Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 491 of 770
Found at i:151980651 original size:172 final size:168
Alignment explanation
Indices: 151980347--151980654 Score: 442
Period size: 172 Copynumber: 1.8 Consensus size: 168
151980337 TCTGTTTTTC
*
151980347 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGCTAATTTCAATT
* * *
151980412 TCTGTTGTCAAAAAAATCAACTCGTATTGTGAGAGGCGAGTTGAGCCTCAGGTCACACGACGAGG
66 TCTGTTGTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGATCACACGACGAGG
151980477 TATTTTCAATTTCCGTTTTTCAATTTCTGCCTTTCAAA
131 TATTTTCAATTTCCGTTTTTCAATTTCTGCCTTTCAAA
* * *
151980515 AAAAAAATCAACTCATATTGCGAGA-GTGAGTTGAGCCT-TGGCTCACGCGCTGAGCTATTTTCA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGCTAATTTCA
* * *
151980578 ATTTCTGTCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACAC-
63 ATTTCTGT-TGTC--AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGATCACACG
151980642 ACTGAGGTATTTT
125 AC-GAGGTATTTT
151980655 TTCAATTTAT
Statistics
Matches: 123, Mismatches: 10, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
166 2 0.02
167 13 0.11
168 25 0.20
169 24 0.20
170 3 0.02
171 2 0.02
172 54 0.44
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (168 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGCTAATTTCAATT
TCTGTTGTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGATCACACGACGAGG
TATTTTCAATTTCCGTTTTTCAATTTCTGCCTTTCAAA
Found at i:151980676 original size:78 final size:75
Alignment explanation
Indices: 151980515--151980708 Score: 235
Period size: 79 Copynumber: 2.5 Consensus size: 75
151980505 GCCTTTCAAA
* * * *
151980515 AAAAAAATCAACTCATATTGCGAGAGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAAT
1 AAAAAAATCAACTCATATTGCGAGAGTGAGTTGAG-CTTAGATCACACACTGAGCTATTTTCAAT
* *
151980580 TTCTGTCTTTC
65 TTATATCTTTC
*
151980591 AAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTT
1 --AAAAAAATCAACTCATATTGCGAGA-GTGAGTTGAGCTT-AGATCACACACTGAGCTA--TTT
*
151980656 TCAATTTATATTTTTC
60 TCAATTTATATCTTTC
*
151980672 AAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGC
1 AAAAAAATCAACTCATATTGCGAGA-GTGAGTTGAGC
151980709 CTCGGGTCAC
Statistics
Matches: 102, Mismatches: 10, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
78 28 0.27
79 58 0.57
81 16 0.16
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (75 bp):
AAAAAAATCAACTCATATTGCGAGAGTGAGTTGAGCTTAGATCACACACTGAGCTATTTTCAATT
TATATCTTTC
Found at i:151980895 original size:30 final size:30
Alignment explanation
Indices: 151980859--151980920 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
151980849 CAACTCATAT
151980859 TGCGAGAGGTGAGTTGAG-CTTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTC-TTTTAATTTC
*
151980889 TGCGAGAGTTGAGTTGAGTCTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
151980919 TG
1 TG
151980921 TTTTTCAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.97
31 1 0.03
ACGTcount: A:0.19, C:0.10, G:0.29, T:0.42
Consensus pattern (30 bp):
TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
Found at i:151980982 original size:253 final size:247
Alignment explanation
Indices: 151980273--151981087 Score: 868
Period size: 253 Copynumber: 3.3 Consensus size: 247
151980263 TTTTCAAAAA
* * ** * * *
151980273 AAAAAATCAACTCATATTGTGAGAAATGAGTTGAGCC-T--CAAGACATGCTGAGATATTTTTAA
1 AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGC-TCACGTGCTGAGCTATTTTCAA
* *
151980335 TTTCTG--TT-TTTC--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--GACA
65 TTTCTGTTTTCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACA
* * * * * * * *
151980393 CGCTGAGGTA--ATTTCAATTTCT-GTTGTCAAAAAAATCAACTCGTATTGTGAGAGGCGAGTTG
130 CACTGAGGTATCTTTTCAATTTATATTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTG
* ** * *
151980455 AGCCTCAGGTCACACGA-CGAGGTATTTTCAATTTCCGTTTTTCAATTTCTGCCTTTC
194 AGCCTCA-GTCACA-TATCGAGGTATTTTCAAAATCTGTTTTTCAAGTTCTG--TTTC
*
151980512 AAAAAAAAAATCAACTCATATTGCGAG-AGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTT
1 ----AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTT
151980576 CAATTTCTG---TCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATC
62 CAATTTCTGTTTTCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATC
* * *
151980638 ACACACTGAGGTATTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGAG
127 ACACACTGAGGTATCTTTTCAATTTATATTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAG
* *
151980703 TTGAGCCTCGGGTCACATGTCGAGGTATTTTCAAAATCTGTTTTTC-AGATTCTGTTTTC
191 TTGAGCCTC-AGTCACATATCGAGGTATTTTCAAAATCTGTTTTTCAAG-TTCTG-TTTC
151980762 -AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAAT
* * *
151980826 TTCTGTTTTTTTTC-AAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTTA-ATTTC
66 TTCTGTTTTCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC--TTCAGA--TC
* * * * * *
151980889 TGCGAGAGTTGAGTTGAGTCTTTT-AATTTCTGTTTTTC-AAAAATCAACTCATATTGCGAGAGG
127 -AC-ACA-CTGAGGT-A-TCTTTTCAATTTATATTTTTCAAAAAATCAACTCATATTGCGAGAGG
* * **
151980952 TGAGTTGAACCTTCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAGTTAAGTTTC
187 TGAGTTGAGCC-TCAGTCACATATCGAGGTATTTTCAAAATCTGTTTTTCAAGTTCTGTTTC
*
151981014 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAAT
151981079 TTCTGTTTT
66 TTCTGTTTT
151981088 AATGTCTGTT
Statistics
Matches: 494, Mismatches: 48, Indels: 50
0.83 0.08 0.08
Matches are distributed among these distances:
242 12 0.02
243 24 0.05
244 26 0.05
245 23 0.05
246 86 0.17
248 49 0.10
249 6 0.01
250 18 0.04
251 75 0.15
252 5 0.01
253 143 0.29
254 9 0.02
255 13 0.03
256 5 0.01
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (247 bp):
AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAAT
TTCTGTTTTCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACAC
ACTGAGGTATCTTTTCAATTTATATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
CCTCAGTCACATATCGAGGTATTTTCAAAATCTGTTTTTCAAGTTCTGTTTC
Found at i:151981795 original size:28 final size:27
Alignment explanation
Indices: 151981736--151981797 Score: 72
Period size: 28 Copynumber: 2.3 Consensus size: 27
151981726 ATTAAGCCCC
151981736 CCAA-AAAAACCTAACCCAAAAAAAAA
1 CCAAGAAAAACCTAACCCAAAAAAAAA
** **
151981762 AAAAGAAAAACCTAACCCCCTAAAAAAA
1 CCAAGAAAAACCTAA-CCCAAAAAAAAA
151981790 CCAAGAAA
1 CCAAGAAA
151981798 CCCTAGCCAC
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
26 2 0.07
27 10 0.36
28 16 0.57
ACGTcount: A:0.66, C:0.26, G:0.03, T:0.05
Consensus pattern (27 bp):
CCAAGAAAAACCTAACCCAAAAAAAAA
Found at i:151987576 original size:93 final size:93
Alignment explanation
Indices: 151987464--151987635 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
151987454 GCCCATAAGT
* *
151987464 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
151987529 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
151987557 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
151987622 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
151987636 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:151987631 original size:46 final size:46
Alignment explanation
Indices: 151987456--151987631 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
151987446 TGTAACCCGC
* * *
151987456 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
151987502 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
151987552 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
151987595 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
151987632 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:151990057 original size:30 final size:30
Alignment explanation
Indices: 151990013--151990101 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
151990003 CAAAGATAAC
151990013 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
151990042 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
151990072 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
151990102 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:151990061 original size:15 final size:15
Alignment explanation
Indices: 151990013--151990092 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
151990003 CAAAGATAAC
*
151990013 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
151990027 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
151990042 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
151990057 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
151990072 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
151990087 AAGAAA
1 AAGAAA
151990093 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:151990101 original size:15 final size:15
Alignment explanation
Indices: 151990024--151990101 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
151990014 AGAAAACCGA
151990024 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
151990039 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
151990053 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
151990068 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
151990084 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
151990099 ATA
1 ATA
151990102 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:151993163 original size:93 final size:93
Alignment explanation
Indices: 151993051--151993222 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
151993041 GCCCATAAGT
* *
151993051 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
151993116 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
151993144 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
151993209 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
151993223 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:151993218 original size:46 final size:46
Alignment explanation
Indices: 151993043--151993218 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
151993033 TGTAACCCGC
* * *
151993043 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
151993089 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
151993139 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
151993182 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
151993219 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:151996996 original size:80 final size:80
Alignment explanation
Indices: 151996912--151997060 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
151996902 TATGGTAACC
* * * *
151996912 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
151996976 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
151996992 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
151997057 CCGG
66 CCGG
151997061 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:151997002 original size:40 final size:38
Alignment explanation
Indices: 151996953--151997060 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
151996943 ATCACGATTT
*
151996953 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
151996993 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
151997033 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
151997061 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:152005109 original size:80 final size:80
Alignment explanation
Indices: 152005025--152005173 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
152005015 TATGGTAACC
* * * *
152005025 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
152005089 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
152005105 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
152005170 CCGG
66 CCGG
152005174 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:152005115 original size:40 final size:38
Alignment explanation
Indices: 152005066--152005173 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
152005056 ATCACGATTT
*
152005066 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
152005106 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
152005146 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
152005174 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:152010365 original size:22 final size:22
Alignment explanation
Indices: 152010340--152010381 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
152010330 CCATTTTTTA
152010340 AAAAGAAAAGAAAAAAGAAAGT
1 AAAAGAAAAGAAAAAAGAAAGT
**
152010362 AAAAGAAAAGCCAAAAGAAA
1 AAAAGAAAAGAAAAAAGAAA
152010382 AGGGAAGAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.76, C:0.05, G:0.17, T:0.02
Consensus pattern (22 bp):
AAAAGAAAAGAAAAAAGAAAGT
Found at i:152014036 original size:79 final size:82
Alignment explanation
Indices: 152013896--152014080 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
152013886 TCGAATGATG
* * *
152013896 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
*
152013960 CGTGCGAGTTAATA-AA
66 CGTGCGAGTCAATATAA
* **
152013976 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
*
152014038 TCGTGCGAGTCACTATAA
65 TCGTGCGAGTCAATATAA
**
152014056 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
152014081 AGCGAGTCGT
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 34 0.37
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTCAATATAA
Found at i:152014088 original size:40 final size:40
Alignment explanation
Indices: 152013897--152014088 Score: 151
Period size: 40 Copynumber: 4.8 Consensus size: 40
152013887 CGAATGATGT
* * * * *
152013897 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTCACTAAAC
** * * * * *
152013937 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAAT
1 CCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTCACTAAAC
* * *
152013977 CCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAAC
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
*
152014016 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA-
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTA-AAC
* *
152014056 CCGGGCTT-CGTCCCGAAGGCATTTGAGCGAGTC
1 CCGGG-TTAAGTCCCGAAGGCATTTGTGCGAGTC
152014089 GTTATATCCG
Statistics
Matches: 126, Mismatches: 20, Indels: 12
0.80 0.13 0.08
Matches are distributed among these distances:
39 33 0.26
40 82 0.65
41 11 0.09
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
Found at i:152022090 original size:79 final size:82
Alignment explanation
Indices: 152021950--152022134 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
152021940 TCGAATGATG
* * *
152021950 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
*
152022014 CGTGCGAGTTAATA-AA
66 CGTGCGAGTCAATATAA
* **
152022030 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
*
152022092 TCGTGCGAGTCACTATAA
65 TCGTGCGAGTCAATATAA
**
152022110 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
152022135 AGCGAGTCGT
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 34 0.37
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTCAATATAA
Found at i:152022142 original size:40 final size:40
Alignment explanation
Indices: 152021951--152022142 Score: 151
Period size: 40 Copynumber: 4.8 Consensus size: 40
152021941 CGAATGATGT
* * * * *
152021951 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTCACTAAAC
** * * * * *
152021991 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAAT
1 CCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTCACTAAAC
* * *
152022031 CCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAAC
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
*
152022070 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA-
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTA-AAC
* *
152022110 CCGGGCTT-CGTCCCGAAGGCATTTGAGCGAGTC
1 CCGGG-TTAAGTCCCGAAGGCATTTGTGCGAGTC
152022143 GTTATATCCG
Statistics
Matches: 126, Mismatches: 20, Indels: 12
0.80 0.13 0.08
Matches are distributed among these distances:
39 33 0.26
40 82 0.65
41 11 0.09
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
Found at i:152022165 original size:79 final size:79
Alignment explanation
Indices: 152021950--152022167 Score: 183
Period size: 79 Copynumber: 2.7 Consensus size: 79
152021940 TCGAATGATG
* * * * ** *
152021950 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGA-TCCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGC-AAGTCACTAAACCCGGGTTA-AATTCCGAAGGCAT
*
152022013 TCGTGCGAGTTAATAAA
63 TCGTGCGAGTCAATAAA
* * * *
152022030 TCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAAACCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
*
152022095 TGCGAGTCACTATAA
66 TGCGAGTCAATA-AA
** * ** * *
152022110 -CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGTTATATCC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGG
152022168 TACGTGATTC
Statistics
Matches: 113, Mismatches: 21, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
79 69 0.61
80 44 0.39
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
TGCGAGTCAATAAA
Found at i:152026027 original size:12 final size:12
Alignment explanation
Indices: 152026010--152026039 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
152026000 ATTTCAAACG
152026010 AAAATTTTAGCT
1 AAAATTTTAGCT
152026022 AAAATTTTAGCT
1 AAAATTTTAGCT
*
152026034 TAAATT
1 AAAATT
152026040 CTACAATCGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (12 bp):
AAAATTTTAGCT
Found at i:152028935 original size:24 final size:27
Alignment explanation
Indices: 152028877--152028938 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 27
152028867 ACACATCTGA
*
152028877 AAAGGAATGCCTTTGTGGCAATATATG
1 AAAGAAATGCCTTTGTGGCAATATATG
*
152028904 AAAAGAAATGCCTTTGTGGCAATATGTAG
1 -AAAGAAATGCCTTTGTGGCAATATAT-G
152028933 AAAGAA
1 AAAGAA
152028939 TGATTTTGCG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
28 30 0.97
29 1 0.03
ACGTcount: A:0.40, C:0.10, G:0.24, T:0.26
Consensus pattern (27 bp):
AAAGAAATGCCTTTGTGGCAATATATG
Found at i:152028938 original size:28 final size:28
Alignment explanation
Indices: 152028874--152028928 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
152028864 TAAACACATC
*
152028874 TGAAAAGGAATGCCTTTGTGGCAATATA
1 TGAAAAGAAATGCCTTTGTGGCAATATA
152028902 TGAAAAGAAATGCCTTTGTGGCAATAT
1 TGAAAAGAAATGCCTTTGTGGCAATAT
152028929 GTAGAAAGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.36, C:0.11, G:0.24, T:0.29
Consensus pattern (28 bp):
TGAAAAGAAATGCCTTTGTGGCAATATA
Found at i:152031778 original size:46 final size:46
Alignment explanation
Indices: 152031703--152031796 Score: 143
Period size: 46 Copynumber: 2.0 Consensus size: 46
152031693 CTTTTTCTTG
152031703 AAAGAATTTATATATAAATTCATAGGGTAAACTATTGCAAGGTATT
1 AAAGAATTTATATATAAATTCATAGGGTAAACTATTGCAAGGTATT
* * * * *
152031749 AAAGGATTTATATCTAAATTTATATGGTAAACTATTGTAAGGTATT
1 AAAGAATTTATATATAAATTCATAGGGTAAACTATTGCAAGGTATT
152031795 AA
1 AA
152031797 TCTTCATTCT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.43, C:0.05, G:0.15, T:0.37
Consensus pattern (46 bp):
AAAGAATTTATATATAAATTCATAGGGTAAACTATTGCAAGGTATT
Found at i:152032852 original size:35 final size:34
Alignment explanation
Indices: 152032805--152032880 Score: 100
Period size: 35 Copynumber: 2.1 Consensus size: 34
152032795 TTCTTGGAGC
152032805 TTAATTACAAATGTGTTAAAATCATTAATT-AAATAT
1 TTAA-TACAAATGTGTTAAAATC--TAATTAAAATAT
*
152032841 TTAATACAAATGTGTTAATATCTAATTACAAATAT
1 TTAATACAAATGTGTTAAAATCTAATTA-AAATAT
152032876 TTAAT
1 TTAAT
152032881 GGTTATATTC
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
33 5 0.14
35 28 0.76
36 4 0.11
ACGTcount: A:0.46, C:0.07, G:0.05, T:0.42
Consensus pattern (34 bp):
TTAATACAAATGTGTTAAAATCTAATTAAAATAT
Found at i:152037807 original size:28 final size:28
Alignment explanation
Indices: 152037775--152037873 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
152037765 GCAATAAGCC
*
152037775 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
152037803 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
152037831 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
152037860 CGCACACTTAGTGC
1 CGCACACTTAGTGC
152037874 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:152046600 original size:40 final size:40
Alignment explanation
Indices: 152046546--152046739 Score: 196
Period size: 40 Copynumber: 4.9 Consensus size: 40
152046536 GGATATAGCG
* * * * * *
152046546 ACTCGCTC-ATTGCCTTCGGGACCTAGCCCGGTTATAGTG
1 ACTCGCACAATTGCCTTCGGGTCTTAGCCCGGATATAATA
* * * * **
152046585 ATTCGCACGATTGCCTTCGGGTCTTAACCCGGATTTGGTA
1 ACTCGCACAATTGCCTTCGGGTCTTAGCCCGGATATAATA
* * *
152046625 ACTTGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACA
1 ACTCGCACAATTGCCTTCGGGTCTTAGCCCGGATATAATA
152046665 ACTCGCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAAT-
1 ACTCGCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATA
* * *
152046704 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGATAT
1 ACTCGCACAATTGCCTTCGGGTCTTAGCCCGGATAT
152046740 CATTCCAATG
Statistics
Matches: 129, Mismatches: 23, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
38 2 0.02
39 36 0.28
40 89 0.69
41 2 0.02
ACGTcount: A:0.22, C:0.27, G:0.23, T:0.28
Consensus pattern (40 bp):
ACTCGCACAATTGCCTTCGGGTCTTAGCCCGGATATAATA
Found at i:152046653 original size:80 final size:79
Alignment explanation
Indices: 152046556--152046739 Score: 224
Period size: 80 Copynumber: 2.3 Consensus size: 79
152046546 ACTCGCTCAT
* * *** * * *
152046556 TGCCTTCGGGACCTAGCCCGGTTATAGTGATTCGCACGATTGCCTTCGGGTCTTAACCCGGATTT
1 TGCCTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATAT
** *
152046621 GGTAACTTGCACAAA
66 AAT-ACTAGCACAAA
* *
152046636 TGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATAT
1 TGCCTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATAT
* *
152046701 AATACTAGCATAAT
66 AATACTAGCACAAA
152046715 TGCCTTCGGGACTTAGCCCGGATAT
1 TGCCTTCGGGACTTAGCCCGGATAT
152046740 CATTCCAATG
Statistics
Matches: 88, Mismatches: 16, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
79 32 0.36
80 56 0.64
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.28
Consensus pattern (79 bp):
TGCCTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATAT
AATACTAGCACAAA
Found at i:152054720 original size:79 final size:79
Alignment explanation
Indices: 152054561--152054740 Score: 202
Period size: 79 Copynumber: 2.3 Consensus size: 79
152054551 GCTCGATTGT
* * *** * * **
152054561 CTTCGGGACCTAGCCCGGTTATAGTGATTCGCACGATTGCCTTCGGGTCTTAACCCGATTTGGTA
1 CTTCGGGACTTAGCCCGGATATAACAACTCGCACGATTGCCTTCGGGTCTTAACCCGATATAATA
152054626 ACTTACACAAATGC
66 ACTTACACAAATGC
* *
152054640 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACGA-TGCCTTCGGGTCTTAGCCCGGATATAAT
1 CTTCGGGACTTAGCCCGGATATAACAACTCGCACGATTGCCTTCGGGTCTTAACCC-GATATAAT
* * *
152054704 TAC-TAGCATAATTGC
65 AACTTA-CACAAATGC
152054719 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
152054741 CATTCCAATG
Statistics
Matches: 84, Mismatches: 15, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
78 20 0.24
79 64 0.76
ACGTcount: A:0.22, C:0.27, G:0.23, T:0.28
Consensus pattern (79 bp):
CTTCGGGACTTAGCCCGGATATAACAACTCGCACGATTGCCTTCGGGTCTTAACCCGATATAATA
ACTTACACAAATGC
Found at i:152054731 original size:40 final size:39
Alignment explanation
Indices: 152054635--152054740 Score: 149
Period size: 39 Copynumber: 2.7 Consensus size: 39
152054625 AACTTACACA
*
152054635 AATGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCAC
1 AATGCCTTCGGGTCTTAGCCCGGATATAACAACTAGCAC
* ** *
152054674 GATGCCTTCGGGTCTTAGCCCGGATATAATTACTAGCAT
1 AATGCCTTCGGGTCTTAGCCCGGATATAACAACTAGCAC
*
152054713 AATTGCCTTCGGGACTTAGCCCGGATAT
1 AA-TGCCTTCGGGTCTTAGCCCGGATAT
152054741 CATTCCAATG
Statistics
Matches: 59, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
39 35 0.59
40 24 0.41
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (39 bp):
AATGCCTTCGGGTCTTAGCCCGGATATAACAACTAGCAC
Found at i:152057440 original size:24 final size:24
Alignment explanation
Indices: 152057413--152057575 Score: 308
Period size: 24 Copynumber: 6.8 Consensus size: 24
152057403 CTTATTATGT
**
152057413 TCGCACACATAGTGCCATAGCGAA
1 TCGCACACATAGTGCCATAGTAAA
152057437 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
152057461 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
152057485 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
152057509 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
152057533 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
152057557 TCGCACACATAGTGCCATA
1 TCGCACACATAGTGCCATA
152057576 TATTTCCAGC
Statistics
Matches: 137, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
24 137 1.00
ACGTcount: A:0.36, C:0.26, G:0.17, T:0.20
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:152062747 original size:15 final size:16
Alignment explanation
Indices: 152062727--152062764 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
152062717 TATTTTCTTC
152062727 TGGATTTCCT-TATGT
1 TGGATTTCCTATATGT
*
152062742 TGGATTT-CTATATTT
1 TGGATTTCCTATATGT
152062757 TGGATTTC
1 TGGATTTC
152062765 TCCGTTATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 2 0.10
15 18 0.90
ACGTcount: A:0.16, C:0.11, G:0.18, T:0.55
Consensus pattern (16 bp):
TGGATTTCCTATATGT
Found at i:152064852 original size:16 final size:16
Alignment explanation
Indices: 152064831--152064861 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
152064821 AGTTTAGGGG
152064831 CAAAAATATAATTTTT
1 CAAAAATATAATTTTT
*
152064847 CAAAAATATGATTTT
1 CAAAAATATAATTTT
152064862 GAGTCGATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.42
Consensus pattern (16 bp):
CAAAAATATAATTTTT
Found at i:152070365 original size:11 final size:11
Alignment explanation
Indices: 152070349--152070373 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
152070339 TATCATGGAC
152070349 CATAAAATAAT
1 CATAAAATAAT
152070360 CATAAAATAAT
1 CATAAAATAAT
152070371 CAT
1 CAT
152070374 TTCTATTTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (11 bp):
CATAAAATAAT
Found at i:152071438 original size:22 final size:24
Alignment explanation
Indices: 152071410--152071453 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
152071400 ATTTTGTTCA
152071410 ACTTTAAATT-TTAT-TCAAAAAC
1 ACTTTAAATTGTTATATCAAAAAC
*
152071432 ACTTTAATTTGTTATATCAAAA
1 ACTTTAAATTGTTATATCAAAA
152071454 CATATTATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.43, C:0.11, G:0.02, T:0.43
Consensus pattern (24 bp):
ACTTTAAATTGTTATATCAAAAAC
Found at i:152073696 original size:25 final size:26
Alignment explanation
Indices: 152073668--152073723 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
152073658 CATTTAGGTC
**
152073668 AATTTAAC-CCTAGGGGTATTTCAGT
1 AATTTAACACCTAGGGGTATAACAGT
**
152073693 AATTTTGCACCTAGGGGTATAACAGT
1 AATTTAACACCTAGGGGTATAACAGT
152073719 AATTT
1 AATTT
152073724 TCCATACATA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
25 6 0.23
26 20 0.77
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.36
Consensus pattern (26 bp):
AATTTAACACCTAGGGGTATAACAGT
Found at i:152073705 original size:26 final size:27
Alignment explanation
Indices: 152073676--152073751 Score: 84
Period size: 26 Copynumber: 2.8 Consensus size: 27
152073666 TCAATTTAAC
*
152073676 CCTAGGGGTATTTCAGTAATTTTGC-A
1 CCTAGGGGTATTTCAGTAATTTTCCAA
**
152073702 CCTAGGGGTATAACAGTAATTTTCCATA
1 CCTAGGGGTATTTCAGTAATTTTCCA-A
*
152073730 CATAGGGGTATTAT-AGTAATTT
1 CCTAGGGGTATT-TCAGTAATTT
152073752 AGCTGTTTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
26 22 0.54
28 19 0.46
ACGTcount: A:0.29, C:0.13, G:0.21, T:0.37
Consensus pattern (27 bp):
CCTAGGGGTATTTCAGTAATTTTCCAA
Found at i:152073747 original size:28 final size:26
Alignment explanation
Indices: 152073678--152073751 Score: 78
Period size: 28 Copynumber: 2.8 Consensus size: 26
152073668 AATTTAACCC
* *
152073678 TAGGGGTATT-TCAGTAATTTTGCACC
1 TAGGGGTATTAT-AGTAATTTTCCACA
* *
152073704 TAGGGGTATAACAGTAATTTTCCATACA
1 TAGGGGTATTATAGTAATTTTCC--ACA
152073732 TAGGGGTATTATAGTAATTT
1 TAGGGGTATTATAGTAATTT
152073752 AGCTGTTTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
26 19 0.49
28 20 0.51
ACGTcount: A:0.30, C:0.11, G:0.22, T:0.38
Consensus pattern (26 bp):
TAGGGGTATTATAGTAATTTTCCACA
Found at i:152075230 original size:26 final size:26
Alignment explanation
Indices: 152075199--152075306 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
152075189 TGAAATGCCC
* *
152075199 ATCATGGAATATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
152075225 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
152075251 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
152075277 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
152075303 ATCA
1 ATCA
152075307 GTTTGTACCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:152075256 original size:52 final size:52
Alignment explanation
Indices: 152075199--152075306 Score: 207
Period size: 52 Copynumber: 2.1 Consensus size: 52
152075189 TGAAATGCCC
152075199 ATCATGGAATATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
*
152075251 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
152075303 ATCA
1 ATCA
152075307 GTTTGTACCA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 55 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (52 bp):
ATCATGGAATATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
Found at i:152076461 original size:3 final size:3
Alignment explanation
Indices: 152076455--152076498 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
152076445 TTACTATTAG
*
152076455 TAC TAC TAC TAC TAC TAC TAC AAC TAC TAC TAC TAC TAC TAC TA
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TA
152076499 TTATTATTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.36, C:0.32, G:0.00, T:0.32
Consensus pattern (3 bp):
TAC
Found at i:152077118 original size:259 final size:256
Alignment explanation
Indices: 152076798--152077290 Score: 717
Period size: 260 Copynumber: 1.9 Consensus size: 256
152076788 TTTAAAAAGG
152076798 GAAAGTTTAGATTTTTAAAAATAAAAACATGTTTTTTTAGCCATTTTAAAGAAAAGTTTAAAAT-
1 GAAAGTTTAGATTTTTAAAAATAAAAACATG-TTTTTTAGCCATTTTAAAGAAAAGTTT-AAATG
* * * * *
152076862 TTTAAAATAAAGTTTTGA-TTTTTTTCAACTATTTCGAAATAAAAGCTTTGATATTTAACAGAAG
64 TTTAAAACAAAGTTTTGATTTTTTTTCAACTATTTCAAAATAAAAACTTTAATATTTAACAAAAG
152076926 TAGTGATTTTTGAAAAGAAAAAAAAGAGAGAGAGAAAGTTTAGATTTTTAAAAATAAAAAAAT-T
129 TAGTGATTTTT-AAAAG--AAAAAA-A-AGAGAG--AGTTTAGATTTTTAAAAATAAAAAAATGT
152076990 ATTTTTTAGTCATTCTAAAGG-AAAGTTAAAAATTTTAAAACAAAGTAGTGATTTTTTTTTAAAA
187 ATTTTTTAGTCATTCTAAAGGTAAAGTTAAAAATTTTAAAACAAAGTAGTGATTTTTTTTTAAAA
152077054 AAAAA
252 AAAAA
* * * *
152077059 GAAAGTTTAGATTTTTAAAAATAAAAATATG-TTTTTAGTCATTTTAAAGGAAGGTTTAAATGTT
1 GAAAGTTTAGATTTTTAAAAATAAAAACATGTTTTTTAGCCATTTTAAAGAAAAGTTTAAATGTT
* * *
152077123 TAAAGCAAAGTTTTGATTTTTTTTCAATTATTTCAAAATAAAAACTTTAATATTTAAGAAAAGTA
66 TAAAACAAAGTTTTGATTTTTTTTCAACTATTTCAAAATAAAAACTTTAATATTTAACAAAAGTA
* *
152077188 GTGATTTTTAAAAGAAAAAAAAGAGAGAGTTTAGATTTTTAAAAATAAAAATATGTTTTTTTTAG
131 GTGATTTTTAAAAGAAAAAAAAGAGAGAGTTTAGATTTTTAAAAATAAAAAAATGTATTTTTTAG
* * *
152077253 TCATTTTAAAGGTAAAGTTTAAATTTTTAAAACAAAGT
196 TCATTCTAAAGGTAAAGTTAAAAATTTTAAAACAAAGT
152077291 TTTAATCTTT
Statistics
Matches: 211, Mismatches: 17, Indels: 14
0.87 0.07 0.06
Matches are distributed among these distances:
253 26 0.12
254 20 0.09
255 29 0.14
256 1 0.00
257 6 0.03
258 4 0.02
259 44 0.21
260 51 0.24
261 30 0.14
ACGTcount: A:0.45, C:0.04, G:0.12, T:0.39
Consensus pattern (256 bp):
GAAAGTTTAGATTTTTAAAAATAAAAACATGTTTTTTAGCCATTTTAAAGAAAAGTTTAAATGTT
TAAAACAAAGTTTTGATTTTTTTTCAACTATTTCAAAATAAAAACTTTAATATTTAACAAAAGTA
GTGATTTTTAAAAGAAAAAAAAGAGAGAGTTTAGATTTTTAAAAATAAAAAAATGTATTTTTTAG
TCATTCTAAAGGTAAAGTTAAAAATTTTAAAACAAAGTAGTGATTTTTTTTTAAAAAAAAA
Found at i:152077132 original size:98 final size:99
Alignment explanation
Indices: 152076958--152077146 Score: 276
Period size: 98 Copynumber: 1.9 Consensus size: 99
152076948 AAAGAGAGAG
152076958 AGAAAGTTTAGATTTTTAAAAATAAAAAAATTATTTTTTAGTCATTCTAAAGGAAAGTTAAAAAT
1 AGAAAGTTTAGATTTTTAAAAAT-AAAAAATTATTTTTTAGTCATTCTAAAGGAAAGTTAAAAAT
152077023 TTTAAAACAAAGTAGTGATTTTTTTTTAAAAAAAA
65 TTTAAAACAAAGTAGTGATTTTTTTTTAAAAAAAA
* * *
152077058 AGAAAGTTTAGATTTTTAAAAAT-AAAAA-TATGTTTTTAGTCATTTTAAAGGAAGGTT-TAAAT
1 AGAAAGTTTAGATTTTTAAAAATAAAAAATTAT-TTTTTAGTCATTCTAAAGGAAAGTTAAAAAT
* **
152077120 GTTTAAAGCAAAGTTTTGATTTTTTTT
65 -TTTAAAACAAAGTAGTGATTTTTTTT
152077147 CAATTATTTC
Statistics
Matches: 81, Mismatches: 6, Indels: 6
0.87 0.06 0.06
Matches are distributed among these distances:
97 7 0.09
98 51 0.63
100 23 0.28
ACGTcount: A:0.44, C:0.03, G:0.12, T:0.41
Consensus pattern (99 bp):
AGAAAGTTTAGATTTTTAAAAATAAAAAATTATTTTTTAGTCATTCTAAAGGAAAGTTAAAAATT
TTAAAACAAAGTAGTGATTTTTTTTTAAAAAAAA
Found at i:152077289 original size:20 final size:21
Alignment explanation
Indices: 152077266--152077306 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
152077256 TTTTAAAGGT
152077266 AAAGTTTAAAT-TTTTAAAAC
1 AAAGTTTAAATCTTTTAAAAC
* *
152077286 AAAGTTTTAATCTTTTTAAAC
1 AAAGTTTAAATCTTTTAAAAC
152077307 TATTTCGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (21 bp):
AAAGTTTAAATCTTTTAAAAC
Found at i:152077294 original size:21 final size:21
Alignment explanation
Indices: 152077266--152077305 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
152077256 TTTTAAAGGT
152077266 AAAGTTTAA-ATTTTTAAAAC
1 AAAGTTTAATATTTTTAAAAC
*
152077286 AAAGTTTTAATCTTTTTAAA
1 AAAG-TTTAATATTTTTAAA
152077306 CTATTTCGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 5 0.29
22 8 0.47
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (21 bp):
AAAGTTTAATATTTTTAAAAC
Found at i:152077339 original size:156 final size:151
Alignment explanation
Indices: 152077031--152077363 Score: 436
Period size: 156 Copynumber: 2.2 Consensus size: 151
152077021 ATTTTAAAAC
****
152077031 AAAGTAGTGATTTTTTTTTAAAAAAAAAGAAAGTTTAGATTTTTAAAAATAAAAATATGTTTTTA
1 AAAGTAGTGATTTTTAAAAAAAAAAAAAGAAAGTTTAGATTTTTAAAAATAAAAATATGTTTTTA
* * * * * *
152077096 GTCATTTTAAAGGAAGGTTTAAATGTTTAAAGCAAAGTTTTGATTTTTTTTCAATTATTTCAAAA
66 GTCATTTTAAAGGAAAGTTTAAATGTTTAAAACAAAGTTTTGAATCTTTTTAAACTATTTCAAAA
152077161 TAAAAACTTTAATATTTAAGA
131 TAAAAACTTTAATATTTAAGA
*
152077182 AAAGTAGTGATTTTTAAAAGAAAAAAAAGAGAGAGTTTAGATTTTTAAAAATAAAAATATGTTTT
1 AAAGTAGTGATTTTTAAAA-AAAAAAAA-AGAAAGTTTAGATTTTTAAAAATAAAAATATG---T
*
152077247 TTTTAGTCATTTTAAAGGTAAAGTTTAAATTTTTAAAACAAAGTTTT-AATCTTTTTAAACTATT
61 TTTTAGTCATTTTAAAGG-AAAGTTTAAATGTTTAAAACAAAGTTTTGAATCTTTTTAAACTATT
* * * *
152077311 TCGAAAT-AAAACTTTGATTTTTTTAGA
125 TCAAAATAAAAACTTT-AATATTTAAGA
*
152077338 AAAGTAGTGATTTTTTAAAAAAAAAA
1 AAAGTAGTGATTTTTAAAAAAAAAAA
152077364 CTTTGATTTT
Statistics
Matches: 158, Mismatches: 17, Indels: 10
0.85 0.09 0.05
Matches are distributed among these distances:
151 15 0.09
152 8 0.05
153 31 0.20
155 15 0.09
156 64 0.41
157 25 0.16
ACGTcount: A:0.44, C:0.03, G:0.11, T:0.41
Consensus pattern (151 bp):
AAAGTAGTGATTTTTAAAAAAAAAAAAAGAAAGTTTAGATTTTTAAAAATAAAAATATGTTTTTA
GTCATTTTAAAGGAAAGTTTAAATGTTTAAAACAAAGTTTTGAATCTTTTTAAACTATTTCAAAA
TAAAAACTTTAATATTTAAGA
Found at i:152077572 original size:43 final size:43
Alignment explanation
Indices: 152077523--152077608 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
152077513 AAAATGAAAG
*
152077523 AATGAATAGATTTCTCGTATTTATATGTGCTAAAATGGATAAT
1 AATGAATAGATTTCTCGTATTTATATGTGCTAAAATGAATAAT
152077566 AATGAATAGATTTCTCGTATTTATATGTGCTAAAATGAATAAT
1 AATGAATAGATTTCTCGTATTTATATGTGCTAAAATGAATAAT
152077609 TTATTCCCAC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.38, C:0.07, G:0.15, T:0.40
Consensus pattern (43 bp):
AATGAATAGATTTCTCGTATTTATATGTGCTAAAATGAATAAT
Found at i:152083957 original size:28 final size:28
Alignment explanation
Indices: 152083911--152083979 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
152083901 TTTAAAACCC
*
152083911 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
152083938 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
152083966 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
152083980 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:152093556 original size:20 final size:20
Alignment explanation
Indices: 152093533--152093570 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
152093523 CACATCCAAA
*
152093533 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
152093553 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
152093571 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:152095436 original size:32 final size:32
Alignment explanation
Indices: 152095395--152095456 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
152095385 CATCTATTTT
152095395 CATTGTTCAACTCTTTGACAACACGAAAAATC
1 CATTGTTCAACTCTTTGACAACACGAAAAATC
*
152095427 CATTGTTCAACTCTTTGACAACATGAAAAA
1 CATTGTTCAACTCTTTGACAACACGAAAAA
152095457 ACCAAAAGCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.39, C:0.23, G:0.10, T:0.29
Consensus pattern (32 bp):
CATTGTTCAACTCTTTGACAACACGAAAAATC
Found at i:152102767 original size:13 final size:13
Alignment explanation
Indices: 152102749--152102776 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
152102739 TGAAAATTCG
152102749 TTAATGGTACATT
1 TTAATGGTACATT
152102762 TTAATGGTACATT
1 TTAATGGTACATT
152102775 TT
1 TT
152102777 CCCCTATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.07, G:0.14, T:0.50
Consensus pattern (13 bp):
TTAATGGTACATT
Found at i:152112706 original size:21 final size:21
Alignment explanation
Indices: 152112682--152112725 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
152112672 GAATCTTTAG
*
152112682 TATTTATTGTATCATTT-TATT
1 TATTTAAT-TATCATTTCTATT
*
152112703 TATTTAATTATCCTTTCTATT
1 TATTTAATTATCATTTCTATT
152112724 TA
1 TA
152112726 ATTAGGTCGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.25, C:0.09, G:0.02, T:0.64
Consensus pattern (21 bp):
TATTTAATTATCATTTCTATT
Found at i:152114983 original size:22 final size:22
Alignment explanation
Indices: 152114956--152114999 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
152114946 CTCTCGATTT
152114956 TTTTATTGCTCCTTTTCAATCA
1 TTTTATTGCTCCTTTTCAATCA
152114978 TTTTATTGCTCCTTTTCAATCA
1 TTTTATTGCTCCTTTTCAATCA
152115000 AAAGAGATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.18, C:0.23, G:0.05, T:0.55
Consensus pattern (22 bp):
TTTTATTGCTCCTTTTCAATCA
Found at i:152119154 original size:32 final size:32
Alignment explanation
Indices: 152119118--152119179 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
152119108 AGCTTTTGGT
152119118 TTTTTCATGTTGTCAAAGAGTTGAACAATGGA
1 TTTTTCATGTTGTCAAAGAGTTGAACAATGGA
*
152119150 TTTTTCGTGTTGTCAAAGAGTTGAACAATG
1 TTTTTCATGTTGTCAAAGAGTTGAACAATG
152119180 AAAATAGATG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.29, C:0.10, G:0.23, T:0.39
Consensus pattern (32 bp):
TTTTTCATGTTGTCAAAGAGTTGAACAATGGA
Found at i:152127366 original size:6 final size:6
Alignment explanation
Indices: 152127355--152127433 Score: 66
Period size: 5 Copynumber: 14.2 Consensus size: 6
152127345 GGGATCACTA
152127355 ACTAAT ACTAAT -CTAAT -CT-A- ACTAAT ACTAAT -CTAAT ACTAAT
1 ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT
* *
152127398 A-GAAT A-GAAT ACTAAT -CTAAT ACTCTAAT ACTAAT A
1 ACTAAT ACTAAT ACTAAT ACTAAT A--CTAAT ACTAAT A
152127434 GAATAGAAAA
Statistics
Matches: 63, Mismatches: 2, Indels: 16
0.78 0.02 0.20
Matches are distributed among these distances:
4 3 0.05
5 27 0.43
6 27 0.43
8 6 0.10
ACGTcount: A:0.48, C:0.16, G:0.03, T:0.33
Consensus pattern (6 bp):
ACTAAT
Found at i:152127377 original size:20 final size:21
Alignment explanation
Indices: 152127351--152127396 Score: 85
Period size: 20 Copynumber: 2.2 Consensus size: 21
152127341 AGCCGGGATC
152127351 ACTAACTAATACTAATCTAAT
1 ACTAACTAATACTAATCTAAT
152127372 -CTAACTAATACTAATCTAAT
1 ACTAACTAATACTAATCTAAT
152127392 ACTAA
1 ACTAA
152127397 TAGAATAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.48, C:0.20, G:0.00, T:0.33
Consensus pattern (21 bp):
ACTAACTAATACTAATCTAAT
Found at i:152127421 original size:11 final size:11
Alignment explanation
Indices: 152127351--152127397 Score: 73
Period size: 11 Copynumber: 4.5 Consensus size: 11
152127341 AGCCGGGATC
152127351 ACTAA-CTAAT
1 ACTAATCTAAT
152127361 ACTAATCTAAT
1 ACTAATCTAAT
152127372 -CTAA-CTAAT
1 ACTAATCTAAT
152127381 ACTAATCTAAT
1 ACTAATCTAAT
152127392 ACTAAT
1 ACTAAT
152127398 AGAATAGAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
9 5 0.15
10 13 0.38
11 16 0.47
ACGTcount: A:0.47, C:0.19, G:0.00, T:0.34
Consensus pattern (11 bp):
ACTAATCTAAT
Found at i:152127447 original size:14 final size:14
Alignment explanation
Indices: 152127430--152127457 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
152127420 CTCTAATACT
152127430 AATAGAATAGAAAA
1 AATAGAATAGAAAA
152127444 AATAGAATAGAAAA
1 AATAGAATAGAAAA
152127458 TACTAATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (14 bp):
AATAGAATAGAAAA
Found at i:152135784 original size:18 final size:18
Alignment explanation
Indices: 152135705--152135798 Score: 131
Period size: 18 Copynumber: 5.4 Consensus size: 18
152135695 CAAGGTCACG
*
152135705 ATCAATAGCGTCACTATC
1 ATCAATATCGTCACTATC
* *
152135723 ATCAATAGCGTCACTAGC
1 ATCAATATCGTCACTATC
*
152135741 ATCAATATCGTCACTAGC
1 ATCAATATCGTCACTATC
152135759 ATCAATATCGTCACTATC
1 ATCAATATCGTCACTATC
152135777 ATCAATATCG--A-TATC
1 ATCAATATCGTCACTATC
152135792 ATCAATA
1 ATCAATA
152135799 AGAAAACCTT
Statistics
Matches: 73, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
15 11 0.15
16 1 0.01
18 61 0.84
ACGTcount: A:0.36, C:0.26, G:0.10, T:0.29
Consensus pattern (18 bp):
ATCAATATCGTCACTATC
Found at i:152135785 original size:9 final size:9
Alignment explanation
Indices: 152135705--152135785 Score: 54
Period size: 9 Copynumber: 9.0 Consensus size: 9
152135695 CAAGGTCACG
*
152135705 ATCAATAGC
1 ATCAATATC
* *
152135714 GTCACTATC
1 ATCAATATC
*
152135723 ATCAATAGC
1 ATCAATATC
* * *
152135732 GTCACTAGC
1 ATCAATATC
152135741 ATCAATATC
1 ATCAATATC
* * *
152135750 GTCACTAGC
1 ATCAATATC
152135759 ATCAATATC
1 ATCAATATC
* *
152135768 GTCACTATC
1 ATCAATATC
152135777 ATCAATATC
1 ATCAATATC
152135786 GATATCATCA
Statistics
Matches: 51, Mismatches: 21, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
9 51 1.00
ACGTcount: A:0.35, C:0.27, G:0.10, T:0.28
Consensus pattern (9 bp):
ATCAATATC
Found at i:152138194 original size:21 final size:21
Alignment explanation
Indices: 152138164--152138252 Score: 90
Period size: 21 Copynumber: 4.1 Consensus size: 21
152138154 CTCACAAAGA
* *
152138164 AAAAAG-GAAGTGAGTTAGAC
1 AAAAAGAGAAGTAACTTAGAC
* *
152138184 AAAAAGAGAAGCAACTTGGAC
1 AAAAAGAGAAGTAACTTAGAC
*
152138205 AAAAAGAGAAGTAACTTGGAC
1 AAAAAGAGAAGTAACTTAGAC
*
152138226 AAAAAGAAACGAAGTGACTTAGAC
1 AAAAAG--A-GAAGTAACTTAGAC
152138250 AAA
1 AAA
152138253 TCTTTTTTGT
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
20 6 0.10
21 36 0.62
23 1 0.02
24 15 0.26
ACGTcount: A:0.54, C:0.10, G:0.24, T:0.12
Consensus pattern (21 bp):
AAAAAGAGAAGTAACTTAGAC
Found at i:152138245 original size:24 final size:21
Alignment explanation
Indices: 152138164--152138232 Score: 95
Period size: 21 Copynumber: 3.3 Consensus size: 21
152138154 CTCACAAAGA
* * *
152138164 AAAAAG-GAAGTGAGTTAGAC
1 AAAAAGAGAAGTAACTTGGAC
*
152138184 AAAAAGAGAAGCAACTTGGAC
1 AAAAAGAGAAGTAACTTGGAC
152138205 AAAAAGAGAAGTAACTTGGAC
1 AAAAAGAGAAGTAACTTGGAC
152138226 AAAAAGA
1 AAAAAGA
152138233 AACGAAGTGA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
20 6 0.14
21 37 0.86
ACGTcount: A:0.55, C:0.09, G:0.25, T:0.12
Consensus pattern (21 bp):
AAAAAGAGAAGTAACTTGGAC
Found at i:152142418 original size:14 final size:14
Alignment explanation
Indices: 152142399--152142427 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
152142389 TACAATATAT
152142399 ATAAGAATTATACG
1 ATAAGAATTATACG
152142413 ATAAGAATTATACG
1 ATAAGAATTATACG
152142427 A
1 A
152142428 ATCCATCTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.14, T:0.28
Consensus pattern (14 bp):
ATAAGAATTATACG
Found at i:152149727 original size:28 final size:28
Alignment explanation
Indices: 152149695--152149794 Score: 103
Period size: 28 Copynumber: 3.5 Consensus size: 28
152149685 ATAGTGAATC
* * *
152149695 CGCACACTTAGTGCTATATATTTC-AGCT
1 CGCACACTTAGTGCTATAGA-ATCAAACT
152149723 CGCACACTTAGTGCTATAGAATCAAACT
1 CGCACACTTAGTGCTATAGAATCAAACT
* * * *
152149751 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATAGAA--TCAAACT
152149781 CGCACACTTAGTGC
1 CGCACACTTAGTGC
152149795 CAATCTTGTC
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
27 2 0.03
28 41 0.66
30 19 0.31
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAGAATCAAACT
Found at i:152155396 original size:54 final size:54
Alignment explanation
Indices: 152155314--152155446 Score: 243
Period size: 53 Copynumber: 2.5 Consensus size: 54
152155304 CATCTTATGG
152155314 CGGGATTACCAGTCCAGGCTAAATCCCCCCAAATATAAACTCATAGAGTGATGT
1 CGGGATTACCAGTCCAGGCTAAATCCCCCCAAATATAAACTCATAGAGTGATGT
*
152155368 CGGGATTACCAGTCCAGGCTAAAT-CCCCCAAATATAAACTTATAGAGTGATGT
1 CGGGATTACCAGTCCAGGCTAAATCCCCCCAAATATAAACTCATAGAGTGATGT
152155421 CGGGATTA-CAGTCCAGGCTAAATCCC
1 CGGGATTACCAGTCCAGGCTAAATCCC
152155447 TTGTGACAAC
Statistics
Matches: 77, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
52 15 0.19
53 38 0.49
54 24 0.31
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.23
Consensus pattern (54 bp):
CGGGATTACCAGTCCAGGCTAAATCCCCCCAAATATAAACTCATAGAGTGATGT
Found at i:152158439 original size:15 final size:16
Alignment explanation
Indices: 152158421--152158461 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
152158411 GAAGCCCAGA
152158421 ATAAAGAAATCT-AAG
1 ATAAAGAAATCTCAAG
*
152158436 ATAAAGAAAT-TCATG
1 ATAAAGAAATCTCAAG
152158451 ATAAAGAAATC
1 ATAAAGAAATC
152158462 CAATTTACAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 1 0.04
15 22 0.96
ACGTcount: A:0.59, C:0.07, G:0.12, T:0.22
Consensus pattern (16 bp):
ATAAAGAAATCTCAAG
Found at i:152164937 original size:46 final size:48
Alignment explanation
Indices: 152164865--152164967 Score: 131
Period size: 46 Copynumber: 2.2 Consensus size: 48
152164855 GACAGGACAG
* * * *
152164865 GACAGAAATGAGTCATGTAAGTCCATATCA-GT-TATATGG-ATTTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATCATATATATATGGCA-TTGGA
*
152164911 GACAGGAATGAGCCATGTAAGCCCATATTATATATATATGGCATTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATCATATATATATGGCATTGGA
152164959 GACAGGAAT
1 GACAGGAAT
152164968 AATTCATGTA
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
46 26 0.53
47 1 0.02
48 21 0.43
49 1 0.02
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.27
Consensus pattern (48 bp):
GACAGGAATGAGCCATGTAAGCCCATATCATATATATATGGCATTGGA
Found at i:152170065 original size:29 final size:29
Alignment explanation
Indices: 152170030--152170193 Score: 283
Period size: 29 Copynumber: 5.7 Consensus size: 29
152170020 ATAAACGATC
** *
152170030 TCGCACACTTAGTGCCATGCAATTTAAGC
1 TCGCACACTTAGTGCCATATAATTTAAGT
*
152170059 TCGCACACATAGTGCCATATAATTTAAGT
1 TCGCACACTTAGTGCCATATAATTTAAGT
*
152170088 TTGCACACTTAGTGCCATATAATTTAAGT
1 TCGCACACTTAGTGCCATATAATTTAAGT
152170117 TCGCACACTTAGTGCCATATAATTTAAGT
1 TCGCACACTTAGTGCCATATAATTTAAGT
152170146 TCGCACACTTAGTGCCATATAATTTAAGT
1 TCGCACACTTAGTGCCATATAATTTAAGT
152170175 TCGCACACTTAGTGCCATA
1 TCGCACACTTAGTGCCATA
152170194 CCTTCCAAGC
Statistics
Matches: 128, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 128 1.00
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (29 bp):
TCGCACACTTAGTGCCATATAATTTAAGT
Found at i:152170209 original size:87 final size:87
Alignment explanation
Indices: 152170031--152170220 Score: 274
Period size: 87 Copynumber: 2.2 Consensus size: 87
152170021 TAAACGATCT
* *
152170031 CGCACACTTAGTGCCATGCAATTTAAGCTCGCACACATAGTGCCATATAATTTAAGTTTGCACAC
1 CGCACACTTAGTGCCATACAATTTAAGCTCGCACACATAGTGCCATATAATTTAAGTTCGCACAC
* **
152170096 TTAGTGCCATATAATTTAAGTT
66 TTAGTGCCATATAATTCAAGCC
* * *
152170118 CGCACACTTAGTGCCATATAATTTAAGTTCGCACACTTAGTGCCATATAATTTAAGTTCGCACAC
1 CGCACACTTAGTGCCATACAATTTAAGCTCGCACACATAGTGCCATATAATTTAAGTTCGCACAC
**
152170183 TTAGTGCCATA-CCTTCCAAGCC
66 TTAGTGCCATATAATT-CAAGCC
152170205 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
152170221 ATCTTGTCAC
Statistics
Matches: 92, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
86 2 0.02
87 90 0.98
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (87 bp):
CGCACACTTAGTGCCATACAATTTAAGCTCGCACACATAGTGCCATATAATTTAAGTTCGCACAC
TTAGTGCCATATAATTCAAGCC
Found at i:152178107 original size:29 final size:29
Alignment explanation
Indices: 152178072--152178204 Score: 225
Period size: 29 Copynumber: 4.7 Consensus size: 29
152178062 ATAAACGATC
** *
152178072 TCGCACACTTAGTGCCATGCAATTTAAGC
1 TCGCACACTTAGTGCCATATAATTTAAGT
152178101 TCGCACACTTAGTGCCATATAATTTAAGT
1 TCGCACACTTAGTGCCATATAATTTAAGT
152178130 TCGCACACTTAGTGCCATATAATTTAAGT
1 TCGCACACTTAGTGCCATATAATTTAAGT
152178159 TCGCACACTTAGTGCCATATAATTTAAGT
1 TCGCACACTTAGTGCCATATAATTTAAGT
152178188 TCG--CACTTAGTGCCATA
1 TCGCACACTTAGTGCCATA
152178205 CCTTCCAAGC
Statistics
Matches: 101, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
27 14 0.14
29 87 0.86
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.32
Consensus pattern (29 bp):
TCGCACACTTAGTGCCATATAATTTAAGT
Found at i:152178143 original size:58 final size:58
Alignment explanation
Indices: 152178072--152178231 Score: 229
Period size: 58 Copynumber: 2.8 Consensus size: 58
152178062 ATAAACGATC
*
152178072 TCGCACACTTAGTGCCATGCAATTTAAGCTCGCACACTTAGTGCCATATAATTTAAGT
1 TCGCACACTTAGTGCCATACAATTTAAGCTCGCACACTTAGTGCCATATAATTTAAGT
* *
152178130 TCGCACACTTAGTGCCATATAATTTAAGTTCGCACACTTAGTGCCATATAATTTAAGT
1 TCGCACACTTAGTGCCATACAATTTAAGCTCGCACACTTAGTGCCATATAATTTAAGT
* *
152178188 TCG--CACTTAGTGCCATAC-CTTCCAAGC-CTGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCATACAATT-TAAGCTC-GCACACTTAGTGCCA
152178232 ATCTTGTCAC
Statistics
Matches: 93, Mismatches: 7, Indels: 6
0.88 0.07 0.06
Matches are distributed among these distances:
55 3 0.03
56 32 0.34
58 58 0.62
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (58 bp):
TCGCACACTTAGTGCCATACAATTTAAGCTCGCACACTTAGTGCCATATAATTTAAGT
Found at i:152180533 original size:2 final size:2
Alignment explanation
Indices: 152180522--152180550 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
152180512 ATGTAAGCCC
152180522 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
152180551 GTGGCATTGG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:152186065 original size:40 final size:40
Alignment explanation
Indices: 152186010--152186170 Score: 189
Period size: 40 Copynumber: 4.0 Consensus size: 40
152186000 TGAATGATAC
* *
152186010 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
152186050 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * ** *
152186090 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
152186130 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
152186170 C
1 C
152186171 TGGCTAAATT
Statistics
Matches: 100, Mismatches: 19, Indels: 4
0.81 0.15 0.03
Matches are distributed among these distances:
39 1 0.01
40 97 0.97
41 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:152194836 original size:40 final size:40
Alignment explanation
Indices: 152194654--152194872 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
152194644 TCGAATGATG
* * *
152194654 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
152194694 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACT-AA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
152194733 T---GGCTAAG--CCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
152194768 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
152194807 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
152194848 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
152194873 AACGAGTAGC
Statistics
Matches: 158, Mismatches: 12, Indels: 18
0.84 0.06 0.10
Matches are distributed among these distances:
34 24 0.15
35 2 0.01
36 6 0.04
38 7 0.04
39 37 0.23
40 72 0.46
41 10 0.06
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:152201431 original size:14 final size:14
Alignment explanation
Indices: 152201409--152201438 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
152201399 GTAAGATGGT
*
152201409 GAAAGAGAAAAAAA
1 GAAAAAGAAAAAAA
152201423 GAAAAAGAAAAAAA
1 GAAAAAGAAAAAAA
152201437 GA
1 GA
152201439 GATCATCATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (14 bp):
GAAAAAGAAAAAAA
Found at i:152201487 original size:10 final size:10
Alignment explanation
Indices: 152201475--152201509 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
152201465 CGAATAGAAG
*
152201475 AAAGAAAAAG
1 AAAGAAAAAA
152201485 AAAGAAAAAAA
1 AAAG-AAAAAA
152201496 AAAGAAAAAA
1 AAAGAAAAAA
152201506 AAAG
1 AAAG
152201510 CTCTCATGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 14 0.61
11 9 0.39
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (10 bp):
AAAGAAAAAA
Found at i:152201499 original size:11 final size:11
Alignment explanation
Indices: 152201475--152201508 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
152201465 CGAATAGAAG
*
152201475 AAAG-AAAAAG
1 AAAGAAAAAAA
152201485 AAAGAAAAAAA
1 AAAGAAAAAAA
152201496 AAAGAAAAAAA
1 AAAGAAAAAAA
152201507 AA
1 AA
152201509 GCTCTCATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 4 0.18
11 18 0.82
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (11 bp):
AAAGAAAAAAA
Found at i:152201499 original size:15 final size:14
Alignment explanation
Indices: 152201479--152201508 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
152201469 TAGAAGAAAG
152201479 AAAAAGAAAGAAAAA
1 AAAAAGAAA-AAAAA
152201494 AAAAAGAAAAAAAA
1 AAAAAGAAAAAAAA
152201508 A
1 A
152201509 GCTCTCATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (14 bp):
AAAAAGAAAAAAAA
Found at i:152202974 original size:40 final size:38
Alignment explanation
Indices: 152202738--152202967 Score: 248
Period size: 40 Copynumber: 5.8 Consensus size: 38
152202728 TCGAATGATG
* * *
152202738 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAG-CCCGAAGGCATTTGTAC-GAGTTACTA-A
* *
152202778 TCCGGACTAAGATCCGAAGGCATTTGTACGAGTTACTAA
1 TCCGGGCTAAG-CCCGAAGGCATTTGTACGAGTTACTAA
152202817 TTCCGGGCTAAGCCCGAAGGCATTTGT-CGAGTTACTAA
1 -TCCGGGCTAAGCCCGAAGGCATTTGTACGAGTTACTAA
* *
152202855 TTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 -TCCGGGCTAAGCCCGAAGGCATTTGTACGAGTTACT-AA
* *
152202895 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAG-CCCGAAGGCATTTGTACGAGTTACTA-A
* * *
152202935 ACCGGGCTATGTCCCGAAGGCATTTGAACGAGT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTACGAGT
152202968 AGCTATATCC
Statistics
Matches: 168, Mismatches: 16, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
38 37 0.22
39 35 0.21
40 90 0.54
41 6 0.04
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (38 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTACGAGTTACTAA
Found at i:152208881 original size:43 final size:42
Alignment explanation
Indices: 152208767--152208884 Score: 130
Period size: 43 Copynumber: 2.8 Consensus size: 42
152208757 GACTTATGAT
* *
152208767 TTACATGTAAGACCACGTCTGGGACATTGACATTGTATTTGA
1 TTACATGTAAGACCACGTCTGGGACATTGGCATCGTATTTGA
*** * * *
152208809 TTTTGTGTACGACC-CTGTCTAGGACATTGGTATCGATATTTGA
1 TTACATGTAAGACCAC-GTCTGGGACATTGGCATCG-TATTTGA
*
152208852 TTACATGTAAGACCACGTCTGGGATATTGGCAT
1 TTACATGTAAGACCACGTCTGGGACATTGGCAT
152208885 TATATGAGCT
Statistics
Matches: 58, Mismatches: 15, Indels: 5
0.74 0.19 0.06
Matches are distributed among these distances:
41 1 0.02
42 25 0.43
43 31 0.53
44 1 0.02
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.35
Consensus pattern (42 bp):
TTACATGTAAGACCACGTCTGGGACATTGGCATCGTATTTGA
Found at i:152220846 original size:24 final size:24
Alignment explanation
Indices: 152220796--152220860 Score: 69
Period size: 24 Copynumber: 2.8 Consensus size: 24
152220786 AACAAGGTCA
* * * * *
152220796 TTTAAAAGCTCGTTTATCGGCTTG
1 TTTATAAGCTCATTTATTGACTCG
152220820 TTTATAAGCTCATTTATTGACTCG
1 TTTATAAGCTCATTTATTGACTCG
*
152220844 TTTATGA-CTCATTTATT
1 TTTATAAGCTCATTTATT
152220861 TATTCATGAT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
23 10 0.29
24 25 0.71
ACGTcount: A:0.23, C:0.15, G:0.14, T:0.48
Consensus pattern (24 bp):
TTTATAAGCTCATTTATTGACTCG
Found at i:152220847 original size:12 final size:12
Alignment explanation
Indices: 152220828--152220860 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
152220818 TGTTTATAAG
152220828 CTCATTTATTGA
1 CTCATTTATTGA
*
152220840 CTCGTTTA-TGA
1 CTCATTTATTGA
152220851 CTCATTTATT
1 CTCATTTATT
152220861 TATTCATGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
11 10 0.56
12 8 0.44
ACGTcount: A:0.21, C:0.18, G:0.09, T:0.52
Consensus pattern (12 bp):
CTCATTTATTGA
Found at i:152225052 original size:42 final size:42
Alignment explanation
Indices: 152224975--152225113 Score: 113
Period size: 42 Copynumber: 3.3 Consensus size: 42
152224965 TCCCGGACGT
* * ** *
152224975 GGTCTTACATGTAATTCAGTATCGATGCCTCTGTCCGAGATAG
1 GGTCTTACACGTAAATCAGTATCGATGCCGATGTCC-AGACAG
*
152225018 GGTCTTACACG-AAATCAGATAT-GATGCCGATGTCCAGACAT
1 GGTCTTACACGTAAATCAG-TATCGATGCCGATGTCCAGACAG
* ** * *
152225059 GGTCTCACACGTAAATCACAAATCGAAGCCTG-TGTCCTAGACAC
1 GGTCTTACACGTAAATCA-GTATCGATGCC-GATGTCC-AGACAG
152225103 GGTCTTACACG
1 GGTCTTACACG
152225114 ATATCTCAGA
Statistics
Matches: 78, Mismatches: 12, Indels: 11
0.77 0.12 0.11
Matches are distributed among these distances:
41 14 0.18
42 25 0.32
43 23 0.29
44 16 0.21
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (42 bp):
GGTCTTACACGTAAATCAGTATCGATGCCGATGTCCAGACAG
Found at i:152234289 original size:40 final size:40
Alignment explanation
Indices: 152234245--152234430 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
152234235 GGTACTCGTT
* * *
152234245 CAAATACCTTCGGGACATAGCCCGG-TTATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
152234285 CAAATGCCTTCGGGACTTATCCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
152234325 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * *
152234365 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
*
152234406 CAAA-GCCTTCGGGACTCAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
152234431 CATCATTCGA
Statistics
Matches: 132, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
39 3 0.02
40 116 0.88
41 13 0.10
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:152243748 original size:16 final size:16
Alignment explanation
Indices: 152243723--152243755 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
152243713 ACGGTATTCT
*
152243723 ATATTTTATAGTAGCA
1 ATATTCTATAGTAGCA
152243739 ATATTCTATAGTAGCA
1 ATATTCTATAGTAGCA
152243755 A
1 A
152243756 AGGAATAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.09, G:0.12, T:0.39
Consensus pattern (16 bp):
ATATTCTATAGTAGCA
Found at i:152244254 original size:15 final size:15
Alignment explanation
Indices: 152244221--152244254 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
152244211 AGTTATGTCT
*
152244221 ATGTATGGAATTATA
1 ATGTATGGAATTAGA
*
152244236 ATGTATGGAATTAGC
1 ATGTATGGAATTAGA
152244251 ATGT
1 ATGT
152244255 CAAAAAGATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.03, G:0.24, T:0.38
Consensus pattern (15 bp):
ATGTATGGAATTAGA
Found at i:152245276 original size:19 final size:19
Alignment explanation
Indices: 152245254--152245293 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
152245244 TTAAACTTTT
* *
152245254 ATTATACTTTTCTATTCTA
1 ATTAAACTTTTCGATTCTA
152245273 ATTAAACTTTTCGATTCTA
1 ATTAAACTTTTCGATTCTA
152245292 AT
1 AT
152245294 AAAAAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.30, C:0.15, G:0.03, T:0.53
Consensus pattern (19 bp):
ATTAAACTTTTCGATTCTA
Found at i:152246999 original size:14 final size:14
Alignment explanation
Indices: 152246980--152247008 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
152246970 CTTTTTACTT
152246980 TGTTATATAGATTA
1 TGTTATATAGATTA
152246994 TGTTATATAGATTA
1 TGTTATATAGATTA
152247008 T
1 T
152247009 TATTTATCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.52
Consensus pattern (14 bp):
TGTTATATAGATTA
Found at i:152247157 original size:21 final size:21
Alignment explanation
Indices: 152247133--152247172 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
152247123 TTTATCAGTA
*
152247133 ATTCCATTTCATTTATATTAT
1 ATTCCATATCATTTATATTAT
*
152247154 ATTCTATATCATTTATATT
1 ATTCCATATCATTTATATT
152247173 TTTAAATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.12, G:0.00, T:0.57
Consensus pattern (21 bp):
ATTCCATATCATTTATATTAT
Found at i:152247772 original size:11 final size:11
Alignment explanation
Indices: 152247756--152247780 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
152247746 CTTTATATTT
152247756 ATATACAATAA
1 ATATACAATAA
152247767 ATATACAATAA
1 ATATACAATAA
152247778 ATA
1 ATA
152247781 CAATAATCGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (11 bp):
ATATACAATAA
Found at i:152248475 original size:14 final size:15
Alignment explanation
Indices: 152248444--152248483 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
152248434 TATCTTTATC
152248444 TTATTTATATTCTATT
1 TTATTTAT-TTCTATT
152248460 TTATTTATTTCT-TT
1 TTATTTATTTCTATT
*
152248474 TTTTTTATTT
1 TTATTTATTT
152248484 ATCCATCTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 11 0.48
15 4 0.17
16 8 0.35
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (15 bp):
TTATTTATTTCTATT
Found at i:152253168 original size:23 final size:23
Alignment explanation
Indices: 152253138--152253183 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
152253128 TATATTTTGA
152253138 GTTCGTATATAACTAGTCAATAT
1 GTTCGTATATAACTAGTCAATAT
152253161 GTTCGTATATAACTAGTCAATAT
1 GTTCGTATATAACTAGTCAATAT
152253184 CTAATATCCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (23 bp):
GTTCGTATATAACTAGTCAATAT
Found at i:152253744 original size:14 final size:14
Alignment explanation
Indices: 152253725--152253752 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
152253715 TCAAGATAAA
152253725 GATAATATTGATCG
1 GATAATATTGATCG
152253739 GATAATATTGATCG
1 GATAATATTGATCG
152253753 AAGGTAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.21, T:0.36
Consensus pattern (14 bp):
GATAATATTGATCG
Found at i:152254953 original size:29 final size:29
Alignment explanation
Indices: 152254911--152254968 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
152254901 TATTAACCGA
152254911 TTCCATAGATCTATGTAGTTCCAAAAAAG
1 TTCCATAGATCTATGTAGTTCCAAAAAAG
152254940 TTCCATAGATCTATGTAGTTCCAAAAAAG
1 TTCCATAGATCTATGTAGTTCCAAAAAAG
152254969 AATTTATTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.31
Consensus pattern (29 bp):
TTCCATAGATCTATGTAGTTCCAAAAAAG
Found at i:152271042 original size:15 final size:15
Alignment explanation
Indices: 152271022--152271064 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
152271012 TATTAGAAAT
152271022 AAATAGATATTATAA
1 AAATAGATATTATAA
152271037 AAATAGA-A--AT--
1 AAATAGATATTATAA
152271047 AAATAGATATTATAA
1 AAATAGATATTATAA
152271062 AAA
1 AAA
152271065 GAAACTAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 10
0.70 0.00 0.30
Matches are distributed among these distances:
10 7 0.30
11 1 0.04
12 2 0.09
13 2 0.09
14 1 0.04
15 10 0.43
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (15 bp):
AAATAGATATTATAA
Found at i:152271043 original size:25 final size:25
Alignment explanation
Indices: 152271015--152271064 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
152271005 AAATATTTAT
152271015 TAGAAATAAATAGATATTATAAAAA
1 TAGAAATAAATAGATATTATAAAAA
152271040 TAGAAATAAATAGATATTATAAAAA
1 TAGAAATAAATAGATATTATAAAAA
152271065 GAAACTAGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (25 bp):
TAGAAATAAATAGATATTATAAAAA
Found at i:152276756 original size:31 final size:33
Alignment explanation
Indices: 152276693--152276766 Score: 100
Period size: 33 Copynumber: 2.3 Consensus size: 33
152276683 AAAATGAAAA
* *
152276693 TAAATTAATAATTTATTTTAATTATACTTAAAT
1 TAAATTATTAATTTATTCTAATTATACTTAAAT
*
152276726 TAAATTATTAATTT-TTCTATTTA-ACTTAAAT
1 TAAATTATTAATTTATTCTAATTATACTTAAAT
152276757 TAAA-TATTAA
1 TAAATTATTAA
152276767 ATAATAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
30 6 0.16
31 12 0.32
32 7 0.18
33 13 0.34
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (33 bp):
TAAATTATTAATTTATTCTAATTATACTTAAAT
Found at i:152276772 original size:10 final size:10
Alignment explanation
Indices: 152276759--152276978 Score: 97
Period size: 11 Copynumber: 21.4 Consensus size: 10
152276749 ACTTAAATTA
*
152276759 AATATTAAAT
1 AATAATAAAT
152276769 AATAATAAAT
1 AATAATAAAT
** *
152276779 TCTAAATATACT
1 AAT-AATA-AAT
152276791 AA-ATATAAAT
1 AATA-ATAAAT
152276801 AATAACTAAAT
1 AATAA-TAAAT
152276812 AATAACTAAAT
1 AATAA-TAAAT
152276823 AGA-AAT--A-
1 A-ATAATAAAT
152276830 AA-AATAAAT
1 AATAATAAAT
152276839 AATAACTAAAT
1 AATAA-TAAAT
152276850 AGA-AATAAAAT
1 A-ATAAT-AAAT
152276861 AATAACTAAAT
1 AATAA-TAAAT
152276872 AGA-AATAAA-
1 A-ATAATAAAT
*
152276881 AAT-ATATAT
1 AATAATAAAT
* *
152276890 AAAAATATAT
1 AATAATAAAT
152276900 -ATAAT-AAT
1 AATAATAAAT
152276908 AATATATAAA-
1 AATA-ATAAAT
*
152276918 AATAATATAT
1 AATAATAAAT
*
152276928 AAATTATAAAT
1 -AATAATAAAT
152276939 AGATAATATAAT
1 A-ATAATA-AAT
152276951 AATAGATAGAAT
1 AATA-ATA-AAT
152276963 AATAAAATAAAT
1 AAT--AATAAAT
152276975 AATA
1 AATA
152276979 TAGAAATATA
Statistics
Matches: 165, Mismatches: 16, Indels: 58
0.69 0.07 0.24
Matches are distributed among these distances:
6 4 0.02
7 1 0.01
8 9 0.05
9 16 0.10
10 39 0.24
11 67 0.41
12 25 0.15
13 3 0.02
14 1 0.01
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.30
Consensus pattern (10 bp):
AATAATAAAT
Found at i:152276892 original size:22 final size:24
Alignment explanation
Indices: 152276808--152276888 Score: 114
Period size: 22 Copynumber: 3.4 Consensus size: 24
152276798 AATAATAACT
152276808 AAATA-ATAACTAAATAGAAATAA
1 AAATATATAACTAAATAGAAATAA
152276831 AAATAAATAATAACTAAATAGAAAT-A
1 AAAT--AT-ATAACTAAATAGAAATAA
152276857 AAATA-ATAACTAAATAGAAATAA
1 AAATATATAACTAAATAGAAATAA
152276880 AAATATATA
1 AAATATATA
152276889 TAAAAATATA
Statistics
Matches: 52, Mismatches: 0, Indels: 11
0.83 0.00 0.17
Matches are distributed among these distances:
22 16 0.31
23 10 0.19
24 4 0.08
25 1 0.02
26 5 0.10
27 16 0.31
ACGTcount: A:0.69, C:0.04, G:0.04, T:0.23
Consensus pattern (24 bp):
AAATATATAACTAAATAGAAATAA
Found at i:152276897 original size:12 final size:13
Alignment explanation
Indices: 152276876--152276930 Score: 87
Period size: 13 Copynumber: 4.4 Consensus size: 13
152276866 CTAAATAGAA
152276876 ATAAAAAT-ATAT
1 ATAAAAATAATAT
152276888 ATAAAAAT-ATAT
1 ATAAAAATAATAT
*
152276900 ATAATAATAATAT
1 ATAAAAATAATAT
152276913 ATAAAAATAATAT
1 ATAAAAATAATAT
152276926 ATAAA
1 ATAAA
152276931 TTATAAATAG
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
12 19 0.47
13 21 0.52
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
ATAAAAATAATAT
Found at i:152276911 original size:15 final size:15
Alignment explanation
Indices: 152276882--152276978 Score: 78
Period size: 15 Copynumber: 6.7 Consensus size: 15
152276872 AGAAATAAAA
*
152276882 ATATAT-ATAAAAAT
1 ATATATAATAATAAT
152276896 ATATATAATAATAAT
1 ATATATAATAATAAT
152276911 ATATA-AA-AATAAT
1 ATATATAATAATAAT
*
152276924 ATATA-AATTATAA-
1 ATATATAATAATAAT
*
152276937 ATAGATAATATAATAAT
1 ATATAT-A-ATAATAAT
* * *
152276954 AGATAGAATAATAAA
1 ATATATAATAATAAT
*
152276969 ATAAATAATA
1 ATATATAATA
152276979 TAGAAATATA
Statistics
Matches: 66, Mismatches: 11, Indels: 11
0.75 0.12 0.12
Matches are distributed among these distances:
13 17 0.26
14 12 0.18
15 27 0.41
16 7 0.11
17 3 0.05
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (15 bp):
ATATATAATAATAAT
Found at i:152276921 original size:43 final size:42
Alignment explanation
Indices: 152276825--152276988 Score: 118
Period size: 43 Copynumber: 3.7 Consensus size: 42
152276815 AACTAAATAG
* * * * *
152276825 AAATAAAAATAAATAATAA-CTAAATAGAAATAAAATAATAACT
1 AAATAAAAATAAA-AATAATATAAAAATATATATAATAATAA-T
*
152276868 AAATAGAAATAAAAATATATATAAAAATATATATAATAATAAT
1 AAATAAAAATAAAAATA-ATATAAAAATATATATAATAATAAT
* *
152276911 ATATAAAAATAATATATAAATTATAAATAGATA-ATATAATAATAGAT
1 AAATAAAAATAA-AAAT-AA-TATAAA-A-ATATATATAATAATA-AT
* *
152276958 AGAATAATAAA-ATAAATAATATAGAAATATA
1 A-AATAA-AAATAAAAATAATATAAAAATATA
152276989 GATTTATAAA
Statistics
Matches: 97, Mismatches: 13, Indels: 21
0.74 0.10 0.16
Matches are distributed among these distances:
42 4 0.04
43 27 0.28
44 23 0.24
45 12 0.12
46 14 0.14
47 9 0.09
48 5 0.05
49 3 0.03
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (42 bp):
AAATAAAAATAAAAATAATATAAAAATATATATAATAATAAT
Found at i:152276921 original size:49 final size:50
Alignment explanation
Indices: 152276784--152276980 Score: 139
Period size: 49 Copynumber: 4.0 Consensus size: 50
152276774 TAAATTCTAA
* *
152276784 ATATACTAAATATAAATAATAACTAA-ATAATAACTAAATAGAAATAAAAATA-
1 ATATAATAAATATATATAATAA-TAATAT-ATAAC-AAATA-AAATAAAAATAT
* * *
152276836 A-ATAATAACTAAATAGAAATAA-AATA-ATAACTAAATAGAAATAAAAATAT
1 ATATAATAAATATATA-TAATAATAATATATAAC-AAATA-AAATAAAAATAT
* *
152276886 ATATAA-AAATATATATAATAATAATATATAA-AAATAATATATAAAT-T
1 ATATAATAAATATATATAATAATAATATATAACAAATAAAATAAAAATAT
* * * *
152276933 ATA-AATAGATA-ATATAATAAT-AGATAGAA-TAATAAAATAAATAATAT
1 ATATAATAAATATATATAATAATAATATATAACAAATAAAATAAA-AATAT
152276980 A
1 A
152276981 GAAATATAGA
Statistics
Matches: 120, Mismatches: 16, Indels: 23
0.75 0.10 0.14
Matches are distributed among these distances:
45 15 0.12
46 15 0.12
47 10 0.08
48 8 0.07
49 33 0.28
50 14 0.12
51 19 0.16
52 6 0.05
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (50 bp):
ATATAATAAATATATATAATAATAATATATAACAAATAAAATAAAAATAT
Found at i:152276949 original size:20 final size:20
Alignment explanation
Indices: 152276924--152277027 Score: 62
Period size: 20 Copynumber: 5.4 Consensus size: 20
152276914 TAAAAATAAT
152276924 ATATAAATTATAAATAGATA
1 ATATAAATTATAAATAGATA
* *
152276944 ATAT-AATAATAGATAGAATA
1 ATATAAATTATAAATAG-ATA
*
152276964 ATA-AAATAAATAATATAGA-A
1 ATATAAAT-TATAA-ATAGATA
* *
152276984 ATATAGATTTATAAATCGA-A
1 ATATA-AATTATAAATAGATA
*
152277004 ATAT--ATTA-ATATA-ATA
1 ATATAAATTATAAATAGATA
152277020 ATATAAAT
1 ATATAAAT
152277028 ATTATTAATT
Statistics
Matches: 66, Mismatches: 9, Indels: 20
0.69 0.09 0.21
Matches are distributed among these distances:
15 1 0.02
16 8 0.12
17 3 0.05
18 2 0.03
19 10 0.15
20 26 0.39
21 10 0.15
22 6 0.09
ACGTcount: A:0.60, C:0.01, G:0.06, T:0.34
Consensus pattern (20 bp):
ATATAAATTATAAATAGATA
Found at i:152276985 original size:15 final size:14
Alignment explanation
Indices: 152276826--152276986 Score: 55
Period size: 13 Copynumber: 11.8 Consensus size: 14
152276816 ACTAAATAGA
152276826 AATA-AAAATAAAT
1 AATATAAAATAAAT
*
152276839 AATAACTAAATAGAAAT
1 AAT-A-TAAA-ATAAAT
* *
152276856 AA-A-ATAATAACT
1 AATATAAAATAAAT
152276868 AA-ATAGAAATAAA-
1 AATATA-AAATAAAT
152276881 AATATATATAA-AAAT
1 AATATA-A-AATAAAT
*
152276896 -ATATATAAT-AAT
1 AATATAAAATAAAT
*
152276908 AATATATAA-AAAT
1 AATATAAAATAAAT
152276921 AATAT---ATAAAT
1 AATATAAAATAAAT
*
152276932 --TAT-AAATAGAT
1 AATATAAAATAAAT
*
152276943 AATATAATAATAGATAG
1 AATATAA-AATA-A-AT
152276960 AATAATAAAATAAAT
1 AAT-ATAAAATAAAT
152276975 AATATAGAAATA
1 AATATA-AAATA
152276987 TAGATTTATA
Statistics
Matches: 113, Mismatches: 12, Indels: 44
0.67 0.07 0.26
Matches are distributed among these distances:
9 3 0.03
10 1 0.01
11 9 0.08
12 12 0.11
13 27 0.24
14 22 0.19
15 16 0.14
16 4 0.04
17 15 0.13
18 4 0.04
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (14 bp):
AATATAAAATAAAT
Found at i:152277033 original size:23 final size:23
Alignment explanation
Indices: 152277002--152277085 Score: 64
Period size: 26 Copynumber: 3.6 Consensus size: 23
152276992 TTATAAATCG
152277002 AAATA-TATTAATATAATAATAT
1 AAATATTATTAATATAATAATAT
* *
152277024 AAATATTATTAATTACTTAATATTCT
1 AAATATTATTAA-TA--TAATAATAT
* * *
152277050 TAATATTAATAACA-AATAATAT
1 AAATATTATTAATATAATAATAT
*
152277072 AAATTAATATTAAT
1 AAA-TATTATTAAT
152277086 TGCTAATAAC
Statistics
Matches: 46, Mismatches: 11, Indels: 9
0.70 0.17 0.14
Matches are distributed among these distances:
22 13 0.28
23 13 0.28
24 2 0.04
25 1 0.02
26 17 0.37
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.43
Consensus pattern (23 bp):
AAATATTATTAATATAATAATAT
Found at i:152277093 original size:26 final size:26
Alignment explanation
Indices: 152277006--152277094 Score: 82
Period size: 23 Copynumber: 3.7 Consensus size: 26
152276996 AAATCGAAAT
152277006 ATATTAA-TA-TAATAATATAAA-TA
1 ATATTAATTACTAATAATATAAATTA
* **
152277029 TTATTAATTACT--TAATAT-TCTTA
1 ATATTAATTACTAATAATATAAATTA
* *
152277052 ATATTAATAACAAATAATATAAATTA
1 ATATTAATTACTAATAATATAAATTA
*
152277078 ATATTAATTGCTAATAA
1 ATATTAATTACTAATAA
152277095 CTTGTAATTT
Statistics
Matches: 49, Mismatches: 11, Indels: 9
0.71 0.16 0.13
Matches are distributed among these distances:
23 23 0.47
24 2 0.04
25 7 0.14
26 17 0.35
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (26 bp):
ATATTAATTACTAATAATATAAATTA
Found at i:152282752 original size:15 final size:15
Alignment explanation
Indices: 152282734--152282764 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
152282724 ATCTCTCATC
152282734 TATCTATCTATTTTT
1 TATCTATCTATTTTT
152282749 TATCTATCTATTTTT
1 TATCTATCTATTTTT
152282764 T
1 T
152282765 CTTTAGTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.13, G:0.00, T:0.68
Consensus pattern (15 bp):
TATCTATCTATTTTT
Found at i:152283464 original size:16 final size:17
Alignment explanation
Indices: 152283437--152283470 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
152283427 AAATGGATTT
152283437 AATAGAAATTAAATAGA
1 AATAGAAATTAAATAGA
152283454 AATAG-AATTAAATAGA
1 AATAGAAATTAAATAGA
152283470 A
1 A
152283471 TTCTCTAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.65, C:0.00, G:0.12, T:0.24
Consensus pattern (17 bp):
AATAGAAATTAAATAGA
Found at i:152284400 original size:15 final size:15
Alignment explanation
Indices: 152284371--152284432 Score: 54
Period size: 16 Copynumber: 4.0 Consensus size: 15
152284361 GTAGAAAGCC
* *
152284371 TATTTTTTTTTCTAG
1 TATTTTATTTACTAG
152284386 TATTTTATTTACTAG
1 TATTTTATTTACTAG
**
152284401 CGTGTTTATTTACTAGCG
1 TAT-TTTATTTACTA--G
152284419 TA-TTTATTTACTAG
1 TATTTTATTTACTAG
152284433 CGTATTTGCT
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
14 1 0.03
15 14 0.37
16 22 0.58
18 1 0.03
ACGTcount: A:0.21, C:0.10, G:0.11, T:0.58
Consensus pattern (15 bp):
TATTTTATTTACTAG
Found at i:152284410 original size:16 final size:16
Alignment explanation
Indices: 152284389--152284439 Score: 93
Period size: 16 Copynumber: 3.2 Consensus size: 16
152284379 TTTCTAGTAT
*
152284389 TTTATTTACTAGCGTG
1 TTTATTTACTAGCGTA
152284405 TTTATTTACTAGCGTA
1 TTTATTTACTAGCGTA
152284421 TTTATTTACTAGCGTA
1 TTTATTTACTAGCGTA
152284437 TTT
1 TTT
152284440 GCTCTTTCTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.22, C:0.12, G:0.14, T:0.53
Consensus pattern (16 bp):
TTTATTTACTAGCGTA
Found at i:152285790 original size:13 final size:14
Alignment explanation
Indices: 152285757--152285790 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
152285747 GCCCGGAGGC
*
152285757 TAAAGAAAAAGTGA
1 TAAAAAAAAAGTGA
152285771 TAAAAAAAAAGTGA
1 TAAAAAAAAAGTGA
152285785 TGAAAA
1 T-AAAA
152285791 GTTTTCTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.68, C:0.00, G:0.18, T:0.15
Consensus pattern (14 bp):
TAAAAAAAAAGTGA
Found at i:152287075 original size:9 final size:9
Alignment explanation
Indices: 152287061--152287149 Score: 57
Period size: 9 Copynumber: 10.3 Consensus size: 9
152287051 AGAAATAAAT
152287061 ATATATATA
1 ATATATATA
152287070 ATATATA-A
1 ATATATATA
*
152287078 AAATAATATTA
1 ATAT-ATA-TA
152287089 ATATATA-A
1 ATATATATA
152287097 ATATA-A-A
1 ATATATATA
152287104 A-ATATATA
1 ATATATATA
* *
152287112 AAATATTTA
1 ATATATATA
152287121 GATATA-A-A
1 -ATATATATA
* *
152287129 ATATTTAGA
1 ATATATATA
152287138 ATATATATA
1 ATATATATA
152287147 ATA
1 ATA
152287150 AAATAGATAT
Statistics
Matches: 63, Mismatches: 8, Indels: 18
0.71 0.09 0.20
Matches are distributed among these distances:
6 3 0.05
7 8 0.13
8 14 0.22
9 27 0.43
10 7 0.11
11 4 0.06
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (9 bp):
ATATATATA
Found at i:152287090 original size:19 final size:19
Alignment explanation
Indices: 152287057--152287114 Score: 68
Period size: 19 Copynumber: 3.1 Consensus size: 19
152287047 AAATAGAAAT
152287057 AAATATATATATAATATATAA
1 AAATA-ATAT-TAATATATAA
152287078 AAATAATATTAATATATAA
1 AAATAATATTAATATATAA
*
152287097 ATATAA-A--AATATATAA
1 AAATAATATTAATATATAA
152287113 AA
1 AA
152287115 TATTTAGATA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
16 10 0.29
18 1 0.03
19 15 0.43
20 4 0.11
21 5 0.14
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
AAATAATATTAATATATAA
Found at i:152287101 original size:34 final size:35
Alignment explanation
Indices: 152287030--152287171 Score: 109
Period size: 34 Copynumber: 4.1 Consensus size: 35
152287020 TTTTGTATTG
* * * *
152287030 TATATAATGTATACAAAA-A-ATAGAAATAAATATA
1 TATATAATATATA-AAAATAGATATAAATATATAAA
*
152287064 TATATAATATATAAAAATA-ATATTAATATATAAA
1 TATATAATATATAAAAATAGATATAAATATATAAA
* *
152287098 TATAAAAATATATAAAATATTTAGATATAAAATATTTAGAA
1 TAT-ATAATATATAAAA-A--TAGATAT-AAATATATA-AA
152287139 TATAT-ATA-AT-AAAATAGATAT-AATATATAAA
1 TATATAATATATAAAAATAGATATAAATATATAAA
152287170 TA
1 TA
152287172 AATTGAATAT
Statistics
Matches: 90, Mismatches: 10, Indels: 19
0.76 0.08 0.16
Matches are distributed among these distances:
31 4 0.04
32 7 0.08
33 4 0.04
34 34 0.38
35 12 0.13
36 2 0.02
37 3 0.03
38 4 0.04
39 7 0.08
40 8 0.09
41 5 0.06
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.35
Consensus pattern (35 bp):
TATATAATATATAAAAATAGATATAAATATATAAA
Found at i:152287116 original size:25 final size:24
Alignment explanation
Indices: 152287053--152287171 Score: 109
Period size: 24 Copynumber: 4.9 Consensus size: 24
152287043 CAAAAAATAG
*
152287053 AAATAAATAT-ATATATAATATATA
1 AAATATATATAATATATAA-ATATA
152287077 AAA-ATAATATTAATATATAAATATAA
1 AAATAT-ATA-TAATATATAAATAT-A
* * *
152287103 AAATATATAAAATATTTAGATATA
1 AAATATATATAATATATAAATATA
* * *
152287127 AAATATTTAGAATATATATA-ATA
1 AAATATATATAATATATAAATATA
*
152287150 AAATAGATATAATATATAAATA
1 AAATATATATAATATATAAATA
152287172 AATTGAATAT
Statistics
Matches: 77, Mismatches: 12, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
23 20 0.26
24 24 0.31
25 16 0.21
26 15 0.19
27 2 0.03
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (24 bp):
AAATATATATAATATATAAATATA
Found at i:152287127 original size:15 final size:16
Alignment explanation
Indices: 152287107--152287142 Score: 65
Period size: 15 Copynumber: 2.3 Consensus size: 16
152287097 ATATAAAAAT
152287107 ATATAAAATATTTAG-
1 ATATAAAATATTTAGA
152287122 ATATAAAATATTTAGA
1 ATATAAAATATTTAGA
152287138 ATATA
1 ATATA
152287143 TATAATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 15 0.75
16 5 0.25
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.39
Consensus pattern (16 bp):
ATATAAAATATTTAGA
Found at i:152287181 original size:22 final size:22
Alignment explanation
Indices: 152287053--152287192 Score: 85
Period size: 23 Copynumber: 6.2 Consensus size: 22
152287043 CAAAAAATAG
*
152287053 AAATAAATATATATATAATATAT
1 AAATAAA-ATAGATATAATATAT
152287076 --A-AAAATA-ATATTAATATAT
1 AAATAAAATAGATA-TAATATAT
* * *
152287095 AAATATAAAAATATATAAAATATTT
1 -AA-AT-AAAATAGATATAATATAT
** *
152287120 AGATATAAAATATTTAGAATATAT
1 A-A-ATAAAATAGATATAATATAT
152287144 ATAATAAAATAGATATAATATAT
1 A-AATAAAATAGATATAATATAT
*
152287167 AAAT-AAATTGAATATAATAT-T
1 AAATAAAATAG-ATATAATATAT
152287188 AAATA
1 AAATA
152287193 GATAAATAAA
Statistics
Matches: 96, Mismatches: 10, Indels: 23
0.74 0.08 0.18
Matches are distributed among these distances:
18 3 0.03
19 11 0.11
20 3 0.03
21 11 0.11
22 12 0.12
23 19 0.20
24 18 0.19
25 16 0.17
26 3 0.03
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (22 bp):
AAATAAAATAGATATAATATAT
Done.