Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 219 of 311
Found at i:74866522 original size:104 final size:104
Alignment explanation
Indices: 74866261--74866559 Score: 321
Period size: 104 Copynumber: 2.9 Consensus size: 104
74866251 TAGGTCATCG
* * * * * *** * * *
74866261 AGCTGTTAGGAGTTGCAATATTAAATCAACTAACTCAAATTATCAGAGGCTGCAATCTTAATTTA
1 AGCTGTTAGGAGTTGCGATATTAAACCAACTAACTCTAATAATCGGAAATTGCGATCTTAAATCA
* * ** * *
74866326 GCTAGCCTTAGTAAAATCAGCTGTGAACGTAGTTCAGCG
66 GCTAGCCTTAGTAAAATTAGTTGTGAACGTAGGCCAACA
**
74866365 AGCTGTTAGGAGTTGCGATATTAAACCAACTAACTCTAATAATCGGAGGTTGCGATCTTAAATCA
1 AGCTGTTAGGAGTTGCGATATTAAACCAACTAACTCTAATAATCGGAAATTGCGATCTTAAATCA
*
74866430 GCTAGCCTTAGTAAAATTAGTTGTGAACGTAGGCCAATA
66 GCTAGCCTTAGTAAAATTAGTTGTGAACGTAGGCCAACA
* * * * * *
74866469 AGCTGTTAGGAGTTGCGATCTTAAATCATCTAGCTCATAA-AATTGGAAATTGCGATATTAAATC
1 AGCTGTTAGGAGTTGCGATATTAAACCAACTAACTC-TAATAATCGGAAATTGCGATCTTAAATC
* **
74866533 ATCTAGCCTTAAAAAAATTAGTTGTGA
65 AGCTAGCCTTAGTAAAATTAGTTGTGA
74866560 GAATCGAATG
Statistics
Matches: 167, Mismatches: 27, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
104 164 0.98
105 3 0.02
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.30
Consensus pattern (104 bp):
AGCTGTTAGGAGTTGCGATATTAAACCAACTAACTCTAATAATCGGAAATTGCGATCTTAAATCA
GCTAGCCTTAGTAAAATTAGTTGTGAACGTAGGCCAACA
Found at i:74874872 original size:3 final size:3
Alignment explanation
Indices: 74874864--74875060 Score: 63
Period size: 3 Copynumber: 66.7 Consensus size: 3
74874854 TAGTAATAGG
* * * * *
74874864 AAT AAT AAT AAT AAT -AT ATT AAT GAT AAC GAT AAT AGAA AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT
* ** * * * *
74874909 AAT AAA AAT AAT AA- AAT -AT GTT AAC AAG GAT GAT AAT AAT -AT AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
74874953 AA- AAT GAAG AAT TAT AAT GCATT AAT AA- AAT CAAG AAT AAT AAT AAC
1 AAT AAT -AAT AAT AAT AAT --AAT AAT AAT AAT -AAT AAT AAT AAT AAT
* **
74875000 AAC AAT AAT ACA- AAT AAT AAT ACAT AA- AA- AAT GGT AAT AAT AAT
1 AAT AAT AAT A-AT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT
**
74875044 AAT AAT GGT AAT AAT AA
1 AAT AAT AAT AAT AAT AA
74875061 CTTTAAAAAT
Statistics
Matches: 141, Mismatches: 38, Indels: 30
0.67 0.18 0.14
Matches are distributed among these distances:
2 19 0.13
3 110 0.78
4 10 0.07
5 2 0.01
ACGTcount: A:0.61, C:0.04, G:0.08, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:74876780 original size:15 final size:15
Alignment explanation
Indices: 74876757--74876786 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
74876747 GTTATGAAAA
*
74876757 ATTTCTATATAAATT
1 ATTTATATATAAATT
74876772 ATTTATATATAAATT
1 ATTTATATATAAATT
74876787 CCCCTATTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.53
Consensus pattern (15 bp):
ATTTATATATAAATT
Found at i:74878631 original size:3 final size:3
Alignment explanation
Indices: 74878625--74878673 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
74878615 AATGATGATG
74878625 ATA ATA ATA ATA 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
74878673 A
1 A
74878674 AAGGGATAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:74881223 original size:19 final size:19
Alignment explanation
Indices: 74881199--74881250 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 19
74881189 AATTTTTTAT
74881199 AAATATTTTGAATCTTAAA
1 AAATATTTTGAATCTTAAA
* * *
74881218 AAATATTTTAAATTTTTGAA
1 AAATATTTTGAA-TCTTAAA
*
74881238 AATTATTTTGAAT
1 AAATATTTTGAAT
74881251 TATTTTGTAA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 12 0.44
20 15 0.56
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (19 bp):
AAATATTTTGAATCTTAAA
Found at i:74882401 original size:3 final size:3
Alignment explanation
Indices: 74882395--74882426 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
74882385 TAATATAAGT
74882395 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
74882427 TAATAATAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:74882602 original size:12 final size:12
Alignment explanation
Indices: 74882568--74882602 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
74882558 ATTGAATAAA
74882568 TAAATAAAATAT
1 TAAATAAAATAT
* *
74882580 TAAACAGAATAT
1 TAAATAAAATAT
74882592 TAAATAAAATA
1 TAAATAAAATA
74882603 GTTTTTTTAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.29
Consensus pattern (12 bp):
TAAATAAAATAT
Found at i:74886531 original size:26 final size:26
Alignment explanation
Indices: 74886496--74886545 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
74886486 ATGAGTTCAT
74886496 TTTTCAGATTTGGTGGTTTTGAACAA
1 TTTTCAGATTTGGTGGTTTTGAACAA
74886522 TTTTCAGATTTGGTGGTTTTGAAC
1 TTTTCAGATTTGGTGGTTTTGAAC
74886546 CACTATTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.20, C:0.08, G:0.24, T:0.48
Consensus pattern (26 bp):
TTTTCAGATTTGGTGGTTTTGAACAA
Found at i:74886740 original size:89 final size:89
Alignment explanation
Indices: 74886583--74886796 Score: 266
Period size: 89 Copynumber: 2.4 Consensus size: 89
74886573 GGCTATTACA
* * * * * * *
74886583 GCTTAAATCTGTTCCACTGCAACTTTAGGGAAATAATATCCGCTATCTTTAACCTACTCTACTGC
1 GCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAAATCCACTATCTTCAACCTACTCCACTAC
74886648 TACTTCAGGGAGATAAGGTTAATG
66 TACTTCAGGGAGATAAGGTTAATG
* * * ** * *
74886672 GTTTTAATCTGTTTCACTGTAACTTCAGGGAAATAAAATTTACTATCTTCAGCCTGCTCCACTAC
1 GCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAAATCCACTATCTTCAACCTACTCCACTAC
74886737 TACTTCAGGGAGATAAGGTTAATG
66 TACTTCAGGGAGATAAGGTTAATG
* * * *
74886761 GCTTTAATCTGCTCCACTACAACTTTAGGGAGATAA
1 GCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAA
74886797 GATTTGCCAT
Statistics
Matches: 104, Mismatches: 21, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
89 104 1.00
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (89 bp):
GCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAAATCCACTATCTTCAACCTACTCCACTAC
TACTTCAGGGAGATAAGGTTAATG
Found at i:74886778 original size:44 final size:44
Alignment explanation
Indices: 74886629--74886797 Score: 142
Period size: 44 Copynumber: 3.8 Consensus size: 44
74886619 TATCCGCTAT
* * *
74886629 CTTTAACCTACTCTACTGCTACTTCAGGGAGATAAGGTTAATGG
1 CTTTAACCTGCTCCACTACTACTTCAGGGAGATAAGGTTAATGG
* * * * * * ** * **
74886673 TTTTAATCTGTTTCACT-GTAACTTCAGGGAAATAAAATTTACTAT
1 CTTTAACCTGCTCCACTACT-ACTTCAGGGAGAT-AAGGTTAATGG
* *
74886718 CTTCAGCCTGCTCCACTACTACTTCAGGGAGATAAGGTTAATGG
1 CTTTAACCTGCTCCACTACTACTTCAGGGAGATAAGGTTAATGG
* * *
74886762 CTTTAATCTGCTCCACTACAACTTTAGGGAGATAAG
1 CTTTAACCTGCTCCACTACTACTTCAGGGAGATAAG
74886798 ATTTGCCATG
Statistics
Matches: 91, Mismatches: 31, Indels: 6
0.71 0.24 0.05
Matches are distributed among these distances:
43 1 0.01
44 60 0.66
45 29 0.32
46 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (44 bp):
CTTTAACCTGCTCCACTACTACTTCAGGGAGATAAGGTTAATGG
Found at i:74901118 original size:3 final size:3
Alignment explanation
Indices: 74901112--74901149 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
74901102 TAATATAAGT
74901112 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
74901150 TAATAGTAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:74901329 original size:12 final size:12
Alignment explanation
Indices: 74901295--74901329 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
74901285 GTTAATTGAA
74901295 TAAATAAAATAT
1 TAAATAAAATAT
* *
74901307 TAAACAGAATAT
1 TAAATAAAATAT
74901319 TAAATAAAATA
1 TAAATAAAATA
74901330 GTTTTTTTAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.29
Consensus pattern (12 bp):
TAAATAAAATAT
Found at i:74905567 original size:69 final size:69
Alignment explanation
Indices: 74905456--74905595 Score: 226
Period size: 69 Copynumber: 2.0 Consensus size: 69
74905446 GAAGATTTAA
* * *
74905456 TATTATCGAATATTGAATATAATGGTAACATATATTATATTTTTTAAAAGAAAATTTAAGTTTAA
1 TATTATCGAATATTAAATATAATGGTAACATATATTATATTTTCTAAAAGAAAATTTAAGTTCAA
74905521 AATT
66 AATT
* * *
74905525 TATTATCGAATATTAAATATAATGGTAAGATATATTATATTTTCTAAAAGAGAATTTAAGTTCGA
1 TATTATCGAATATTAAATATAATGGTAACATATATTATATTTTCTAAAAGAAAATTTAAGTTCAA
74905590 AATT
66 AATT
74905594 TA
1 TA
74905596 AAAACAATAT
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
69 65 1.00
ACGTcount: A:0.44, C:0.04, G:0.10, T:0.42
Consensus pattern (69 bp):
TATTATCGAATATTAAATATAATGGTAACATATATTATATTTTCTAAAAGAAAATTTAAGTTCAA
AATT
Found at i:74906703 original size:22 final size:23
Alignment explanation
Indices: 74906678--74906720 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
74906668 CCAAATTCTC
74906678 TCAAA-TT-TCTCTCAATTTTTTG
1 TCAAAGTTGTCTCT-AATTTTTTG
74906700 TCAAAGTTGTCTCTAATTTTT
1 TCAAAGTTGTCTCTAATTTTT
74906721 GCAAAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 5 0.26
23 9 0.47
24 5 0.26
ACGTcount: A:0.23, C:0.16, G:0.07, T:0.53
Consensus pattern (23 bp):
TCAAAGTTGTCTCTAATTTTTTG
Found at i:74908712 original size:18 final size:18
Alignment explanation
Indices: 74908685--74908726 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
74908675 AATTCCCCAT
*
74908685 CGCCTTATGGGATTCAAA
1 CGCCTCATGGGATTCAAA
74908703 CGCCTCATGGGATTCAAA
1 CGCCTCATGGGATTCAAA
74908721 CGCCTC
1 CGCCTC
74908727 CACCATAAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.24
Consensus pattern (18 bp):
CGCCTCATGGGATTCAAA
Found at i:74913535 original size:69 final size:69
Alignment explanation
Indices: 74913426--74913566 Score: 228
Period size: 69 Copynumber: 2.0 Consensus size: 69
74913416 GGAAGATTTA
* * *
74913426 TTATTATCGAATATTGAATATAATGGTAACATATATTATATTTTTTAAAAGAAAATTTAAGTTTA
1 TTATTATCGAATATTAAATATAATGGTAACATATATTATATTTTCTAAAAGAAAATTTAAGTTCA
74913491 AAAT
66 AAAT
* * *
74913495 TTATTATCGAATATTAAATATAATGGTAAGATATATTATATTTTCTAAAAGAGAATTTAAGTTCG
1 TTATTATCGAATATTAAATATAATGGTAACATATATTATATTTTCTAAAAGAAAATTTAAGTTCA
74913560 AAAT
66 AAAT
74913564 TTA
1 TTA
74913567 AAAACAATAT
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
69 66 1.00
ACGTcount: A:0.44, C:0.04, G:0.10, T:0.43
Consensus pattern (69 bp):
TTATTATCGAATATTAAATATAATGGTAACATATATTATATTTTCTAAAAGAAAATTTAAGTTCA
AAAT
Found at i:74914674 original size:22 final size:23
Alignment explanation
Indices: 74914649--74914691 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
74914639 CCAAATTCTC
74914649 TCAAA-TT-TCTCTCAATTTTTTG
1 TCAAAGTTGTCTCT-AATTTTTTG
74914671 TCAAAGTTGTCTCTAATTTTT
1 TCAAAGTTGTCTCTAATTTTT
74914692 GCAAAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 5 0.26
23 9 0.47
24 5 0.26
ACGTcount: A:0.23, C:0.16, G:0.07, T:0.53
Consensus pattern (23 bp):
TCAAAGTTGTCTCTAATTTTTTG
Found at i:74916685 original size:18 final size:18
Alignment explanation
Indices: 74916658--74916699 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
74916648 AATTCCCCAT
*
74916658 CGCCTTATGGGATTCAAA
1 CGCCTCATGGGATTCAAA
74916676 CGCCTCATGGGATTCAAA
1 CGCCTCATGGGATTCAAA
74916694 CGCCTC
1 CGCCTC
74916700 CACCATAAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.24
Consensus pattern (18 bp):
CGCCTCATGGGATTCAAA
Found at i:74921507 original size:69 final size:69
Alignment explanation
Indices: 74921398--74921538 Score: 237
Period size: 69 Copynumber: 2.0 Consensus size: 69
74921388 GGAAGATTTA
* * *
74921398 TTATTATCGAATATTGAATATAATGGTAACATATATTATATTTTTTAAAAGAAAATTTAAGTTTG
1 TTATTATCGAATATTAAATATAATGGTAACATATATTATATTTTCTAAAAGAAAATTTAAGTTCG
74921463 AAAT
66 AAAT
* *
74921467 TTATTATCGAATATTAAATATAATGGTAAGATATATTATATTTTCTAAAAGAGAATTTAAGTTCG
1 TTATTATCGAATATTAAATATAATGGTAACATATATTATATTTTCTAAAAGAAAATTTAAGTTCG
74921532 AAAT
66 AAAT
74921536 TTA
1 TTA
74921539 AAAACAATAT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
69 67 1.00
ACGTcount: A:0.43, C:0.04, G:0.11, T:0.43
Consensus pattern (69 bp):
TTATTATCGAATATTAAATATAATGGTAACATATATTATATTTTCTAAAAGAAAATTTAAGTTCG
AAAT
Found at i:74922645 original size:21 final size:22
Alignment explanation
Indices: 74922621--74922667 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
74922611 CCAAATTCTC
74922621 TCAAA-TT-TCTCTCAATTTTTG
1 TCAAAGTTGTCTCT-AATTTTTG
74922642 TCAAAGTTGTCTCTAATTTTTG
1 TCAAAGTTGTCTCTAATTTTTG
74922664 -CAAA
1 TCAAA
74922668 AAAAAGCCGT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 9 0.38
22 10 0.42
23 5 0.21
ACGTcount: A:0.28, C:0.17, G:0.09, T:0.47
Consensus pattern (22 bp):
TCAAAGTTGTCTCTAATTTTTG
Found at i:74925071 original size:10 final size:11
Alignment explanation
Indices: 74925048--74925080 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
74925038 GACTACGACA
74925048 ATATTTTTAAT
1 ATATTTTTAAT
*
74925059 ATATTTTT-TT
1 ATATTTTTAAT
74925069 ATATTTTTAAT
1 ATATTTTTAAT
74925080 A
1 A
74925081 AAATATAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (11 bp):
ATATTTTTAAT
Found at i:74928341 original size:126 final size:126
Alignment explanation
Indices: 74928114--74928418 Score: 502
Period size: 126 Copynumber: 2.4 Consensus size: 126
74928104 CTAAAGCTTT
*
74928114 TCAGATACTACTGTAGCAAAAGAGCGTCCACGTGGAAGCTTTTTTCCGTAATTTTGCTGACAGTG
1 TCAGATACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCCGTAATTTTGCTGACAGTG
* *
74928179 CATCCTTCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTA
66 CATCCTTCTTGAAGCATTTTTGACACTATTTATTCAGAAACATCTTCTCAAAATTATTTTA
* * *
74928240 TCAGACACTACTTTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCCATAATTTTGCTGACAGTG
1 TCAGATACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCCGTAATTTTGCTGACAGTG
* *
74928305 CATCCTTCTTGAAGCATTTTTTATACTATTTATTCAGAAACATCTTCTCAAAATTATTTTA
66 CATCCTTCTTGAAGCATTTTTGACACTATTTATTCAGAAACATCTTCTCAAAATTATTTTA
* * * *
74928366 TCAGATACTACTGTAGCAAAAGAGCATCCATGTAGGAGGTTTTTTCCGTAATT
1 TCAGATACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCCGTAATT
74928419 AATAGTTAAT
Statistics
Matches: 164, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
126 164 1.00
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.36
Consensus pattern (126 bp):
TCAGATACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCCGTAATTTTGCTGACAGTG
CATCCTTCTTGAAGCATTTTTGACACTATTTATTCAGAAACATCTTCTCAAAATTATTTTA
Found at i:74929110 original size:313 final size:312
Alignment explanation
Indices: 74928446--74929983 Score: 2212
Period size: 313 Copynumber: 4.9 Consensus size: 312
74928436 ATAAACCTTA
74928446 AAAAAACCCTAAA-CCTAATTTAATTGATTTTTTTAAATTTCATAGTTAATTTAATTAATTAACC
1 AAAAAACCCTAAACCCTAATTTAATTGATTTTTTT-AATTTCATAGTTAATTTAATTAATTAACC
*
74928510 CTCAACTCTAATTAAATTAAATTTTCCCTTAAAAATACTAAAACCCTAAACCACTAAAACCATAA
65 CTCAACTCTAATTAAATTAAATTTTCCCTTAAAAACACTAAAACCCTAAACCACTAAAACCATAA
* * *
74928575 TCCTAAAACAATCAAAAACCTTAACCTTAAAAACTCTAAACCCTAATTTAATTGATTTTTTTTAT
130 TCCTAAAACAAT-AAAAACCCTAACCTTAAAAACCCTAAACCCTAATTTAATT-A--ATTTTT-T
74928640 TTATTTTCATAGTTAATTTAATTAATTAACCCTCAACTCTAATTAAATTAATTTTTCCCTT-AAA
190 TTATTTTCATAGTTAATTTAATTAATTAACCCTCAACTCTAATTAAATTAATTTTTCCCTTAAAA
* * * * *
74928704 AATACTAAAACTCTAAACTACTAAAACCCTGATCCTAAAATAATAAAAAACCCTAACCTT
255 AACACTAAAAC-CTAAACCACTAAAACCTTGATCCTAAAACAAT-AAAAACCCTAACCCT
* *
74928764 AAAAAACCCTAAACCCTAATTTATTTG--TTTTTTATTTTCATAGTTAATTTAATTAATTAACCC
1 AAAAAACCCTAAACCCTAATTTAATTGATTTTTTTAATTTCATAGTTAATTTAATTAATTAACCC
* * * *
74928827 TCAACTCTAATTAAATTAATTTTTCCCTTAAAAATACTAAAACCCTAAACCACTAAAACCCTGAT
66 TCAACTCTAATTAAATTAAATTTTCCCTTAAAAACACTAAAACCCTAAACCACTAAAACCATAAT
* * *
74928892 CCTAAAACAATAAAAAAATCCTAACCTTAAAAACCTTAAACCCTAATCTAATTAATTTTTTTTAT
131 CCTAAAACAAT--AAAAACCCTAACCTTAAAAACCCTAAACCCTAATTTAATTAATTTTTTTTAT
74928957 TTTCATAGTTAATTTAATTAATTAACCCTCAACTCTAATTAAATTAATTTTTCCCTTAAAAAACA
194 TTTCATAGTTAATTTAATTAATTAACCCTCAACTCTAATTAAATTAATTTTTCCCTTAAAAAACA
*
74929022 CTAAAACCTAAACCACAAAAACCCTT-ATCCTAAAACAATCAAAAACCCTAA-CCT
259 CTAAAACCTAAACCACTAAAA-CCTTGATCCTAAAACAAT-AAAAACCCTAACCCT
* * **
74929076 TAAAAACCATAAA-CCTAATTTAATTGATTTTTTTACGTTCATAGTTAATTTAATTAATTAACCC
1 AAAAAACCCTAAACCCTAATTTAATTGATTTTTTTAATTTCATAGTTAATTTAATTAATTAACCC
* * *
74929140 TCAACTCTACTTAAATTAAATTTTCCCTTAAAAACACTAAAACCCTAAACTACTAAAA-CATTGA
66 TCAACTCTAATTAAATTAAATTTTCCCTTAAAAACACTAAAACCCTAAACCACTAAAACCA-TAA
* *
74929204 TCCTAAAACAATAAAAAACCCTAACATTAAAAAACCATAAACCCTAATTTAATTAATTTTTTTTA
130 TCCTAAAACAAT-AAAAACCCTAACCTT-AAAAACCCTAAACCCTAATTTAATTAATTTTTTTTA
* * *
74929269 TTTTCACAGTTAATTTAATTAATTAACCATCAACTTTAATTAAATTAATTTTTCCCTTAAAAAAC
193 TTTTCATAGTTAATTTAATTAATTAACCCTCAACTCTAATTAAATTAATTTTTCCCTTAAAAAAC
*
74929334 ACTAAAACCCTAAACCACTAAAACCTTGATCCTAAAATAATAAAAACCCTAACCCT
258 ACTAAAA-CCTAAACCACTAAAACCTTGATCCTAAAACAATAAAAACCCTAACCCT
*
74929390 AAAAAACCCTAAACCCTAATTTAGTTGATTTTTTTAATTTCATAGTTAATTTAATTAATTAACCC
1 AAAAAACCCTAAACCCTAATTTAATTGATTTTTTTAATTTCATAGTTAATTTAATTAATTAACCC
74929455 TCAACTCTAATTAAATT-AATTTTCCCTTAAAAAACACTAAAACCCTAAACCACTAAAATCC-TA
66 TCAACTCTAATTAAATTAAATTTTCCCTT-AAAAACACTAAAACCCTAAACCACTAAAA-CCATA
* * *
74929518 ATCCTAAAACAATCAAAACCCTAACCCTAAAAAACCCTAAACCCTAATTTAATTGA--TTTTTTA
129 ATCCTAAAACAATAAAAACCCTAA-CCTTAAAAACCCTAAACCCTAATTTAATTAATTTTTTTTA
* * *
74929581 ATTTCATAGTTAATTTAATTAATTAACCCTCAACTCCAATTAAATTAAATTTTCCCTTAAAAAAC
193 TTTTCATAGTTAATTTAATTAATTAACCCTCAACTCTAATTAAATTAATTTTTCCCTTAAAAAAC
*
74929646 ACTAAAACCCTAAATCACTAAAACCTTGATCCTAAAACAATAAAAACCCTAACCCT
258 ACTAAAA-CCTAAACCACTAAAACCTTGATCCTAAAACAATAAAAACCCTAACCCT
** *
74929702 AAAAAACTTTAAACCCTAATTT-A--G-TTTTTTTAATTTCATAGTTAATTTAATTAATTAACTC
1 AAAAAACCCTAAACCCTAATTTAATTGATTTTTTTAATTTCATAGTTAATTTAATTAATTAACCC
* *
74929763 TCAACTCTAATTAAATTAATTTTTCCCTTAAAAAACACTAAAACCCTAAACCACTAAAACTATAA
66 TCAACTCTAATTAAATTAAATTTTCCCTT-AAAAACACTAAAACCCTAAACCACTAAAACCATAA
* * *
74929828 TCCTAAAACAATCAAAACCCTAACCTTAAAAACCCTAAATCCTAATTTAATTGATTTTTTAATTT
130 TCCTAAAACAATAAAAACCCTAACCTTAAAAACCCTAAACCCTAATTTAATT-AATTTTT--TTT
* * * *
74929893 CTTAGTTAATTTACTTAATTTAAGTAATTAACCCTCAACTCTAATTAAATTAATTTTTCCCTTAA
192 ATT--TTCA--TAGTTAATTTAATTAATTAACCCTCAACTCTAATTAAATTAATTTTTCCCTTAA
*
74929958 AAAACATTAAAACCCT-AACC-CTAAAA
253 AAAACACTAAAA-CCTAAACCACTAAAA
74929984 TATCGAAGCA
Statistics
Matches: 1115, Mismatches: 78, Indels: 57
0.89 0.06 0.05
Matches are distributed among these distances:
308 81 0.07
309 67 0.06
311 15 0.01
312 168 0.15
313 322 0.29
314 107 0.10
315 117 0.10
316 106 0.10
317 107 0.10
318 13 0.01
319 12 0.01
ACGTcount: A:0.43, C:0.21, G:0.02, T:0.34
Consensus pattern (312 bp):
AAAAAACCCTAAACCCTAATTTAATTGATTTTTTTAATTTCATAGTTAATTTAATTAATTAACCC
TCAACTCTAATTAAATTAAATTTTCCCTTAAAAACACTAAAACCCTAAACCACTAAAACCATAAT
CCTAAAACAATAAAAACCCTAACCTTAAAAACCCTAAACCCTAATTTAATTAATTTTTTTTATTT
TCATAGTTAATTTAATTAATTAACCCTCAACTCTAATTAAATTAATTTTTCCCTTAAAAAACACT
AAAACCTAAACCACTAAAACCTTGATCCTAAAACAATAAAAACCCTAACCCT
Found at i:74929237 original size:156 final size:157
Alignment explanation
Indices: 74928439--74929983 Score: 2195
Period size: 155 Copynumber: 9.8 Consensus size: 157
74928429 TTAATTAATA
74928439 AACCTTAAAAAAACCCTAAA-CCTAATTTAATTGATTTTTTTAAATTTCATAGTTAATTTAATTA
1 AACCTT-AAAAAACCCTAAACCCTAATTTAATTGATTTTTTT-AATTTCATAGTTAATTTAATTA
* *
74928503 ATTAACCCTCAACTCTAATTAAATTAAATTTTCCCTT-AAAAATACTAAAACCCTAAACCACTAA
64 ATTAACCCTCAACTCTAATTAAATTAATTTTTCCCTTAAAAAACACTAAAACCCTAAACCACTAA
* * *
74928567 AACCATAATCCTAAAACAATCAAAAACCTT
129 AACCTTGATCCTAAAACAAT-AAAAACCCT
*
74928597 AACCTT-AAAAACTCTAAACCCTAATTTAATTGATTTTTTTTATTTATTTTCATAGTTAATTTAA
1 AACCTTAAAAAACCCTAAACCCTAATTTAATTGA-TTTTTTTA---A-TTTCATAGTTAATTTAA
* * *
74928661 TTAATTAACCCTCAACTCTAATTAAATTAATTTTTCCCTT-AAAAATACTAAAACTCTAAACTAC
61 TTAATTAACCCTCAACTCTAATTAAATTAATTTTTCCCTTAAAAAACACTAAAACCCTAAACCAC
* *
74928725 TAAAACCCTGATCCTAAAATAATAAAAAACCCT
126 TAAAACCTTGATCCTAAAACAAT-AAAAACCCT
* *
74928758 AACCTTAAAAAACCCTAAACCCTAATTTATTTG--TTTTTTATTTTCATAGTTAATTTAATTAAT
1 AACCTTAAAAAACCCTAAACCCTAATTTAATTGATTTTTTTAATTTCATAGTTAATTTAATTAAT
*
74928821 TAACCCTCAACTCTAATTAAATTAATTTTTCCCTT-AAAAATACTAAAACCCTAAACCACTAAAA
66 TAACCCTCAACTCTAATTAAATTAATTTTTCCCTTAAAAAACACTAAAACCCTAAACCACTAAAA
* *
74928885 CCCTGATCCTAAAACAATAAAAAAATCCT
131 CCTTGATCCTAAAACAAT--AAAAACCCT
* * * *
74928914 AACCTT-AAAAACCTTAAACCCTAATCTAATTAATTTTTTTTATTTTCATAGTTAATTTAATTAA
1 AACCTTAAAAAACCCTAAACCCTAATTTAATTGA-TTTTTTTAATTTCATAGTTAATTTAATTAA
*
74928978 TTAACCCTCAACTCTAATTAAATTAATTTTTCCCTTAAAAAACACTAAAA-CCTAAACCACAAAA
65 TTAACCCTCAACTCTAATTAAATTAATTTTTCCCTTAAAAAACACTAAAACCCTAAACCACTAAA
74929042 ACCCTT-ATCCTAAAACAATCAAAAACCCT
130 A-CCTTGATCCTAAAACAAT-AAAAACCCT
* **
74929071 AACCTT-AAAAACCATAAA-CCTAATTTAATTGATTTTTTTACGTTCATAGTTAATTTAATTAAT
1 AACCTTAAAAAACCCTAAACCCTAATTTAATTGATTTTTTTAATTTCATAGTTAATTTAATTAAT
* * *
74929134 TAACCCTCAACTCTACTTAAATTAAATTTTCCCTT-AAAAACACTAAAACCCTAAACTACTAAAA
66 TAACCCTCAACTCTAATTAAATTAATTTTTCCCTTAAAAAACACTAAAACCCTAAACCACTAAAA
*
74929198 CATTGATCCTAAAACAATAAAAAACCCT
131 CCTTGATCCTAAAACAAT-AAAAACCCT
* * * * *
74929226 AACATTAAAAAACCATAAACCCTAATTTAATTAATTTTTTTTATTTTCACAGTTAATTTAATTAA
1 AACCTTAAAAAACCCTAAACCCTAATTTAATTGA-TTTTTTTAATTTCATAGTTAATTTAATTAA
* *
74929291 TTAACCATCAACTTTAATTAAATTAATTTTTCCCTTAAAAAACACTAAAACCCTAAACCACTAAA
65 TTAACCCTCAACTCTAATTAAATTAATTTTTCCCTTAAAAAACACTAAAACCCTAAACCACTAAA
*
74929356 ACCTTGATCCTAAAATAATAAAAACCCT
130 ACCTTGATCCTAAAACAATAAAAACCCT
* *
74929384 AACCCTAAAAAACCCTAAACCCTAATTTAGTTGATTTTTTTAATTTCATAGTTAATTTAATTAAT
1 AACCTTAAAAAACCCTAAACCCTAATTTAATTGATTTTTTTAATTTCATAGTTAATTTAATTAAT
74929449 TAACCCTCAACTCTAATTAAATTAA-TTTTCCCTTAAAAAACACTAAAACCCTAAACCACTAAAA
66 TAACCCTCAACTCTAATTAAATTAATTTTTCCCTTAAAAAACACTAAAACCCTAAACCACTAAAA
* *
74929513 TCC-TAATCCTAAAACAATCAAAACCCT
131 -CCTTGATCCTAAAACAATAAAAACCCT
*
74929540 AACCCTAAAAAACCCTAAACCCTAATTTAATTGA-TTTTTTAATTTCATAGTTAATTTAATTAAT
1 AACCTTAAAAAACCCTAAACCCTAATTTAATTGATTTTTTTAATTTCATAGTTAATTTAATTAAT
* * *
74929604 TAACCCTCAACTCCAATTAAATTAAATTTTCCCTTAAAAAACACTAAAACCCTAAATCACTAAAA
66 TAACCCTCAACTCTAATTAAATTAATTTTTCCCTTAAAAAACACTAAAACCCTAAACCACTAAAA
74929669 CCTTGATCCTAAAACAATAAAAACCCT
131 CCTTGATCCTAAAACAATAAAAACCCT
* **
74929696 AACCCTAAAAAACTTTAAACCCTAATTT-A--G-TTTTTTTAATTTCATAGTTAATTTAATTAAT
1 AACCTTAAAAAACCCTAAACCCTAATTTAATTGATTTTTTTAATTTCATAGTTAATTTAATTAAT
*
74929757 TAACTCTCAACTCTAATTAAATTAATTTTTCCCTTAAAAAACACTAAAACCCTAAACCACTAAAA
66 TAACCCTCAACTCTAATTAAATTAATTTTTCCCTTAAAAAACACTAAAACCCTAAACCACTAAAA
* *
74929822 -CTATAATCCTAAAACAATCAAAACCCT
131 CCT-TGATCCTAAAACAATAAAAACCCT
* *
74929849 AACCTT-AAAAACCCTAAATCCTAATTTAATTGA-TTTTTTAATTTCTTAGTTAATTTACTTAAT
1 AACCTTAAAAAACCCTAAACCCTAATTTAATTGATTTTTTTAATTTCATAGTTAA--T--TTAA-
*
74929912 TTAAGTAATTAACCCTCAACTCTAATTAAATTAATTTTTCCCTTAAAAAACATTAAAACCCT-AA
61 -T---TAATTAACCCTCAACTCTAATTAAATTAATTTTTCCCTTAAAAAACACTAAAACCCTAAA
74929976 CC-CTAAAA
122 CCACTAAAA
74929984 TATCGAAGCA
Statistics
Matches: 1270, Mismatches: 80, Indels: 70
0.89 0.06 0.05
Matches are distributed among these distances:
152 20 0.02
153 120 0.09
154 16 0.01
155 302 0.24
156 229 0.18
157 108 0.09
158 202 0.16
159 70 0.06
160 1 0.00
161 113 0.09
162 30 0.02
163 4 0.00
164 55 0.04
ACGTcount: A:0.43, C:0.21, G:0.02, T:0.34
Consensus pattern (157 bp):
AACCTTAAAAAACCCTAAACCCTAATTTAATTGATTTTTTTAATTTCATAGTTAATTTAATTAAT
TAACCCTCAACTCTAATTAAATTAATTTTTCCCTTAAAAAACACTAAAACCCTAAACCACTAAAA
CCTTGATCCTAAAACAATAAAAACCCT
Found at i:74929396 original size:16 final size:17
Alignment explanation
Indices: 74929375--74929408 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
74929365 CTAAAATAAT
74929375 AAAAACCCT-AACCCTA
1 AAAAACCCTAAACCCTA
74929391 AAAAACCCTAAACCCTA
1 AAAAACCCTAAACCCTA
74929408 A
1 A
74929409 TTTAGTTGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.53, C:0.35, G:0.00, T:0.12
Consensus pattern (17 bp):
AAAAACCCTAAACCCTA
Found at i:74929553 original size:16 final size:17
Alignment explanation
Indices: 74929532--74929564 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
74929522 TAAAACAATC
74929532 AAAACCCT-AACCCTAA
1 AAAACCCTAAACCCTAA
74929548 AAAACCCTAAACCCTAA
1 AAAACCCTAAACCCTAA
74929565 TTTAATTGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.52, C:0.36, G:0.00, T:0.12
Consensus pattern (17 bp):
AAAACCCTAAACCCTAA
Found at i:74941255 original size:13 final size:12
Alignment explanation
Indices: 74941223--74941252 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
74941213 TCATACTTTA
74941223 TCAAAACATTTT
1 TCAAAACATTTT
*
74941235 TCACAACATTTT
1 TCAAAACATTTT
74941247 TCAAAA
1 TCAAAA
74941253 ACAATTCTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.43, C:0.20, G:0.00, T:0.37
Consensus pattern (12 bp):
TCAAAACATTTT
Found at i:74944462 original size:18 final size:18
Alignment explanation
Indices: 74944427--74944460 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
74944417 TAATAATTAA
74944427 ATTTAAAATTTTATAAAT
1 ATTTAAAATTTTATAAAT
74944445 ATTTAAAA-TTTATAAA
1 ATTTAAAATTTTATAAA
74944461 ATCAATTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
ATTTAAAATTTTATAAAT
Found at i:74946391 original size:45 final size:45
Alignment explanation
Indices: 74946342--74946463 Score: 165
Period size: 45 Copynumber: 2.7 Consensus size: 45
74946332 AATTTATTTT
* *
74946342 TGATATTTTGTTGTGTATTCACAGCCCAGTGGAAGATTTTATCTA
1 TGATATTTTGTTGTGTATCCACAGCCCAGTGGAAGATTTCATCTA
* * * * *
74946387 TGATATTTTGCTGTGCACCCACAGCCTAGTGGTAGATTTCATCTA
1 TGATATTTTGTTGTGTATCCACAGCCCAGTGGAAGATTTCATCTA
74946432 TGGAT-TTTTGTTGTGTATCCACAGCCCAGTGG
1 T-GATATTTTGTTGTGTATCCACAGCCCAGTGG
74946464 CTAATTTTAT
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
45 62 0.95
46 3 0.05
ACGTcount: A:0.21, C:0.18, G:0.22, T:0.39
Consensus pattern (45 bp):
TGATATTTTGTTGTGTATCCACAGCCCAGTGGAAGATTTCATCTA
Found at i:74950471 original size:30 final size:28
Alignment explanation
Indices: 74950405--74950472 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 28
74950395 CTTTTCGTAA
*
74950405 TTTAAAATTTAGTTTTTATATTTTTATT
1 TTTAAAATTTAGTTTTTATATTTTTAAT
74950433 TTTAAAAATTTAGTTTCTT-TATTTTTTAGAT
1 TTT-AAAATTTAGTTT-TTATA-TTTTTA-AT
74950464 TTTAAAATT
1 TTTAAAATT
74950473 CAGGTTTAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
28 3 0.09
29 14 0.40
30 14 0.40
31 4 0.11
ACGTcount: A:0.31, C:0.01, G:0.04, T:0.63
Consensus pattern (28 bp):
TTTAAAATTTAGTTTTTATATTTTTAAT
Found at i:74950574 original size:18 final size:18
Alignment explanation
Indices: 74950551--74950585 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
74950541 GTTACATTGT
*
74950551 TATAATGATATCAAGTGC
1 TATAATGATACCAAGTGC
74950569 TATAATGATACCAAGTG
1 TATAATGATACCAAGTG
74950586 AGTATTTTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.31
Consensus pattern (18 bp):
TATAATGATACCAAGTGC
Found at i:74952849 original size:62 final size:61
Alignment explanation
Indices: 74952758--74953013 Score: 248
Period size: 62 Copynumber: 4.1 Consensus size: 61
74952748 CCATGTACCT
* * * *
74952758 TGGCCGTGTGGATTTTA-AGCA-CAAACAGTGTGTCACACGGCCTGGGCACACGCTCGTGTCCC
1 TGGCCGTGTGG-TTTTATA-CATC-AACAGTGAGTTACACGGCCTGGGCACACACCCGTGTCCC
* * * * * *
74952820 TGGTCGTGTGGTTTTATACTATTAACAGTGAGTTACACGG-CTAGGGTACACGCCCATGTACC
1 TGGCCGTGTGGTTTTATAC-ATCAACAGTGAGTTACACGGCCT-GGGCACACACCCGTGTCCC
* * *
74952882 TGGCTGTGTGGTTTTATACAATGAACAGTGAGTTACACGGCCTAGGCACACACCCGTGTCCC
1 TGGCCGTGTGGTTTTATAC-ATCAACAGTGAGTTACACGGCCTGGGCACACACCCGTGTCCC
* ** ** * **
74952944 TAGCCGTGTGGTTTTACGCCCCCACAGTGAGTTACACGGCCTGGGCACACATTCGTGTCCC
1 TGGCCGTGTGGTTTTATACATCAACAGTGAGTTACACGGCCTGGGCACACACCCGTGTCCC
74953005 TGGCCGTGT
1 TGGCCGTGT
74953014 AAACCATGCA
Statistics
Matches: 160, Mismatches: 29, Indels: 11
0.80 0.14 0.05
Matches are distributed among these distances:
61 51 0.32
62 107 0.67
63 2 0.01
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.26
Consensus pattern (61 bp):
TGGCCGTGTGGTTTTATACATCAACAGTGAGTTACACGGCCTGGGCACACACCCGTGTCCC
Found at i:74953705 original size:16 final size:14
Alignment explanation
Indices: 74953660--74953717 Score: 53
Period size: 16 Copynumber: 3.8 Consensus size: 14
74953650 ACAATTAAGG
74953660 AAGAAAAAGAAAAAGA
1 AAGAAAAA-AAAAA-A
* *
74953676 ATCGAAAAATAAAAA
1 A-AGAAAAAAAAAAA
74953691 AAGTAAATAAAAAAAA
1 AAG-AAA-AAAAAAAA
74953707 AAGAAAAAAAA
1 AAGAAAAAAAA
74953718 TAGATAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
14 6 0.17
15 8 0.23
16 15 0.43
17 6 0.17
ACGTcount: A:0.81, C:0.02, G:0.10, T:0.07
Consensus pattern (14 bp):
AAGAAAAAAAAAAA
Found at i:74953707 original size:24 final size:24
Alignment explanation
Indices: 74953680--74953727 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
74953670 AAAAGAATCG
* *
74953680 AAAAATAAAAAAAGTAAATAAAAA
1 AAAAAGAAAAAAAATAAATAAAAA
*
74953704 AAAAAGAAAAAAAATAGATAAAAA
1 AAAAAGAAAAAAAATAAATAAAAA
74953728 GATGAGGGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.83, C:0.00, G:0.06, T:0.10
Consensus pattern (24 bp):
AAAAAGAAAAAAAATAAATAAAAA
Found at i:74960016 original size:62 final size:61
Alignment explanation
Indices: 74959880--74960049 Score: 196
Period size: 62 Copynumber: 2.7 Consensus size: 61
74959870 AACATCTTGC
* * * * *
74959880 CACACGGCCTGGGCAAACGCCCATGTGCCTTGGCCGTATGGATTTTAAGTATAAACAGTGAGT
1 CACACGGCCTGGGCACACGCCCATGT-CCCTGGCCGTGTGG-TTTTAACTATAAACAGTAAGT
* * * *
74959943 CACATGGCCTGGGCACATGCCCATGTCCCTGGCCATGTGGTTTTATACTATGAACAGTAAGT
1 CACACGGCCTGGGCACACGCCCATGTCCCTGGCCGTGTGGTTTTA-ACTATAAACAGTAAGT
* ** *
74960005 TACACGGCCTGGGCACACGCTTATGTCCCTGACCGTGTGGTTTTA
1 CACACGGCCTGGGCACACGCCCATGTCCCTGGCCGTGTGGTTTTA
74960050 CAACCCAAAT
Statistics
Matches: 90, Mismatches: 16, Indels: 3
0.83 0.15 0.03
Matches are distributed among these distances:
61 5 0.06
62 62 0.69
63 23 0.26
ACGTcount: A:0.22, C:0.26, G:0.26, T:0.26
Consensus pattern (61 bp):
CACACGGCCTGGGCACACGCCCATGTCCCTGGCCGTGTGGTTTTAACTATAAACAGTAAGT
Found at i:74962469 original size:30 final size:29
Alignment explanation
Indices: 74962431--74962489 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 29
74962421 TGATTTTGTA
*
74962431 TTATTTTATGTATTTTCTTTTAAATCTAT
1 TTATTTTATATATTTTCTTTTAAATCTAT
74962460 TTATGTTTATATATTTTCTTTTAAATCTAT
1 TTAT-TTTATATATTTTCTTTTAAATCTAT
74962490 ATATATAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 4 0.14
30 24 0.86
ACGTcount: A:0.25, C:0.07, G:0.03, T:0.64
Consensus pattern (29 bp):
TTATTTTATATATTTTCTTTTAAATCTAT
Found at i:74968437 original size:22 final size:20
Alignment explanation
Indices: 74968406--74968446 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
74968396 TAGTTTTTAA
74968406 TAATAAAAATTGATGAAATTTT
1 TAATAAAAA-TGAT-AAATTTT
*
74968428 TAATAGAAATGATAAATTT
1 TAATAAAAATGATAAATTT
74968447 ACTCTTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 4 0.22
22 8 0.44
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.39
Consensus pattern (20 bp):
TAATAAAAATGATAAATTTT
Found at i:74969450 original size:20 final size:20
Alignment explanation
Indices: 74969408--74969452 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
74969398 TTTTTTACGT
*
74969408 TAAAAAATAATTAAATATCG
1 TAAAAAATAATAAAATATCG
*
74969428 TAAAAAATTATAAGAATAT-G
1 TAAAAAATAATAA-AATATCG
74969448 TAAAA
1 TAAAA
74969453 TTACTATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 17 0.77
21 5 0.23
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.29
Consensus pattern (20 bp):
TAAAAAATAATAAAATATCG
Found at i:74971331 original size:16 final size:15
Alignment explanation
Indices: 74971305--74971339 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
74971295 TGATGTGAAT
74971305 AATATAAAATATTAA
1 AATATAAAATATTAA
*
74971320 AATATCAAAATATTAG
1 AATAT-AAAATATTAA
74971336 AATA
1 AATA
74971340 ATAATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (15 bp):
AATATAAAATATTAA
Found at i:74971530 original size:25 final size:25
Alignment explanation
Indices: 74971493--74971638 Score: 104
Period size: 25 Copynumber: 5.8 Consensus size: 25
74971483 TGATAATATT
* *
74971493 AAAAATATGTACATAATATAGTGTA
1 AAAAATATATACATAATATAGTATA
*
74971518 AAAAATACATACATAATATA--AT-
1 AAAAATATATACATAATATAGTATA
* * *
74971540 TAAAATATATACATAAGATAACATGTAAA
1 AAAAATATATACAT-A-AT-ATA-GTATA
* *
74971569 AAAATATATATAAATAATATAGTATT
1 AAAA-ATATATACATAATATAGTATA
* *
74971595 AAAGATATATACATAAAATAGTAT-
1 AAAAATATATACATAATATAGTATA
* *
74971619 -AATATATATACGTAATATAG
1 AAAAATATATACATAATATAG
74971639 AATTTAGAAT
Statistics
Matches: 95, Mismatches: 18, Indels: 18
0.73 0.14 0.14
Matches are distributed among these distances:
22 12 0.13
23 19 0.20
24 2 0.02
25 38 0.40
26 6 0.06
27 2 0.02
28 3 0.03
29 4 0.04
30 9 0.09
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.32
Consensus pattern (25 bp):
AAAAATATATACATAATATAGTATA
Found at i:74971602 original size:23 final size:23
Alignment explanation
Indices: 74971576--74971703 Score: 59
Period size: 23 Copynumber: 5.5 Consensus size: 23
74971566 AAAAAAATAT
74971576 ATATAAATAATATAGTATTAAAG
1 ATATAAATAATATAGTATTAAAG
* *
74971599 ATATATACATAAAATAGTA-TAATAT
1 ATATA-A-ATAATATAGTATTAA-AG
** * *
74971624 ATATACGTAATATAGAATT-TAG
1 ATATAAATAATATAGTATTAAAG
** *
74971646 AATATACCTAATATA-T-TAAAAG
1 -ATATAAATAATATAGTATTAAAG
* *
74971668 AATATATATAATATAATATT-AAG
1 -ATATAAATAATATAGTATTAAAG
*
74971691 AAATATAATAATA
1 ATATA-AATAATA
74971704 ACAAAAAAAG
Statistics
Matches: 79, Mismatches: 17, Indels: 18
0.69 0.15 0.16
Matches are distributed among these distances:
21 1 0.01
22 20 0.25
23 36 0.46
24 6 0.08
25 16 0.20
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.35
Consensus pattern (23 bp):
ATATAAATAATATAGTATTAAAG
Found at i:74972223 original size:30 final size:30
Alignment explanation
Indices: 74972182--74972280 Score: 162
Period size: 30 Copynumber: 3.3 Consensus size: 30
74972172 TAGGTACAAG
74972182 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
* * *
74972212 AGGTAGTGGAGCAAGTGTGGCTAATGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
*
74972242 TGGTGGTGGAGCAAGTGTAGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
74972272 TGGTGGTGG
1 TGGTGGTGG
74972281 CAAAGGCTAG
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 62 1.00
ACGTcount: A:0.19, C:0.06, G:0.48, T:0.26
Consensus pattern (30 bp):
TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
Found at i:74973063 original size:87 final size:88
Alignment explanation
Indices: 74972894--74973497 Score: 486
Period size: 92 Copynumber: 6.8 Consensus size: 88
74972884 TCTTTACTCG
* ** * * *
74972894 GCATGTGATCCTGA-GCTTAACTCATTTCTCGCAATATGAATTGACTCTTT-AAAACTAAACA-T
1 GCATGTGA-CC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAC-AAA-ATT
*
74972956 T-AAAAACAGAAATTGAAAATAGCTCA
62 TGAAAAACAGAAATTGAAAATACCTCA
* * * *
74972982 GCACGTGAGCCAAGGCTCAACTCACTTCTCGCAATATGAGTTGA-TTTTT-AAAACAAAATTTGT
1 GCATGTGA-CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAAAATTTGA
** *
74973045 AAAACAGATTTTGAAAATA-CTCG
65 AAAACAGAAATTGAAAATACCTCA
* * *
74973068 GTATGTGACCGAGGCTCAACTCACCTCTCGTAATATGAGTTGA-TTTTTGCAAAGCATAAATTAA
1 GCATGTGACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-AAAACA-AAATT--
** ** *
74973132 AAAAAAACATCAATTGAAAATACCTCG
62 TGAAAAACAGAAATTGAAAATACCTCA
*
74973159 GCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACATAAA-T
1 GCATGTGACC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGA-AAACA-AAATT
* *
74973223 TGAAAAAAAAAAGAAATTGAAAATATCTCA
62 TG---AAAAACAGAAATTGAAAATACCTCA
* * *
74973253 GC--GTGTCCTGAGGCTGAACTTACCTCTCGCAATATGAGTTGATTTTTTGGAAAA-AAAATTTG
1 GCATGTGACC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT-GAAAACAAAATTTG
*
74973315 AAAAACAGAATTTGAAAATACCTCA
64 AAAAACAGAAATTGAAAATACCTCA
* * * * *
74973340 GCGTGTGAGTCAAGGCTCAACTCACCACTCGCAATATGAGCTGATTTTTTTTGAAACACAGAAA-
1 GCATGTGA-CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTGAAA-ACA-AAAT
* * *
74973404 TTGAAGAACAGAAATGGAAAACACCTCA
61 TTGAAAAACAGAAATTGAAAATACCTCA
* * * *
74973432 GCATCT---TGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAGACAGAAA-TT
1 GCATGTGACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAA-ACA-AAATTT
74973493 GAAAA
63 GAAAA
74973498 TACCTCAACG
Statistics
Matches: 430, Mismatches: 60, Indels: 53
0.79 0.11 0.10
Matches are distributed among these distances:
85 38 0.09
86 14 0.03
87 80 0.19
88 71 0.17
89 34 0.08
90 24 0.06
91 28 0.07
92 100 0.23
93 5 0.01
94 36 0.08
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (88 bp):
GCATGTGACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAAAATTTGAA
AAACAGAAATTGAAAATACCTCA
Found at i:74973551 original size:73 final size:73
Alignment explanation
Indices: 74973435--74973771 Score: 433
Period size: 73 Copynumber: 4.6 Consensus size: 73
74973425 CACCTCAGCA
* * * *
74973435 TCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGA-AAGACAGAAATTGAAAAT
1 TCTTGAGGCTCAACTCACCTCTCGCAATATGAG-TTA-ATTTTTGACAA-ACAAAAATTGAAAAT
74973499 ACCTCAACGTG
63 ACCTCAACGTG
*
74973510 TCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGACAAACAAAAATTGAAATTACC
1 TCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGACAAACAAAAATTGAAAATACC
*
74973575 TCAGCGTG
66 TCAACGTG
* * * * *
74973583 TCCTGAGGCTCAACTCACCTATCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAATAC
1 TCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT-AATTTTTGACAAACAAAAATTGAAAATAC
74973648 CTCAACGTG
65 CTCAACGTG
* * * * *
74973657 TCTTGAGGCTCAACTCACCTCTTGCAATATGAGTTGAGTTTTGATAAACAAAAATTGAAATTACC
1 TCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGACAAACAAAAATTGAAAATACC
*
74973722 TCAGCGTG
66 TCAACGTG
* * ** *
74973730 TCCTGAGACTCAACTCATTTCTCGCAATATGAGTTGATTTTT
1 TCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTT
74973772 TTTAGAAACA
Statistics
Matches: 231, Mismatches: 29, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
73 130 0.56
74 69 0.30
75 32 0.14
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.31
Consensus pattern (73 bp):
TCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGACAAACAAAAATTGAAAATACC
TCAACGTG
Found at i:74973706 original size:147 final size:147
Alignment explanation
Indices: 74973438--74973772 Score: 562
Period size: 147 Copynumber: 2.3 Consensus size: 147
74973428 CTCAGCATCT
* * *
74973438 TGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAGACAGAAATTGAAAATACCT
1 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAAATTGAAAATACCT
*
74973503 CAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGACAAACAAAAATTGA
65 CAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTAAGTTTTGACAAACAAAAATTGA
74973568 AATTACCTCAGCGTGTCC
130 AATTACCTCAGCGTGTCC
*
74973586 TGAGGCTCAACTCACCTATCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAATACCTC
1 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAATACCTC
* * *
74973651 AACGTGTCTTGAGGCTCAACTCACCTCTTGCAATATGAGTTGAGTTTTGATAAACAAAAATTGAA
66 AACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTAAGTTTTGACAAACAAAAATTGAA
74973716 ATTACCTCAGCGTGTCC
131 ATTACCTCAGCGTGTCC
* **
74973733 TGAGACTCAACTCATTTCTCGCAATATGAGTTGATTTTTT
1 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
74973773 TTAGAAACAT
Statistics
Matches: 175, Mismatches: 12, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
147 144 0.82
148 31 0.18
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.31
Consensus pattern (147 bp):
TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAATACCTC
AACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTAAGTTTTGACAAACAAAAATTGAA
ATTACCTCAGCGTGTCC
Found at i:74973997 original size:14 final size:13
Alignment explanation
Indices: 74973962--74974006 Score: 72
Period size: 13 Copynumber: 3.4 Consensus size: 13
74973952 TTGATTTTTG
74973962 AAAAACAGAAATT
1 AAAAACAGAAATT
*
74973975 AAAAGCAGAAATT
1 AAAAACAGAAATT
74973988 GAAAAACAGAAATT
1 -AAAAACAGAAATT
74974002 AAAAA
1 AAAAA
74974007 TACCTCGGCG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 17 0.59
14 12 0.41
ACGTcount: A:0.69, C:0.07, G:0.11, T:0.13
Consensus pattern (13 bp):
AAAAACAGAAATT
Found at i:74974023 original size:100 final size:101
Alignment explanation
Indices: 74973790--74974078 Score: 424
Period size: 100 Copynumber: 2.9 Consensus size: 101
74973780 CATAAATTTA
*
74973790 AAAAAC-GAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGTAATATGAGT
1 AAAAACAG-AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGTAATATGAGT
* * * *
74973854 TGA--TTTGAAAAGTAGAATTTGTAAGGCAAAAATTG
65 TGATTTTTGAAAAGCAGAAATTGAAAAGCAAAAATTG
74973889 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGTAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGTAATATGAGTT
* *
74973954 GATTTTTGAAAAACAGAAATT-AAAAGCAGAAATTG
66 GATTTTTGAAAAGCAGAAATTGAAAAGCAAAAATTG
* * * * *
74973989 AAAAACAGAAATTAAAAATACCTCGGCGTGCCCTGAGTCTCAGCTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGTAATATGAGTT
*
74974054 GATTTTTGAAAAGCATAAATTGAAA
66 GATTTTTGAAAAGCAGAAATTGAAA
74974079 TTACCTCAGC
Statistics
Matches: 172, Mismatches: 14, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
99 64 0.37
100 91 0.53
101 17 0.10
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.25
Consensus pattern (101 bp):
AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGTAATATGAGTT
GATTTTTGAAAAGCAGAAATTGAAAAGCAAAAATTG
Found at i:74974084 original size:73 final size:74
Alignment explanation
Indices: 74973986--74974153 Score: 248
Period size: 73 Copynumber: 2.3 Consensus size: 74
74973976 AAAGCAGAAA
* * * * * * *
74973986 TTGAAAAACAGAAATTAAAAATACCTCGGCGTGCCCTGAGTCTCAGCTCACCTCTCGCAATATGA
1 TTGAAAAGCATAAATTGAAAATACCTCAGCGTGCCCTAAGGCTCAACTCACCTCTCGCAATATGA
74974051 GTTGA-TTT
66 GTTGATTTT
* *
74974059 TTGAAAAGCATAAATTGAAATTACCTCAGCGTGTCCTAAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAGCATAAATTGAAAATACCTCAGCGTGCCCTAAGGCTCAACTCACCTCTCGCAATATGA
74974124 GTTGATTTT
66 GTTGATTTT
74974133 TTGAAAAGCATAAATTGAAAA
1 TTGAAAAGCATAAATTGAAAA
74974154 AACGGAAATT
Statistics
Matches: 84, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
73 61 0.73
74 23 0.27
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.29
Consensus pattern (74 bp):
TTGAAAAGCATAAATTGAAAATACCTCAGCGTGCCCTAAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTT
Found at i:74975117 original size:16 final size:17
Alignment explanation
Indices: 74975096--74975128 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
74975086 GATCCCTCTC
74975096 TCTTTT-TCTTTTTTTT
1 TCTTTTCTCTTTTTTTT
74975112 TCTTTTCTCTTTTTTTT
1 TCTTTTCTCTTTTTTTT
74975129 AAGATGCCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (17 bp):
TCTTTTCTCTTTTTTTT
Found at i:74975119 original size:15 final size:16
Alignment explanation
Indices: 74975099--74975128 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
74975089 CCCTCTCTCT
74975099 TTTTCT-TTTTTTTTC
1 TTTTCTCTTTTTTTTC
74975114 TTTTCTCTTTTTTTT
1 TTTTCTCTTTTTTTT
74975129 AAGATGCCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (16 bp):
TTTTCTCTTTTTTTTC
Found at i:74981244 original size:16 final size:15
Alignment explanation
Indices: 74981218--74981252 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
74981208 TGATGTGAAT
74981218 AATATAAAATATTAA
1 AATATAAAATATTAA
*
74981233 AATATCAAAATATTAG
1 AATAT-AAAATATTAA
74981249 AATA
1 AATA
74981253 ATAATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (15 bp):
AATATAAAATATTAA
Found at i:74981424 original size:20 final size:20
Alignment explanation
Indices: 74981367--74981426 Score: 59
Period size: 23 Copynumber: 2.9 Consensus size: 20
74981357 AATACTACAT
74981367 AAATATGTACAT-ATATAAA
1 AAATATGTACATAATATAAA
** *
74981386 AAATAAATACGTGATAATATTAA
1 AAATATGTAC---ATAATATAAA
74981409 AAATATGTACATAATATA
1 AAATATGTACATAATATA
74981427 GTGTAAAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
19 8 0.26
20 7 0.23
22 2 0.06
23 14 0.45
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.32
Consensus pattern (20 bp):
AAATATGTACATAATATAAA
Found at i:74981435 original size:25 final size:25
Alignment explanation
Indices: 74981380--74981554 Score: 108
Period size: 25 Copynumber: 7.0 Consensus size: 25
74981370 TATGTACATA
* * *
74981380 TATAAAAAATAAATACGTGATA-A-
1 TATAAAAAATATATACATAATATAG
* *
74981403 TATTAAAAATATGTACATAATATAG
1 TATAAAAAATATATACATAATATAG
* *
74981428 TGTAAAAAAATACATACATAATATA-
1 TAT-AAAAAATATATACATAATATAG
* * *
74981453 -AT-TAAAATATATACATAAGATAACA
1 TATAAAAAATATATACATAATAT-A-G
* *
74981478 TGTAAAATATATATATAAATAATATAG
1 TATAAAA-A-ATATATACATAATATAG
* * *
74981505 TATTAAAGATATATACATAAAATAG
1 TATAAAAAATATATACATAATATAG
* * *
74981530 TATAATATATATATACGTAATATAG
1 TATAAAAAATATATACATAATATAG
74981555 AATTTAGAAT
Statistics
Matches: 114, Mismatches: 28, Indels: 18
0.71 0.17 0.11
Matches are distributed among these distances:
22 16 0.14
23 18 0.16
24 2 0.02
25 37 0.32
26 19 0.17
27 7 0.06
28 2 0.02
29 13 0.11
ACGTcount: A:0.56, C:0.05, G:0.07, T:0.33
Consensus pattern (25 bp):
TATAAAAAATATATACATAATATAG
Found at i:74981445 original size:26 final size:25
Alignment explanation
Indices: 74981407--74981469 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 25
74981397 TGATAATATT
** *
74981407 AAAAATATGTACATAATATAGTGTAA
1 AAAAATACATACATAATATAAT-TAA
74981433 AAAAATACATACATAATATAATTAA
1 AAAAATACATACATAATATAATTAA
*
74981458 AATATATACATA
1 AA-AAATACATA
74981470 AGATAACATG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
25 5 0.16
26 27 0.84
ACGTcount: A:0.59, C:0.06, G:0.05, T:0.30
Consensus pattern (25 bp):
AAAAATACATACATAATATAATTAA
Found at i:74981459 original size:22 final size:22
Alignment explanation
Indices: 74981434--74981475 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
74981424 ATAGTGTAAA
*
74981434 AAAATACATACATAATATAATT
1 AAAATACATACATAAGATAATT
*
74981456 AAAATATATACATAAGATAA
1 AAAATACATACATAAGATAA
74981476 CATGTAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.62, C:0.07, G:0.02, T:0.29
Consensus pattern (22 bp):
AAAATACATACATAAGATAATT
Found at i:74981499 original size:29 final size:29
Alignment explanation
Indices: 74981459--74981525 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
74981449 TATAATTAAA
*
74981459 ATATATACATAAGATAACATGTAAA-ATAT
1 ATATATAAATAAGATAACAT-TAAAGATAT
* **
74981488 ATATATAAATAATATAGTATTAAAGATAT
1 ATATATAAATAAGATAACATTAAAGATAT
*
74981517 ATACATAAA
1 ATATATAAA
74981526 ATAGTATAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 4 0.12
29 28 0.88
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.33
Consensus pattern (29 bp):
ATATATAAATAAGATAACATTAAAGATAT
Found at i:74981553 original size:50 final size:49
Alignment explanation
Indices: 74981403--74981554 Score: 137
Period size: 50 Copynumber: 3.0 Consensus size: 49
74981393 TACGTGATAA
* * * * * *
74981403 TATTAAAAATATGTACATAATATAGTGTAAAAAAATACATACATAATATA-
1 TATT-AAAATATATACATAAAATAGTAT-AATATATATATACATAATATAG
* * *
74981453 -ATTAAAATATATACATAAGATAACATGTAAAATATATATATAAATAATATAG
1 TATTAAAATATATACAT-A-A-AATA-GTATAATATATATATACATAATATAG
*
74981505 TATTAAAGATATATACATAAAATAGTATAATATATATATACGTAATATAG
1 TATTAAA-ATATATACATAAAATAGTATAATATATATATACATAATATAG
74981555 AATTTAGAAT
Statistics
Matches: 82, Mismatches: 13, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
48 12 0.15
49 4 0.05
50 24 0.29
51 22 0.27
52 3 0.04
53 7 0.09
54 10 0.12
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.34
Consensus pattern (49 bp):
TATTAAAATATATACATAAAATAGTATAATATATATATACATAATATAG
Found at i:74982129 original size:18 final size:18
Alignment explanation
Indices: 74982106--74982159 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
74982096 ACAAGTGGTG
74982106 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
*
74982124 GT-G-G--AGT-TGG-TG
1 GTGGAGCAAGTGTGGCTA
74982136 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
74982154 GTGGAG
1 GTGGAG
74982160 TTGGTGGTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
12 3 0.11
13 4 0.14
14 4 0.14
16 4 0.14
17 4 0.14
18 9 0.32
ACGTcount: A:0.19, C:0.07, G:0.50, T:0.24
Consensus pattern (18 bp):
GTGGAGCAAGTGTGGCTA
Found at i:74982137 original size:30 final size:30
Alignment explanation
Indices: 74982101--74982169 Score: 138
Period size: 30 Copynumber: 2.3 Consensus size: 30
74982091 TAGGTACAAG
74982101 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
74982131 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
74982161 TGGTGGTGG
1 TGGTGGTGG
74982170 CAAAGGCTAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.14, C:0.06, G:0.52, T:0.28
Consensus pattern (30 bp):
TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
Found at i:74984185 original size:19 final size:19
Alignment explanation
Indices: 74984161--74984197 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
74984151 AACATCAATC
74984161 AAGAAGTGTTGAGGGGTCA
1 AAGAAGTGTTGAGGGGTCA
74984180 AAGAAGTGTTGAGGGGTC
1 AAGAAGTGTTGAGGGGTC
74984198 TTTTGATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.30, C:0.05, G:0.43, T:0.22
Consensus pattern (19 bp):
AAGAAGTGTTGAGGGGTCA
Found at i:74987665 original size:25 final size:25
Alignment explanation
Indices: 74987637--74987688 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
74987627 ATCGTTAATA
74987637 AAACCCCTGACCTTTCTACAGCAAC
1 AAACCCCTGACCTTTCTACAGCAAC
74987662 AAACCCCTGACCTTTCTACAGCAAC
1 AAACCCCTGACCTTTCTACAGCAAC
74987687 AA
1 AA
74987689 CATATATGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.35, C:0.38, G:0.08, T:0.19
Consensus pattern (25 bp):
AAACCCCTGACCTTTCTACAGCAAC
Found at i:75009877 original size:16 final size:17
Alignment explanation
Indices: 75009849--75009883 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
75009839 GCAACAATGG
75009849 AGCATTAACCGGGATTT
1 AGCATTAACCGGGATTT
75009866 AGCATT-ACCGGGATTT
1 AGCATTAACCGGGATTT
75009882 AG
1 AG
75009884 ATATCCAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.29
Consensus pattern (17 bp):
AGCATTAACCGGGATTT
Found at i:75011981 original size:38 final size:38
Alignment explanation
Indices: 75011938--75012029 Score: 100
Period size: 38 Copynumber: 2.4 Consensus size: 38
75011928 CATGTGACAA
75011938 AAAATTATAAAAAAATTAATAAAAGTTA-T-AAAAAGTATT
1 AAAATTATAAAAAAA-T-ATAAAA-TTATTAAAAAAGTATT
* *
75011977 -AAATTTTAATAAAAATATAAAATTATTAAAAAATTATT
1 AAAATTATAA-AAAAATATAAAATTATTAAAAAAGTATT
*
75012015 AAAATTAGAAAAAAA
1 AAAATTATAAAAAAA
75012030 GATTTATAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
36 3 0.07
37 7 0.16
38 23 0.51
39 12 0.27
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (38 bp):
AAAATTATAAAAAAATATAAAATTATTAAAAAAGTATT
Found at i:75012027 original size:20 final size:19
Alignment explanation
Indices: 75011938--75012029 Score: 64
Period size: 20 Copynumber: 4.7 Consensus size: 19
75011928 CATGTGACAA
*
75011938 AAAATTATAAAAAAATTAAT
1 AAAATTA-AAAAAAATTATT
* *
75011958 AAAAGTT-ATAAAAAGTATT
1 AAAA-TTAAAAAAAATTATT
* *
75011977 AAATTTTAATAAAAA-TA-T
1 AAA-ATTAAAAAAAATTATT
*
75011995 AAAATTATTAAAAAATTATT
1 AAAATTA-AAAAAAATTATT
75012015 AAAATTAGAAAAAAA
1 AAAATTA-AAAAAAA
75012030 GATTTATAAA
Statistics
Matches: 57, Mismatches: 9, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
17 3 0.05
18 9 0.16
19 18 0.32
20 25 0.44
21 2 0.04
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (19 bp):
AAAATTAAAAAAAATTATT
Found at i:75012028 original size:19 final size:18
Alignment explanation
Indices: 75011945--75012028 Score: 64
Period size: 19 Copynumber: 4.4 Consensus size: 18
75011935 CAAAAAATTA
*
75011945 TAAAAAAATTAATAAAAGT
1 TAAAAAAATTATTAAAA-T
* * *
75011964 TATAAAAAGTATTAAATTT
1 TAAAAAAATTATTAAA-AT
75011983 TAATAAAAA-TA-TAAAAT
1 TAA-AAAAATTATTAAAAT
75012000 TATTAAAAAATTATTAAAAT
1 TA--AAAAAATTATTAAAAT
75012020 TAGAAAAAA
1 TA-AAAAAA
75012029 AGATTTATAA
Statistics
Matches: 52, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
17 3 0.06
18 9 0.17
19 27 0.52
20 13 0.25
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (18 bp):
TAAAAAAATTATTAAAAT
Found at i:75012067 original size:19 final size:19
Alignment explanation
Indices: 75012032--75012068 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
75012022 GAAAAAAAGA
**
75012032 TTTATAAAAATTGTAAAAT
1 TTTATAAAAATCATAAAAT
75012051 TTTATAAAAATCATAAAA
1 TTTATAAAAATCATAAAA
75012069 AAAATTATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (19 bp):
TTTATAAAAATCATAAAAT
Found at i:75012080 original size:9 final size:9
Alignment explanation
Indices: 75011937--75012069 Score: 54
Period size: 9 Copynumber: 13.6 Consensus size: 9
75011927 ACATGTGACA
75011937 AAAAATTAT
1 AAAAATTAT
75011946 AAAAAAATTAAT
1 --AAAAATT-AT
*
75011958 AAAAGTTAT
1 AAAAATTAT
*
75011967 AAAAAGTATT
1 AAAAATTA-T
**
75011977 AAATTTTAAT
1 AAAAATT-AT
75011987 AAAAA-TAT
1 AAAAATTAT
75011995 -AAAATTATT
1 AAAAATTA-T
75012004 AAAAAATTAT
1 -AAAAATTAT
* *
75012014 TAAAATTAGAAA
1 AAAAATT---AT
75012026 AAAAGATTTAT
1 AAAA-A-TTAT
*
75012037 AAAAATTGT
1 AAAAATTAT
*
75012046 AAAATTTTAT
1 AAAA-ATTAT
*
75012056 AAAAATCAT
1 AAAAATTAT
75012065 AAAAA
1 AAAAA
75012070 AAATTATAAA
Statistics
Matches: 92, Mismatches: 17, Indels: 28
0.67 0.12 0.20
Matches are distributed among these distances:
7 4 0.04
8 4 0.04
9 31 0.34
10 24 0.26
11 20 0.22
12 6 0.07
13 1 0.01
14 2 0.02
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.32
Consensus pattern (9 bp):
AAAAATTAT
Found at i:75012301 original size:22 final size:22
Alignment explanation
Indices: 75012267--75012328 Score: 90
Period size: 22 Copynumber: 2.9 Consensus size: 22
75012257 TTATTTTTTA
* *
75012267 TTTTTTTA-ATTTTGAAATGTC
1 TTTTTATACATTTTGAAAGGTC
*
75012288 TTTTTATACCTTTTGAAAGGTC
1 TTTTTATACATTTTGAAAGGTC
75012310 TTTTTATACATTTTGAAAG
1 TTTTTATACATTTTGAAAG
75012329 TTCAAGTATT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 7 0.19
22 29 0.81
ACGTcount: A:0.26, C:0.08, G:0.11, T:0.55
Consensus pattern (22 bp):
TTTTTATACATTTTGAAAGGTC
Found at i:75016558 original size:3 final size:3
Alignment explanation
Indices: 75016550--75016576 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
75016540 CATTGCTTAT
75016550 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
75016577 AAACTTTCCA
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:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:75023176 original size:18 final size:18
Alignment explanation
Indices: 75023155--75023192 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
75023145 ACTTTAGCCA
*
75023155 TTTTTATTTT-ATTTTTG
1 TTTTTATTTTAATTCTTG
75023172 TTTTTATTTTAATTCTTG
1 TTTTTATTTTAATTCTTG
75023190 TTT
1 TTT
75023193 ACTAACTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.13, C:0.03, G:0.05, T:0.79
Consensus pattern (18 bp):
TTTTTATTTTAATTCTTG
Found at i:75027031 original size:3 final size:3
Alignment explanation
Indices: 75027023--75027079 Score: 82
Period size: 3 Copynumber: 19.3 Consensus size: 3
75027013 TATTTTTACT
*
75027023 TTA TTA TTA TTA TTA GTA TTA TTA TTA TTA TTA TTA TTTA TT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA
75027068 TT- TTA TTA TTA T
1 TTA TTA TTA TTA T
75027080 ATTTCTTTAC
Statistics
Matches: 49, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
2 4 0.08
3 42 0.86
4 3 0.06
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:75027093 original size:20 final size:23
Alignment explanation
Indices: 75027023--75027094 Score: 62
Period size: 24 Copynumber: 3.2 Consensus size: 23
75027013 TATTTTTACT
* *
75027023 TTATTATTATTA-TTAGTATTATTA
1 TTATTATTATTATTTACT-TTA-TC
* *
75027047 TTATTATTATTATTTATTTTATT
1 TTATTATTATTATTTACTTTATC
75027070 TTATTATTA-TATTT-CTTTA-C
1 TTATTATTATTATTTACTTTATC
75027090 TTATT
1 TTATT
75027095 TAATTAGTCT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
20 5 0.12
21 4 0.09
22 5 0.12
23 10 0.23
24 15 0.35
25 4 0.09
ACGTcount: A:0.28, C:0.03, G:0.01, T:0.68
Consensus pattern (23 bp):
TTATTATTATTATTTACTTTATC
Found at i:75028841 original size:18 final size:20
Alignment explanation
Indices: 75028804--75028850 Score: 62
Period size: 19 Copynumber: 2.4 Consensus size: 20
75028794 CCATTTATCA
*
75028804 TTTAATTTTAATTTCTTATT
1 TTTAGTTTTAATTTCTTATT
75028824 TTTAGTTTT-ATTTC-TATT
1 TTTAGTTTTAATTTCTTATT
75028842 TTTATGTTT
1 TTTA-GTTT
75028851 ATTGTTATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 8 0.32
19 9 0.36
20 8 0.32
ACGTcount: A:0.19, C:0.04, G:0.04, T:0.72
Consensus pattern (20 bp):
TTTAGTTTTAATTTCTTATT
Found at i:75037195 original size:2 final size:2
Alignment explanation
Indices: 75037188--75037212 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
75037178 AATGAGTTAT
75037188 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
75037213 ATATATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:75039776 original size:29 final size:30
Alignment explanation
Indices: 75039711--75039777 Score: 73
Period size: 31 Copynumber: 2.2 Consensus size: 30
75039701 AATATCGAAA
75039711 TTATATATAAATTTTGATGTAATGTATAATG
1 TTATATATAAATTTTGATGTAATG-ATAATG
* * * * *
75039742 TCATATATGAATTTTGATTTTATG-TAATT
1 TTATATATAAATTTTGATGTAATGATAATG
75039771 TTATATA
1 TTATATA
75039778 CATGAAATTT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
29 10 0.33
31 20 0.67
ACGTcount: A:0.36, C:0.01, G:0.10, T:0.52
Consensus pattern (30 bp):
TTATATATAAATTTTGATGTAATGATAATG
Found at i:75048758 original size:30 final size:30
Alignment explanation
Indices: 75048722--75048781 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
75048712 TATTTTATTA
*
75048722 TTAATTTTGTTATTATTTTAAAGGCATTTG
1 TTAATTTTATTATTATTTTAAAGGCATTTG
* *
75048752 TTAATTTTATTATTATTTTAGAGGTATTTG
1 TTAATTTTATTATTATTTTAAAGGCATTTG
75048782 CTTGTTAAGT
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:0.27, C:0.02, G:0.13, T:0.58
Consensus pattern (30 bp):
TTAATTTTATTATTATTTTAAAGGCATTTG
Found at i:75048885 original size:11 final size:11
Alignment explanation
Indices: 75048869--75048893 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
75048859 ATTTATTTTG
75048869 ATTTTTTTAGT
1 ATTTTTTTAGT
75048880 ATTTTTTTAGT
1 ATTTTTTTAGT
75048891 ATT
1 ATT
75048894 ATATATATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.20, C:0.00, G:0.08, T:0.72
Consensus pattern (11 bp):
ATTTTTTTAGT
Found at i:75049814 original size:252 final size:252
Alignment explanation
Indices: 75049369--75049863 Score: 866
Period size: 252 Copynumber: 2.0 Consensus size: 252
75049359 ATTATTTGTA
*
75049369 AACAAATAAAAACTGTTAAGCAACATGGAGGACTAAAATACAATGCGCATAAACCAATAGGGATT
1 AACAAATAAAAACTGTTAAGCAACATGGAGGACTAAAATACAATGCACATAAACCAATAGGGATT
* * * *
75049434 AAAAAAGTAAATAAACCAAACCTCAAAACGAATCGTTTCAACGTGGACTGAAATGAGCATACGTG
66 AAAAAAGCAAATAAACCAAACCTCAAAACGAATCATTTCAACGCGGACTGAAATGAGCATACGCG
*
75049499 CAAATTCCAGGGATAATTTAAAAGAATCAAAGAAAACATAAATAGGGCTCGATTGAATGGCTCAA
131 CAAATTCCAGGGATAATTTAAAAGAATCAAAGAAAACATAAATAAGGCTCGATTGAATGGCTCAA
* * *
75049564 CAAAGAAAGATGACCACGCGAGCAAATCGACCCTTTTAGGTGAAAAGGCGTGGATCC
196 CAAAGAAAGAGGACCACGCAAACAAATCGACCCTTTTAGGTGAAAAGGCGTGGATCC
75049621 AACAAATAAAAACTGTTAAGCAACATGGAGGACTAAAATACAATGCACATAAACCAATAGGGATT
1 AACAAATAAAAACTGTTAAGCAACATGGAGGACTAAAATACAATGCACATAAACCAATAGGGATT
*
75049686 AAAAAAGCAAATAAACCAAACC-CGAAAACGAATCATTTCAACGCGGACTGAAATGATCATACGC
66 AAAAAAGCAAATAAACCAAACCTC-AAAACGAATCATTTCAACGCGGACTGAAATGAGCATACGC
*
75049750 GCAAATTCCAGGGATAATTTAAAAGAATCAAAGAAAATATAAATAAGGCTCGATTGAATGGCTCA
130 GCAAATTCCAGGGATAATTTAAAAGAATCAAAGAAAACATAAATAAGGCTCGATTGAATGGCTCA
*
75049815 ACAAAGAAAGAGGACCACGTAAACAAATCGACCCTTTTAGGTGAAAAGG
195 ACAAAGAAAGAGGACCACGCAAACAAATCGACCCTTTTAGGTGAAAAGG
75049864 TGCAGATTCG
Statistics
Matches: 230, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
251 1 0.00
252 229 1.00
ACGTcount: A:0.46, C:0.17, G:0.18, T:0.18
Consensus pattern (252 bp):
AACAAATAAAAACTGTTAAGCAACATGGAGGACTAAAATACAATGCACATAAACCAATAGGGATT
AAAAAAGCAAATAAACCAAACCTCAAAACGAATCATTTCAACGCGGACTGAAATGAGCATACGCG
CAAATTCCAGGGATAATTTAAAAGAATCAAAGAAAACATAAATAAGGCTCGATTGAATGGCTCAA
CAAAGAAAGAGGACCACGCAAACAAATCGACCCTTTTAGGTGAAAAGGCGTGGATCC
Found at i:75050484 original size:16 final size:16
Alignment explanation
Indices: 75050463--75050493 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
75050453 TTATATAGTC
75050463 AAAAAAATAA-AAATA
1 AAAAAAATAAGAAATA
75050478 AAAAAAATAAGAAATA
1 AAAAAAATAAGAAATA
75050494 CAAATTTCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.84, C:0.00, G:0.03, T:0.13
Consensus pattern (16 bp):
AAAAAAATAAGAAATA
Found at i:75051178 original size:45 final size:45
Alignment explanation
Indices: 75051116--75051221 Score: 160
Period size: 45 Copynumber: 2.4 Consensus size: 45
75051106 ATGGCTTTGA
*
75051116 TCTGCTCCACTGCAACTTCAGGGAGATAAGA-TCTGCCATCTTTAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACT-TGCCATCTTCAG
* *
75051161 TCTGCTCCACTACAACTTCAGGGAGATAAGACTTGCTATCTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAG
*
75051206 TCTACTCCACTGCAAC
1 TCTGCTCCACTGCAAC
75051222 ACTCCACTGC
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
45 54 0.98
46 1 0.02
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.28
Consensus pattern (45 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAG
Found at i:75051227 original size:13 final size:13
Alignment explanation
Indices: 75051209--75051234 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
75051199 TCTTCAGTCT
75051209 ACTCCACTGCAAC
1 ACTCCACTGCAAC
75051222 ACTCCACTGCAAC
1 ACTCCACTGCAAC
75051235 TTTAAGGAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.46, G:0.08, T:0.15
Consensus pattern (13 bp):
ACTCCACTGCAAC
Found at i:75051581 original size:177 final size:177
Alignment explanation
Indices: 75051280--75052263 Score: 1341
Period size: 177 Copynumber: 5.6 Consensus size: 177
75051270 CACTGCAACT
* * * * *
75051280 TTAGGGAGATAAGGTCTTCAACCTTTATTCTGCTTCCTTGCTACCTTAGGAAGATAAGACTACAA
1 TTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAA
* * * *
75051345 TCTTCAGCCTGCTCCCTTGCTACCTCAGGGAGATAAGGCTAGTGGCTAAAATCTGCTCCCCTACT
66 TCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCT
* * * * * *
75051410 ACTTCGGGAAGATGAGATTCACCATCTTTGATTTGCTCCATTACTAC
131 ACCTCGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGC
* * *
75051457 TTAGGGAGATAAGATCTTTAATCCTCAGTCTGGTTCCTTGCTACCTCAGGAAGATAAGACTACAA
1 TTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAA
* *
75051522 TCTTCAACCTGCTCTCTTGCTACCTTAGAGAGATAAGGCTAGTGGCTAAAATTTGCTCCCCTGCT
66 TCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCT
* * *
75051587 ACCTCAGAAAGATAAG-TTCACCATCTTCGATCTGCTCTACTACTGC
131 ACCTCGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGC
* * * * *
75051633 TTAGGGAGATAAGATCTTCAATCTTCAGTTTACTTCCTTGCTACCCCAGTAAGATAATACTACAA
1 TTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAA
* * * * *
75051698 TTTTCAACCTACTCTCTTGCTACCTCAGAGAGAAAAGGCTAGTGGCTAAAATATGCTTCCCTGCT
66 TCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCT
* * *
75051763 ACCTC-GAAAGGATAAGATTCTCCATCTTCGATCTGCTTCACTACTGC
131 ACCTCGGGAA-GATAAGATTCACCATCTTCGATCTGCTCCACTACTGC
* * * * * *
75051810 TTAGGGAGATAAGATATTTAATCTTCAGTCTGCTTTCTTGCTACCTTAGAAAGATAATACTACAA
1 TTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAA
* *
75051875 TCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTTAAATCTGCTCCCCTGCT
66 TCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCT
* * *
75051940 ACCTTGGGAAGATAAGACTT-ACCATCTTCGATCTGCTCCATTACTAC
131 ACCTCGGGAAGATAAGA-TTCACCATCTTCGATCTGCTCCACTACTGC
*
75051987 TTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACTTCAGGAAGATAAGACTACAA
1 TTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAA
* * *
75052052 TCTTCAACCTGCTCCCTTGCTACCTCAGAGAGATAAGGTTAGTGGCTTAAATCTGCT-CCCTGCT
66 TCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCT
** **
75052116 ACCTCGGGAAGATAAGATTTTCCATCTTCGATCTATTCCACTACTGC
131 ACCTCGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGC
* * * *
75052163 TTAGAGAGATAAGATCTTCAATCTTCAGTCTGTTTCCTTGCTACCTCAGAAAGATAAGACTTCAA
1 TTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAA
** * *
75052228 --TTCGGCCTACTCTCTTGCTACTTCAGAGAGATAAGG
66 TCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGG
75052264 TTGTAAATTC
Statistics
Matches: 715, Mismatches: 87, Indels: 13
0.88 0.11 0.02
Matches are distributed among these distances:
174 31 0.04
175 6 0.01
176 257 0.36
177 416 0.58
178 5 0.01
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (177 bp):
TTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAA
TCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCT
ACCTCGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGC
Found at i:75051934 original size:353 final size:352
Alignment explanation
Indices: 75051280--75052263 Score: 1352
Period size: 353 Copynumber: 2.8 Consensus size: 352
75051270 CACTGCAACT
* * * *
75051280 TTAGGGAGATAAGGTCTTCAACCTTTA-TTCTGCTTCCTTGCTACCTTAGGAAGATAAGACTACA
1 TTAGGGAGATAAGATCTTCAATCTTCAGTT-TGCTTCCTTGCTACCTCAGGAAGATAAGACTACA
* * * *
75051344 ATCTTCAGCCTGCTCCCTTGCTACCTCAGGGAGATAAGGCTAGTGGCTAAAATCTGCTCCCCTAC
65 ATCTTCAACCTGCTCCCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTTCCCTGC
* * * * * * * *
75051409 TACTTCGGGAAGATGAGATTCACCATCTTTGATTTGCTCCATTACTACTTAGGGAGATAAGATCT
130 TACCTCGGGAAGATAAGATTCTCCATCTTCGATCTGCTTCACTACTGCTTAGGGAGATAAGATCT
* * *
75051474 TTAATCCTCAGTCTGGTTCCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAACCTGCTCTCT
195 TTAATCTTCAGTCT-GTTTCTTGCTACCTCAGAAAGATAAGACTACAATCTTCAACCTGCTCTCT
* *
75051539 TGCTACCTTAGAGAGATAAGGCTAGTGGCTAAAATTTGCTCCCCTGCTACCTCAGAAAGATAAG-
259 TGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCTACCTCAGAAAGATAAGA
* *
75051603 TTCACCATCTTCGATCTGCTCTACTACTGC
324 TT-ACCATCTTCGATCTGCTCCACTACTAC
* * * *
75051633 TTAGGGAGATAAGATCTTCAATCTTCAGTTTACTTCCTTGCTACCCCAGTAAGATAATACTACAA
1 TTAGGGAGATAAGATCTTCAATCTTCAGTTTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAA
* * * * *
75051698 TTTTCAACCTACTCTCTTGCTACCTCAGAGAGAAAAGGCTAGTGGCTAAAATATGCTTCCCTGCT
66 TCTTCAACCTGCTCCCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTTCCCTGCT
* *
75051763 ACCTC-GAAAGGATAAGATTCTCCATCTTCGATCTGCTTCACTACTGCTTAGGGAGATAAGATAT
131 ACCTCGGGAA-GATAAGATTCTCCATCTTCGATCTGCTTCACTACTGCTTAGGGAGATAAGATCT
* *
75051827 TTAATCTTCAGTCTGCTTTCTTGCTACCTTAGAAAGATAATACTACAATCTTCAACCTGCTCTCT
195 TTAATCTTCAGTCTG-TTTCTTGCTACCTCAGAAAGATAAGACTACAATCTTCAACCTGCTCTCT
* * ** *
75051892 TGCTACCTCAGAGAGATAAGGCTGGTGGCTTAAATCTGCTCCCCTGCTACCTTGGGAAGATAAGA
259 TGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCTACCTCAGAAAGATAAGA
*
75051957 CTTACCATCTTCGATCTGCTCCATTACTAC
324 -TTACCATCTTCGATCTGCTCCACTACTAC
* *
75051987 TTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACTTCAGGAAGATAAGACTACAA
1 TTAGGGAGATAAGATCTTCAATCTTCAGTTTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAA
* *
75052052 TCTTCAACCTGCTCCCTTGCTACCTCAGAGAGATAAGGTTAGTGGCTTAAATCTGC-TCCCTGCT
66 TCTTCAACCTGCTCCCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTTCCCTGCT
* * *
75052116 ACCTCGGGAAGATAAGATTTTCCATCTTCGATCT-ATTCCACTACTGCTTAGAGAGATAAGATCT
131 ACCTCGGGAAGATAAGATTCTCCATCTTCGATCTGCTT-CACTACTGCTTAGGGAGATAAGATCT
* * ** *
75052180 TCAATCTTCAGTCTGTTTCCTTGCTACCTCAGAAAGATAAGACTTCAA--TTCGGCCTACTCTCT
195 TTAATCTTCAGTCTGTTT-CTTGCTACCTCAGAAAGATAAGACTACAATCTTCAACCTGCTCTCT
*
75052243 TGCTACTTCAGAGAGATAAGG
259 TGCTACCTCAGAGAGATAAGG
75052264 TTGTAAATTC
Statistics
Matches: 555, Mismatches: 68, Indels: 18
0.87 0.11 0.03
Matches are distributed among these distances:
351 32 0.06
352 9 0.02
353 375 0.68
354 137 0.25
355 2 0.00
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (352 bp):
TTAGGGAGATAAGATCTTCAATCTTCAGTTTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAA
TCTTCAACCTGCTCCCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTTCCCTGCT
ACCTCGGGAAGATAAGATTCTCCATCTTCGATCTGCTTCACTACTGCTTAGGGAGATAAGATCTT
TAATCTTCAGTCTGTTTCTTGCTACCTCAGAAAGATAAGACTACAATCTTCAACCTGCTCTCTTG
CTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCTACCTCAGAAAGATAAGATT
ACCATCTTCGATCTGCTCCACTACTAC
Found at i:75052086 original size:44 final size:44
Alignment explanation
Indices: 75051308--75052262 Score: 275
Period size: 44 Copynumber: 21.7 Consensus size: 44
75051298 CAACCTTTAT
* * *
75051308 TCTGCTTCCTTGCTACCTTAG-GAAGATAAGACTACAATCTTCAG
1 TCTGCTCCCTTGCTACCTCAGAG-AGATAAGACTACAATCTTCAA
* * * **** **
75051352 CCTGCTCCCTTGCTACCTCAGGGAGATAAGGCTAGTGGCTAAAA
1 TCTGCTCCCTTGCTACCTCAGAGAGATAAGACTACAATCTTCAA
* * * * * * * **
75051396 TCTGCTCCCCTACTACTTC-GGGAAGATGAGATTCACCATCTTTGA
1 TCTGCTCCCTTGCTACCTCAGAG-AGATAAGACT-ACAATCTTCAA
* * * * * ** * *
75051441 TTTGCTCCATTACTA-CTTAGGGAGATAAGATCTTTAATCCTCAG
1 TCTGCTCCCTTGCTACCTCAGAGAGATAAGA-CTACAATCTTCAA
* *
75051485 TCTGGTTCCTTGCTACCTCAG-GAAGATAAGACTACAATCTTCAA
1 TCTGCTCCCTTGCTACCTCAGAG-AGATAAGACTACAATCTTCAA
* * * * **** **
75051529 CCTGCTCTCTTGCTACCTTAGAGAGATAAGGCTAGTGGCTAAAA
1 TCTGCTCCCTTGCTACCTCAGAGAGATAAGACTACAATCTTCAA
* * * * * *
75051573 TTTGCTCCCCTGCTACCTCAGAAAGATAAG-TTCACCATCTTCGA
1 TCTGCTCCCTTGCTACCTCAGAGAGATAAGACT-ACAATCTTCAA
* * * * *
75051617 TCTGCT--C-TACTACTGCTTAGGGAGATAAGATCTTCAATCTTCAG
1 TCTGCTCCCTTGCTAC--CTCAGAGAGATAAGA-CTACAATCTTCAA
* * * * * *
75051661 TTTACTTCCTTGCTACCCCAGTA-AGATAATACTACAATTTTCAA
1 TCTGCTCCCTTGCTACCTCAG-AGAGATAAGACTACAATCTTCAA
* * * * * **** **
75051705 CCTACTCTCTTGCTACCTCAGAGAGAAAAGGCTAGTGGCTAAAA
1 TCTGCTCCCTTGCTACCTCAGAGAGATAAGACTACAATCTTCAA
* * * *
75051749 TATGCTTCCC-TGCTACCTC-GAAAGGATAAGATTCT-CCATCTTCGA
1 TCTGC-TCCCTTGCTACCTCAGAGA-GATAAGA--CTACAATCTTCAA
* * * * * * *
75051794 TCTGCTTCAC-TACT-GCTTAGGGAGATAAGA-TATTTAATCTTCAG
1 TCTGC-TCCCTTGCTACCTCAGAGAGATAAGACTA--CAATCTTCAA
** * * *
75051838 TCTGCTTTCTTGCTACCTTAGAAAGATAATACTACAATCTTCAA
1 TCTGCTCCCTTGCTACCTCAGAGAGATAAGACTACAATCTTCAA
* * * ***** *
75051882 CCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTTAAA
1 TCTGCTCCCTTGCTACCTCAGAGAGATAAGACTACAATCTTCAA
* * * * *
75051926 TCTGCTCCCCTGCTACCT-TGGGAAGATAAGACTTACCATCTTCGA
1 TCTGCTCCCTTGCTACCTCAGAG-AGATAAGAC-TACAATCTTCAA
* * * * * *
75051971 TCTGCTCCATTACTA-CTTAGGGAGATAAGATCTTCAATCTTCAG
1 TCTGCTCCCTTGCTACCTCAGAGAGATAAGA-CTACAATCTTCAA
* *
75052015 TCTGCTTCCTTGCTACTTCAG-GAAGATAAGACTACAATCTTCAA
1 TCTGCTCCCTTGCTACCTCAGAG-AGATAAGACTACAATCTTCAA
* ** **** *
75052059 CCTGCTCCCTTGCTACCTCAGAGAGATAAGGTTAGTGGCTTAAA
1 TCTGCTCCCTTGCTACCTCAGAGAGATAAGACTACAATCTTCAA
* * * * *
75052103 TCTGCTCCC-TGCTACCTC-GGGAAGATAAGATTTTCCATCTTCGA
1 TCTGCTCCCTTGCTACCTCAGAG-AGATAAGA-CTACAATCTTCAA
** * * * * *
75052147 TCTATTCCAC-TACT-GCTTAGAGAGATAAGATCTTCAATCTTCAG
1 TCTGCTCC-CTTGCTACCTCAGAGAGATAAGA-CTACAATCTTCAA
* * * * **
75052191 TCTGTTTCCTTGCTACCTCAGAAAGATAAGACTTCAA--TTCGG
1 TCTGCTCCCTTGCTACCTCAGAGAGATAAGACTACAATCTTCAA
* * * *
75052233 CCTACTCTCTTGCTACTTCAGAGAGATAAG
1 TCTGCTCCCTTGCTACCTCAGAGAGATAAG
75052263 GTTGTAAATT
Statistics
Matches: 641, Mismatches: 228, Indels: 86
0.67 0.24 0.09
Matches are distributed among these distances:
41 6 0.01
42 30 0.05
43 40 0.06
44 427 0.67
45 128 0.20
46 5 0.01
47 5 0.01
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (44 bp):
TCTGCTCCCTTGCTACCTCAGAGAGATAAGACTACAATCTTCAA
Found at i:75052435 original size:64 final size:64
Alignment explanation
Indices: 75052333--75052459 Score: 200
Period size: 64 Copynumber: 2.0 Consensus size: 64
75052323 TCATGTATCT
** * *
75052333 ATGCTTATGCCAAATAAGTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAGATGTG
1 ATGCTTATGCCAAATAAGTAGGATGCTATGATCAAAATGAATCAAATACTCCTAACTAAATGTG
* *
75052397 ATGCTTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATACTCCTAACTAAATGT
1 ATGCTTATGCCAAATAAGTAGGATGCTATGATCAAAATGAATCAAATACTCCTAACTAAATGT
75052460 ATTATGAACG
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
64 57 1.00
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.31
Consensus pattern (64 bp):
ATGCTTATGCCAAATAAGTAGGATGCTATGATCAAAATGAATCAAATACTCCTAACTAAATGTG
Found at i:75054159 original size:15 final size:15
Alignment explanation
Indices: 75054139--75054185 Score: 57
Period size: 14 Copynumber: 3.4 Consensus size: 15
75054129 TCACTATGAC
75054139 CTTTTTTTTATTCTT
1 CTTTTTTTTATTCTT
*
75054154 CTTTTTCTT-TTC--
1 CTTTTTTTTATTCTT
75054166 CTTTTTTTTATT-TT
1 CTTTTTTTTATTCTT
75054180 CTTTTT
1 CTTTTT
75054186 GTACTTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
12 8 0.30
13 2 0.07
14 9 0.33
15 8 0.30
ACGTcount: A:0.04, C:0.15, G:0.00, T:0.81
Consensus pattern (15 bp):
CTTTTTTTTATTCTT
Found at i:75054192 original size:23 final size:23
Alignment explanation
Indices: 75054139--75054209 Score: 63
Period size: 23 Copynumber: 2.9 Consensus size: 23
75054129 TCACTATGAC
* *
75054139 CTTTTTTTTATTCTTCTTTTTCTTTTC
1 CTTTTTTTTATT-TTC--TTT-TTGTA
75054166 CTTTTTTTTATTTTCTTTTTGTA
1 CTTTTTTTTATTTTCTTTTTGTA
*
75054189 CTTTTTTTGT-GTTTCTTTTTG
1 CTTTTTTT-TATTTTCTTTTTG
75054210 GCTGCCTTTG
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
23 21 0.52
24 4 0.10
26 3 0.08
27 12 0.30
ACGTcount: A:0.04, C:0.13, G:0.06, T:0.77
Consensus pattern (23 bp):
CTTTTTTTTATTTTCTTTTTGTA
Found at i:75063604 original size:49 final size:49
Alignment explanation
Indices: 75063542--75063723 Score: 215
Period size: 50 Copynumber: 3.7 Consensus size: 49
75063532 TGTGGTGTAT
* * * * * *
75063542 CAGTGTAAAACC-TGTCTGAGACATGGCATCGACACTGATAGATGAGAGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTGCTATATGAAAGC
* *
75063591 CAGTGTAAGACC-TGTTTGGGACATGGCATTGGCCTCGCTATATGAAAGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-GCTATATGAAAGC
* * *
75063640 CAGTGTAAGACCATGTCTGGGACATGACATTGGCCCCGCTATATGAAAGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGG-CCTGCTATATGAAAGC
*
75063690 CAGTTTAAGACCATGTCTGGGACATGGCATCGGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGC
75063724 ATCTTAACCC
Statistics
Matches: 116, Mismatches: 14, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
48 2 0.02
49 51 0.44
50 61 0.53
51 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.23
Consensus pattern (49 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTGCTATATGAAAGC
Found at i:75065785 original size:42 final size:42
Alignment explanation
Indices: 75065718--75065801 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 42
75065708 ATGGACTGTC
75065718 ACACGGCCTGGCACACAACCATGTGTGGCAACTCAAAGAGTT
1 ACACGGCCTGGCACACAACCATGTGTGGCAACTCAAAGAGTT
* * ** * *
75065760 ACACGGCTTGGCACACAGCTGTGTGTGGCAACTTAGAGAGTT
1 ACACGGCCTGGCACACAACCATGTGTGGCAACTCAAAGAGTT
75065802 TCATGGGCTA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.27, C:0.25, G:0.27, T:0.20
Consensus pattern (42 bp):
ACACGGCCTGGCACACAACCATGTGTGGCAACTCAAAGAGTT
Found at i:75065818 original size:42 final size:42
Alignment explanation
Indices: 75065739--75065819 Score: 101
Period size: 42 Copynumber: 1.9 Consensus size: 42
75065729 CACACAACCA
*
75065739 TGTGTGGCAACTCAAAGAGTTACACGGCTTGGCACACAGCTG
1 TGTGTGGCAACTCAAAGAGTTACACGGCTAGGCACACAGCTG
* * * *
75065781 TGTGTGGCAACTTAGAGAGTTTCATGGGCTAGG-ACACAG
1 TGTGTGGCAACTCAAAGAGTTACA-CGGCTAGGCACACAG
75065820 TTATGTATCT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
42 27 0.82
43 6 0.18
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.23
Consensus pattern (42 bp):
TGTGTGGCAACTCAAAGAGTTACACGGCTAGGCACACAGCTG
Found at i:75067947 original size:23 final size:23
Alignment explanation
Indices: 75067910--75068043 Score: 130
Period size: 23 Copynumber: 5.8 Consensus size: 23
75067900 TATGTTGAAA
75067910 GGTATAC-TGGTTGTGTTTGGAG
1 GGTATACTTGGTTGTGTTTGGAG
*
75067932 GGTATACTTGGTTGTGTTCGGAG
1 GGTATACTTGGTTGTGTTTGGAG
* * *
75067955 GTTATACATATGGTTGTGTTTGAAA
1 GGTATAC-T-TGGTTGTGTTTGGAG
* * *
75067980 GGTATATTTGGTTGTGTTCGGAT
1 GGTATACTTGGTTGTGTTTGGAG
*
75068003 GGTACA-TATGGTTGTGTTTGGAG
1 GGTATACT-TGGTTGTGTTTGGAG
* *
75068026 GGTA-AATTGGTTATGTTT
1 GGTATACTTGGTTGTGTTT
75068044 AGTGGGTGAT
Statistics
Matches: 93, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
22 19 0.20
23 55 0.59
24 2 0.02
25 17 0.18
ACGTcount: A:0.18, C:0.04, G:0.34, T:0.43
Consensus pattern (23 bp):
GGTATACTTGGTTGTGTTTGGAG
Found at i:75067984 original size:48 final size:46
Alignment explanation
Indices: 75067917--75068022 Score: 151
Period size: 48 Copynumber: 2.3 Consensus size: 46
75067907 AAAGGTATAC
* *
75067917 TGGTTGTGTTTGGAGGGTATACTTGGTTGTGTTCGGA-GGTTATACATA
1 TGGTTGTGTTTGAAAGGTATACTTGGTTGTGTTCGGATGG---TACATA
*
75067965 TGGTTGTGTTTGAAAGGTATATTTGGTTGTGTTCGGATGGTACATA
1 TGGTTGTGTTTGAAAGGTATACTTGGTTGTGTTCGGATGGTACATA
75068011 TGGTTGTGTTTG
1 TGGTTGTGTTTG
75068023 GAGGGTAAAT
Statistics
Matches: 54, Mismatches: 3, Indels: 4
0.89 0.05 0.07
Matches are distributed among these distances:
46 18 0.33
48 34 0.63
49 2 0.04
ACGTcount: A:0.16, C:0.05, G:0.35, T:0.44
Consensus pattern (46 bp):
TGGTTGTGTTTGAAAGGTATACTTGGTTGTGTTCGGATGGTACATA
Found at i:75076534 original size:55 final size:55
Alignment explanation
Indices: 75076437--75076543 Score: 126
Period size: 55 Copynumber: 1.9 Consensus size: 55
75076427 CGAGCCTACC
** * *
75076437 AAAACAACACGGGGGTGTGACACGCCCATATGGAAGAACCGTGG-ACGAACCTATT
1 AAAACAACACGGACGTGTGACACGCCCATATCGAACAACCGTGGTA-GAACCTATT
* * * *
75076492 AAAACAGCACGGACGTGTGACACGCCCATGTCTAACACCCGTGGTAGAACCT
1 AAAACAACACGGACGTGTGACACGCCCATATCGAACAACCGTGGTAGAACCT
75076544 GTTAGATTGA
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
55 42 0.98
56 1 0.02
ACGTcount: A:0.33, C:0.27, G:0.25, T:0.15
Consensus pattern (55 bp):
AAAACAACACGGACGTGTGACACGCCCATATCGAACAACCGTGGTAGAACCTATT
Found at i:75078790 original size:17 final size:17
Alignment explanation
Indices: 75078768--75078803 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
75078758 CTAAAACTCT
*
75078768 ACCGGGAAAGGTTCTCC
1 ACCGGGAAAAGTTCTCC
75078785 ACCGGGAAAAGTTCTCC
1 ACCGGGAAAAGTTCTCC
75078802 AC
1 AC
75078804 GACTGCCATG
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:0.28, C:0.31, G:0.25, T:0.17
Consensus pattern (17 bp):
ACCGGGAAAAGTTCTCC
Found at i:75083256 original size:14 final size:14
Alignment explanation
Indices: 75083237--75083274 Score: 76
Period size: 14 Copynumber: 2.7 Consensus size: 14
75083227 TGGTATCACA
75083237 TGTTCTTAATTATG
1 TGTTCTTAATTATG
75083251 TGTTCTTAATTATG
1 TGTTCTTAATTATG
75083265 TGTTCTTAAT
1 TGTTCTTAAT
75083275 CCTTTCTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.21, C:0.08, G:0.13, T:0.58
Consensus pattern (14 bp):
TGTTCTTAATTATG
Found at i:75085547 original size:12 final size:12
Alignment explanation
Indices: 75085530--75085555 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
75085520 TTGTGCAAGT
75085530 GTGGAAAATCCC
1 GTGGAAAATCCC
75085542 GTGGAAAATCCC
1 GTGGAAAATCCC
75085554 GT
1 GT
75085556 TTGAACCTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.23, G:0.27, T:0.19
Consensus pattern (12 bp):
GTGGAAAATCCC
Found at i:75096539 original size:28 final size:27
Alignment explanation
Indices: 75096488--75096594 Score: 119
Period size: 28 Copynumber: 3.9 Consensus size: 27
75096478 GCTGCCAAAA
* *
75096488 AGATAATGTGACAGAGTCACCAGATAC
1 AGATAATGTGGCAGAGCCACCAGATAC
*
75096515 AGATAATCGTGGCAAAGCCACCAGA-AC
1 AGATAAT-GTGGCAGAGCCACCAGATAC
75096542 AGATATATGTGCGCAGAGCCACCAGAT-C
1 AGATA-ATGTG-GCAGAGCCACCAGATAC
*
75096570 AGATAATTTGTGGCATAGCCACCAG
1 AGATAA--TGTGGCAGAGCCACCAG
75096595 GACCTTCCTC
Statistics
Matches: 69, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
27 18 0.26
28 47 0.68
29 4 0.06
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.18
Consensus pattern (27 bp):
AGATAATGTGGCAGAGCCACCAGATAC
Found at i:75124212 original size:104 final size:103
Alignment explanation
Indices: 75124090--75124312 Score: 376
Period size: 104 Copynumber: 2.2 Consensus size: 103
75124080 AATGGATATC
75124090 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
75124155 GGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATCA-CGCACATAGCACCACC-ATAAACCGGGGAATCA
75124194 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
*
75124259 GGATCACGCACATAGCACCACCATAAATCGGGGAATCA
66 GGATCACGCACATAGCACCACCATAAACCGGGGAATCA
**
75124297 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
75124313 TTTATATACA
Statistics
Matches: 113, Mismatches: 5, Indels: 3
0.93 0.04 0.02
Matches are distributed among these distances:
103 28 0.25
104 84 0.74
105 1 0.01
ACGTcount: A:0.31, C:0.31, G:0.19, T:0.18
Consensus pattern (103 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATCACGCACATAGCACCACCATAAACCGGGGAATCA
Found at i:75124672 original size:29 final size:29
Alignment explanation
Indices: 75124639--75124702 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
75124629 TAATCCACCA
75124639 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
75124668 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
75124698 CCCAA
1 CCCAA
75124703 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:75124676 original size:30 final size:30
Alignment explanation
Indices: 75124646--75124702 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
75124636 CCACCCAACT
75124646 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
75124675 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
75124703 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:75131593 original size:26 final size:26
Alignment explanation
Indices: 75131557--75131608 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
75131547 CACCACTGAA
* *
75131557 TCGGGGAATCATCACTTAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
75131583 TCGGGGAATCAGCACATAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
75131609 CTTTTCATTT
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:0.29, C:0.35, G:0.21, T:0.15
Consensus pattern (26 bp):
TCGGGGAATCAGCACATAGCAACCCC
Found at i:75131682 original size:70 final size:71
Alignment explanation
Indices: 75131569--75131718 Score: 248
Period size: 70 Copynumber: 2.1 Consensus size: 71
75131559 GGGGAATCAT
* *
75131569 CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTT-TCATTTCAAATATACAATGG
1 CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACAATGG
75131633 ATATCG
66 ATATCG
***
75131639 CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTGG
1 CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACAATGG
75131704 ATATCG
66 ATATCG
75131710 CACTTAGCA
1 CACTTAGCA
75131719 CCACCAATGA
Statistics
Matches: 74, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
70 44 0.59
71 30 0.41
ACGTcount: A:0.31, C:0.30, G:0.16, T:0.23
Consensus pattern (71 bp):
CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACAATGG
ATATCG
Found at i:75131822 original size:104 final size:103
Alignment explanation
Indices: 75131638--75131860 Score: 367
Period size: 104 Copynumber: 2.2 Consensus size: 103
75131628 AATGGATATC
75131638 GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
1 GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
* *
75131703 GATATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GATATCGCACATAGCACCACCAATAAACCGGGGAATCA
75131741 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
75131806 GGATCA-CGCACATAGCACCACCCATAAATCGGGGAATCA
65 GGAT-ATCGCACATAGCACCACCAATAAACCGGGGAATCA
**
75131845 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
75131861 TTTATATACA
Statistics
Matches: 112, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
103 17 0.15
104 94 0.84
105 1 0.01
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (103 bp):
GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
GATATCGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:75132222 original size:29 final size:29
Alignment explanation
Indices: 75132189--75132252 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
75132179 TAATCCACCA
75132189 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
75132218 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
75132248 CCCAA
1 CCCAA
75132253 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:75132226 original size:30 final size:30
Alignment explanation
Indices: 75132196--75132252 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
75132186 CCACCCAACT
75132196 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
75132225 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
75132253 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:75137706 original size:27 final size:26
Alignment explanation
Indices: 75137648--75137755 Score: 126
Period size: 27 Copynumber: 4.0 Consensus size: 26
75137638 TGGCTGCCAA
* *
75137648 AACAGATAATGTGACAGAGTCACCAG
1 AACAGATAATGTGGCAGAGCCACCAG
*
75137674 ATACAGATAATCGTGGCAAAGCCACCAG
1 A-ACAGATAAT-GTGGCAGAGCCACCAG
75137702 AACAGATATATGTGGCAGAGCCACCAG
1 AACAGATA-ATGTGGCAGAGCCACCAG
* *
75137729 ATCAGATAATTTGTGGCATAGCCACCA
1 AACAGATAA--TGTGGCAGAGCCACCA
75137756 AGACGCTTCC
Statistics
Matches: 71, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
26 2 0.03
27 38 0.54
28 31 0.44
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (26 bp):
AACAGATAATGTGGCAGAGCCACCAG
Found at i:75137745 original size:55 final size:54
Alignment explanation
Indices: 75137648--75137755 Score: 155
Period size: 55 Copynumber: 2.0 Consensus size: 54
75137638 TGGCTGCCAA
*
75137648 AACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAAAGCCACCAG
1 AACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAAAGCCACCAG
* * *
75137702 AACAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTTGTGGCATAGCCACCA
1 AACAGATA-ATGTGACAGAGCCACCAGATACAGATAA-TCGTGGCAAAGCCACCA
75137756 AGACGCTTCC
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
54 15 0.31
55 33 0.69
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (54 bp):
AACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAAAGCCACCAG
Found at i:75142227 original size:11 final size:11
Alignment explanation
Indices: 75142211--75142241 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
75142201 TTTGTAAAAG
75142211 AAATTTTGACT
1 AAATTTTGACT
75142222 AAATTTTGACT
1 AAATTTTGACT
75142233 AAATTTTGA
1 AAATTTTGA
75142242 TTTAGCGACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.39, C:0.06, G:0.10, T:0.45
Consensus pattern (11 bp):
AAATTTTGACT
Found at i:75143561 original size:43 final size:43
Alignment explanation
Indices: 75143514--75143682 Score: 175
Period size: 43 Copynumber: 4.0 Consensus size: 43
75143504 TTATCGAGAT
*
75143514 GTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATA
1 GTGATTACATGTAAGACCATGTCTGAGACATTGGCATTGTATA
** * *
75143557 GTGATTATGTGTAAGACCATGTTTGAGACATTGGCATCGTTATA
1 GTGATTACATGTAAGACCATGTCTGAGACATTGGCATTG-TATA
* * * *
75143601 -TGATTTCGTGTAAGACCCTGTC-GAGACAGTGGCATTG-ATA
1 GTGATTACATGTAAGACCATGTCTGAGACATTGGCATTGTATA
* * * *
75143641 TGTGATAACATGTAAGACCATATCTGGGATA-TGGCATTGTAT
1 -GTGATTACATGTAAGACCATGTCTGAGACATTGGCATTGTAT
75143683 GAGCTATGTG
Statistics
Matches: 103, Mismatches: 18, Indels: 10
0.79 0.14 0.08
Matches are distributed among these distances:
40 3 0.03
42 38 0.37
43 58 0.56
44 4 0.04
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.33
Consensus pattern (43 bp):
GTGATTACATGTAAGACCATGTCTGAGACATTGGCATTGTATA
Found at i:75148755 original size:29 final size:28
Alignment explanation
Indices: 75148704--75148759 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 28
75148694 ACACTAGAGG
**
75148704 ACACACGGCTGTGTAACAAACCATATGTC
1 ACACACGGCTAAGTAACAAACCA-ATGTC
* *
75148733 ACACACGGCTAAGTCACACACCAATGT
1 ACACACGGCTAAGTAACAAACCAATGT
75148760 GGACAAAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 4 0.17
29 19 0.83
ACGTcount: A:0.36, C:0.30, G:0.16, T:0.18
Consensus pattern (28 bp):
ACACACGGCTAAGTAACAAACCAATGTC
Found at i:75158580 original size:257 final size:257
Alignment explanation
Indices: 75158119--75158636 Score: 1009
Period size: 257 Copynumber: 2.0 Consensus size: 257
75158109 ATGGACAAAA
75158119 ATTTAGACATGGATGGAATTTTTAGAAAGTTTAGTAGTAAGGGCATTTTGGTCATTTACATAATA
1 ATTTAGACATGGATGGAATTTTTAGAAAGTTTAGTAGTAAGGGCATTTTGGTCATTTACATAATA
75158184 AATGAAATAAAATGGGAAAAATAACACAAAAATGTGTTCATCCTCATTTAACTTGGCCGAAACTT
66 AATGAAATAAAATGGGAAAAATAACACAAAAATGTGTTCATCCTCATTTAACTTGGCCGAAACTT
*
75158249 GCATGTTCTCCATAGCTAGGGTTTGTTTCAAGCTTTTAAGCTCAATAGTAAGTGCATTCAAGCCC
131 GCATGTTCTCCATAGCTAGGGTTTGTTTCAAGCTTTCAAGCTCAATAGTAAGTGCATTCAAGCCC
75158314 CGTTTTTAATGTTCTTTACATTTTTGAAATCCTCGTAGCTCAGTTTACCTATTTCTACCATT
196 CGTTTTTAATGTTCTTTACATTTTTGAAATCCTCGTAGCTCAGTTTACCTATTTCTACCATT
*
75158376 ATTTGGACATGGATGGAATTTTTAGAAAGTTTAGTAGTAAGGGCATTTTGGTCATTTACATAATA
1 ATTTAGACATGGATGGAATTTTTAGAAAGTTTAGTAGTAAGGGCATTTTGGTCATTTACATAATA
75158441 AATGAAATAAAATGGGAAAAATAACACAAAAATGTGTTCATCCTCATTTAACTTGGCCGAAACTT
66 AATGAAATAAAATGGGAAAAATAACACAAAAATGTGTTCATCCTCATTTAACTTGGCCGAAACTT
75158506 GCATGTTCTCCATAGCTAGGGTTTGTTTCAAGCTTTCAAGCTCAATAGTAAGTGCATTCAAGCCC
131 GCATGTTCTCCATAGCTAGGGTTTGTTTCAAGCTTTCAAGCTCAATAGTAAGTGCATTCAAGCCC
*
75158571 CGTTTTTAATGTTCTTTACATTTTTGAAATCCTCGTAGCTCGGTTTACCTATTTCTACCATT
196 CGTTTTTAATGTTCTTTACATTTTTGAAATCCTCGTAGCTCAGTTTACCTATTTCTACCATT
75158633 ATTT
1 ATTT
75158637 CGAGTTAGGG
Statistics
Matches: 258, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
257 258 1.00
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.37
Consensus pattern (257 bp):
ATTTAGACATGGATGGAATTTTTAGAAAGTTTAGTAGTAAGGGCATTTTGGTCATTTACATAATA
AATGAAATAAAATGGGAAAAATAACACAAAAATGTGTTCATCCTCATTTAACTTGGCCGAAACTT
GCATGTTCTCCATAGCTAGGGTTTGTTTCAAGCTTTCAAGCTCAATAGTAAGTGCATTCAAGCCC
CGTTTTTAATGTTCTTTACATTTTTGAAATCCTCGTAGCTCAGTTTACCTATTTCTACCATT
Found at i:75163209 original size:10 final size:11
Alignment explanation
Indices: 75163190--75163219 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
75163180 TTTTTCTAAG
75163190 ATGTGAATTGA
1 ATGTGAATTGA
75163201 ATG-GAATTGA
1 ATGTGAATTGA
75163211 ATGTGAATT
1 ATGTGAATT
75163220 TTATTAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.37, C:0.00, G:0.27, T:0.37
Consensus pattern (11 bp):
ATGTGAATTGA
Found at i:75163827 original size:24 final size:24
Alignment explanation
Indices: 75163800--75163860 Score: 72
Period size: 24 Copynumber: 2.5 Consensus size: 24
75163790 GGCTCTTCGA
*
75163800 AGCTACCCGTTATTGGCT-TACATG
1 AGCTTCCCGTTATTGGCTCT-CATG
*
75163824 AGCTTCCCGATTA-TGGCTCTTATG
1 AGCTTCCCG-TTATTGGCTCTCATG
75163848 AGCTTCCCGTTAT
1 AGCTTCCCGTTAT
75163861 ACAGCCCAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
23 3 0.09
24 25 0.78
25 4 0.12
ACGTcount: A:0.18, C:0.26, G:0.20, T:0.36
Consensus pattern (24 bp):
AGCTTCCCGTTATTGGCTCTCATG
Found at i:75163903 original size:25 final size:25
Alignment explanation
Indices: 75163805--75163917 Score: 88
Period size: 25 Copynumber: 4.6 Consensus size: 25
75163795 TTCGAAGCTA
* *
75163805 CCCGTTAT-TGGCTTACATGAGCTT
1 CCCGTTATATGGCTCACATGAACTT
* ** *
75163829 CCCGAT-TATGGCTCTTATGAGCTT
1 CCCGTTATATGGCTCACATGAACTT
** * *
75163853 CCCGTTATACAGCCCAGAT-AAGCTT
1 CCCGTTATATGGCTCACATGAA-CTT
*
75163878 CCCGTTATATAGCTCACATGAACTT
1 CCCGTTATATGGCTCACATGAACTT
*
75163903 CCTGTTATATGGCTC
1 CCCGTTATATGGCTC
75163918 GAGAGAGGGG
Statistics
Matches: 69, Mismatches: 16, Indels: 7
0.75 0.17 0.08
Matches are distributed among these distances:
23 1 0.01
24 24 0.35
25 42 0.61
26 2 0.03
ACGTcount: A:0.21, C:0.27, G:0.18, T:0.34
Consensus pattern (25 bp):
CCCGTTATATGGCTCACATGAACTT
Found at i:75172401 original size:10 final size:11
Alignment explanation
Indices: 75172382--75172411 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
75172372 TTTGCCTAAG
75172382 ATGTGAATTGA
1 ATGTGAATTGA
75172393 ATG-GAATTGA
1 ATGTGAATTGA
75172403 ATGTGAATT
1 ATGTGAATT
75172412 TTATTAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.37, C:0.00, G:0.27, T:0.37
Consensus pattern (11 bp):
ATGTGAATTGA
Found at i:75173009 original size:24 final size:24
Alignment explanation
Indices: 75172980--75173051 Score: 76
Period size: 24 Copynumber: 3.0 Consensus size: 24
75172970 TCTTGACTAA
*
75172980 TGGCTCTTCTGAGCTACCCGTTAT
1 TGGCTCTTCTGAGCTTCCCGTTAT
*
75173004 TGGCTC-ACATGAGCTTCCCGATTA-
1 TGGCTCTTC-TGAGCTTCCCG-TTAT
* *
75173028 TGGCTCTTATGAGCTTCCCATTAT
1 TGGCTCTTCTGAGCTTCCCGTTAT
75173052 ACAGCCTGGA
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
23 4 0.10
24 32 0.82
25 3 0.08
ACGTcount: A:0.17, C:0.28, G:0.19, T:0.36
Consensus pattern (24 bp):
TGGCTCTTCTGAGCTTCCCGTTAT
Found at i:75179779 original size:21 final size:21
Alignment explanation
Indices: 75179727--75179775 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
75179717 ACTCTCAACA
*
75179727 AAAAATAT-AAAAATAATTTTT
1 AAAAAT-TCAAAAATAATTTAT
75179748 AAAAATTCAAAAAT-ATTTAT
1 AAAAATTCAAAAATAATTTAT
75179768 AAAAATTC
1 AAAAATTC
75179776 CAAATTTTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 14 0.54
21 12 0.46
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (21 bp):
AAAAATTCAAAAATAATTTAT
Found at i:75183057 original size:29 final size:29
Alignment explanation
Indices: 75182981--75183049 Score: 138
Period size: 29 Copynumber: 2.4 Consensus size: 29
75182971 AAACGTTTTT
75182981 AAACTCAAGTACTTAATTGGTACAAAAAG
1 AAACTCAAGTACTTAATTGGTACAAAAAG
75183010 AAACTCAAGTACTTAATTGGTACAAAAAG
1 AAACTCAAGTACTTAATTGGTACAAAAAG
75183039 AAACTCAAGTA
1 AAACTCAAGTA
75183050 TCAAATTGAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.49, C:0.14, G:0.13, T:0.23
Consensus pattern (29 bp):
AAACTCAAGTACTTAATTGGTACAAAAAG
Found at i:75183539 original size:23 final size:21
Alignment explanation
Indices: 75183489--75183536 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
75183479 AATATAAAAG
75183489 TAAAAAT-AAAATAAAATTCT
1 TAAAAATAAAAATAAAATTCT
75183509 TAAAAATAAAAATTCAAAATT-T
1 TAAAAATAAAAA-T-AAAATTCT
75183531 TAAAAA
1 TAAAAA
75183537 ATATATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.28
21 4 0.16
22 8 0.32
23 6 0.24
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (21 bp):
TAAAAATAAAAATAAAATTCT
Found at i:75183550 original size:23 final size:23
Alignment explanation
Indices: 75183499--75183550 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 23
75183489 TAAAAATAAA
75183499 ATAAAATTCTTAAAAATAAAAAT
1 ATAAAATTCTTAAAAATAAAAAT
* *
75183522 -TCAAAATT-TTAAAAAATATATAT
1 AT-AAAATTCTT-AAAAATAAAAAT
75183545 ATAAAA
1 ATAAAA
75183551 ACTTATGTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
22 3 0.12
23 20 0.83
24 1 0.04
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (23 bp):
ATAAAATTCTTAAAAATAAAAAT
Done.