Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 190 of 318
Found at i:59538354 original size:19 final size:19
Alignment explanation
Indices: 59538327--59538365 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
59538317 CAATTAAGAA
59538327 ACTGACACAC-ATAGTGCAT
1 ACTGACACACGA-AGTGCAT
*
59538346 ACTGGCACACGAAGTGCAT
1 ACTGACACACGAAGTGCAT
59538365 A
1 A
59538366 AACCTGTACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 17 0.94
20 1 0.06
ACGTcount: A:0.36, C:0.26, G:0.21, T:0.18
Consensus pattern (19 bp):
ACTGACACACGAAGTGCAT
Found at i:59543258 original size:32 final size:32
Alignment explanation
Indices: 59543186--59543251 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 32
59543176 TAAACAATTT
*
59543186 AAATAATATTATTTTATACTAATTTAATGAAATAA
1 AAAT-ATATTATTTAATAC-AATTTAA-GAAATAA
59543221 AAATATATTATTTAATA-AATTTAA-AAATAA
1 AAATATATTATTTAATACAATTTAAGAAATAA
59543251 A
1 A
59543252 CAAATATGAC
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
30 7 0.23
32 7 0.23
34 12 0.40
35 4 0.13
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (32 bp):
AAATATATTATTTAATACAATTTAAGAAATAA
Found at i:59545168 original size:21 final size:21
Alignment explanation
Indices: 59545142--59545186 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
59545132 AAACACATAG
59545142 ATTCCATTTTTCATGTTAAAA
1 ATTCCATTTTTCATGTTAAAA
59545163 ATTCCATTTTTCATGTTAAAA
1 ATTCCATTTTTCATGTTAAAA
59545184 ATT
1 ATT
59545187 GGCTAAAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.33, C:0.13, G:0.04, T:0.49
Consensus pattern (21 bp):
ATTCCATTTTTCATGTTAAAA
Found at i:59554422 original size:14 final size:13
Alignment explanation
Indices: 59554402--59554438 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
59554392 AATACTTGAT
59554402 TTGTTCTTAATTA
1 TTGTTCTTAATTA
59554415 TGTGTTCTTAATTA
1 T-TGTTCTTAATTA
59554429 TTGTT-TTAAT
1 TTGTTCTTAAT
59554439 ATTCCAGGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 5 0.22
13 5 0.22
14 13 0.57
ACGTcount: A:0.22, C:0.05, G:0.11, T:0.62
Consensus pattern (13 bp):
TTGTTCTTAATTA
Found at i:59571387 original size:9 final size:9
Alignment explanation
Indices: 59571373--59571402 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
59571363 ACTAAAATAT
59571373 TAATTAAAC
1 TAATTAAAC
*
59571382 TAATTAAAT
1 TAATTAAAC
59571391 TAATTAAAC
1 TAATTAAAC
59571400 TAA
1 TAA
59571403 AACAACATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (9 bp):
TAATTAAAC
Found at i:59575949 original size:21 final size:21
Alignment explanation
Indices: 59575902--59575958 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
59575892 GTGTACCCTT
* * *
59575902 TCCACACGGGTGTGTGGGGCT
1 TCCACACGGGCGTGTGAGGCC
*
59575923 TTCACACGGGCGTGTGAGGCC
1 TCCACACGGGCGTGTGAGGCC
*
59575944 TCCACATGGGCGTGT
1 TCCACACGGGCGTGT
59575959 AAACCCCCAC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.12, C:0.26, G:0.39, T:0.23
Consensus pattern (21 bp):
TCCACACGGGCGTGTGAGGCC
Found at i:59581427 original size:66 final size:66
Alignment explanation
Indices: 59581340--59581491 Score: 205
Period size: 66 Copynumber: 2.3 Consensus size: 66
59581330 AGCTCAAGTG
* * ** *
59581340 CCAAATTATCTTAAAGTGTATATATGTGTAATGTGATGCATGCCTGTAGGAGTATGTGGTTGCTA
1 CCAAATTATCTTAAAATGTATATATGTGTAATGTGATGCACGCCTAAAGGAGTATGTGCTTGCTA
59581405 T
66 T
* * *
59581406 CCATATTATCTTAAAATGTATATATGTGTAATGTGATGTACGCCTAAATGAGTATGTGCTTGCTA
1 CCAAATTATCTTAAAATGTATATATGTGTAATGTGATGCACGCCTAAAGGAGTATGTGCTTGCTA
59581471 T
66 T
* *
59581472 GCAAATTATCGTTTAAATGT
1 CCAAATTATC-TTAAAATGT
59581492 GATCTTGTTT
Statistics
Matches: 74, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
66 66 0.89
67 8 0.11
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (66 bp):
CCAAATTATCTTAAAATGTATATATGTGTAATGTGATGCACGCCTAAAGGAGTATGTGCTTGCTA
T
Found at i:59585829 original size:22 final size:24
Alignment explanation
Indices: 59585779--59585829 Score: 61
Period size: 22 Copynumber: 2.2 Consensus size: 24
59585769 GAAAAAAAAC
*
59585779 TATAAAAAAAGTAACAATAAAATG
1 TATAAAAAAAGTAACAATAAAATA
* *
59585803 CATAATAAAA-TAA-AATAAAATA
1 TATAAAAAAAGTAACAATAAAATA
59585825 TATAA
1 TATAA
59585830 GCTTGAAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 12 0.52
23 3 0.13
24 8 0.35
ACGTcount: A:0.69, C:0.04, G:0.04, T:0.24
Consensus pattern (24 bp):
TATAAAAAAAGTAACAATAAAATA
Found at i:59590697 original size:29 final size:28
Alignment explanation
Indices: 59590644--59590700 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
59590634 CTTTAGAAAA
*
59590644 AGGTACACAGCCATGTGCTAGGCCATGT
1 AGGTACACAGCCATGTGCCAGGCCATGT
*
59590672 AGGTCACACAGTCATGTGACCA-GCCATGT
1 AGGT-ACACAGCCATGTG-CCAGGCCATGT
59590701 GAATCCACTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 4 0.16
29 19 0.76
30 2 0.08
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.21
Consensus pattern (28 bp):
AGGTACACAGCCATGTGCCAGGCCATGT
Found at i:59593637 original size:66 final size:66
Alignment explanation
Indices: 59593561--59593695 Score: 252
Period size: 66 Copynumber: 2.0 Consensus size: 66
59593551 GGATTAGGAG
* *
59593561 TATAAAATTCACAATTAACATCAAATAATCACCCAAAAATGCTTTATGAATGAGGTTAAAACATG
1 TATAAAATTCACAATTAACATCAAATAATCACCCAAAAACGCTTTATGAAAGAGGTTAAAACATG
59593626 T
66 T
59593627 TATAAAATTCACAATTAACATCAAATAATCACCCAAAAACGCTTTATGAAAGAGGTTAAAACATG
1 TATAAAATTCACAATTAACATCAAATAATCACCCAAAAACGCTTTATGAAAGAGGTTAAAACATG
59593692 T
66 T
59593693 TAT
1 TAT
59593696 TTTTAGCACT
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 67 1.00
ACGTcount: A:0.47, C:0.16, G:0.09, T:0.28
Consensus pattern (66 bp):
TATAAAATTCACAATTAACATCAAATAATCACCCAAAAACGCTTTATGAAAGAGGTTAAAACATG
T
Found at i:59602442 original size:25 final size:25
Alignment explanation
Indices: 59602408--59602461 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
59602398 AAGAAGCTAT
59602408 TTGGTTACAAGGTATGGCTAAAACC
1 TTGGTTACAAGGTATGGCTAAAACC
* *
59602433 TTGGTTACAAGGTATGGTTAAAACT
1 TTGGTTACAAGGTATGGCTAAAACC
59602458 TTGG
1 TTGG
59602462 GATTGGTTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.30, C:0.11, G:0.26, T:0.33
Consensus pattern (25 bp):
TTGGTTACAAGGTATGGCTAAAACC
Found at i:59604907 original size:22 final size:21
Alignment explanation
Indices: 59604882--59604938 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 21
59604872 TTTTTTTTAA
59604882 TTTAGTACTTGTTTTTAATTGT
1 TTTAGTACTTGTTTTTAATT-T
* **
59604904 TTTAGTAGTTAAATTTTAATTT
1 TTTAGTACTT-GTTTTTAATTT
59604926 TTT-GTACTTGTTT
1 TTTAGTACTTGTTT
59604939 GTGTGCGAGC
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
20 2 0.07
21 5 0.18
22 13 0.46
23 8 0.29
ACGTcount: A:0.21, C:0.04, G:0.12, T:0.63
Consensus pattern (21 bp):
TTTAGTACTTGTTTTTAATTT
Found at i:59605166 original size:16 final size:16
Alignment explanation
Indices: 59605141--59605178 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
59605131 ACATATATGT
*
59605141 TTGTTTGAATGATAAA
1 TTGTTAGAATGATAAA
*
59605157 TTGTTAGAATGTTAAA
1 TTGTTAGAATGATAAA
59605173 TT-TTAG
1 TTGTTAG
59605179 TTAATTGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 4 0.20
16 16 0.80
ACGTcount: A:0.34, C:0.00, G:0.18, T:0.47
Consensus pattern (16 bp):
TTGTTAGAATGATAAA
Found at i:59606214 original size:17 final size:16
Alignment explanation
Indices: 59606171--59606215 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 16
59606161 TATAATAAAT
59606171 ATTATTAACTTCAGTTA
1 ATTATTAA-TTCAGTTA
59606188 ATTGATTAATTCAGTTA
1 ATT-ATTAATTCAGTTA
59606205 ATTATCTAATT
1 ATTAT-TAATT
59606216 TGAAACTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
16 2 0.08
17 19 0.73
18 5 0.19
ACGTcount: A:0.36, C:0.09, G:0.07, T:0.49
Consensus pattern (16 bp):
ATTATTAATTCAGTTA
Found at i:59607228 original size:18 final size:18
Alignment explanation
Indices: 59607194--59607229 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
59607184 GAGCGCCTAA
*
59607194 CACGCAAACTCATAGTGT
1 CACGCAAACTCAAAGTGT
*
59607212 CACGCAAACTTAAAGTGT
1 CACGCAAACTCAAAGTGT
59607230 GAACCGTATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.36, C:0.25, G:0.17, T:0.22
Consensus pattern (18 bp):
CACGCAAACTCAAAGTGT
Found at i:59612738 original size:28 final size:28
Alignment explanation
Indices: 59612698--59612785 Score: 167
Period size: 28 Copynumber: 3.1 Consensus size: 28
59612688 AGGGTAATCC
59612698 CATTACAAAGTCCATGGTAATTCTTTCT
1 CATTACAAAGTCCATGGTAATTCTTTCT
*
59612726 CATTACAAAGTCCATGGTAATTCTTTCC
1 CATTACAAAGTCCATGGTAATTCTTTCT
59612754 CATTACAAAGTCCATGGTAATTCTTTCT
1 CATTACAAAGTCCATGGTAATTCTTTCT
59612782 CATT
1 CATT
59612786 TCTATTTTGG
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 58 1.00
ACGTcount: A:0.28, C:0.23, G:0.10, T:0.39
Consensus pattern (28 bp):
CATTACAAAGTCCATGGTAATTCTTTCT
Found at i:59618306 original size:14 final size:15
Alignment explanation
Indices: 59618275--59618307 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
59618265 AACATACAAG
59618275 TAAAGCACATTAACA
1 TAAAGCACATTAACA
*
59618290 TAAATCACATT-ACA
1 TAAAGCACATTAACA
59618304 TAAA
1 TAAA
59618308 AACACAACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.55, C:0.18, G:0.03, T:0.24
Consensus pattern (15 bp):
TAAAGCACATTAACA
Found at i:59618678 original size:20 final size:20
Alignment explanation
Indices: 59618649--59618693 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
59618639 AGCACATGTA
*
59618649 TTCATAAAATTTTATAACTT
1 TTCATAAAATTTTACAACTT
*
59618669 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
59618689 TTCAT
1 TTCAT
59618694 TTTAGTCCCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.36, C:0.16, G:0.00, T:0.49
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:59623390 original size:12 final size:12
Alignment explanation
Indices: 59623373--59623397 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
59623363 GTTAAACTAG
59623373 TTTTTCCTTACT
1 TTTTTCCTTACT
59623385 TTTTTCCTTACT
1 TTTTTCCTTACT
59623397 T
1 T
59623398 GGAAAGGGTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.24, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTTTCCTTACT
Found at i:59625923 original size:48 final size:49
Alignment explanation
Indices: 59625807--59625933 Score: 150
Period size: 48 Copynumber: 2.6 Consensus size: 49
59625797 ACACATTAAA
* * * * *
59625807 GTCGATGTCGTGTCCCAGACAGGACTTACATTGACTTTCATATATCGAG
1 GTCGATGCCATGTCCCAGACAGGTCTTACAGTGACTCTCATATATCGAG
* * *
59625856 GCCGATTCCATGTCCCAGACAGGTCTTACAGTGA-TCTCATCTATCG-G
1 GTCGATGCCATGTCCCAGACAGGTCTTACAGTGACTCTCATATATCGAG
*
59625903 TGTCGATGCCATGTCTCAGACAGGTCTTACA
1 -GTCGATGCCATGTCCCAGACAGGTCTTACA
59625934 CTAACAAACA
Statistics
Matches: 66, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
47 1 0.02
48 37 0.56
49 28 0.42
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (49 bp):
GTCGATGCCATGTCCCAGACAGGTCTTACAGTGACTCTCATATATCGAG
Found at i:59626984 original size:49 final size:49
Alignment explanation
Indices: 59626912--59627009 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
59626902 GAGAAGAAGA
59626912 TGAAAAAGGGATGATATCATCTTTCTTTTATTTTATTTTCTTTTTGGCC
1 TGAAAAAGGGATGATATCATCTTTCTTTTATTTTATTTTCTTTTTGGCC
59626961 TGAAAAAGGGATGATATCATCTTTCTTTTATTTTATTTTCTTTTTGGCC
1 TGAAAAAGGGATGATATCATCTTTCTTTTATTTTATTTTCTTTTTGGCC
59627010 AAATAAGTCA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.22, C:0.12, G:0.14, T:0.51
Consensus pattern (49 bp):
TGAAAAAGGGATGATATCATCTTTCTTTTATTTTATTTTCTTTTTGGCC
Found at i:59628745 original size:64 final size:63
Alignment explanation
Indices: 59628543--59629271 Score: 314
Period size: 64 Copynumber: 11.2 Consensus size: 63
59628533 AGATTATTCA
* * * * * **
59628543 TGATCTTAAATC-AAGTGAACTTTGGTTGCGATCTTGAATCATCTAACCTTAATAATATTAACTG
1 TGATCTTAAATCGAA-TGAACTTAGGTTGCGATATTAAATCAGCTAAACTTAATAATATT-GTTG
* * * ** ** * * * * * *
59628607 CGATCTTAAATCAAAAGTTCTTCAAAATTGCAATCTTAAATCAGCT-AACTCAAATAAAAGTATT
1 TGATCTTAAATCGAATGAACTT--AGGTTGCGATATTAAATCAGCTAAACT-TAATAATATTGTT
*
59628671 CT
63 -G
* *
59628673 TGATCTTAAATCGAATGAACTTAGGTTGCGATATTAAACCAACTAAACTTAATAATATTGGTTG
1 TGATCTTAAATCGAATGAACTTAGGTTGCGATATTAAATCAGCTAAACTTAATAATATT-GTTG
* * ** * * * *
59628737 TGACCTTAAATC-AGTGAGTTGTTTGGAGTTGCAATTTTAAATCAGCT-AACTCGAATAA-ATTT
1 TGATCTTAAATCGAATGA---ACTTAG-GTTGCGATATTAAATCAGCTAAACT-TAATAATA-TT
*
59628799 GTTCA
60 GTT-G
* * * * * *
59628804 TGATCTTAAATTGAATGAACTTAGGTTGGGATCTTAAATCAACTAACCTTAATAATATCGATTG
1 TGATCTTAAATCGAATGAACTTAGGTTGCGATATTAAATCAGCTAAACTTAATAATATTG-TTG
* * * * * *
59628868 TGATCTTAAAT-TAGTGAGTTATTTAGAGTTACGATATTAAATCAGCT-AACTCGAATAAAATTG
1 TGATCTTAAATCGAATGA---ACTTAG-GTTGCGATATTAAATCAGCTAAACT-TAATAATATTG
*
59628931 TTCT
61 TT-G
* * * * * *
59628935 TGGTCTTAAATCAAAAGAACTTAGGTTGCGATCTTAAATCAGCTAACCTTAATAATATCAGTTG
1 TGATCTTAAATCGAATGAACTTAGGTTGCGATATTAAATCAGCTAAACTTAATAATAT-TGTTG
* *** * * * * *
59628999 TGATCTTAAATCAGCGA-GTTGTTCGGAGTTGCGATATTAAATTAGCT-AACTCAAACAAAATTG
1 TGATCTTAAATC-G-AATGAACTT-AG-GTTGCGATATTAAATCAGCTAAACT-TAATAATATTG
*
59629062 TTCA
61 TT-G
** * *
59629066 TGATCTTAAATCGAATGAACTTAGGTTGCGATCCTAAATCAACTAACCTTAATAATATTAGTTG
1 TGATCTTAAATCGAATGAACTTAGGTTGCGATATTAAATCAGCTAAACTTAATAATATT-GTTG
* * * * * * *
59629130 CGATCTTAAAT--AA-GCAAGTTATTCGAGTTACGATCTTAAGTTAGCT-AACTTAAATAAAATT
1 TGATCTTAAATCGAATG-AACTTA---G-GTTGCGATATTAAATCAGCTAAACTT-AATAATATT
*
59629191 GTTCA
60 GTT-G
* * * * * * *
59629196 TGATTTTAAATTGAGTGAACTTAGGTTGCGATCTTAAATCAGTTAACCTTAATAATATCAGTTG
1 TGATCTTAAATCGAATGAACTTAGGTTGCGATATTAAATCAGCTAAACTTAATAATAT-TGTTG
59629260 TGATCTTAAATC
1 TGATCTTAAATC
59629272 AACAAGTTGT
Statistics
Matches: 483, Mismatches: 134, Indels: 96
0.68 0.19 0.13
Matches are distributed among these distances:
61 1 0.00
62 7 0.01
63 8 0.02
64 185 0.38
65 60 0.12
66 105 0.22
67 103 0.21
68 13 0.03
69 1 0.00
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.36
Consensus pattern (63 bp):
TGATCTTAAATCGAATGAACTTAGGTTGCGATATTAAATCAGCTAAACTTAATAATATTGTTG
Found at i:59628814 original size:131 final size:131
Alignment explanation
Indices: 59628539--59629330 Score: 944
Period size: 131 Copynumber: 6.1 Consensus size: 131
59628529 AGTGAGATTA
* * * *
59628539 TTCATGATCTTAAATC-AAGTGAACTTTGGTTGCGATCTTGAATCATCTAACCTTAATAATATTA
1 TTCATGATCTTAAATCGAA-TGAACTTAGGTTGCGATCTTAAATCAACTAACCTTAATAATATCA
** * * * * * * *
59628603 ACTGCGATCTTAAATCA-AAAGTTCTTCAAAATTGCAATCTTAAATCAGCTAACTCAAATAAAAG
65 GTTGTGATCTTAAATCAGCAAGTTGTTCAGAGTTGCGATCTTAAATCAGCTAACTCAAATAAAAT
*
59628667 TA
130 TG
* * * * **
59628669 TTCTTGATCTTAAATCGAATGAACTTAGGTTGCGATATTAAACCAACTAAACTTAATAATATTGG
1 TTCATGATCTTAAATCGAATGAACTTAGGTTGCGATCTTAAATCAACTAACCTTAATAATATCAG
* ** ** * * * *
59628734 TTGTGACCTTAAATCAGTGAGTTGTTTGGAGTTGCAATTTTAAATCAGCTAACTCGAATAAATTT
66 TTGTGATCTTAAATCAGCAAGTTGTTCAGAGTTGCGATCTTAAATCAGCTAACTCAAATAAAATT
59628799 G
131 G
* *
59628800 TTCATGATCTTAAATTGAATGAACTTAGGTTGGGATCTTAAATCAACTAACCTTAATAATATC-G
1 TTCATGATCTTAAATCGAATGAACTTAGGTTGCGATCTTAAATCAACTAACCTTAATAATATCAG
* ** * * * * *
59628864 ATTGTGATCTTAAATTAGTGAGTTATTTAGAGTTACGATATTAAATCAGCTAACTCGAATAAAAT
66 -TTGTGATCTTAAATCAGCAAGTTGTTCAGAGTTGCGATCTTAAATCAGCTAACTCAAATAAAAT
59628929 TG
130 TG
* * * * *
59628931 TTCTTGGTCTTAAATCAAAAGAACTTAGGTTGCGATCTTAAATCAGCTAACCTTAATAATATCAG
1 TTCATGATCTTAAATCGAATGAACTTAGGTTGCGATCTTAAATCAACTAACCTTAATAATATCAG
* * * * *
59628996 TTGTGATCTTAAATCAGCGAGTTGTTCGGAGTTGCGATATTAAATTAGCTAACTCAAACAAAATT
66 TTGTGATCTTAAATCAGCAAGTTGTTCAGAGTTGCGATCTTAAATCAGCTAACTCAAATAAAATT
59629061 G
131 G
* *
59629062 TTCATGATCTTAAATCGAATGAACTTAGGTTGCGATCCTAAATCAACTAACCTTAATAATATTAG
1 TTCATGATCTTAAATCGAATGAACTTAGGTTGCGATCTTAAATCAACTAACCTTAATAATATCAG
* * * * * * *
59629127 TTGCGATCTTAAATAAGCAAGTTATTC-GAGTTACGATCTTAAGTTAGCTAACTTAAATAAAATT
66 TTGTGATCTTAAATCAGCAAGTTGTTCAGAGTTGCGATCTTAAATCAGCTAACTCAAATAAAATT
59629191 G
131 G
* * * **
59629192 TTCATGATTTTAAATTGAGTGAACTTAGGTTGCGATCTTAAATCAGTTAACCTTAATAATATCAG
1 TTCATGATCTTAAATCGAATGAACTTAGGTTGCGATCTTAAATCAACTAACCTTAATAATATCAG
* * *
59629257 TTGTGATCTTAAATCAACAAGTTGTTCAGAGTTGTGATCTTAAATTAGCTAACTCAAATAAAATT
66 TTGTGATCTTAAATCAGCAAGTTGTTCAGAGTTGCGATCTTAAATCAGCTAACTCAAATAAAATT
59629322 G
131 G
59629323 TTCATGAT
1 TTCATGAT
59629331 AGATAAAATA
Statistics
Matches: 571, Mismatches: 86, Indels: 9
0.86 0.13 0.01
Matches are distributed among these distances:
130 181 0.32
131 389 0.68
132 1 0.00
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.36
Consensus pattern (131 bp):
TTCATGATCTTAAATCGAATGAACTTAGGTTGCGATCTTAAATCAACTAACCTTAATAATATCAG
TTGTGATCTTAAATCAGCAAGTTGTTCAGAGTTGCGATCTTAAATCAGCTAACTCAAATAAAATT
G
Found at i:59633445 original size:80 final size:81
Alignment explanation
Indices: 59633260--59633484 Score: 282
Period size: 80 Copynumber: 2.8 Consensus size: 81
59633250 GCTCCTCGTT
* * * * *
59633260 CAAATGCCTTCGGGACATAGCCCGGTTA-TAGTAATTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGAGACTTAACCCGGATATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
59633324 GATTTAGTAACTCGCA
66 GATTTAGTAACTCGCA
* *
59633340 CAAATGCCTTCGGGACTTAACCCGGAT-TTAGTAACTCGCACAAATGCCTTCGGGCCTTAACCCG
1 CAAATGCCTTCGAGACTTAACCCGGATATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
59633404 GATTTAGTAACTCGCA
66 GATTTAGTAACTCGCA
** * * *
59633420 CAAATGCCTTC-AGATCTTAGTCCGGATATT-GTCACTTAGCAC-AA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTCGAGA-CTTAACCCGGATATTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACC
59633481 CGGA
64 CGGA
59633485 CAGCATTCAA
Statistics
Matches: 129, Mismatches: 12, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
79 21 0.16
80 101 0.78
81 7 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGAGACTTAACCCGGATATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
GATTTAGTAACTCGCA
Found at i:59633446 original size:40 final size:40
Alignment explanation
Indices: 59633260--59633430 Score: 290
Period size: 40 Copynumber: 4.3 Consensus size: 40
59633250 GCTCCTCGTT
* * *
59633260 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
59633300 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
59633340 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
59633380 CAAATGCCTTCGGGCCTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
59633420 CAAATGCCTTC
1 CAAATGCCTTC
59633431 AGATCTTAGT
Statistics
Matches: 126, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
40 124 0.98
41 2 0.02
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:59640400 original size:14 final size:15
Alignment explanation
Indices: 59640377--59640405 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
59640367 ATGTCTCTTT
59640377 TTTTTAAATATTTTA
1 TTTTTAAATATTTTA
59640392 TTTTT-AATATTTTA
1 TTTTTAAATATTTTA
59640406 CTATACCCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTTTAAATATTTTA
Found at i:59646229 original size:21 final size:22
Alignment explanation
Indices: 59646203--59646249 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
59646193 CTCTGCTCAA
*
59646203 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
59646224 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
59646246 ACTC
1 ACTC
59646250 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:59654754 original size:24 final size:25
Alignment explanation
Indices: 59654717--59654763 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
59654707 CAAATCCTTA
*
59654717 ATAAATTATATAAAAAATATTTTTT
1 ATAAAGTATATAAAAAATATTTTTT
* *
59654742 ATAAAGTA-ATAAATATTATTTT
1 ATAAAGTATATAAAAAATATTTT
59654764 AAAATCTAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 12 0.63
25 7 0.37
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (25 bp):
ATAAAGTATATAAAAAATATTTTTT
Found at i:59663511 original size:27 final size:27
Alignment explanation
Indices: 59663473--59663527 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
59663463 ATTAAAGCAT
59663473 ACTTAACAGACCTAATTTGGTTGGAAG
1 ACTTAACAGACCTAATTTGGTTGGAAG
59663500 ACTTAACAGACCTAATTTGGTTGGAAG
1 ACTTAACAGACCTAATTTGGTTGGAAG
59663527 A
1 A
59663528 TACGAAAGAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.29
Consensus pattern (27 bp):
ACTTAACAGACCTAATTTGGTTGGAAG
Found at i:59675809 original size:40 final size:40
Alignment explanation
Indices: 59675623--59675793 Score: 290
Period size: 40 Copynumber: 4.3 Consensus size: 40
59675613 GCTCCTCGTT
* * *
59675623 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
59675663 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
59675703 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
59675743 CAAATGCCTTCGGGCCTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
59675783 CAAATGCCTTC
1 CAAATGCCTTC
59675794 AGATCTTAGT
Statistics
Matches: 126, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
40 124 0.98
41 2 0.02
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:59683643 original size:40 final size:40
Alignment explanation
Indices: 59683599--59683771 Score: 294
Period size: 40 Copynumber: 4.3 Consensus size: 40
59683589 GCTCCTCGTT
* * *
59683599 CAAATGCCTTCGGGACATAGCCC-GATTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
59683639 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
59683679 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
59683719 CAAATGCCTTCGGGCCTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
59683759 CAAATGCCTTCGG
1 CAAATGCCTTCGG
59683772 ATCTTAGTCT
Statistics
Matches: 128, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
40 124 0.97
41 4 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:59690109 original size:96 final size:96
Alignment explanation
Indices: 59689941--59690131 Score: 337
Period size: 96 Copynumber: 2.0 Consensus size: 96
59689931 ACAAAAGTTG
*
59689941 CGATCATTATCTTAGCCATTCTCATGTTAGGGCGTATTATAGGCCATTGGATGGTCTACCAAAAA
1 CGATCATTATCTTAGCCATTCTCATGTTAGGGCGTATTATAGGCCATTAGATGGTCTACCAAAAA
*
59690006 TAGCCGAACATATTCTATTGTAGTGTGTTTA
66 TAACCGAACATATTCTATTGTAGTGTGTTTA
* *
59690037 CGATCATTATCTTAGCCATTCTCATGTTAGGGCGTATTATTGGCCATTAGATGGTCTACCACAAA
1 CGATCATTATCTTAGCCATTCTCATGTTAGGGCGTATTATAGGCCATTAGATGGTCTACCAAAAA
*
59690102 TAACCGAACATATTCTATTGTGGTGTGTTT
66 TAACCGAACATATTCTATTGTAGTGTGTTT
59690132 GCCATCCCCC
Statistics
Matches: 90, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
96 90 1.00
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.36
Consensus pattern (96 bp):
CGATCATTATCTTAGCCATTCTCATGTTAGGGCGTATTATAGGCCATTAGATGGTCTACCAAAAA
TAACCGAACATATTCTATTGTAGTGTGTTTA
Found at i:59692514 original size:93 final size:93
Alignment explanation
Indices: 59692401--59692572 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
59692391 CGCCCATAAG
* *
59692401 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
59692466 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
59692494 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
59692559 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
59692573 TCAACCATCC
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:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:59692569 original size:46 final size:46
Alignment explanation
Indices: 59692394--59692569 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
59692384 TGTAACCCGC
* * *
59692394 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
59692440 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
59692490 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
59692533 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
59692570 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:59704716 original size:6 final size:6
Alignment explanation
Indices: 59704705--59704735 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
59704695 TGAGGGAAGA
*
59704705 AAAAAG AAAAAG AAAAAG AGAAAG AAAAAG A
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG A
59704736 GAAGGAGAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:59704743 original size:18 final size:18
Alignment explanation
Indices: 59704707--59704753 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
59704697 AGGGAAGAAA
*
59704707 AAAGAAAAAGAAAAAGAG
1 AAAGAAAAAGAGAAAGAG
*
59704725 AAAGAAAAAGAGAAGGAG
1 AAAGAAAAAGAGAAAGAG
*
59704743 -AAGAAGAAGAG
1 AAAGAAAAAGAG
59704754 GAGGGAGGGA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 10 0.38
18 16 0.62
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (18 bp):
AAAGAAAAAGAGAAAGAG
Found at i:59704749 original size:14 final size:12
Alignment explanation
Indices: 59704705--59704738 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
59704695 TGAGGGAAGA
*
59704705 AAAAAGAAAAAG
1 AAAAAGAGAAAG
59704717 AAAAAGAGAAAG
1 AAAAAGAGAAAG
59704729 AAAAAGAGAA
1 AAAAAGAGAA
59704739 GGAGAAGAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (12 bp):
AAAAAGAGAAAG
Found at i:59705204 original size:14 final size:14
Alignment explanation
Indices: 59705185--59705213 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
59705175 AACTTAATAG
59705185 TATATTTTAAAAAA
1 TATATTTTAAAAAA
59705199 TATATTTTAAAAAA
1 TATATTTTAAAAAA
59705213 T
1 T
59705214 CCAAAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TATATTTTAAAAAA
Found at i:59705770 original size:30 final size:29
Alignment explanation
Indices: 59705734--59705790 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 29
59705724 TAAAATAATA
59705734 TAAAAAACAAAATACGAAAATAATAAATTT
1 TAAAAAACAAAATACGAAAATAA-AAATTT
* *
59705764 TAAAAAATAAAATCCGAAAATAAAAAT
1 TAAAAAACAAAATACGAAAATAAAAAT
59705791 AAAAAGGCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 4 0.16
30 21 0.84
ACGTcount: A:0.68, C:0.07, G:0.04, T:0.21
Consensus pattern (29 bp):
TAAAAAACAAAATACGAAAATAAAAATTT
Found at i:59706020 original size:285 final size:287
Alignment explanation
Indices: 59705209--59706519 Score: 1874
Period size: 285 Copynumber: 4.6 Consensus size: 287
59705199 TATATTTTAA
* * * *
59705209 AAAATCCAAAAAT-AAAATAAAAAAGGTCAAAATCAGAGTTTTTTACTAAATTAATATAAATATA
1 AAAATCCGAAAATAAAAAT-AAAAAGGCCAAAATCAGAGTTTTTTACTAAATTAATATAAAAAAA
*
59705273 CTAAAATAATACATATGAAACATTATGTACTAAAATAATA-AAAAAATAAAATACGAAAATAGTA
65 CTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGTA
* * *
59705337 TATTTTGAAAAATAAAATTCGAAAATAAAATAAAAAACAAACGGCCAAAATCAGA-ATTTTTTAC
130 TATTTTAAAAAATAAAATCCGAAAATAAAAT-AAAAACAAACGGCCAAAATCAGAGA-TTTTTAT
59705401 TAAATTAATAT-AAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAA
193 TAAATTAATATAAAAAAACTAAAATAATACA-TTGAAACATTATGTACTAAAATAATAT-AAAAA
59705465 ATAAAATACGAAAATAGTATATTTTAAAAAAT
256 ATAAAATACGAAAATAGTATATTTTAAAAAAT
* ** *
59705497 AAAATCCGAAAA-CAAAATAAAAAACACCAAAATCACA-TATTTTTACTAAATTAATAT-AAAAA
1 AAAATCCGAAAATAAAAAT-AAAAAGGCCAAAATCAGAGT-TTTTTACTAAATTAATATAAAAAA
*
59705559 ACTAAAATAATACA--TGAAACATTATGTACTAAAATAATAT----AA-AAAATACGAAAATAAT
64 ACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGT
* * * *
59705617 ATATCTTAAAAAATAAAATCCGAAAAT-AAA-AATAA-AAAGGGCCAAAATCAGAG-TTTTTTTC
129 ATATTTTAAAAAATAAAATCCGAAAATAAAATAAAAACAAACGGCCAAAATCAGAGATTTTTAT-
* *
59705678 TAAATTAATATAAAAAAACTAAAGTAATACA-TGAAACATTATGTACTAAAATAATATAAAAAAC
193 TAAATTAATATAAAAAAACTAAAATAATACATTGAAACATTATGTACTAAAATAATATAAAAAAT
* *
59705742 AAAATACGAAAATAATAAATTTTAAAAAAT
258 AAAATACGAAAATAGTATATTTTAAAAAAT
*
59705772 AAAATCCGAAAATAAAAATAAAAAGGCCAAAATCAGAGCTTTTT-CTAAATTAATATAAAAAAAC
1 AAAATCCGAAAATAAAAATAAAAAGGCCAAAATCAGAGTTTTTTACTAAATTAATATAAAAAAAC
*
59705836 TAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAGAATAAAATATGAAAATAGTA
66 TAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAA-AATAAAATACGAAAATAGTA
* * *
59705901 TATTTTAAAAAATAAAATCCGAAAACAAAATAAATA-AAACGGCCAAAATCACAGATTTTTATTA
130 TATTTTAAAAAATAAAATCCGAAAATAAAATAAAAACAAACGGCCAAAATCAGAGATTTTTATTA
*
59705965 AATTAATATAAAAAAACTAAAATAATACA-TGAAACATTATGTTCTAAAATAATATAAAAAATAA
195 AATTAATATAAAAAAACTAAAATAATACATTGAAACATTATGTACTAAAATAATATAAAAAATAA
59706029 AATACGAAAATAGTATATTTTAAAAAAT
260 AATACGAAAATAGTATATTTTAAAAAAT
*
59706057 AAAATCCGAAAATAAAAAATAAAAAGGGCCAAAATCAGAGTTTTTTTTCTAAATTAATATAAAAA
1 AAAATCCGAAAAT-AAAAATAAAAA-GGCCAAAATCAGAG-TTTTTTACTAAATTAATATAAAAA
* * *
59706122 AACTAAAATAATATATTTGATACATTATGTACTAAAATAGTATAAAAAATAAAATACGAAAATAG
63 AACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAG
* *
59706187 TATATTTTAAAAAATAAAATCCGAAAATAAAATAAAAAATAAACGGCCAAAATCAGAGTTTTTTA
128 TATATTTTAAAAAATAAAATCCGAAAATAAAAT-AAAAACAAACGGCCAAAATCAGAGATTTTTA
59706252 TTAAATTAATATAAAAAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAA
192 TTAAATTAATAT--AAAAAAACTAAAATAATACA-TTGAAACATTATGTACTAAAATAATATAAA
* *
59706317 AAATAAAATACAAAAATAGTATATTTTAAAAAGT
254 AAATAAAATACGAAAATAGTATATTTTAAAAAAT
* * *
59706351 AAAATCCGAAAATAAAATAAAAAAAACGGTCAAAATCAGAGTTTTTTATTAAATTAATATAAAAA
1 AAAATCCGAAAAT-AAA-AATAAAAA-GGCCAAAATCAGAGTTTTTTACTAAATTAATAT-AAAA
* * *
59706416 TAATACAAAAATAATACATTTGAAATATTATGTACTAAAATAATATAAAAAATAATATACGAAAA
62 -AA-ACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAA
* **
59706481 TAATATATTTTAAAAAATAAAATCTAAAAATAAAATAAA
125 TAGTATATTTTAAAAAATAAAATCCGAAAATAAAATAAA
59706520 TACCAAAATA
Statistics
Matches: 925, Mismatches: 64, Indels: 60
0.88 0.06 0.06
Matches are distributed among these distances:
274 12 0.01
275 85 0.09
276 36 0.04
277 53 0.06
278 22 0.02
280 3 0.00
281 39 0.04
282 4 0.00
283 39 0.04
284 3 0.00
285 146 0.16
286 17 0.02
287 32 0.03
288 103 0.11
289 65 0.07
290 35 0.04
292 20 0.02
294 94 0.10
295 24 0.03
296 5 0.01
297 88 0.10
ACGTcount: A:0.59, C:0.08, G:0.06, T:0.27
Consensus pattern (287 bp):
AAAATCCGAAAATAAAAATAAAAAGGCCAAAATCAGAGTTTTTTACTAAATTAATATAAAAAAAC
TAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGTAT
ATTTTAAAAAATAAAATCCGAAAATAAAATAAAAACAAACGGCCAAAATCAGAGATTTTTATTAA
ATTAATATAAAAAAACTAAAATAATACATTGAAACATTATGTACTAAAATAATATAAAAAATAAA
ATACGAAAATAGTATATTTTAAAAAAT
Found at i:59706183 original size:25 final size:25
Alignment explanation
Indices: 59706155--59706229 Score: 78
Period size: 30 Copynumber: 2.8 Consensus size: 25
59706145 ATTATGTACT
59706155 AAAATAGTATAAAAAATAAAATACG
1 AAAATAGTATAAAAAATAAAATACG
*
59706180 AAAATAGTATATTTTAAAAAATAAAATCCG
1 AAAATAG--TA---TAAAAAATAAAATACG
**
59706210 AAAATAAAATAAAAAATAAA
1 AAAATAGTATAAAAAATAAA
59706230 CGGCCAAAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
25 18 0.43
27 2 0.05
28 1 0.02
30 21 0.50
ACGTcount: A:0.68, C:0.04, G:0.05, T:0.23
Consensus pattern (25 bp):
AAAATAGTATAAAAAATAAAATACG
Found at i:59706465 original size:148 final size:145
Alignment explanation
Indices: 59705209--59706519 Score: 1879
Period size: 145 Copynumber: 9.1 Consensus size: 145
59705199 TATATTTTAA
* * * *
59705209 AAAATCCAAAAATAAAAT--AAAAAA-GGTCAAAATCAGAGTTTTTTACTAAATTAATATAAATA
1 AAAATCCGAAAATAAAATAAAAAAAACGGCCAAAATCAGAGTTTTTTATTAAATTAATATAAAAA
* *
59705271 TACTAAAATAATACATATGAAACATTATGTACTAAAATAATA-AAAAAATAAAATACGAAAATAG
66 AACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAG
*
59705335 TATATTTTGAAAAAT
131 TATATTTTAAAAAAT
* * *
59705350 AAAATTCGAAAATAAAATAAAAAACAAACGGCCAAAATCAGAATTTTTTACTAAATTAATAT-AA
1 AAAATCCGAAAATAAAAT-AAAAA-AAACGGCCAAAATCAGAGTTTTTTATTAAATTAATATAAA
59705414 AAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAAATAAAATACGAAAA
64 AAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATAT-AAAAAATAAAATACGAAAA
59705479 TAGTATATTTTAAAAAAT
128 TAGTATATTTTAAAAAAT
* * * *
59705497 AAAATCCGAAAACAAAAT--AAAAAAC-ACCAAAATCACA-TATTTTTACTAAATTAATAT-AAA
1 AAAATCCGAAAATAAAATAAAAAAAACGGCCAAAATCAGAGT-TTTTTATTAAATTAATATAAAA
59705557 AAACTAAAATAATACA--TGAAACATTATGTACTAAAATAATAT----AA-AAAATACGAAAATA
65 AAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATA
* *
59705615 ATATATCTTAAAAAAT
130 GTATATTTTAAAAAAT
* *
59705631 AAAATCCGAAAAT-AAA-AATAAAAAGGGCCAAAATCAGAGTTTTTT-TCTAAATTAATATAAAA
1 AAAATCCGAAAATAAAATAAAAAAAACGGCCAAAATCAGAGTTTTTTAT-TAAATTAATATAAAA
* *
59705693 AAACTAAAGTAATACA--TGAAACATTATGTACTAAAATAATATAAAAAACAAAATACGAAAATA
65 AAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATA
* *
59705756 ATAAATTTTAAAAAAT
130 GTATATTTTAAAAAAT
* * *
59705772 AAAATCCGAAAAT-AAA-AATAAAAA-GGCCAAAATCAGAGCTTTTT-CTAAATTAATATAAAAA
1 AAAATCCGAAAATAAAATAAAAAAAACGGCCAAAATCAGAGTTTTTTATTAAATTAATATAAAAA
*
59705833 AACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAGAATAAAATATGAAAATA
66 AACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAA-AATAAAATACGAAAATA
59705898 GTATATTTTAAAAAAT
130 GTATATTTTAAAAAAT
* * * *
59705914 AAAATCCGAAAACAAAATAAATAAAACGGCCAAAATCACAGATTTTTATTAAATTAATATAAAAA
1 AAAATCCGAAAATAAAATAAAAAAAACGGCCAAAATCAGAGTTTTTTATTAAATTAATATAAAAA
*
59705979 AACTAAAATAATACA--TGAAACATTATGTTCTAAAATAATATAAAAAATAAAATACGAAAATAG
66 AACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAG
59706042 TATATTTTAAAAAAT
131 TATATTTTAAAAAAT
* * *
59706057 AAAATCCGAAAATAAAA-AATAAAAAGGGCCAAAATCAGAGTTTTTTTTCTAAATTAATATAAAA
1 AAAATCCGAAAATAAAATAAAAAAAACGGCCAAAATCAGAGTTTTTTAT-TAAATTAATATAAAA
* * *
59706121 AAACTAAAATAATATATTTGATACATTATGTACTAAAATAGTATAAAAAATAAAATACGAAAATA
65 AAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATA
59706186 GTATATTTTAAAAAAT
130 GTATATTTTAAAAAAT
59706202 AAAATCCGAAAATAAAATAAAAAATAAACGGCCAAAATCAGAGTTTTTTATTAAATTAATATAAA
1 AAAATCCGAAAATAAAAT-AAAAA-AAACGGCCAAAATCAGAGTTTTTTATTAAATTAATAT--A
*
59706267 AAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACAAAA
62 AAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAA
*
59706332 ATAGTATATTTTAAAAAGT
127 ATAGTATATTTTAAAAAAT
*
59706351 AAAATCCGAAAATAAAATAAAAAAAACGGTCAAAATCAGAGTTTTTTATTAAATTAATATAAAAA
1 AAAATCCGAAAATAAAATAAAAAAAACGGCCAAAATCAGAGTTTTTTATTAAATTAATAT-AAAA
* * *
59706416 TAATACAAAAATAATACATTTGAAATATTATGTACTAAAATAATATAAAAAATAATATACGAAAA
65 -AA-ACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAA
*
59706481 TAATATATTTTAAAAAAT
128 TAGTATATTTTAAAAAAT
**
59706499 AAAATCTAAAAATAAAATAAA
1 AAAATCCGAAAATAAAATAAA
59706520 TACCAAAATA
Statistics
Matches: 1068, Mismatches: 66, Indels: 65
0.89 0.06 0.05
Matches are distributed among these distances:
133 3 0.00
134 45 0.04
135 28 0.03
136 45 0.04
139 30 0.03
140 47 0.04
141 99 0.09
142 113 0.11
143 85 0.08
144 41 0.04
145 141 0.13
146 67 0.06
147 105 0.10
148 121 0.11
149 98 0.09
ACGTcount: A:0.59, C:0.08, G:0.06, T:0.27
Consensus pattern (145 bp):
AAAATCCGAAAATAAAATAAAAAAAACGGCCAAAATCAGAGTTTTTTATTAAATTAATATAAAAA
AACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAG
TATATTTTAAAAAAT
Found at i:59706469 original size:12 final size:13
Alignment explanation
Indices: 59706452--59706487 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
59706442 ATTATGTACT
59706452 AAAATAATATA-A
1 AAAATAATATACA
*
59706464 AAAATAATATACG
1 AAAATAATATACA
59706477 AAAATAATATA
1 AAAATAATATA
59706488 TTTTAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.25
Consensus pattern (13 bp):
AAAATAATATACA
Found at i:59716724 original size:46 final size:46
Alignment explanation
Indices: 59716671--59716844 Score: 176
Period size: 46 Copynumber: 3.8 Consensus size: 46
59716661 TATTTGGGCA
* *
59716671 TCCGAACTCGTCGAGTTGAGTCCAAGTTCACTTATAGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAATG
* * *
59716717 TCCGAACTCGTTGAGTTGAGTCCGAGTT--C-GAGAGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAA-T--G
* * *
59716762 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAATG
* * *
59716810 CCCGAGCTCGTTGAGTTGAGTTCGAGTTCACTTAT
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAT
59716845 GGGAGGGTTA
Statistics
Matches: 106, Mismatches: 13, Indels: 18
0.77 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 7 0.07
44 1 0.01
45 1 0.01
46 59 0.56
47 27 0.25
48 1 0.01
49 1 0.01
50 5 0.05
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAATG
Found at i:59716826 original size:93 final size:93
Alignment explanation
Indices: 59716667--59716838 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
59716657 AGGATATTTG
* *
59716667 GGCATCCGAACTCGTCGAGTTGAGTCCAAGTTCACTTATAGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTCGAGTTGAGTCCAAGTTCACTTATAGATGCGAACGCCCGAACTCGTTGAG
59716732 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * * * *
59716760 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTCGAGTTGAGTCCAAGTTCACTTATAGATGCGAACGCCCGAACTCGTTGAG
*
59716825 TTGAGTTCGAGTTC
66 TTGAGTCCGAGTTC
59716839 ACTTATGGGA
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTCGAGTTGAGTCCAAGTTCACTTATAGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:59722239 original size:46 final size:45
Alignment explanation
Indices: 59722172--59722347 Score: 167
Period size: 46 Copynumber: 3.8 Consensus size: 45
59722162 TATTTGGGCA
*
59722172 TCCGAACTCGTCGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
59722218 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* *
59722265 TCCGAGCTCGTTGAGTTGAGTCCGAGCTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * * * *
59722311 CCCGAGCTCATTGATTTGAGTTCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
59722348 GCAGGGTACA
Statistics
Matches: 105, Mismatches: 18, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 64 0.61
47 31 0.30
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:59722330 original size:93 final size:93
Alignment explanation
Indices: 59722168--59722339 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
59722158 AGGATATTTG
* * * *
59722168 GGCATCCGAACTCGTCGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTCGAGTTGAGTCCGAGCTCACTTATGGATGCGAACGCCCGAACTCATTGAG
59722233 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * * *
59722261 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGCTCACTTATGGATGCGAACGCCCGAGCTCATTGAT
1 GGCATCCGAACTCGTCGAGTTGAGTCCGAGCTCACTTATGGATGCGAACGCCCGAACTCATTGAG
*
59722326 TTGAGTTCGAGTTC
66 TTGAGTCCGAGTTC
59722340 ACTTATGGGC
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTCGAGTTGAGTCCGAGCTCACTTATGGATGCGAACGCCCGAACTCATTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:59724082 original size:27 final size:27
Alignment explanation
Indices: 59724044--59724101 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
59724034 GAGAAAGGCA
*
59724044 CCACTGTTGCCGCCTATGGGGTACCCT
1 CCACTGGTGCCGCCTATGGGGTACCCT
*
59724071 CCACTGGTGCCGCCTGTGGGGTACCCT
1 CCACTGGTGCCGCCTATGGGGTACCCT
59724098 CCAC
1 CCAC
59724102 CCTTATTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.10, C:0.40, G:0.28, T:0.22
Consensus pattern (27 bp):
CCACTGGTGCCGCCTATGGGGTACCCT
Found at i:59730233 original size:36 final size:36
Alignment explanation
Indices: 59730186--59730257 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
59730176 GTGTCAAGTG
59730186 GATCGTCAAGAAGCTCACATTATCCCGGTATTGATT
1 GATCGTCAAGAAGCTCACATTATCCCGGTATTGATT
59730222 GATCGTCAAGAAGCTCACATTATCCCGGTATTGATT
1 GATCGTCAAGAAGCTCACATTATCCCGGTATTGATT
59730258 CTATAGTCTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (36 bp):
GATCGTCAAGAAGCTCACATTATCCCGGTATTGATT
Found at i:59733402 original size:18 final size:18
Alignment explanation
Indices: 59733360--59733395 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
59733350 TCCTTTATAC
*
59733360 GAGCTTAGTAAGTATTGG
1 GAGCTTACTAAGTATTGG
59733378 GAGCTTACTAAGTATTGG
1 GAGCTTACTAAGTATTGG
59733396 TTGCTTATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.28, C:0.08, G:0.31, T:0.33
Consensus pattern (18 bp):
GAGCTTACTAAGTATTGG
Found at i:59734240 original size:18 final size:18
Alignment explanation
Indices: 59734202--59734240 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
59734192 TGATCCCCTG
59734202 TTTCCAAAATTTTCAATT
1 TTTCCAAAATTTTCAATT
*
59734220 TTTCCTAAAATTTTCTATT
1 TTTCC-AAAATTTTCAATT
59734239 TT
1 TT
59734241 GTTTCTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.28, C:0.15, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTCCAAAATTTTCAATT
Found at i:59736119 original size:16 final size:16
Alignment explanation
Indices: 59736098--59736129 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
59736088 TAAGGTGGTG
59736098 GATGTCAATTAAGATA
1 GATGTCAATTAAGATA
59736114 GATGTCAATTAAGATA
1 GATGTCAATTAAGATA
59736130 CTATTGGAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.19, T:0.31
Consensus pattern (16 bp):
GATGTCAATTAAGATA
Found at i:59737528 original size:19 final size:19
Alignment explanation
Indices: 59737484--59737534 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 19
59737474 TTTTAATTTA
59737484 TTATTT-AAATTATTAAAT
1 TTATTTAAAATTATTAAAT
* *
59737502 ATAATTAAAATATATT-AAT
1 TTATTTAAAAT-TATTAAAT
59737521 TTATTTAACAATTA
1 TTATTTAA-AATTA
59737535 AATGTAATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
18 4 0.15
19 15 0.58
20 7 0.27
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (19 bp):
TTATTTAAAATTATTAAAT
Found at i:59737974 original size:21 final size:20
Alignment explanation
Indices: 59737948--59737986 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
59737938 AAATTATGCA
59737948 AAGTAAAAAATAATTAATACT
1 AAGTAAAAAATAA-TAATACT
59737969 AAGTAAAAAATAATAATA
1 AAGTAAAAAATAATAATA
59737987 TATTGTTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.67, C:0.03, G:0.05, T:0.26
Consensus pattern (20 bp):
AAGTAAAAAATAATAATACT
Found at i:59739046 original size:17 final size:17
Alignment explanation
Indices: 59739015--59739057 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
59739005 CCAAGGCGAA
59739015 GAAAAAAATTATTTTTC
1 GAAAAAAATTATTTTTC
59739032 GAAAATAAATT-TTTTT-
1 GAAAA-AAATTATTTTTC
59739048 -AAAAAAATTA
1 GAAAAAAATTA
59739058 AATAAATCTG
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
14 5 0.21
15 4 0.17
17 10 0.42
18 5 0.21
ACGTcount: A:0.53, C:0.02, G:0.05, T:0.40
Consensus pattern (17 bp):
GAAAAAAATTATTTTTC
Found at i:59739486 original size:158 final size:164
Alignment explanation
Indices: 59739190--59739587 Score: 436
Period size: 158 Copynumber: 2.4 Consensus size: 164
59739180 AAAGATTTTA
* * * *
59739190 TTTGATTTTGTTTCTAAAATTAAAAGT-AAATAAAATCCGTTTTGGGATTTATTCCCGCCGTTCA
1 TTTG-TTTTATTTCTAAAA--AAGAGTAAAATAAAATCCGTTTCGGGATTAATTCCCGCCGTTCA
* * * * *
59739254 ACAGATTTTATCCCATTAGTTTGATTTTATTTGCAAACGGGAAATTAAAGGTAAATAAAATCCGT
63 ACAGATTTTATCCCATAAGTTTGATTTTATTTCCAAAAGCG-AAGT-AA-G-AAATAAAATCCGT
* *
59739319 TTCGAGATTGA-TTCC-CGTCGTTTAACGATTTTATTCCAAAT
124 TTCGAGATTGATTTCCACG--GTTCAACAATTTTATTCCAAAT
59739360 TTTGTTTTATTTCTAAAAAAGAGTAAAATAAAATCCGTTTCGGGATTAATTCCCGCCGTTCAACA
1 TTTGTTTTATTTCTAAAAAAGAGTAAAATAAAATCCGTTTCGGGATTAATTCCCGCCGTTCAACA
* * * *
59739425 -ATTTTATTCCA-AATTTTG-TTTTATTTCCAAAAGCG-AGT-A-AAATAAAATCTGTTTCGGGA
66 GATTTTATCCCATAAGTTTGATTTTATTTCCAAAAGCGAAGTAAGAAATAAAATCCGTTTCGAGA
59739484 TTGATTTCCACGGTTCAACAATTTTATTCCAAAT
131 TTGATTTCCACGGTTCAACAATTTTATTCCAAAT
* * * * * * ** *
59739518 TTTGTTTTATTTCCAAAAACGAGTAAAATAAAACCCATTTCGGGATTGATTCTCGTTGTTCAACG
1 TTTGTTTTATTTCTAAAAAAGAGTAAAATAAAATCCGTTTCGGGATTAATTCCCGCCGTTCAACA
59739583 GATTT
66 GATTT
59739588 ATTACATTTT
Statistics
Matches: 200, Mismatches: 24, Indels: 19
0.82 0.10 0.08
Matches are distributed among these distances:
158 98 0.49
159 8 0.04
160 2 0.01
161 1 0.00
163 2 0.01
165 14 0.07
166 5 0.03
167 15 0.08
168 38 0.19
169 13 0.06
170 4 0.02
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.39
Consensus pattern (164 bp):
TTTGTTTTATTTCTAAAAAAGAGTAAAATAAAATCCGTTTCGGGATTAATTCCCGCCGTTCAACA
GATTTTATCCCATAAGTTTGATTTTATTTCCAAAAGCGAAGTAAGAAATAAAATCCGTTTCGAGA
TTGATTTCCACGGTTCAACAATTTTATTCCAAAT
Found at i:59739590 original size:79 final size:79
Alignment explanation
Indices: 59739306--59739581 Score: 403
Period size: 79 Copynumber: 3.5 Consensus size: 79
59739296 AATTAAAGGT
* * *
59739306 AAATAAAATCCGTTTCGAGATTGATTCCCGTCGTTTAACGATTTTATTCCAAATTTTGTTTTATT
1 AAATAAAATCCGTTTCGGGATTGATTCCCGTCGTTCAACAATTTTATTCCAAATTTTGTTTTATT
* *
59739371 TCTAAAAAAGAGTA
66 TCCAAAAACGAGTA
* *
59739385 AAATAAAATCCGTTTCGGGATTAATTCCCGCCGTTCAACAATTTTATTCCAAATTTTGTTTTATT
1 AAATAAAATCCGTTTCGGGATTGATTCCCGTCGTTCAACAATTTTATTCCAAATTTTGTTTTATT
*
59739450 TCCAAAAGCGAGTA
66 TCCAAAAACGAGTA
*
59739464 AAATAAAATCTGTTTCGGGATTGATTTCCACG--GTTCAACAATTTTATTCCAAATTTTGTTTTA
1 AAATAAAATCCGTTTCGGGATTGA-TTCC-CGTCGTTCAACAATTTTATTCCAAATTTTGTTTTA
59739527 TTTCCAAAAACGAGTA
64 TTTCCAAAAACGAGTA
* * * *
59739543 AAATAAAACCCATTTCGGGATTGATTCTCGTTGTTCAAC
1 AAATAAAATCCGTTTCGGGATTGATTCCCGTCGTTCAAC
59739582 GGATTTATTA
Statistics
Matches: 178, Mismatches: 15, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
77 2 0.01
78 3 0.02
79 167 0.94
80 4 0.02
81 2 0.01
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (79 bp):
AAATAAAATCCGTTTCGGGATTGATTCCCGTCGTTCAACAATTTTATTCCAAATTTTGTTTTATT
TCCAAAAACGAGTA
Found at i:59739689 original size:86 final size:86
Alignment explanation
Indices: 59739583--59739857 Score: 381
Period size: 86 Copynumber: 3.2 Consensus size: 86
59739573 TTGTTCAACG
** * *
59739583 GATTTATTACATTTTGATTTTGTTGTAAAAAATGAGAAATTAAATAAAATAAAATCTGTTTCAGG
1 GATTTATTTGATTTT-ATTTTGTTGTAAAAAACGAGAAATTAAATTAAATAAAATCTGTTTCAGG
*
59739648 ATTTATTCCTGCCGTTTAATAA
65 ATTTATTCTTGCCGTTTAATAA
* *
59739670 GATTTATTTGATTTTATTTTGTTGTCAAAAACGAGAAATTAAATTAAATAAAATCTATTTCAGGA
1 GATTTATTTGATTTTATTTTGTTGTAAAAAACGAGAAATTAAATTAAATAAAATCTGTTTCAGGA
59739735 TTTATTCTTGCCGTTTAATAA
66 TTTATTCTTGCCGTTTAATAA
* * * **
59739756 GATTTTTTTGATTTGAGTTTGTTACAAAAAACGAGAAATTAAATTAAATAAAATCTGTTTC-GAG
1 GATTTATTTGATTTTATTTTGTTGTAAAAAACGAGAAATTAAATTAAATAAAATCTGTTTCAG-G
* *
59739820 ATTTATTCTTGCTGTTTAACAA
65 ATTTATTCTTGCCGTTTAATAA
*
59739842 GATTTTATTTTATTTT
1 GA-TTTATTTGATTTT
59739858 GTTTCCAAAT
Statistics
Matches: 167, Mismatches: 19, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
85 1 0.01
86 143 0.86
87 23 0.14
ACGTcount: A:0.36, C:0.08, G:0.12, T:0.44
Consensus pattern (86 bp):
GATTTATTTGATTTTATTTTGTTGTAAAAAACGAGAAATTAAATTAAATAAAATCTGTTTCAGGA
TTTATTCTTGCCGTTTAATAA
Found at i:59739939 original size:79 final size:79
Alignment explanation
Indices: 59739706--59739940 Score: 215
Period size: 79 Copynumber: 2.9 Consensus size: 79
59739696 AAAAACGAGA
* * *
59739706 AATTAAATTAAATAAAATCTATTTC-AGGATTTATTCTTGCCGTTTAATAAGATTTT-TTTGATT
1 AATTAAATTAAATAAAATCTGTTTCGA-GATTTATTCTTGCCGTTTAACAAGATTTTATTCGA--
* * ** *
59739769 TGAGTTTGTTACAAAAAACGAGA
63 T-A--TTGTTTCCAAATTC---T
* ** *
59739792 AATTAAATTAAATAAAATCTGTTTCGAGATTTATTCTTGCTGTTTAACAAGATTTTATTTTATTT
1 AATTAAATTAAATAAAATCTGTTTCGAGATTTATTCTTGCCGTTTAACAAGATTTTATTCGATAT
59739857 TGTTTCCAAATTCT
66 TGTTTCCAAATTCT
* * * *
59739871 AATTGAATTAAATAAAATTTGTTTTGGGATTTATTAC-TGCCGTTTAACAAGATTTTATTCGATA
1 AATTAAATTAAATAAAATCTGTTTCGAGATTTATT-CTTGCCGTTTAACAAGATTTTATTCGATA
59739935 TTGTTT
65 TTGTTT
59739941 TGTTTCCAAA
Statistics
Matches: 128, Mismatches: 18, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
79 60 0.47
80 1 0.01
82 10 0.08
85 1 0.01
86 51 0.40
87 5 0.04
ACGTcount: A:0.34, C:0.09, G:0.12, T:0.46
Consensus pattern (79 bp):
AATTAAATTAAATAAAATCTGTTTCGAGATTTATTCTTGCCGTTTAACAAGATTTTATTCGATAT
TGTTTCCAAATTCT
Found at i:59743549 original size:23 final size:21
Alignment explanation
Indices: 59743507--59743558 Score: 59
Period size: 23 Copynumber: 2.4 Consensus size: 21
59743497 ATGCCAAGTA
*
59743507 AAAAATAATTAATACTTAGTG
1 AAAAATAATAAATACTTAGTG
* *
59743528 AAAAATAATAATATATTGTAGTT
1 AAAAATAATAA-ATACT-TAGTG
59743551 AAAAATAA
1 AAAAATAA
59743559 AATTATAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 10 0.38
22 4 0.15
23 12 0.46
ACGTcount: A:0.58, C:0.02, G:0.08, T:0.33
Consensus pattern (21 bp):
AAAAATAATAAATACTTAGTG
Found at i:59746156 original size:40 final size:40
Alignment explanation
Indices: 59746112--59746343 Score: 315
Period size: 40 Copynumber: 5.8 Consensus size: 40
59746102 ATAACCACAA
*
59746112 GCACAAATGCCCTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
59746152 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
59746192 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* * * *
59746232 GCACAATTGCCTTCGGGTCTTATCCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* * *
59746272 GCACAAATGCCTTCGGGTCTTGGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* * *
59746312 GCACAATTGCCTTCGGGACTTAGCCTGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
59746344 CATTCAAATG
Statistics
Matches: 168, Mismatches: 21, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 4 0.02
40 157 0.93
41 7 0.04
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:59746215 original size:80 final size:80
Alignment explanation
Indices: 59746112--59746343 Score: 358
Period size: 80 Copynumber: 2.9 Consensus size: 80
59746102 ATAACCACAA
* * * *
59746112 GCACAAATGCCCTCGGGTCTTAGCCCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTAGCACAATTGCCTTCGGGTCTTAGC
*
59746176 CCGGATATATCAACTC
65 CCGGATATAGCAACTC
*
59746192 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTATCC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCC
*
59746257 CGGGTATAGCAACTC
66 CGGATATAGCAACTC
* *
59746272 GCACAAATGCCTTCGGGTCTTGGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGACTTAGCC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCC
*
59746337 TGGATAT
66 CGGATAT
59746344 CATTCAAATG
Statistics
Matches: 139, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
80 135 0.97
81 4 0.03
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.25
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCC
CGGATATAGCAACTC
Found at i:59746316 original size:120 final size:120
Alignment explanation
Indices: 59746083--59746342 Score: 353
Period size: 120 Copynumber: 2.2 Consensus size: 120
59746073 ACCCAAGTTT
* * * *
59746083 CTTCGGAATTTAG-CCGGATATAACCACAAGCACAAATGCCCTCGGGTCTTAGCCCGGATATATC
1 CTTCGGGACTTAGCCCGGATAAAACCACAAGCACAAATGCCCTCGGGTCTTAGCCCGGATATAGC
* *
59746147 AACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGC
66 AACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAATCAACTAGCACAAATGC
* * * * * * *
59746202 CTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTATCCCGGGTATAGC
1 CTTCGGGACTTAGCCCGGATAAAACCACAAGCACAAATGCCCTCGGGTCTTAGCCCGGATATAGC
* *
59746267 AACTCGCACAAATGCCTTCGGGTCTTGGCCCGGATAAAATC-ACTAGCACAATTGC
66 AACTCGCACAAATGCCTTCGGGTCTTAGCCCGGAT-AAATCAACTAGCACAAATGC
*
59746322 CTTCGGGACTTAGCCTGGATA
1 CTTCGGGACTTAGCCCGGATA
59746343 TCATTCAAAT
Statistics
Matches: 122, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
119 10 0.08
120 108 0.89
121 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (120 bp):
CTTCGGGACTTAGCCCGGATAAAACCACAAGCACAAATGCCCTCGGGTCTTAGCCCGGATATAGC
AACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAATCAACTAGCACAAATGC
Found at i:59749005 original size:26 final size:26
Alignment explanation
Indices: 59748952--59749001 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
59748942 ATAATTATTT
*
59748952 TTAAATATGTAATTATCACAACTTTA
1 TTAAATATATAATTATCACAACTTTA
59748978 TTAAAT-TATAATTATC-CTAACTTT
1 TTAAATATATAATTATCAC-AACTTT
59749002 TATTTTAGGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 1 0.05
25 15 0.68
26 6 0.27
ACGTcount: A:0.40, C:0.12, G:0.02, T:0.46
Consensus pattern (26 bp):
TTAAATATATAATTATCACAACTTTA
Found at i:59750614 original size:26 final size:27
Alignment explanation
Indices: 59750566--59750618 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
59750556 GCCCAGAGAG
* *
59750566 AAAAGAAGAGAAATAATTTTTTTTTCC
1 AAAAGAAGACAAATAATTATTTTTTCC
*
59750593 AAAAGAAG-CAAATGATTATTTTTTCC
1 AAAAGAAGACAAATAATTATTTTTTCC
59750619 TTACAATTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 15 0.65
27 8 0.35
ACGTcount: A:0.43, C:0.09, G:0.11, T:0.36
Consensus pattern (27 bp):
AAAAGAAGACAAATAATTATTTTTTCC
Found at i:59751311 original size:12 final size:11
Alignment explanation
Indices: 59751283--59751330 Score: 53
Period size: 12 Copynumber: 4.2 Consensus size: 11
59751273 TTTAAATTTA
59751283 TTATTATTATT
1 TTATTATTATT
*
59751294 GCTATTATTCATT
1 -TTATTATT-ATT
59751307 TTATTAGTTATT
1 TTATTA-TTATT
59751319 TTATT-TTATT
1 TTATTATTATT
59751329 TT
1 TT
59751331 TTCTTTGATT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
10 7 0.22
12 20 0.62
13 5 0.16
ACGTcount: A:0.23, C:0.04, G:0.04, T:0.69
Consensus pattern (11 bp):
TTATTATTATT
Found at i:59755691 original size:44 final size:44
Alignment explanation
Indices: 59755606--59756534 Score: 364
Period size: 44 Copynumber: 20.4 Consensus size: 44
59755596 AATCCTATAC
* *
59755606 CCCTGAAGTTACAGTGG-GACAGATTGAAG-T-C--ATCTTATCT
1 CCCTGAAGTTGCAGTGGAG-CAGATTAAAGTTACAAATCTTATCT
* * **
59755646 CCCTAAAGTTGCAATGGAGCAGATTAAAGCCACAAATCTTATCT
1 CCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAATCTTATCT
* * * * *
59755690 CCCTAAAGTTGCAGTGGAGTAGATTGAAGATAGTAAATCTTATCT
1 CCCTGAAGTTGCAGTGGAGCAGATTAAAGTTA-CAAATCTTATCT
* * * * * * * *
59755735 CTCTAAAATTGTAGTAGAGTAGATTAAAGTTATAAACCTTATCT
1 CCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAATCTTATCT
** *
59755779 CCCTGAAGTTGCAGTGGAGCA-AGTCGAAGTTACAAGTCTTATCT
1 CCCTGAAGTTGCAGTGGAGCAGA-TTAAAGTTACAAATCTTATCT
* * * * * * *
59755823 CCCTGAAGTAGCAGTGGAGCAAACTGAAGATAGAGAATCTTATTT
1 CCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACA-AATCTTATCT
* * *
59755868 CCCTGAAGTTACAGTGGAACATATTAAAGCTACAAATTACAAATCTTATCT
1 CCCTGAAGTTGCAGTGGAGCAGATTAAAG-------TTACAAATCTTATCT
* * * *
59755919 CCCTGAAGTTACAGTGGAGTAAATTAAAGTTACAGATCTTATCT
1 CCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAATCTTATCT
* * * ** *
59755963 CCCTAAAGTTGCAATGGAGTAGATCGAA-TATAGAAAATCTTATCT
1 CCCTGAAGTTGCAGTGGAGCAGATTAAAGT-TA-CAAATCTTATCT
* * * * * *
59756008 CTCTAAAGCTACAGTTGAGCAGATTGAAGTTACAAATCTTATCT
1 CCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAATCTTATCT
* * * * * *
59756052 CCTTGAAGTTGCAGTAGAACAGATTGAAGCTACTAATCTTATCT
1 CCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAATCTTATCT
* * ** * * *
59756096 CCCTGAAGTTGCAATGGAGTAGATTGAAA-CAATAAGTCCTATAC-
1 CCCTGAAGTTGCAGTGGAGCAGATT-AAAGTTACAAATCTTAT-CT
* * * *
59756140 CTCTGAAGTTGCACTAGG-TC-GAATTAAA-TCTACCATAGCAAGTCTAATCT
1 CCCTGAAGTTGCAGT-GGAGCAG-ATTAAAGT-TA-C--A--AA-TCTTATCT
** * * * *
59756190 CTTTAAAGTTGCAGTGGAATGACTAAAGCTACAAGCTACAAATCTTATCT
1 CCCTGAAGTTGCAGTGG-A-G-C-AGA-TTA-AAGTTACAAATCTTATCT
* * * * *** * *
59756240 CCCTAAAGTTGCAGTGGAGTAGATTGAAGATGTTAATATTATTT
1 CCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAATCTTATCT
* * *
59756284 CCCTAAAGTTGCAGTGGA--ATGAATTAAAGCTACAAGTTATGAATCTTATTT
1 CCCTGAAGTTGCAGTGGAGCA-G-ATTAAAGTTAC-----A--AATCTTATCT
* * *
59756335 CCCTGAAGTTGCAGTGGAACAAATTAAAGCTACAAGTTACAAATCTTATAT
1 CCCTGAAGTTGCAGTGGAGCAGA-T-----TA-AAGTTACAAATCTTATCT
* * * * *
59756386 CCCTGAAGTTGCAGTGAAGTAGATTGAAAATGT--GAATATTA-CTT
1 CCCTGAAGTTGCAGTGGAGCAGATT-AAAGT-TACAAATCTTATC-T
* * * * *
59756430 CCCTGAAGTTGCAGTAGAGTAGATTGAAGCTACTAATCTTATCT
1 CCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAATCTTATCT
* ** * *
59756474 CCCTGAAGTTGCAGTGGAGCATATCGAAGTGACAATTCTTATAC-
1 CCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAATCTTAT-CT
*
59756518 CCCTGAAGTTGTAGTGG
1 CCCTGAAGTTGCAGTGG
59756535 GTTAGAACAA
Statistics
Matches: 675, Mismatches: 149, Indels: 126
0.71 0.16 0.13
Matches are distributed among these distances:
40 23 0.03
41 1 0.00
42 3 0.00
43 9 0.01
44 358 0.53
45 114 0.17
46 5 0.01
47 1 0.00
48 1 0.00
49 5 0.01
50 39 0.06
51 92 0.14
52 4 0.01
53 4 0.01
54 1 0.00
55 3 0.00
56 4 0.01
57 2 0.00
58 6 0.01
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (44 bp):
CCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAATCTTATCT
Found at i:59755865 original size:89 final size:90
Alignment explanation
Indices: 59755606--59756103 Score: 290
Period size: 89 Copynumber: 5.6 Consensus size: 90
59755596 AATCCTATAC
* * * * * * *
59755606 CCCTGAAGTTACAGTGGGAC-AGATTGAAG-T-C--ATCTTATCTCCCTAAAGTTGCAATGGAGC
1 CCCTGAAGTTGCAGTGGAACAAGATCGAAGTTACAAATCTTATCTCCCTGAAGCTACAGTGGAGC
* * **
59755666 AGATTAAAGCCACA-AATCTTATCT
66 AAATTGAAGTTACAGAATCTTATCT
* ** * * * * * ** ** *
59755690 CCCTAAAGTTGCAGTGG-AGTAGATTGAAGATAGTAAATCTTATCTCTCTAAAATTGTAGTAGAG
1 CCCTGAAGTTGCAGTGGAACAAGATCGAAGTTA-CAAATCTTATCTCCCTGAAGCTACAGTGGAG
* * * * *
59755754 TAGATTAAAGTTATA-AACCTTATCT
65 CAAATTGAAGTTACAGAATCTTATCT
* *
59755779 CCCTGAAGTTGCAGTGGAGCAAG-TCGAAGTTACAAGTCTTATCTCCCTGAAG-TAGCAGTGGAG
1 CCCTGAAGTTGCAGTGGAACAAGATCGAAGTTACAAATCTTATCTCCCTGAAGCTA-CAGTGGAG
* * * *
59755842 CAAACTGAAGATAGAGAATCTTATTT
65 CAAATTGAAGTTACAGAATCTTATCT
* * * *
59755868 CCCTGAAGTTACAGTGGAACATATTAAAGCTAC-AAATTACAAATCTTATCTCCCTGAAGTTACA
1 CCCTGAAGTTGCAGTGGAAC------AAGAT-CGAAGTTACAAATCTTATCTCCCTGAAGCTACA
* *
59755932 GTGGAGTAAATTAAAGTTACAG-ATCTTATCT
59 GTGGAGCAAATTGAAGTTACAGAATCTTATCT
* * ** * * * *
59755963 CCCTAAAGTTGCAATGG-AGTAGATCGAA-TATAGAAAATCTTATCTCTCTAAAGCTACAGTTGA
1 CCCTGAAGTTGCAGTGGAACAAGATCGAAGT-TA-CAAATCTTATCTCCCTGAAGCTACAGTGGA
*
59756026 GCAGATTGAAGTTACA-AATCTTATCT
64 GCAAATTGAAGTTACAGAATCTTATCT
* * * * *
59756052 CCTTGAAGTTGCAGTAGAAC-AGATTGAAGCTACTAATCTTATCTCCCTGAAG
1 CCCTGAAGTTGCAGTGGAACAAGATCGAAGTTACAAATCTTATCTCCCTGAAG
59756104 TTGCAATGGA
Statistics
Matches: 319, Mismatches: 71, Indels: 44
0.74 0.16 0.10
Matches are distributed among these distances:
83 1 0.00
84 24 0.08
85 1 0.00
87 3 0.01
88 53 0.17
89 161 0.50
90 3 0.01
94 1 0.00
95 25 0.08
96 44 0.14
97 3 0.01
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.30
Consensus pattern (90 bp):
CCCTGAAGTTGCAGTGGAACAAGATCGAAGTTACAAATCTTATCTCCCTGAAGCTACAGTGGAGC
AAATTGAAGTTACAGAATCTTATCT
Found at i:59755894 original size:133 final size:131
Alignment explanation
Indices: 59755592--59756119 Score: 451
Period size: 133 Copynumber: 4.0 Consensus size: 131
59755582 TCAGTGAAAT
* * * * *
59755592 TAGAAATCCTATAC-CCCTGAAGTTACAGTGGGACAGATTGAAG-T-C--ATCTTATCTCCCTAA
1 TAGAAATCTTAT-CTCCCTAAAGTTACAGTGGAACAGATTAAAGTTACAAATCTTATCTCCCTGA
* * * *
59755652 AGTTGCAATGGAGCAGATTAAAGCCACAAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTGA
65 AGTTGCAGTGGAGCAGATTAAAGCTACAAGTCTTATCTCCCTAAAGTTGCAATGGAGTAGA-TGA
59755717 AGA
129 AGA
* * ** * ** * *
59755720 TAGTAAATCTTATCTCTCTAAAATTGTAGTAGAGTAGATTAAAGTTATAAACCTTATCTCCCTGA
1 TAG-AAATCTTATCTCCCTAAAGTTACAGTGGAACAGATTAAAGTTACAAATCTTATCTCCCTGA
** * * * * * *
59755785 AGTTGCAGTGGAGCA-AGTCGAAGTTACAAGTCTTATCTCCCTGAAGTAGCAGTGGAGCAAACTG
65 AGTTGCAGTGGAGCAGA-TTAAAGCTACAAGTCTTATCTCCCTAAAGTTGCAATGGAGTAGA-TG
59755849 AAGA
128 AAGA
* * *
59755853 TAGAGAATCTTATTTCCCTGAAGTTACAGTGGAACATATTAAAGCTACAAATTACAAATCTTATC
1 TAGA-AATCTTATCTCCCTAAAGTTACAGTGGAACAGATTAAAG-------TTACAAATCTTATC
* * * *
59755918 TCCCTGAAGTTACAGTGGAGTAAATTAAAGTTAC-AGATCTTATCTCCCTAAAGTTGCAATGGAG
58 TCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAG-TCTTATCTCCCTAAAGTTGCAATGGAG
*
59755982 TAGATCGAATA
122 TAGAT-GAAGA
* * * * * *
59755993 TAGAAAATCTTATCTCTCTAAAGCTACAGTTGAGCAGATTGAAGTTACAAATCTTATCTCCTTGA
1 TAG-AAATCTTATCTCCCTAAAGTTACAGTGGAACAGATTAAAGTTACAAATCTTATCTCCCTGA
* * * *
59756058 AGTTGCAGTAGAACAGATTGAAGCTACTAA-TCTTATCTCCCTGAAGTTGCAATGGAGTAGAT
65 AGTTGCAGTGGAGCAGATTAAAGCTAC-AAGTCTTATCTCCCTAAAGTTGCAATGGAGTAGAT
59756120 TGAAACAATA
Statistics
Matches: 315, Mismatches: 64, Indels: 37
0.76 0.15 0.09
Matches are distributed among these distances:
128 4 0.01
129 27 0.09
130 1 0.00
132 2 0.01
133 171 0.54
135 1 0.00
139 3 0.01
140 104 0.33
141 2 0.01
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (131 bp):
TAGAAATCTTATCTCCCTAAAGTTACAGTGGAACAGATTAAAGTTACAAATCTTATCTCCCTGAA
GTTGCAGTGGAGCAGATTAAAGCTACAAGTCTTATCTCCCTAAAGTTGCAATGGAGTAGATGAAG
A
Found at i:59756048 original size:184 final size:184
Alignment explanation
Indices: 59755724--59756084 Score: 406
Period size: 184 Copynumber: 2.0 Consensus size: 184
59755714 TGAAGATAGT
* ** * * *
59755724 AAATCTTATCTCTCTAAAATTGTAGTAGAGTAGATTAAAGTTATAAACCTTATCTCCCTGAAGTT
1 AAATCTTATCTCCCTAAAATTACAGTAGAGTAAATTAAAGTTACAAACCTTATCTCCCTAAAGTT
* * * *
59755789 GCAGTGGAGCAAGTCGAAGTTACAAGTCTTATCTCCCTGAAGTAGCAGTGGAGCAAACTGAAGAT
66 GCAATGGAGCAAGTCGAAGTTAAAAATCTTATCTCCCTAAAGTAGCAGTGGAGCAAACTGAAGAT
* * * *
59755854 AGAGAATCTTATTTCCCTGAAGTTACAGTGGAACATATTAAAGCTACAAATTAC
131 ACAGAATCTTATCTCCCTGAAGTTACAGTAGAACAGATTAAAGCTACAAATTAC
* * * * *
59755908 AAATCTTATCTCCCTGAAGTTACAGTGGAGTAAATTAAAGTTACAGATCTTATCTCCCTAAAGTT
1 AAATCTTATCTCCCTAAAATTACAGTAGAGTAAATTAAAGTTACAAACCTTATCTCCCTAAAGTT
* * * * *
59755973 GCAATGGAG-TAGATCGAA-TATAGAAAATCTTATCTCTCTAAAGCTA-CAGTTGAGCAGATTGA
66 GCAATGGAGCAAG-TCGAAGT-TA-AAAATCTTATCTCCCTAAAG-TAGCAGTGGAGCAAACTGA
* * * *
59756035 AGTTACA-AATCTTATCTCCTTGAAGTTGCAGTAGAACAGATTGAAGCTAC
127 AGATACAGAATCTTATCTCCCTGAAGTTACAGTAGAACAGATTAAAGCTAC
59756085 TAATCTTATC
Statistics
Matches: 145, Mismatches: 28, Indels: 8
0.80 0.15 0.04
Matches are distributed among these distances:
183 3 0.02
184 106 0.73
185 34 0.23
186 2 0.01
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (184 bp):
AAATCTTATCTCCCTAAAATTACAGTAGAGTAAATTAAAGTTACAAACCTTATCTCCCTAAAGTT
GCAATGGAGCAAGTCGAAGTTAAAAATCTTATCTCCCTAAAGTAGCAGTGGAGCAAACTGAAGAT
ACAGAATCTTATCTCCCTGAAGTTACAGTAGAACAGATTAAAGCTACAAATTAC
Found at i:59756360 original size:51 final size:51
Alignment explanation
Indices: 59756278--59756401 Score: 194
Period size: 51 Copynumber: 2.4 Consensus size: 51
59756268 GATGTTAATA
* ** **
59756278 TTATTTCCCTAAAGTTGCAGTGGAATGAATTAAAGCTACAAGTTATGAATC
1 TTATTTCCCTGAAGTTGCAGTGGAACAAATTAAAGCTACAAGTTACAAATC
59756329 TTATTTCCCTGAAGTTGCAGTGGAACAAATTAAAGCTACAAGTTACAAATC
1 TTATTTCCCTGAAGTTGCAGTGGAACAAATTAAAGCTACAAGTTACAAATC
*
59756380 TTATATCCCTGAAGTTGCAGTG
1 TTATTTCCCTGAAGTTGCAGTG
59756402 AAGTAGATTG
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 67 1.00
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (51 bp):
TTATTTCCCTGAAGTTGCAGTGGAACAAATTAAAGCTACAAGTTACAAATC
Found at i:59758111 original size:4 final size:4
Alignment explanation
Indices: 59758102--59758129 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
59758092 ATTGTGCCTT
59758102 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
59758130 ATATTTTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:59758176 original size:12 final size:11
Alignment explanation
Indices: 59758156--59758195 Score: 53
Period size: 12 Copynumber: 3.4 Consensus size: 11
59758146 TAAAATTTAG
59758156 ATTTTATTATT
1 ATTTTATTATT
59758167 ATTGTTATTATT
1 ATT-TTATTATT
59758179 CATTTTATTAGTT
1 -ATTTTATTA-TT
59758192 ATTT
1 ATTT
59758196 GTTTTCTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
11 3 0.12
12 18 0.69
13 5 0.19
ACGTcount: A:0.25, C:0.03, G:0.05, T:0.68
Consensus pattern (11 bp):
ATTTTATTATT
Found at i:59760665 original size:3 final size:3
Alignment explanation
Indices: 59760657--59760686 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
59760647 TTAATTTAGT
59760657 TTA TTA TTA TTA TTA TTA TTA TTA -TA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
59760687 GAAATAAGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:59761569 original size:17 final size:15
Alignment explanation
Indices: 59761549--59761582 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 15
59761539 AGGGGAGAAA
59761549 GAAAGAAAGGAAAAAGG
1 GAAAGAAA-G-AAAAGG
59761566 GAAAGAAAGAAAAGG
1 GAAAGAAAGAAAAGG
59761581 GA
1 GA
59761583 GAAATATGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
16 1 0.06
17 8 0.47
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (15 bp):
GAAAGAAAGAAAAGG
Found at i:59761586 original size:17 final size:18
Alignment explanation
Indices: 59761548--59761586 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
59761538 TAGGGGAGAA
59761548 AGAAAGAAAGGAAAAAGG
1 AGAAAGAAAGGAAAAAGG
*
59761566 -GAAAGAAA-GAAAAGGG
1 AGAAAGAAAGGAAAAAGG
59761582 AGAAA
1 AGAAA
59761587 TATGGATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (18 bp):
AGAAAGAAAGGAAAAAGG
Found at i:59762289 original size:18 final size:19
Alignment explanation
Indices: 59762253--59762295 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
59762243 ATGAGGTATT
*
59762253 CTGTGTACCGCTACTGTTA
1 CTGTGTACCGCTACCGTTA
*
59762272 CTGT-TACCGTTACCGTTA
1 CTGTGTACCGCTACCGTTA
59762290 C-GTGTA
1 CTGTGTA
59762296 TTCCAGCTCC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 2 0.10
18 15 0.71
19 4 0.19
ACGTcount: A:0.16, C:0.26, G:0.21, T:0.37
Consensus pattern (19 bp):
CTGTGTACCGCTACCGTTA
Found at i:59762420 original size:18 final size:18
Alignment explanation
Indices: 59762397--59762440 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
59762387 TAAATAAATG
*
59762397 TACTGAATAATTGATTGC
1 TACTGAATAATTGACTGC
* *
59762415 TACTGAATATTTGACTGT
1 TACTGAATAATTGACTGC
59762433 TACTGAAT
1 TACTGAAT
59762441 TACTGATTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.32, C:0.11, G:0.16, T:0.41
Consensus pattern (18 bp):
TACTGAATAATTGACTGC
Found at i:59762464 original size:17 final size:18
Alignment explanation
Indices: 59762432--59762471 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
59762422 TATTTGACTG
*
59762432 TTACTGAATTACTGATTA
1 TTACTGAATGACTGATTA
*
59762450 TTACTG-ATGACTGATTG
1 TTACTGAATGACTGATTA
59762467 TTACT
1 TTACT
59762472 AAAATGGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (18 bp):
TTACTGAATGACTGATTA
Found at i:59764832 original size:21 final size:23
Alignment explanation
Indices: 59764800--59764857 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 23
59764790 ATATATATAC
59764800 TTAATATATATTT-A-ATATATT
1 TTAATATATATTTAACATATATT
59764821 TTAAT-TATTATTTAACATATATT
1 TTAATATA-TATTTAACATATATT
*
59764844 TTAAAATTATATTT
1 TTAATA-TATATTT
59764858 TTTATTAATC
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
20 2 0.06
21 10 0.32
22 1 0.03
23 11 0.35
24 5 0.16
25 2 0.06
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (23 bp):
TTAATATATATTTAACATATATT
Found at i:59764843 original size:11 final size:11
Alignment explanation
Indices: 59764792--59764844 Score: 65
Period size: 11 Copynumber: 4.9 Consensus size: 11
59764782 TAATTTTGAT
*
59764792 ATATATACTTA
1 ATATATATTTA
59764803 ATATATATTTA
1 ATATATATTTA
59764814 ATATAT-TTTA
1 ATATATATTTA
59764824 AT-TATTATTTA
1 ATATA-TATTTA
*
59764835 ACATATATTT
1 ATATATATTT
59764845 TAAAATTATA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
9 2 0.05
10 7 0.19
11 26 0.70
12 2 0.05
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.55
Consensus pattern (11 bp):
ATATATATTTA
Found at i:59768232 original size:156 final size:154
Alignment explanation
Indices: 59767847--59768294 Score: 577
Period size: 156 Copynumber: 2.9 Consensus size: 154
59767837 TTTTTTCTGC
* * *
59767847 TGATTCTGAAAAAATAATTTTGAG-ATA--ATTCTAAAAAAATATCCTGGGATTCCCAGGAAATT
1 TGATTCTGAAAAAATAATTTTGAGAATATGGTTCTGAAAAAATATCCTGGGATTCCGA-GAAATT
* * * *
59767909 TGATAGTTGGGGTTGAAAAACGCTTCAAGTAGGATGTACTGTCAGCAAAAGTACTGAAAAAGCTT
65 TGATAGTTGGGGTTGAAAAACGCTTCAAGCAAGATGCACTGTCAGCAAAAGTACTGAAAAAGCTC
** **
59767974 TTAGCTGGA--CTTTTTTTGTACGT
130 ACAGCTGGATGCTCATTTTGTACGT
* * *
59767997 TGATTCTG-AAAAATAATTTTGAGAAGATGGTTCTGCAAAAACATCCTGGGATTCTCGAGAAATT
1 TGATTCTGAAAAAATAATTTTGAGAATATGGTTCTGAAAAAATATCCTGGGATTC-CGAGAAATT
* * * *
59768061 TGATCGTTGGAGTTGAAAAATGCTTCAAGCAAGATGCACTGTCAGCAAAAGTATTGAAAAAGCTC
65 TGATAGTTGGGGTTGAAAAACGCTTCAAGCAAGATGCACTGTCAGCAAAAGTACTGAAAAAGCTC
59768126 ACAGCTGGATGCTCATTTTGTACTGT
130 ACAGCTGGATGCTCATTTTGTAC-GT
** *
59768152 TGATTCTGAAAAAATAATTTTGAGAATATGGTTCTGAAAAAATAT-CTCAAGATTCACGAAAAAT
1 TGATTCTGAAAAAATAATTTTGAGAATATGGTTCTGAAAAAATATCCT-GGGATTC-CGAGAAAT
* *
59768216 CTGATAGTTGGGGTTGAAAAACGCTTCAAACAAGATGCACTGTCAGCAAAAGTACTGAAAAAGCT
64 TTGATAGTTGGGGTTGAAAAACGCTTCAAGCAAGATGCACTGTCAGCAAAAGTACTGAAAAAGCT
* *
59768281 CCCAACTGGATGCT
129 CACAGCTGGATGCT
59768295 TTTTTCAATA
Statistics
Matches: 256, Mismatches: 33, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
149 15 0.06
150 10 0.04
152 91 0.36
153 2 0.01
154 10 0.04
155 12 0.05
156 116 0.45
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (154 bp):
TGATTCTGAAAAAATAATTTTGAGAATATGGTTCTGAAAAAATATCCTGGGATTCCGAGAAATTT
GATAGTTGGGGTTGAAAAACGCTTCAAGCAAGATGCACTGTCAGCAAAAGTACTGAAAAAGCTCA
CAGCTGGATGCTCATTTTGTACGT
Found at i:59771464 original size:59 final size:59
Alignment explanation
Indices: 59771381--59771546 Score: 264
Period size: 59 Copynumber: 2.8 Consensus size: 59
59771371 TAACTCCTAA
* *
59771381 TTTATTAAATGAAACAATGA-AAAAATAATTTGTACAAACATATTCAAAATAACTTATAT
1 TTTATTAAATGAAACAAT-ATAAAAATAATTTGTACAAAAATATTCAAAAGAACTTATAT
* *
59771440 TTTATTAAATGAAACAATATAAAAATAATTTGTACAAAAATATTCAAAAGAACTTCTGT
1 TTTATTAAATGAAACAATATAAAAATAATTTGTACAAAAATATTCAAAAGAACTTATAT
*
59771499 TTTATTAAATGAAACAATATAAAAA-AATTTGTACAAATATATTCAAAA
1 TTTATTAAATGAAACAATATAAAAATAATTTGTACAAAAATATTCAAAA
59771547 ATAAATCAAT
Statistics
Matches: 101, Mismatches: 5, Indels: 3
0.93 0.05 0.03
Matches are distributed among these distances:
58 23 0.23
59 78 0.77
ACGTcount: A:0.53, C:0.08, G:0.05, T:0.34
Consensus pattern (59 bp):
TTTATTAAATGAAACAATATAAAAATAATTTGTACAAAAATATTCAAAAGAACTTATAT
Found at i:59771947 original size:18 final size:18
Alignment explanation
Indices: 59771921--59771957 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
59771911 AAGGAAACAT
59771921 ATAAAGGTTAGAATACAC
1 ATAAAGGTTAGAATACAC
*
59771939 ATAAGGGTTAGAATACAC
1 ATAAAGGTTAGAATACAC
59771957 A
1 A
59771958 CCTGGCATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.49, C:0.11, G:0.19, T:0.22
Consensus pattern (18 bp):
ATAAAGGTTAGAATACAC
Found at i:59782274 original size:37 final size:39
Alignment explanation
Indices: 59782190--59782274 Score: 95
Period size: 37 Copynumber: 2.3 Consensus size: 39
59782180 ACTCCAACTG
* *
59782190 CCCTATACACCACAACTGGGCTATGGTAGGCCCATCCAA
1 CCCTACACACCACAACAGGGCTATGGTAGGCCCATCCAA
* ***
59782229 CCC-GCACACCACAA-AGGGCTATGGTAGTTTCATCC-A
1 CCCTACACACCACAACAGGGCTATGGTAGGCCCATCCAA
59782265 CCCTACACAC
1 CCCTACACAC
59782275 TACGATAGTA
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
36 4 0.11
37 22 0.58
38 9 0.24
39 3 0.08
ACGTcount: A:0.28, C:0.38, G:0.16, T:0.18
Consensus pattern (39 bp):
CCCTACACACCACAACAGGGCTATGGTAGGCCCATCCAA
Found at i:59783217 original size:17 final size:17
Alignment explanation
Indices: 59783191--59783237 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
59783181 ATGAGAAATG
*
59783191 AAAACCAAAAGAAAGAA-
1 AAAACAAAAAGAAA-AAC
*
59783208 AAAACAAAAACAAAAAC
1 AAAACAAAAAGAAAAAC
*
59783225 AAAATAAAAAGAA
1 AAAACAAAAAGAA
59783238 GAAGCTACAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
16 2 0.08
17 23 0.92
ACGTcount: A:0.81, C:0.11, G:0.06, T:0.02
Consensus pattern (17 bp):
AAAACAAAAAGAAAAAC
Found at i:59786253 original size:36 final size:36
Alignment explanation
Indices: 59786206--59786277 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
59786196 TTGCACAAGT
59786206 TAGGTCAATCTATGGTTTCTTTACTTGTAAGAAAGC
1 TAGGTCAATCTATGGTTTCTTTACTTGTAAGAAAGC
59786242 TAGGTCAATCTATGGTTTCTTTACTTGTAAGAAAGC
1 TAGGTCAATCTATGGTTTCTTTACTTGTAAGAAAGC
59786278 CTTACTTTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (36 bp):
TAGGTCAATCTATGGTTTCTTTACTTGTAAGAAAGC
Found at i:59790836 original size:18 final size:17
Alignment explanation
Indices: 59790793--59790837 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
59790783 TTAATATTCA
* *
59790793 AATTTAAATATATTTTT
1 AATTAAAATTTATTTTT
59790810 AATTAAAATTTATTTTAT
1 AATTAAAATTTATTTT-T
*
59790828 AATTGAAATT
1 AATTAAAATT
59790838 GCATCAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 14 0.58
18 10 0.42
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (17 bp):
AATTAAAATTTATTTTT
Found at i:59795493 original size:44 final size:44
Alignment explanation
Indices: 59795414--59795566 Score: 141
Period size: 44 Copynumber: 3.5 Consensus size: 44
59795404 TCCGGGACGT
* * * * *
59795414 GGTCTTACATG-TACTTCA-ATATCGATGCCTCTGTCCTAGACAG
1 GGTCTTACACGATATTTCAGATA-CGATGCCTATGTCCCAGACAC
* *
59795457 GGTCTTACACGATATTTCAGATACGATGTCTATGTCCCAGACAT
1 GGTCTTACACGATATTTCAGATACGATGCCTATGTCCCAGACAC
* * * * ** *
59795501 GGTCTTACACGTAAATCTCAAAT-CGAGGCCCGTGTCCCAAACAC
1 GGTCTTACACG-ATATTTCAGATACGATGCCTATGTCCCAGACAC
59795545 GGTCTTACACGATATTTCAGAT
1 GGTCTTACACGATATTTCAGAT
59795567 TAATGTCAAC
Statistics
Matches: 89, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
43 18 0.20
44 60 0.67
45 11 0.12
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.29
Consensus pattern (44 bp):
GGTCTTACACGATATTTCAGATACGATGCCTATGTCCCAGACAC
Found at i:59798683 original size:6 final size:6
Alignment explanation
Indices: 59798674--59798702 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
59798664 TTTTAATTTT
59798674 AAAATA AAAATA AAAATA AAAATA AAAAT
1 AAAATA AAAATA AAAATA AAAATA AAAAT
59798703 CACTTTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:59802265 original size:13 final size:13
Alignment explanation
Indices: 59802244--59802276 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
59802234 AAACTTTATT
*
59802244 ATTATTATTTTTA
1 ATTAATATTTTTA
59802257 ATTAATATTTTTA
1 ATTAATATTTTTA
59802270 ATTAATA
1 ATTAATA
59802277 AATATTTTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
ATTAATATTTTTA
Found at i:59802487 original size:9 final size:9
Alignment explanation
Indices: 59802473--59802505 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
59802463 TAATTAATTG
59802473 AAATATTTC
1 AAATATTTC
59802482 AAATATTTC
1 AAATATTTC
*
59802491 AAATATTTA
1 AAATATTTC
59802500 AAATAT
1 AAATAT
59802506 CATATCCACA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (9 bp):
AAATATTTC
Found at i:59803656 original size:20 final size:20
Alignment explanation
Indices: 59803627--59803665 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
59803617 ATATAATGTA
*
59803627 GAAAAATTTAAAATTTATTT
1 GAAAAATTTAAAAATTATTT
*
59803647 GAAAATTTTAAAAATTATT
1 GAAAAATTTAAAAATTATT
59803666 ACAAATTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (20 bp):
GAAAAATTTAAAAATTATTT
Found at i:59804426 original size:19 final size:19
Alignment explanation
Indices: 59804398--59804468 Score: 69
Period size: 18 Copynumber: 3.7 Consensus size: 19
59804388 AATTTATTTA
59804398 TTTTATTCTATTTTCTAA-AT
1 TTTTA-TCTATTTT-TAATAT
59804418 TTTTATCTA-TTTTAATAT
1 TTTTATCTATTTTTAATAT
*
59804436 TTTTATTTA-TTTTAATAAT
1 TTTTATCTATTTTTAAT-AT
59804455 TTTTAAT-TATTTTT
1 TTTT-ATCTATTTTT
59804469 TGCTACACGT
Statistics
Matches: 46, Mismatches: 1, Indels: 8
0.84 0.02 0.15
Matches are distributed among these distances:
17 3 0.07
18 20 0.43
19 12 0.26
20 11 0.24
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTTATCTATTTTTAATAT
Found at i:59804439 original size:18 final size:18
Alignment explanation
Indices: 59804398--59804459 Score: 72
Period size: 18 Copynumber: 3.3 Consensus size: 18
59804388 AATTTATTTA
59804398 TTTTATTCTATTTTCTAA-AT
1 TTTTA-TCTA-TTT-TAATAT
59804418 TTTTATCTATTTTAATAT
1 TTTTATCTATTTTAATAT
*
59804436 TTTTATTTATTTTAATAAT
1 TTTTATCTATTTTAAT-AT
59804455 TTTTA
1 TTTTA
59804460 ATTATTTTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
17 3 0.08
18 20 0.51
19 11 0.28
20 5 0.13
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTTATCTATTTTAATAT
Found at i:59804458 original size:10 final size:10
Alignment explanation
Indices: 59804427--59804468 Score: 52
Period size: 10 Copynumber: 4.4 Consensus size: 10
59804417 TTTTTATCTA
59804427 TTTTAA-TAT
1 TTTTAATTAT
*
59804436 TTTTATTTA-
1 TTTTAATTAT
*
59804445 TTTTAATAAT
1 TTTTAATTAT
59804455 TTTTAATTAT
1 TTTTAATTAT
59804465 TTTT
1 TTTT
59804469 TGCTACACGT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
9 12 0.44
10 15 0.56
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (10 bp):
TTTTAATTAT
Found at i:59804921 original size:29 final size:29
Alignment explanation
Indices: 59804888--59804948 Score: 122
Period size: 29 Copynumber: 2.1 Consensus size: 29
59804878 TTTTTTATGT
59804888 TTAAATTGAATATTCAAAATTAGTAAGAA
1 TTAAATTGAATATTCAAAATTAGTAAGAA
59804917 TTAAATTGAATATTCAAAATTAGTAAGAA
1 TTAAATTGAATATTCAAAATTAGTAAGAA
59804946 TTA
1 TTA
59804949 TTCTTAAGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.51, C:0.03, G:0.10, T:0.36
Consensus pattern (29 bp):
TTAAATTGAATATTCAAAATTAGTAAGAA
Found at i:59809735 original size:46 final size:44
Alignment explanation
Indices: 59809581--59809750 Score: 153
Period size: 46 Copynumber: 3.7 Consensus size: 44
59809571 TTTGTGTGCT
** * *
59809581 AGTGTAAGACATGTCTGGGACATGCATCACCCACATTATGAAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCA-AATG-AAGCC
* * * ** * * *
59809627 AATCTAAGATCATGTCTGGGACATGTCATTGGTATTAAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACATG-CATCGGCCTCAA-ATGA-AGCC
59809675 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAAATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTC-AAATG-AAGCC
59809721 AGTGTAAGACATGTCTGGGA-ATGCATCGGC
1 AGTGTAAGACATGTCTGGGACATGCATCGGC
59809751 TACGAGATGT
Statistics
Matches: 98, Mismatches: 20, Indels: 13
0.75 0.15 0.10
Matches are distributed among these distances:
45 10 0.10
46 38 0.39
47 34 0.35
48 16 0.16
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.24
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAATGAAGCC
Found at i:59828208 original size:42 final size:41
Alignment explanation
Indices: 59828109--59828224 Score: 110
Period size: 42 Copynumber: 2.8 Consensus size: 41
59828099 GTAATTCATT
* *
59828109 ATCGACGCCTCTGTCCCAGACAGGGTCTTACATAAAATCAA
1 ATCGACGCCTGTGTCCCAGATAGGGTCTTACATAAAATCAA
* **
59828150 ATACGATGCC-GATGTCCCAGATAGGGTCTTATACATAATCTC-A
1 AT-CGACGCCTG-TGTCCCAGATAGGGTC-T-TACATAAAATCAA
* * *
59828193 ATCGAGGCCTGTGTCCCAGATACGGTTTTACA
1 ATCGACGCCTGTGTCCCAGATAGGGTCTTACA
59828225 CGATGTCTCC
Statistics
Matches: 62, Mismatches: 8, Indels: 11
0.77 0.10 0.14
Matches are distributed among these distances:
40 4 0.06
41 3 0.05
42 41 0.66
43 5 0.08
44 9 0.15
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (41 bp):
ATCGACGCCTGTGTCCCAGATAGGGTCTTACATAAAATCAA
Found at i:59836075 original size:18 final size:19
Alignment explanation
Indices: 59836041--59836076 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
59836031 TGATAGCTCA
*
59836041 AGAAATTTTTACCAAACTT
1 AGAAAATTTTACCAAACTT
59836060 AGAAAATTTT-CCAAACT
1 AGAAAATTTTACCAAACT
59836077 GTAGGGGTCA
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:0.44, C:0.17, G:0.06, T:0.33
Consensus pattern (19 bp):
AGAAAATTTTACCAAACTT
Found at i:59837889 original size:21 final size:21
Alignment explanation
Indices: 59837860--59837907 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
59837850 AAACTTACAC
*
59837860 TTTTGCCCCTAATAATTCACA
1 TTTTTCCCCTAATAATTCACA
* *
59837881 TTTTTCCCCTAATAGTTCACT
1 TTTTTCCCCTAATAATTCACA
59837902 TTTTTC
1 TTTTTC
59837908 ACAATTTAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.21, C:0.27, G:0.04, T:0.48
Consensus pattern (21 bp):
TTTTTCCCCTAATAATTCACA
Found at i:59839060 original size:6 final size:6
Alignment explanation
Indices: 59839057--59839095 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
59839047 AAATAAAATA
*
59839057 AAAAAG AAATAA- CAAAAG AAAAAG AAAAAG AAAAAG AAA
1 AAAAAG AAA-AAG AAAAAG AAAAAG AAAAAG AAAAAG AAA
59839096 TAAAACATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
5 2 0.07
6 25 0.86
7 2 0.07
ACGTcount: A:0.82, C:0.03, G:0.13, T:0.03
Consensus pattern (6 bp):
AAAAAG
Found at i:59845599 original size:42 final size:42
Alignment explanation
Indices: 59845548--59845664 Score: 119
Period size: 43 Copynumber: 2.8 Consensus size: 42
59845538 GAGATGTGCT
* *
59845548 TTTCTGTAAGACCATGTATGGGACATTGGCATCG-TATATGA
1 TTTCTGTAAGACCATGTCTGGGACATTGGCATCGATATATAA
* * * * *
59845589 TTTCGTGTAAGACCTTGTCTAGGAGAGTGGCATCGATATTTAA
1 TTTC-TGTAAGACCATGTCTGGGACATTGGCATCGATATATAA
* * *
59845632 TTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 TTTC-TGTAAGACCATGTCTGGGACATTGGCAT
59845665 TGTACGAGTT
Statistics
Matches: 59, Mismatches: 15, Indels: 2
0.78 0.20 0.03
Matches are distributed among these distances:
41 4 0.07
42 25 0.42
43 30 0.51
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (42 bp):
TTTCTGTAAGACCATGTCTGGGACATTGGCATCGATATATAA
Found at i:59850748 original size:33 final size:33
Alignment explanation
Indices: 59850706--59850771 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
59850696 TTCATTTTCT
59850706 TTGTTACCCAATCCTAGCCGAACTTATAACATA
1 TTGTTACCCAATCCTAGCCGAACTTATAACATA
59850739 TTGTTACCCAATCCTAGCCGAACTTATAACATA
1 TTGTTACCCAATCCTAGCCGAACTTATAACATA
59850772 CTATAGAATC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.33, C:0.27, G:0.09, T:0.30
Consensus pattern (33 bp):
TTGTTACCCAATCCTAGCCGAACTTATAACATA
Found at i:59851942 original size:42 final size:42
Alignment explanation
Indices: 59851881--59851995 Score: 169
Period size: 42 Copynumber: 2.7 Consensus size: 42
59851871 CTTCGTTTTC
** *
59851881 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACAT-A
*
59851924 T-GATGCCATAGCCCAACTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACATA
*
59851965 TCGATGCCATAGCCCAGCTATGGTCTTACAC
1 TCGATGCCATAGCCCAACTATGGTCTTACAC
59851996 GGATCACATA
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
41 2 0.03
42 63 0.95
43 1 0.02
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.30
Consensus pattern (42 bp):
TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACATA
Found at i:59852053 original size:88 final size:91
Alignment explanation
Indices: 59851924--59852091 Score: 202
Period size: 93 Copynumber: 1.9 Consensus size: 91
59851914 CTTCACATAA
* *
59851924 TGATGCCATAGCCCAACTATGGTCTTACACATATTC-ATAT-AT-CGATGCCATAGCCCAGCTAT
1 TGATGCCATAGCCCAACTATGGTCTTACACATATGCAATATCATACGATGCCATAGCCCAGATAT
59851986 GGTCTTACACGGATCACATATCTCAC
66 GGTCTTACACGGATCACATATCTCAC
** * *
59852012 TGATGCCATTTCCCAGA-TATGGTCTTATACAGTA-GCATATATCATACCGATGCCATATCCCAG
1 TGATGCCATAGCCCA-ACTATGGTCTTACACA-TATGCA-ATATCATA-CGATGCCATAGCCCAG
*
59852075 ATATGGTCTTATACGGA
62 ATATGGTCTTACACGGA
59852092 AATCACTTGT
Statistics
Matches: 66, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
88 27 0.41
89 3 0.05
90 4 0.06
91 2 0.03
93 30 0.45
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.30
Consensus pattern (91 bp):
TGATGCCATAGCCCAACTATGGTCTTACACATATGCAATATCATACGATGCCATAGCCCAGATAT
GGTCTTACACGGATCACATATCTCAC
Found at i:59852073 original size:47 final size:46
Alignment explanation
Indices: 59851966--59852091 Score: 155
Period size: 47 Copynumber: 2.7 Consensus size: 46
59851956 ATTCATATAT
* * * *
59851966 CGATGCCATAGCCCAGCTATGGTCTTACACGGATCACATATCTCAC
1 CGATGCCATATCCCAGATATGGTCTTATACGGAGCACATATCTCAC
* * * *
59852012 TGATGCCATTTCCCAGATATGGTCTTATACAGTAGCATATATCAT-AC
1 CGATGCCATATCCCAGATATGGTCTTATAC-GGAGCACATATC-TCAC
59852059 CGATGCCATATCCCAGATATGGTCTTATACGGA
1 CGATGCCATATCCCAGATATGGTCTTATACGGA
59852092 AATCACTTGT
Statistics
Matches: 67, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
46 27 0.40
47 39 0.58
48 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (46 bp):
CGATGCCATATCCCAGATATGGTCTTATACGGAGCACATATCTCAC
Found at i:59852106 original size:7 final size:7
Alignment explanation
Indices: 59852094--59852122 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
59852084 TATACGGAAA
59852094 TCACTTG
1 TCACTTG
59852101 TCACTTG
1 TCACTTG
59852108 TCACTTG
1 TCACTTG
59852115 TCACTTG
1 TCACTTG
59852122 T
1 T
59852123 AGCCGAAGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.14, C:0.28, G:0.14, T:0.45
Consensus pattern (7 bp):
TCACTTG
Found at i:59852156 original size:31 final size:31
Alignment explanation
Indices: 59852121--59852300 Score: 290
Period size: 31 Copynumber: 5.8 Consensus size: 31
59852111 CTTGTCACTT
*
59852121 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
59852152 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
59852183 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
59852214 GTAGCCGGAA-CTACCACTTTTCACTGATCAG
1 GTAGCC-GAAGCTACCACTTTTCACTGATCAG
* *
59852245 GTAGCAGAAGCTACCACTTTTCATTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
59852276 GTAGCTGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
59852301 TGTCATTGAT
Statistics
Matches: 140, Mismatches: 7, Indels: 4
0.93 0.05 0.03
Matches are distributed among these distances:
30 3 0.02
31 135 0.96
32 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.27
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:59852344 original size:44 final size:45
Alignment explanation
Indices: 59852276--59852398 Score: 149
Period size: 51 Copynumber: 2.6 Consensus size: 45
59852266 CATTGATCAG
* * *
59852276 GTAGCTGAAGCTACCACTTTTCACTTGTCA-TTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTGATCAGATAAGT
*
59852320 GTAGCCGAAGCTATCACTTATCACTTATCACTTTTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCA----T--TTGATCAGATAAGT
59852371 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
59852399 TGCCATGGTC
Statistics
Matches: 67, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
44 26 0.39
51 41 0.61
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.34
Consensus pattern (45 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCATTTGATCAGATAAGT
Found at i:59852366 original size:51 final size:51
Alignment explanation
Indices: 59852290--59852396 Score: 187
Period size: 51 Copynumber: 2.1 Consensus size: 51
59852280 CTGAAGCTAC
*
59852290 CACTTTTCACTTGTCATTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
1 CACTTATCACTTGTCATTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* *
59852341 CACTTATCACTTTTCCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
1 CACTTATCACTTGTCATTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
59852392 CACTT
1 CACTT
59852397 GTTGCCATGG
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (51 bp):
CACTTATCACTTGTCATTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
Found at i:59858896 original size:55 final size:55
Alignment explanation
Indices: 59858835--59859011 Score: 237
Period size: 55 Copynumber: 3.2 Consensus size: 55
59858825 ATATTAAGTC
* * *
59858835 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
* * *
59858890 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGGTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
* * * * * *
59858945 CGCACACTTAGTGCTACATATTCAATTCGCACACTTAGTGCTGCACAATTTAAACC
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAA-TCAAACT
59859001 CGCACACTTAG
1 CGCACACTTAG
59859012 CGCCAATCTC
Statistics
Matches: 107, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
55 91 0.85
56 16 0.15
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:59858899 original size:28 final size:27
Alignment explanation
Indices: 59858835--59858986 Score: 223
Period size: 27 Copynumber: 5.6 Consensus size: 27
59858825 ATATTAAGTC
* *
59858835 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
59858862 CGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCA-ACT
*
59858890 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
59858917 CGCACACTTAGTGGTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* *
59858945 CGCACACTTAGTGCTACATATTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
59858972 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
59858987 GCACAATTTA
Statistics
Matches: 116, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
27 65 0.56
28 51 0.44
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:59866493 original size:42 final size:42
Alignment explanation
Indices: 59866385--59866526 Score: 169
Period size: 42 Copynumber: 3.4 Consensus size: 42
59866375 TGTACCAATG
* * * * *
59866385 CCATATCCCATATATGGTCTTACATGTAATCTCGTATCGATG
1 CCATATCCCAGATATGGTCTTACACGAAATCTCATATCGATA
* *
59866427 CCAATAGCCCAGCTATGGTCTTACACGAAATCTCATATCGATA
1 CC-ATATCCCAGATATGGTCTTACACGAAATCTCATATCGATA
* *
59866470 TCATATCCCAGATATGGTCTTACACGAAATCTCATA-CGATG
1 CCATATCCCAGATATGGTCTTACACGAAATCTCATATCGATA
* *
59866511 CCATATCTCATATATG
1 CCATATCCCAGATATG
59866527 ATTTTGCATG
Statistics
Matches: 85, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
41 17 0.20
42 34 0.40
43 34 0.40
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.31
Consensus pattern (42 bp):
CCATATCCCAGATATGGTCTTACACGAAATCTCATATCGATA
Found at i:59875476 original size:21 final size:20
Alignment explanation
Indices: 59875439--59875478 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
59875429 TATGTATGAT
59875439 TTTTGATGATTGATGATAGA
1 TTTTGATGATTGATGATAGA
* *
59875459 TTTTGAATGGTTGTTGATAG
1 TTTTG-ATGATTGATGATAG
59875479 TTAAACAAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.47
Consensus pattern (20 bp):
TTTTGATGATTGATGATAGA
Found at i:59876013 original size:29 final size:28
Alignment explanation
Indices: 59875981--59876035 Score: 83
Period size: 29 Copynumber: 1.9 Consensus size: 28
59875971 GAGATATACC
* *
59875981 GATTTGGCTTTGGGCCATGCATATCAGCT
1 GATTTGGATTCGGGCCATG-ATATCAGCT
59876010 GATTTGGATTCGGGCCATGATATCAG
1 GATTTGGATTCGGGCCATGATATCAG
59876036 TATTTTGGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 7 0.29
29 17 0.71
ACGTcount: A:0.20, C:0.18, G:0.29, T:0.33
Consensus pattern (28 bp):
GATTTGGATTCGGGCCATGATATCAGCT
Found at i:59879983 original size:20 final size:21
Alignment explanation
Indices: 59879945--59879983 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
59879935 AGTTTATTTA
59879945 TGTTATAATTGTTGCAAATTG
1 TGTTATAATTGTTGCAAATTG
59879966 TGTT-TAATT-TTGCTAAAT
1 TGTTATAATTGTTGC-AAAT
59879984 CTATTTCGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 4 0.24
20 9 0.53
21 4 0.24
ACGTcount: A:0.28, C:0.05, G:0.15, T:0.51
Consensus pattern (21 bp):
TGTTATAATTGTTGCAAATTG
Found at i:59882863 original size:32 final size:32
Alignment explanation
Indices: 59882822--59882887 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
59882812 CAAAGTGTAT
59882822 GAGTCACAAATACATAGTCCGCTATCCACTCA
1 GAGTCACAAATACATAGTCCGCTATCCACTCA
59882854 GAGTCACAAATACATAGTCCGCTATCCACTCA
1 GAGTCACAAATACATAGTCCGCTATCCACTCA
59882886 GA
1 GA
59882888 TTTAGGTATG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.35, C:0.30, G:0.14, T:0.21
Consensus pattern (32 bp):
GAGTCACAAATACATAGTCCGCTATCCACTCA
Found at i:59899177 original size:41 final size:41
Alignment explanation
Indices: 59899120--59899255 Score: 168
Period size: 41 Copynumber: 3.3 Consensus size: 41
59899110 ACATAAAATT
* * *
59899120 TGCTAGGC-ATAAAGCCTAGTACAATACACCGGCATAGAGCC
1 TGCTAGGCAAT-AAGCCTAGTATAATACACCGGCACAAAGCC
* **
59899161 TGCTAGGCAATAAGCCTAATATAATACATTGGCACAAAGCC
1 TGCTAGGCAATAAGCCTAGTATAATACACCGGCACAAAGCC
* *
59899202 TGCTAGGCAATAAGCCT-GATTTAATACACCGGCCCAAAGCC
1 TGCTAGGCAATAAGCCTAG-TATAATACACCGGCACAAAGCC
59899243 TGCTAGGCAATAA
1 TGCTAGGCAATAA
59899256 AGCCCGAATA
Statistics
Matches: 82, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
41 80 0.98
42 2 0.02
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.20
Consensus pattern (41 bp):
TGCTAGGCAATAAGCCTAGTATAATACACCGGCACAAAGCC
Found at i:59901138 original size:22 final size:22
Alignment explanation
Indices: 59901108--59901161 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
59901098 CTAACTTCTA
*
59901108 TGTTACGACACAGGTCCTGGTG
1 TGTTGCGACACAGGTCCTGGTG
59901130 TGTTGCGACACAGGTCCTGGTG
1 TGTTGCGACACAGGTCCTGGTG
59901152 TGTTGCGACA
1 TGTTGCGACA
59901162 TCGACTTTGG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.17, C:0.22, G:0.33, T:0.28
Consensus pattern (22 bp):
TGTTGCGACACAGGTCCTGGTG
Done.