Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 357 of 378
Found at i:107059855 original size:155 final size:152
Alignment explanation
Indices: 107059497--107059804 Score: 494
Period size: 155 Copynumber: 2.0 Consensus size: 152
107059487 TCTAGACTCA
* *
107059497 AAGGTTAGCTGAAAATTGGGAGGGTTTA-GCAAAAATATAGACCTAAAAAAGGGCAAGGAATTGG
1 AAGGTTAGTTGAAAATTGGAAGGGTTTAGGCAAAAATATAGA-C-AAAAAAGGGCAAGGAATTGG
107059561 ACAAATTTCTTTTCGGCCTGGGCCCAGCCCAAATCACATGTTATATTTTTTTTTTGTATTTTCAA
64 ACAAATTTCTTTTCGGCCTGGGCCCAGCCCAAATCACATGTTATA-TTTTTTTTTGTATTTTCAA
* * *
107059626 TTTGTTGGGAAATATTTATTTTAAT
128 TTTGTCGAGAAACATTTATTTTAAT
*
107059651 AAGGTTAGTTGAAAATTGGGAGGGTTTAGGCAAAAATATAGACCTAAAAAAGGGCAAGGAATTGG
1 AAGGTTAGTTGAAAATTGGAAGGGTTTAGGCAAAAATATAGA-C-AAAAAAGGGCAAGGAATTGG
*
107059716 ACAAATTTCTTTTCGGCCTGGGCCCAGCCCAAATCACATGTTATA-TTTTTTTTGTATTTTTAAT
64 ACAAATTTCTTTTCGGCCTGGGCCCAGCCCAAATCACATGTTATATTTTTTTTTGTATTTTCAAT
107059780 TTGTCGAGAAACATTTATTTTAAT
129 TTGTCGAGAAACATTTATTTTAAT
107059804 A
1 A
107059805 TTTTTAATGT
Statistics
Matches: 148, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
153 40 0.27
154 27 0.18
155 81 0.55
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.35
Consensus pattern (152 bp):
AAGGTTAGTTGAAAATTGGAAGGGTTTAGGCAAAAATATAGACAAAAAAGGGCAAGGAATTGGAC
AAATTTCTTTTCGGCCTGGGCCCAGCCCAAATCACATGTTATATTTTTTTTTGTATTTTCAATTT
GTCGAGAAACATTTATTTTAAT
Found at i:107063234 original size:24 final size:24
Alignment explanation
Indices: 107063207--107063273 Score: 80
Period size: 24 Copynumber: 2.8 Consensus size: 24
107063197 GAAAGAGATA
* * *
107063207 GAGATGAAGATGAAGACGGGGGTG
1 GAGATGAAGATGAAGAAGAGGGTC
* *
107063231 GAGATAAAGATGAAGAAGATGGTC
1 GAGATGAAGATGAAGAAGAGGGTC
*
107063255 GAGGTGAAGATGAAGAAGA
1 GAGATGAAGATGAAGAAGA
107063274 CGAAGATAAT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.42, C:0.03, G:0.42, T:0.13
Consensus pattern (24 bp):
GAGATGAAGATGAAGAAGAGGGTC
Found at i:107073173 original size:7 final size:7
Alignment explanation
Indices: 107073163--107073192 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
107073153 GGCTTTAAGC
107073163 TTTAATA
1 TTTAATA
107073170 TTTAATA
1 TTTAATA
107073177 TTTAATA
1 TTTAATA
107073184 TTTAATA
1 TTTAATA
107073191 TT
1 TT
107073193 AGAGTTTGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (7 bp):
TTTAATA
Found at i:107073527 original size:18 final size:19
Alignment explanation
Indices: 107073504--107073539 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
107073494 AATAAAACCC
*
107073504 AAAAAAT-ATCATTTATAT
1 AAAAAATAATCAATTATAT
107073522 AAAAAATAATCAATTATA
1 AAAAAATAATCAATTATA
107073540 ATTTGAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (19 bp):
AAAAAATAATCAATTATAT
Found at i:107075066 original size:29 final size:27
Alignment explanation
Indices: 107075002--107075066 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 27
107074992 AGTAAATAAG
* * *
107075002 ATATTTTTAAAATTTTTGAATCTTTTT
1 ATATTTTTAAAACTTTTAAATCTTTTC
*
107075029 ATATATTTTATAACTTTTAAATTCTTTTC
1 ATAT-TTTTAAAACTTTTAAA-TCTTTTC
107075058 ATCATTTTT
1 AT-ATTTTT
107075067 TATTTTTTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
27 4 0.13
28 13 0.42
29 12 0.39
30 2 0.06
ACGTcount: A:0.29, C:0.08, G:0.02, T:0.62
Consensus pattern (27 bp):
ATATTTTTAAAACTTTTAAATCTTTTC
Found at i:107081833 original size:39 final size:39
Alignment explanation
Indices: 107081774--107081913 Score: 226
Period size: 39 Copynumber: 3.6 Consensus size: 39
107081764 ATCGTGATCT
** *
107081774 GAAGCCCGAAATCTAGCTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
*
107081813 GCAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
*
107081852 GAAGCCCGGAGGCTAACTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
*
107081891 GAAGCCCGGAGGCTAACTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
107081914 TCATCAGAGC
Statistics
Matches: 95, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 95 1.00
ACGTcount: A:0.36, C:0.24, G:0.27, T:0.13
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
Found at i:107099309 original size:8 final size:8
Alignment explanation
Indices: 107099298--107099328 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
107099288 AATTGAAAAG
107099298 TAATTTAT
1 TAATTTAT
107099306 TAATTTAT
1 TAATTTAT
*
107099314 TAATTTAA
1 TAATTTAT
107099322 TAATTTA
1 TAATTTA
107099329 AAATTATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (8 bp):
TAATTTAT
Found at i:107110571 original size:21 final size:20
Alignment explanation
Indices: 107110542--107110580 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
107110532 TAACCTAAGT
*
107110542 AAAAACTAAGAATGAAAAGA
1 AAAAACTAAGAATCAAAAGA
*
107110562 AAAAACCTAATAATCAAAA
1 AAAAA-CTAAGAATCAAAA
107110581 CCCTTAAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.69, C:0.10, G:0.08, T:0.13
Consensus pattern (20 bp):
AAAAACTAAGAATCAAAAGA
Found at i:107119700 original size:46 final size:46
Alignment explanation
Indices: 107119647--107119822 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
107119637 TATTTGGGCA
107119647 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
107119693 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
107119740 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
107119786 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
107119823 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:107119802 original size:93 final size:93
Alignment explanation
Indices: 107119643--107119814 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
107119633 GGGATATTTG
* *
107119643 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
107119708 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
107119736 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
107119801 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
107119815 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:107121790 original size:16 final size:16
Alignment explanation
Indices: 107121762--107121796 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
107121752 AGTAGATATT
107121762 TTATGTTAGTTATTTA
1 TTATGTTAGTTATTTA
107121778 TTATGCTTA-TTATTTA
1 TTATG-TTAGTTATTTA
107121794 TTA
1 TTA
107121797 CATTTCTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 15 0.83
17 3 0.17
ACGTcount: A:0.26, C:0.03, G:0.09, T:0.63
Consensus pattern (16 bp):
TTATGTTAGTTATTTA
Found at i:107122221 original size:15 final size:15
Alignment explanation
Indices: 107122185--107122215 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
107122175 TTTTATTTGG
*
107122185 TGATGCATTCTTTAT
1 TGATACATTCTTTAT
107122200 TGATACATTCTTTAT
1 TGATACATTCTTTAT
107122215 T
1 T
107122216 ATTACAGATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.13, G:0.10, T:0.55
Consensus pattern (15 bp):
TGATACATTCTTTAT
Found at i:107123470 original size:6 final size:6
Alignment explanation
Indices: 107123455--107123498 Score: 61
Period size: 6 Copynumber: 7.3 Consensus size: 6
107123445 TCCATTTCTC
* * *
107123455 TTTATG TTTATT TTTATT TTTATT TTTATC TTTATC TTTATT TT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TT
107123499 GTCTTTCTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.16, C:0.05, G:0.02, T:0.77
Consensus pattern (6 bp):
TTTATT
Found at i:107129094 original size:38 final size:38
Alignment explanation
Indices: 107128996--107129136 Score: 149
Period size: 38 Copynumber: 3.7 Consensus size: 38
107128986 AAACCCAAAC
* * * *
107128996 ATAACACCAGCACGAAGCCTACGGGACTTTAAACTCAGAT
1 ATAATACCAGCACGAAGCCTGCGGGA-TTT-AACCCGGAT
* *
107129036 ATAATACCAGCACTAGGCCTGCGGGATTTAACCCGGAT
1 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
* * *
107129074 ATATTACTAGTACGAAGCCTGCGGGATTTAACCCGGAT
1 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
* *
107129112 ATAATTCCAGCA-TATAGCCTGCGGG
1 ATAATACCAGCACGA-AGCCTGCGGG
107129137 TCTTTAAGCC
Statistics
Matches: 84, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
37 1 0.01
38 58 0.69
39 3 0.04
40 22 0.26
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (38 bp):
ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
Found at i:107132341 original size:28 final size:28
Alignment explanation
Indices: 107132309--107132364 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
107132299 TTCTCAATTG
*
107132309 TCCATTCTATATTTCTTTTAGTTTTATA
1 TCCATTCTATATTTCTTTTAATTTTATA
*
107132337 TCCATTTTATATTTCTTTTAATTTTATA
1 TCCATTCTATATTTCTTTTAATTTTATA
107132365 ACATATTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.23, C:0.12, G:0.02, T:0.62
Consensus pattern (28 bp):
TCCATTCTATATTTCTTTTAATTTTATA
Found at i:107134811 original size:6 final size:6
Alignment explanation
Indices: 107134797--107134828 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
107134787 ACACCGTAAG
*
107134797 GTAACA GTAAAA GTAACA GTAACA GTAACA GT
1 GTAACA GTAACA GTAACA GTAACA GTAACA GT
107134829 CATAGTCAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.50, C:0.12, G:0.19, T:0.19
Consensus pattern (6 bp):
GTAACA
Found at i:107138009 original size:12 final size:10
Alignment explanation
Indices: 107137979--107138005 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
107137969 AAGAATATAT
107137979 AATATATTTG
1 AATATATTTG
107137989 AATATATTTG
1 AATATATTTG
107137999 AATATAT
1 AATATAT
107138006 ATTTTTTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.48
Consensus pattern (10 bp):
AATATATTTG
Found at i:107144954 original size:49 final size:49
Alignment explanation
Indices: 107144882--107144982 Score: 166
Period size: 49 Copynumber: 2.1 Consensus size: 49
107144872 TAAATTATGC
* * *
107144882 TATACATTTCTAAACTTGGTCTTCCACTGTCTACACTCTTATCACTATT
1 TATACATTGCTAAACTTAGTCTTCCACTATCTACACTCTTATCACTATT
*
107144931 TATACATTGCTAAATTTAGTCTTCCACTATCTACACTCTTATCACTATT
1 TATACATTGCTAAACTTAGTCTTCCACTATCTACACTCTTATCACTATT
107144980 TAT
1 TAT
107144983 CCCTTCTAGA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.27, C:0.25, G:0.05, T:0.44
Consensus pattern (49 bp):
TATACATTGCTAAACTTAGTCTTCCACTATCTACACTCTTATCACTATT
Found at i:107145616 original size:30 final size:30
Alignment explanation
Indices: 107145580--107145639 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
107145570 ACATCAAACA
107145580 TTCAAGACTTTCATTCATATCACACTTACC
1 TTCAAGACTTTCATTCATATCACACTTACC
*
107145610 TTCAAGACTTTCATTCATATCGCACTTACC
1 TTCAAGACTTTCATTCATATCACACTTACC
107145640 ATATTTGAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.28, C:0.30, G:0.05, T:0.37
Consensus pattern (30 bp):
TTCAAGACTTTCATTCATATCACACTTACC
Found at i:107145723 original size:25 final size:24
Alignment explanation
Indices: 107145671--107145724 Score: 67
Period size: 23 Copynumber: 2.2 Consensus size: 24
107145661 CTTCTAAAGT
107145671 TACC-AAATATGAAACTAAGCACA
1 TACCAAAATATGAAACTAAGCACA
*
107145694 TACCAAAATAT-AAACTAGGCTAGCA
1 TACCAAAATATGAAACTAAGC-A-CA
107145719 TACCAA
1 TACCAA
107145725 CATAACCTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
23 12 0.44
24 7 0.26
25 8 0.30
ACGTcount: A:0.50, C:0.22, G:0.09, T:0.19
Consensus pattern (24 bp):
TACCAAAATATGAAACTAAGCACA
Found at i:107146295 original size:15 final size:15
Alignment explanation
Indices: 107146255--107146296 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
107146245 CATCTCATAA
*
107146255 TCATCTCATA-TTTG
1 TCATCTCATATTTTC
*
107146269 TCATTTCGATATTTTC
1 TCATCTC-ATATTTTC
107146285 TCATCTCATATT
1 TCATCTCATATT
107146297 CATTTCTCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 6 0.26
15 8 0.35
16 9 0.39
ACGTcount: A:0.21, C:0.21, G:0.05, T:0.52
Consensus pattern (15 bp):
TCATCTCATATTTTC
Found at i:107150226 original size:13 final size:13
Alignment explanation
Indices: 107150208--107150254 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
107150198 TTTTGCTTTC
107150208 AATTAAAATTATA
1 AATTAAAATTATA
**
107150221 AATTAAAAAAATA
1 AATTAAAATTATA
*
107150234 ATTTAAGAATTATA
1 AATTAA-AATTATA
107150248 AATTAAA
1 AATTAAA
107150255 TTGTATTACT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
13 17 0.63
14 10 0.37
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (13 bp):
AATTAAAATTATA
Found at i:107151126 original size:2 final size:2
Alignment explanation
Indices: 107151119--107151156 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
107151109 TCTAATAGCA
107151119 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
107151157 GTATTCTCTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:107151489 original size:22 final size:23
Alignment explanation
Indices: 107151442--107151489 Score: 55
Period size: 22 Copynumber: 2.1 Consensus size: 23
107151432 TTTCGTTTAG
*
107151442 AAATATTTATGAAATAGATTTTA
1 AAATATTTATGAAATAGATTTCA
*
107151465 AAAT-TTTATTAAATA-ATATTCA
1 AAATATTTATGAAATAGAT-TTCA
107151487 AAA
1 AAA
107151490 ATCATAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 2 0.09
22 16 0.73
23 4 0.18
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.42
Consensus pattern (23 bp):
AAATATTTATGAAATAGATTTCA
Found at i:107151759 original size:12 final size:13
Alignment explanation
Indices: 107151736--107151764 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
107151726 ATTGTATGTA
107151736 TATATATAAATAG
1 TATATATAAATAG
107151749 TATAT-TAAATAG
1 TATATATAAATAG
107151761 TATA
1 TATA
107151765 AAAAGAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (13 bp):
TATATATAAATAG
Found at i:107154448 original size:13 final size:13
Alignment explanation
Indices: 107154430--107154455 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
107154420 AATCATGGTG
107154430 GCTGAACTAACTC
1 GCTGAACTAACTC
107154443 GCTGAACTAACTC
1 GCTGAACTAACTC
107154456 ATTGCTATGC
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:0.31, G:0.15, T:0.23
Consensus pattern (13 bp):
GCTGAACTAACTC
Found at i:107158005 original size:22 final size:21
Alignment explanation
Indices: 107157980--107158020 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
107157970 TAGTAAAAGG
* *
107157980 TACATATATAATTACTATATAT
1 TACATAAAAAATTA-TATATAT
107158002 TACATAAAAAATTATATAT
1 TACATAAAAAATTATATAT
107158021 TTAAAAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.41
Consensus pattern (21 bp):
TACATAAAAAATTATATATAT
Found at i:107161021 original size:22 final size:22
Alignment explanation
Indices: 107160966--107161023 Score: 62
Period size: 25 Copynumber: 2.5 Consensus size: 22
107160956 TAAATAAAAA
*
107160966 CCTTGGCCACCTACTCCACCAC
1 CCTTGGCCACCAACTCCACCAC
* *
107160988 CTTTGTTGGCCACCAACTCCGCCAC
1 C---CTTGGCCACCAACTCCACCAC
107161013 CCTTGGCCACC
1 CCTTGGCCACC
107161024 TAAACCACCC
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
22 10 0.34
25 19 0.66
ACGTcount: A:0.16, C:0.50, G:0.14, T:0.21
Consensus pattern (22 bp):
CCTTGGCCACCAACTCCACCAC
Found at i:107161150 original size:20 final size:23
Alignment explanation
Indices: 107161104--107161150 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
107161094 GTTTTTGGTT
*
107161104 TTTTGGAAGAGGATTGTTCTTTG
1 TTTTGGAAGAGGATTGTTCTTTA
*
107161127 TTTTGGAGGAGG-TT-TT-TTTA
1 TTTTGGAAGAGGATTGTTCTTTA
107161147 TTTT
1 TTTT
107161151 TTGGAGGTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 7 0.32
21 2 0.09
22 2 0.09
23 11 0.50
ACGTcount: A:0.15, C:0.02, G:0.28, T:0.55
Consensus pattern (23 bp):
TTTTGGAAGAGGATTGTTCTTTA
Found at i:107161171 original size:19 final size:21
Alignment explanation
Indices: 107161104--107161196 Score: 60
Period size: 22 Copynumber: 4.1 Consensus size: 21
107161094 GTTTTTGGTT
* *
107161104 TTTTGGAAGAGGATTGTTCTTTG
1 TTTTGGAGGAGG-TT-TTTTTTG
*
107161127 TTTTGGAGGAGGTTTTTTTATT
1 TTTTGGAGGAGGTTTTTTT-TG
* * *
107161149 TTTTGGAGGTGTTTTTTTGTTT
1 TTTTGGAGGAGGTTTTTT-TTG
* *
107161171 TTTTGGAAAGAAGGTTGTTTTTG
1 TTTTGG--AGGAGGTTTTTTTTG
107161194 TTT
1 TTT
107161197 CTTGGAAAGG
Statistics
Matches: 56, Mismatches: 10, Indels: 8
0.76 0.14 0.11
Matches are distributed among these distances:
21 4 0.07
22 27 0.48
23 17 0.30
24 8 0.14
ACGTcount: A:0.14, C:0.01, G:0.28, T:0.57
Consensus pattern (21 bp):
TTTTGGAGGAGGTTTTTTTTG
Found at i:107161177 original size:22 final size:22
Alignment explanation
Indices: 107161127--107161173 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
107161117 TTGTTCTTTG
107161127 TTTTGGAGGAGGTTTTTTTATT
1 TTTTGGAGGAGGTTTTTTTATT
* *
107161149 TTTTGGAGG-TGTTTTTTTGTT
1 TTTTGGAGGAGGTTTTTTTATT
107161170 TTTT
1 TTTT
107161174 TGGAAAGAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 14 0.61
22 9 0.39
ACGTcount: A:0.09, C:0.00, G:0.26, T:0.66
Consensus pattern (22 bp):
TTTTGGAGGAGGTTTTTTTATT
Found at i:107161518 original size:3 final size:3
Alignment explanation
Indices: 107161504--107161586 Score: 59
Period size: 3 Copynumber: 27.3 Consensus size: 3
107161494 AAGCTTTGTT
* *
107161504 TTA TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
107161548 TT- TCTCA TGTA TATA TTA TTA TT- TATA TTA TTA -TA TTA T
1 TTA T-T-A T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA T
107161587 ATATGCCCTC
Statistics
Matches: 65, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
2 7 0.11
3 49 0.75
4 7 0.11
5 2 0.03
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:107161564 original size:21 final size:18
Alignment explanation
Indices: 107161504--107161586 Score: 87
Period size: 18 Copynumber: 4.4 Consensus size: 18
107161494 AAGCTTTGTT
*
107161504 TTATTATTTTATTATTTTTA
1 TTATTA-TTTA-TATTATTA
*
107161524 CTATTATTTATATTATTA
1 TTATTATTTATATTATTA
*
107161542 TTATTATTTCTCATGTATATA
1 TTATTATTTAT-AT-TAT-TA
107161563 TTATTATTTATATTATTA
1 TTATTATTTATATTATTA
107161581 -TATTAT
1 TTATTAT
107161587 ATATGCCCTC
Statistics
Matches: 55, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
17 6 0.11
18 18 0.33
19 9 0.16
20 10 0.18
21 12 0.22
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (18 bp):
TTATTATTTATATTATTA
Found at i:107161589 original size:27 final size:26
Alignment explanation
Indices: 107161503--107161590 Score: 81
Period size: 27 Copynumber: 3.3 Consensus size: 26
107161493 GAAGCTTTGT
* * *
107161503 TTTATTATTTTATTATTTTTACTATTA
1 TTTA-TATATTATTATTTATATTATTA
* *
107161530 TTTATATTATTATTA-TTAT-TTCTCA
1 TTTATA-TATTATTATTTATATTATTA
*
107161555 TGTATATATTATTATTTATATTATTA
1 TTTATATATTATTATTTATATTATTA
107161581 TATTATATAT
1 T-TTATATAT
107161591 GCCCTCTCCA
Statistics
Matches: 48, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
24 8 0.17
25 12 0.25
26 10 0.21
27 18 0.38
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (26 bp):
TTTATATATTATTATTTATATTATTA
Found at i:107161712 original size:12 final size:13
Alignment explanation
Indices: 107161661--107161714 Score: 51
Period size: 12 Copynumber: 4.2 Consensus size: 13
107161651 TTCTAACTAC
*
107161661 TATTATTATATA-
1 TATTATTATGTAT
107161673 TATATATATATGTAT
1 TAT-TAT-TATGTAT
*
107161688 TATTGTT-TGTAT
1 TATTATTATGTAT
107161700 TATTATTAT-TAT
1 TATTATTATGTAT
107161712 TAT
1 TAT
107161715 CACCCCTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
12 20 0.57
13 5 0.14
14 7 0.20
15 3 0.09
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (13 bp):
TATTATTATGTAT
Found at i:107161727 original size:95 final size:92
Alignment explanation
Indices: 107161626--107161803 Score: 206
Period size: 92 Copynumber: 1.9 Consensus size: 92
107161616 TTACTATCAT
*
107161626 TATTGTTACTT-CTATTA-TTTTTTATTTCTAACTACTATTATTATATATATA-T-ATATATGT-
1 TATTGTTA-TTACT-TTACTTTTCTA-TTCTAA-TA-TATTATTA-ATAT-TACTCATAT-TGTC
*
107161686 ATTATTGTTTG-TATTATTATTATTATTATCACCCC
58 ATTATT-TTTGCTATTACTATTATTATTATCACCCC
*
107161721 TATTGTTATTACTTTACTTTTCTATTCTAATATATTATTAATATTACTCATATTTTCATTATTTT
1 TATTGTTATTACTTTACTTTTCTATTCTAATATATTATTAATATTACTCATATTGTCATTATTTT
107161786 TGCTATTACTATTATTAT
66 TGCTATTACTATTATTAT
107161804 ATATATTAGT
Statistics
Matches: 74, Mismatches: 3, Indels: 15
0.80 0.03 0.16
Matches are distributed among these distances:
90 2 0.03
91 11 0.15
92 32 0.43
93 2 0.03
94 11 0.15
95 16 0.22
ACGTcount: A:0.28, C:0.11, G:0.03, T:0.58
Consensus pattern (92 bp):
TATTGTTATTACTTTACTTTTCTATTCTAATATATTATTAATATTACTCATATTGTCATTATTTT
TGCTATTACTATTATTATTATCACCCC
Found at i:107161880 original size:39 final size:40
Alignment explanation
Indices: 107161837--107161976 Score: 101
Period size: 39 Copynumber: 3.4 Consensus size: 40
107161827 ACATATATAT
*
107161837 ATATTTATATATAGTA-TTGTTTTTTATTACTTTAATTTA
1 ATATTTATATATAGTAGTTGTTTTTTATTACTATAATTTA
* * *
107161876 ATATTTTTAT-TA-TATTTGCTTTTTGTATTTCTAT-ATTTA
1 ATATTTATATATAGTAGTTG-TTTTT-TATTACTATAATTTA
* * *
107161915 TTATTATTATTATATAGTAGTGTGTATTTCTATTA-TATACATATA
1 ATA-T-TTA-TATATAGTAGT-TGT-TTTTTATTACTATA-ATTTA
107161960 TATATTTATATATAGTA
1 -ATATTTATATATAGTA
107161977 TTATTGTTTA
Statistics
Matches: 78, Mismatches: 10, Indels: 22
0.71 0.09 0.20
Matches are distributed among these distances:
37 2 0.03
38 5 0.06
39 21 0.27
40 8 0.10
41 2 0.03
42 3 0.04
43 14 0.18
44 11 0.14
45 10 0.13
46 2 0.03
ACGTcount: A:0.31, C:0.04, G:0.06, T:0.59
Consensus pattern (40 bp):
ATATTTATATATAGTAGTTGTTTTTTATTACTATAATTTA
Found at i:107162010 original size:124 final size:122
Alignment explanation
Indices: 107161789--107162012 Score: 292
Period size: 124 Copynumber: 1.8 Consensus size: 122
107161779 TTATTTTTGC
* *
107161789 TATTACTATTATTATATATATTAGTGTATTTTGTATGTACATATATATATATTTATATATAGTAT
1 TATTACTATTATTATATATAGTAGTGTATTTTGTATATACA-ATATATATATTTATATATAGTAT
* * *
107161854 TGTTTTTTATTACTTTAATTTAATATTTTTATTATATTTGCTTTTTGTATTTCTATATT
65 TATTGTTTATTACTTTAA-TTAATATTCTTATTATATTTGCTTTTTGTATTTCTATATT
* *
107161913 TATTATTATTATTATATAGTAGT-GTGTATTTCTATTATATAC-ATATATATATTTATATATAGT
1 TATTACTATTATTATATA-TAGTAGTGTATTT-T-GTATATACAATATATATATTTATATATAGT
*
107161976 ATTATTGTTTACTTTACTTTAA-TATTATTCTTATTAT
63 ATTATTGTTTA--TTACTTTAATTAATATTCTTATTAT
107162013 CATTATATCC
Statistics
Matches: 87, Mismatches: 8, Indels: 10
0.83 0.08 0.10
Matches are distributed among these distances:
124 68 0.78
125 4 0.05
126 15 0.17
ACGTcount: A:0.30, C:0.04, G:0.06, T:0.59
Consensus pattern (122 bp):
TATTACTATTATTATATATAGTAGTGTATTTTGTATATACAATATATATATTTATATATAGTATT
ATTGTTTATTACTTTAATTAATATTCTTATTATATTTGCTTTTTGTATTTCTATATT
Found at i:107164425 original size:19 final size:19
Alignment explanation
Indices: 107164403--107164449 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
107164393 CTTCCTTTCT
107164403 TTTGCATT-CATTCCATACA
1 TTTGCATTACATTCCA-ACA
*
107164422 TTTGCATTACATTGCAACA
1 TTTGCATTACATTCCAACA
107164441 TTTGCATTA
1 TTTGCATTA
107164450 AACTTTCACT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 20 0.77
20 6 0.23
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.43
Consensus pattern (19 bp):
TTTGCATTACATTCCAACA
Found at i:107167237 original size:6 final size:6
Alignment explanation
Indices: 107167226--107167255 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
107167216 GGCGTTATAT
107167226 GGCAAA GGCAAA GGCAAA GGCAAA GGCAAA
1 GGCAAA GGCAAA GGCAAA GGCAAA GGCAAA
107167256 AAAAAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.50, C:0.17, G:0.33, T:0.00
Consensus pattern (6 bp):
GGCAAA
Found at i:107167324 original size:1 final size:1
Alignment explanation
Indices: 107167253--107167313 Score: 68
Period size: 1 Copynumber: 61.0 Consensus size: 1
107167243 AGGCAAAGGC
* * * * * *
107167253 AAAAAAAAAAAAAAAAAAAACACAAAAACACAAAACAAAAAAAAAAACAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
107167314 GCGGAAAAAA
Statistics
Matches: 48, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 48 1.00
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:107168536 original size:66 final size:66
Alignment explanation
Indices: 107168436--107168562 Score: 236
Period size: 66 Copynumber: 1.9 Consensus size: 66
107168426 CATTCATATA
*
107168436 ATAACACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATTATTTGACACATT
1 ATAACACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATCATTTGACACATT
107168501 C
66 C
*
107168502 ATAACACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATCATTTGACA
1 ATAACACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATCATTTGACA
107168563 TAAGCATAGA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 59 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (66 bp):
ATAACACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATCATTTGACACATT
C
Found at i:107168811 original size:43 final size:44
Alignment explanation
Indices: 107168626--107169176 Score: 414
Period size: 43 Copynumber: 12.6 Consensus size: 44
107168616 ATTCACAAGC
* * * *
107168626 CTTAAGCCCCTAAGCAATAGGGTAACAG-GCTGAAGATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATC-GAAGA-TGACAGAT
* * *
107168671 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGA-AGGGT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGACA-GAT
* * * * *
107168715 CTTAAACCCCTAATCGGTAGGGTAACAGACCGAA-TTG-CAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGACAGAT
* * *
107168757 CTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGATGA-AGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGACAGAT
* * **
107168800 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGA-TGGG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGACAGAT
* * * *
107168843 CTTTAACCCCCTAAGCAGTAGGGTAACA-AGCCAA-ATTTACA-AGC
1 C-TTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGA-TGACAGA-T
* *
107168887 CTTAACCCCCTAAGCAGTAGGGTAACAG-GCTGAAGATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATC-GAAGA-TGACAGAT
* * **
107168932 CTTAA-CCCCTAAGCAGTAGGGAAACAGATCGAAGATGA-TGGG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGACAGAT
* * * * *
107168974 CTTAACCCCCTAAGCAGTAGGGTAACA-AGCCGAA-TTTACAAAC
1 CTTAACCCCCTAAGCAGTAGGGTAACAGA-TCGAAGATGACAGAT
* * * *
107169017 CTTAAACCCCTAAGCAGTAGGGTAACAG-GCTGAAGATTTACAAAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATC-GAAGA-TGACAGAT
* * * * *
107169062 CTTAACCCCCTAACCAGTAGGGTAACAGGTTGAA-TTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGACAGAT
* * * * ** **
107169105 CTTAACCCCTTAAGCAGTTGGGAAATAGATCGAAGATGATGGGC
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGACAGAT
* *
107169149 CTTAAACCCCTAAGTAGTAGGGTAACAG
1 CTTAACCCCCTAAGCAGTAGGGTAACAG
107169177 GCTAGAAATT
Statistics
Matches: 403, Mismatches: 80, Indels: 47
0.76 0.15 0.09
Matches are distributed among these distances:
42 40 0.10
43 171 0.42
44 111 0.28
45 79 0.20
46 2 0.00
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (44 bp):
CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGACAGAT
Found at i:107168922 original size:87 final size:86
Alignment explanation
Indices: 107168620--107169179 Score: 286
Period size: 87 Copynumber: 6.4 Consensus size: 86
107168610 CAGTGAATTC
* * * *
107168620 ACAAGCCTTAAGCCCCTAAGCAATAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCCCTAAG
1 ACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATATA-AGCT-TTAA-CCCCTAAG
* * **
107168685 CAGTAGGGAAACAGATCGAAGA-CG
63 CAGTAGGGTAACA-AGCGAAGATTT
* * * * * * * * * *
107168709 A-AGGGTCTTAAACCCCTAATCGGTAGGGTAACAGACCG-A-AT-TGCAGATCTTATCTCCCTAA
1 ACA-AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATAT-AAGCT-TTAAC-CCCTAA
* *
107168770 GCAGTAGGGAAACAGATCGAAGA--T
62 GCAGTAGGGTAACA-AGCGAAGATTT
* * * * **
107168794 -GAAGATCTTAACCCCCTAAGCAGTAGGGAAACA-GATCGAAGATGATGGGCTTTAACCCCCTAA
1 ACAAG-CCTTAACCCCCTAAGCAGTAGGGTAACAGGCT-GAAGAT-ATAAGCTTTAA-CCCCTAA
*
107168857 GCAGTAGGGTAACAAGCCAA-ATTT
62 GCAGTAGGGTAACAAGCGAAGATTT
* *
107168881 ACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCCTAAGC
1 ACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATATA-AGCT-TTAACCCCTAAGC
* * *
107168946 AGTAGGGAAACAGATCGAAGA-TG
64 AGTAGGGTAACA-AGCGAAGATTT
** * * * ** * * *
107168969 A-TGGGCTTAACCCCCTAAGCAGTAGGGTAACAAGCCGAATTTACAAACCTTAAACCCCTAAGCA
1 ACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATA-TAAGCTTTAACCCCTAAGCA
*
107169033 GTAGGGTAACAGGCTGAAGATTT
65 GTAGGGTAACAAGC-GAAGATTT
** * * * *
107169056 ACAAATCTTAACCCCCTAACCAGTAGGGTAACAGGTTG-A-ATTTACAGATCTTAACCCCTTAAG
1 ACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATATA-AGCT-TTAACCCC-TAAG
* * * * *
107169119 CAGTTGGGAAATAGATCGAAGA-TG
63 CAGTAGGGTAACA-AGCGAAGATTT
*** * *
107169143 ATGGGCCTTAAACCCCTAAGTAGTAGGGTAACAGGCT
1 ACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCT
107169180 AGAAATTACA
Statistics
Matches: 361, Mismatches: 83, Indels: 56
0.72 0.17 0.11
Matches are distributed among these distances:
84 1 0.00
85 30 0.08
86 75 0.21
87 156 0.43
88 68 0.19
89 31 0.09
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (86 bp):
ACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATATAAGCTTTAACCCCTAAGCAG
TAGGGTAACAAGCGAAGATTT
Found at i:107168997 original size:130 final size:131
Alignment explanation
Indices: 107168614--107169089 Score: 669
Period size: 130 Copynumber: 3.6 Consensus size: 131
107168604 TAGAATCAGT
* * *
107168614 GAATTCACAAGCCTTAAGCCCCTAAGCAATAGGGTAACAGGCTGAAGATTTACAGATCTTAACCC
1 GAATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCC
* * * * *
107168679 CCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGTCTTAAACCCCTAATCGGTAGGGTAAC-AG
66 CCTAAGCAGTAGGGAAACAGATCGAAGATGATGGG-CTTAACCCCCTAAGCAGTAGGGTAACAAG
107168743 ACC
130 -CC
* * * * * * *
107168746 GAA-TTGC-AGATCTTATCTCCCTAAGCAGTAGGGAAACA-GATCGAAGA-TGA-AGATCTTAAC
1 GAATTTACAAG-CCTTAACCCCCTAAGCAGTAGGGTAACAGGCT-GAAGATTTACAGATCTTAAC
107168806 CCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACA
64 CCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGC-TTAACCCCCTAAGCAGTAGGGTAACA
107168871 AGCC
128 AGCC
*
107168875 AAATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAA-CC
1 GAATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCC
107168939 CCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTAACCCCCTAAGCAGTAGGGTAACAAGC
66 CCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTAACCCCCTAAGCAGTAGGGTAACAAGC
107169004 C
131 C
* * *
107169005 GAATTTACAAACCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAAATCTTAACCC
1 GAATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCC
* *
107169070 CCTAACCAGTAGGGTAACAG
66 CCTAAGCAGTAGGGAAACAG
107169090 GTTGAATTTA
Statistics
Matches: 305, Mismatches: 29, Indels: 21
0.86 0.08 0.06
Matches are distributed among these distances:
128 1 0.00
129 71 0.23
130 128 0.42
131 93 0.30
132 12 0.04
ACGTcount: A:0.36, C:0.23, G:0.22, T:0.19
Consensus pattern (131 bp):
GAATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCC
CCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTAACCCCCTAAGCAGTAGGGTAACAAGC
C
Found at i:107169309 original size:68 final size:68
Alignment explanation
Indices: 107169200--107169390 Score: 303
Period size: 68 Copynumber: 2.8 Consensus size: 68
107169190 AATTTTTTTC
* * *
107169200 CCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAG-AGGATCTTT
1 CCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGCA-AACCTCT
107169264 TCTT
65 TCTT
* *
107169268 CCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGCAAACCTCTT
1 CCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGCAAACCTCTT
107169333 CTT
66 CTT
* *
107169336 CCAGAAATGGCATTGGAGAGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAG
1 CCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAG
107169391 TGGAAGAAGA
Statistics
Matches: 113, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
68 112 0.99
69 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.25
Consensus pattern (68 bp):
CCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGCAAACCTCTT
CTT
Found at i:107169483 original size:44 final size:44
Alignment explanation
Indices: 107169437--107170087 Score: 474
Period size: 44 Copynumber: 15.0 Consensus size: 44
107169427 TACAGAGGAG
* * * * *
107169437 CAGACCGAAGATAGCA-ATCTGACATTCCTGTGCTTACAGTGAA
1 CAGATCGAAGATAGCAGATCTGGCATCCCTGTGCTTATAGGGAA
** *
107169480 GCAGATCGAAGATTTCAG--CATGACATCCCTGTGCTTATAGGGAA
1 -CAGATCGAAGATAGCAGATC-TGGCATCCCTGTGCTTATAGGGAA
* * * *
107169524 CA-AGTTGAAAACAGCAGATTTGGCAT-CCTGTGCTTATA-GGAA
1 CAGA-TCGAAGATAGCAGATCTGGCATCCCTGTGCTTATAGGGAA
* * * * *
107169566 CAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAA
1 CAGATCGAAGATAGCAGATCTGGCATCCCTGTGCTTATAGGGAA
* **
107169610 GCAGATCAAAGATTTCAG--CATGGCATCCCTGTGCTTATA-GGAA
1 -CAGATCGAAGATAGCAGATC-TGGCATCCCTGTGCTTATAGGGAA
* * * *
107169653 CA-AGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
1 CAGA-TCGAAGATAGCAGATCTGGCATCCCTGTGCTTATAGGGAA
* * * * *
107169697 CAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAA
1 CAGATCGAAGATAGCAGATCTGGCATCCCTGTGCTTATAGGGAA
**
107169741 GCAGATCGAAGATTTCAG--CATGGCATCCCTGTGCTTATA-GGAA
1 -CAGATCGAAGATAGCAGATC-TGGCATCCCTGTGCTTATAGGGAA
* * * *
107169784 CA-AGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
1 CAGA-TCGAAGATAGCAGATCTGGCATCCCTGTGCTTATAGGGAA
* * * * *
107169828 CAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAA
1 CAGATCGAAGATAGCAGATCTGGCATCCCTGTGCTTATAGGGAA
*
107169872 GCAGATCGAAGAT-TCAG--CATGGCATCCCTGTGCTTATAGGGAAA
1 -CAGATCGAAGATAGCAGATC-TGGCATCCCTGTGCTTATAGGG-AA
* * * *
107169916 CA-AGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
1 CAGA-TCGAAGATAGCAGATCTGGCATCCCTGTGCTTATAGGGAA
* * * * *
107169960 CAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAA
1 CAGATCGAAGATAGCAGATCTGGCATCCCTGTGCTTATAGGGAA
**
107170004 GCAGATC-AAGATTTCAG--CATGGCATCCCTGTGCTTATAGGGAA
1 -CAGATCGAAGATAGCAGATC-TGGCATCCCTGTGCTTATAGGGAA
* * *
107170047 CA-AGT-TAA-ACATCAGAT-TGGCATCCCTGTGC-TATA-GGAA
1 CAGA-TCGAAGATAGCAGATCTGGCATCCCTGTGCTTATAGGGAA
107170086 CA
1 CA
107170088 ANACCGTCTC
Statistics
Matches: 479, Mismatches: 92, Indels: 77
0.74 0.14 0.12
Matches are distributed among these distances:
39 6 0.01
40 4 0.01
41 22 0.05
42 51 0.11
43 126 0.26
44 202 0.42
45 68 0.14
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (44 bp):
CAGATCGAAGATAGCAGATCTGGCATCCCTGTGCTTATAGGGAA
Found at i:107169669 original size:87 final size:86
Alignment explanation
Indices: 107169503--107170088 Score: 407
Period size: 87 Copynumber: 6.8 Consensus size: 86
107169493 TTCAGCATGA
* * * * *
107169503 CATCCCTGTGCTTATAGGGAACAAGTTGAAA-ACAGCAGATTTGGCAT-CCTGTGCTTATAGGAA
1 CATCCCTGTGCTTACAGTGAAC-AGATCAAAGATAGCAGA-TTGGCATCCCTGTGCTTATAGGAA
* *
107169566 CAAATCGAAGATAGCAGATCTGA
64 CAAGTCGAAGATAGCAGATCTGG
* **
107169589 CATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCA-TGGCATCCCTGTGCTTATAGGAA
1 CATCCCTGTGCTTACAGTGAA-CAGATCAAAGATAGCAG-ATTGGCATCCCTGTGCTTATAGGAA
* * * *
107169653 CAAGTTGAAAACAGCAGATTTGG
64 CAAGTCGAAGATAGCAGATCTGG
* * * * * * *
107169676 CATCCCTGTGCTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAA
1 CATCCCTGTGCTTACAGTGAACAGATCAAAGATAGCAGAT-TGGCATCCCTGTGCTTATAG-GAA
**
107169741 GC-AGATCGAAGATTTCAG--CATGG
64 -CAAG-TCGAAGATAGCAGATC-TGG
* * * *
107169764 CATCCCTGTGCTTATAG-GAACAAGTTGAAA-ACAGCAGATTTGGCATCCCTGTGCTTATAGGGA
1 CATCCCTGTGCTTACAGTGAAC-AGATCAAAGATAGCAGA-TTGGCATCCCTGTGCTTATA-GGA
* *
107169827 ACAAATCGAAGATAGCAGATCTGA
63 ACAAGTCGAAGATAGCAGATCTGG
* * *
107169851 CATTCCTGTGCTTACAGTGAAGCAGATCGAAGAT-TCAGCA-TGGCATCCCTGTGCTTATAGGGA
1 CATCCCTGTGCTTACAGTGAA-CAGATCAAAGATAGCAG-ATTGGCATCCCTGTGCTTATA-GG-
* * * *
107169914 AACAAGTTGAAAACAGCAGATTTGG
62 AACAAGTCGAAGATAGCAGATCTGG
* * * * * * *
107169939 CATCCCTGTGCTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAA
1 CATCCCTGTGCTTACAGTGAACAGATCAAAGATAGCAGAT-TGGCATCCCTGTGCTTATAG-GAA
**
107170004 GC-AGATC-AAGATTTCAG--CATGG
64 -CAAG-TCGAAGATAGCAGATC-TGG
* * * *
107170026 CATCCCTGTGCTTATAGGGAACA-AGTTAAACAT--CAGATTGGCATCCCTGTGC-TATAGGAAC
1 CATCCCTGTGCTTACAGTGAACAGA-TCAAAGATAGCAGATTGGCATCCCTGTGCTTATAGGAAC
107170087 AA
65 AA
107170089 NACCGTCTCC
Statistics
Matches: 395, Mismatches: 75, Indels: 64
0.74 0.14 0.12
Matches are distributed among these distances:
81 1 0.00
82 4 0.01
83 4 0.01
84 12 0.03
85 6 0.02
86 56 0.14
87 186 0.47
88 95 0.24
89 31 0.08
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (86 bp):
CATCCCTGTGCTTACAGTGAACAGATCAAAGATAGCAGATTGGCATCCCTGTGCTTATAGGAACA
AGTCGAAGATAGCAGATCTGG
Found at i:107169746 original size:131 final size:132
Alignment explanation
Indices: 107169442--107170088 Score: 1174
Period size: 131 Copynumber: 5.0 Consensus size: 132
107169432 AGGAGCAGAC
*
107169442 CGAAGATAGCA-ATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGACAT
1 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGGCAT
107169506 CCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCAT-CCTGTGCTTATA-GGAACAA
66 CCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAA
107169569 AT
131 AT
*
107169571 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCAT
1 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGGCAT
107169636 CCCTGTGCTTATA-GGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAA
66 CCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAA
107169700 AT
131 AT
107169702 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGGCAT
1 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGGCAT
107169767 CCCTGTGCTTATA-GGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAA
66 CCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAA
107169831 AT
131 AT
107169833 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGA-TTCAGCATGGCAT
1 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGGCAT
107169897 CCCTGTGCTTATAGGGAAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACA
66 CCCTGTGCTTATAGGG-AACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACA
107169962 AAT
130 AAT
107169965 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATC-AAGATTTCAGCATGGCAT
1 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGGCAT
*
107170029 CCCTGTGCTTATAGGGAACAAGTT--AAACATCAGA-TTGGCATCCCTGTGC-TATA-GGAACAA
66 CCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAA
107170089 NACCGTCTCC
Statistics
Matches: 508, Mismatches: 4, Indels: 15
0.96 0.01 0.03
Matches are distributed among these distances:
126 7 0.01
127 4 0.01
128 15 0.03
129 50 0.10
130 102 0.20
131 204 0.40
132 126 0.25
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (132 bp):
CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGGCAT
CCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAA
AT
Found at i:107176243 original size:70 final size:70
Alignment explanation
Indices: 107176156--107176743 Score: 971
Period size: 70 Copynumber: 8.2 Consensus size: 70
107176146 CCAAGTGACA
*
107176156 AAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
107176221 GTTTC
66 GTTTC
107176226 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
107176291 GTTTC
66 GTTTC
*
107176296 AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
107176361 GTTTC
66 GTTTC
*
107176366 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AA-TTTC
107176431 AATTTATGTTTC
59 AATTTATGTTTC
*
107176443 AAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
107176508 GTTTC
66 GTTTC
*
107176513 AAAATCAACTCATATTGCGA-AGGTGAGTTAAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
107176577 GTTTC
66 GTTTC
*
107176582 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AA-TTTC
107176647 AATTTATGTTTC
59 AATTTATGTTTC
*
107176659 AAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
107176724 GTTTC
66 GTTTC
107176729 AAAAATCAACTCATA
1 -AAAATCAACTCATA
107176744 GGTGAGTTGA
Statistics
Matches: 490, Mismatches: 12, Indels: 31
0.92 0.02 0.06
Matches are distributed among these distances:
69 68 0.14
70 266 0.54
71 18 0.04
72 2 0.00
75 2 0.00
76 4 0.01
77 130 0.27
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (70 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
GTTTC
Found at i:107176442 original size:77 final size:77
Alignment explanation
Indices: 107176350--107176721 Score: 594
Period size: 77 Copynumber: 5.0 Consensus size: 77
107176340 GTTGAGGTAA
*
107176350 TTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGA
1 TTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGA
107176415 GGTAATTTCAAT
66 GGTAATTTCAAT
*
107176427 TTTCAATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGA
1 TTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGA
107176492 GG-----T-AA-
66 GGTAATTTCAAT
*
107176497 TTTCAATTTATGTTTCAAAATCAACTCATATTGCGA-AGGTGAGTTAAGCCTCAAGACACGTTGA
1 TTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGA
107176561 GG-----T-AA-
66 GGTAATTTCAAT
*
107176566 TTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGA
1 TTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGA
107176631 GGTAATTTCAAT
66 GGTAATTTCAAT
*
107176643 TTTCAATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGA
1 TTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGA
107176708 GGTAATTTCAAT
66 GGTAATTTCAAT
107176720 TT
1 TT
107176722 ATGTTTCAAA
Statistics
Matches: 279, Mismatches: 8, Indels: 16
0.92 0.03 0.05
Matches are distributed among these distances:
69 68 0.24
70 63 0.23
71 2 0.01
72 1 0.00
75 1 0.00
76 2 0.01
77 142 0.51
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.33
Consensus pattern (77 bp):
TTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGA
GGTAATTTCAAT
Found at i:107176637 original size:216 final size:217
Alignment explanation
Indices: 107176156--107176743 Score: 1084
Period size: 216 Copynumber: 2.7 Consensus size: 217
107176146 CCAAGTGACA
* *
107176156 AAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AA-TTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
*
107176214 AATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
66 AATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
107176279 ATTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTG
131 ATTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTG
107176344 AGGTAATTTCAATTTATGTTTC
196 AGGTAATTTCAATTTATGTTTC
107176366 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
107176431 AATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
66 AATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
107176496 ATTTCAATTTATGTTTCAAAATCAACTCATATTGCGA-AGGTGAGTTAAGCCTCAAGACACGTTG
131 ATTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTG
107176560 AGGTAATTTCAATTTATGTTTC
196 AGGTAATTTCAATTTATGTTTC
107176582 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
107176647 AATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
66 AATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
107176712 ATTTCAATTTATGTTTCAAAAATCAACTCATA
131 ATTTCAATTTATGTTTC-AAAATCAACTCATA
107176744 GGTGAGTTGA
Statistics
Matches: 367, Mismatches: 3, Indels: 9
0.97 0.01 0.02
Matches are distributed among these distances:
210 49 0.13
215 1 0.00
216 198 0.54
217 119 0.32
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (217 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
AATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
ATTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTG
AGGTAATTTCAATTTATGTTTC
Found at i:107176889 original size:53 final size:52
Alignment explanation
Indices: 107176793--107176946 Score: 185
Period size: 54 Copynumber: 3.0 Consensus size: 52
107176783 TCTACTTTCC
*
107176793 AATTCCTGTTTTTCAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTGTT
1 AATTTCTGTTTTTCAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCC--TT
* *
107176847 AATTTCTGTCTTTCAAAAAGCAACTCA-ATTGCGAGAGGTGAGTTGTA-CC-T
1 AATTTCTGTTTTTCAAAAATCAACTCACATTGCGAGAGGTGAGTTG-AGCCTT
* **
107176897 --TTT-TGTTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTT
1 AATTTCTGTTTTTCAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTT
107176946 A
1 A
107176947 GGTCATATGT
Statistics
Matches: 88, Mismatches: 7, Indels: 14
0.81 0.06 0.13
Matches are distributed among these distances:
47 20 0.23
48 21 0.24
49 1 0.01
50 1 0.01
53 20 0.23
54 25 0.28
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (52 bp):
AATTTCTGTTTTTCAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTT
Found at i:107177699 original size:35 final size:35
Alignment explanation
Indices: 107177653--107177723 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
107177643 CACTTGCCTC
107177653 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
*
107177688 TTCCCACTCTCCCATGCTGTCTGCCGCCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
107177723 T
1 T
107177724 CACACACCCC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.15, C:0.48, G:0.13, T:0.24
Consensus pattern (35 bp):
TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
Found at i:107178147 original size:14 final size:14
Alignment explanation
Indices: 107178130--107178197 Score: 50
Period size: 15 Copynumber: 4.6 Consensus size: 14
107178120 GGGAAGCAAA
107178130 AAAAAAAATCCAGC
1 AAAAAAAATCCAGC
*
107178144 -AAAAAATTCCAGCACC
1 AAAAAAAATCCAG---C
107178160 AAAAAAAATTTCCAG-
1 AAAAAAAA--TCCAGC
*
107178175 AAAAAAATTTCCAGC
1 AAAAAAA-ATCCAGC
107178190 AAAAAAAA
1 AAAAAAAA
107178198 ACAAAAAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 16
0.68 0.06 0.26
Matches are distributed among these distances:
13 11 0.26
14 5 0.12
15 14 0.33
16 1 0.02
17 6 0.14
19 5 0.12
ACGTcount: A:0.62, C:0.19, G:0.06, T:0.13
Consensus pattern (14 bp):
AAAAAAAATCCAGC
Found at i:107178174 original size:32 final size:31
Alignment explanation
Indices: 107178124--107178198 Score: 98
Period size: 32 Copynumber: 2.4 Consensus size: 31
107178114 AAAGAGGGGA
*
107178124 AGCAAAAAAAAAAATCCAGCAAAAAA-TTCC
1 AGCAAAAAAAAAAATCCAGAAAAAAATTTCC
**
107178154 AGCACCAAAAAAAATTTCCAGAAAAAAATTTCC
1 AGCA--AAAAAAAAAATCCAGAAAAAAATTTCC
107178187 AGCAAAAAAAAA
1 AGCAAAAAAAAA
107178199 CAAAAAAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
30 4 0.10
31 8 0.21
32 19 0.49
33 8 0.21
ACGTcount: A:0.63, C:0.19, G:0.07, T:0.12
Consensus pattern (31 bp):
AGCAAAAAAAAAAATCCAGAAAAAAATTTCC
Found at i:107178488 original size:13 final size:12
Alignment explanation
Indices: 107178456--107178493 Score: 62
Period size: 11 Copynumber: 3.3 Consensus size: 12
107178446 CCGACCAGAT
107178456 TTCCCTTCTCTC
1 TTCCCTTCTCTC
107178468 -TCCCTTCTCTC
1 TTCCCTTCTCTC
107178479 TTCCCTT-TCTC
1 TTCCCTTCTCTC
107178490 TTCC
1 TTCC
107178494 TTTTTTTCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 19 0.76
12 6 0.24
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (12 bp):
TTCCCTTCTCTC
Found at i:107179016 original size:2 final size:2
Alignment explanation
Indices: 107179004--107179139 Score: 65
Period size: 2 Copynumber: 71.0 Consensus size: 2
107178994 ATCATTTCTA
* * *
107179004 AT AT GT AT AT AT AT AT AT AT AT AT -T AT GT GT AT -T AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* ** * *
107179044 AT AT AT -T AT GT AT AT AT GCC AT -T AGT -T AT AT AT TT CT -T AT
1 AT AT AT AT AT AT AT AT AT -AT AT AT A-T AT AT AT AT AT AT AT AT
* * * *
107179084 GT AT AT AT -T CT -T AA AT ACT AT -T AT AT AC AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT
*
107179124 AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT
107179140 TTTAAATTCC
Statistics
Matches: 102, Mismatches: 20, Indels: 24
0.70 0.14 0.16
Matches are distributed among these distances:
1 9 0.09
2 90 0.88
3 3 0.03
ACGTcount: A:0.39, C:0.04, G:0.06, T:0.51
Consensus pattern (2 bp):
AT
Found at i:107187531 original size:46 final size:46
Alignment explanation
Indices: 107187471--107187744 Score: 424
Period size: 46 Copynumber: 6.0 Consensus size: 46
107187461 TTTGACATGA
* * * * * *
107187471 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*
107187517 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
107187563 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* * *
107187609 TGCCATAGTGTCTTTCAACCATGGTCTTACACATTTCATGTCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
107187655 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
107187701 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATTTCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
107187745 AGAGCACACT
Statistics
Matches: 211, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 4 0.02
46 207 0.98
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:107187719 original size:138 final size:138
Alignment explanation
Indices: 107187471--107187744 Score: 496
Period size: 138 Copynumber: 2.0 Consensus size: 138
107187461 TTTGACATGA
* * *
107187471 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATAGTGTCTTTCAACCATGGTCTTACACATTTTCTGTCAGGTTGCCATGGTATCTTTCAAC
107187536 CATGGTCTTACACATTTCATATCAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCA
66 CATGGTCTTACACATTTCATATCAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCA
107187601 TATCAGGT
131 TATCAGGT
107187609 TGCCATAGTGTCTTTCAACCATGGTCTTACACA-TTTCATGTCAGGTTGCCATGGTATCTTTCAA
1 TGCCATAGTGTCTTTCAACCATGGTCTTACACATTTTC-TGTCAGGTTGCCATGGTATCTTTCAA
107187673 CCATGGTCTTACACATTTCATATCAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTC
65 CCATGGTCTTACACATTTCATATCAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTC
*
107187738 ATTTCAG
130 ATATCAG
107187745 AGAGCACACT
Statistics
Matches: 131, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
137 4 0.03
138 127 0.97
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.38
Consensus pattern (138 bp):
TGCCATAGTGTCTTTCAACCATGGTCTTACACATTTTCTGTCAGGTTGCCATGGTATCTTTCAAC
CATGGTCTTACACATTTCATATCAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCA
TATCAGGT
Found at i:107190180 original size:30 final size:29
Alignment explanation
Indices: 107190144--107190211 Score: 91
Period size: 30 Copynumber: 2.3 Consensus size: 29
107190134 CACCCTTAAA
* *
107190144 ATATTTACACTATTAGTCCTTCAATTTTTC
1 ATATTTACACT-TTAATCCTTCAAATTTTC
*
107190174 ATATTTACACTTTAATCCTTCAAATTTTG
1 ATATTTACACTTTAATCCTTCAAATTTTC
107190203 AGTATTTAC
1 A-TATTTAC
107190212 TCTTGGGCCA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 16 0.47
30 18 0.53
ACGTcount: A:0.29, C:0.18, G:0.04, T:0.49
Consensus pattern (29 bp):
ATATTTACACTTTAATCCTTCAAATTTTC
Found at i:107191584 original size:29 final size:32
Alignment explanation
Indices: 107191543--107191608 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 32
107191533 AATACTCTAT
*
107191543 ATTTTTATAA-TTTTAA-AGGATCAAATTA-A
1 ATTTTTATAATTTTTAAGAGGATCAAAGTATA
* *
107191572 ATTTTTATCATTTTTAAGAGGGTCAAAGTATA
1 ATTTTTATAATTTTTAAGAGGATCAAAGTATA
107191604 ATTTT
1 ATTTT
107191609 ACTTTTACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 9 0.29
30 6 0.19
31 10 0.32
32 6 0.19
ACGTcount: A:0.38, C:0.05, G:0.11, T:0.47
Consensus pattern (32 bp):
ATTTTTATAATTTTTAAGAGGATCAAAGTATA
Found at i:107192804 original size:20 final size:20
Alignment explanation
Indices: 107192763--107192805 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
107192753 TTACCCTAAA
* *
107192763 CCCCCAAACTTTTTTACTTT
1 CCCCCAAACTTTATTACCTT
107192783 CCCCCAATACTTTATT-CCTT
1 CCCCCAA-ACTTTATTACCTT
107192803 CCC
1 CCC
107192806 ACTTTTCCCC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.19, C:0.42, G:0.00, T:0.40
Consensus pattern (20 bp):
CCCCCAAACTTTATTACCTT
Found at i:107192819 original size:258 final size:258
Alignment explanation
Indices: 107192359--107192874 Score: 960
Period size: 258 Copynumber: 2.0 Consensus size: 258
107192349 AATAAAGGTG
*
107192359 AGCAAAACTCTATTCAACTCAAAAAAATTCAAAAAAATTGAATTTCGAGTTAAATGAATCAAGTT
1 AGCAAAACTCGATTCAACTCAAAAAAATTCAAAAAAATTGAATTTCGAGTTAAATGAATCAAGTT
* *
107192424 TGAATTGAGTTTAATTTTTGAATTTGAATAACTCAAATAAACTGAATACCAAATTATAATATTTT
66 CGAATTGAGTTTAATTTTTGAATTTGAATAACTCAAATAAACTGAATACCAAACTATAATATTTT
107192489 ACATTTTTACCCGAAACCCCCAAACTTTTTTAATTTCCCCCAATACTTTATTCCTTCCCACTTTT
131 ACATTTTTACCCGAAACCCCCAAACTTTTTTAATTTCCCCCAATACTTTATTCCTTCCCACTTTT
*
107192554 TCCCCCAAAACTTTTACTCCCCTATCATCTCACCCCACATCTACTTCAAACCTAGTTCCCTCC
196 CCCCCCAAAACTTTTACTCCCCTATCATCTCACCCCACATCTACTTCAAACCTAGTTCCCTCC
107192617 AGCAAAACTCGATTCAACTCAAAAAAATTCAAAAAAATTGAATTTCGAGTTAAATGAATCAAGTT
1 AGCAAAACTCGATTCAACTCAAAAAAATTCAAAAAAATTGAATTTCGAGTTAAATGAATCAAGTT
107192682 CGAATTGAGTTTAATTTTTGAATTTGAATAACTCAAATAAACTGAATACCAAACTATAATATTTT
66 CGAATTGAGTTTAATTTTTGAATTTGAATAACTCAAATAAACTGAATACCAAACTATAATATTTT
* *
107192747 ACATTTTTACCCTAAACCCCCAAACTTTTTTACTTTCCCCCAATACTTTATTCCTTCCCACTTTT
131 ACATTTTTACCCGAAACCCCCAAACTTTTTTAATTTCCCCCAATACTTTATTCCTTCCCACTTTT
* *
107192812 CCCCCCAAAACTTTTACTCCCCTCTCATCTCACCCCACATCTATTTCAAACCTAGTTCCCTCC
196 CCCCCCAAAACTTTTACTCCCCTATCATCTCACCCCACATCTACTTCAAACCTAGTTCCCTCC
107192875 CCCCTAAAAA
Statistics
Matches: 250, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
258 250 1.00
ACGTcount: A:0.34, C:0.26, G:0.05, T:0.34
Consensus pattern (258 bp):
AGCAAAACTCGATTCAACTCAAAAAAATTCAAAAAAATTGAATTTCGAGTTAAATGAATCAAGTT
CGAATTGAGTTTAATTTTTGAATTTGAATAACTCAAATAAACTGAATACCAAACTATAATATTTT
ACATTTTTACCCGAAACCCCCAAACTTTTTTAATTTCCCCCAATACTTTATTCCTTCCCACTTTT
CCCCCCAAAACTTTTACTCCCCTATCATCTCACCCCACATCTACTTCAAACCTAGTTCCCTCC
Found at i:107192963 original size:20 final size:20
Alignment explanation
Indices: 107192930--107192969 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
107192920 TTCCCCTCAA
*
107192930 AAACTTTTTATTTTCCCCCT
1 AAACTTTTTATTTTCACCCT
107192950 AAAC-TTTTACTTTTCACCCT
1 AAACTTTTTA-TTTTCACCCT
107192970 TTCCCCCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.23, C:0.30, G:0.00, T:0.47
Consensus pattern (20 bp):
AAACTTTTTATTTTCACCCT
Found at i:107193265 original size:18 final size:18
Alignment explanation
Indices: 107193228--107193265 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
107193218 TAAAAATCAC
*
107193228 ATTTTTTATATTTAATAT
1 ATTTTTTATATTTAAAAT
107193246 ATTTTTTA-ATTTCAAAAT
1 ATTTTTTATATTT-AAAAT
107193264 AT
1 AT
107193266 ATAGTGACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (18 bp):
ATTTTTTATATTTAAAAT
Found at i:107201298 original size:13 final size:14
Alignment explanation
Indices: 107201274--107201300 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
107201264 TAGTTCTTCA
107201274 TTTAATTTTTTTTT
1 TTTAATTTTTTTTT
107201288 TTTAATTTTTTTT
1 TTTAATTTTTTTT
107201301 GTCAAATCAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (14 bp):
TTTAATTTTTTTTT
Found at i:107201409 original size:9 final size:9
Alignment explanation
Indices: 107201397--107201436 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
107201387 ATTATTTTTT
107201397 AAAAATTT-
1 AAAAATTTA
107201405 AAAAATTTA
1 AAAAATTTA
*
107201414 AAAATTTTA
1 AAAAATTTA
107201423 AAAAATTATA
1 AAAAATT-TA
107201433 AAAA
1 AAAA
107201437 TGATTATGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
8 8 0.29
9 14 0.50
10 6 0.21
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (9 bp):
AAAAATTTA
Found at i:107201437 original size:9 final size:8
Alignment explanation
Indices: 107201394--107201437 Score: 61
Period size: 8 Copynumber: 5.1 Consensus size: 8
107201384 TTTATTATTT
107201394 TTTAAAAA
1 TTTAAAAA
107201402 TTTAAAAA
1 TTTAAAAA
107201410 TTTAAAAA
1 TTTAAAAA
107201418 TTTTAAAAAA
1 -TTT-AAAAA
107201428 TTATAAAAA
1 TT-TAAAAA
107201437 T
1 T
107201438 GATTATGAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
8 16 0.48
9 11 0.33
10 6 0.18
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (8 bp):
TTTAAAAA
Found at i:107202548 original size:23 final size:23
Alignment explanation
Indices: 107202522--107202589 Score: 75
Period size: 23 Copynumber: 2.9 Consensus size: 23
107202512 CCATCTGTAT
*
107202522 TATTTTATTATTTTAA-ATATTTA
1 TATTTTATTATTTTAATATA-TAA
*
107202545 TATTATATTATTTTAATATATAA
1 TATTTTATTATTTTAATATATAA
*
107202568 TAATTTTATATATTTTTATATA
1 T-ATTTTAT-TATTTTAATATA
107202590 ATCATCTTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.47
24 9 0.24
25 11 0.29
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (23 bp):
TATTTTATTATTTTAATATATAA
Found at i:107202576 original size:26 final size:26
Alignment explanation
Indices: 107202527--107202611 Score: 74
Period size: 23 Copynumber: 3.5 Consensus size: 26
107202517 TGTATTATTT
* *
107202527 TATTATTTTAA-ATAT--TTATATTA
1 TATTATTTTAATATATAATAATTTTA
107202550 TATTATTTTAATATATAATAATTTTA
1 TATTATTTTAATATATAATAATTTTA
* *
107202576 TA-TATTTT--TATATAATCATCTTAA
1 TATTATTTTAATATATAATAAT-TTTA
*
107202600 CATTATTTTAAT
1 TATTATTTTAAT
107202612 GTTTACATTA
Statistics
Matches: 50, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
23 21 0.42
24 8 0.16
25 12 0.24
26 8 0.16
27 1 0.02
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.58
Consensus pattern (26 bp):
TATTATTTTAATATATAATAATTTTA
Found at i:107202576 original size:31 final size:31
Alignment explanation
Indices: 107202519--107202578 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
107202509 GGCCCATCTG
* * *
107202519 TATTATTTTATTATTTTAAATATTTATATTA
1 TATTATTTTAATATATAAAATATTTATATTA
107202550 TATTATTTTAATATATAATAAT-TTTATAT
1 TATTATTTTAATATATAA-AATATTTATAT
107202579 ATTTTTATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 22 0.88
32 3 0.12
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (31 bp):
TATTATTTTAATATATAAAATATTTATATTA
Found at i:107203272 original size:25 final size:24
Alignment explanation
Indices: 107203242--107203289 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
107203232 GTGTCAAATT
**
107203242 AAATTTTAGATATTTATTTTTATTA
1 AAATTTTA-ATAAATATTTTTATTA
107203267 AAATTTTAATAAATATTTTTATT
1 AAATTTTAATAAATATTTTTATT
107203290 TGTTTTTGCC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 13 0.62
25 8 0.38
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (24 bp):
AAATTTTAATAAATATTTTTATTA
Found at i:107203500 original size:16 final size:16
Alignment explanation
Indices: 107203481--107203531 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 16
107203471 TATTGTCGGC
107203481 TTTATTTTTAAATTTT
1 TTTATTTTTAAATTTT
107203497 TTTA-TTTTAAGATATTT
1 TTTATTTTTAA-AT-TTT
107203514 TTCTAACTTTTTAAATTT
1 TT-T-A-TTTTTAAATTT
107203532 AAATATTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
15 6 0.21
16 6 0.21
17 5 0.17
18 1 0.03
19 3 0.10
20 2 0.07
21 6 0.21
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (16 bp):
TTTATTTTTAAATTTT
Found at i:107204452 original size:26 final size:28
Alignment explanation
Indices: 107204423--107204482 Score: 72
Period size: 26 Copynumber: 2.2 Consensus size: 28
107204413 TAAGATGATT
107204423 ATATAAAAAAAT-TT-AATAAATAAAA-A
1 ATATAAAAAAATATTAAAT-AATAAAATA
* *
107204449 ATATATAAAAATATTAAATATTAAAATA
1 ATATAAAAAAATATTAAATAATAAAATA
107204477 ATATAA
1 ATATAA
107204483 TATAATTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
26 11 0.39
27 8 0.29
28 9 0.32
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (28 bp):
ATATAAAAAAATATTAAATAATAAAATA
Found at i:107204458 original size:28 final size:28
Alignment explanation
Indices: 107204422--107204481 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
107204412 TTAAGATGAT
*
107204422 TATATAAAAAAATTTAATAAATAAAA-AA
1 TATATAAAAAAATTAAAT-AATAAAATAA
* *
107204450 TATATAAAAATATTAAATATTAAAATAA
1 TATATAAAAAAATTAAATAATAAAATAA
107204478 TATA
1 TATA
107204482 ATATAATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 6 0.21
28 22 0.79
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (28 bp):
TATATAAAAAAATTAAATAATAAAATAA
Found at i:107204460 original size:17 final size:16
Alignment explanation
Indices: 107204428--107204474 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
107204418 TGATTATATA
107204428 AAAAAAT-TTAATAAAT
1 AAAAAATATTAA-AAAT
107204444 AAAAAATATATAAAAAT
1 AAAAAATAT-TAAAAAT
**
107204461 ATTAAATATTAAAA
1 AAAAAATATTAAAA
107204475 TAATATAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 12 0.44
17 12 0.44
18 3 0.11
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
AAAAAATATTAAAAAT
Found at i:107204469 original size:15 final size:16
Alignment explanation
Indices: 107204423--107204487 Score: 52
Period size: 15 Copynumber: 4.4 Consensus size: 16
107204413 TAAGATGATT
*
107204423 ATATAAAAA-AATTTA
1 ATATAAAAATAATATA
107204438 ATA-AATAAA-AA-AT-
1 ATATAA-AAATAATATA
*
107204451 ATATAAAAATATTA-A
1 ATATAAAAATAATATA
*
107204466 ATATTAAAATAATATA
1 ATATAAAAATAATATA
107204482 ATATAA
1 ATATAA
107204488 TTTTTAAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
13 6 0.15
14 6 0.15
15 21 0.54
16 6 0.15
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
ATATAAAAATAATATA
Found at i:107205723 original size:107 final size:107
Alignment explanation
Indices: 107205553--107205875 Score: 610
Period size: 107 Copynumber: 3.0 Consensus size: 107
107205543 AAAAAACACG
107205553 TCAAAAATTTTATCAGAGTAATTAACAAAAATTTTAATACAATTTTGTTAGAAATTTTATTATTT
1 TCAAAAATTTTAT-AGAGTAATTAACAAAAATTTTAATACAATTTTGTTAGAAATTTTATTATTT
107205618 AAAACTTATTCCAACTTAACATATCATTGTTTTGTTAAACTAA
65 AAAACTTATTCCAACTTAACATATCATTGTTTTGTTAAACTAA
107205661 TCAAAAATTTTATAGAGTAATTAACAAAAATTTTAATACAATTTTGTTAGAAATTTTATTATTTA
1 TCAAAAATTTTATAGAGTAATTAACAAAAATTTTAATACAATTTTGTTAGAAATTTTATTATTTA
107205726 AAACTTATTCCAACTTAACATATCATTGTTTTGTTAAACTAA
66 AAACTTATTCCAACTTAACATATCATTGTTTTGTTAAACTAA
*
107205768 TCAAAAATTTTATAGAGTAATTAACAAAAATTTTAATACAAGTTTGTTAGAAATTTTATTATTTA
1 TCAAAAATTTTATAGAGTAATTAACAAAAATTTTAATACAATTTTGTTAGAAATTTTATTATTTA
* *
107205833 AAACTTATTCTAACTTAACATATCATTATTTTGTTAAACTAA
66 AAACTTATTCCAACTTAACATATCATTGTTTTGTTAAACTAA
107205875 T
1 T
107205876 TTTTTTTTAA
Statistics
Matches: 212, Mismatches: 3, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
107 199 0.94
108 13 0.06
ACGTcount: A:0.42, C:0.09, G:0.06, T:0.43
Consensus pattern (107 bp):
TCAAAAATTTTATAGAGTAATTAACAAAAATTTTAATACAATTTTGTTAGAAATTTTATTATTTA
AAACTTATTCCAACTTAACATATCATTGTTTTGTTAAACTAA
Found at i:107211295 original size:22 final size:22
Alignment explanation
Indices: 107211270--107211319 Score: 68
Period size: 24 Copynumber: 2.3 Consensus size: 22
107211260 CTAAAAAGGA
107211270 TTAA-ATTTAATTGTTAATATTT
1 TTAAGATTTAATTGTTAAT-TTT
107211292 TTAAGGATTTAATTGTTAA-TTT
1 TTAA-GATTTAATTGTTAATTTT
107211314 TTAAGA
1 TTAAGA
107211320 GAAATTAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
21 2 0.08
22 11 0.42
24 13 0.50
ACGTcount: A:0.36, C:0.00, G:0.10, T:0.54
Consensus pattern (22 bp):
TTAAGATTTAATTGTTAATTTT
Found at i:107211502 original size:20 final size:21
Alignment explanation
Indices: 107211477--107211529 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
107211467 TATTTTTATT
* *
107211477 TAATTTATAATAAATT-TTTA
1 TAATTTAAAATAAATATTTTA
107211497 TAATTTAAAAATAAATATTTTA
1 TAATTT-AAAATAAATATTTTA
107211519 T-ATTTAAAATA
1 TAATTTAAAATA
107211530 GTGAAAAGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 12 0.41
21 12 0.41
22 5 0.17
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TAATTTAAAATAAATATTTTA
Found at i:107211509 original size:21 final size:21
Alignment explanation
Indices: 107211468--107211527 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 21
107211458 ACTGGTTTAT
*
107211468 ATTTTTATTTAATTT-ATAATAA
1 ATTTTTA--TAATTTAAAAATAA
107211490 ATTTTTATAATTTAAAAATAA
1 ATTTTTATAATTTAAAAATAA
107211511 ATATTTTAT-ATTTAAAA
1 AT-TTTTATAATTTAAAA
107211528 TAGTGAAAAG
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
20 6 0.17
21 16 0.46
22 13 0.37
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
ATTTTTATAATTTAAAAATAA
Found at i:107212180 original size:17 final size:18
Alignment explanation
Indices: 107212160--107212199 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
107212150 ATCCTTCACT
*
107212160 CTTTTTTTTTTGTTTT-A
1 CTTTTTTTTTAGTTTTAA
*
107212177 CTTTATTTTTAGTTTTAA
1 CTTTTTTTTTAGTTTTAA
107212195 CTTTT
1 CTTTT
107212200 AAAAGTTATG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.12, C:0.07, G:0.05, T:0.75
Consensus pattern (18 bp):
CTTTTTTTTTAGTTTTAA
Found at i:107213055 original size:60 final size:60
Alignment explanation
Indices: 107212983--107213143 Score: 259
Period size: 60 Copynumber: 2.7 Consensus size: 60
107212973 AAAAATTATT
* * * *
107212983 CTCAATGTTTATAAAATTGATCATTTTAGTTCGAATTCTAAAAATTTAATAAATTTAACC
1 CTCAATATTTATAAAATTTATCAATTTAGTTCGAATTCTAAAAATTTAATAAATTAAACC
* *
107213043 CTCAATATTTATAAAATTTATCAATTTAGTTCGAATTCTAAAGATTTAATAAATTAAACT
1 CTCAATATTTATAAAATTTATCAATTTAGTTCGAATTCTAAAAATTTAATAAATTAAACC
*
107213103 CTCAATATTTATAAAATTTATCAATTTAGTTCTAATTCTAA
1 CTCAATATTTATAAAATTTATCAATTTAGTTCGAATTCTAA
107213144 GTTGACATCC
Statistics
Matches: 94, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 94 1.00
ACGTcount: A:0.41, C:0.11, G:0.05, T:0.43
Consensus pattern (60 bp):
CTCAATATTTATAAAATTTATCAATTTAGTTCGAATTCTAAAAATTTAATAAATTAAACC
Found at i:107213809 original size:18 final size:17
Alignment explanation
Indices: 107213786--107213836 Score: 63
Period size: 16 Copynumber: 3.1 Consensus size: 17
107213776 TTCTTGAAAT
*
107213786 TTATAAAAAATTTTAAA
1 TTATAAAAAATTATAAA
107213803 TTA-ATAAAAA-TATAAA
1 TTATA-AAAAATTATAAA
107213819 TTATAAAAAATTA-AAA
1 TTATAAAAAATTATAAA
107213835 TT
1 TT
107213837 TCATCCGTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
16 19 0.63
17 11 0.37
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
TTATAAAAAATTATAAA
Found at i:107220663 original size:2 final size:2
Alignment explanation
Indices: 107220656--107220686 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
107220646 GTAACATAGA
107220656 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
107220687 AATGATGTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:107224712 original size:23 final size:24
Alignment explanation
Indices: 107224669--107224718 Score: 59
Period size: 23 Copynumber: 2.1 Consensus size: 24
107224659 TAAGATGAGT
*
107224669 ATATATAAATTTTAATAAAAAA-A
1 ATATATAAATTTAAATAAAAAAGA
*
107224692 ATAT-TAAATATTAAATTAAAAAGA
1 ATATATAAAT-TTAAATAAAAAAGA
107224716 ATA
1 ATA
107224719 AAAATATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 5 0.22
23 14 0.61
24 4 0.17
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (24 bp):
ATATATAAATTTAAATAAAAAAGA
Found at i:107225853 original size:19 final size:18
Alignment explanation
Indices: 107225822--107225864 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
107225812 CTATATTTTC
*
107225822 ATAAAATAAATTTACTTA
1 ATAAAATAAATTTAATTA
*
107225840 CTAAAATGAAATTTAATTA
1 ATAAAAT-AAATTTAATTA
107225859 ATAAAA
1 ATAAAA
107225865 ATATCAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (18 bp):
ATAAAATAAATTTAATTA
Found at i:107229372 original size:22 final size:22
Alignment explanation
Indices: 107229344--107229411 Score: 73
Period size: 22 Copynumber: 3.1 Consensus size: 22
107229334 CCTAAAAATT
* *
107229344 TTTTGCTGCTATTTTGTTGTTG
1 TTTTGCTACTATTTTGTTGTTA
* * *
107229366 TTTTGCTATTATTTTGCTATTA
1 TTTTGCTACTATTTTGTTGTTA
* *
107229388 TATTGCTACTATTTTATTGTTA
1 TTTTGCTACTATTTTGTTGTTA
107229410 TT
1 TT
107229412 GTTTAAATAT
Statistics
Matches: 35, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.15, C:0.09, G:0.13, T:0.63
Consensus pattern (22 bp):
TTTTGCTACTATTTTGTTGTTA
Found at i:107229380 original size:11 final size:11
Alignment explanation
Indices: 107229366--107229402 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
107229356 TTTGTTGTTG
107229366 TTTTGCTATTA
1 TTTTGCTATTA
107229377 TTTTGCTATTA
1 TTTTGCTATTA
* *
107229388 TATTGCTACTA
1 TTTTGCTATTA
107229399 TTTT
1 TTTT
107229403 ATTGTTATTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.19, C:0.11, G:0.08, T:0.62
Consensus pattern (11 bp):
TTTTGCTATTA
Found at i:107231630 original size:17 final size:17
Alignment explanation
Indices: 107231589--107231631 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
107231579 GGTGTAACTA
*
107231589 GGCCGTGAGGGCCACTC
1 GGCCGTGTGGGCCACTC
107231606 GGCCGTGTGGGCCACTC
1 GGCCGTGTGGGCCACTC
107231623 GGCCGTGTG
1 GGCCGTGTG
107231632 AACGACTGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.07, C:0.33, G:0.44, T:0.16
Consensus pattern (17 bp):
GGCCGTGTGGGCCACTC
Found at i:107231807 original size:63 final size:62
Alignment explanation
Indices: 107231728--107231934 Score: 213
Period size: 63 Copynumber: 3.3 Consensus size: 62
107231718 CACTGCCAGG
* * * *
107231728 GACACGGGCGTGTGCCCAAGCCGTGTAACTCACTGTTTGTAGTATAAAAACCACATGGCTAG
1 GACACGGGCGTGTGCCCAGGCCGTGTAACTCATTGTTTGTAGTATAAAAACCACATGGCAAA
* * * *
107231790 GTATACGGGCGTGTGCCCAGGCTGTGTAACTCATTGTTTG-AGGTATAAAAACCACACAGCCAAA
1 G-ACACGGGCGTGTGCCCAGGCCGTGTAACTCATTGTTTGTA-GTATAAAAACCACA-TGGCAAA
* * * *
107231854 GACACAGGCGTGTGCCTAGGCCGTGTATCTCATTGTTTGT-GCT-TAAAAACCACATGGCCAAG
1 GACACGGGCGTGTGCCCAGGCCGTGTAACTCATTGTTTGTAG-TATAAAAACCACATGG-CAAA
* *
107231916 GCACATGGGCTTGTGCCCA
1 G-ACACGGGCGTGTGCCCA
107231935 AGCTGTGTTG
Statistics
Matches: 118, Mismatches: 20, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
61 1 0.01
62 18 0.15
63 95 0.81
64 4 0.03
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (62 bp):
GACACGGGCGTGTGCCCAGGCCGTGTAACTCATTGTTTGTAGTATAAAAACCACATGGCAAA
Found at i:107234220 original size:2 final size:2
Alignment explanation
Indices: 107234213--107234243 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
107234203 GAGATTACAA
107234213 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
107234244 ATAAGATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:107236033 original size:132 final size:130
Alignment explanation
Indices: 107235853--107236237 Score: 458
Period size: 132 Copynumber: 2.9 Consensus size: 130
107235843 AAAGTATGAG
* * *
107235853 TGAAGTTCTAAA-GGAATCTTCGATCATTTTG-GACAAAC-AGAAAATTGCAACCCAGCACATTA
1 TGAAATTCTAAAGGGAAT-TT-GATTATTTTGAG-CAAACGAG-AAATTGCAACCCAGCACGTTA
* * * *
107235915 GGGTACGATTACCCGAATTGCCAAACT-TCGAATATTACCTTCGTTTTGAAGAGTTTTTAGAAAA
62 GGGTACGATT-CCCGAATTGTCAAA-TATCGAACATCACCTTCGTTTTAAAGAGTTTTTAGAAAA
107235979 CATAAA
125 CATAAA
107235985 TGAAATTCTAAAGGGACATTTGATTATTTTGAGCAAACGAGAAATTGCAACCCAGCACGTTAGGG
1 TGAAATTCTAAAGGGA-ATTTGATTATTTTGAGCAAACGAGAAATTGCAACCCAGCACGTTAGGG
* * * * *
107236050 TACGATTCCGCGAATTATCAAATATCGAACATCGCCCTCGTTTTAAAG-GATTTTTAGGAGACAT
65 TACGATTCC-CGAATTGTCAAATATCGAACATCACCTTCGTTTTAAAGAG-TTTTTAGAAAACAT
*
107236114 GAA
128 AAA
* *
107236117 TGAAATTTTGAA-GGAATATTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAGCACGTTAGG
1 TGAAATTCTAAAGGGAAT-TT-GATTATTTTGAGCAAACGAGAAATTGCAACCCAGCACGTTAGG
* * *
107236181 GCACGATTTCGCGAATTGTCAAATATCGAACATCACCTTCGTTTTAAAGAATTTTTA
64 GTACGA-TTCCCGAATTGTCAAATATCGAACATCACCTTCGTTTTAAAGAGTTTTTA
107236238 AACGAATAAT
Statistics
Matches: 221, Mismatches: 21, Indels: 22
0.84 0.08 0.08
Matches are distributed among these distances:
130 2 0.01
131 9 0.04
132 197 0.89
133 11 0.05
134 2 0.01
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.29
Consensus pattern (130 bp):
TGAAATTCTAAAGGGAATTTGATTATTTTGAGCAAACGAGAAATTGCAACCCAGCACGTTAGGGT
ACGATTCCCGAATTGTCAAATATCGAACATCACCTTCGTTTTAAAGAGTTTTTAGAAAACATAAA
Found at i:107241279 original size:13 final size:13
Alignment explanation
Indices: 107241261--107241285 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
107241251 ATTTGTGAAA
107241261 AAATAAAATAAAT
1 AAATAAAATAAAT
107241274 AAATAAAATAAA
1 AAATAAAATAAA
107241286 GAACACACAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (13 bp):
AAATAAAATAAAT
Found at i:107242074 original size:2 final size:2
Alignment explanation
Indices: 107242067--107242101 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
107242057 GAGATTACAA
107242067 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
107242102 AAATAAGATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:107249021 original size:90 final size:90
Alignment explanation
Indices: 107248860--107249023 Score: 208
Period size: 90 Copynumber: 1.8 Consensus size: 90
107248850 AGGATTGTGA
* * **
107248860 CTTCGATCTGTTCCACTACAACTTCAGGAAGACAAGATCTTGCAATCTTCGGCCTGTTGCCCTAC
1 CTTCGATCTGTTCCACTACAACTTCAGGAAGAAAAGATCTTGCAATCTTCAGCCTACTGCCCTAC
*
107248925 TATTTAGGGGGTTAAGGCTTGTTCT
66 AATTTAGGGGGTTAAGGCTTGTTCT
** *
107248950 CTTCGATCT-TCTCCACTGGAACTTCAGGGAGAAAAGATC-TGCAATCTTCAGCCTACT-CCACT
1 CTTCGATCTGT-TCCACTACAACTTCAGGAAGAAAAGATCTTGCAATCTTCAGCCTACTGCC-CT
107249012 ACAACTTTAGGG
64 ACAA-TTTAGGG
107249024 AGATAGGGTG
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
88 2 0.03
89 21 0.33
90 40 0.63
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (90 bp):
CTTCGATCTGTTCCACTACAACTTCAGGAAGAAAAGATCTTGCAATCTTCAGCCTACTGCCCTAC
AATTTAGGGGGTTAAGGCTTGTTCT
Found at i:107249187 original size:133 final size:132
Alignment explanation
Indices: 107248949--107249255 Score: 407
Period size: 133 Copynumber: 2.3 Consensus size: 132
107248939 AGGCTTGTTC
* * * *
107248949 TCTTCGATCTTCTCCACTGGAACTTCAGGGAGAAAAGATCTGCAATCTTCAGCCTACTCCACTAC
1 TCTTCGATCTGCTCTACTGCAACTTCAGGGA-AAAAGATCTACAATCTTCAGCCTACTCCACTAC
* * * * *
107249014 AACTTTAGGGAGATAGGGTGTTGGCTTAAATTTGCTTCACTGCAACTTCAGGAAGACATGATTCG
65 AACTTTAGGAAGATAGGATGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGACACGATTCG
107249079 CCA
130 CCA
* *
107249082 TCTTCGATCTGCTCTATTGTAACTTCAGGGAAATAAGATCTACAATCTTCAGCCTACTCCACTAC
1 TCTTCGATCTGCTCTACTGCAACTTCAGGGAAA-AAGATCTACAATCTTCAGCCTACTCCACTAC
* * *
107249147 AACTTTAGGAAGCTAGGATGGTGGTTTAAATCTGCTTCACTGCAACTTTAGGAAGACACGATTCG
65 AACTTTAGGAAGATAGGATGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGACACGATTCG
* *
107249212 TCG
130 CCA
* * * *
107249215 TCGTCGATCCGCTCTACCGCAACTTCAGGGAGACAAGATCT
1 TCTTCGATCTGCTCTACTGCAACTTCAGGGA-AAAAGATCT
107249256 GTAGAATTCA
Statistics
Matches: 151, Mismatches: 21, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
132 2 0.01
133 148 0.98
134 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (132 bp):
TCTTCGATCTGCTCTACTGCAACTTCAGGGAAAAAGATCTACAATCTTCAGCCTACTCCACTACA
ACTTTAGGAAGATAGGATGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGACACGATTCGC
CA
Found at i:107261047 original size:131 final size:132
Alignment explanation
Indices: 107260852--107261232 Score: 400
Period size: 132 Copynumber: 2.9 Consensus size: 132
107260842 AAAGTATGAG
* * *
107260852 TGAAATTCTAAAGGAATC-TTCGATCATTTTG-GACAAAC-AGAAAATTGCAACCCAGCACATTA
1 TGAAATTATAAAGGAA-CATTCGATTATTTTGAG-CAAACGAG-AAATTGCAACCCAGCACGTTA
* * * * * *
107260914 GGGTACGATTACC-CGAATT-TCCAAACT-TCGAATATTACCTTTATTTTGAA-GAGTTTAAAGA
63 GGGCACGATT-CCGCGAATTGT-CAAA-TATCGAACATCACCCTCATTTTAAAGGA-TTTAAAGA
*
107260975 AAACGTAAA
124 AAACATAAA
* *
107260984 TGAAATTATAAAGGGACATTCGATTA-TTTGAGCAAACGAGAAATTGCAACCCAACACGTTAGGG
1 TGAAATTATAAAGGAACATTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAGCACGTTAGGG
* * ** * * *
107261048 CACGATTCCGCGAATTGTCAAATATCGAACATCGCCCTCGTTTTAAAGGATTTTTAGGAGACATG
66 CACGATTCCGCGAATTGTCAAATATCGAACATCACCCTCATTTTAAAGGATTTAAAGAAAACATA
*
107261113 AG
131 AA
* * * *
107261115 TGAAATTTTGAAGGAATATTCGATTATTTTGAGCAAACGAGAAATTGTAACCCAGCACGTTAGGG
1 TGAAATTATAAAGGAACATTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAGCACGTTAGGG
* * *
107261180 CACGATTCCGCGAATTGTCAAATATCGAACATCACCTTCGTTTTAAAGAATTT
66 CACGATTCCGCGAATTGTCAAATATCGAACATCACCCTCATTTTAAAGGATTT
107261233 TTAAACGAAT
Statistics
Matches: 212, Mismatches: 29, Indels: 16
0.82 0.11 0.06
Matches are distributed among these distances:
130 3 0.01
131 96 0.45
132 113 0.53
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (132 bp):
TGAAATTATAAAGGAACATTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAGCACGTTAGGG
CACGATTCCGCGAATTGTCAAATATCGAACATCACCCTCATTTTAAAGGATTTAAAGAAAACATA
AA
Found at i:107262338 original size:2 final size:2
Alignment explanation
Indices: 107262331--107262365 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
107262321 GAGATTACAA
107262331 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
107262366 ACTTTAGAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:107263935 original size:22 final size:22
Alignment explanation
Indices: 107263910--107263953 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
107263900 GGGCTGTAGG
107263910 GTATTAGTTATGTAGTTGGGTT
1 GTATTAGTTATGTAGTTGGGTT
107263932 GTATTAGTTATGTAGTTGGGTT
1 GTATTAGTTATGTAGTTGGGTT
107263954 ATGTAATTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.18, C:0.00, G:0.32, T:0.50
Consensus pattern (22 bp):
GTATTAGTTATGTAGTTGGGTT
Found at i:107269142 original size:21 final size:21
Alignment explanation
Indices: 107269116--107269156 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
107269106 AGACAAGCGA
* *
107269116 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
107269137 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
107269157 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:107275577 original size:362 final size:363
Alignment explanation
Indices: 107274892--107275615 Score: 1270
Period size: 362 Copynumber: 2.0 Consensus size: 363
107274882 TCAAATCTTA
* * *
107274892 CTCTTAAAAATTGTTGCTATTTTTGTTCCTATCTTTATCTTTAATCATTTGACTTAAATTGTATT
1 CTCTTAAAAATTGTTGCTATTTTTGTTCCTATCTTTATCTTTAAGCATTTGACATAAATTCTATT
107274957 TCCCTCAATTTGTAATAGAATGAGCTTGTTGATTTAGTGGTAAAGTGTTAGCTTGCTCTTTGGTC
66 TCCCTCAATTTGTAATAGAATGAGCTTGTTGATTTAGTGGTAAAGTGTTAGCTTGCTCTTTGGTC
* * *
107275022 TTGTGTTTGAATCACTGCTTGAGCAAAATGAGATTATTTTTGCTATTTTTCATGTTTGTGCGTCC
131 TTATGTTTGAATCACTGCTTGAGCAAAATGAGATTATTTTTGCTATTTCTCATGTTTGTGAGTCC
* **
107275087 AAGTGTCAGATATTGAATTTAATTCAAATATTAGATTAAGCTGTTAAGTGGTGGTTAGAAGACTA
196 AAGTGTCAGATATTGAATTTAATTCAAATATTAGATTAAGCTATTAAGTGACGGTTAGAAGACTA
*
107275152 TTTTGGTTAGGATTTAGTTATTTCTTAGAAAAAAAATTTGAAAATTGATTGATTGAAAATAAAAA
261 GTTTGGTTAGGATTTAGTTATTTCTTAGAAAAAAAATTTGAAAATTGATTGATTGAAAATAAAAA
*
107275217 GATTTTTAATCCCCACTTTTCTCTCCGACACTATTTCT
326 GATTTTTAATCCCCACTTTTCTCTCCAACACTATTTCT
* *
107275255 CTCTTAGAAATTGTTGTTA-TTTTGTTCCTATCTTTATCTTTAAGCATTTGACATAAATTCTATT
1 CTCTTAAAAATTGTTGCTATTTTTGTTCCTATCTTTATCTTTAAGCATTTGACATAAATTCTATT
* * *
107275319 TCCCTCAATTTGTAATAGAATGAGCTTGTTGGTTTAGTGTTAAGGTGTTAGCTTGCTCTTTGGTC
66 TCCCTCAATTTGTAATAGAATGAGCTTGTTGATTTAGTGGTAAAGTGTTAGCTTGCTCTTTGGTC
*
107275384 TTATGTTTGAATCACTGCTTGAGCAAAATGAGATTATTTTTGCTGTTTCTCATGTTTGTGAGTCC
131 TTATGTTTGAATCACTGCTTGAGCAAAATGAGATTATTTTTGCTATTTCTCATGTTTGTGAGTCC
*
107275449 AAGTGTCAGATATTGAATTTAATTCAAATATTGGATTAAGCTATTAAGTGACGGTTAGAAGACTA
196 AAGTGTCAGATATTGAATTTAATTCAAATATTAGATTAAGCTATTAAGTGACGGTTAGAAGACTA
107275514 GTTTGGTTAGGATTTAGTTATTTCTTAGAAAAAAAATTTGAAAATTGATTGATTGAAAATAAAAA
261 GTTTGGTTAGGATTTAGTTATTTCTTAGAAAAAAAATTTGAAAATTGATTGATTGAAAATAAAAA
*
107275579 GTTTTTTAATCCCCACTTTTCTCTCCAACACTATTTC
326 GATTTTTAATCCCCACTTTTCTCTCCAACACTATTTC
107275616 ATGTCCCTTT
Statistics
Matches: 342, Mismatches: 19, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
362 325 0.95
363 17 0.05
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.43
Consensus pattern (363 bp):
CTCTTAAAAATTGTTGCTATTTTTGTTCCTATCTTTATCTTTAAGCATTTGACATAAATTCTATT
TCCCTCAATTTGTAATAGAATGAGCTTGTTGATTTAGTGGTAAAGTGTTAGCTTGCTCTTTGGTC
TTATGTTTGAATCACTGCTTGAGCAAAATGAGATTATTTTTGCTATTTCTCATGTTTGTGAGTCC
AAGTGTCAGATATTGAATTTAATTCAAATATTAGATTAAGCTATTAAGTGACGGTTAGAAGACTA
GTTTGGTTAGGATTTAGTTATTTCTTAGAAAAAAAATTTGAAAATTGATTGATTGAAAATAAAAA
GATTTTTAATCCCCACTTTTCTCTCCAACACTATTTCT
Found at i:107277152 original size:43 final size:43
Alignment explanation
Indices: 107277103--107277190 Score: 167
Period size: 43 Copynumber: 2.0 Consensus size: 43
107277093 AATAACAACA
*
107277103 TAATTTGATCCATTTCATGCAATTGAGTCCTTTTTGGTAAATT
1 TAATTTGATCCATTTCATGCAATTGAGTCCTTTTAGGTAAATT
107277146 TAATTTGATCCATTTCATGCAATTGAGTCCTTTTAGGTAAATT
1 TAATTTGATCCATTTCATGCAATTGAGTCCTTTTAGGTAAATT
107277189 TA
1 TA
107277191 CATATTTACC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.27, C:0.14, G:0.14, T:0.45
Consensus pattern (43 bp):
TAATTTGATCCATTTCATGCAATTGAGTCCTTTTAGGTAAATT
Found at i:107285651 original size:14 final size:15
Alignment explanation
Indices: 107285632--107285660 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
107285622 TTGTTCTTTA
107285632 TTAAAA-TTCTATAT
1 TTAAAATTTCTATAT
107285646 TTAAAATTTCTATAT
1 TTAAAATTTCTATAT
107285661 CTTCTCTAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (15 bp):
TTAAAATTTCTATAT
Found at i:107286971 original size:24 final size:26
Alignment explanation
Indices: 107286935--107286987 Score: 65
Period size: 24 Copynumber: 2.1 Consensus size: 26
107286925 TATTCCATTA
**
107286935 TATCCTATTATTT-TTTTAGT-TTTT
1 TATCCTACCATTTATTTTAGTATTTT
*
107286959 TATCCTACCATTTATTTTATTATTTT
1 TATCCTACCATTTATTTTAGTATTTT
107286985 TAT
1 TAT
107286988 TATACTATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 11 0.46
25 6 0.25
26 7 0.29
ACGTcount: A:0.21, C:0.11, G:0.02, T:0.66
Consensus pattern (26 bp):
TATCCTACCATTTATTTTAGTATTTT
Found at i:107291405 original size:21 final size:21
Alignment explanation
Indices: 107291366--107291406 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
107291356 GGATCAAATG
*
107291366 CTGGAGTCCCAAAAAAACATA
1 CTGGAGTCACAAAAAAACATA
* *
107291387 CTGGAGTCACAGAACAACAT
1 CTGGAGTCACAAAAAAACAT
107291407 GATGAGTCAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.44, C:0.24, G:0.17, T:0.15
Consensus pattern (21 bp):
CTGGAGTCACAAAAAAACATA
Found at i:107299373 original size:135 final size:133
Alignment explanation
Indices: 107299133--107299493 Score: 386
Period size: 135 Copynumber: 2.7 Consensus size: 133
107299123 GATTACAGAT
* *
107299133 ATCATCAGCCTTATCTTCACTGGGCAGGAGTGGAGCAGGCTAAATACCAGATCTTATCTTCATTG
1 ATCATCAGCTTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACCAGATCTTATCTTCATTG
* * * * *
107299198 AGCAGGAGTGAAGCAGATCAAATTTTGGAGAATCTTATCTCCACGTACCGGCGATGGAGCAGATT
66 AACAGGAGCGAAGCAGATCAAATTTTGGAGAATCTTATCTCCACGGACCGACAATGGAGCAGATT
107299263 CCA
131 CCA
* *
107299266 ATCATCAGCTTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATACCAGGTCTTATCTTCGC
1 ATCATCAGCTTTATCTTCACTGAGCAGGAGTGGAGCAGGCT-AA-ATACCAGATCTTATCTTC-A
* * *
107299331 TT-AACAGGAGCGGAGCAGATCAAATTTTGGTA-AATCTTATCTCCATGGATCGACAATGGAGCA
63 TTGAACAGGAGCGAAGCAGATCAAATTTTGG-AGAATCTTATCTCCACGGACCGACAATGGAGCA
*
107299394 GATTTCA
127 GATTCCA
** * * ** * * * * *
107299401 GCCACCA-ATCTTATCTTCACTGAGCAGGAGTAAAGTAGATCAAATTATAGCAAATCTTATCTTC
1 ATCATCAGCT-TTATCTTCACTGAGCAGGAGTGGAGCAG-GCTAA--ATACCAGATCTTATCTTC
* * *
107299465 GTTGAGCAGGAGCGAAGCAGATCAGATTT
62 ATTGAACAGGAGCGAAGCAGATCAAATTT
107299494 CAGCAGATCC
Statistics
Matches: 191, Mismatches: 29, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
133 39 0.20
134 3 0.02
135 107 0.56
136 42 0.22
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.27
Consensus pattern (133 bp):
ATCATCAGCTTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACCAGATCTTATCTTCATTG
AACAGGAGCGAAGCAGATCAAATTTTGGAGAATCTTATCTCCACGGACCGACAATGGAGCAGATT
CCA
Found at i:107303424 original size:41 final size:42
Alignment explanation
Indices: 107303352--107303431 Score: 101
Period size: 41 Copynumber: 1.9 Consensus size: 42
107303342 TGCTAATCTG
* * * *
107303352 TTGCATATAGATTGTTAAATTGTTGAATTTTT-GTTAGTTCA
1 TTGCATATAAATTATTAAACTGCTGAATTTTTGGTTAGTTCA
107303393 TTGCATATAAATTATTAAACTGCT-AATTTTTTGGTTAGT
1 TTGCATATAAATTATTAAACTGCTGAA-TTTTTGGTTAGT
107303432 GATTTAACAC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
40 2 0.06
41 25 0.76
42 6 0.18
ACGTcount: A:0.29, C:0.06, G:0.15, T:0.50
Consensus pattern (42 bp):
TTGCATATAAATTATTAAACTGCTGAATTTTTGGTTAGTTCA
Found at i:107306293 original size:34 final size:34
Alignment explanation
Indices: 107306250--107306318 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
107306240 GATAATATAC
*
107306250 ATGTATTCATATATCATCCATATGTTTTATTTAT
1 ATGTATTCATATATCATACATATGTTTTATTTAT
*
107306284 ATGTATTCATATATCGTACATATGTTTTATTTAT
1 ATGTATTCATATATCATACATATGTTTTATTTAT
107306318 A
1 A
107306319 CTTTCATATC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.30, C:0.10, G:0.07, T:0.52
Consensus pattern (34 bp):
ATGTATTCATATATCATACATATGTTTTATTTAT
Found at i:107324556 original size:33 final size:33
Alignment explanation
Indices: 107324519--107324614 Score: 102
Period size: 34 Copynumber: 2.9 Consensus size: 33
107324509 AATATGACAA
*
107324519 GCTTATAACAGATCAATACGGTAGCAATAGCAG
1 GCTTATAACAAATCAATACGGTAGCAATAGCAG
* * * * * *
107324552 GCTTATAGCAAATCAATATGGTAAGGATTATCAT
1 GCTTATAACAAATCAATACGGT-AGCAATAGCAG
* *
107324586 GCTTATAACAAATCATTACAGTAGCAATA
1 GCTTATAACAAATCAATACGGTAGCAATA
107324615 AACTTAACAT
Statistics
Matches: 49, Mismatches: 13, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
33 24 0.49
34 25 0.51
ACGTcount: A:0.41, C:0.16, G:0.17, T:0.27
Consensus pattern (33 bp):
GCTTATAACAAATCAATACGGTAGCAATAGCAG
Found at i:107328511 original size:23 final size:20
Alignment explanation
Indices: 107328479--107328522 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 20
107328469 ATAATTTTAT
107328479 TAAATATTAAAATAATATAATA
1 TAAATATTAAAA-AA-ATAATA
107328501 TAAATATTTAAAAAAATAATA
1 TAAATA-TTAAAAAAATAATA
107328522 T
1 T
107328523 GGGTGGGCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 7 0.33
22 8 0.38
23 6 0.29
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
TAAATATTAAAAAAATAATA
Found at i:107333412 original size:19 final size:21
Alignment explanation
Indices: 107333388--107333431 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
107333378 TACATGGAGG
*
107333388 TTCTTTTTT-TC-CTTTTTAA
1 TTCTTTTTTCTCAATTTTTAA
107333407 TTCTTTTTTCTCAATTTTTAA
1 TTCTTTTTTCTCAATTTTTAA
107333428 TTCT
1 TTCT
107333432 CATTTTACAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 9 0.41
20 2 0.09
21 11 0.50
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.70
Consensus pattern (21 bp):
TTCTTTTTTCTCAATTTTTAA
Found at i:107338320 original size:19 final size:20
Alignment explanation
Indices: 107338296--107338344 Score: 55
Period size: 22 Copynumber: 2.4 Consensus size: 20
107338286 GGCACCACTT
107338296 ACTCCTCTG-CACCGACGGG
1 ACTCCTCTGCCACCGACGGG
*
107338315 ACTCCTCACTGCCACTGACGGG
1 ACTCCT--CTGCCACCGACGGG
*
107338337 ACTGCTCT
1 ACTCCTCT
107338345 AAGCCATTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
19 6 0.24
20 2 0.08
21 3 0.12
22 14 0.56
ACGTcount: A:0.16, C:0.41, G:0.22, T:0.20
Consensus pattern (20 bp):
ACTCCTCTGCCACCGACGGG
Found at i:107338450 original size:11 final size:11
Alignment explanation
Indices: 107338434--107338458 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
107338424 AAGAAAGGGG
107338434 GAAAGAGAAGA
1 GAAAGAGAAGA
107338445 GAAAGAGAAGA
1 GAAAGAGAAGA
107338456 GAA
1 GAA
107338459 GAAGAAGAAG
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:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (11 bp):
GAAAGAGAAGA
Found at i:107338463 original size:3 final size:3
Alignment explanation
Indices: 107338450--107338483 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
107338440 GAAGAGAAAG
107338450 AGA AG- AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
107338484 GAGGAGGAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:107338640 original size:27 final size:27
Alignment explanation
Indices: 107338587--107338642 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
107338577 GTAATATTTT
* *
107338587 TTTAAGGAAATAATTGTTAATTGTTAA
1 TTTAAGGAAATAATTATTAATTATTAA
*
107338614 TTTAAGGAAATAAATTATTTA-TATTAA
1 TTTAAGGAAAT-AATTATTAATTATTAA
107338641 TT
1 TT
107338643 GTTAATATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 18 0.72
28 7 0.28
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (27 bp):
TTTAAGGAAATAATTATTAATTATTAA
Found at i:107339003 original size:13 final size:13
Alignment explanation
Indices: 107338994--107339019 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
107338984 AGCTTAATAG
107338994 TATATTTTAAAAA
1 TATATTTTAAAAA
107339007 TATATTTTAAAAA
1 TATATTTTAAAAA
107339020 ATCCAAAAAT
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:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TATATTTTAAAAA
Found at i:107339446 original size:143 final size:141
Alignment explanation
Indices: 107339017--107340329 Score: 1799
Period size: 146 Copynumber: 9.1 Consensus size: 141
107339007 TATATTTTAA
* * * *
107339017 AAAATCCAAAAATAAAAT--AAAAAGGCCAAAATCAGAGTTTTTTATTAAATTAATATAAATATA
1 AAAATCCGAAAATAAAATAAAAAAAGGCCAAAATCAGAGTTTTTTACTAAATTAATATAAAAAAA
107339080 CTAAAATAATACATATGAAACATTATGTACTAAAATAATA-AAAAAATAAAATACGAAAATAGTA
66 CTAAAATAATAC--ATGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGTA
*
107339144 TATTTTGAAAAAT
129 TATTTTAAAAAAT
* * *
107339157 AAAATCCAAAAATAAAATAAAAAACAAACGACCAAAATCAGAATTTTTTACTAAATTAATATAAA
1 AAAATCCGAAAATAAAAT--AAAA-AAA-GGCCAAAATCAGAGTTTTTTACTAAATTAATATAAA
* *
107339222 AAAACTAAAATAATATCTTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATATGAAAAT
62 AAAACTAAAATAATA-C-ATGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAAT
*
107339287 AGTGTATTTTAAAAAAT
125 AGTATATTTTAAAAAAT
* * **
107339304 AAAATCCGAAAACAAAATAAAAAAAGGCCAAAATCACAAATTTTTACTAAATTAATAT-AAAAAA
1 AAAATCCGAAAATAAAATAAAAAAAGGCCAAAATCAGAGTTTTTTACTAAATTAATATAAAAAAA
*
107339368 CTAAAATAATACATGAAACATTATGTACTAAAATAATATAAAAAA-AAAA-ACGAAAATAATATA
66 CTAAAATAATACATGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGTATA
*
107339431 TCTTAAAAAAT
131 TTTTAAAAAAT
* * *
107339442 AAAATCTGAAAATAAAA-ATAAAAAGGGCCAAAATCAGAGTTTTTTTCTAAATTAATATAAAAAA
1 AAAATCCGAAAATAAAATA-AAAAAAGGCCAAAATCAGAGTTTTTTACTAAATTAATATAAAAAA
* *
107339506 ACTAAAATAATACATGAAACATTATGTACTAAAATAATAT-AAAAACAAAATACGAAAATAATA-
65 ACTAAAATAATACATGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGTAT
107339569 ACTTTTAAAAAAT
130 A-TTTTAAAAAAT
* * *
107339582 AAAATCCGAAAATAAAA-ATAAAAAGGCCAAAATCAGAGTTTTTTTTCAAAATTAATAT-AAAAA
1 AAAATCCGAAAATAAAATAAAAAAAGGCCAAAATCAGAG-TTTTTTACTAAATTAATATAAAAAA
*
107339645 ACTAAAATAATACACTTGAAACATTATGTACTGAAATAATATAAAAGAATAAAATACGAAAATAG
65 ACTAAAATAATACA--TGAAACATTATGTACTAAAATAATATAAAA-AATAAAATACGAAAATAG
107339710 TATATTTTAAAAAAT
127 TATATTTTAAAAAAT
* * *
107339725 AAAATCCGAAAACAAAATAAATAAAATGGCCAAAATCACAGATTTTTACTAAATTAATATAAAAA
1 AAAATCCGAAAATAAAATAAA-AAAA-GGCCAAAATCAGAGTTTTTTACTAAATTAATATAAAAA
*
107339790 AACTAAAATAATACATGAAACTTTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGTA
64 AACTAAAATAATACATGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGTA
107339855 TATTTTAAAAAAT
129 TATTTTAAAAAAT
* *
107339868 AAAATCTGAAAATAAAA-AATAAAAAGGCTCAAAATCAGAGTTTTTTTTCTAAATTAATATAAAA
1 AAAATCCGAAAATAAAATAA-AAAAAGGC-CAAAATCAGAG-TTTTTTACTAAATTAATATAAAA
*
107339932 AAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAAATAAAATAAGAAAAT
63 AAACTAAAATAATACA--TGAAACATTATGTACTAAAATAATAT-AAAAAATAAAATACGAAAAT
107339997 AGTATATTTTAAAAAAT
125 AGTATATTTTAAAAAAT
* *
107340014 AAAATCTGAAAATAAAATAAAAATAAACGGCCAAAATCAGAGTTTTTTATTAAATTAATAT-AAA
1 AAAATCCGAAAATAAAAT-AAAA-AAA-GGCCAAAATCAGAGTTTTTTACTAAATTAATATAAAA
* *
107340078 AAACTAAAATAATACATTTGGAACATTATGTACTAAAATAATATAAAAAATAAAATACAAAAATA
63 AAACTAAAATAATACA--TGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATA
* *
107340143 GTGTATTTTAAAAAGT
126 GTATATTTTAAAAAAT
* *
107340159 AAAATCCGAAAATAAAATAAAAAACAAACGGTCAAAATCAGAGTTTTTTTTATTAAATTAATATA
1 AAAATCCGAAAATAAAAT--AAAA-AAA-GGCCAAAATCAGAG--TTTTTTACTAAATTAATAT-
* *
107340224 AAAAAATACAAAAATAATACATTTAAAACATTATGTACTAAAATAATATAAAAAATAAAATAC-A
59 AAAAAA-ACTAAAATAATACA--TGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGA
*
107340288 AAATAATATATTTTAAAAAAT
121 AAATAGTATATTTTAAAAAAT
107340309 AAAATCCGAAAATAAAATAAA
1 AAAATCCGAAAATAAAATAAA
107340330 TACCAAAATA
Statistics
Matches: 1069, Mismatches: 65, Indels: 70
0.89 0.05 0.06
Matches are distributed among these distances:
137 1 0.00
138 75 0.07
139 91 0.09
140 107 0.10
141 29 0.03
142 36 0.03
143 161 0.15
144 36 0.03
145 102 0.10
146 225 0.21
147 70 0.07
148 38 0.04
149 3 0.00
150 42 0.04
151 53 0.05
ACGTcount: A:0.59, C:0.08, G:0.06, T:0.27
Consensus pattern (141 bp):
AAAATCCGAAAATAAAATAAAAAAAGGCCAAAATCAGAGTTTTTTACTAAATTAATATAAAAAAA
CTAAAATAATACATGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGTATA
TTTTAAAAAAT
Found at i:107340280 original size:12 final size:12
Alignment explanation
Indices: 107340263--107340297 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
107340253 ATTATGTACT
107340263 AAAATAATATAA
1 AAAATAATATAA
* *
107340275 AAAATAAAATAC
1 AAAATAATATAA
107340287 AAAATAATATA
1 AAAATAATATA
107340298 TTTTAAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (12 bp):
AAAATAATATAA
Done.