG
Found at i:15561562 original size:36 final size:36
Alignment explanation
Indices: 15561515--15561600 Score: 111
Period size: 36 Copynumber: 2.4 Consensus size: 36
15561505 TAGTGATTAT
* *
15561515 GGTTTAAGGGTTGAGAT-TTAAGGTTTAGGGGTTAGG
1 GGTTTAAGGGTT-AGATGTTAAGGTTTAAGAGTTAGG
*
15561551 GGTTTAGGGGTTAGATGTTAAGGTTTAAGAGTTAGG
1 GGTTTAAGGGTTAGATGTTAAGGTTTAAGAGTTAGG
* *
15561587 GATTTAAGGTTTAG
1 GGTTTAAGGGTTAG
15561601 GGATTCAGGG
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
35 4 0.09
36 39 0.91
ACGTcount: A:0.24, C:0.00, G:0.38, T:0.37
Consensus pattern (36 bp):
GGTTTAAGGGTTAGATGTTAAGGTTTAAGAGTTAGG
Found at i:15562617 original size:21 final size:20
Alignment explanation
Indices: 15562593--15562631 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
15562583 TATCTCCAAA
*
15562593 TTCCCCCTGAAACCTCTAATT
1 TTCCCACTGAAACC-CTAATT
15562614 TTCCCACTGAAACCCTAA
1 TTCCCACTGAAACCCTAA
15562632 CTTTGCAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.28, C:0.38, G:0.05, T:0.28
Consensus pattern (20 bp):
TTCCCACTGAAACCCTAATT
Found at i:15566088 original size:42 final size:43
Alignment explanation
Indices: 15566050--15566203 Score: 183
Period size: 42 Copynumber: 3.7 Consensus size: 43
15566040 AGAAGCGTCA
* *
15566050 CTAAAGGT-TTGATCTATAGCGGCGTTTGTGATAAAAGCGCTG
1 CTAAAGGTCTTGATCTTTAGCGGCGTTTGTGATAAAAGCGCCG
* *
15566092 CTAAAGGTCAT-AGTCTTTAGCGGCGATTGTTGAT--AAGCGCCG
1 CTAAAGGTCTTGA-TCTTTAGCGGCGTTTG-TGATAAAAGCGCCG
* * *
15566134 CTAAAGGTCTTGGTCTTTAGTGGCGTTTGTG-GAAAAGCGCCG
1 CTAAAGGTCTTGATCTTTAGCGGCGTTTGTGATAAAAGCGCCG
*
15566176 CTAAAGGTCTTGTTCTTTAGCGGCGTTT
1 CTAAAGGTCTTGATCTTTAGCGGCGTTT
15566204 ATTTCTAAAA
Statistics
Matches: 95, Mismatches: 11, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
41 2 0.02
42 74 0.78
43 15 0.16
44 4 0.04
ACGTcount: A:0.21, C:0.17, G:0.29, T:0.32
Consensus pattern (43 bp):
CTAAAGGTCTTGATCTTTAGCGGCGTTTGTGATAAAAGCGCCG
Found at i:15567001 original size:7 final size:7
Alignment explanation
Indices: 15566989--15567015 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
15566979 TATTATATTC
15566989 AAATTTA
1 AAATTTA
15566996 AAATTTA
1 AAATTTA
15567003 AAATTTA
1 AAATTTA
15567010 AAATTT
1 AAATTT
15567016 TTTGAAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
AAATTTA
Found at i:15567448 original size:39 final size:38
Alignment explanation
Indices: 15567395--15567500 Score: 113
Period size: 40 Copynumber: 2.7 Consensus size: 38
15567385 GTTTGGATAA
* * *
15567395 AAAAAACACTGCTAATAATAAGCATTACCGGCGCTTTTT
1 AAAAAACGCCGCTAA-AATGAGCATTACCGGCGCTTTTT
* *
15567434 AAAAAACGCCGCTAAAGATCGAGTATTAGCGGCGCTTTTT
1 AAAAAACGCCGCTAAA-AT-GAGCATTACCGGCGCTTTTT
**
15567474 GGAAAACGCCGCTAAAAATGAGCATTA
1 AAAAAACGCCGCT-AAAATGAGCATTA
15567501 GCGACGTTTT
Statistics
Matches: 56, Mismatches: 8, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
38 1 0.02
39 22 0.39
40 30 0.54
41 3 0.05
ACGTcount: A:0.38, C:0.20, G:0.19, T:0.24
Consensus pattern (38 bp):
AAAAAACGCCGCTAAAATGAGCATTACCGGCGCTTTTT
Found at i:15567467 original size:40 final size:39
Alignment explanation
Indices: 15567395--15567530 Score: 130
Period size: 39 Copynumber: 3.5 Consensus size: 39
15567385 GTTTGGATAA
* * * * *
15567395 AAAAAACACTGCTAATAATAAGCATTACCGGCGCTTTTT
1 AAAAAACGCCGCTAAAAATGAGCATTAGCGGCGCTTTTT
* *
15567434 AAAAAACGCCGCTAAAGATCGAGTATTAGCGGCGCTTTTT
1 AAAAAACGCCGCTAAAAAT-GAGCATTAGCGGCGCTTTTT
** * *
15567474 GGAAAACGCCGCTAAAAATGAGCATTAGCGACG-TTTTCC
1 AAAAAACGCCGCTAAAAATGAGCATTAGCGGCGCTTTT-T
* *
15567513 AAAAAGCGCCGCGAAAAA
1 AAAAAACGCCGCTAAAAA
15567531 CCTAAGCCCA
Statistics
Matches: 78, Mismatches: 17, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
38 4 0.05
39 41 0.53
40 33 0.42
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.21
Consensus pattern (39 bp):
AAAAAACGCCGCTAAAAATGAGCATTAGCGGCGCTTTTT
Found at i:15567523 original size:39 final size:40
Alignment explanation
Indices: 15567415--15567530 Score: 110
Period size: 40 Copynumber: 2.9 Consensus size: 40
15567405 GCTAATAATA
* * ** *
15567415 AGCATTACCGGCGCTTTTTAAAAAACGCCGCTAAAGATCG
1 AGCATTAGCGACGCTTTTCCAAAAACGCCGCTAAAAATCG
* * ***
15567455 AGTATTAGCGGCGCTTTTTGGAAAACGCCGCTAAAAAT-G
1 AGCATTAGCGACGCTTTTCCAAAAACGCCGCTAAAAATCG
*
15567494 AGCATTAGCGACG-TTTTCCAAAAAGCGCCGCGAAAAA
1 AGCATTAGCGACGCTTTTCCAAAAA-CGCCGCTAAAAA
15567531 CCTAAGCCCA
Statistics
Matches: 64, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
38 8 0.12
39 23 0.36
40 33 0.52
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.22
Consensus pattern (40 bp):
AGCATTAGCGACGCTTTTCCAAAAACGCCGCTAAAAATCG
Found at i:15567631 original size:41 final size:41
Alignment explanation
Indices: 15567562--15567684 Score: 169
Period size: 41 Copynumber: 3.0 Consensus size: 41
15567552 TTGAGTTTTT
* * * *
15567562 GGGGCTTTAGTGGCGTTTTTCAAGAAGCGTCGCTAATGCTC
1 GGGGCTTTAGCGACGTTTTTGAAGAAGCGCCGCTAATGCTC
*
15567603 GGGGCTTTAGCGTC-TTTTCTGGAA-AAGCGCCGCTAATGCTC
1 GGGGCTTTAGCGACGTTTT-T-GAAGAAGCGCCGCTAATGCTC
15567644 GGGGCTTTAGCGACGTTTTTGAAGAAGCGCCGCTAATGCTC
1 GGGGCTTTAGCGACGTTTTTGAAGAAGCGCCGCTAATGCTC
15567685 TATTTTTAGT
Statistics
Matches: 73, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
40 7 0.10
41 60 0.82
42 6 0.08
ACGTcount: A:0.18, C:0.22, G:0.31, T:0.29
Consensus pattern (41 bp):
GGGGCTTTAGCGACGTTTTTGAAGAAGCGCCGCTAATGCTC
Found at i:15568220 original size:14 final size:14
Alignment explanation
Indices: 15568024--15568220 Score: 89
Period size: 14 Copynumber: 13.9 Consensus size: 14
15568014 TATCACTATA
* *
15568024 GTTTAAGGTTTTTG
1 GTTTAGGGTTTATG
* *
15568038 GTTTGGGGTATATG
1 GTTTAGGGTTTATG
* *
15568052 GTTTAGAGTTTAAG
1 GTTTAGGGTTTATG
15568066 GTTTAGGAGTTACTAT-
1 GTTTAGG-GTT--TATG
*
15568082 -TTTAAGGTTTATG
1 GTTTAGGGTTTATG
* *
15568095 GATTATGGGTTTAGG
1 GTTTA-GGGTTTATG
* * *
15568110 GGTTATGATTTATG
1 GTTTAGGGTTTATG
* *
15568124 GTTTATGGTTTAAAG
1 GTTTAGGGTTT-ATG
* *
15568139 G-TTGGGGTTTAAG
1 GTTTAGGGTTTATG
*
15568152 GTTTA-GATGTTATG
1 GTTTAGGGT-TTATG
* *
15568166 TGTTAAGGGTTTAGG
1 -GTTTAGGGTTTATG
** *
15568181 GTTTAAGATTTTAGG
1 GTTT-AGGGTTTATG
15568196 GTTTA-GGTTTATG
1 GTTTAGGGTTTATG
15568209 GTTTAGGGTTTA
1 GTTTAGGGTTTA
15568221 GATTAACTAG
Statistics
Matches: 135, Mismatches: 35, Indels: 26
0.69 0.18 0.13
Matches are distributed among these distances:
12 3 0.02
13 16 0.12
14 70 0.52
15 42 0.31
16 2 0.01
17 2 0.01
ACGTcount: A:0.21, C:0.01, G:0.32, T:0.47
Consensus pattern (14 bp):
GTTTAGGGTTTATG
Found at i:15568221 original size:7 final size:7
Alignment explanation
Indices: 15568082--15568221 Score: 61
Period size: 7 Copynumber: 19.7 Consensus size: 7
15568072 GAGTTACTAT
*
15568082 TTTAAGG
1 TTTAGGG
*
15568089 TTTATGG
1 TTTAGGG
*
15568096 ATTATGGG
1 TTTA-GGG
15568104 TTTAGGG
1 TTTAGGG
* * *
15568111 GTTATGA
1 TTTAGGG
*
15568118 TTTATGG
1 TTTAGGG
*
15568125 TTTATGG
1 TTTAGGG
*
15568132 TTTAAAGG
1 TTT-AGGG
*
15568140 -TTGGGG
1 TTTAGGG
*
15568146 TTTAAGG
1 TTTAGGG
*
15568153 TTTA-GA
1 TTTAGGG
*
15568159 TGTTATGTG
1 T-TTA-GGG
*
15568168 TTAAGGG
1 TTTAGGG
15568175 TTTAGGG
1 TTTAGGG
**
15568182 TTTAAGAT
1 TTT-AGGG
15568190 TTTAGGG
1 TTTAGGG
15568197 TTTA-GG
1 TTTAGGG
*
15568203 TTTATGG
1 TTTAGGG
15568210 TTTAGGG
1 TTTAGGG
15568217 TTTAG
1 TTTAG
15568222 ATTAACTAGT
Statistics
Matches: 100, Mismatches: 25, Indels: 16
0.71 0.18 0.11
Matches are distributed among these distances:
6 10 0.10
7 74 0.74
8 15 0.15
9 1 0.01
ACGTcount: A:0.21, C:0.00, G:0.33, T:0.46
Consensus pattern (7 bp):
TTTAGGG
Found at i:15568998 original size:16 final size:16
Alignment explanation
Indices: 15568971--15569018 Score: 78
Period size: 16 Copynumber: 3.0 Consensus size: 16
15568961 CGTTTGATTC
15568971 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
* *
15568987 GGTGTAACGGAATAGA
1 GCTGTAATGGAATAGA
15569003 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
15569019 TGCGTAATAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.38, C:0.06, G:0.33, T:0.23
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:15569025 original size:16 final size:15
Alignment explanation
Indices: 15568974--15569026 Score: 61
Period size: 16 Copynumber: 3.3 Consensus size: 15
15568964 TTGATTCGCT
*
15568974 GTAATGGAATAGAGGT
1 GTAATGGAATAGA-GC
*
15568990 GTAACGGAATAGAGC
1 GTAATGGAATAGAGC
15569005 TGTAATGGAATAGATGC
1 -GTAATGGAATAGA-GC
15569022 GTAAT
1 GTAAT
15569027 AGTAATTCAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
15 1 0.03
16 29 0.91
17 2 0.06
ACGTcount: A:0.38, C:0.06, G:0.32, T:0.25
Consensus pattern (15 bp):
GTAATGGAATAGAGC
Found at i:15569537 original size:14 final size:14
Alignment explanation
Indices: 15569520--15569547 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
15569510 TATAATATTC
15569520 AAGATTTTAGGAAT
1 AAGATTTTAGGAAT
15569534 AAGATTTTAGGAAT
1 AAGATTTTAGGAAT
15569548 GAAACCTCTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.21, T:0.36
Consensus pattern (14 bp):
AAGATTTTAGGAAT
Found at i:15572393 original size:50 final size:50
Alignment explanation
Indices: 15572335--15572910 Score: 402
Period size: 50 Copynumber: 11.5 Consensus size: 50
15572325 GCAGTGGAGC
* * * *
15572335 AGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACACTACAGTTAAAA
1 AGATTAAAGCCACAACGGTGAATCTTGCCTCCCAGACAGTGCAGTTAAAA
* * * * * * * * ** *
15572385 AGATTAAAGCTACAGCAAG-GAATCTTACTTCCTAGGCGGTGCAGTGGAAC
1 AGATTAAAGCCACAAC-GGTGAATCTTGCCTCCCAGACAGTGCAGTTAAAA
* * *
15572435 AGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGCGGTTAAAA
1 AGATTAAAGCCACAACGGTGAATCTTGCCTCCCAGACAGTGCAGTTAAAA
* * * * * * * ** *
15572485 AGATTAAAGCTACAGCAGTGAATCTTACCTCACAGGCGGTGCAGTGGAAC
1 AGATTAAAGCCACAACGGTGAATCTTGCCTCCCAGACAGTGCAGTTAAAA
* * * *
15572535 AGATTAAAGCCACAATGGTGAATCTTGCCTCCCTGACATTGCGGTTAAAA
1 AGATTAAAGCCACAACGGTGAATCTTGCCTCCCAGACAGTGCAGTTAAAA
* * * * * * ** *
15572585 AGATTAAAGCTACAGCAGTGAATCTTACCTCCCAGGCGGTGCAGTGGAAT
1 AGATTAAAGCCACAACGGTGAATCTTGCCTCCCAGACAGTGCAGTTAAAA
* ** * **
15572635 AGATTAAAGCCACAATGGTGAATCTTGCCTCCTTGACATTGGGGTTAAAA
1 AGATTAAAGCCACAACGGTGAATCTTGCCTCCCAGACAGTGCAGTTAAAA
* * * * * * * * ** *
15572685 AGATTAAAGCTACAGCAGCGAATCTTACTTCCCAGGCGGTGCAGTGGAAC
1 AGATTAAAGCCACAACGGTGAATCTTGCCTCCCAGACAGTGCAGTTAAAA
* * *
15572735 AGATTAAAGCCACAACGGTGAA-CTTTGCCTCCCTGACATTGCGGTTAAAA
1 AGATTAAAGCCACAACGGTGAATC-TTGCCTCCCAGACAGTGCAGTTAAAA
* * * * * * * ** *
15572785 AGATTAAAGCTACAGCAGCT-AATCTTACCTCCCAGGCGGTGTAGTGGAAC
1 AGATTAAAGCCACAAC-GGTGAATCTTGCCTCCCAGACAGTGCAGTTAAAA
* * * * *
15572835 AGATTAAAGCCACAACGATAAATCTTGCTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCACAACGGTGAATCTTGCCTCCCAGACAGTGCAGTTAAAA
* *
15572885 AGATTAAAGCCACAACAGCGAATCTT
1 AGATTAAAGCCACAACGGTGAATCTT
15572911 ACTTTCCAAA
Statistics
Matches: 377, Mismatches: 143, Indels: 12
0.71 0.27 0.02
Matches are distributed among these distances:
49 4 0.01
50 369 0.98
51 4 0.01
ACGTcount: A:0.33, C:0.23, G:0.22, T:0.23
Consensus pattern (50 bp):
AGATTAAAGCCACAACGGTGAATCTTGCCTCCCAGACAGTGCAGTTAAAA
Found at i:15572440 original size:100 final size:100
Alignment explanation
Indices: 15572304--15572914 Score: 929
Period size: 100 Copynumber: 6.1 Consensus size: 100
15572294 GAAAATTTGA
* * * *
15572304 AATCTTACTCTCCCAGGCAGTGCAGTGGAGCAGATTAAAGCCACAACGGTGAATCTTGCTTCCCC
1 AATCTTACT-TCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCT
* * *
15572369 GACACTACAGTTAAAAAGATTAAAGCTACAGCAAG-G
65 GACATTGCGGTTAAAAAGATTAAAGCTACAGC-AGCG
*
15572405 AATCTTACTTCCTAGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTG
1 AATCTTACTTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTG
*
15572470 ACATTGCGGTTAAAAAGATTAAAGCTACAGCAGTG
66 ACATTGCGGTTAAAAAGATTAAAGCTACAGCAGCG
* * *
15572505 AATCTTACCTCACAGGCGGTGCAGTGGAACAGATTAAAGCCACAATGGTGAATCTTGCCTCCCTG
1 AATCTTACTTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTG
*
15572570 ACATTGCGGTTAAAAAGATTAAAGCTACAGCAGTG
66 ACATTGCGGTTAAAAAGATTAAAGCTACAGCAGCG
* * * *
15572605 AATCTTACCTCCCAGGCGGTGCAGTGGAATAGATTAAAGCCACAATGGTGAATCTTGCCTCCTTG
1 AATCTTACTTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTG
*
15572670 ACATTGGGGTTAAAAAGATTAAAGCTACAGCAGCG
66 ACATTGCGGTTAAAAAGATTAAAGCTACAGCAGCG
15572705 AATCTTACTTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAA-CTTTGCCTCCCT
1 AATCTTACTTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATC-TTGCCTCCCT
*
15572769 GACATTGCGGTTAAAAAGATTAAAGCTACAGCAGCT
65 GACATTGCGGTTAAAAAGATTAAAGCTACAGCAGCG
* * * * * *
15572805 AATCTTACCTCCCAGGCGGTGTAGTGGAACAGATTAAAGCCACAACGATAAATCTTGCTTCCCCG
1 AATCTTACTTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTG
* * *
15572870 ACATTGCAGTTAAAAAGATTAAAGCCACAACAGCG
66 ACATTGCGGTTAAAAAGATTAAAGCTACAGCAGCG
15572905 AATCTTACTT
1 AATCTTACTT
15572915 TCCAAAAGTT
Statistics
Matches: 473, Mismatches: 34, Indels: 7
0.92 0.07 0.01
Matches are distributed among these distances:
99 3 0.01
100 460 0.97
101 10 0.02
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.23
Consensus pattern (100 bp):
AATCTTACTTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTG
ACATTGCGGTTAAAAAGATTAAAGCTACAGCAGCG
Found at i:15577450 original size:30 final size:30
Alignment explanation
Indices: 15577414--15577473 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
15577404 AACCACTATG
**
15577414 TCCAATTAGAGTCGAAATCGGGCTGTTACA
1 TCCAATTAGAGTCGAAATCAAGCTGTTACA
*
15577444 TCCAATTAGAGTTGAAATCAAGCTGTTACA
1 TCCAATTAGAGTCGAAATCAAGCTGTTACA
15577474 AGCTGCTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.28
Consensus pattern (30 bp):
TCCAATTAGAGTCGAAATCAAGCTGTTACA
Found at i:15580159 original size:18 final size:18
Alignment explanation
Indices: 15580138--15580180 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 18
15580128 TTTCAATTGG
*
15580138 AAAAATGAAAGAGGAAAAA
1 AAAAATGAAA-AAGAAAAA
15580157 AAAAA-GAAAAAGAAAAA
1 AAAAATGAAAAAGAAAAA
15580174 ATAAAAT
1 A-AAAAT
15580181 ATATTTGTGC
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 8 0.38
18 8 0.38
19 5 0.24
ACGTcount: A:0.79, C:0.00, G:0.14, T:0.07
Consensus pattern (18 bp):
AAAAATGAAAAAGAAAAA
Found at i:15585063 original size:23 final size:23
Alignment explanation
Indices: 15585038--15585188 Score: 200
Period size: 23 Copynumber: 6.7 Consensus size: 23
15585028 TATGCCGATT
*
15585038 AGGCACTTTATGTGTCGTATTTT
1 AGGCACTTTATGTGTCGTATTTC
*
15585061 AGGAACTTTATGTGTCGTATTTC
1 AGGCACTTTATGTGTCGTATTTC
15585084 AGGCACTTTATGTGTCGTATTTC
1 AGGCACTTTATGTGTCGTATTTC
*
15585107 AGGCACTTTATGTGTCGTATATC
1 AGGCACTTTATGTGTCGTATTTC
** *
15585130 AGAAACTTTATGTGTCATATTTC
1 AGGCACTTTATGTGTCGTATTTC
* **
15585153 AGGCACCTCGTGTGTCGTA--TC
1 AGGCACTTTATGTGTCGTATTTC
15585174 AGGCAC-TTATGTGTC
1 AGGCACTTTATGTGTC
15585189 CTATACTGAT
Statistics
Matches: 112, Mismatches: 16, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
20 7 0.06
21 8 0.07
23 97 0.87
ACGTcount: A:0.21, C:0.17, G:0.22, T:0.40
Consensus pattern (23 bp):
AGGCACTTTATGTGTCGTATTTC
Found at i:15585392 original size:19 final size:19
Alignment explanation
Indices: 15585360--15585401 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
15585350 CATGATTGTA
* *
15585360 GAATTTAATTTGAAAATGT
1 GAATTGAATATGAAAATGT
15585379 GAATTGAATATGAAAATGT
1 GAATTGAATATGAAAATGT
15585398 GAAT
1 GAAT
15585402 AGAAAGCATG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.45, C:0.00, G:0.19, T:0.36
Consensus pattern (19 bp):
GAATTGAATATGAAAATGT
Found at i:15589690 original size:24 final size:23
Alignment explanation
Indices: 15589635--15589706 Score: 67
Period size: 24 Copynumber: 3.0 Consensus size: 23
15589625 ATATAATTTT
**
15589635 TTAAATATTTTATACTTACATTAA
1 TTAAATATTTTATACTTTTATT-A
*
15589659 TT-ACTATTTTAATACTTTTATTA
1 TTAAATATTTT-ATACTTTTATTA
15589682 TTAAATATTTTTATA-TTTTAATTA
1 TTAAATA-TTTTATACTTTT-ATTA
15589706 T
1 T
15589707 ATTTTGATAA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
23 14 0.35
24 22 0.55
25 4 0.10
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (23 bp):
TTAAATATTTTATACTTTTATTA
Found at i:15590166 original size:3 final size:3
Alignment explanation
Indices: 15590158--15590201 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
15590148 TAGCTGGGCT
* * * *
15590158 GAG GAG GAG GAG GAG GAA AAA GAA GAG GAG GAG GAG GAG GAG GA
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GA
15590202 AGAAGAAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.43, C:0.00, G:0.57, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:15590190 original size:24 final size:24
Alignment explanation
Indices: 15590158--15590207 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
15590148 TAGCTGGGCT
15590158 GAGGAGGAGGAGGAGGAAAAAGAA
1 GAGGAGGAGGAGGAGGAAAAAGAA
**
15590182 GAGGAGGAGGAGGAGGAGGAAGAA
1 GAGGAGGAGGAGGAGGAAAAAGAA
15590206 GA
1 GA
15590208 AAAAGAAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.46, C:0.00, G:0.54, T:0.00
Consensus pattern (24 bp):
GAGGAGGAGGAGGAGGAAAAAGAA
Found at i:15591819 original size:40 final size:40
Alignment explanation
Indices: 15591721--15591827 Score: 108
Period size: 40 Copynumber: 2.7 Consensus size: 40
15591711 AATTCATTAC
* * * * *
15591721 TTCAACAATTTCATAGTTCAATGCAGTACACATAACAATA
1 TTCAATAATTCCATAATTCAATTCAGTACACAAAACAATA
* * * *
15591761 TTCAGTAATTTCACAATTCAATTCAGTACTCAAATACAATA
1 TTCAATAATTCCATAATTCAATTCAGTACACAAA-ACAATA
*
15591802 TTCAAT-ATTCCATAATTCAGTTCAGT
1 TTCAATAATTCCATAATTCAATTCAGT
15591828 GTCAGTCTCA
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
40 44 0.80
41 11 0.20
ACGTcount: A:0.39, C:0.20, G:0.07, T:0.35
Consensus pattern (40 bp):
TTCAATAATTCCATAATTCAATTCAGTACACAAAACAATA
Found at i:15593939 original size:21 final size:21
Alignment explanation
Indices: 15593915--15593957 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
15593905 GATTCTTGGG
15593915 ATGGAGAAGAAGAAGAAGTAT
1 ATGGAGAAGAAGAAGAAGTAT
15593936 ATGGAGAAGAAGAAGAAGTAT
1 ATGGAGAAGAAGAAGAAGTAT
15593957 A
1 A
15593958 AACATATTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.53, C:0.00, G:0.33, T:0.14
Consensus pattern (21 bp):
ATGGAGAAGAAGAAGAAGTAT
Found at i:15594018 original size:28 final size:29
Alignment explanation
Indices: 15593964--15594018 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
15593954 TATAAACATA
* **
15593964 TTGGGCCATTTATGTAAAAAGTAAAAATG
1 TTGGACCATTTATGTAAAAAACAAAAATG
15593993 TTGGACCATTTAT-TAAAAAACAAAAA
1 TTGGACCATTTATGTAAAAAACAAAAA
15594019 AGGACGAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 11 0.48
29 12 0.52
ACGTcount: A:0.47, C:0.09, G:0.15, T:0.29
Consensus pattern (29 bp):
TTGGACCATTTATGTAAAAAACAAAAATG
Found at i:15601765 original size:19 final size:21
Alignment explanation
Indices: 15601731--15601769 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
15601721 ATATGTCATG
15601731 ATAATAAATAATTTAAAATTT
1 ATAATAAATAATTTAAAATTT
15601752 ATAA-AAAT-ATTTAAAATT
1 ATAATAAATAATTTAAAATT
15601770 AACTTTTCTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.56
20 4 0.22
21 4 0.22
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
ATAATAAATAATTTAAAATTT
Found at i:15608112 original size:68 final size:68
Alignment explanation
Indices: 15608003--15608143 Score: 237
Period size: 68 Copynumber: 2.1 Consensus size: 68
15607993 AACTTTCATA
* * *
15608003 AGTGGAAAAGCCATTTTGAGAGTAAAAAGAAACATAGTCTGTACTTACGTATACGTTTTAAACTG
1 AGTGGAAAAGCCATTTTGAGAGTAAAAAGAAACATAGTCTGTACTTACGGATACATTTTAAACTA
15608068 GGC
66 GGC
**
15608071 AGTGGAAAAGCCATTTTGAGAGTAAAAAGAAATGTAGTCTGTACTTACGGATACATTTTAAACTA
1 AGTGGAAAAGCCATTTTGAGAGTAAAAAGAAACATAGTCTGTACTTACGGATACATTTTAAACTA
15608136 GGC
66 GGC
15608139 AGTGG
1 AGTGG
15608144 GTTTTTCAAA
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
68 68 1.00
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.28
Consensus pattern (68 bp):
AGTGGAAAAGCCATTTTGAGAGTAAAAAGAAACATAGTCTGTACTTACGGATACATTTTAAACTA
GGC
Found at i:15619660 original size:18 final size:17
Alignment explanation
Indices: 15619626--15619668 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
15619616 TGTTGACGAG
15619626 ATAATATTTAAATAAATT
1 ATAATATTTAAATAAA-T
15619644 ATAATATTTATAA-AAAT
1 ATAATATTTA-AATAAAT
15619661 A-AATATTT
1 ATAATATTT
15619669 TTTAAATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 7 0.29
17 2 0.08
18 13 0.54
19 2 0.08
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
ATAATATTTAAATAAAT
Found at i:15622933 original size:14 final size:14
Alignment explanation
Indices: 15622910--15622940 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
15622900 TGTCGCGTTC
*
15622910 TTAGTTAATTTAGA
1 TTAGTAAATTTAGA
15622924 TTAGTAAATTTAGA
1 TTAGTAAATTTAGA
15622938 TTA
1 TTA
15622941 AAAACAATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.48
Consensus pattern (14 bp):
TTAGTAAATTTAGA
Found at i:15625142 original size:23 final size:23
Alignment explanation
Indices: 15625116--15625213 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
15625106 ATAAGTGCCA
15625116 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
15625139 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
15625162 CACTG-GATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
15625184 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
15625207 CACTGAT
1 CACTGAT
15625214 CAATAACACT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:15625181 original size:45 final size:45
Alignment explanation
Indices: 15625123--15625211 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
15625113 CCACACTGAT
* *
15625123 ATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTACCACTGG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
15625168 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
15625212 ATCAATAACA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.19
Consensus pattern (45 bp):
ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
Found at i:15632514 original size:23 final size:23
Alignment explanation
Indices: 15632488--15632585 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
15632478 ATAAGTGCCA
15632488 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
15632511 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
15632534 CACTG-GATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
15632556 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
15632579 CACTGAT
1 CACTGAT
15632586 CAATAACACT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:15632553 original size:45 final size:45
Alignment explanation
Indices: 15632495--15632583 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
15632485 CCACACTGAT
* *
15632495 ATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTACCACTGG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
15632540 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
15632584 ATCAATAACA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.19
Consensus pattern (45 bp):
ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
Found at i:15635444 original size:3 final size:3
Alignment explanation
Indices: 15635436--15635462 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
15635426 AATAAAATGT
15635436 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
15635463 ACATCTCATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:15639515 original size:36 final size:36
Alignment explanation
Indices: 15639468--15639622 Score: 177
Period size: 36 Copynumber: 4.0 Consensus size: 36
15639458 GCTAAGCTAC
15639468 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
*
15639504 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAG
1 CACTTATCACTTTGTCACTTGATCAGATAA--GT-G-T--AG
15639546 CTACCACTTATCACTTTGT-ATCTTGATCAGATAAGTGTAG
1 ----CACTTATCACTTTGTCA-CTTGATCAGATAAGTGTAG
* *
15639586 CACTTATCACTCTATCACTTGATCAGATAAGTGTAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
15639622 C
1 C
15639623 TAAAGCTACC
Statistics
Matches: 103, Mismatches: 4, Indels: 24
0.79 0.03 0.18
Matches are distributed among these distances:
36 62 0.60
37 1 0.01
38 2 0.02
39 1 0.01
40 3 0.03
42 3 0.03
43 1 0.01
44 2 0.02
45 1 0.01
46 27 0.26
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (36 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
Found at i:15639555 original size:46 final size:46
Alignment explanation
Indices: 15639504--15639658 Score: 188
Period size: 46 Copynumber: 3.6 Consensus size: 46
15639494 ATAAGTGTAG
*
15639504 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
15639550 CACTTATCACTTTGT-ATCTTGATCAGATAA--GT-G-T--AG----
1 CACTTATCACTTTATCA-CTTGATCAGATAAGTGTAGCTAAAGCTAC
*
15639586 CACTTATCACTCTATCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
15639632 CACTTATCACTTTATCTCTTGATCAGA
1 CACTTATCACTTTATCACTTGATCAGA
15639659 AGTACTCAAA
Statistics
Matches: 92, Mismatches: 5, Indels: 24
0.76 0.04 0.20
Matches are distributed among these distances:
36 26 0.28
37 1 0.01
38 2 0.02
39 1 0.01
40 3 0.03
42 3 0.03
43 1 0.01
44 2 0.02
45 1 0.01
46 52 0.57
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:15639563 original size:82 final size:82
Alignment explanation
Indices: 15639425--15639658 Score: 377
Period size: 82 Copynumber: 2.9 Consensus size: 82
15639415 TACGTATGAT
* *
15639425 CACTTATCA-TTTGTC-CCTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCACTTTGTCACT
1 CACTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
15639487 TGATCAGATAAGTGTAG
66 TGATCAGATAAGTGTAG
*
15639504 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGT-ATC
1 CACTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCA-C
15639568 TTGATCAGATAAGTGTAG
65 TTGATCAGATAAGTGTAG
* * *
15639586 CACTTATCACTCTATCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCTCT
1 CACTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
15639651 TGATCAGA
66 TGATCAGA
15639659 AGTACTCAAA
Statistics
Matches: 144, Mismatches: 6, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
79 9 0.06
80 5 0.03
81 21 0.15
82 109 0.76
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (82 bp):
CACTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
TGATCAGATAAGTGTAG
Found at i:15647200 original size:36 final size:36
Alignment explanation
Indices: 15647146--15647218 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
15647136 GCTAAGCTAC
* *
15647146 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
1 CACTTATCACTCTATCACTTGATCAGATAAGTGTAG
15647182 CACTTATCACTCTATCACTTGATCAGATAAGTGTAG
1 CACTTATCACTCTATCACTTGATCAGATAAGTGTAG
15647218 C
1 C
15647219 TAAAGCTACC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (36 bp):
CACTTATCACTCTATCACTTGATCAGATAAGTGTAG
Found at i:15647974 original size:59 final size:59
Alignment explanation
Indices: 15647911--15648027 Score: 234
Period size: 59 Copynumber: 2.0 Consensus size: 59
15647901 TTAGTTGGAC
15647911 CTAATTGTAAAAGTATCAAAACCACAAAAATTAGAAGAAATAATCAAGAATTAAACTTT
1 CTAATTGTAAAAGTATCAAAACCACAAAAATTAGAAGAAATAATCAAGAATTAAACTTT
15647970 CTAATTGTAAAAGTATCAAAACCACAAAAATTAGAAGAAATAATCAAGAATTAAACTT
1 CTAATTGTAAAAGTATCAAAACCACAAAAATTAGAAGAAATAATCAAGAATTAAACTT
15648028 ATATGATTCA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.55, C:0.12, G:0.09, T:0.25
Consensus pattern (59 bp):
CTAATTGTAAAAGTATCAAAACCACAAAAATTAGAAGAAATAATCAAGAATTAAACTTT
Found at i:15648511 original size:32 final size:32
Alignment explanation
Indices: 15648475--15648582 Score: 92
Period size: 33 Copynumber: 3.2 Consensus size: 32
15648465 TTAATATTTA
15648475 TTCCTAGTACACTATTCACTATTTCAAAAATT
1 TTCCTAGTACACTATTCACTATTTCAAAAATT
* * * * * *
15648507 TTCCTAACTTCAC-ATTTAACTAATTATTTTAATATTT
1 TTCCT-AGTACACTA-TT--C--ACTATTTCAAAAATT
15648544 ATTCCTAGTACACTATTCACTATTTCAAAAATT
1 -TTCCTAGTACACTATTCACTATTTCAAAAATT
15648577 TTCCTA
1 TTCCTA
15648583 ACTTCTCATT
Statistics
Matches: 56, Mismatches: 12, Indels: 16
0.67 0.14 0.19
Matches are distributed among these distances:
32 12 0.21
33 18 0.32
35 2 0.04
37 18 0.32
38 6 0.11
ACGTcount: A:0.33, C:0.20, G:0.02, T:0.44
Consensus pattern (32 bp):
TTCCTAGTACACTATTCACTATTTCAAAAATT
Found at i:15648536 original size:70 final size:70
Alignment explanation
Indices: 15648457--15648594 Score: 267
Period size: 70 Copynumber: 2.0 Consensus size: 70
15648447 TTTTTTATTT
15648457 TAATTATTTTAATATTTATTCCTAGTACACTATTCACTATTTCAAAAATTTTCCTAACTTCACAT
1 TAATTATTTTAATATTTATTCCTAGTACACTATTCACTATTTCAAAAATTTTCCTAACTTCACAT
15648522 TTAAC
66 TTAAC
*
15648527 TAATTATTTTAATATTTATTCCTAGTACACTATTCACTATTTCAAAAATTTTCCTAACTTCTCAT
1 TAATTATTTTAATATTTATTCCTAGTACACTATTCACTATTTCAAAAATTTTCCTAACTTCACAT
15648592 TTA
66 TTA
15648595 CTTATTCTCA
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 67 1.00
ACGTcount: A:0.33, C:0.18, G:0.01, T:0.47
Consensus pattern (70 bp):
TAATTATTTTAATATTTATTCCTAGTACACTATTCACTATTTCAAAAATTTTCCTAACTTCACAT
TTAAC
Found at i:15649999 original size:12 final size:12
Alignment explanation
Indices: 15649982--15650006 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15649972 GCATAGGTCA
15649982 TCCCGATGCTTC
1 TCCCGATGCTTC
15649994 TCCCGATGCTTC
1 TCCCGATGCTTC
15650006 T
1 T
15650007 GAAAACATCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.40, G:0.16, T:0.36
Consensus pattern (12 bp):
TCCCGATGCTTC
Found at i:15650169 original size:35 final size:35
Alignment explanation
Indices: 15650129--15650472 Score: 305
Period size: 35 Copynumber: 9.5 Consensus size: 35
15650119 CAACATTTGC
* *
15650129 AAAAGGTTGGGATAAACTCATCTAAGTCAACCTTA
1 AAAAGGTTGGGATAGACTCATCTAAGGCAACCTTA
* * *
15650164 AAAAGGTTGGGATAGGCCTTATCTAAGTCAACCTTTAA
1 AAAAGGTTGGGATA-GACTCATCTAAGGCAACC-TT-A
15650202 AAAAGGTTGGGATAGACTCATCTAAGGCAACCTTA
1 AAAAGGTTGGGATAGACTCATCTAAGGCAACCTTA
* * *
15650237 AAAGGGTTAGGATAGACAT-GTCTAAGGCAACCTTA
1 AAAAGGTTGGGATAGAC-TCATCTAAGGCAACCTTA
* * * *
15650272 AAAAAGTCGGGATAGACCTTATCAAAGGCAACCTTTAA
1 AAAAGGTTGGGATAGA-CTCATCTAAGGCAACC-TT-A
*
15650310 AAAAGGTTGGGATAGAC-CTGTCTAAGGCAACCTTA
1 AAAAGGTTGGGATAGACTC-ATCTAAGGCAACCTTA
** * *
15650345 AAAAGGTTGGGATAGACCTTGTGTAAAGCAACCTTTAA
1 AAAAGGTTGGGATAGA-CTCATCTAAGGCAACC-TT-A
* * * * * *
15650383 AAAAGATTTGGATAGACCCGTATAAGGCAAACTTA
1 AAAAGGTTGGGATAGACTCATCTAAGGCAACCTTA
** *
15650418 AAAAGGTTGGGATAGACATTGTCTAAAGCAACCTTTAA
1 AAAAGGTTGGGATAGAC-TCATCTAAGGCAACC-TT-A
*
15650456 AAAAGGTTGGGACAGAC
1 AAAAGGTTGGGATAGAC
15650473 ATGTTTAGGT
Statistics
Matches: 255, Mismatches: 38, Indels: 29
0.79 0.12 0.09
Matches are distributed among these distances:
35 91 0.36
36 56 0.22
37 46 0.18
38 62 0.24
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.24
Consensus pattern (35 bp):
AAAAGGTTGGGATAGACTCATCTAAGGCAACCTTA
Found at i:15650209 original size:73 final size:71
Alignment explanation
Indices: 15650129--15650467 Score: 306
Period size: 73 Copynumber: 4.7 Consensus size: 71
15650119 CAACATTTGC
* * *
15650129 AAAAGGTTGGGATAAACTCATCTAAGTCAACCTTAAAAAGGTTGGGATAGGCCTTATCTAAGTCA
1 AAAAGGTTGGGATAAACTCATCTAAGGCAACCTTAAAAAGGTTGGGATAGGCC-TGTCTAAGGCA
15650194 ACCTTTAA
65 ACC-TTAA
* * * * *
15650202 AAAAGGTTGGGATAGACTCATCTAAGGCAACCTTAAAAGGGTTAGGATAGACATGTCTAAGGCAA
1 AAAAGGTTGGGATAAACTCATCTAAGGCAACCTTAAAAAGGTTGGGATAGGCCTGTCTAAGGCAA
15650267 CCTTAA
66 CCTTAA
* * * * *
15650273 AAAA-GTCGGGATAGACCTTATCAAAGGCAACCTTTAAAAAAGGTTGGGATAGACCTGTCTAAGG
1 AAAAGGTTGGGATA-AACTCATCTAAGGCAACC-TT-AAAAAGGTTGGGATAGGCCTGTCTAAGG
15650337 CAACCTT-A
63 CAACCTTAA
* ** * * * * * * *
15650345 AAAAGGTTGGGATAGACCTTGTGTAAAGCAACCTTTAAAAAAGATTTGGATAGACCCGTATAAGG
1 AAAAGGTTGGGATA-AACTCATCTAAGGCAACC-TT-AAAAAGGTTGGGATAGGCCTGTCTAAGG
*
15650410 CAAACTT-A
63 CAACCTTAA
* ** *
15650418 AAAAGGTTGGGATAGACATTGTCTAAAGCAACCTTTAAAAAAGGTTGGGA
1 AAAAGGTTGGGATAAAC-TCATCTAAGGCAACC-TT-AAAAAGGTTGGGA
15650468 CAGACATGTT
Statistics
Matches: 230, Mismatches: 31, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
70 8 0.03
71 22 0.10
72 20 0.09
73 180 0.78
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.24
Consensus pattern (71 bp):
AAAAGGTTGGGATAAACTCATCTAAGGCAACCTTAAAAAGGTTGGGATAGGCCTGTCTAAGGCAA
CCTTAA
Found at i:15650270 original size:108 final size:108
Alignment explanation
Indices: 15650129--15650476 Score: 384
Period size: 108 Copynumber: 3.2 Consensus size: 108
15650119 CAACATTTGC
* * * * *
15650129 AAAAGGTTGGGATAAAC-TCATCTAAGTCAACCTTAAAAAGGTTGGGATAGGCCTTATCTAAGTC
1 AAAAGGTTGGGATAGACAT-GTCTAAGGCAACCTTAAAAAGGTTGGGATAGACCTTATCTAAGGC
*
15650193 AACCTTTAAAAAAGGTTGGGATAGACTCATCTAAGGCAACCTTA
65 AACCTTTAAAAAAGGTTGGGATAGACTCGTCTAAGGCAACCTTA
* * * * *
15650237 AAAGGGTTAGGATAGACATGTCTAAGGCAACCTTAAAAAAGTCGGGATAGACCTTATCAAAGGCA
1 AAAAGGTTGGGATAGACATGTCTAAGGCAACCTTAAAAAGGTTGGGATAGACCTTATCTAAGGCA
15650302 ACCTTTAAAAAAGGTTGGGATAGAC-CTGTCTAAGGCAACCTTA
66 ACCTTTAAAAAAGGTTGGGATAGACTC-GTCTAAGGCAACCTTA
* * * * * *
15650345 AAAAGGTTGGGATAGACCTTGTGTAAAGCAACCTTTAAAAAAGATTTGGATAGACCCGTA--TAA
1 AAAAGGTTGGGATAGA-CATGTCTAAGGCAACC-TT-AAAAAGGTTGGGATAGA-CCTTATCTAA
* * *
15650408 GGCAAAC-TT-AAAAAGGTTGGGATAGACATTGTCTAAAGCAACCTTTAA
62 GGCAACCTTTAAAAAAGGTTGGGATAGAC-TCGTCTAAGGCAACC-TT-A
*
15650456 AAAAGGTTGGGACAGACATGT
1 AAAAGGTTGGGATAGACATGT
15650477 TTAGGTAAAT
Statistics
Matches: 203, Mismatches: 27, Indels: 18
0.82 0.11 0.07
Matches are distributed among these distances:
107 1 0.00
108 125 0.62
109 28 0.14
110 16 0.08
111 29 0.14
112 4 0.02
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.24
Consensus pattern (108 bp):
AAAAGGTTGGGATAGACATGTCTAAGGCAACCTTAAAAAGGTTGGGATAGACCTTATCTAAGGCA
ACCTTTAAAAAAGGTTGGGATAGACTCGTCTAAGGCAACCTTA
Found at i:15650433 original size:181 final size:183
Alignment explanation
Indices: 15650129--15650460 Score: 483
Period size: 181 Copynumber: 1.8 Consensus size: 183
15650119 CAACATTTGC
* *
15650129 AAAAGGTTGGGATAAACTCATCTAAGTCAACCTTAAAAAGGTTGGGATAGGCCTTATCTAAGTCA
1 AAAAGGTTGGGATAAACTCATCTAAGGCAACCTTAAAAAGGTTGGGATAGACCTTATCTAAGTCA
* * * * *
15650194 ACCTTTAAAAAAGGTTGGGATAGACTCATCTAAGGCAACCTTAAAAGGGTTAGGATAGACA-TGT
66 ACCTTTAAAAAAGATTGGGATAGACCCATATAAGGCAAACTTAAAAAGGTTAGGATAGACATTGT
*
15650258 CTAAGGCAACC-TTAAAAAAGTCGGGATAGACCTTATCAAAGGCAACCTTTAA
131 CTAAAGCAACCTTTAAAAAAGTCGGGATAGACCTTATCAAAGGCAACCTTTAA
* * * *
15650310 AAAAGGTTGGGATAGAC-CTGTCTAAGGCAACCTTAAAAAGGTTGGGATAGACCTTGTGTAAAG-
1 AAAAGGTTGGGATAAACTC-ATCTAAGGCAACCTTAAAAAGGTTGGGATAGACCTTATCT-AAGT
* * *
15650373 CAACCTTTAAAAAAGATTTGGATAGACCCGTATAAGGCAAACTTAAAAAGGTTGGGATAGACATT
64 CAACCTTTAAAAAAGATTGGGATAGACCCATATAAGGCAAACTTAAAAAGGTTAGGATAGACATT
15650438 GTCTAAAGCAACCTTTAAAAAAG
129 GTCTAAAGCAACCTTTAAAAAAG
15650461 GTTGGGACAG
Statistics
Matches: 132, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
180 1 0.01
181 106 0.80
182 16 0.12
183 9 0.07
ACGTcount: A:0.39, C:0.15, G:0.22, T:0.24
Consensus pattern (183 bp):
AAAAGGTTGGGATAAACTCATCTAAGGCAACCTTAAAAAGGTTGGGATAGACCTTATCTAAGTCA
ACCTTTAAAAAAGATTGGGATAGACCCATATAAGGCAAACTTAAAAAGGTTAGGATAGACATTGT
CTAAAGCAACCTTTAAAAAAGTCGGGATAGACCTTATCAAAGGCAACCTTTAA
Found at i:15655724 original size:39 final size:39
Alignment explanation
Indices: 15655669--15655748 Score: 133
Period size: 39 Copynumber: 2.1 Consensus size: 39
15655659 GTGCTTAATT
15655669 CAATATCTGATAATAACTATAAGCAATCCCGGCTAAATA
1 CAATATCTGATAATAACTATAAGCAATCCCGGCTAAATA
* * *
15655708 CAATATGTGATCATAACTATAAGCACTCCCGGCTAAATA
1 CAATATCTGATAATAACTATAAGCAATCCCGGCTAAATA
15655747 CA
1 CA
15655749 TGACTGACAG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.41, C:0.23, G:0.11, T:0.25
Consensus pattern (39 bp):
CAATATCTGATAATAACTATAAGCAATCCCGGCTAAATA
Done.