Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1
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: 8764944
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.31
Warning! 632878 characters in sequence are not A, C, G, or T
File 10 of 52
Found at i:1677168 original size:50 final size:52
Alignment explanation
Indices: 1677107--1677219 Score: 149
Period size: 52 Copynumber: 2.2 Consensus size: 52
1677097 AAATAACAAG
*
1677107 GTTGGAGTATCCCTGA-TTATAGAAAATCGGTATTTT-GAAAAAAAATCGGA
1 GTTGGAGTATCCCTAATTTATAGAAAATCGGTATTTTAGAAAAAAAATCGGA
* * * * *
1677157 GTTGGAGTATCCCTAATTTGTGGAAAATTGGTATTTTAGAAATAAAATCGGG
1 GTTGGAGTATCCCTAATTTATAGAAAATCGGTATTTTAGAAAAAAAATCGGA
*
1677209 GTTTGAGTATC
1 GTTGGAGTATC
1677220 TCATCGAAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
50 15 0.28
51 17 0.31
52 22 0.41
ACGTcount: A:0.34, C:0.09, G:0.24, T:0.34
Consensus pattern (52 bp):
GTTGGAGTATCCCTAATTTATAGAAAATCGGTATTTTAGAAAAAAAATCGGA
Found at i:1677311 original size:109 final size:109
Alignment explanation
Indices: 1677190--1677509 Score: 414
Period size: 109 Copynumber: 2.9 Consensus size: 109
1677180 AAAATTGGTA
* * *
1677190 TTTTAGAAATAAAATCGGGGTTTGAGTAT-CTCATCGAAAATAACAGGATTAGAGTATCCCTGAT
1 TTTTAGATATAAAGTCGGGGTTTGAGTATCCTCATCGAAAATAACAGG-TTGGAGTATCCCTGAT
* * *
1677254 GAAATAACGGGGTTGGAGTACCCCCGATTATGAAAAAAATACTAT
65 GAAATAACGGGGTTGGAGTACCCCCGATTGTGAAAAAAACAATAT
* * *
1677299 TTTTAGATATAAAGCCGGGGTTGGAGTATCCTC-TCGAAAATAACGGGGTTGGAGTATCCCTGAT
1 TTTTAGATATAAAGTCGGGGTTTGAGTATCCTCATCGAAAATAAC-AGGTTGGAGTATCCCTGAT
* * * *
1677363 GAAATAACGGGGTTAGAGTATCCCCAATTGTGAAAAATACAATAT
65 GAAATAACGGGGTTGGAGTACCCCCGATTGTGAAAAAAACAATAT
* * *
1677408 ATTTAGATATAAAGTCGGGG-TTGCAGTATCCCCA-CGAAAATAACAAGGTTGGAGTATCCCCGA
1 TTTTAGATATAAAGTCGGGGTTTG-AGTATCCTCATCGAAAATAAC-AGGTTGGAGTATCCCTGA
*
1677471 TGAAATAACAGGGTTGGAGTACCCCCCGATTGTGAAAAA
64 TGAAATAACGGGGTTGGAGTA-CCCCCGATTGTGAAAAA
1677510 TTGGTGTTTT
Statistics
Matches: 182, Mismatches: 24, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
108 2 0.01
109 160 0.88
110 20 0.11
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (109 bp):
TTTTAGATATAAAGTCGGGGTTTGAGTATCCTCATCGAAAATAACAGGTTGGAGTATCCCTGATG
AAATAACGGGGTTGGAGTACCCCCGATTGTGAAAAAAACAATAT
Found at i:1677354 original size:28 final size:27
Alignment explanation
Indices: 1677314--1677386 Score: 103
Period size: 28 Copynumber: 2.6 Consensus size: 27
1677304 GATATAAAGC
1677314 CGGGGTTGGAGTATCCTCTCGA-AAATAA
1 CGGGGTTGGAGTATCC-CT-GAGAAATAA
1677342 CGGGGTTGGAGTATCCCTGATGAAATAA
1 CGGGGTTGGAGTATCCCTGA-GAAATAA
*
1677370 CGGGGTTAGAGTATCCC
1 CGGGGTTGGAGTATCCC
1677387 CAATTGTGAA
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
26 2 0.05
27 2 0.05
28 38 0.90
ACGTcount: A:0.26, C:0.18, G:0.32, T:0.25
Consensus pattern (27 bp):
CGGGGTTGGAGTATCCCTGAGAAATAA
Found at i:1677466 original size:28 final size:28
Alignment explanation
Indices: 1677426--1677496 Score: 90
Period size: 28 Copynumber: 2.5 Consensus size: 28
1677416 ATAAAGTCGG
*
1677426 GGTTGCAGTATCCCC-ACGAAAATAACAA
1 GGTTGGAGTATCCCCGACG-AAATAACAA
* *
1677454 GGTTGGAGTATCCCCGATGAAATAACAG
1 GGTTGGAGTATCCCCGACGAAATAACAA
*
1677482 GGTTGGAGTACCCCC
1 GGTTGGAGTATCCCC
1677497 CGATTGTGAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
28 36 0.95
29 2 0.05
ACGTcount: A:0.31, C:0.24, G:0.25, T:0.20
Consensus pattern (28 bp):
GGTTGGAGTATCCCCGACGAAATAACAA
Found at i:1677627 original size:51 final size:50
Alignment explanation
Indices: 1677481--1677652 Score: 141
Period size: 51 Copynumber: 3.4 Consensus size: 50
1677471 TGAAATAACA
* ** * *
1677481 GGGTTGGAGTACCCCCCGATTGTGAAAAATTGGTGTTTTGACAATAAAATCG
1 GGGTTGGAGTA-TCCCCGATTAAGAAAAATTGATGTTTTGA-AATAACATCG
** * ** * *
1677533 AAGTTGGAGTATCCCCGATTACGGTAAATCGATGCTTTAGAAATAACATCG
1 GGGTTGGAGTATCCCCGATTAAGAAAAATTGATG-TTTTGAAATAACATCG
**
1677584 GGGTTGGAGTATCCCCGATTAAGAAAAATTGACATTTTGGAAATGGAAC--CG
1 GGGTTGGAGTATCCCCGATTAAGAAAAATTGATGTTTT-GAAAT--AACATCG
*
1677635 GGATTGGAGTATCCCCGA
1 GGGTTGGAGTATCCCCGA
1677653 GATGAAAAAT
Statistics
Matches: 95, Mismatches: 21, Indels: 9
0.76 0.17 0.07
Matches are distributed among these distances:
50 3 0.03
51 75 0.79
52 14 0.15
53 3 0.03
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.27
Consensus pattern (50 bp):
GGGTTGGAGTATCCCCGATTAAGAAAAATTGATGTTTTGAAATAACATCG
Found at i:1680016 original size:33 final size:33
Alignment explanation
Indices: 1679971--1680040 Score: 131
Period size: 33 Copynumber: 2.1 Consensus size: 33
1679961 TACATTGTAA
1679971 AATGTATCGATACAATGAGCAATGTATCGATAC
1 AATGTATCGATACAATGAGCAATGTATCGATAC
*
1680004 AATGTATTGATACAATGAGCAATGTATCGATAC
1 AATGTATCGATACAATGAGCAATGTATCGATAC
1680037 AATG
1 AATG
1680041 CAAAATGTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.29
Consensus pattern (33 bp):
AATGTATCGATACAATGAGCAATGTATCGATAC
Found at i:1680016 original size:53 final size:53
Alignment explanation
Indices: 1679951--1680057 Score: 137
Period size: 53 Copynumber: 2.0 Consensus size: 53
1679941 AAAATGCTTG
* * *
1679951 AATGTATCGATACATTGTA-AAATGTATCGATACAATG-AGCAATGTATCGATAC
1 AATGTATCGATACAATG-AGAAATGTATCGATACAATGCA-AAATGTATCAATAC
* *
1680004 AATGTATTGATACAATGAGCAATGTATCGATACAATGCAAAATGTATCAATAC
1 AATGTATCGATACAATGAGAAATGTATCGATACAATGCAAAATGTATCAATAC
1680057 A
1 A
1680058 TCTAGGTAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
52 1 0.02
53 45 0.96
54 1 0.02
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (53 bp):
AATGTATCGATACAATGAGAAATGTATCGATACAATGCAAAATGTATCAATAC
Found at i:1680039 original size:13 final size:13
Alignment explanation
Indices: 1679990--1680020 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1679980 ATACAATGAG
1679990 CAATGTATCGATA
1 CAATGTATCGATA
*
1680003 CAATGTATTGATA
1 CAATGTATCGATA
1680016 CAATG
1 CAATG
1680021 AGCAATGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:1680097 original size:49 final size:51
Alignment explanation
Indices: 1679971--1680106 Score: 145
Period size: 49 Copynumber: 2.7 Consensus size: 51
1679961 TACATTGTAA
* * * **
1679971 AATGTATCGATACAATGAGCAATGTATCGATACAATGTATTGATACAATGAGC
1 AATGTATCGATACAATGAACAATGTATCAATAC-ATCTA-TGATACAACCAGC
*
1680024 AATGTATCGATACAATGCAA-AATGTATCAATACATCTA-GGTA-AACCCAG-
1 AATGTATCGATACAATG-AACAATGTATCAATACATCTATGATACAA-CCAGC
*
1680073 AATGTATCGATACAATGAACAATGTGTCAATACA
1 AATGTATCGATACAATGAACAATGTATCAATACA
1680107 GTGAACAATG
Statistics
Matches: 73, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
48 2 0.03
49 32 0.44
50 5 0.07
52 4 0.05
53 29 0.40
54 1 0.01
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.26
Consensus pattern (51 bp):
AATGTATCGATACAATGAACAATGTATCAATACATCTATGATACAACCAGC
Found at i:1680125 original size:20 final size:20
Alignment explanation
Indices: 1679951--1680127 Score: 102
Period size: 20 Copynumber: 8.8 Consensus size: 20
1679941 AAAATGCTTG
*
1679951 AATGTATCGATACATTGTAA-
1 AATGTATCGATACAATG-AAC
*
1679971 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGAAC
1679991 AATGTATCG-----AT--AC
1 AATGTATCGATACAATGAAC
* *
1680004 AATGTATTGATACAATGAGC
1 AATGTATCGATACAATGAAC
1680024 AATGTATCGATACAATGCAA-
1 AATGTATCGATACAATG-AAC
* *
1680044 AATGTATCAATACATCTAGGTAAACCC
1 AATGTATCGATACA---A--TGAA--C
1680071 AGAATGTATCGATACAATGAAC
1 --AATGTATCGATACAATGAAC
* * *
1680093 AATGTGTCAATACAGTGAAC
1 AATGTATCGATACAATGAAC
*
1680113 AATGTACCGATACAA
1 AATGTATCGATACAA
1680128 ATTGTGAAAA
Statistics
Matches: 120, Mismatches: 18, Indels: 38
0.68 0.10 0.22
Matches are distributed among these distances:
13 9 0.08
15 2 0.02
18 2 0.02
19 1 0.01
20 83 0.69
21 1 0.01
22 1 0.01
23 1 0.01
24 5 0.04
25 1 0.01
26 1 0.01
29 13 0.11
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.27
Consensus pattern (20 bp):
AATGTATCGATACAATGAAC
Found at i:1681022 original size:61 final size:61
Alignment explanation
Indices: 1680917--1681155 Score: 295
Period size: 61 Copynumber: 3.9 Consensus size: 61
1680907 AATAAAGTGT
* * *
1680917 GTCCTTGCTCTTTGAGGACTGAAAAGTACCACCAACTCGTGTGGGCTTTGAAAGGAAAAGGC
1 GTCC-TGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* * * * *
1680979 GTCCTGCCCTTTGAGGACTGGAAGGTGCCACCAACTTGCGTGGGCTTTGCAAAAAG-AAA-GC
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT--AAAAGGAAAAGGC
* *
1681040 ATCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTATGGGCTTTAAAAGGAAAAAGGC
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG-AAAAGGC
* * *
1681102 AGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAGCTTATGTGGGCTTTAAAAGG
1 -GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG
1681156 CGTCCTGCTC
Statistics
Matches: 151, Mismatches: 20, Indels: 12
0.83 0.11 0.07
Matches are distributed among these distances:
59 5 0.03
61 85 0.56
62 39 0.26
63 22 0.15
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.24
Consensus pattern (61 bp):
GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
Found at i:1681054 original size:122 final size:123
Alignment explanation
Indices: 1680922--1681149 Score: 352
Period size: 122 Copynumber: 1.9 Consensus size: 123
1680912 AGTGTGTCCT
* *
1680922 TGCTCTTTGAGGACTGAAAAGTACCACCAACTCGTGTGGGCTTTGAAAGG-AAAAGGC-GTCCTG
1 TGCTCTTTGAGGACTGAAAAGTACCACCAACTCGTATGGGCTTTAAAAGGAAAAAGGCAGTCCTG
* *
1680985 CCCTTTGAGGACTGGAAGGTGCCACCAACTTGCGTGGGCTTTGCAAAAAGAAAGCATCC
66 CCCTTTGAGGACT-AAAGGTGCCACCAACTTACGTGGGCTTTGCAAAAAGAAAGCATCC
* *
1681044 TGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTATGGGCTTTAAAAGGAAAAAGGCAGTCCTG
1 TGCTCTTTGAGGACTGAAAAGTACCACCAACTCGTATGGGCTTTAAAAGGAAAAAGGCAGTCCTG
* * *
1681109 CTCTTTGAGGACTAAAGGTGCCACCAGCTTATGTGGGCTTT
66 CCCTTTGAGGACTAAAGGTGCCACCAACTTACGTGGGCTTT
1681150 AAAAGGCGTC
Statistics
Matches: 95, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
122 46 0.48
123 31 0.33
124 18 0.19
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (123 bp):
TGCTCTTTGAGGACTGAAAAGTACCACCAACTCGTATGGGCTTTAAAAGGAAAAAGGCAGTCCTG
CCCTTTGAGGACTAAAGGTGCCACCAACTTACGTGGGCTTTGCAAAAAGAAAGCATCC
Found at i:1681260 original size:61 final size:60
Alignment explanation
Indices: 1681183--1681370 Score: 209
Period size: 61 Copynumber: 3.1 Consensus size: 60
1681173 ACAAAAAGGC
* *
1681183 AAAAGGAG-AGAGCGTCCTGCTTTTTGAGGACTAGGAAGTGCCACCAACTTTTATGGGCTTT
1 AAAAGGAGAAG-GCGTCCTGCTTTTTGAGGACTA-GAAGTGCCACCAACTTGTGTGGGCTTT
* * * *
1681244 AAAAGGAGAAGGCGTCCAGCTCTTTGAGGACTA-AAGGTGCCATCAGCTTGTGTGGGCTTT
1 AAAAGGAGAAGGCGTCCTGCTTTTTGAGGACTAGAA-GTGCCACCAACTTGTGTGGGCTTT
* * * * * *
1681304 AAAAGAAAAAGGCATCCTACTTTTTGAGGACTAGAGGGTGCCACCAACTCGTGTGGGCTTT
1 AAAAGGAGAAGGCGTCCTGCTTTTTGAGGACTAGA-AGTGCCACCAACTTGTGTGGGCTTT
*
1681365 GAAAGG
1 AAAAGG
1681371 CGTCCTACTC
Statistics
Matches: 105, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
59 2 0.02
60 47 0.45
61 54 0.51
62 2 0.02
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (60 bp):
AAAAGGAGAAGGCGTCCTGCTTTTTGAGGACTAGAAGTGCCACCAACTTGTGTGGGCTTT
Found at i:1681316 original size:60 final size:60
Alignment explanation
Indices: 1681194--1681395 Score: 206
Period size: 60 Copynumber: 3.5 Consensus size: 60
1681184 AAAGGAGAGA
* * * * *
1681194 GCGTCCTGCTTTTTGAGGACTAGGAA-GTGCCACCAACTTTTATGGGCTTTAAAAGGAGAAG
1 GCGTCCTACTCTTTGAGGACTA-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAA-GAAAAG
* *
1681255 GCGTCC-AGCTCTTTGAGGACTA-AAGGTGCCATCAGCTTGTGTGGGCTTTAAAAGAAAAAG
1 GCGTCCTA-CTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG-AAAAG
* * * *
1681315 GCATCCTACTTTTTGAGGACTAGAGGGTGCCACCAACTCGTGTGGGCTTT----G-AAAG
1 GCGTCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAG
1681370 GCGTCCTACTCTTTGAGGACTA-AAGG
1 GCGTCCTACTCTTTGAGGACTAGAAGG
1681396 GTGAAAGGAG
Statistics
Matches: 120, Mismatches: 16, Indels: 17
0.78 0.10 0.11
Matches are distributed among these distances:
54 3 0.03
55 24 0.20
57 1 0.01
59 3 0.03
60 46 0.38
61 43 0.36
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (60 bp):
GCGTCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAG
Found at i:1681405 original size:215 final size:217
Alignment explanation
Indices: 1680977--1681498 Score: 700
Period size: 215 Copynumber: 2.4 Consensus size: 217
1680967 AAAGGAAAAG
* * *
1680977 GCGTCCTGCCCTTTGAGGACT-GGAAGGTGCCACCAACTTGCGTGGGCTTTGCAAAA-AGAAAGC
1 GCGTCCTGCTCTTTGAGGACTAGGAAGGTGCCACCAACTTGTGTGGGCTTT--AAAAGAGAAGGC
*
1681040 ATCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTATGGGCTTTAAAAGGAAAAAGGCAGT
64 ATCCAGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTATGGGCTTTAAAAGGAAAAAGGCAGT
* * * *
1681105 CCTGCTCTTTGAGGACTAAAGGTGCCACCAGCTTATGTGGGCTTTAAAAGGCGTCCTGCTCTTTG
129 CCTACTCTTTGAGGACTAAAGGTGCCACCAACTCATGTGGGCTTTAAAAGGCGTCCTACTCTTTG
1681170 AGGACAAAAAGGCAAAAGGAGAGA
194 AGGACAAAAAGGCAAAAGGAGAGA
* * * *
1681194 GCGTCCTGCTTTTTGAGGACTAGGAA-GTGCCACCAACTTTTATGGGCTTTAAAAGGAGAAGGCG
1 GCGTCCTGCTCTTTGAGGACTAGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAA-GAGAAGGCA
* * * *
1681258 TCCAGCTCTTTGAGGACT-AAAGGTGCCATCAGCTTGTGTGGGCTTTAAAA-GAAAAAGGCA-TC
65 TCCAGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTATGGGCTTTAAAAGGAAAAAGGCAGTC
* * * *
1681320 CTACTTTTTGAGGACTAGAGGGTGCCACCAACTCGTGTGGGCTTTGAAAGGCGTCCTACTCTTTG
130 CTACTCTTTGAGGACTA-AAGGTGCCACCAACTCATGTGGGCTTTAAAAGGCGTCCTACTCTTTG
* * **
1681385 AGGACTAAAGGGTGAAAGGAGAGA
194 AGGACAAAAAGGCAAAAGGAGAGA
* *
1681409 GCGTCATGCTCTTTGAGGACTA-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCA
1 GCGTCCTGCTCTTTGAGGACTAGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG-AGAAGGCA
1681473 T-CATGCTCTTTGAGGACTGAAAAGTG
65 TCCA-GCTCTTTGAGGACTGAAAAGTG
1681499 AAAGGAGAAA
Statistics
Matches: 266, Mismatches: 31, Indels: 17
0.85 0.10 0.05
Matches are distributed among these distances:
214 23 0.09
215 142 0.53
216 34 0.13
217 63 0.24
218 4 0.02
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (217 bp):
GCGTCCTGCTCTTTGAGGACTAGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAGAAGGCAT
CCAGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTATGGGCTTTAAAAGGAAAAAGGCAGTCC
TACTCTTTGAGGACTAAAGGTGCCACCAACTCATGTGGGCTTTAAAAGGCGTCCTACTCTTTGAG
GACAAAAAGGCAAAAGGAGAGA
Found at i:1682501 original size:17 final size:14
Alignment explanation
Indices: 1682483--1682553 Score: 63
Period size: 14 Copynumber: 5.0 Consensus size: 14
1682473 TTTCTCTCTC
* *
1682483 TTTTTTCTTTGTTG
1 TTTTTTTTTTTTTG
* *
1682497 TTCTTTTTGTTTTG
1 TTTTTTTTTTTTTG
1682511 TTTTTTATTTTTTTG
1 TTTTTT-TTTTTTTG
*
1682526 TTTTTTTTGTTGTT-
1 TTTTTTTT-TTTTTG
*
1682540 TTTGTTTTTTTTTG
1 TTTTTTTTTTTTTG
1682554 AAAAAAAATG
Statistics
Matches: 45, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
13 4 0.09
14 24 0.53
15 17 0.38
ACGTcount: A:0.01, C:0.03, G:0.13, T:0.83
Consensus pattern (14 bp):
TTTTTTTTTTTTTG
Found at i:1682502 original size:10 final size:9
Alignment explanation
Indices: 1682483--1682550 Score: 50
Period size: 9 Copynumber: 7.4 Consensus size: 9
1682473 TTTCTCTCTC
1682483 TTTT-TTCT
1 TTTTGTTCT
1682491 TTGTTGTTCT
1 TT-TTGTTCT
*
1682501 TTTTGTTTT
1 TTTTGTTCT
* *
1682510 GTTTTTTATTT
1 -TTTTGT-TCT
*
1682521 TTTTGTTTT
1 TTTTGTTCT
*
1682530 TTTTGTTGT
1 TTTTGTTCT
1682539 TTTTGTT-T
1 TTTTGTTCT
1682547 TTTT
1 TTTT
1682551 TTGAAAAAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
8 7 0.13
9 26 0.50
10 16 0.31
11 3 0.06
ACGTcount: A:0.01, C:0.03, G:0.12, T:0.84
Consensus pattern (9 bp):
TTTTGTTCT
Found at i:1682523 original size:9 final size:9
Alignment explanation
Indices: 1682494--1682551 Score: 71
Period size: 9 Copynumber: 6.2 Consensus size: 9
1682484 TTTTTCTTTG
*
1682494 TTGTTCTTT
1 TTGTTTTTT
1682503 TTGTTTTGTT
1 TTGTTTT-TT
*
1682513 TTTTATTTTT
1 TTGT-TTTTT
1682523 TTGTTTTTT
1 TTGTTTTTT
*
1682532 TTGTTGTTT
1 TTGTTTTTT
1682541 TTGTTTTTT
1 TTGTTTTTT
1682550 TT
1 TT
1682552 TGAAAAAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
9 29 0.69
10 10 0.24
11 3 0.07
ACGTcount: A:0.02, C:0.02, G:0.12, T:0.84
Consensus pattern (9 bp):
TTGTTTTTT
Found at i:1682550 original size:29 final size:28
Alignment explanation
Indices: 1682483--1682553 Score: 81
Period size: 29 Copynumber: 2.5 Consensus size: 28
1682473 TTTCTCTCTC
* *
1682483 TTTTTTCTTTGTTGTTCTTTTTGTTTTG
1 TTTTTTTTTTTTTGTTCTTTTTGTTTTG
*
1682511 TTTTTTATTTTTTTGTTTTTTTTGTTGTT-
1 TTTTTT-TTTTTTTGTTCTTTTTGTT-TTG
*
1682540 TTTGTTTTTTTTTG
1 TTTTTTTTTTTTTG
1682554 AAAAAAAATG
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
28 14 0.38
29 21 0.57
30 2 0.05
ACGTcount: A:0.01, C:0.03, G:0.13, T:0.83
Consensus pattern (28 bp):
TTTTTTTTTTTTTGTTCTTTTTGTTTTG
Found at i:1689362 original size:52 final size:52
Alignment explanation
Indices: 1689217--1689342 Score: 207
Period size: 52 Copynumber: 2.4 Consensus size: 52
1689207 AATATGAAAT
*
1689217 TTTGCCTGCATGTATCGATACATTTCATAATGTATCGATACATCTAGGCAAA
1 TTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGCAAA
* * * *
1689269 TTTGCCGGTATGTTTCGATACATTTCATAGTGTATCGATACATCTGGGCAAA
1 TTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGCAAA
1689321 TTTGCCTGCATGTATCGATACA
1 TTTGCCTGCATGTATCGATACA
1689343 AAGATTAGTG
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
52 66 1.00
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (52 bp):
TTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGCAAA
Found at i:1689438 original size:13 final size:13
Alignment explanation
Indices: 1689420--1689471 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 13
1689410 AGTTTCGTAG
1689420 CGATACATTGTAT
1 CGATACATTGTAT
1689433 CGATACAAAACTTATGTAT
1 CGATAC---A-TT--GTAT
1689452 CGATACATTGTAT
1 CGATACATTGTAT
1689465 CGATACA
1 CGATACA
1689472 ACACTTATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 17 0.52
15 2 0.06
16 2 0.06
17 2 0.06
19 10 0.30
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:1689452 original size:19 final size:19
Alignment explanation
Indices: 1689428--1689492 Score: 79
Period size: 19 Copynumber: 3.7 Consensus size: 19
1689418 AGCGATACAT
1689428 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
1689447 TGTATCGATAC---A--T-
1 TGTATCGATACAAAACTTA
*
1689460 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
1689479 TGTATCGATACAAA
1 TGTATCGATACAAA
1689493 TCGTTGAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
13 11 0.28
14 1 0.03
16 2 0.05
18 1 0.03
19 24 0.62
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.32
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:1689461 original size:32 final size:32
Alignment explanation
Indices: 1689420--1689490 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 32
1689410 AGTTTCGTAG
1689420 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
*
1689452 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
1689484 CGATACA
1 CGATACA
1689491 AATCGTTGAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:1690150 original size:20 final size:20
Alignment explanation
Indices: 1690125--1690178 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
1690115 GTATCGATAC
**
1690125 AATGTATCGATACATGACTA
1 AATGTATCGATACATGAAAA
*
1690145 AATGTATCGATACTTGAAAA
1 AATGTATCGATACATGAAAA
1690165 AATGTATCGATACA
1 AATGTATCGATACA
1690179 AGTCATTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.30
Consensus pattern (20 bp):
AATGTATCGATACATGAAAA
Found at i:1690252 original size:20 final size:20
Alignment explanation
Indices: 1690211--1690262 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
1690201 TAGCTAAATT
*
1690211 TGTATCGATACA-CACAATA
1 TGTATCGATACATCACAAAA
1690230 TGTATCGATACATCACAAAA
1 TGTATCGATACATCACAAAA
1690250 TGTATCGATACAT
1 TGTATCGATACAT
1690263 TGGCTTGTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 12 0.39
20 19 0.61
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.29
Consensus pattern (20 bp):
TGTATCGATACATCACAAAA
Found at i:1696323 original size:21 final size:20
Alignment explanation
Indices: 1696297--1696339 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
1696287 AATTTGGAAA
1696297 ATTTTCAAAATGTATCGATAC
1 ATTTTC-AAATGTATCGATAC
* *
1696318 ATTTTCTAGTGTATCGATAC
1 ATTTTCAAATGTATCGATAC
1696338 AT
1 AT
1696340 CTGGAAAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.42
Consensus pattern (20 bp):
ATTTTCAAATGTATCGATAC
Found at i:1696372 original size:13 final size:13
Alignment explanation
Indices: 1696354--1696378 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1696344 AAAACTCAAA
1696354 TGTATCGATACAG
1 TGTATCGATACAG
1696367 TGTATCGATACA
1 TGTATCGATACA
1696379 AGGGGTTTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:1698900 original size:20 final size:20
Alignment explanation
Indices: 1698875--1698928 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
1698865 GTATCGATAC
**
1698875 AATGTATCGATACATGACTA
1 AATGTATCGATACATGAAAA
*
1698895 AATGTATCGATACTTGAAAA
1 AATGTATCGATACATGAAAA
1698915 AATGTATCGATACA
1 AATGTATCGATACA
1698929 AGTCATTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.30
Consensus pattern (20 bp):
AATGTATCGATACATGAAAA
Found at i:1699001 original size:32 final size:33
Alignment explanation
Indices: 1698960--1699026 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 33
1698950 GTAGCTAAAT
*
1698960 TTGTATCGATACA-CACAATATGTATCCATACA
1 TTGTATCGATACATCACAAAATGTATCCATACA
*
1698992 TTGTATCGATACATCACAAAATGTATCGATACA
1 TTGTATCGATACATCACAAAATGTATCCATACA
1699025 TT
1 TT
1699027 ACAAAATGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 13 0.41
33 19 0.59
ACGTcount: A:0.37, C:0.19, G:0.10, T:0.33
Consensus pattern (33 bp):
TTGTATCGATACATCACAAAATGTATCCATACA
Found at i:1699046 original size:20 final size:20
Alignment explanation
Indices: 1698993--1699046 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
1698983 ATCCATACAT
*
1698993 TGTATCGATACATCACAAAA
1 TGTATCGATACATTACAAAA
1699013 TGTATCGATACATTACAAAA
1 TGTATCGATACATTACAAAA
*
1699033 TGTATCCATACATT
1 TGTATCGATACATT
1699047 GGCTTGTAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (20 bp):
TGTATCGATACATTACAAAA
Found at i:1702616 original size:52 final size:52
Alignment explanation
Indices: 1702470--1702598 Score: 249
Period size: 52 Copynumber: 2.5 Consensus size: 52
1702460 CGAAATATGA
1702470 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
1702522 AAATTTGCCTGTATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1702574 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
1702599 AAGATCAGTG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 75 1.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:1702708 original size:19 final size:19
Alignment explanation
Indices: 1702684--1702754 Score: 124
Period size: 19 Copynumber: 3.7 Consensus size: 19
1702674 AGCGATACAT
1702684 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
*
1702703 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
*
1702722 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
1702741 TGTATCGATACAAA
1 TGTATCGATACAAA
1702755 TCGTTGAAAT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 50 1.00
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.31
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:1711930 original size:50 final size:51
Alignment explanation
Indices: 1711870--1711984 Score: 144
Period size: 52 Copynumber: 2.3 Consensus size: 51
1711860 AAATAACAAG
*
1711870 GTTGGAGTATCCCTAATTAT-AAAAATCGGTATTTT-GAAAATAAAATCGGA
1 GTTGGAGTATCCCGAATTATGAAAAATCGGTATTTTAG-AAATAAAATCGGA
* * * * *
1711920 GTTGGAGTATCCCCGATTTGTGGAAAATTGGTATTTTAGAAATAAAATCGGG
1 GTTGGAGTAT-CCCGAATTATGAAAAATCGGTATTTTAGAAATAAAATCGGA
1711972 GTTGGAGTATCCC
1 GTTGGAGTATCCC
1711985 CTCGAAAATA
Statistics
Matches: 56, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
50 10 0.18
51 10 0.18
52 35 0.62
53 1 0.02
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.32
Consensus pattern (51 bp):
GTTGGAGTATCCCGAATTATGAAAAATCGGTATTTTAGAAATAAAATCGGA
Found at i:1712007 original size:28 final size:28
Alignment explanation
Indices: 1711976--1712043 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
1711966 ATCGGGGTTG
1711976 GAGTATCCCCTCGA-AAATAACGGGATTA
1 GAGTAT-CCCTCGAGAAATAACGGGATTA
*
1712004 GAGTATCCCT-GATGAAATAACGGGGTTA
1 GAGTATCCCTCGA-GAAATAACGGGATTA
1712032 GAGTA-CCCTCGA
1 GAGTATCCCTCGA
1712044 TTATGAAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
26 2 0.06
27 8 0.22
28 26 0.72
ACGTcount: A:0.32, C:0.21, G:0.25, T:0.22
Consensus pattern (28 bp):
GAGTATCCCTCGAGAAATAACGGGATTA
Found at i:1712074 original size:109 final size:108
Alignment explanation
Indices: 1711953--1712233 Score: 332
Period size: 108 Copynumber: 2.6 Consensus size: 108
1711943 AAAATTGGTA
* * * * *
1711953 TTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCGAAAATAACGGGATTAGAGTATCCCTGATG
1 TTTTAGATATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATG
* *
1712018 AAATAACGGGGTTAGAGTA-CCCTCGATTATGAAAAAAATAATAT
66 AAA-AACGGGGTTAGAGTATCCCT-AATTACGAAAAAAATAATAT
* * * * *
1712062 TTTTAGATATAAAGCCAGGGTTGGGGTATCCTCTC-AGAAATAACGGGGTTGGAGTGTCCCCGAT
1 TTTTAGATATAAAACCGGGGTTGGAGTATCCCCTCGA-AAATAACGGGGTTGGAGTATCCCCGAT
* * * *
1712126 GAAAAACGGGGTTGGAGTATCCGTAATTGCGAAAAATATAATAT
65 GAAAAACGGGGTTAGAGTATCCCTAATTACGAAAAAAATAATAT
* * * * *
1712170 TTTTAGATATAAAGCTGGGGTTTGAGTATCCCCTCGGAAATAACGGGGTTGGAGTACCCCCGAT
1 TTTTAGATATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGAT
1712234 TGTGAAAAAT
Statistics
Matches: 145, Mismatches: 24, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
108 86 0.59
109 59 0.41
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (108 bp):
TTTTAGATATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATG
AAAAACGGGGTTAGAGTATCCCTAATTACGAAAAAAATAATAT
Found at i:1712359 original size:51 final size:50
Alignment explanation
Indices: 1712217--1712384 Score: 149
Period size: 51 Copynumber: 3.3 Consensus size: 50
1712207 AAATAACGGG
* * * * *
1712217 GTTGGAGTACCCCCGATTGTGAAAAATTGGTGTTTTGCAATAAAATCAGA
1 GTTGGAGTATCCCCGATTGAGAAAAATTGATGTTTTGAAATAAAATCGGA
* * * * * *
1712267 GTTGGAGTGTCCCGGATTGCGATAAATCGATGCTTTAGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGAGAAAAATTGATG-TTTTGAAATAAAATCGGA
* * * ** *
1712318 GTTGGAGTATCCCCGATTAAGAAAAATTAACGTTTTGGAAATGGAACCGG-
1 GTTGGAGTATCCCCGATTGAGAAAAATTGATGTTTT-GAAATAAAATCGGA
1712368 GATTGGAGTATCCCCGA
1 G-TTGGAGTATCCCCGA
1712385 GATGAAAAAT
Statistics
Matches: 93, Mismatches: 22, Indels: 5
0.77 0.18 0.04
Matches are distributed among these distances:
50 29 0.31
51 64 0.69
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (50 bp):
GTTGGAGTATCCCCGATTGAGAAAAATTGATGTTTTGAAATAAAATCGGA
Found at i:1714626 original size:20 final size:20
Alignment explanation
Indices: 1714601--1714656 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
1714591 AAAAATGCCT
1714601 AAATGTATCGATACATTGTA-
1 AAATGTATCGATACATTG-AG
*
1714621 AAATGTATCGATACAATGAG
1 AAATGTATCGATACATTGAG
*
1714641 CAATGTATCGATACAT
1 AAATGTATCGATACAT
1714657 CTAGGTAAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
19 1 0.03
20 31 0.97
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.30
Consensus pattern (20 bp):
AAATGTATCGATACATTGAG
Found at i:1714684 original size:29 final size:29
Alignment explanation
Indices: 1714642--1714733 Score: 85
Period size: 29 Copynumber: 3.5 Consensus size: 29
1714632 TACAATGAGC
*
1714642 AATGTATCGATACATCTAGGTAAACCCAG
1 AATGTAACGATACATCTAGGTAAACCCAG
* *
1714671 AATGTAACGATACA---A--T-GA---AT
1 AATGTAACGATACATCTAGGTAAACCCAG
*
1714691 AATGTATCGATACATCTAGGTAAACCCAG
1 AATGTAACGATACATCTAGGTAAACCCAG
1714720 AATGTAACGATACA
1 AATGTAACGATACA
1714734 ATGAATAATG
Statistics
Matches: 47, Mismatches: 7, Indels: 18
0.65 0.10 0.25
Matches are distributed among these distances:
20 14 0.30
23 2 0.04
24 1 0.02
25 1 0.02
26 2 0.04
29 27 0.57
ACGTcount: A:0.42, C:0.17, G:0.16, T:0.24
Consensus pattern (29 bp):
AATGTAACGATACATCTAGGTAAACCCAG
Found at i:1714695 original size:49 final size:49
Alignment explanation
Indices: 1714622--1714753 Score: 237
Period size: 49 Copynumber: 2.7 Consensus size: 49
1714612 TACATTGTAA
* **
1714622 AATGTATCGATACAATGAGCAATGTATCGATACATCTAGGTAAACCCAG
1 AATGTAACGATACAATGAATAATGTATCGATACATCTAGGTAAACCCAG
1714671 AATGTAACGATACAATGAATAATGTATCGATACATCTAGGTAAACCCAG
1 AATGTAACGATACAATGAATAATGTATCGATACATCTAGGTAAACCCAG
1714720 AATGTAACGATACAATGAATAATGTATCGATACA
1 AATGTAACGATACAATGAATAATGTATCGATACA
1714754 ATGAACAATG
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 80 1.00
ACGTcount: A:0.42, C:0.16, G:0.17, T:0.25
Consensus pattern (49 bp):
AATGTAACGATACAATGAATAATGTATCGATACATCTAGGTAAACCCAG
Found at i:1714745 original size:20 final size:20
Alignment explanation
Indices: 1714720--1714774 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
1714710 GTAAACCCAG
*
1714720 AATGTAACGATACAATGAAT
1 AATGTAACGATACAATGAAC
*
1714740 AATGTATCGATACAATGAAC
1 AATGTAACGATACAATGAAC
*
1714760 AATGTACCGATACAA
1 AATGTAACGATACAA
1714775 ATTGTGAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.47, C:0.15, G:0.15, T:0.24
Consensus pattern (20 bp):
AATGTAACGATACAATGAAC
Found at i:1716178 original size:13 final size:13
Alignment explanation
Indices: 1716160--1716184 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1716150 CATTTTATGG
1716160 TGTATCGATACAA
1 TGTATCGATACAA
1716173 TGTATCGATACA
1 TGTATCGATACA
1716185 TACTGTGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1716200 original size:32 final size:33
Alignment explanation
Indices: 1716138--1716204 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 33
1716128 GTTACAAGCA
**
1716138 AATGTATCGATACATTTTATGGTGTATCGATAC
1 AATGTATCGATACATACTATGGTGTATCGATAC
*
1716171 AATGTATCGATACATACTGT-GTGTATCGATAC
1 AATGTATCGATACATACTATGGTGTATCGATAC
1716203 AA
1 AA
1716205 GTTTAGCTAC
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
32 14 0.45
33 17 0.55
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.36
Consensus pattern (33 bp):
AATGTATCGATACATACTATGGTGTATCGATAC
Found at i:1716293 original size:13 final size:13
Alignment explanation
Indices: 1716275--1716299 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1716265 ACATTTGGTC
1716275 ATGTATCGATACA
1 ATGTATCGATACA
1716288 ATGTATCGATAC
1 ATGTATCGATAC
1716300 TGTGCAACAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1718416 original size:20 final size:20
Alignment explanation
Indices: 1718393--1718466 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
1718383 ACAATTCAAA
1718393 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
1718413 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
1718434 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
1718454 GTATCGATACATG
1 GTATCGATACATG
1718467 AAAAAGATGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:1718437 original size:21 final size:21
Alignment explanation
Indices: 1718411--1718486 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
1718401 ACATGTTGCA
1718411 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
1718432 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
1718452 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
1718473 ATGTATCGATACAT
1 ATGTATCGATACAT
1718487 TTCTTGGCAG
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:1718444 original size:41 final size:41
Alignment explanation
Indices: 1718393--1718486 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
1718383 ACAATTCAAA
1718393 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1718434 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1718475 GTATCGATACAT
1 GTATCGATACAT
1718487 TTCTTGGCAG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
Found at i:1718543 original size:13 final size:13
Alignment explanation
Indices: 1718525--1718550 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1718515 TACAGCAAGT
1718525 ATGTATCGATACA
1 ATGTATCGATACA
1718538 ATGTATCGATACA
1 ATGTATCGATACA
1718551 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1719071 original size:34 final size:35
Alignment explanation
Indices: 1719008--1719074 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
1718998 CTAAGTGATT
1719008 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
1719044 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
1719075 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:1720763 original size:84 final size:84
Alignment explanation
Indices: 1720591--1720764 Score: 192
Period size: 84 Copynumber: 2.1 Consensus size: 84
1720581 ACTCAAAGAA
* * * * * *
1720591 GAAAATAAATCAATAAGTGTAGAGAATGATTTTCTTGAAAAGAAATTAAGTGAATTAGAGAAGAA
1 GAAAATAAATCAATAAGTGTAGAAAATAATTTTCTTAAAAAGAAAATAAATGAAATAGAGAAGAA
* *
1720656 TATGAAAGAGTTACAAAAT
66 TAAGAAAAAGTTACAAAAT
* * *
1720675 GAAAATAAATCAATGAGTTTAGAAAATAATTCTT-TTAAAAAGAAAATAAATGAAATAGAGGAGA
1 GAAAATAAATCAATAAGTGTAGAAAATAATT-TTCTTAAAAAGAAAATAAATGAAATAGAGAAGA
*
1720739 A-AAGAAATAAGTTGC-AAAT
65 ATAAGAAA-AAGTTACAAAAT
1720758 GGAAAAT
1 -GAAAAT
1720765 GATGAATTGG
Statistics
Matches: 75, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
83 9 0.12
84 64 0.85
85 2 0.03
ACGTcount: A:0.54, C:0.03, G:0.18, T:0.25
Consensus pattern (84 bp):
GAAAATAAATCAATAAGTGTAGAAAATAATTTTCTTAAAAAGAAAATAAATGAAATAGAGAAGAA
TAAGAAAAAGTTACAAAAT
Found at i:1724084 original size:20 final size:20
Alignment explanation
Indices: 1724061--1724134 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
1724051 ACAATTCAAA
1724061 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
1724081 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
1724102 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
1724122 GTATCGATACATG
1 GTATCGATACATG
1724135 AAAAAGATGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:1724105 original size:21 final size:21
Alignment explanation
Indices: 1724079--1724154 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
1724069 ACATGTTGCA
1724079 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
1724100 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
1724120 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
1724141 ATGTATCGATACAT
1 ATGTATCGATACAT
1724155 TTCTTGGCAG
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:1724112 original size:41 final size:41
Alignment explanation
Indices: 1724061--1724154 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
1724051 ACAATTCAAA
1724061 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1724102 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1724143 GTATCGATACAT
1 GTATCGATACAT
1724155 TTCTTGGCAG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
Found at i:1724211 original size:13 final size:13
Alignment explanation
Indices: 1724193--1724218 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1724183 TACAGCAAGT
1724193 ATGTATCGATACA
1 ATGTATCGATACA
1724206 ATGTATCGATACA
1 ATGTATCGATACA
1724219 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1724739 original size:34 final size:35
Alignment explanation
Indices: 1724676--1724742 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
1724666 CTAAGTGATT
1724676 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
1724712 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
1724743 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:1726774 original size:51 final size:52
Alignment explanation
Indices: 1726655--1726793 Score: 181
Period size: 51 Copynumber: 2.7 Consensus size: 52
1726645 TCTAGAAAGA
* * * *
1726655 AAATGTATCGAGACATTTTTCATTGAATCAATACATTCTGGGTTTTTGACCC
1 AAATGTATCGATACATTATTCATTGTATCGATACATTCTGGGTTTTTGACCC
* *
1726707 AAATGTATCAATACATTATTCATTGTATCGATACATTCTGGG-TTTTGACCT
1 AAATGTATCGATACATTATTCATTGTATCGATACATTCTGGGTTTTTGACCC
* * * *
1726758 AAATGTATCGATACATTCTTTAATGTATTGATACAT
1 AAATGTATCGATACATTATTCATTGTATCGATACAT
1726794 GCAGGCCATT
Statistics
Matches: 76, Mismatches: 11, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
51 39 0.51
52 37 0.49
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.40
Consensus pattern (52 bp):
AAATGTATCGATACATTATTCATTGTATCGATACATTCTGGGTTTTTGACCC
Found at i:1730030 original size:20 final size:21
Alignment explanation
Indices: 1730005--1730058 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
1729995 CATTTTAGGC
1730005 ATGTATCGATACATTCACT-T
1 ATGTATCGATACATTCACTAT
* *
1730025 ATGTATCGATATATTTACTAT
1 ATGTATCGATACATTCACTAT
* *
1730046 TTGTATCAATACA
1 ATGTATCGATACA
1730059 AATTGCAGAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.33, C:0.15, G:0.09, T:0.43
Consensus pattern (21 bp):
ATGTATCGATACATTCACTAT
Found at i:1731845 original size:56 final size:56
Alignment explanation
Indices: 1731759--1731868 Score: 193
Period size: 56 Copynumber: 2.0 Consensus size: 56
1731749 TAGTTGGGCT
1731759 GTTTAGGCCCACTAGATGATTTTCCAAAATTTTTCAAACAATTTTCCTAAGAAGCC
1 GTTTAGGCCCACTAGATGATTTTCCAAAATTTTTCAAACAATTTTCCTAAGAAGCC
* * *
1731815 GTTTAGGCCCACTAGATGATTTTCCCAAATTTTTCAGACATTTTTCCTAAGAAG
1 GTTTAGGCCCACTAGATGATTTTCCAAAATTTTTCAAACAATTTTCCTAAGAAG
1731869 TTCATGAATT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
56 51 1.00
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.35
Consensus pattern (56 bp):
GTTTAGGCCCACTAGATGATTTTCCAAAATTTTTCAAACAATTTTCCTAAGAAGCC
Found at i:1735878 original size:97 final size:97
Alignment explanation
Indices: 1735712--1735945 Score: 290
Period size: 97 Copynumber: 2.4 Consensus size: 97
1735702 TTATTCACAT
* * * * * * * *
1735712 GGATATTTTAACTCCATTCTTCTAAAGGGATACTCAAATCCCGTTTTTAAACTTGTTAAGATTTA
1 GGATATTTCAACCCCATTCTTCTGAAGGGATACTCCAACCCCATTTTTAAACTTATCAAGATTTA
* *
1735777 AATCTTCTTTTTGCCTAAATTGTCATCATCGA
66 AATCTTATTTTCGCCTAAATTGTCATCATCGA
*
1735809 GGATATTTCAACCCCATTCTTCTGAGGGGATACTCCAACCCCATTTTTAAACTTATCAAGATTTA
1 GGATATTTCAACCCCATTCTTCTGAAGGGATACTCCAACCCCATTTTTAAACTTATCAAGATTTA
**
1735874 AATCTTATTTTCGCCTAAATTGTCATTGTCGA
66 AATCTTATTTTCGCCTAAATTGTCATCATCGA
* * * * *
1735906 GGACA-CTCAAACCCCATTCCTCCGAAGCGATACTCCAACC
1 GGATATTTC-AACCCCATTCTTCTGAAGGGATACTCCAACC
1735946 TCGTTTTTCA
Statistics
Matches: 117, Mismatches: 19, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
96 2 0.02
97 115 0.98
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.35
Consensus pattern (97 bp):
GGATATTTCAACCCCATTCTTCTGAAGGGATACTCCAACCCCATTTTTAAACTTATCAAGATTTA
AATCTTATTTTCGCCTAAATTGTCATCATCGA
Found at i:1737363 original size:79 final size:79
Alignment explanation
Indices: 1737230--1737428 Score: 222
Period size: 79 Copynumber: 2.5 Consensus size: 79
1737220 AATAACGGAG
* * * ** * *
1737230 TTGGAGTATCCCCTTGAAAATAACGGGGTTGGAGTATCCTCGGTTGTGGAAAATCGATGA-TTAG
1 TTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCAATTATGGAAAATCAAT-ATTTAG
1737294 GAAATAAAATCGAGA
65 GAAATAAAATCGAGA
* * *
1737309 TTGGAGTATGCCCTCGGAAATAATGGGGTTGGAGTATCCCCAATTAT-GAGAAATCAATATTTTG
1 TTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCAATTATGGA-AAATCAATATTTAG
* *
1737373 GAAATAAAATCGGGG
65 GAAATAAAATCGAGA
** * *
1737388 TTGGAGTATCCCCTCGGAGGTAACGGGATTAGAGTATCCCC
1 TTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCC
1737429 GATGAAATAA
Statistics
Matches: 100, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
78 3 0.03
79 97 0.97
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.27
Consensus pattern (79 bp):
TTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCAATTATGGAAAATCAATATTTAGG
AAATAAAATCGAGA
Found at i:1737397 original size:51 final size:51
Alignment explanation
Indices: 1737333--1737619 Score: 181
Period size: 51 Copynumber: 5.5 Consensus size: 51
1737323 CGGAAATAAT
* *
1737333 GGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGAAATAAAATC
1 GGGGTTGGAGTATCCCCGATTATGAGAAATTAATATTTTGGAAATAAAATC
* ** ***
1737384 GGGGTTGGAGTATCCCCTCGGAGGTA--ACGGGATTAGAGTATCCCCGATGAAAT--AA-C
1 GGGGTTGGAGTAT-CCC-C-GA-TTATGA-GAAATTA-A-TAT-TTTG--GAAATAAAATC
* * * * ** *
1737440 GAGGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATC
1 GGGGTTGGAGTATCCCCGATTATGAGAAATTAAT-ATTTTGGAAATAAAATC
* * * * ** * * *
1737492 AGAGTTGGAGTATCCCCAATTA-AAGGAAAATTGGTGTTTTGAAAATAAAACC
1 GGGGTTGGAGTATCCCCGATTATGA-G-AAATTAATATTTTGGAAATAAAATC
*
1737544 GGGGTTGGAGTATCCCCGATTATGAGAAATTAATATTTTGGAAATAAAATA
1 GGGGTTGGAGTATCCCCGATTATGAGAAATTAATATTTTGGAAATAAAATC
*
1737595 GGGGTTAGAGTATCCCCGATTATGA
1 GGGGTTGGAGTATCCCCGATTATGA
1737620 ACAATTGAGA
Statistics
Matches: 174, Mismatches: 43, Indels: 38
0.68 0.17 0.15
Matches are distributed among these distances:
49 5 0.03
51 61 0.35
52 56 0.32
53 16 0.09
54 7 0.04
55 5 0.03
56 16 0.09
57 3 0.02
59 5 0.03
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (51 bp):
GGGGTTGGAGTATCCCCGATTATGAGAAATTAATATTTTGGAAATAAAATC
Found at i:1737532 original size:52 final size:51
Alignment explanation
Indices: 1737442--1737616 Score: 174
Period size: 52 Copynumber: 3.4 Consensus size: 51
1737432 GAAATAACGA
* ** *
1737442 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCAG
1 GGTTGGAGTATCCCCGATTAAGGAAAATTGGTG-TTTTGGAAATAAAATCAG
* * * * *
1737494 AGTTGGAGTATCCCCAATTAAAGGAAAATTGGTGTTTTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT-AAGGAAAATTGGTGTTTTGGAAATAAAATCAG
* ** *
1737546 GGTTGGAGTATCCCCGATT-ATGAGAAATTAATATTTTGGAAATAAAAT-AGG
1 GGTTGGAGTATCCCCGATTAAGGA-AAATTGGTGTTTTGGAAATAAAATCA-G
*
1737597 GGTTAGAGTATCCCCGATTA
1 GGTTGGAGTATCCCCGATTA
1737617 TGAACAATTG
Statistics
Matches: 100, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
50 3 0.03
51 38 0.38
52 48 0.48
53 11 0.11
ACGTcount: A:0.34, C:0.10, G:0.25, T:0.31
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTAAGGAAAATTGGTGTTTTGGAAATAAAATCAG
Found at i:1740003 original size:13 final size:13
Alignment explanation
Indices: 1739985--1740010 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1739975 ACAAAGATCG
1739985 ATGTATCGATACA
1 ATGTATCGATACA
1739998 ATGTATCGATACA
1 ATGTATCGATACA
1740011 TTTCCTTGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1740075 original size:32 final size:32
Alignment explanation
Indices: 1740034--1740106 Score: 119
Period size: 32 Copynumber: 2.3 Consensus size: 32
1740024 AGCTTTGTAG
1740034 CGATACATTGTATCGATACAAAACTTATATAT
1 CGATACATTGTATCGATACAAAACTTATATAT
* * *
1740066 CGATACATTGTATTGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATATAT
1740098 CGATACATT
1 CGATACATT
1740107 TTCTGTTTGT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.36
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATATAT
Found at i:1740102 original size:19 final size:19
Alignment explanation
Indices: 1740042--1740104 Score: 57
Period size: 19 Copynumber: 3.6 Consensus size: 19
1740032 AGCGATACAT
*
1740042 TGTATCGATACAAAACTTA
1 TGTATCGATACAACACTTA
*
1740061 TATATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
*
1740074 TGTATTGATACAACACTTA
1 TGTATCGATACAACACTTA
1740093 TGTATCGATACA
1 TGTATCGATACA
1740105 TTTTCTGTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 12
0.66 0.10 0.24
Matches are distributed among these distances:
13 7 0.21
14 1 0.03
16 5 0.15
18 1 0.03
19 19 0.58
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:1740133 original size:19 final size:19
Alignment explanation
Indices: 1740073--1740134 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
1740063 TATCGATACA
*
1740073 TTGTATTGATACAACACT-T
1 TTGTATCGATACAA-ACTGT
* **
1740092 ATGTATCGATACATTTTCTGT
1 TTGTATCGATACA--AACTGT
1740113 TTGTATCGATACAAACTGT
1 TTGTATCGATACAAACTGT
1740132 TTG
1 TTG
1740135 AAATTCAAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
19 18 0.55
20 2 0.06
21 13 0.39
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.44
Consensus pattern (19 bp):
TTGTATCGATACAAACTGT
Found at i:1741184 original size:61 final size:61
Alignment explanation
Indices: 1741083--1741751 Score: 711
Period size: 61 Copynumber: 11.4 Consensus size: 61
1741073 TTTGAAAGGT
*
1741083 GTCCTGCTCTTTGAGGACTGAAAAGGTGCCACCAACTTGTGTGAGCTTTGAAAAGAAAAAGC
1 GTCCTGCTCTTTGAGGACT-AAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGC
* * * *
1741145 ATTCTGCTCTTTGAGGACTAAAATGTGCCACCAACTTGTGTGAGCTTTGAAAAGAAAAAGC
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGC
*
1741206 ATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGT-GGCTTTG-AAAG-----GC
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGC
* * * *
1741260 GTCCTGCTCTTTAAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAGAAGGT
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAA-GAAAAAGC
* * *
1741321 GTCCTGCTCTTTGATGATTGAAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAG-----GC
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGC
* * *
1741376 GCCCTGCTCTTTGAGGACTGAAAAGGTGCCACCAACTTGTGT-GGCTTTGAAAA-AAGAAGGT
1 GTCCTGCTCTTTGAGGACT-AAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAA-AAAGC
* * *
1741437 GTCCTGCTCTTTGAGGGCTGAAAA-GTGCCACCAACTTGTGTGGGCTTTGAAAA-AAGAAGGT
1 GTCCTGCTCTTTGAGGACT-AAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAA-AAAGC
* *
1741498 GTCCTGCTCTTTGAGGGCTGAAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAG-----GC
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGC
* * * * * *
1741553 GTCCTGCTCTTTGAGGATTGAAAA-GTGCCACTAACTTGTGTGGGCTTTGAAAGGAGAAGGT
1 GTCCTGCTCTTTGAGGACT-AAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGC
* * *
1741614 GTCCTGCTCTCTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGC-TTG----G-AAAGGC
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGC
* * * *
1741669 GTCCTGCTTTTTTAGGACTGAAAA-GTGCCACCAACTTGTGTGGGCTTT-AAAAGGAGAAGGC
1 GTCCTGCTCTTTGAGGACT-AAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAA-GAAAAAGC
*
1741730 GTCCTGCTTTTTGAGGACTAAA
1 GTCCTGCTCTTTGAGGACTAAA
1741752 GGGCAAAAAG
Statistics
Matches: 530, Mismatches: 41, Indels: 74
0.82 0.06 0.11
Matches are distributed among these distances:
54 41 0.08
55 116 0.22
56 37 0.07
59 4 0.01
60 40 0.08
61 275 0.52
62 17 0.03
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.27
Consensus pattern (61 bp):
GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGC
Found at i:1741372 original size:29 final size:29
Alignment explanation
Indices: 1741338--1741427 Score: 75
Period size: 29 Copynumber: 3.2 Consensus size: 29
1741328 TCTTTGATGA
1741338 TTGAAAGGTGCCACCAACTTGTGTGGGCT
1 TTGAAAGGTGCCACCAACTTGTGTGGGCT
* * * *
1741367 TTGAAAGGCGCC-CTGC-TCTT-TGAGGAC-
1 TTGAAAGGTGCCAC--CAACTTGTGTGGGCT
1741394 -TGAAAAGGTGCCACCAACTTGTGT-GGCT
1 TTG-AAAGGTGCCACCAACTTGTGTGGGCT
1741422 TTGAAA
1 TTGAAA
1741428 AAAGAAGGTG
Statistics
Matches: 45, Mismatches: 8, Indels: 17
0.64 0.11 0.24
Matches are distributed among these distances:
26 3 0.07
27 13 0.29
28 12 0.27
29 16 0.36
30 1 0.02
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (29 bp):
TTGAAAGGTGCCACCAACTTGTGTGGGCT
Found at i:1741386 original size:293 final size:291
Alignment explanation
Indices: 1740916--1741751 Score: 1185
Period size: 293 Copynumber: 2.9 Consensus size: 291
1740906 AAAATAAGGT
* * * *
1740916 GCATCCTGCTCTTTGAGGACTAAAATGTGCCACCAACTCGTGTGGGCTTCGAAAGGCATCCTGCT
1 GCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCT
*
1740981 CTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT--A--AG-AGGTGTCCTACTCTTTG
66 CTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAGGAGAAGGTGTCCTGCTCTTTG
* * * *
1741041 AGGACTGGAAA-ATGCTACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAA
131 AGGA-TTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGAA
*
1741105 AAGGTGCCACCAACTTGTGTGAGCTTTGAAAAGAAAAAGCATTCTGCTCTTTGAGGACTAAAATG
195 AAGGTGCCACCAACTTGTGTG-GCTTTGAAAAGAAAAAGCGTTCTGCTCTTTGAGGACTAAAA-G
1741170 TGCCACCAACTTGTGTGAGCTTTGAAAAGAA-AAA
258 TGCCACCAACTTGTGTGAGCTTTGAAAA-AAGAAA
1741204 GCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGT-GGCTTTGAAAGGCGTCCTGCT
1 GCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCT
*
1741268 CTTTAAGGACT-AAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGTGTCCTGCTCTT
66 CTTTGAGGACTGAAAA-GTGCCACCAACTTGTGTGGGCTTT-AAAGGAGAAGGTGTCCTGCTCTT
* *
1741332 TGATGATTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGCCCTGCTCTTTGAGGACTGA
129 TGAGGATTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGA
* *
1741397 AAAGGTGCCACCAACTTGTGTGGCTTTGAAAA-AAGAAG-GTGTCCTGCTCTTTGAGGGCTGAAA
194 AAAGGTGCCACCAACTTGTGTGGCTTTGAAAAGAAAAAGCGT-T-CTGCTCTTTGAGGACT-AAA
* *
1741460 AGTGCCACCAACTTGTGTGGGCTTTGAAAAAAGAAG
256 AGTGCCACCAACTTGTGTGAGCTTTGAAAAAAGAAA
** * *
1741496 GTGTCCTGCTCTTTGAGGGCTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCT
1 GCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCT
* * *
1741561 CTTTGAGGATTGAAAAGTGCCACTAACTTGTGTGGGCTTTGAAAGGAGAAGGTGTCCTGCTCTCT
66 CTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAGGAGAAGGTGTCCTGCTCTTT
* * * *
1741626 GAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTGGAAAGGCGTCCTGCTTTTTTAGGACTGAA
130 GAGGATTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGAA
* * * *
1741691 AA-GTGCCACCAACTTGTGTGGGCTTT-AAAAGGAGAAGGCGTCCTGCTTTTTGAGGACTAAA
195 AAGGTGCCACCAACTTGTGT-GGCTTTGAAAA-GAAAAAGCGTTCTGCTCTTTGAGGACTAAA
1741752 GGGCAAAAAG
Statistics
Matches: 492, Mismatches: 38, Indels: 32
0.88 0.07 0.06
Matches are distributed among these distances:
286 4 0.01
287 53 0.11
288 41 0.08
290 2 0.00
291 8 0.02
292 125 0.25
293 250 0.51
294 7 0.01
295 2 0.00
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (291 bp):
GCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCT
CTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAGGAGAAGGTGTCCTGCTCTTTG
AGGATTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGAAA
AGGTGCCACCAACTTGTGTGGCTTTGAAAAGAAAAAGCGTTCTGCTCTTTGAGGACTAAAAGTGC
CACCAACTTGTGTGAGCTTTGAAAAAAGAAA
Found at i:1741548 original size:29 final size:29
Alignment explanation
Indices: 1741516--1741606 Score: 73
Period size: 29 Copynumber: 3.2 Consensus size: 29
1741506 CTTTGAGGGC
1741516 TGAAAGGTGCCACCAACTTGTGTGGGCTT
1 TGAAAGGTGCCACCAACTTGTGTGGGCTT
* ** * * *
1741545 TGAAAGGCGTCCTGC-TCTT-TG-AGG-AT
1 TGAAAGGTG-CCACCAACTTGTGTGGGCTT
* *
1741571 TGAAAAGTGCCACTAACTTGTGTGGGCTT
1 TGAAAGGTGCCACCAACTTGTGTGGGCTT
1741600 TGAAAGG
1 TGAAAGG
1741607 AGAAGGTGTC
Statistics
Matches: 42, Mismatches: 15, Indels: 10
0.63 0.22 0.15
Matches are distributed among these distances:
25 2 0.05
26 11 0.26
27 4 0.10
28 4 0.10
29 18 0.43
30 3 0.07
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.29
Consensus pattern (29 bp):
TGAAAGGTGCCACCAACTTGTGTGGGCTT
Found at i:1741723 original size:116 final size:114
Alignment explanation
Indices: 1740919--1741753 Score: 894
Period size: 116 Copynumber: 7.2 Consensus size: 114
1740909 ATAAGGTGCA
* * * * *
1740919 TCCTGCTCTTTGAGGACTAAAATGTGCCACCAACTCGTGTGGGCTTCGAAAGGCATCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTGGAAAGGCGTCCTGCTCTT
1740984 TGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT--A-AG-AGGTG
66 TGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAGAGAAGGTG
* * * * *
1741029 TCCTACTCTTTGAGGACTGGAAA-ATGCTACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCT
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTGGAAAGGCGTCCTGCTCT
* * * **
1741093 TTGAGGACTGAAAAGGTGCCACCAACTTGTGTGAGCTTTGAAAAGAAAAAGCA
65 TTGAGGACTGAAAA-GTGCCACCAACTTGTGTGGGCTTT--AAAGAGAAGGTG
* * * * * *
1741146 TTCTGCTCTTTGAGGACTAAAATGTGCCACCAACTTGTGTGAGCTTTGAAAAGAAAAAGCATCCT
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGC-TTG----G-AAAGGCGTCCT
*
1741211 GCTCTTTGAGGACT-AAAAGGTGCCACCAACTTGTGT-GGCTTT---GA-AAGGCG
60 GCTCTTTGAGGACTGAAAA-GTGCCACCAACTTGTGTGGGCTTTAAAGAGAAGGTG
* * *
1741261 TCCTGCTCTTTAAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGTGTCCT
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGC-TT----GGA-AAGGCGTCCT
* * * *
1741326 GCTCTTTGATGATTGAAAGGTGCCACCAACTTGTGTGGGCTTT---GA-AAGGCG
60 GCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAGAGAAGGTG
* * *
1741377 CCCTGCTCTTTGAGGACTGAAAAGGTGCCACCAACTTGTGT-GGCTTTGAAAAAAGAAGGTGTCC
1 TCCTGCTCTTTGAGGACTG-AAAGGTGCCACCAACTTGTGTGGGC-TTG----GA-AAGGCGTCC
* *
1741441 TGCTCTTTGAGGGCTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAAAGAAGGTG
59 TGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT--AAAGAGAAGGTG
* *
1741499 TCCTGCTCTTTGAGGGCTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTGGAAAGGCGTCCTGCTCTT
* *
1741564 TGAGGATTGAAAAGTGCCACTAACTTGTGTGGGCTTTGAAAGGAGAAGGTG
66 TGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAA-GAGAAGGTG
* *
1741615 TCCTGCTCTCTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTGGAAAGGCGTCCTGCTTTT
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTGGAAAGGCGTCCTGCTCTT
* *
1741680 TTAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCG
66 TGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAA-GAGAAGGTG
*
1741731 TCCTGCTTTTTGAGGACT-AAAGG
1 TCCTGCTCTTTGAGGACTGAAAGG
1741754 GCAAAAAGAG
Statistics
Matches: 623, Mismatches: 67, Indels: 65
0.83 0.09 0.09
Matches are distributed among these distances:
110 66 0.11
111 26 0.04
112 1 0.00
114 1 0.00
115 93 0.15
116 276 0.44
117 58 0.09
118 2 0.00
119 1 0.00
121 29 0.05
122 48 0.08
123 22 0.04
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (114 bp):
TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTGGAAAGGCGTCCTGCTCTT
TGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAGAGAAGGTG
Found at i:1741843 original size:100 final size:100
Alignment explanation
Indices: 1741670--1741851 Score: 301
Period size: 100 Copynumber: 1.8 Consensus size: 100
1741660 TGGAAAGGCG
* * * *
1741670 TCCTGCTTTTTTAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCT
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCT
*
1741735 GCTTTTTGAGGACTAAAGGGCAAAAAGAGAGAACA
66 GCTCTTTGAGGACTAAAGGGCAAAAAGAGAGAACA
**
1741770 TCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCT
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCT
1741835 GCTCTTTGAGGACTAAA
66 GCTCTTTGAGGACTAAA
1741852 AAGCTGAAGG
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
100 75 1.00
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.26
Consensus pattern (100 bp):
TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCT
GCTCTTTGAGGACTAAAGGGCAAAAAGAGAGAACA
Found at i:1742834 original size:1 final size:1
Alignment explanation
Indices: 1742823--1742894 Score: 54
Period size: 1 Copynumber: 72.0 Consensus size: 1
1742813 CAGATTCTTC
* * * ** * * * **
1742823 TTTTTTCTTTTTTTTTTGTTTTTTTTTGTTCATTTTTTTTTTGTTGTTGTTTTTTTTTTGCTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1742888 TTTTTTT
1 TTTTTTT
1742895 AGAAAAGAAG
Statistics
Matches: 53, Mismatches: 18, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 53 1.00
ACGTcount: A:0.01, C:0.04, G:0.08, T:0.86
Consensus pattern (1 bp):
T
Found at i:1742859 original size:15 final size:14
Alignment explanation
Indices: 1742823--1742893 Score: 64
Period size: 15 Copynumber: 5.3 Consensus size: 14
1742813 CAGATTCTTC
1742823 TTTT-TTCTTTTTT
1 TTTTGTTCTTTTTT
1742836 TTTTG----TTTTT
1 TTTTGTTCTTTTTT
1742846 TTTTGTTCATTTTTT
1 TTTTGTTC-TTTTTT
*
1742861 TTTTGTTGTTGTTTT
1 TTTTGTTCTT-TTTT
1742876 TTTT-TTGCTTTTTT
1 TTTTGTT-CTTTTTT
1742890 TTTT
1 TTTT
1742894 TAGAAAAGAA
Statistics
Matches: 48, Mismatches: 2, Indels: 15
0.74 0.03 0.23
Matches are distributed among these distances:
10 10 0.21
13 4 0.08
14 12 0.25
15 22 0.46
ACGTcount: A:0.01, C:0.04, G:0.08, T:0.86
Consensus pattern (14 bp):
TTTTGTTCTTTTTT
Found at i:1742873 original size:31 final size:30
Alignment explanation
Indices: 1742830--1742894 Score: 91
Period size: 30 Copynumber: 2.3 Consensus size: 30
1742820 TTCTTTTTTC
*
1742830 TTTTTTTT-TTGTT-TTTTTTTGTT-CATT
1 TTTTTTTTGTTGTTGTTTTTTTTTTGCATT
*
1742857 TTTTTTTTGTTGTTGTTTTTTTTTTGCTTT
1 TTTTTTTTGTTGTTGTTTTTTTTTTGCATT
1742887 TTTTTTTT
1 TTTTTTTT
1742895 AGAAAAGAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
27 8 0.24
28 5 0.15
29 9 0.27
30 11 0.33
ACGTcount: A:0.02, C:0.03, G:0.09, T:0.86
Consensus pattern (30 bp):
TTTTTTTTGTTGTTGTTTTTTTTTTGCATT
Found at i:1755429 original size:79 final size:78
Alignment explanation
Indices: 1755261--1755493 Score: 220
Period size: 79 Copynumber: 2.9 Consensus size: 78
1755251 ATATGTCCCG
* * * * *
1755261 ATGAGAAATTTAATATTTTGGAGATAATAA-CGGGGTTGGAGTATCCTCC-TGAAAATAACAGGG
1 ATGA-AAAATTAATATTTAGGAAATAA-AACCGGGGTTGGAGTATCC-CCTTGGAAATAACGGGG
**
1755324 TTGGAGTATCACCCGTT
63 TTGGAGTATC-CCAATT
* * * *
1755341 GTGAAAAATTGATGA-TTAGGAAATAAAATCGGGATTGGAGTATCCCCTTGGAAATAACGGGGTT
1 ATGAAAAATTAAT-ATTTAGGAAATAAAACCGGGGTTGGAGTATCCCCTTGGAAATAACGGGGTT
1755405 GGAGTATCCCTAATT
65 GGAGTATCCC-AATT
* ** * * * **
1755420 ATGAGAAATTAATATTTTTGAAATAAAGCCGGGGTTGGAGTATCACCTCGGAGGTAACGGGGTTG
1 ATGAAAAATTAATATTTAGGAAATAAAACCGGGGTTGGAGTATCCCCTTGGAAATAACGGGGTTG
1755485 GAGTATCCC
66 GAGTATCCC
1755494 CGATGAAATA
Statistics
Matches: 126, Mismatches: 22, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
78 7 0.06
79 115 0.91
80 4 0.03
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.28
Consensus pattern (78 bp):
ATGAAAAATTAATATTTAGGAAATAAAACCGGGGTTGGAGTATCCCCTTGGAAATAACGGGGTTG
GAGTATCCCAATT
Found at i:1755505 original size:28 final size:28
Alignment explanation
Indices: 1755449--1755525 Score: 77
Period size: 28 Copynumber: 2.8 Consensus size: 28
1755439 GAAATAAAGC
**
1755449 CGGGGTTGGAGTATCACCTCG--GAGGTAA
1 CGGGGTTGGAGTATC-CC-CGATGAAATAA
1755477 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
* * *
1755505 CGAGATTGGAGTATCCTCGAT
1 CGGGGTTGGAGTATCCCCGAT
1755526 TGTGAAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
26 2 0.05
27 2 0.05
28 38 0.90
ACGTcount: A:0.25, C:0.18, G:0.34, T:0.23
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:1755505 original size:107 final size:108
Alignment explanation
Indices: 1755370--1755571 Score: 257
Period size: 107 Copynumber: 1.9 Consensus size: 108
1755360 GAAATAAAAT
* * * *
1755370 CGGGATTGGAGTATCCCCTTGGAAATAACGGGGTTGGAGTATCC-CTAATTATGAGAAATTAATA
1 CGGGATTGGAGTATCCCCATGGAAATAACGAGATTGGAGTATCCTC-AATTATGAAAAATTAATA
* *
1755434 TTTTT-GAAATAAAGCCGGGGTTGGAGTATCACCTCGGAGGTAA
65 TTTTTGGAAATAAAACCGGAGTTGGAGTATCACCTCGGAGGTAA
* * * **
1755477 CGGGGTTGGAGTATCCCCGAT-GAAATAACGAGATTGGAGTATCCTCGATTGTGAAAAATTGGTA
1 CGGGATTGGAGTATCCCC-ATGGAAATAACGAGATTGGAGTATCCTCAATTATGAAAAATTAATA
*
1755541 TTTTTGGAAATAAAATCGGAGTTGGAGTATC
65 TTTTTGGAAATAAAACCGGAGTTGGAGTATC
1755572 CCCGATTAAA
Statistics
Matches: 80, Mismatches: 12, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
107 56 0.70
108 24 0.30
ACGTcount: A:0.30, C:0.13, G:0.28, T:0.29
Consensus pattern (108 bp):
CGGGATTGGAGTATCCCCATGGAAATAACGAGATTGGAGTATCCTCAATTATGAAAAATTAATAT
TTTTGGAAATAAAACCGGAGTTGGAGTATCACCTCGGAGGTAA
Found at i:1755571 original size:52 final size:51
Alignment explanation
Indices: 1755513--1755692 Score: 207
Period size: 51 Copynumber: 3.5 Consensus size: 51
1755503 AACGAGATTG
* * * * *
1755513 GAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTG
1 GAGTATCCCCGATTATGAAAAATTGGTA-TTTTGGAAATAAAACCGGGGTTA
* * * **
1755565 GAGTATCCCCGATTAAAGGAAAATTGGTGTTTTAAAAATAAAACCGGGGTTA
1 GAGTATCCCCGATT-ATGAAAAATTGGTATTTTGGAAATAAAACCGGGGTTA
* * **
1755617 GAGTATCCTCGATTATGAGAAATTAATATTTTGGAAATAAAACCGGGGTTA
1 GAGTATCCCCGATTATGAAAAATTGGTATTTTGGAAATAAAACCGGGGTTA
*
1755668 GAGTATCCCCGATTATGAACAATTG
1 GAGTATCCCCGATTATGAAAAATTG
1755693 AGAAACTTAA
Statistics
Matches: 104, Mismatches: 23, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
51 50 0.48
52 44 0.42
53 10 0.10
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.31
Consensus pattern (51 bp):
GAGTATCCCCGATTATGAAAAATTGGTATTTTGGAAATAAAACCGGGGTTA
Found at i:1755659 original size:51 final size:51
Alignment explanation
Indices: 1755513--1755685 Score: 195
Period size: 52 Copynumber: 3.4 Consensus size: 51
1755503 AACGAGATTG
* * * * * *
1755513 GAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTG
1 GAGTATCCCCGATTATGAGAAATTGGTA-TTTTGGAAATAAAACCGGGGTTA
* * **
1755565 GAGTATCCCCGATTA-AAGGAAAATTGGTGTTTTAAAAATAAAACCGGGGTTA
1 GAGTATCCCCGATTATGA-G-AAATTGGTATTTTGGAAATAAAACCGGGGTTA
* **
1755617 GAGTATCCTCGATTATGAGAAATTAATATTTTGGAAATAAAACCGGGGTTA
1 GAGTATCCCCGATTATGAGAAATTGGTATTTTGGAAATAAAACCGGGGTTA
1755668 GAGTATCCCCGATTATGA
1 GAGTATCCCCGATTATGA
1755686 ACAATTGAGA
Statistics
Matches: 100, Mismatches: 18, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
51 45 0.45
52 46 0.46
53 9 0.09
ACGTcount: A:0.35, C:0.11, G:0.23, T:0.31
Consensus pattern (51 bp):
GAGTATCCCCGATTATGAGAAATTGGTATTTTGGAAATAAAACCGGGGTTA
Found at i:1758076 original size:13 final size:13
Alignment explanation
Indices: 1758058--1758083 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1758048 ACAAAGATCG
1758058 ATGTATCGATACA
1 ATGTATCGATACA
1758071 ATGTATCGATACA
1 ATGTATCGATACA
1758084 TTTCCTTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1758094 original size:21 final size:22
Alignment explanation
Indices: 1758070--1758112 Score: 79
Period size: 21 Copynumber: 2.0 Consensus size: 22
1758060 GTATCGATAC
1758070 AATGTATCGATACATT-TCCTT
1 AATGTATCGATACATTATCCTT
1758091 AATGTATCGATACATTATCCTT
1 AATGTATCGATACATTATCCTT
1758113 GGCAGTAGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.30, C:0.19, G:0.09, T:0.42
Consensus pattern (22 bp):
AATGTATCGATACATTATCCTT
Found at i:1758163 original size:19 final size:19
Alignment explanation
Indices: 1758139--1758186 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
1758129 CAATACATTA
1758139 TATCGATACAAAACTTATG
1 TATCGATACAAAACTTATG
*
1758158 TATCGATACAACACTTATG
1 TATCGATACAAAACTTATG
1758177 TATCGATACA
1 TATCGATACA
1758187 TTTTTTGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (19 bp):
TATCGATACAAAACTTATG
Found at i:1759438 original size:47 final size:46
Alignment explanation
Indices: 1759323--1759493 Score: 166
Period size: 46 Copynumber: 3.7 Consensus size: 46
1759313 ACATTAATCA
* * * * * *
1759323 AACTTATAGCTTTTGCATGGATAAAGCTACAAACTTTCCTCACAAA
1 AACTTGTAACTTTTGCTTGGATAAAGTTACAAACTATCCTCACAAC
* * * * *
1759369 AAATTGTAACTTTT-CTACGGATAATGTTGCAAACCATCCTCACAATC
1 AACTTGTAACTTTTGCT-TGGATAAAGTTACAAACTATCCTCACAA-C
*
1759416 AACTTGTAACTTTTGCTTGGATAAAGTTACAAACTATCC-AACACAC
1 AACTTGTAACTTTTGCTTGGATAAAGTTACAAACTATCCTCACA-AC
* * *
1759462 AACTTGTAGCTTTTGCTTGGAGAAAGCTACAA
1 AACTTGTAACTTTTGCTTGGATAAAGTTACAA
1759494 GTTCTCCAAC
Statistics
Matches: 101, Mismatches: 20, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
45 1 0.01
46 66 0.65
47 32 0.32
48 2 0.02
ACGTcount: A:0.35, C:0.21, G:0.13, T:0.31
Consensus pattern (46 bp):
AACTTGTAACTTTTGCTTGGATAAAGTTACAAACTATCCTCACAAC
Found at i:1759476 original size:46 final size:46
Alignment explanation
Indices: 1759322--1759528 Score: 159
Period size: 46 Copynumber: 4.5 Consensus size: 46
1759312 TACATTAATC
* * * *
1759322 AAACTTATAGCTTTTGCATGGATAAAGCTACAAACTTTCCTCACAA
1 AAACTTGTAGCTTTTGCTTGGATAAAGCTACAAACTATCCACACAA
* * * * * * * *
1759368 AAAATTGTAACTTTT-CTACGGATAATGTTGCAAACCATCCTCACAA
1 AAACTTGTAGCTTTTGCT-TGGATAAAGCTACAAACTATCCACACAA
* * *
1759414 TCAACTTGTAACTTTTGCTTGGATAAAGTTACAAACTATCCA-ACACA
1 -AAACTTGTAGCTTTTGCTTGGATAAAGCTACAAACTATCCACACA-A
* * ** *
1759461 CAACTTGTAGCTTTTGCTTGGAGAAAGCTACAAGTTCTCCA-ACAAA
1 AAACTTGTAGCTTTTGCTTGGATAAAGCTACAAACTATCCACAC-AA
* *
1759507 AAACTAGTAGCTTTTGCATGGA
1 AAACTTGTAGCTTTTGCTTGGA
1759529 AGAAGAAATA
Statistics
Matches: 130, Mismatches: 26, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
45 1 0.01
46 94 0.72
47 33 0.25
48 2 0.02
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (46 bp):
AAACTTGTAGCTTTTGCTTGGATAAAGCTACAAACTATCCACACAA
Found at i:1760324 original size:20 final size:20
Alignment explanation
Indices: 1760299--1760352 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
1760289 CTACCATTAT
1760299 TTGTATCGATACATAG-GACA
1 TTGTATCGATACATAGTGA-A
*
1760319 TTGTATCGATGCATAGTGAA
1 TTGTATCGATACATAGTGAA
**
1760339 AAGTATCGATACAT
1 TTGTATCGATACAT
1760353 TGTGCCCAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 27 0.93
21 2 0.07
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.31
Consensus pattern (20 bp):
TTGTATCGATACATAGTGAA
Found at i:1762399 original size:15 final size:15
Alignment explanation
Indices: 1762379--1762450 Score: 135
Period size: 15 Copynumber: 4.8 Consensus size: 15
1762369 GAATAAATAA
1762379 AAAATTCTTGAAAAT
1 AAAATTCTTGAAAAT
1762394 AAAATTCTTGAAAAT
1 AAAATTCTTGAAAAT
1762409 AAAATTCTTGAAAAT
1 AAAATTCTTGAAAAT
1762424 AAAATTCTTGAAAAT
1 AAAATTCTTGAAAAT
*
1762439 AAAATTTTTGAA
1 AAAATTCTTGAA
1762451 CTAGAAAAGA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
15 56 1.00
ACGTcount: A:0.53, C:0.06, G:0.07, T:0.35
Consensus pattern (15 bp):
AAAATTCTTGAAAAT
Found at i:1766345 original size:13 final size:13
Alignment explanation
Indices: 1766327--1766352 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1766317 CAATGATCTT
1766327 TGTATCGATACAA
1 TGTATCGATACAA
1766340 TGTATCGATACAA
1 TGTATCGATACAA
1766353 AGGTAATATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1766708 original size:50 final size:49
Alignment explanation
Indices: 1766633--1766767 Score: 173
Period size: 50 Copynumber: 2.7 Consensus size: 49
1766623 TTTCATAATT
* *
1766633 TGTATCGAAACATTCTTCATTGTATTGATACATTCTGGGTTTTAC-CTAAA
1 TGTATCGATACATT-TTCATTGTATTGATACATTCTAGGTTTTACAC-AAA
1766683 TGTATCGATACATTATTCATTGTATTGATACATTCTAGGTTTTACACAAA
1 TGTATCGATACATT-TTCATTGTATTGATACATTCTAGGTTTTACACAAA
* * * *
1766733 TATATCGATAGATTTCTCAGTGTATCGATACATTC
1 TGTATCGATACATTT-TCATTGTATTGATACATTC
1766768 AAGCATTGTT
Statistics
Matches: 76, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
49 1 0.01
50 74 0.97
51 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.41
Consensus pattern (49 bp):
TGTATCGATACATTTTCATTGTATTGATACATTCTAGGTTTTACACAAA
Found at i:1768183 original size:13 final size:13
Alignment explanation
Indices: 1768165--1768189 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1768155 ACACATAGTA
1768165 TGTATCGATACAT
1 TGTATCGATACAT
1768178 TGTATCGATACA
1 TGTATCGATACA
1768190 CCATAAAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1768186 original size:32 final size:33
Alignment explanation
Indices: 1768145--1768212 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
1768135 ATAGCCAAAC
**
1768145 TTGTATCGATACA-CATAGTATGTATCGATACA
1 TTGTATCGATACACCATAAAATGTATCGATACA
1768177 TTGTATCGATACACCATAAAATGTATCGATACA
1 TTGTATCGATACACCATAAAATGTATCGATACA
1768210 TTG
1 TTG
1768213 GCTTGTAACA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 13 0.39
33 20 0.61
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (33 bp):
TTGTATCGATACACCATAAAATGTATCGATACA
Found at i:1772248 original size:15 final size:15
Alignment explanation
Indices: 1772228--1772258 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1772218 TAAAAATATC
*
1772228 CAAATTGAGGAAGCT
1 CAAATTGAAGAAGCT
1772243 CAAATTGAAGAAGCT
1 CAAATTGAAGAAGCT
1772258 C
1 C
1772259 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.16, G:0.23, T:0.19
Consensus pattern (15 bp):
CAAATTGAAGAAGCT
Found at i:1774119 original size:8 final size:8
Alignment explanation
Indices: 1774106--1774137 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
1774096 ATTTGATTAA
1774106 ATTTTGTG
1 ATTTTGTG
1774114 ATTTTGTG
1 ATTTTGTG
*
1774122 ATTTAGTG
1 ATTTTGTG
1774130 ATTTTGTG
1 ATTTTGTG
1774138 TTGAATGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.16, C:0.00, G:0.25, T:0.59
Consensus pattern (8 bp):
ATTTTGTG
Found at i:1774188 original size:20 final size:22
Alignment explanation
Indices: 1774163--1774202 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
1774153 AATGAATGAA
1774163 TTTTA-TG-ATTGATTTTGTGT
1 TTTTATTGTATTGATTTTGTGT
*
1774183 TTTTATTGTTTTGATTTTGT
1 TTTTATTGTATTGATTTTGT
1774203 TTGAAGTTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 2 0.12
22 10 0.59
ACGTcount: A:0.12, C:0.00, G:0.17, T:0.70
Consensus pattern (22 bp):
TTTTATTGTATTGATTTTGTGT
Found at i:1776195 original size:35 final size:35
Alignment explanation
Indices: 1776154--1776237 Score: 150
Period size: 35 Copynumber: 2.4 Consensus size: 35
1776144 TAAATTTTTG
*
1776154 ATTAAGGGGGAGAAAAAGATAAGTGCTTATGATTA
1 ATTAAGGGGGAGAAAAAGATAAGTACTTATGATTA
*
1776189 ATTAAGGGGGAGAAAGAGATAAGTACTTATGATTA
1 ATTAAGGGGGAGAAAAAGATAAGTACTTATGATTA
1776224 ATTAAGGGGGAGAA
1 ATTAAGGGGGAGAA
1776238 TGCGCGAATT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
35 47 1.00
ACGTcount: A:0.43, C:0.02, G:0.31, T:0.24
Consensus pattern (35 bp):
ATTAAGGGGGAGAAAAAGATAAGTACTTATGATTA
Found at i:1776936 original size:32 final size:33
Alignment explanation
Indices: 1776895--1776962 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
1776885 GTAGCCAAAC
**
1776895 TTGTATCGATACA-CATAGTATATATCGATACA
1 TTGTATCGATACACCATAAAATATATCGATACA
*
1776927 TTGTATCGATACACCATAAAATGTATCGATACA
1 TTGTATCGATACACCATAAAATATATCGATACA
1776960 TTG
1 TTG
1776963 GCTTGTAACG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 13 0.41
33 19 0.59
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.34
Consensus pattern (33 bp):
TTGTATCGATACACCATAAAATATATCGATACA
Found at i:1779130 original size:28 final size:28
Alignment explanation
Indices: 1779084--1779154 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
1779074 CATAATTGGA
** **
1779084 GATACTCTAACCCTGTTATTTTTGAGGG
1 GATACTCTAACCCCATTATTTTCAAGGG
*
1779112 GATACTCTATCCCCATTATTTTCAAGGG
1 GATACTCTAACCCCATTATTTTCAAGGG
*
1779140 GATACTCCAACCCCA
1 GATACTCTAACCCCA
1779155 ATTTTATTTT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.25, C:0.27, G:0.15, T:0.32
Consensus pattern (28 bp):
GATACTCTAACCCCATTATTTTCAAGGG
Found at i:1779194 original size:79 final size:78
Alignment explanation
Indices: 1779110--1779284 Score: 226
Period size: 79 Copynumber: 2.2 Consensus size: 78
1779100 TATTTTTGAG
* *
1779110 GGGATACTCTATCCCCATTATTTTCAAGGGGATACTCCAACCCCAATTTTATTTTCGAAA-CATC
1 GGGATACTCTAACCCCATTATTTTCAAGGGGATACTCCAACCCCAATTTTATTTTC-AAAGCACC
*
1779174 AATTTTTCACAGTC
65 AATTTTTCACAATC
* * * * * * *
1779188 GAGGATAGTTTAACCCTATTATTTTCGAGGGGATACTCTAACCTCGATTTTATTTTCAAAGCACC
1 G-GGATACTCTAACCCCATTATTTTCAAGGGGATACTCCAACCCCAATTTTATTTTCAAAGCACC
1779253 AATTTTTCACAATC
65 AATTTTTCACAATC
1779267 GGAGATACTCTAACCCCA
1 GG-GATACTCTAACCCCA
1779285 GTTTTATTTC
Statistics
Matches: 81, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
78 5 0.06
79 76 0.94
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.34
Consensus pattern (78 bp):
GGGATACTCTAACCCCATTATTTTCAAGGGGATACTCCAACCCCAATTTTATTTTCAAAGCACCA
ATTTTTCACAATC
Found at i:1779210 original size:107 final size:107
Alignment explanation
Indices: 1779020--1779227 Score: 267
Period size: 107 Copynumber: 1.9 Consensus size: 107
1779010 ATTCATGTTT
* * * * *
1779020 TTATTTCCGAGGGGATACTCCAACCCCAGTTTTATTTTCAAAACACTGATTTTCCATAATTGGAG
1 TTATTTCCAAGGGGATACTCCAACCCCAATTTTATTTTCAAAACACTAATTTTCCACAATCGGAG
* *
1779085 ATACTCTAACCCTGTTATTTTTGAGGGGATACTCTATCCCCA
66 ATACTCTAACCCTATTATTTTCGAGGGGATACTCTATCCCCA
* * * *
1779127 TTATTTTCAAGGGGATACTCCAACCCCAATTTTATTTTCGAAACA-TCAATTTTTCACAGTC-GA
1 TTATTTCCAAGGGGATACTCCAACCCCAATTTTATTTTCAAAACACT-AATTTTCCACAATCGGA
* *
1779190 GGATAGTTTAACCCTATTATTTTCGAGGGGATACTCTA
65 -GATACTCTAACCCTATTATTTTCGAGGGGATACTCTA
1779228 ACCTCGATTT
Statistics
Matches: 86, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
106 3 0.03
107 83 0.97
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.36
Consensus pattern (107 bp):
TTATTTCCAAGGGGATACTCCAACCCCAATTTTATTTTCAAAACACTAATTTTCCACAATCGGAG
ATACTCTAACCCTATTATTTTCGAGGGGATACTCTATCCCCA
Found at i:1779279 original size:51 final size:50
Alignment explanation
Indices: 1779219--1779385 Score: 201
Period size: 51 Copynumber: 3.3 Consensus size: 50
1779209 TTTTCGAGGG
* * * ** *
1779219 GATACTCTAACCTCGATTTTATTTTCAAAGCACCAATTTTTCACAATCGGA
1 GATACTCTAACC-CCATTTTATTTCCAAAACACTGATTTTTCATAATCGGA
* *
1779270 GATACTCTAACCCCAGTTTTATTTCCAAAACATTGATTTTTCATAATCGGG
1 GATACTCTAACCCCA-TTTTATTTCCAAAACACTGATTTTTCATAATCGGA
* *
1779321 GATACTCCAACCCTTATTTTATTTCCAAAACACTGATTTTTCATAATC-GA
1 GATACTCTAACCC-CATTTTATTTCCAAAACACTGATTTTTCATAATCGGA
1779371 GGATACTCTAACCCC
1 -GATACTCTAACCCC
1779386 GTTATTTCTG
Statistics
Matches: 99, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
50 3 0.03
51 95 0.96
52 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.10, T:0.35
Consensus pattern (50 bp):
GATACTCTAACCCCATTTTATTTCCAAAACACTGATTTTTCATAATCGGA
Found at i:1779454 original size:79 final size:79
Alignment explanation
Indices: 1779321--1779665 Score: 340
Period size: 79 Copynumber: 4.4 Consensus size: 79
1779311 CATAATCGGG
* * * *
1779321 GATACTCCAACC-CTTATTTTATTTCCAAAACACTGATTTTTCATAATCGAGGATACTCTAACCC
1 GATACTCCAACCTC-GATTTTATTTTCAAAACACTGATTTTCCATAATCGAAGATACTCTAACCC
*
1779385 CGTTATTTCTGAAAA
65 CGTTATTTCTGAAGA
* * * * **
1779400 GATACTCCAACCTCGATTTTATATTCAAAACATTGATTTTCCATATTTGGGGATACTCTAACCCC
1 GATACTCCAACCTCGATTTTATTTTCAAAACACTGATTTTCCATAATCGAAGATACTCTAACCCC
* * * *
1779465 ATTATTTCTTAGGG
66 GTTATTTCTGAAGA
* * * * **
1779479 GATACTCCAACC-CTGATTTTATTTTCAAAACA-TTATTTTTTCATAATTGGAGATACTCCGACC
1 GATACTCCAACCTC-GATTTTATTTTCAAAACACTGA-TTTTCCATAATCGAAGATACTCTAACC
* **
1779542 CTGTTATTT-TAGGGGA
64 CCGTTATTTCT-GAAGA
* * *
1779558 GATACTCCAACCTCGATTTTATTTTCAAAATACCGATTTT-CACAATCGAAGATACTCTAACCCC
1 GATACTCCAACCTCGATTTTATTTTCAAAACACTGATTTTCCATAATCGAAGATACTCTAACCCC
* *
1779622 GTTATTTTTGAAGG
66 GTTATTTCTGAAGA
* *
1779636 GATACTCTAACCTCGATTTTATCTTCAAAA
1 GATACTCCAACCTCGATTTTATTTTCAAAA
1779666 TATTAAACTT
Statistics
Matches: 220, Mismatches: 39, Indels: 15
0.80 0.14 0.05
Matches are distributed among these distances:
78 59 0.27
79 158 0.72
80 3 0.01
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.37
Consensus pattern (79 bp):
GATACTCCAACCTCGATTTTATTTTCAAAACACTGATTTTCCATAATCGAAGATACTCTAACCCC
GTTATTTCTGAAGA
Found at i:1779457 original size:181 final size:181
Alignment explanation
Indices: 1779137--1779465 Score: 401
Period size: 181 Copynumber: 1.8 Consensus size: 181
1779127 TTATTTTCAA
* * * * *
1779137 GGGGATACTCCAACCCCAATTTTATTTTCGAAACATCAATTTTTCACAGTCGAGGATAGTTTAAC
1 GGGGATACTCCAACCCCAATTTTATTTCCAAAACATCAATTTTTCACAATCGAGGATACTCTAAC
* *** * * * *
1779202 CCTATTATTTTCGAGGGGATACTCTAACCTCGATTTTATTTTCAAAGCACCAATTTTTCACAATC
66 CCCATTATTTTCGAAAAGATACTCCAACCTCGATTTTATATTCAAAACACCAATTTTCCACAATC
1779267 GGAGATACTCTAACCCCAGTTTTATTTCCAAAACATTGATTTTTCATAATC
131 GGAGATACTCTAACCCCAGTTTTATTTCCAAAACATTGATTTTTCATAATC
** * *
1779318 GGGGATACTCCAACCCTTATTTTATTTCCAAAACA-CTGATTTTTCATAATCGAGGATACTCTAA
1 GGGGATACTCCAACCCCAATTTTATTTCCAAAACATC-AATTTTTCACAATCGAGGATACTCTAA
* *** * *
1779382 CCCCGTTA-TTTCTGAAAAGATACTCCAACCTCGATTTTATATTCAAAACATTGATTTTCCATAT
65 CCCCATTATTTTC-GAAAAGATACTCCAACCTCGATTTTATATTCAAAACACCAATTTTCCACAA
* *
1779446 TTGGGGATACTCTAACCCCA
129 TCGGAGATACTCTAACCCCA
1779466 TTATTTCTTA
Statistics
Matches: 121, Mismatches: 25, Indels: 4
0.81 0.17 0.03
Matches are distributed among these distances:
180 5 0.04
181 116 0.96
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.35
Consensus pattern (181 bp):
GGGGATACTCCAACCCCAATTTTATTTCCAAAACATCAATTTTTCACAATCGAGGATACTCTAAC
CCCATTATTTTCGAAAAGATACTCCAACCTCGATTTTATATTCAAAACACCAATTTTCCACAATC
GGAGATACTCTAACCCCAGTTTTATTTCCAAAACATTGATTTTTCATAATC
Found at i:1779510 original size:158 final size:157
Alignment explanation
Indices: 1779318--1779665 Score: 402
Period size: 158 Copynumber: 2.2 Consensus size: 157
1779308 TTTCATAATC
* * *
1779318 GGGGATACTCCAACCCTTATTTTATTTCCAAAACACTGA-TTTTTCATAATC-GAGGATACTCTA
1 GGGGATACTCCAACCCTGATTTTATTTTCAAAACA-TGATTTTTTCATAATCGGA-GATACTCCA
**
1779381 ACCCCGTTATTTCT-GAAAAGATACTCCAACCTCGATTTTATATTCAAAACATTGATTTTC-CAT
64 ACCCCGTTATTT-TAGAAAAGATACTCCAACCTCGATTTTATATTCAAAACACCGATTTTCACA-
* **
1779444 ATTTGGGGATACTCTAACCCCATTATTTCTT-A
127 A-TCGAAGATACTCTAACCCCATTATTT-TTGA
* * *
1779476 GGGGATACTCCAACCCTGATTTTATTTTCAAAACATTATTTTTTCATAATTGGAGATACTCCGAC
1 GGGGATACTCCAACCCTGATTTTATTTTCAAAACATGATTTTTTCATAATCGGAGATACTCCAAC
* *** * *
1779541 CCTGTTATTTTAGGGGAGATACTCCAACCTCGATTTTATTTTCAAAATACCGATTTTCACAATCG
66 CCCGTTATTTTAGAAAAGATACTCCAACCTCGATTTTATATTCAAAACACCGATTTTCACAATCG
*
1779606 AAGATACTCTAACCCCGTTATTTTTGA
131 AAGATACTCTAACCCCATTATTTTTGA
* * *
1779633 AGGGATACTCTAA-CCTCGATTTTATCTTCAAAA
1 GGGGATACTCCAACCCT-GATTTTATTTTCAAAA
1779666 TATTAAACTT
Statistics
Matches: 163, Mismatches: 21, Indels: 13
0.83 0.11 0.07
Matches are distributed among these distances:
156 5 0.03
157 52 0.32
158 102 0.63
159 4 0.02
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.36
Consensus pattern (157 bp):
GGGGATACTCCAACCCTGATTTTATTTTCAAAACATGATTTTTTCATAATCGGAGATACTCCAAC
CCCGTTATTTTAGAAAAGATACTCCAACCTCGATTTTATATTCAAAACACCGATTTTCACAATCG
AAGATACTCTAACCCCATTATTTTTGA
Found at i:1780739 original size:130 final size:130
Alignment explanation
Indices: 1780591--1780879 Score: 311
Period size: 131 Copynumber: 2.2 Consensus size: 130
1780581 CGTTTCCCGA
* * *
1780591 TGAAAAATTTAATATTTTAGGAATAATAA-TGGTG-TTGGAGTATCCAC-AATGTGGAAAATCGA
1 TGAAAAA-TTGATGTTTTAGGAATAA-AATTGG-GATTGGAGTATCCACGAATGTGGAAAATCAA
* * * *
1780653 TGCTTTAGAAATAAGGCCGGGGTTAGAGTAT-CCTCGCGAAAATAACGGG-GTTGGAGTATCTCC
63 TACTTTAGAAATAAAGCCGGGGTTAGAGTATCCCT-GCAAAAATAA-GGGAGTTGGAGTATCCCC
1780716 GATTG
126 GATTG
* * * * *
1780721 TGAAAAGATTGGTGTTTTAGAAATAAAATTGGGATTGGAGTATCCCCGATTGTGGGAAATCAATA
1 TGAAAA-ATTGATGTTTTAGGAATAAAATTGGGATTGGAGTATCCACGAATGTGGAAAATCAATA
* ** * *
1780786 TTTTAGAAATAAAGTTGGGGTTGGAGTATCCCTTCAAAAATAAGGGAGTTGGAGTATCCCCGATT
65 CTTTAGAAATAAAGCCGGGGTTAGAGTATCCCTGCAAAAATAAGGGAGTTGGAGTATCCCCGATT
*
1780851 T
130 G
1780852 TGAAAAATTGATGTTTT-GGAAATAAAAT
1 TGAAAAATTGATGTTTTAGG-AATAAAAT
1780880 CGAGGTTTGA
Statistics
Matches: 132, Mismatches: 20, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
129 4 0.03
130 56 0.42
131 69 0.52
132 3 0.02
ACGTcount: A:0.34, C:0.10, G:0.25, T:0.31
Consensus pattern (130 bp):
TGAAAAATTGATGTTTTAGGAATAAAATTGGGATTGGAGTATCCACGAATGTGGAAAATCAATAC
TTTAGAAATAAAGCCGGGGTTAGAGTATCCCTGCAAAAATAAGGGAGTTGGAGTATCCCCGATTG
Found at i:1780810 original size:51 final size:52
Alignment explanation
Indices: 1780699--1780817 Score: 150
Period size: 51 Copynumber: 2.3 Consensus size: 52
1780689 CGAAAATAAC
* *** *
1780699 GGGGTTGGAGTATCTCCGATTGTGAAAAGATTGGTGTTTTAGAAATAAAATT
1 GGGGTTGGAGTATCCCCGATTGTGAAAAGATCAATATTTTAGAAATAAAATT
* ** *
1780751 GGGATTGGAGTATCCCCGATTGTGGGAA-ATCAATATTTTAGAAATAAAGTT
1 GGGGTTGGAGTATCCCCGATTGTGAAAAGATCAATATTTTAGAAATAAAATT
1780802 GGGGTTGGAGTATCCC
1 GGGGTTGGAGTATCCC
1780818 TTCAAAAATA
Statistics
Matches: 57, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
51 33 0.58
52 24 0.42
ACGTcount: A:0.29, C:0.09, G:0.29, T:0.32
Consensus pattern (52 bp):
GGGGTTGGAGTATCCCCGATTGTGAAAAGATCAATATTTTAGAAATAAAATT
Found at i:1780816 original size:131 final size:130
Alignment explanation
Indices: 1780624--1780947 Score: 359
Period size: 130 Copynumber: 2.5 Consensus size: 130
1780614 TAATAATGGT
* * * * **
1780624 GTTGGAGTATCCAC-AATGTGGAAAATCGATGCTTTAGAAATAAGGCCGGGGTTAGAGTAT-CCT
1 GTTGGAGTATCCCCGATTGTGGAAAATCGATGTTTTAGAAATAAAGTAGGGGTTAGAGTATCCCT
* * * *
1780687 CGCGAAAATAACGGG-GTTGGAGTATCTCCGATTGTGAAAAGATTGGTGTTTTAGAAATAAAATT
66 -GCAAAAATAA-GGGAGTTGGAGTATCCCCGATTGTGAAAA-ATTGATGTTTTAGAAATAAAATC
1780751 G-G
128 GAG
* * * * *
1780753 GATTGGAGTATCCCCGATTGTGGGAAATCAATATTTTAGAAATAAAGTTGGGGTTGGAGTATCCC
1 G-TTGGAGTATCCCCGATTGTGGAAAATCGATGTTTTAGAAATAAAGTAGGGGTTAGAGTATCCC
* * *
1780818 TTCAAAAATAAGGGAGTTGGAGTATCCCCGATTTTGAAAAATTGATGTTTTGGAAATAAAATCGA
65 TGCAAAAATAAGGGAGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAATCGA
1780883 G
130 G
* * * * * * *
1780884 GTTTGAGTATCCCTGATTGTGAAAAATTGGTGTTTTAGAAATAAAATAGGGGTTTGAGTATCCC
1 GTTGGAGTATCCCCGATTGTGGAAAATCGATGTTTTAGAAATAAAGTAGGGGTTAGAGTATCCC
1780948 CGATTGTGAG
Statistics
Matches: 162, Mismatches: 28, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
129 1 0.01
130 88 0.54
131 70 0.43
132 3 0.02
ACGTcount: A:0.32, C:0.11, G:0.27, T:0.31
Consensus pattern (130 bp):
GTTGGAGTATCCCCGATTGTGGAAAATCGATGTTTTAGAAATAAAGTAGGGGTTAGAGTATCCCT
GCAAAAATAAGGGAGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAATCGAG
Found at i:1780892 original size:79 final size:78
Alignment explanation
Indices: 1780751--1780897 Score: 186
Period size: 79 Copynumber: 1.9 Consensus size: 78
1780741 AAATAAAATT
** * * *
1780751 GGGATTGGAGTATCCCCGATTGTGGGAAATCAATATTTTAGAAATAAAGTTGGGGTTGGAGTATC
1 GGGATTGGAGTATCCCCGATTGTGAAAAATCAATATTTTAGAAATAAAATCGAGGTTGGAGTATC
1780816 CCTTCAAAAATAA
66 CCTTCAAAAATAA
* ** * * *
1780829 GGGAGTTGGAGTATCCCCGATTTTGAAAAATTGATGTTTTGGAAATAAAATCGAGGTTTGAGTAT
1 GGGA-TTGGAGTATCCCCGATTGTGAAAAATCAATATTTTAGAAATAAAATCGAGGTTGGAGTAT
1780894 CCCT
65 CCCT
1780898 GATTGTGAAA
Statistics
Matches: 57, Mismatches: 11, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
78 4 0.07
79 53 0.93
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.31
Consensus pattern (78 bp):
GGGATTGGAGTATCCCCGATTGTGAAAAATCAATATTTTAGAAATAAAATCGAGGTTGGAGTATC
CCTTCAAAAATAA
Found at i:1780896 original size:51 final size:51
Alignment explanation
Indices: 1780837--1781133 Score: 201
Period size: 51 Copynumber: 5.7 Consensus size: 51
1780827 AAGGGAGTTG
* *
1780837 GAGTATCCCCGATTTTGAAAAATTGATGTTTTGGAAATAAAATCGAGGTTT
1 GAGTATCCCCGATTGTGAAAAATTGATGTTTTGGAAATAAAATAGAGGTTT
* * * *
1780888 GAGTATCCCTGATTGTGAAAAATTGGTGTTTTAGAAATAAAATAGGGGTTT
1 GAGTATCCCCGATTGTGAAAAATTGATGTTTTGGAAATAAAATAGAGGTTT
* ** * * * *
1780939 GAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGCT-GGGGTTG
1 GAGTATCCCCGATTGTGAAAAATTGATGTTTTGGAAATAAA-ATAGAGGTTT
* ** * ***** * *
1780990 GAGTATCCCC--TCGAAAATAACGAGGTTGGA-GTATCCCCGATGAAATAACGAGGTTG
1 GAGTATCCCCGATTGTGAA-AA--A--TT-GATGTTTTGGAAATAAAAT-A-GAGGTTT
* *
1781046 GAGTAT-CCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAATCAGA-GTTA
1 GAGTATCCCCGATTGTGAAAAATTGATGTTTTGGAAATAAAAT-AGAGGTTT
* * *
1781096 GAGTATCCCCGATTGTGGAAAATTGGTGTTTTAGAAAT
1 GAGTATCCCCGATTGTGAAAAATTGATGTTTTGGAAAT
1781134 GAAACCAGGG
Statistics
Matches: 186, Mismatches: 46, Indels: 28
0.72 0.18 0.11
Matches are distributed among these distances:
49 3 0.02
50 11 0.06
51 127 0.68
52 14 0.08
53 1 0.01
54 8 0.04
55 4 0.02
56 14 0.08
57 4 0.02
ACGTcount: A:0.33, C:0.11, G:0.25, T:0.31
Consensus pattern (51 bp):
GAGTATCCCCGATTGTGAAAAATTGATGTTTTGGAAATAAAATAGAGGTTT
Found at i:1780918 original size:181 final size:182
Alignment explanation
Indices: 1780701--1781030 Score: 531
Period size: 181 Copynumber: 1.8 Consensus size: 182
1780691 AAAATAACGG
*
1780701 GGTTGGAGTATCTCCGATTGTGAAAAGATTGGTGTTTTAGAAATAAAATTGGGATTGGAGTATCC
1 GGTTGGAGTATCTCCGATTGTGAAAAGATTGGTGTTTTAGAAATAAAATAGGGATTGGAGTATCC
* * *
1780766 CCGATTGTGGGAAATCAATATTTTAGAAATAAAGTTGGGGTTGGAGTATCCCTTCAAAAATAA-G
66 CCGATTGTGAGAAATCAATATTTTAGAAATAAAGCTGGGGTTGGAGTATCCCCTCAAAAATAACG
*
1780830 GGAGTTGGAGTATCCCCGATTTTGAAAAATTGATGTTTTGGAAATAAAATCGA
131 AG-GTTGGAGTATCCCCGATTTTGAAAAATTGATGTTTTGGAAATAAAATCGA
* * *
1780883 GGTTTGAGTATC-CCTGATTGTGAAAA-ATTGGTGTTTTAGAAATAAAATAGGGGTTTGAGTATC
1 GGTTGGAGTATCTCC-GATTGTGAAAAGATTGGTGTTTTAGAAATAAAATAGGGATTGGAGTATC
* *
1780946 CCCGATTGTGAGAAATCAATATTTTGGAAATAAAGCTGGGGTTGGAGTATCCCCTCGAAAATAAC
65 CCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCTGGGGTTGGAGTATCCCCTCAAAAATAAC
1781011 GAGGTTGGAGTATCCCCGAT
130 GAGGTTGGAGTATCCCCGAT
1781031 GAAATAACGA
Statistics
Matches: 136, Mismatches: 10, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
181 112 0.82
182 24 0.18
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.31
Consensus pattern (182 bp):
GGTTGGAGTATCTCCGATTGTGAAAAGATTGGTGTTTTAGAAATAAAATAGGGATTGGAGTATCC
CCGATTGTGAGAAATCAATATTTTAGAAATAAAGCTGGGGTTGGAGTATCCCCTCAAAAATAACG
AGGTTGGAGTATCCCCGATTTTGAAAAATTGATGTTTTGGAAATAAAATCGA
Found at i:1781018 original size:28 final size:28
Alignment explanation
Indices: 1780985--1781054 Score: 108
Period size: 28 Copynumber: 2.5 Consensus size: 28
1780975 ATAAAGCTGG
1780985 GGTTGGAGTATCCCCTCGA-AAATAACGA
1 GGTTGGAGTATCCCC-CGAGAAATAACGA
1781013 GGTTGGAGTAT-CCCCGATGAAATAACGA
1 GGTTGGAGTATCCCCCGA-GAAATAACGA
1781041 GGTTGGAGTATCCC
1 GGTTGGAGTATCCC
1781055 GATTGTGAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
26 3 0.08
27 3 0.08
28 31 0.79
29 2 0.05
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (28 bp):
GGTTGGAGTATCCCCCGAGAAATAACGA
Found at i:1781072 original size:157 final size:158
Alignment explanation
Indices: 1780880--1781184 Score: 420
Period size: 157 Copynumber: 1.9 Consensus size: 158
1780870 GAAATAAAAT
* * *
1780880 CGAGGTTTGAGTATCCCTGATTGTGAAAAATTGGTGTTTTAGAAATAAAAT-AGGGGTTTGAGTA
1 CGAGGTTGGAGTATCCCTGATTGTGAAAAATTGGTGTTTTAGAAATAAAATCA-GAGTTAGAGTA
* ** **
1780944 TCCCCGATTGT-GAGAAATCAATATTTTGGAAAT-AAAGCTGGGGTTGGAGTATCCCCTCGAAAA
65 TCCCCGATTGTGGA-AAATCAATATTTTAGAAATGAAA-CCAGGGTAAGAGTATCCCCTCGAAAA
1781007 TAACGAGGTTGGAGTATCCCCGATGAAATAA
128 TAACGAGGTTGGAGTATCCCCGATGAAATAA
*
1781038 CGAGGTTGGAGTATCCC-GATTGTGAAAAATTGGTGTTTTGGAAATAAAATCAGAGTTAGAGTAT
1 CGAGGTTGGAGTATCCCTGATTGTGAAAAATTGGTGTTTTAGAAATAAAATCAGAGTTAGAGTAT
*** * *
1781102 CCCCGATTGTGGAAAATTGGTGTTTTAGAAATGAAACCAGGGTAAGAGTATCCCCTCGAAAATGA
66 CCCCGATTGTGGAAAATCAATATTTTAGAAATGAAACCAGGGTAAGAGTATCCCCTCGAAAATAA
*
1781167 CGGGGTTGGAGTATCCCC
131 CGAGGTTGGAGTATCCCC
1781185 AATTATGAAA
Statistics
Matches: 129, Mismatches: 15, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
157 107 0.83
158 22 0.17
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.28
Consensus pattern (158 bp):
CGAGGTTGGAGTATCCCTGATTGTGAAAAATTGGTGTTTTAGAAATAAAATCAGAGTTAGAGTAT
CCCCGATTGTGGAAAATCAATATTTTAGAAATGAAACCAGGGTAAGAGTATCCCCTCGAAAATAA
CGAGGTTGGAGTATCCCCGATGAAATAA
Found at i:1781150 original size:51 final size:51
Alignment explanation
Indices: 1781046--1781156 Score: 161
Period size: 51 Copynumber: 2.2 Consensus size: 51
1781036 AACGAGGTTG
* * *
1781046 GAGTAT-CCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAATCAGAGTTA
1 GAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAACCAGAGTAA
* * *
1781096 GAGTATCCCCGATTGTGGAAAATTGGTGTTTTAGAAATGAAACCAGGGTAA
1 GAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAACCAGAGTAA
1781147 GAGTATCCCC
1 GAGTATCCCC
1781157 TCGAAAATGA
Statistics
Matches: 54, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
50 6 0.11
51 48 0.89
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (51 bp):
GAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAACCAGAGTAA
Found at i:1781296 original size:79 final size:78
Alignment explanation
Indices: 1781096--1781314 Score: 251
Period size: 79 Copynumber: 2.8 Consensus size: 78
1781086 ATCAGAGTTA
* * * * * * * *
1781096 GAGTATCCCCGATTGTGGAAAATTGGTGTTTTAGAAATGAAACCAGGGTAAGAGTATCCCCTCGA
1 GAGTATCCCCGATTATGAAAAATTGATGTTTTGGAAATAAAATCGGGGT-TGAGTATCCCCTCGA
* ***
1781161 AAATGACGGGGTTG
65 AAATAACGACATTG
* *
1781175 GAGTATCCCCAATTATGAAAAATT-AGTGTTTTGGGAATAAAATCGGGGTTGCAGTATCCCCTCG
1 GAGTATCCCCGATTATGAAAAATTGA-TGTTTTGGAAATAAAATCGGGGTTG-AGTATCCCCTCG
*
1781239 GAAATAACGACATTG
64 AAAATAACGACATTG
*
1781254 GAGTATCCCCGATTATGAAAAATTGATGTTTTGGAAATAAAATCGAGGTTGGAGTATCCCC
1 GAGTATCCCCGATTATGAAAAATTGATGTTTTGGAAATAAAATCGGGGTT-GAGTATCCCC
1781315 GAGATGAAAA
Statistics
Matches: 118, Mismatches: 18, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
78 1 0.01
79 115 0.97
80 2 0.02
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.27
Consensus pattern (78 bp):
GAGTATCCCCGATTATGAAAAATTGATGTTTTGGAAATAAAATCGGGGTTGAGTATCCCCTCGAA
AATAACGACATTG
Found at i:1783490 original size:44 final size:43
Alignment explanation
Indices: 1783430--1783755 Score: 195
Period size: 42 Copynumber: 7.6 Consensus size: 43
1783420 AAAAAGAGTA
*
1783430 CATCCTGCTCTTTGAGGACAAAGGAAAAAAAGGAAAACGAAATG
1 CATCTTGCTCTTTGAGGACAAAGGAAAAAAAGGAAAA-GAAATG
* * *
1783474 CATCTTGCTTTTTGAGGACAAA--AAGAAAAGGAAAATAAAGTG
1 CATCTTGCTCTTTGAGGACAAAGGAAAAAAAGGAAAAGAAA-TG
* * * * *
1783516 CGTCTTACTCTTTGAGAACTAGAAGGGAAAATAAGGAAATGAAATG
1 CATCTTGCTCTTTGAGGAC-A-AA-GGAAAAAAAGGAAAAGAAATG
** * * *
1783562 TGTCCTGCTCTTTGAGGACAAAGG-AAAAAA-GAAAAAAAAGG
1 CATCTTGCTCTTTGAGGACAAAGGAAAAAAAGGAAAAGAAATG
* * *
1783603 CATCTTGCTCTTTAAGGACAAAAAGGAAAAGAAGGAAATGAAATG
1 CATCTTGCTCTTTGAGGAC--AAAGGAAAAAAAGGAAAAGAAATG
** * * * * *
1783648 TGTCCTACCCTTTGAGGACAAA-G-AGAGAAGGAAAAG----G
1 CATCTTGCTCTTTGAGGACAAAGGAAAAAAAGGAAAAGAAATG
* * * * * *
1783685 CGTCCTACTCTTTGAGGACTAAAAAGGAAAAGAAGGAAATGAACTG
1 CATCTTGCTCTTTGAGGAC---AAAGGAAAAAAAGGAAAAGAAATG
** *
1783731 TGTCTTGCCCTTTGAGGACAAAGGA
1 CATCTTGCTCTTTGAGGACAAAGGA
1783756 TAGAAGGGAA
Statistics
Matches: 219, Mismatches: 44, Indels: 39
0.73 0.15 0.13
Matches are distributed among these distances:
37 18 0.08
40 3 0.01
41 38 0.17
42 46 0.21
43 17 0.08
44 29 0.13
45 22 0.10
46 33 0.15
47 13 0.06
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.20
Consensus pattern (43 bp):
CATCTTGCTCTTTGAGGACAAAGGAAAAAAAGGAAAAGAAATG
Found at i:1783742 original size:83 final size:84
Alignment explanation
Indices: 1783432--1783794 Score: 342
Period size: 86 Copynumber: 4.3 Consensus size: 84
1783422 AAAGAGTACA
* * ** * **
1783432 TCCTGCTCTTTGAGGAC---AAAGGAAAAAAAGGAAAACGAAATGCATCTTGCTTTTTGAGGACA
1 TCCTGCTCTTTGAGGACTAAAAAGGAAAAGAAGG-AAATGAAATGTGTCCTGCCCTTTGAGGACA
* *
1783494 AA-AAGAAAAGGAAAATAAAGTGCG
65 AAGGAGAGAAGG---A-AAAG-GCG
* * * * * * *
1783518 TCTTACTCTTTGAGAACTAGAAGGGAAAATAAGGAAATGAAATGTGTCCTGCTCTTTGAGGACAA
1 TCCTGCTCTTTGAGGACTAAAAAGGAAAAGAAGGAAATGAAATGTGTCCTGCCCTTTGAGGACAA
* ** *
1783583 AGGAAAAAAGAAAAAAAAGGCA
66 AGG---AGAGAAGGAAAAGGCG
* * *
1783605 TCTTGCTCTTTAAGGAC-AAAAAGGAAAAGAAGGAAATGAAATGTGTCCTACCCTTTGAGGACAA
1 TCCTGCTCTTTGAGGACTAAAAAGGAAAAGAAGGAAATGAAATGTGTCCTGCCCTTTGAGGACAA
1783669 A-GAGAGAAGGAAAAGGCG
66 AGGAGAGAAGGAAAAGGCG
* * *
1783687 TCCTACTCTTTGAGGACTAAAAAGGAAAAGAAGGAAATGAACTGTGTCTTGCCCTTTGAGGACAA
1 TCCTGCTCTTTGAGGACTAAAAAGGAAAAGAAGGAAATGAAATGTGTCCTGCCCTTTGAGGACAA
* * *
1783752 AGGATAGAAGGGAAATGCG
66 AGGAGAGAAGGAAAAGGCG
1783771 TCCTGCTCTTTGAGGACTAAAAAG
1 TCCTGCTCTTTGAGGACTAAAAAG
1783795 TGCCACCAAC
Statistics
Matches: 230, Mismatches: 38, Indels: 20
0.80 0.13 0.07
Matches are distributed among these distances:
82 26 0.11
83 45 0.20
84 37 0.16
85 1 0.00
86 57 0.25
87 16 0.07
88 31 0.13
89 13 0.06
92 4 0.02
ACGTcount: A:0.41, C:0.13, G:0.25, T:0.21
Consensus pattern (84 bp):
TCCTGCTCTTTGAGGACTAAAAAGGAAAAGAAGGAAATGAAATGTGTCCTGCCCTTTGAGGACAA
AGGAGAGAAGGAAAAGGCG
Found at i:1783943 original size:62 final size:62
Alignment explanation
Indices: 1783759--1784346 Score: 537
Period size: 55 Copynumber: 10.0 Consensus size: 62
1783749 CAAAGGATAG
* * * **
1783759 AAGGGAAATGCGTCCTGCTCTTTGAGGACTA-AAAAGTGCCACCAACTCATGTGGGCTTTAA
1 AAGGAAAAGGCGTCCTACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAA
* * * *
1783820 AAAGAAAAGGCATCCTACTCTTTGAGGA-TTGAAAGGTGCCACCAACTTGTGTGGGCTTTAA
1 AAGGAAAAGGCGTCCTACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAA
* ** * * *
1783881 AAGGAGAAGTTGTCCTGCTCTTTGAGGACTAGAAAAGTTCCACTAACTTGTGTGGGCTTTAA
1 AAGGAAAAGGCGTCCTACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAA
* * *
1783943 AAGGAAAAGGCGTCATACTCTTTAAGGACT-G-AAGGTGCCACCAACTTGTGTGGGCTTTAA
1 AAGGAAAAGGCGTCCTACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAA
** *
1784003 AAGGTGAAGGTGTCCTACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAA
1 AAGGAAAAGGCGTCCTACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAA
* * * * * *
1784065 AAGGAAAAGGCATCCTGCTCTTTGAGGACT-G-AAGGTGCCACTACCTTGTGTGGGCATT--
1 AAGGAAAAGGCGTCCTACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAA
* * * *
1784123 ----AAAAGGCATTCTACGCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTT--
1 AAGGAAAAGGCGTCCTACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAA
* *
1784178 ---G-AAAGGCATCCTACTCTTTGAGGACTA-AAACA-TGCCACCAATTTGTGTGGGCTTT--
1 AAGGAAAAGGCGTCCTACTCTTTGAGGACTAGAAA-AGTGCCACCAACTTGTGTGGGCTTTAA
* * * *
1784233 ---G-AAAGGTGACCTACTCCTTGAGGACTA-AAAGGTGCCACCAACTTGTGTGGG-TATT--
1 AAGGAAAAGGCGTCCTACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCT-TTAA
* * * *
1784288 ----AAAAGGCGTCCTGCTTTTTGAGGACTGGAAAA-TGCCATCAACTTGTGTGGGCTTTAA
1 AAGGAAAAGGCGTCCTACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAA
1784345 AA
1 AA
1784347 TGCATCCTAC
Statistics
Matches: 442, Mismatches: 68, Indels: 36
0.81 0.12 0.07
Matches are distributed among these distances:
54 27 0.06
55 153 0.35
56 6 0.01
60 75 0.17
61 75 0.17
62 106 0.24
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (62 bp):
AAGGAAAAGGCGTCCTACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAA
Found at i:1783987 original size:122 final size:122
Alignment explanation
Indices: 1783770--1784346 Score: 616
Period size: 122 Copynumber: 4.9 Consensus size: 122
1783760 AGGGAAATGC
** *
1783770 GTCCTGCTCTTTGAGGACTA-AAAAGTGCCACCAACTCATGTGGGCTTTAAAAAGAAAAGGCATC
1 GTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATC
* *
1783834 CTACTCTTTGAGGATTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGTT
66 CTACTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGT
* * *
1783892 GTCCTGCTCTTTGAGGACTAGAAAAGTTCCACTAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTC
1 GTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATC
* * *
1783957 ATACTCTTTAAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGTGAAGGT
66 CTACTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGT
*
1784014 GTCCTACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATC
1 GTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATC
* * * * *
1784079 CTGCTCTTTGAGGACTGAAGGTGCCACTACCTTGTGTGGGCATTAAAA-G-GCA--T
66 CTACTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGT
* * *
1784132 -T-CTACGCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCATC
1 GTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATC
* ** *
1784188 CTACTCTTTGAGGACTAAAACATGCCACCAATTTGTGTGGGCTTT-----GA-AAGGT
66 CTACTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGT
* * * * *
1784240 GACCTACTCCTTGAGGACTA-AAAGGTGCCACCAACTTGTGTGGG-TATT------AAAAGGCGT
1 GTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCT-TTAAAAGGAAAAGGCAT
* * ** *
1784297 CCTGCTTTTTGAGGACTGGAAAATGCCATCAACTTGTGTGGGCTTTAAAA
65 CCTACTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAA
1784347 TGCATCCTAC
Statistics
Matches: 395, Mismatches: 46, Indels: 36
0.83 0.10 0.08
Matches are distributed among these distances:
106 2 0.01
108 1 0.00
109 28 0.07
110 103 0.26
115 23 0.06
116 20 0.05
117 1 0.00
118 1 0.00
120 2 0.01
121 1 0.00
122 161 0.41
123 52 0.13
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (122 bp):
GTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATC
CTACTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGT
Found at i:1784436 original size:76 final size:76
Alignment explanation
Indices: 1784307--1784461 Score: 274
Period size: 76 Copynumber: 2.0 Consensus size: 76
1784297 CCTGCTTTTT
*
1784307 GAGGACTGGAAAATGCCATCAACTTGTGTGGGCTTTAAAATGCATCCTACTCTTTGAGGACTAAA
1 GAGGACTGGAAAATGCCATCAACTTGTGTGGGCTTTAAAAGGCATCCTACTCTTTGAGGACTAAA
1784372 GGGTGAAAGGA
66 GGGTGAAAGGA
* * *
1784383 GAGGACTGGAAAATGCCATCAACTTGTGTGGGCTTTGAAAGGCGTCCTTCTCTTTGAGGACTAAA
1 GAGGACTGGAAAATGCCATCAACTTGTGTGGGCTTTAAAAGGCATCCTACTCTTTGAGGACTAAA
1784448 GGGTGAAAGGA
66 GGGTGAAAGGA
1784459 GAG
1 GAG
1784462 AGCGTCCTGC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
76 75 1.00
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.25
Consensus pattern (76 bp):
GAGGACTGGAAAATGCCATCAACTTGTGTGGGCTTTAAAAGGCATCCTACTCTTTGAGGACTAAA
GGGTGAAAGGA
Found at i:1785538 original size:18 final size:16
Alignment explanation
Indices: 1785517--1785577 Score: 68
Period size: 17 Copynumber: 3.6 Consensus size: 16
1785507 CTTTTCTCTC
*
1785517 TTTTTTTCTTTGTTTTG
1 TTTTTTT-TTTTTTTTG
1785534 TTTTTTTGTTTTTTTTGG
1 TTTTTTT-TTTTTTTT-G
*
1785552 TTTTTTTTGGTTTTTTG
1 TTTTTTTT-TTTTTTTG
1785569 TTTTTTTTT
1 TTTTTTTTT
1785578 AAAAAAGAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
17 24 0.63
18 14 0.37
ACGTcount: A:0.00, C:0.02, G:0.13, T:0.85
Consensus pattern (16 bp):
TTTTTTTTTTTTTTTG
Found at i:1785540 original size:8 final size:8
Alignment explanation
Indices: 1785517--1785575 Score: 64
Period size: 8 Copynumber: 6.9 Consensus size: 8
1785507 CTTTTCTCTC
*
1785517 TTTTTTTC
1 TTTTTTTG
1785525 TTTGTTTTG
1 TTT-TTTTG
1785534 TTTTTTTG
1 TTTTTTTG
1785542 TTTTTTTTGG
1 -TTTTTTT-G
1785552 TTTTTTTTG
1 -TTTTTTTG
*
1785561 GTTTTTTG
1 TTTTTTTG
1785569 TTTTTTT
1 TTTTTTT
1785576 TTAAAAAAGA
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
8 21 0.47
9 15 0.33
10 9 0.20
ACGTcount: A:0.00, C:0.02, G:0.14, T:0.85
Consensus pattern (8 bp):
TTTTTTTG
Found at i:1785547 original size:27 final size:27
Alignment explanation
Indices: 1785517--1785577 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
1785507 CTTTTCTCTC
*
1785517 TTTTTTTCTTTGTTTTGTTTTTTTGTT
1 TTTTTTTCTTTGTTTTGGTTTTTTGTT
** *
1785544 TTTTTTGGTTTTTTTTGGTTTTTTGTT
1 TTTTTTTCTTTGTTTTGGTTTTTTGTT
1785571 TTTTTTT
1 TTTTTTT
1785578 AAAAAAGAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.00, C:0.02, G:0.13, T:0.85
Consensus pattern (27 bp):
TTTTTTTCTTTGTTTTGGTTTTTTGTT
Done.