Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 142 of 311
Found at i:48054248 original size:40 final size:40
Alignment explanation
Indices: 48054115--48054353 Score: 362
Period size: 40 Copynumber: 6.0 Consensus size: 40
48054105 CGGGATTTAA
* * *
48054115 GGATATAGCT-ACTCGCTCGAATGCCTTC-GGACATA-CCC
1 GGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCC
* *
48054153 GGATATAGTAACTCACACCAATGCCTTCGGGACTTAGCCC
1 GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
48054193 -GATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
1 GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
48054232 GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
1 GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
48054272 GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
1 GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
* *
48054312 GGA-ACTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCC
1 GGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
48054352 GG
1 GG
48054354 TTATCATCCA
Statistics
Matches: 188, Mismatches: 8, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
37 1 0.01
38 23 0.12
39 44 0.23
40 120 0.64
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (40 bp):
GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
Found at i:48071674 original size:6 final size:6
Alignment explanation
Indices: 48071663--48071688 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
48071653 TAAATAAAAG
48071663 AAAATT AAAATT AAAATT AAAATT AA
1 AAAATT AAAATT AAAATT AAAATT AA
48071689 TAATAATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
AAAATT
Found at i:48074079 original size:20 final size:20
Alignment explanation
Indices: 48074033--48074079 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
48074023 CGCCCACATG
48074033 CCTGTGTAACCTACCACACA
1 CCTGTGTAACCTACCACACA
48074053 -CTAGTGTAACCTACCACACA
1 CCT-GTGTAACCTACCACACA
48074073 CCTGTGT
1 CCTGTGT
48074080 GGATCGGCTG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 2 0.08
20 21 0.84
21 2 0.08
ACGTcount: A:0.28, C:0.36, G:0.13, T:0.23
Consensus pattern (20 bp):
CCTGTGTAACCTACCACACA
Found at i:48078955 original size:37 final size:37
Alignment explanation
Indices: 48078905--48078983 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
48078895 TTATTACGAA
* * *
48078905 GTCTTACCCGGACATAA-TCTCCACAGGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
48078942 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
48078979 GTCTT
1 GTCTT
48078984 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 35 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:48079180 original size:47 final size:47
Alignment explanation
Indices: 48079102--48079478 Score: 619
Period size: 47 Copynumber: 7.9 Consensus size: 47
48079092 CCCTTCGAGA
* * * * * *
48079102 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
48079149 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
48079196 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
48079243 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
48079290 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
48079339 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
48079386 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
48079433 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTA
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTA
48079479 CGCCATACTA
Statistics
Matches: 311, Mismatches: 15, Indels: 6
0.94 0.05 0.02
Matches are distributed among these distances:
47 228 0.73
49 83 0.27
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:48079358 original size:143 final size:143
Alignment explanation
Indices: 48079102--48079478 Score: 668
Period size: 143 Copynumber: 2.7 Consensus size: 143
48079092 CCCTTCGAGA
* * * * * * *
48079102 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
48079165 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
48079230 TCGGCTATTAGGC
131 TCGGCTATTAGGC
*
48079243 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
48079308 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
48079373 TCGGCTATTAGGC
131 TCGGCTATTAGGC
48079386 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
48079451 ACTTTCACATTCATCACATCGGCCATTA
66 ACTTTCACATTCATCACATCGGCCATTA
48079479 CGCCATACTA
Statistics
Matches: 225, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
141 47 0.21
143 178 0.79
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (143 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCTATTAGGC
Found at i:48084181 original size:34 final size:34
Alignment explanation
Indices: 48084143--48084211 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
48084133 GTCCAGTATT
* *
48084143 AGTGTTGGCCTTAGCCCATTACAGTAGCAATATC
1 AGTGTGGGCCTTAGCCCATTACAGTAACAATATC
* * *
48084177 AGTGTGGGCCTTAGCTCGTTACAGTAACAGTATC
1 AGTGTGGGCCTTAGCCCATTACAGTAACAATATC
48084211 A
1 A
48084212 AAAATGCAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (34 bp):
AGTGTGGGCCTTAGCCCATTACAGTAACAATATC
Found at i:48087850 original size:6 final size:6
Alignment explanation
Indices: 48087832--48087953 Score: 99
Period size: 6 Copynumber: 19.8 Consensus size: 6
48087822 AAGAAACATT
*
48087832 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * * *
48087881 ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAAA ATCAGT ATCAGGTA
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A
*
48087932 A-CAGA ATCAAA ATCAGA ATCAG
1 ATCAGA ATCAGA ATCAGA ATCAG
48087954 TATTAGGTAA
Statistics
Matches: 95, Mismatches: 10, Indels: 22
0.75 0.08 0.17
Matches are distributed among these distances:
5 6 0.06
6 76 0.80
7 10 0.11
8 3 0.03
ACGTcount: A:0.48, C:0.16, G:0.17, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:48087853 original size:18 final size:18
Alignment explanation
Indices: 48087832--48087953 Score: 99
Period size: 19 Copynumber: 6.6 Consensus size: 18
48087822 AAGAAACATT
48087832 ATCAGAA-CTAGAATCAGA
1 ATCAGAATC-AGAATCAGA
48087850 ATCAGAATCAGAATCAG-
1 ATCAGAATCAGAATCAGA
*
48087867 GTGACAGAATCAGAATCAGA
1 AT--CAGAATCAGAATCAGA
*
48087887 ATCAGTATCAGGTAA-CAGA
1 ATCAGAATCA-G-AATCAGA
* * *
48087906 ATCAAAATCAAAATCAGT
1 ATCAGAATCAGAATCAGA
*
48087924 ATCAGGTAA-CAGAATCAAA
1 ATCA-G-AATCAGAATCAGA
48087943 ATCAGAATCAG
1 ATCAGAATCAG
48087954 TATTAGGTAA
Statistics
Matches: 83, Mismatches: 11, Indels: 20
0.73 0.10 0.18
Matches are distributed among these distances:
17 5 0.06
18 33 0.40
19 40 0.48
20 5 0.06
ACGTcount: A:0.48, C:0.16, G:0.17, T:0.18
Consensus pattern (18 bp):
ATCAGAATCAGAATCAGA
Found at i:48087879 original size:31 final size:31
Alignment explanation
Indices: 48087841--48087982 Score: 212
Period size: 31 Copynumber: 4.5 Consensus size: 31
48087831 TATCAGAACT
* * *
48087841 AGAATCAGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
*
48087872 AGAATCAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
*
48087903 AGAATCAAAATCAAAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
*
48087934 AGAATCAAAATCAGAATCAGTATTAGGTAAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
*
48087965 AGAATAAAAAATCAGAAT
1 AGAAT-CAAAATCAGAAT
48087983 ATGAATGCAA
Statistics
Matches: 103, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
31 92 0.89
32 11 0.11
ACGTcount: A:0.50, C:0.14, G:0.17, T:0.19
Consensus pattern (31 bp):
AGAATCAAAATCAGAATCAGTATCAGGTAAC
Found at i:48087915 original size:62 final size:62
Alignment explanation
Indices: 48087816--48087982 Score: 212
Period size: 62 Copynumber: 2.7 Consensus size: 62
48087806 TAACCCATTA
* * * * *
48087816 CAGAATAAGAAACATTATCA-G-AACTAGAATCAGAATCAGAATCAGAATCAGGTGACAGAAT
1 CAGAATCAGAATCAGTATCAGGTAAC-AGAATCAAAATCAGAATCAGAATCAGGTAACAGAAT
* *
48087877 CAGAATCAGAATCAGTATCAGGTAACAGAATCAAAATCAAAATCAGTATCAGGTAACAGAAT
1 CAGAATCAGAATCAGTATCAGGTAACAGAATCAAAATCAGAATCAGAATCAGGTAACAGAAT
* * *
48087939 CAAAATCAGAATCAGTATTAGGTAACAGAATAAAAAATCAGAAT
1 CAGAATCAGAATCAGTATCAGGTAACAGAAT-CAAAATCAGAAT
48087983 ATGAATGCAA
Statistics
Matches: 92, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
61 17 0.18
62 62 0.67
63 13 0.14
ACGTcount: A:0.50, C:0.14, G:0.16, T:0.19
Consensus pattern (62 bp):
CAGAATCAGAATCAGTATCAGGTAACAGAATCAAAATCAGAATCAGAATCAGGTAACAGAAT
Found at i:48088181 original size:26 final size:27
Alignment explanation
Indices: 48088118--48088192 Score: 98
Period size: 27 Copynumber: 2.8 Consensus size: 27
48088108 GCTCAGTTAT
* * *
48088118 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACTAGATA
48088145 CAGATATTGTGGCAGAGCCACTAGA-A
1 CAGATATTGTGGCAGAGCCACTAGATA
* *
48088171 CAGATAATGTGGCAAAGCCACT
1 CAGATATTGTGGCAGAGCCACT
48088193 TAACAGAATA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
26 21 0.49
27 22 0.51
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.20
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACTAGATA
Found at i:48088207 original size:25 final size:26
Alignment explanation
Indices: 48088144--48088209 Score: 64
Period size: 26 Copynumber: 2.6 Consensus size: 26
48088134 GTCACCAGAT
** *
48088144 ACAGATATTGTGGCAGAGCCACTAGA
1 ACAGATAACGTGGCAAAGCCACTAGA
* *
48088170 ACAGATAATGTGGCAAAGCCACT-TA
1 ACAGATAACGTGGCAAAGCCACTAGA
48088195 ACAGA-ATACGTGGCA
1 ACAGATA-ACGTGGCA
48088210 CAAAGCCATC
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
24 1 0.03
25 13 0.37
26 21 0.60
ACGTcount: A:0.38, C:0.20, G:0.24, T:0.18
Consensus pattern (26 bp):
ACAGATAACGTGGCAAAGCCACTAGA
Found at i:48088899 original size:27 final size:26
Alignment explanation
Indices: 48088868--48089065 Score: 198
Period size: 27 Copynumber: 7.3 Consensus size: 26
48088858 AGGTATCTCG
* *
48088868 GTAATTCCACCCTACAGGGGTGTTTTA
1 GTAATTCTACCCTACAGGGGT-TTTTC
* *
48088895 GTAATTCTACCCTACATGGGTATTTC
1 GTAATTCTACCCTACAGGGGTTTTTC
* * * *
48088921 GATAATTCTACCCTATAGCGGTATTGC
1 G-TAATTCTACCCTACAGGGGTTTTTC
* *
48088948 GATAATTGTACCCTACAGGGGTATTTC
1 G-TAATTCTACCCTACAGGGGTTTTTC
*
48088975 GGTAATTCTACCCTACAGGGGTATTTC
1 -GTAATTCTACCCTACAGGGGTTTTTC
* *
48089002 GGTAATTCTACCCTATAGGGGTATTTC
1 -GTAATTCTACCCTACAGGGGTTTTTC
* *
48089029 GATAATTCTACCCTACAAGGGTATTTTA
1 G-TAATTCTACCCTACAGGGGT-TTTTC
48089057 GTAATTCTA
1 GTAATTCTA
48089066 AGCGATAATT
Statistics
Matches: 149, Mismatches: 18, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
26 5 0.03
27 139 0.93
28 5 0.03
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.35
Consensus pattern (26 bp):
GTAATTCTACCCTACAGGGGTTTTTC
Found at i:48088934 original size:54 final size:54
Alignment explanation
Indices: 48088842--48089065 Score: 263
Period size: 54 Copynumber: 4.2 Consensus size: 54
48088832 GGGCAAAATG
* * * * * * *
48088842 GTAATTTTACACTACA-AGGTATCTCGGTAATTCCACCCTACAGGGGTGTTTTA
1 GTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTTA
* * * **
48088895 GTAATTCTACCCTACATGGGTATTTCGATAATTCTACCCTATAGCGGTA-TTGC
1 GTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTTA
* * **
48088948 GATAATTGTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCG
1 G-TAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTTA
* *
48089003 GTAATTCTACCCTATAGGGGTATTTCGATAATTCTACCCTACAAGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTTA
48089057 GTAATTCTA
1 GTAATTCTA
48089066 AGCGATAATT
Statistics
Matches: 144, Mismatches: 24, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
53 17 0.12
54 124 0.86
55 3 0.02
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (54 bp):
GTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTTA
Found at i:48088997 original size:81 final size:81
Alignment explanation
Indices: 48088869--48089065 Score: 304
Period size: 81 Copynumber: 2.4 Consensus size: 81
48088859 GGTATCTCGG
* * *
48088869 TAATTCCACCCTACAGGGGTGTTTTAGTAATTCTACCCTACATGGGTATTTCGATAATTCTACCC
1 TAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCC
48088934 TATAGCGGTATTGCGA
66 TATAGCGGTATTGCGA
* ** *
48088950 TAATTGTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCC
1 TAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCC
* *
48089015 TATAGGGGTATTTCGA
66 TATAGCGGTATTGCGA
*
48089031 TAATTCTACCCTACAAGGGTATTTTAGTAATTCTA
1 TAATTCTACCCTACAGGGGTATTTTAGTAATTCTA
48089066 AGCGATAATT
Statistics
Matches: 103, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 103 1.00
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (81 bp):
TAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCC
TATAGCGGTATTGCGA
Found at i:48089083 original size:40 final size:40
Alignment explanation
Indices: 48089028--48089105 Score: 147
Period size: 40 Copynumber: 1.9 Consensus size: 40
48089018 AGGGGTATTT
*
48089028 CGATAATTCTACCCTACAAGGGTATTTTAGTAATTCTAAG
1 CGATAATTCTACCCTACAAGGGTATTTCAGTAATTCTAAG
48089068 CGATAATTCTACCCTACAAGGGTATTTCAGTAATTCTA
1 CGATAATTCTACCCTACAAGGGTATTTCAGTAATTCTA
48089106 CCCCACAGAG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (40 bp):
CGATAATTCTACCCTACAAGGGTATTTCAGTAATTCTAAG
Found at i:48089118 original size:27 final size:27
Alignment explanation
Indices: 48089071--48089129 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
48089061 TTCTAAGCGA
*
48089071 TAATTCTACCCTACAAGGGTATTTCAG
1 TAATTCTACCCCACAAGGGTATTTCAG
*
48089098 TAATTCTACCCCAC-AGAGGTATTTCGG
1 TAATTCTACCCCACAAG-GGTATTTCAG
48089125 TAATT
1 TAATT
48089130 TTGTAAATCA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 2 0.07
27 27 0.93
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (27 bp):
TAATTCTACCCCACAAGGGTATTTCAG
Found at i:48089128 original size:67 final size:67
Alignment explanation
Indices: 48089004--48089129 Score: 175
Period size: 67 Copynumber: 1.9 Consensus size: 67
48088994 GGTATTTCGG
* * * *
48089004 TAATTCTACCCTATAGGGGTATTTCGATAATTCTACCCTACAAGGGTATTTTAGTAATTCTAAGC
1 TAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCCACAAGGGTATTTCAGTAATTCTAAGC
48089069 GA
66 GA
*
48089071 TAATTCTACCCTACAAGGGTATTTC-AGTAATTCTACCCCAC-AGAGGTATTTCGGTAATT
1 TAATTCTACCCTACAAGGGTATTTCGA-TAATTCTACCCCACAAG-GGTATTTCAGTAATT
48089130 TTGTAAATCA
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
66 3 0.06
67 49 0.94
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.35
Consensus pattern (67 bp):
TAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCCACAAGGGTATTTCAGTAATTCTAAGC
GA
Found at i:48089145 original size:27 final size:27
Alignment explanation
Indices: 48089115--48089426 Score: 277
Period size: 27 Copynumber: 11.6 Consensus size: 27
48089105 ACCCCACAGA
* **
48089115 GGTATTTCGGTAATTTTGTAAATCAAG
1 GGTATTTTGGTAATTTTACAAATCAAG
*** * * *
48089142 GGTAAAATGGTAATTCTATAAAGCAAG
1 GGTATTTTGGTAATTTTACAAATCAAG
* * *
48089169 GGTACTTTGGTAATTTTACAAGTCGAG
1 GGTATTTTGGTAATTTTACAAATCAAG
*** ** *
48089196 GGTATTTCCATAATTTTACAGGTCGAG
1 GGTATTTTGGTAATTTTACAAATCAAG
** * * *
48089223 GGTATTTCAGTAATTTCAAAAATCAGG
1 GGTATTTTGGTAATTTTACAAATCAAG
*
48089250 GGTATTTTGGTAATTTTACAAA-CTAGG
1 GGTATTTTGGTAATTTTACAAATC-AAG
* *
48089277 GGTATTTTGGTAATTTTACAAACCAGG
1 GGTATTTTGGTAATTTTACAAATCAAG
* *
48089304 GGTATTTTGGTAATTTTATAAATAAAG
1 GGTATTTTGGTAATTTTACAAATCAAG
* * *
48089331 GGTATTTTAGTAATTTTACAAACCAGG
1 GGTATTTTGGTAATTTTACAAATCAAG
** *
48089358 GGTATTTT-GTAATTTTGTAAACCAAG
1 GGTATTTTGGTAATTTTACAAATCAAG
*
48089384 GGTATTTTGGTAATTTTACAAACCAAG
1 GGTATTTTGGTAATTTTACAAATCAAG
*
48089411 GGTATTTTGGTGATTT
1 GGTATTTTGGTAATTT
48089427 GGTAAACTAA
Statistics
Matches: 235, Mismatches: 47, Indels: 6
0.82 0.16 0.02
Matches are distributed among these distances:
26 24 0.10
27 210 0.89
28 1 0.00
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.38
Consensus pattern (27 bp):
GGTATTTTGGTAATTTTACAAATCAAG
Found at i:48089155 original size:94 final size:94
Alignment explanation
Indices: 48088977--48089159 Score: 217
Period size: 94 Copynumber: 1.9 Consensus size: 94
48088967 GGTATTTCGG
* * * * * **
48088977 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCGATAATTCTACCC
1 TAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCCACAGAGGTATTTCGATAATTCTACAA
***
48089042 TACAAGGGTATTTTAGTAATTCTAAGCGA
66 TACAAGGGTAAAATAGTAATTCTAAGCGA
* *
48089071 TAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCCACAGAGGTATTTCGGTAATTTTGTA-
1 TAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCCACAGAGGTATTTCGATAA--TTCTAC
*
48089135 AAT-CAAGGGTAAAATGGTAATTCTA
64 AATACAAGGGTAAAATAGTAATTCTA
48089160 TAAAGCAAGG
Statistics
Matches: 74, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
94 69 0.93
95 1 0.01
96 4 0.05
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.34
Consensus pattern (94 bp):
TAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCCACAGAGGTATTTCGATAATTCTACAA
TACAAGGGTAAAATAGTAATTCTAAGCGA
Found at i:48092440 original size:40 final size:40
Alignment explanation
Indices: 48092395--48092576 Score: 213
Period size: 40 Copynumber: 4.5 Consensus size: 40
48092385 GCGCAAGGCA
* * *
48092395 TTCGGGTCTTAGCCCGGATGTGGTCACTAGCATAAATGCC
1 TTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGCC
* * * *
48092435 TTCGGGACTTACCCCGGATATAATCGCTAGCACAAATGCC
1 TTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGCC
* *
48092475 TTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAATGCC
1 TTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAATGCC
* * * *
48092515 TTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAAGCC
1 TTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAATGCC
*
48092556 TTCGGGACTTAGCCCGGATAT
1 TTCGGGTCTTAGCCCGGATAT
48092577 CATTCGAATA
Statistics
Matches: 116, Mismatches: 23, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
39 1 0.01
40 86 0.74
41 29 0.25
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
TTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGCC
Found at i:48105997 original size:43 final size:43
Alignment explanation
Indices: 48105901--48106024 Score: 119
Period size: 43 Copynumber: 2.9 Consensus size: 43
48105891 TGGGATGTTG
* * * *
48105901 GCATCGAT-TTGTGATTTATGTGTAAGACCATGTCTAGGATATTG
1 GCATCGATATT-TGATTT-CGTGTAAGACCATGTCTAGGACAGTA
*
48105945 GCATC-ATATTTGATTTCGTGTAAGACCCTGTCT-GGAACAGTA
1 GCATCGATATTTGATTTCGTGTAAGACCATGTCTAGG-ACAGTA
* * **
48105987 GCATCGATATTTGATTACATGTAAGACCACATCTAGGA
1 GCATCGATATTTGATTTCGTGTAAGACCATGTCTAGGA
48106025 TATTGGCATT
Statistics
Matches: 66, Mismatches: 10, Indels: 9
0.78 0.12 0.11
Matches are distributed among these distances:
41 2 0.03
42 23 0.35
43 32 0.48
44 9 0.14
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (43 bp):
GCATCGATATTTGATTTCGTGTAAGACCATGTCTAGGACAGTA
Found at i:48110208 original size:40 final size:41
Alignment explanation
Indices: 48110145--48110365 Score: 253
Period size: 40 Copynumber: 5.6 Consensus size: 41
48110135 TATTCGAATG
* *
48110145 ATATCCGGGCTAAG-TCCCAAAGGCTTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
* *
48110185 ATATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAG-TGACT
* *
48110225 ATATCTGGGCTAAGA-CCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
**
48110265 ATATCCGGGCTAAG-TCCCGAAGGCATTTACGCTAGTGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
* * * *
48110305 ATATCCAGGCTAAGA-CCCGAAGGAATTTGTGCGAGTTG-TT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAG-TGACT
48110345 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGATCCCGAAG
48110366 ATACTTGGGT
Statistics
Matches: 155, Mismatches: 18, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
38 1 0.01
39 14 0.09
40 135 0.87
41 5 0.03
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (41 bp):
ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
Found at i:48118456 original size:40 final size:41
Alignment explanation
Indices: 48118393--48118613 Score: 262
Period size: 40 Copynumber: 5.6 Consensus size: 41
48118383 TATTCGAATG
* *
48118393 ATATCCGGGCTAAG-TCCCAAAGGCTTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
* *
48118433 ATATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAG-TGACT
* *
48118473 ATATCTGGGCTAAGA-CCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
* *
48118513 ATATCCAGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
* * *
48118553 ATATCCGGGCTAAGA-CCCAAAGGCATTTGTGCGAGTTG-TT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAG-TGACT
48118593 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGATCCCGAAG
48118614 ATACTTGGGT
Statistics
Matches: 155, Mismatches: 18, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
38 1 0.01
39 13 0.08
40 136 0.88
41 5 0.03
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.27
Consensus pattern (41 bp):
ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
Found at i:48131009 original size:8 final size:8
Alignment explanation
Indices: 48130992--48131028 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
48130982 TACCAAAATG
*
48130992 GGCCCGTT
1 GGCCCATT
48131000 GGCCCATT
1 GGCCCATT
*
48131008 GGCCCGTT
1 GGCCCATT
48131016 GGCCCATT
1 GGCCCATT
48131024 GGCCC
1 GGCCC
48131029 GTTTTCGGCC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.05, C:0.41, G:0.32, T:0.22
Consensus pattern (8 bp):
GGCCCATT
Found at i:48131013 original size:16 final size:16
Alignment explanation
Indices: 48130992--48131031 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
48130982 TACCAAAATG
48130992 GGCCCGTTGGCCCATT
1 GGCCCGTTGGCCCATT
48131008 GGCCCGTTGGCCCATT
1 GGCCCGTTGGCCCATT
48131024 GGCCCGTT
1 GGCCCGTT
48131032 TTCGGCCTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.05, C:0.38, G:0.33, T:0.25
Consensus pattern (16 bp):
GGCCCGTTGGCCCATT
Found at i:48140527 original size:22 final size:20
Alignment explanation
Indices: 48140502--48140541 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
48140492 ATGTAAATAA
*
48140502 GATTAATTAAATATGTAATCAT
1 GATTAACTAAA-AT-TAATCAT
48140524 GATTAACTAAAATTAATC
1 GATTAACTAAAATTAATC
48140542 GCATCTTAAT
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:0.47, C:0.07, G:0.07, T:0.38
Consensus pattern (20 bp):
GATTAACTAAAATTAATCAT
Found at i:48143219 original size:6 final size:6
Alignment explanation
Indices: 48143201--48143231 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
48143191 CTAAATCCCC
48143201 AAATTA AAA-TA AAATTA AAATTA AAATTA AA
1 AAATTA AAATTA AAATTA AAATTA AAATTA AA
48143232 GAGGCCTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.21
6 19 0.79
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (6 bp):
AAATTA
Found at i:48150328 original size:39 final size:38
Alignment explanation
Indices: 48150250--48150381 Score: 147
Period size: 40 Copynumber: 3.3 Consensus size: 38
48150240 GGACTAAGAT
*
48150250 CCGAAGGTATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTA--AATTCCGGGTTAAGTC
* *
48150290 CCGAAGGCCTTTGTGCGAGATACAATTCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTA-AATTCCGGGTTAAGTC
* * *
48150329 CCGAGAGAGCATTCGTGCGAGTTTTAAAATCTGGGTTAAGTC
1 CCGA-AG-GCATTTGTGCGAG--TTAAATTCCGGGTTAAGTC
48150371 CCGAAGGCATT
1 CCGAAGGCATT
48150382 GAATGAGTTA
Statistics
Matches: 79, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
39 20 0.25
40 26 0.33
41 13 0.16
42 18 0.23
43 2 0.03
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (38 bp):
CCGAAGGCATTTGTGCGAGTTAAATTCCGGGTTAAGTC
Found at i:48152401 original size:40 final size:39
Alignment explanation
Indices: 48152316--48152497 Score: 167
Period size: 40 Copynumber: 4.6 Consensus size: 39
48152306 TAACTCATTC
* ** *
48152316 AATGCCTTC-GGACTTAACCC-GATTTTAAAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAGTACTCGCACA
48152354 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAGTA-CTCGCACA
* *
48152394 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAGT-ACTCGCACA
* ** *
48152434 AATACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAGT-AC-TCGCACA
*
48152475 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
48152498 CAGCATTCAA
Statistics
Matches: 120, Mismatches: 15, Indels: 15
0.80 0.10 0.10
Matches are distributed among these distances:
38 9 0.08
39 20 0.17
40 79 0.66
41 12 0.10
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGAATTAGTACTCGCACA
Found at i:48152444 original size:80 final size:80
Alignment explanation
Indices: 48152319--48152497 Score: 201
Period size: 80 Copynumber: 2.3 Consensus size: 80
48152309 CTCATTCAAT
* * *
48152319 GCCTTC-GGACTTAACCC-GATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCGGA-AT
1 GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTC-GGATCTTAACCCGGATA-
*
48152380 TAGT-A-TCTCGCACAAA
64 TAGTCACT-TAGCACAAA
**
48152396 GGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATACCTTCGGATCTTAGTCCGGATA
1 -GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATACCTTCGGATCTTAACCCGGATA
48152460 TAGTCACTTAGCACAAA
64 TAGTCACTTAGCACAAA
*
48152477 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
48152498 CAGCATTCAA
Statistics
Matches: 87, Mismatches: 7, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
78 6 0.07
79 18 0.21
80 52 0.60
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGATCTTAACCCGGATATA
GTCACTTAGCACAAA
Found at i:48160152 original size:39 final size:40
Alignment explanation
Indices: 48160075--48160181 Score: 119
Period size: 40 Copynumber: 2.7 Consensus size: 40
48160065 TAGCTCCTCG
* * *
48160075 TTCAAGTGCCTTCGGGACATAGCCCGG-TTATATTAACTCA
1 TTCAA-TGCCTTCGGGACTTAACCCGGATTATATAAACTCA
* *
48160115 TTCAATGCCTTCGGGACTTAACCCGGATTTTA-AAACTCG
1 TTCAATGCCTTCGGGACTTAACCCGGATTATATAAACTCA
**
48160154 CACGAATGCCTTCGGGACTTAACCCGGA
1 TTC-AATGCCTTCGGGACTTAACCCGGA
48160182 ATTAGTATCT
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
39 25 0.43
40 33 0.57
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (40 bp):
TTCAATGCCTTCGGGACTTAACCCGGATTATATAAACTCA
Found at i:48160180 original size:79 final size:80
Alignment explanation
Indices: 48160081--48160301 Score: 193
Period size: 80 Copynumber: 2.8 Consensus size: 80
48160071 CTCGTTCAAG
* * * ** * *
48160081 TGCCTTCGGGACATAGCCCGG-TTATATTAACTCATTC-AATGCCTTCGGGACTTAACCCGGATT
1 TGCCTTCGGGACATAACCCGGAAT-TAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGA-A
*
48160144 TTAA-AACTCGCACGAA
64 TTAATAACTCGCACAAA
* * *
48160160 TGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAGGCCTTCGGGACTTAACCCGGAATT
1 TGCCTTCGGGACATAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATT
48160225 AATAACTCGCACAAA
66 AATAACTCGCACAAA
* * ** * * *
48160240 TACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGA-CATAACCCGGAAT-TAGTAACTCA-CACAAAGGCCTTCGGGACTTAACCCGGA
48160302 CAGCATTCAA
Statistics
Matches: 117, Mismatches: 19, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
79 36 0.31
80 75 0.64
81 6 0.05
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (80 bp):
TGCCTTCGGGACATAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATT
AATAACTCGCACAAA
Found at i:48160232 original size:80 final size:80
Alignment explanation
Indices: 48160121--48160301 Score: 219
Period size: 80 Copynumber: 2.3 Consensus size: 80
48160111 CTCATTCAAT
* * *
48160121 GCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCGGA-AT
1 GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTC-GGATCTTAACCCGGATA-
*
48160184 TAGT-A-TCTCGCACAAA
64 TAGTCACT-TAGCACAAA
**
48160200 GGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATACCTTCGGATCTTAGTCCGGATA
1 -GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATACCTTCGGATCTTAACCCGGATA
48160264 TAGTCACTTAGCACAAA
64 TAGTCACTTAGCACAAA
*
48160281 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
48160302 CAGCATTCAA
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 7 0.08
80 71 0.80
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGATCTTAACCCGGATATA
GTCACTTAGCACAAA
Found at i:48160261 original size:40 final size:40
Alignment explanation
Indices: 48160118--48160301 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
48160108 TAACTCATTC
* *
48160118 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
48160158 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
48160198 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
* ** * * *
48160238 AATACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
48160279 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
48160302 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
39 8 0.07
40 103 0.84
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:48169319 original size:27 final size:26
Alignment explanation
Indices: 48169284--48169395 Score: 127
Period size: 27 Copynumber: 4.2 Consensus size: 26
48169274 AGCATGGCTG
* *
48169284 CCAGAACAGATAATGTGACAAAGTCA
1 CCAGAACAGATAATGTGGCAAAGCCA
48169310 CCAGATACAGATAATCGTGGCAGAA-CCA
1 CCAGA-ACAGATAAT-GTGGCA-AAGCCA
*
48169338 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAAAGCCA
* *
48169365 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAAAGCCA
48169392 CCAG
1 CCAG
48169396 GACGCTTCCT
Statistics
Matches: 75, Mismatches: 5, Indels: 11
0.82 0.05 0.12
Matches are distributed among these distances:
26 7 0.09
27 52 0.69
28 14 0.19
29 2 0.03
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAAAGCCA
Found at i:48169348 original size:54 final size:54
Alignment explanation
Indices: 48169284--48169395 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
48169274 AGCATGGCTG
*
48169284 CCAGAACAGATA-ATGTGACAAAGTCACCAGATACAGATAATCGTGGCAGAACCA
1 CCAGAACAGATATATGTGACAAAGCCACCAGAT-CAGATAATCGTGGCAGAACCA
* * * * *
48169338 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAAAGCCACCAGATCAGATAATCGTGGCAGAACCA
48169392 CCAG
1 CCAG
48169396 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 34 0.67
55 17 0.33
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.16
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAAAGCCACCAGATCAGATAATCGTGGCAGAACCA
Found at i:48170857 original size:24 final size:24
Alignment explanation
Indices: 48170825--48170922 Score: 160
Period size: 24 Copynumber: 4.1 Consensus size: 24
48170815 ACACAGTTCA
*
48170825 CCCTAATCAGCTCCTAAATCCTCT
1 CCCTTATCAGCTCCTAAATCCTCT
* *
48170849 CCCTGATCAGCTCTTAAATCCTCT
1 CCCTTATCAGCTCCTAAATCCTCT
48170873 CCCTTATCAGCTCCTAAATCCTCT
1 CCCTTATCAGCTCCTAAATCCTCT
*
48170897 CCCTTATCAGCTCCTAAATCTTCT
1 CCCTTATCAGCTCCTAAATCCTCT
48170921 CC
1 CC
48170923 AGACAGACTT
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 69 1.00
ACGTcount: A:0.21, C:0.41, G:0.05, T:0.33
Consensus pattern (24 bp):
CCCTTATCAGCTCCTAAATCCTCT
Found at i:48177221 original size:27 final size:27
Alignment explanation
Indices: 48177186--48177294 Score: 125
Period size: 27 Copynumber: 4.0 Consensus size: 27
48177176 AGCATGGCTG
* *
48177186 CCAGA-ACAGATAATGTGACAGAGTCA
1 CCAGATACAGATAATGTGGCAGAGCCA
* *
48177212 CCAAATACAGATAATCGTGGCAGAACCA
1 CCAGATACAGATAAT-GTGGCAGAGCCA
48177240 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATA-ATGTGGCAGAGCCA
*
48177267 CCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGATACAGATAA-TGTGGCAGAGCCA
48177294 C
1 C
48177295 AAGGACGCTT
Statistics
Matches: 71, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
26 5 0.07
27 51 0.72
28 15 0.21
ACGTcount: A:0.39, C:0.23, G:0.22, T:0.17
Consensus pattern (27 bp):
CCAGATACAGATAATGTGGCAGAGCCA
Found at i:48178761 original size:24 final size:24
Alignment explanation
Indices: 48178729--48178778 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
48178719 ACACAGTTCA
48178729 CCCTAATCAGCTCCTAAATCCTCT
1 CCCTAATCAGCTCCTAAATCCTCT
* *
48178753 CCCTTATCAGCTCCTAAATCTTCT
1 CCCTAATCAGCTCCTAAATCCTCT
48178777 CC
1 CC
48178779 AGACAGACTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.22, C:0.42, G:0.04, T:0.32
Consensus pattern (24 bp):
CCCTAATCAGCTCCTAAATCCTCT
Found at i:48180953 original size:74 final size:75
Alignment explanation
Indices: 48180861--48180999 Score: 210
Period size: 74 Copynumber: 1.9 Consensus size: 75
48180851 GGAAAACCAT
* * * *
48180861 GATTATTACCTTATTAATAGAGAAGACAAATGG-AAGTTAGAAAAAGGAATTATATTTTTTCCAA
1 GATTATTACCTTATTAATAGAGAAGACAAATGGAAACTTAGAAAAAGAAATTAAATTCTTTCCAA
48180925 TACAATATAG
66 TACAATATAG
*
48180935 GATTATT-CCTTTATTAATAGAGAAGGCAAATGGAAACTTAGAAAAAGAAATTAAATTCTTTCCA
1 GATTATTACC-TTATTAATAGAGAAGACAAATGGAAACTTAGAAAAAGAAATTAAATTCTTTCCA
48180999 A
65 A
48181000 AAGAATATTA
Statistics
Matches: 58, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
73 2 0.03
74 29 0.50
75 27 0.47
ACGTcount: A:0.45, C:0.09, G:0.14, T:0.32
Consensus pattern (75 bp):
GATTATTACCTTATTAATAGAGAAGACAAATGGAAACTTAGAAAAAGAAATTAAATTCTTTCCAA
TACAATATAG
Found at i:48181148 original size:138 final size:138
Alignment explanation
Indices: 48180983--48181399 Score: 631
Period size: 138 Copynumber: 3.0 Consensus size: 138
48180973 TAGAAAAAGA
* *
48180983 AATTAAATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAG
1 AATTAAATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
*
48181048 TATAACTATTTATATTAATAAATTCGGTAAATTATATACAATTAATATTTTGTATGAATAAAATT
66 TATAACTATTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATAAAATT
48181113 CATATATT
131 CATATATT
* * * **
48181121 AATTACATTCTTTTCAAAAGAATATTAATTTCCTTGTCTTTTATATTTTGAATGAAATTAATTAA
1 AATTAAATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
* * * *
48181186 TATAAATATTTATATTAATAAATTCGGTAAAATATATA-AATTAATATTTTATATGAATCAGATT
66 TATAACTATTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATAAAATT
48181250 CATATATT
131 CATATATT
* *
48181258 AATTATATTATTTCCAAAAGAATATTAATTTCCATGT-TTTATATATTTTGACCGAAATTAATTA
1 AATTAAATTCTTTCCAAAAGAATATTAATTTCCATGTCTTT-TATATTTTGACCGAAATTAATTA
* * * ***
48181322 CTATAACAATTTATATTGATAAATTTTATAAAATATATACAATTAATATTTTGTATGAATAAAAT
65 ATATAACTATTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATAAAAT
48181387 TCATATATT
130 TCATATATT
48181396 AATT
1 AATT
48181400 TTATCTATGT
Statistics
Matches: 249, Mismatches: 28, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
136 3 0.01
137 117 0.47
138 129 0.52
ACGTcount: A:0.42, C:0.07, G:0.06, T:0.45
Consensus pattern (138 bp):
AATTAAATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
TATAACTATTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATAAAATT
CATATATT
Found at i:48183943 original size:43 final size:44
Alignment explanation
Indices: 48183866--48183953 Score: 142
Period size: 43 Copynumber: 2.0 Consensus size: 44
48183856 CCAAAACATG
48183866 TGTCACATATATCATGAACCCAGACCACAACTCATGAGTTCAGA
1 TGTCACATATATCATGAACCCAGACCACAACTCATGAGTTCAGA
* * *
48183910 TGTCATATATATCAT-AACTCAGACCACTACTCATGAGTTCAGA
1 TGTCACATATATCATGAACCCAGACCACAACTCATGAGTTCAGA
48183953 T
1 T
48183954 CACATAGTTC
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
43 27 0.66
44 14 0.34
ACGTcount: A:0.35, C:0.25, G:0.12, T:0.27
Consensus pattern (44 bp):
TGTCACATATATCATGAACCCAGACCACAACTCATGAGTTCAGA
Found at i:48193751 original size:14 final size:15
Alignment explanation
Indices: 48193732--48193761 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
48193722 ATTTTTGACT
48193732 TGTTCTTAATT-TTG
1 TGTTCTTAATTCTTG
48193746 TGTTCTTAATTCTTG
1 TGTTCTTAATTCTTG
48193761 T
1 T
48193762 CTTGATATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.13, C:0.10, G:0.13, T:0.63
Consensus pattern (15 bp):
TGTTCTTAATTCTTG
Found at i:48197483 original size:48 final size:48
Alignment explanation
Indices: 48197381--48197500 Score: 129
Period size: 48 Copynumber: 2.5 Consensus size: 48
48197371 GGGGATATAT
* * ** *
48197381 TGATTTGGCTTCGGGCCATGAAATCGGCACTACGGGTGTGAGTTACTT
1 TGATTTGGCTTCGGGCCATGATATCGACACTACGGGTGCAAGTTACTC
*
48197429 TGATTTGGCTTCGGGCCATGATATCGACACTTCGGGTGCAAGCTTCAC-C
1 TGATTTGGCTTCGGGCCATGATATCGACACTACGGGTGCAAG-TT-ACTC
*
48197478 T-ATTTGGCTAT-GGGCTATGATAT
1 TGATTTGGCT-TCGGGCCATGATAT
48197501 TGGCACTTAG
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
48 56 0.90
49 4 0.06
50 2 0.03
ACGTcount: A:0.19, C:0.20, G:0.28, T:0.33
Consensus pattern (48 bp):
TGATTTGGCTTCGGGCCATGATATCGACACTACGGGTGCAAGTTACTC
Found at i:48199803 original size:27 final size:27
Alignment explanation
Indices: 48199761--48199951 Score: 220
Period size: 27 Copynumber: 7.0 Consensus size: 27
48199751 GCAGAAATGG
*
48199761 TGACCGAAATACCCCCATAGGGTAAGA
1 TGACCGAAATACCCCCATAGGGTAAAA
* *
48199788 TGACTGAAATATCCCCATAGGGTAAAA
1 TGACCGAAATACCCCCATAGGGTAAAA
* * * *
48199815 TGACCAAAATACCCCCAAAAGATAAAA
1 TGACCGAAATACCCCCATAGGGTAAAA
**
48199842 TGACCGAAATACTTCCATAGGGTAAAA
1 TGACCGAAATACCCCCATAGGGTAAAA
* * *
48199869 TGACCCAAATACCCCCATAAGATAAAA
1 TGACCGAAATACCCCCATAGGGTAAAA
* *
48199896 TGACCAAAATACCCCCAATAGGGTAAGA
1 TGACCGAAATACCCCC-ATAGGGTAAAA
* **
48199924 TGACTGAAATACCCCTGTAGGGTAAAA
1 TGACCGAAATACCCCCATAGGGTAAAA
48199951 T
1 T
48199952 AACTGTTTTG
Statistics
Matches: 134, Mismatches: 29, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
27 113 0.84
28 21 0.16
ACGTcount: A:0.43, C:0.23, G:0.16, T:0.18
Consensus pattern (27 bp):
TGACCGAAATACCCCCATAGGGTAAAA
Found at i:48199896 original size:81 final size:81
Alignment explanation
Indices: 48199761--48199951 Score: 247
Period size: 81 Copynumber: 2.3 Consensus size: 81
48199751 GCAGAAATGG
* ** * * *
48199761 TGACCGAAATACCCCCATAGGGTAAGATGACTGAAATATCCCCATAGGGTAAAATGACCAAAATA
1 TGACCGAAATACCCCCATAGGGTAAAATGACCCAAATACCCCCATAAGATAAAATGACCAAAATA
48199826 CCCCCAAAAGATAAAA
66 CCCCCAAAAGATAAAA
**
48199842 TGACCGAAATACTTCCATAGGGTAAAATGACCCAAATACCCCCATAAGATAAAATGACCAAAATA
1 TGACCGAAATACCCCCATAGGGTAAAATGACCCAAATACCCCCATAAGATAAAATGACCAAAATA
* * *
48199907 CCCCCAATAGGGTAAGA
66 CCCCCAA-AAGATAAAA
* **
48199924 TGACTGAAATACCCCTGTAGGGTAAAAT
1 TGACCGAAATACCCCCATAGGGTAAAAT
48199952 AACTGTTTTG
Statistics
Matches: 93, Mismatches: 16, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
81 64 0.69
82 29 0.31
ACGTcount: A:0.43, C:0.23, G:0.16, T:0.18
Consensus pattern (81 bp):
TGACCGAAATACCCCCATAGGGTAAAATGACCCAAATACCCCCATAAGATAAAATGACCAAAATA
CCCCCAAAAGATAAAA
Found at i:48200134 original size:27 final size:27
Alignment explanation
Indices: 48199957--48200135 Score: 171
Period size: 27 Copynumber: 6.6 Consensus size: 27
48199947 AAAATAACTG
** *
48199957 TTTTGCCCTTATGTGGCAAAATGACTA
1 TTTTGCCCTTATGTGATAAAATGACGA
* * * * *
48199984 TTTTACCCTTATGTGTTAAATTTACGG
1 TTTTGCCCTTATGTGATAAAATGACGA
* *
48200011 TTTTGCCCTTATGTGTTAAATTGAC-A
1 TTTTGCCCTTATGTGATAAAATGACGA
* *
48200037 GTTTTGCCCTTATGTGTTAAAATGATGA
1 -TTTTGCCCTTATGTGATAAAATGACGA
** * * *
48200065 TTTTTTCCTTGTGCGATAAAATGAAGA
1 TTTTGCCCTTATGTGATAAAATGACGA
*
48200092 TTTTGCCCTTGTGTGATAAAATGACGA
1 TTTTGCCCTTATGTGATAAAATGACGA
*
48200119 TTTTTCCCTTATGTGAT
1 TTTTGCCCTTATGTGAT
48200136 GTATGTTTAT
Statistics
Matches: 126, Mismatches: 24, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
27 125 0.99
28 1 0.01
ACGTcount: A:0.24, C:0.15, G:0.18, T:0.44
Consensus pattern (27 bp):
TTTTGCCCTTATGTGATAAAATGACGA
Found at i:48202157 original size:21 final size:22
Alignment explanation
Indices: 48202104--48202157 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
48202094 TGCAGGGCTC
**
48202104 ACACGCCCGTGTGGTCCAAGGG
1 ACACGCCCGTGTGACCCAAGGG
* *
48202126 ACACACTCGTGTGACCCAA-GG
1 ACACGCCCGTGTGACCCAAGGG
48202147 ACACGCCCGTG
1 ACACGCCCGTG
48202158 CCAAAGGTCG
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
21 11 0.42
22 15 0.58
ACGTcount: A:0.22, C:0.35, G:0.30, T:0.13
Consensus pattern (22 bp):
ACACGCCCGTGTGACCCAAGGG
Found at i:48202931 original size:18 final size:18
Alignment explanation
Indices: 48202908--48202972 Score: 67
Period size: 18 Copynumber: 3.4 Consensus size: 18
48202898 AATAAAACTA
48202908 AGTAAGTATAAAATGCTT
1 AGTAAGTATAAAATGCTT
* * *
48202926 AGTAAGTTCGTATAACATTCTA
1 AGTAA----GTATAAAATGCTT
48202948 AGTAAGTATAAAATGCTT
1 AGTAAGTATAAAATGCTT
48202966 AGTAAGT
1 AGTAAGT
48202973 TCGTATAACA
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
18 22 0.59
22 15 0.41
ACGTcount: A:0.42, C:0.08, G:0.17, T:0.34
Consensus pattern (18 bp):
AGTAAGTATAAAATGCTT
Found at i:48202931 original size:22 final size:22
Alignment explanation
Indices: 48202906--48202972 Score: 70
Period size: 22 Copynumber: 3.2 Consensus size: 22
48202896 GAAATAAAAC
48202906 TAAGTAAGTATAAAATGCTTAG
1 TAAGTAAGTATAAAATGCTTAG
** * *
48202928 TAAGTTCGTATAACA---TT-C
1 TAAGTAAGTATAAAATGCTTAG
48202946 TAAGTAAGTATAAAATGCTTAG
1 TAAGTAAGTATAAAATGCTTAG
48202968 TAAGT
1 TAAGT
48202973 TCGTATAACA
Statistics
Matches: 33, Mismatches: 8, Indels: 8
0.67 0.16 0.16
Matches are distributed among these distances:
18 12 0.36
19 2 0.06
21 2 0.06
22 17 0.52
ACGTcount: A:0.42, C:0.07, G:0.16, T:0.34
Consensus pattern (22 bp):
TAAGTAAGTATAAAATGCTTAG
Found at i:48202960 original size:40 final size:40
Alignment explanation
Indices: 48202905--48202983 Score: 158
Period size: 40 Copynumber: 2.0 Consensus size: 40
48202895 GGAAATAAAA
48202905 CTAAGTAAGTATAAAATGCTTAGTAAGTTCGTATAACATT
1 CTAAGTAAGTATAAAATGCTTAGTAAGTTCGTATAACATT
48202945 CTAAGTAAGTATAAAATGCTTAGTAAGTTCGTATAACAT
1 CTAAGTAAGTATAAAATGCTTAGTAAGTTCGTATAACAT
48202984 GGTACTTAAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.41, C:0.10, G:0.15, T:0.34
Consensus pattern (40 bp):
CTAAGTAAGTATAAAATGCTTAGTAAGTTCGTATAACATT
Found at i:48202978 original size:22 final size:22
Alignment explanation
Indices: 48202913--48202980 Score: 81
Period size: 22 Copynumber: 3.3 Consensus size: 22
48202903 AACTAAGTAA
48202913 GTATAAAATGCTTAGTAAGTTC
1 GTATAAAATGCTTAGTAAGTTC
* * *
48202935 GTATAACATTCTAAGTAA----
1 GTATAAAATGCTTAGTAAGTTC
48202953 GTATAAAATGCTTAGTAAGTTC
1 GTATAAAATGCTTAGTAAGTTC
48202975 GTATAA
1 GTATAA
48202981 CATGGTACTT
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
18 15 0.42
22 21 0.58
ACGTcount: A:0.40, C:0.09, G:0.16, T:0.35
Consensus pattern (22 bp):
GTATAAAATGCTTAGTAAGTTC
Found at i:48210053 original size:40 final size:40
Alignment explanation
Indices: 48209930--48210153 Score: 263
Period size: 40 Copynumber: 5.6 Consensus size: 40
48209920 TATTCGAATG
* *
48209930 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GTGACT
* * * * *
48209971 ATAACCGGACTAAGATCCG-AGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGACT
* *
48210010 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * * *
48210050 ATATCCGGGCTAAAACTCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * *
48210090 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
*
48210130 ACATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
48210154 CTTGTGCAAG
Statistics
Matches: 155, Mismatches: 25, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
39 20 0.13
40 120 0.77
41 15 0.10
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
Found at i:48210074 original size:80 final size:79
Alignment explanation
Indices: 48209930--48210189 Score: 276
Period size: 80 Copynumber: 3.3 Consensus size: 79
48209920 TATTCGAATG
* * *
48209930 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGA-TCCG-AGG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACTATATCCGGGCTAAGACT-CGAAGG
* * *
48209993 CATTCGTGCGAGTTGCT
64 CATT-GTGCAAGTAGTT
* * * *
48210010 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAAACTCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACTCGAAGGCA
* *
48210075 TTTGTGCTAG-CGATT
66 -TTGTGCAAGTAG-TT
* * * * *
48210090 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCACATCCGGGCTAAGACCCGAAGGCC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACTCGAAGGCA
48210155 TTGTGCAAGTAGTT
66 TTGTGCAAGTAGTT
* *
48210169 ATATCC-GGCTAAATCCTGAAG
1 ATATCCGGGCTAAGTCCCGAAG
48210190 ATTACTTGAG
Statistics
Matches: 152, Mismatches: 23, Indels: 12
0.81 0.12 0.06
Matches are distributed among these distances:
78 13 0.09
79 35 0.23
80 102 0.67
81 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (79 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACTCGAAGGCA
TTGTGCAAGTAGTT
Found at i:48212604 original size:21 final size:20
Alignment explanation
Indices: 48212575--48212614 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
48212565 ACAAAACTTG
48212575 CATAACTATCATCAAACATT
1 CATAACTATCATCAAACATT
*
48212595 CATAACCTATCATTAAACAT
1 CATAA-CTATCATCAAACAT
48212615 CAAAATACTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.45, C:0.25, G:0.00, T:0.30
Consensus pattern (20 bp):
CATAACTATCATCAAACATT
Found at i:48213546 original size:17 final size:17
Alignment explanation
Indices: 48213524--48213568 Score: 90
Period size: 17 Copynumber: 2.6 Consensus size: 17
48213514 ATCACTCTGA
48213524 GTACGATCCTCCTTTGG
1 GTACGATCCTCCTTTGG
48213541 GTACGATCCTCCTTTGG
1 GTACGATCCTCCTTTGG
48213558 GTACGATCCTC
1 GTACGATCCTC
48213569 GGAGTACTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.13, C:0.31, G:0.22, T:0.33
Consensus pattern (17 bp):
GTACGATCCTCCTTTGG
Found at i:48214562 original size:12 final size:12
Alignment explanation
Indices: 48214545--48214587 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
48214535 CAGAAATGAG
48214545 AAAACTAATTGA
1 AAAACTAATTGA
48214557 AAAACTAATATGA
1 AAAACTAAT-TGA
*
48214570 GAAAACTGATT-A
1 -AAAACTAATTGA
48214582 AAAACT
1 AAAACT
48214588 GGGGGGATGC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
11 6 0.21
12 10 0.36
13 4 0.14
14 8 0.29
ACGTcount: A:0.58, C:0.09, G:0.09, T:0.23
Consensus pattern (12 bp):
AAAACTAATTGA
Found at i:48217269 original size:27 final size:26
Alignment explanation
Indices: 48217200--48217314 Score: 97
Period size: 27 Copynumber: 4.3 Consensus size: 26
48217190 TATTTACTTA
*
48217200 AAAATGACCGAAATAACCCCATAGGGT
1 AAAATGACCGAAAT-ACCCCATAAGGT
48217227 AAAATGACCGAAATACCCTCATAAGGT
1 AAAATGACCGAAATACCC-CATAAGGT
* * * *
48217254 AAAATGGCAGAAATACCTCAGT-AGGAG
1 AAAATGACCGAAATACCCCA-TAAGG-T
** *
48217281 AAAATGATTGTAATACCCCTATAAGGT
1 AAAATGACCGAAATACCCC-ATAAGGT
*
48217308 GAAATGA
1 AAAATGA
48217315 ATATTTTTCC
Statistics
Matches: 71, Mismatches: 12, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
26 9 0.13
27 58 0.82
28 4 0.06
ACGTcount: A:0.44, C:0.17, G:0.19, T:0.19
Consensus pattern (26 bp):
AAAATGACCGAAATACCCCATAAGGT
Found at i:48217393 original size:27 final size:27
Alignment explanation
Indices: 48217341--48217432 Score: 107
Period size: 27 Copynumber: 3.5 Consensus size: 27
48217331 TGATAAACTA
* *
48217341 ACTATTTTGCCC-T-CGTGGTAAAATG
1 ACTATTTTGCCCTTAGGTGGTAGAATG
* *
48217366 ACTATTTTTCCCTTATGTGGTAGAATG
1 ACTATTTTGCCCTTAGGTGGTAGAATG
* *
48217393 ACTAATTTGCCCTTAGGTGGTAGGATG
1 ACTATTTTGCCCTTAGGTGGTAGAATG
*
48217420 ACTGTTTTGCCCT
1 ACTATTTTGCCCT
48217433 ACGTGATGTA
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
25 11 0.20
26 1 0.02
27 44 0.79
ACGTcount: A:0.21, C:0.18, G:0.22, T:0.39
Consensus pattern (27 bp):
ACTATTTTGCCCTTAGGTGGTAGAATG
Found at i:48229786 original size:27 final size:27
Alignment explanation
Indices: 48229752--48229803 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
48229742 AAATGTAAAA
48229752 ATTATTTAATTAATTAAAGTTCAAATT
1 ATTATTTAATTAATTAAAGTTCAAATT
48229779 ATTATTTAATTAATTAAAGTTCAAA
1 ATTATTTAATTAATTAAAGTTCAAA
48229804 AATGGAATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (27 bp):
ATTATTTAATTAATTAAAGTTCAAATT
Found at i:48229814 original size:27 final size:27
Alignment explanation
Indices: 48229757--48229819 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
48229747 TAAAAATTAT
* * *
48229757 TTAATTAATTAAAGTTCAAATTATTAT
1 TTAATTAATTAAAGTTCAAATAATGAA
48229784 TTAATTAATTAAAGTTCAAA-AATGGAA
1 TTAATTAATTAAAGTTCAAATAAT-GAA
48229811 TTAAATTAA
1 TT-AATTAA
48229820 CTGATCATTG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
26 2 0.06
27 23 0.74
28 6 0.19
ACGTcount: A:0.49, C:0.03, G:0.06, T:0.41
Consensus pattern (27 bp):
TTAATTAATTAAAGTTCAAATAATGAA
Found at i:48234529 original size:79 final size:80
Alignment explanation
Indices: 48234430--48234650 Score: 202
Period size: 80 Copynumber: 2.8 Consensus size: 80
48234420 CTCGTTCAAG
* * ** * *
48234430 TGCCTTCGGGACATAGCCCGGTCA-TAGTAACTCATTC-AATGCCTTCGGGACTTAACCCGGATT
1 TGCCTTCGGGACATAACCCGG-AATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGA-A
*
48234493 TTAA-AACTCGCACGAA
64 TTAATAACTCGCACAAA
* * *
48234509 TGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAGGCCTTCGGGACTTAACCCGGAATT
1 TGCCTTCGGGACATAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATT
48234574 AATAACTCGCACAAA
66 AATAACTCGCACAAA
* * ** * * *
48234589 TACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGA-CATAACCCGGAAT-TAGTAACTCA-CACAAAGGCCTTCGGGACTTAACCCGGA
48234651 CAGCATTCAA
Statistics
Matches: 118, Mismatches: 18, Indels: 11
0.80 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 37 0.31
80 74 0.63
81 6 0.05
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
TGCCTTCGGGACATAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATT
AATAACTCGCACAAA
Found at i:48234581 original size:80 final size:80
Alignment explanation
Indices: 48234470--48234650 Score: 219
Period size: 80 Copynumber: 2.3 Consensus size: 80
48234460 CTCATTCAAT
* * *
48234470 GCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCGGA-AT
1 GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTC-GGATCTTAACCCGGATA-
*
48234533 TAGT-A-TCTCGCACAAA
64 TAGTCACT-TAGCACAAA
**
48234549 GGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATACCTTCGGATCTTAGTCCGGATA
1 -GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATACCTTCGGATCTTAACCCGGATA
48234613 TAGTCACTTAGCACAAA
64 TAGTCACTTAGCACAAA
*
48234630 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
48234651 CAGCATTCAA
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 7 0.08
80 71 0.80
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGATCTTAACCCGGATATA
GTCACTTAGCACAAA
Found at i:48234610 original size:40 final size:40
Alignment explanation
Indices: 48234467--48234650 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
48234457 TAACTCATTC
* *
48234467 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
48234507 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
48234547 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
* ** * * *
48234587 AATACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
48234628 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
48234651 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
39 8 0.07
40 103 0.84
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:48239008 original size:18 final size:18
Alignment explanation
Indices: 48238982--48239020 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
48238972 TCCTTTAACT
*
48238982 CGGTTGTGCCATACGATA
1 CGGTGGTGCCATACGATA
48239000 CGGTGGTGCCATACGATA
1 CGGTGGTGCCATACGATA
48239018 CGG
1 CGG
48239021 AGCTATCGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.21, C:0.23, G:0.33, T:0.23
Consensus pattern (18 bp):
CGGTGGTGCCATACGATA
Found at i:48242490 original size:40 final size:39
Alignment explanation
Indices: 48242438--48242568 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
48242428 TAACTCATTC
*
48242438 AATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-TTTAAAACTCGCACA
*** *
48242478 AATGCCTTCGGGACTTAACCCGGAATTGGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGG-ATTTAAAACTCGCACA
* *
48242518 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAA-AACTCGCACA
*
48242558 AATACCTTCGG
1 AATGCCTTCGG
48242569 AATCTTAGTC
Statistics
Matches: 76, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
39 2 0.03
40 73 0.96
41 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAAAACTCGCACA
Found at i:48242500 original size:79 final size:80
Alignment explanation
Indices: 48242401--48242568 Score: 189
Period size: 80 Copynumber: 2.1 Consensus size: 80
48242391 CTCGTTCAAG
* * ** * *
48242401 TGCCTTCGGGACATAGCCCGGTCA-TAGTAACTCATTC-AATGCCTTCGGGACTTAACCCGGATT
1 TGCCTTCGGGACATAACCCGG-AATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGA-A
*
48242464 TTAA-AACTCGCACGAA
64 TTAATAACTCGCACAAA
* * * *
48242480 TGCCTTCGGGACTTAACCCGGAATTGGTATCTCGCACAAAGGCCTTCGGGACTTAACCCGGAATT
1 TGCCTTCGGGACATAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATT
48242545 AATAACTCGCACAAA
66 AATAACTCGCACAAA
*
48242560 TACCTTCGG
1 TGCCTTCGG
48242569 AATCTTAGTC
Statistics
Matches: 74, Mismatches: 12, Indels: 5
0.81 0.13 0.05
Matches are distributed among these distances:
78 1 0.01
79 31 0.42
80 42 0.57
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
TGCCTTCGGGACATAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATT
AATAACTCGCACAAA
Found at i:48247548 original size:34 final size:34
Alignment explanation
Indices: 48247507--48247577 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
48247497 AAGCTCCAAT
48247507 GTTAGTTTAGCCAGAATCGAGTAAGGAATTTATA
1 GTTAGTTTAGCCAGAATCGAGTAAGGAATTTATA
48247541 GTTAGTTTAGCCAGAATCGAGTAAGGAATTTATA
1 GTTAGTTTAGCCAGAATCGAGTAAGGAATTTATA
48247575 GTT
1 GTT
48247578 TACAGTGATG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.34, C:0.08, G:0.24, T:0.34
Consensus pattern (34 bp):
GTTAGTTTAGCCAGAATCGAGTAAGGAATTTATA
Found at i:48249128 original size:41 final size:41
Alignment explanation
Indices: 48249068--48249149 Score: 128
Period size: 41 Copynumber: 2.0 Consensus size: 41
48249058 AGGATTCATA
* **
48249068 ATGTTTTTCATGTGCCTATGCTACTACGGTACCAATCTGAT
1 ATGTTTTTCATGTGCCTATGCTACGACAATACCAATCTGAT
*
48249109 ATGTTTTTCATGTGTCTATGCTACGACAATACCAATCTGAT
1 ATGTTTTTCATGTGCCTATGCTACGACAATACCAATCTGAT
48249150 CCTTCACACG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.24, C:0.21, G:0.16, T:0.39
Consensus pattern (41 bp):
ATGTTTTTCATGTGCCTATGCTACGACAATACCAATCTGAT
Found at i:48258124 original size:63 final size:64
Alignment explanation
Indices: 48258044--48258226 Score: 194
Period size: 66 Copynumber: 2.8 Consensus size: 64
48258034 AGACATTATG
*
48258044 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACG-GATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
48258107 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
48258172 AA
63 AA
* * * *
48258174 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
48258227 CGAACTATAT
Statistics
Matches: 98, Mismatches: 16, Indels: 12
0.78 0.13 0.10
Matches are distributed among these distances:
62 1 0.01
63 39 0.40
64 5 0.05
65 6 0.06
66 40 0.41
67 5 0.05
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:48262526 original size:68 final size:67
Alignment explanation
Indices: 48262441--48262639 Score: 192
Period size: 66 Copynumber: 3.0 Consensus size: 67
48262431 AGTGCTGAGT
* * *
48262441 GGACATCATGT-GTACAAGAGAGCTACAATACATTATGATGTAGCTAGGTCGCATGGGTGATACT
1 GGACACCATGTAG-ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACT
*
48262505 -A-TG-T
61 AAGTGAA
* * * *
48262509 GTACACCATGTAGACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGCGTGGTTCTAAGTG
1 GGACACCATGTAGACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACTAAGTG
48262574 AA
66 AA
* ** * * *
48262576 GGACACCATGTAGACAAGAGAGCTACGAGATA-AACTAGCTAGGTCACATGGGTGGTACTAAGTG
1 GGACACCATGTAGACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACTAAGTG
48262640 TTCACCATGT
Statistics
Matches: 113, Mismatches: 14, Indels: 10
0.82 0.10 0.07
Matches are distributed among these distances:
64 24 0.21
65 4 0.04
66 31 0.27
67 31 0.27
68 22 0.19
69 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.28, T:0.24
Consensus pattern (67 bp):
GGACACCATGTAGACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACTAAGTG
AA
Found at i:48262559 original size:64 final size:63
Alignment explanation
Indices: 48262478--48262661 Score: 226
Period size: 67 Copynumber: 2.9 Consensus size: 63
48262468 ATACATTATG
*
48262478 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
* * * *
48262541 TATGTAGCTAGGTCGCATGCGTGGTTCTAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGA
1 -ATGTAGCTAGGTCGCATGGGTGGTACT-A-TG-TGTACACCATGTAGACAAGAGAGCTACGAGA
48262606 TA
62 TA
** * * *
48262608 AACTAGCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAGC
48262662 CGAAATATAT
Statistics
Matches: 102, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
65 2 0.02
66 24 0.24
67 31 0.30
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.23
Consensus pattern (63 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
Found at i:48265697 original size:16 final size:16
Alignment explanation
Indices: 48265676--48265707 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
48265666 AGTGTAACGC
48265676 CCCAAAAATCCCGAAA
1 CCCAAAAATCCCGAAA
48265692 CCCAAAAATCCCGAAA
1 CCCAAAAATCCCGAAA
48265708 TTTTGAACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.38, G:0.06, T:0.06
Consensus pattern (16 bp):
CCCAAAAATCCCGAAA
Found at i:48267002 original size:16 final size:16
Alignment explanation
Indices: 48266981--48267031 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 16
48266971 ATGTATCGAC
*
48266981 AAAAGCCGAAATGCCA
1 AAAAGCCGAAAAGCCA
* **
48266997 AAAAGCTGAAAAGCTG
1 AAAAGCCGAAAAGCCA
*
48267013 AAATGCCGAAAAGCCA
1 AAAAGCCGAAAAGCCA
48267029 AAA
1 AAA
48267032 GTTTGGCTAC
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.53, C:0.20, G:0.20, T:0.08
Consensus pattern (16 bp):
AAAAGCCGAAAAGCCA
Found at i:48267015 original size:24 final size:24
Alignment explanation
Indices: 48266981--48267026 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
48266971 ATGTATCGAC
48266981 AAAAGCCGAAATGCCAAAAAGCTG
1 AAAAGCCGAAATGCCAAAAAGCTG
* *
48267005 AAAAGCTGAAATGCCGAAAAGC
1 AAAAGCCGAAATGCCAAAAAGC
48267027 CAAAAGTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.50, C:0.20, G:0.22, T:0.09
Consensus pattern (24 bp):
AAAAGCCGAAATGCCAAAAAGCTG
Found at i:48267323 original size:28 final size:28
Alignment explanation
Indices: 48267242--48267327 Score: 136
Period size: 28 Copynumber: 3.0 Consensus size: 28
48267232 GTCAGCATGA
*
48267242 ATATGAATGTGACTGGGCCTAATGGGCC
1 ATATGAATGTGATTGGGCCTAATGGGCC
*
48267270 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGA-TTGGGCCTAATGGGCC
*
48267299 ATATGAATATGATTGGGCCTAATGGGCC
1 ATATGAATGTGATTGGGCCTAATGGGCC
48267327 A
1 A
48267328 GATACAGGTA
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
28 28 0.53
29 25 0.47
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (28 bp):
ATATGAATGTGATTGGGCCTAATGGGCC
Found at i:48268721 original size:13 final size:14
Alignment explanation
Indices: 48268687--48268724 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
48268677 TCTAAGTTTT
48268687 TATAGTATTATGTTA
1 TATA-TATTATGTTA
48268702 TATTATATTAT-TTA
1 TA-TATATTATGTTA
48268716 TATATATTA
1 TATATATTA
48268725 AATAATTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 7 0.32
14 5 0.23
15 8 0.36
16 2 0.09
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (14 bp):
TATATATTATGTTA
Found at i:48271496 original size:99 final size:97
Alignment explanation
Indices: 48271322--48271539 Score: 269
Period size: 99 Copynumber: 2.2 Consensus size: 97
48271312 ATCATTATCA
* * *
48271322 TAATATTTTTA-TCTAACTAAATTCTCAAGAAGTAGAGATTCCCAAGTTTATACATCATCTTGAA
1 TAATATTTTTATTTTAACTAAATTCTCAAGAAGTAGAGATTCCCAAGTTTATACATAAGCTTGAA
* *
48271386 AACAAGATTTTTTGTT-GTTTGTTTAGTATTAC
66 AACAAGATTTTTTGTTCCTTTG-ATAGTATTAC
* * * * * *
48271418 TATACTATTTTTATTTTAACCAAATTGTGAAGAAGTAGATATTCCTAAGTTTATACCTAAGCTTG
1 TA-A-TATTTTTATTTTAACTAAATTCTCAAGAAGTAGAGATTCCCAAGTTTATACATAAGCTTG
* *
48271483 AAAACAAGATTTTTTTTTCCTTTGATATTATTAC
64 AAAACAAGATTTTTTGTTCCTTTGATAGTATTAC
*
48271517 TAATACTTTTATTTTAACTAAAT
1 TAATATTTTTATTTTAACTAAAT
48271540 ACTTTCATTT
Statistics
Matches: 103, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
96 2 0.02
97 19 0.18
98 9 0.09
99 69 0.67
100 4 0.04
ACGTcount: A:0.34, C:0.12, G:0.10, T:0.44
Consensus pattern (97 bp):
TAATATTTTTATTTTAACTAAATTCTCAAGAAGTAGAGATTCCCAAGTTTATACATAAGCTTGAA
AACAAGATTTTTTGTTCCTTTGATAGTATTAC
Found at i:48281430 original size:27 final size:27
Alignment explanation
Indices: 48281399--48281576 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
48281389 TAAATTGTAC
48281399 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
48281426 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
48281452 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
48281480 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
48281508 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
48281535 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
48281562 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
48281577 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:48281513 original size:82 final size:81
Alignment explanation
Indices: 48281400--48281555 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
48281390 AAATTGTACA
* *
48281400 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
48281464 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
48281481 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
48281546 TGCGAGTTGA
65 TGCGAATTGA
48281556 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:48281567 original size:82 final size:81
Alignment explanation
Indices: 48281396--48281576 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
48281386 GATTAAATTG
* *
48281396 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
48281461 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
48281477 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
48281541 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
48281559 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
48281577 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:48285743 original size:16 final size:16
Alignment explanation
Indices: 48285722--48285753 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
48285712 TATGTAACGC
48285722 CCCAAAAATCCCAAAA
1 CCCAAAAATCCCAAAA
*
48285738 CCCAAAAATCTCAAAA
1 CCCAAAAATCCCAAAA
48285754 TCCTGAACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.56, C:0.34, G:0.00, T:0.09
Consensus pattern (16 bp):
CCCAAAAATCCCAAAA
Found at i:48287117 original size:16 final size:16
Alignment explanation
Indices: 48287096--48287126 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
48287086 ATCAACAAAA
48287096 GCTGAAAAGCCGAAAT
1 GCTGAAAAGCCGAAAT
*
48287112 GCTGAAATGCCGAAA
1 GCTGAAAAGCCGAAA
48287127 AGCCAAAAGT
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:0.42, C:0.19, G:0.26, T:0.13
Consensus pattern (16 bp):
GCTGAAAAGCCGAAAT
Found at i:48287389 original size:28 final size:29
Alignment explanation
Indices: 48287367--48287490 Score: 132
Period size: 28 Copynumber: 4.4 Consensus size: 29
48287357 TTTGGGTTGG
48287367 ATGGGCCATATAAATGAG-ATTGGGCCTA
1 ATGGGCCATATAAATGAGAATTGGGCCTA
*
48287395 ATGGGCCATATAAATGTGAATTGGGCCTA
1 ATGGGCCATATAAATGAGAATTGGGCCTA
* **
48287424 ATGGGCCATA-AGAAT-ATAAACGGGCC-A
1 ATGGGCCATATA-AATGAGAATTGGGCCTA
* *
48287451 GATGGGCCATATGAATGAG-ATTGGGCCTT
1 -ATGGGCCATATAAATGAGAATTGGGCCTA
*
48287480 GTGGGCCATAT
1 ATGGGCCATAT
48287491 GCATGTATGT
Statistics
Matches: 79, Mismatches: 11, Indels: 12
0.77 0.11 0.12
Matches are distributed among these distances:
27 1 0.01
28 54 0.68
29 24 0.30
ACGTcount: A:0.31, C:0.15, G:0.30, T:0.24
Consensus pattern (29 bp):
ATGGGCCATATAAATGAGAATTGGGCCTA
Found at i:48291558 original size:45 final size:46
Alignment explanation
Indices: 48291437--48291560 Score: 216
Period size: 45 Copynumber: 2.7 Consensus size: 46
48291427 TGGTTGAGCA
48291437 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
48291483 TCTGAACTCGTTGAGTTGAGTCCGAG-TCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
48291528 -CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
48291561 GGGGCGGGTT
Statistics
Matches: 74, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
44 23 0.31
45 26 0.35
46 25 0.34
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:48301772 original size:48 final size:47
Alignment explanation
Indices: 48301718--48301991 Score: 179
Period size: 46 Copynumber: 5.8 Consensus size: 47
48301708 CGGCCACATT
* * *
48301718 ATGAGAGCAAGTGTAAGACCATGTCTGGGACATCTCATCGGCATTGAG
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATCGCATCGGC-TCGAG
* * * * *
48301766 ATGAGAGCTAGTGTAAGA-CATTTTTGGGACATC-TATCAGCCTCGAG
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATCGCATC-GGCTCGAG
* *
48301812 ATGTA-AGCCAGTGTAAGA-CATGTTTGGGACAT-GCATTGGCTACGAG
1 ATG-AGAGCCAGTGTAAGACCATGTCTGGGACATCGCATCGGCT-CGAG
* * * * * *
48301858 AT--GTGTCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATGGAT
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATCGCATCGGC-TCGAG
* ** * * * *
48301904 ATGTGATTGCTGGTGTAAGACCATTTCTGGGGACATAGCATCGACT--TG
1 ATGAGA--GCCAGTGTAAGACCATGTCT-GGGACATCGCATCGGCTCGAG
*
48301952 ATGGATGAGCCAGTGTAAGACCATGTCTGGGACATGGCAT
1 AT-GA-GAGCCAGTGTAAGACCATGTCTGGGACATCGCAT
48301992 TGGTATTATA
Statistics
Matches: 180, Mismatches: 31, Indels: 31
0.74 0.13 0.13
Matches are distributed among these distances:
44 11 0.06
45 17 0.09
46 54 0.30
47 28 0.16
48 37 0.21
49 1 0.01
50 18 0.10
51 14 0.08
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.27
Consensus pattern (47 bp):
ATGAGAGCCAGTGTAAGACCATGTCTGGGACATCGCATCGGCTCGAG
Found at i:48301825 original size:46 final size:46
Alignment explanation
Indices: 48301681--48301888 Score: 194
Period size: 46 Copynumber: 4.5 Consensus size: 46
48301671 TTTGTGTGCT
* * *
48301681 AGTGTAAGACATGTTTGGGACATGTATCGGCCAC-ATTATGAGAGCA
1 AGTGTAAGACATGTTTGGGACATCTATCGGCCTCGA-GATGAGAGCA
* * * *
48301727 AGTGTAAGACCATGTCTGGGACATCTCATCGGCATTGAGATGAGAGCT
1 AGTGTAAGA-CATGTTTGGGACATCT-ATCGGCCTCGAGATGAGAGCA
* * *
48301775 AGTGTAAGACATTTTTGGGACATCTATCAGCCTCGAGATGTA-AGCC
1 AGTGTAAGACATGTTTGGGACATCTATCGGCCTCGAGATG-AGAGCA
* * *
48301821 AGTGTAAGACATGTTTGGGACATGC-ATTGG-CTACGAGATGTG-TC-
1 AGTGTAAGACATGTTTGGGACAT-CTATCGGCCT-CGAGATGAGAGCA
48301865 AGTGTAAGACCATGTTTGGGACAT
1 AGTGTAAGA-CATGTTTGGGACAT
48301889 GGCATCGGCA
Statistics
Matches: 136, Mismatches: 18, Indels: 17
0.80 0.11 0.10
Matches are distributed among these distances:
44 9 0.07
45 17 0.12
46 56 0.41
47 30 0.22
48 23 0.17
49 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.27
Consensus pattern (46 bp):
AGTGTAAGACATGTTTGGGACATCTATCGGCCTCGAGATGAGAGCA
Found at i:48306274 original size:41 final size:43
Alignment explanation
Indices: 48306196--48306306 Score: 120
Period size: 41 Copynumber: 2.6 Consensus size: 43
48306186 GGATATACGT
* * **
48306196 GGTCTTACATGTAATCATATATCGATG-CCACTGTCCCAGACAG
1 GGTCTTACACGTAATCAAATATCGATGTTGA-TGTCCCAGACAG
* * *
48306239 GGTCTTATACG-AATCAAATAT-GATGTTGATGTCCCATACAT
1 GGTCTTACACGTAATCAAATATCGATGTTGATGTCCCAGACAG
*
48306280 GGTCTTACACGTAATCACATATCGATG
1 GGTCTTACACGTAATCAAATATCGATG
48306307 CCAACGTCCT
Statistics
Matches: 56, Mismatches: 9, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
41 24 0.43
42 19 0.34
43 13 0.23
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.31
Consensus pattern (43 bp):
GGTCTTACACGTAATCAAATATCGATGTTGATGTCCCAGACAG
Found at i:48315901 original size:40 final size:40
Alignment explanation
Indices: 48315832--48315957 Score: 209
Period size: 40 Copynumber: 3.2 Consensus size: 40
48315822 AACCCAAGTA
* *
48315832 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
48315871 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
48315911 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
48315951 CCTTCGG
1 CCTTCGG
48315958 ATCTTAGTCC
Statistics
Matches: 82, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 13 0.16
40 69 0.84
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:48323971 original size:39 final size:38
Alignment explanation
Indices: 48323857--48323982 Score: 182
Period size: 39 Copynumber: 3.2 Consensus size: 38
48323847 ACCATAGTAT
48323857 TTAGCCGGATATAG-CAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCGGATATAGTC-ACTCGCACAAATGCCTTC-GGAC
*
48323896 TTAGCCGGATATAGTAACTCGCACAAATGCCTTCGGAC
1 TTAGCCGGATATAGTCACTCGCACAAATGCCTTCGGAC
*
48323934 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGATC
1 TTAG-CCGGATATAGTCACTCGCACAAATGCCTTCGGA-C
48323974 TTAGTCCGG
1 TTAG-CCGG
48323983 TTATCATCCG
Statistics
Matches: 80, Mismatches: 4, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
38 8 0.10
39 63 0.79
40 9 0.11
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (38 bp):
TTAGCCGGATATAGTCACTCGCACAAATGCCTTCGGAC
Found at i:48326048 original size:16 final size:16
Alignment explanation
Indices: 48326023--48326065 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
48326013 GTAGTCAAAC
*
48326023 TTTCGGCTTTTTGACA
1 TTTCGGCTTTTCGACA
* *
48326039 TTTCGACTTTTCGGCA
1 TTTCGGCTTTTCGACA
48326055 TTTCGGCTTTT
1 TTTCGGCTTTT
48326066 GCCGATCTAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.09, C:0.21, G:0.19, T:0.51
Consensus pattern (16 bp):
TTTCGGCTTTTCGACA
Found at i:48335466 original size:40 final size:40
Alignment explanation
Indices: 48335387--48335594 Score: 285
Period size: 40 Copynumber: 5.2 Consensus size: 40
48335377 CGGATGATAA
* * * *
48335387 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTGGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* * * * *
48335427 CCGGGCTATGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATAT
48335467 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
*
48335507 CCGGGCTAAGACCTGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* *
48335547 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTAGAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
48335587 CC-GGCTAA
1 CCGGGCTAA
48335595 ATCGCGAAGA
Statistics
Matches: 148, Mismatches: 18, Indels: 5
0.87 0.11 0.03
Matches are distributed among these distances:
39 7 0.05
40 139 0.94
41 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
Found at i:48340589 original size:29 final size:29
Alignment explanation
Indices: 48340528--48340599 Score: 83
Period size: 29 Copynumber: 2.5 Consensus size: 29
48340518 ATCAACCGCG
* *
48340528 CACACTTAGTGCCATGTACTTTAAACTCG
1 CACACTTAGTGCCATGCACTTTAAACTCA
**
48340557 CACACTTAGTGCCATGCA-TTTCAAGTTCA
1 CACACTTAGTGCCATGCACTTT-AAACTCA
*
48340586 CACACCTAGTGCCA
1 CACACTTAGTGCCA
48340600 ATCTCACAAC
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 3 0.08
29 34 0.92
ACGTcount: A:0.28, C:0.31, G:0.14, T:0.28
Consensus pattern (29 bp):
CACACTTAGTGCCATGCACTTTAAACTCA
Found at i:48349155 original size:28 final size:27
Alignment explanation
Indices: 48349092--48349243 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
48349082 ATATTAAGTC
* * *
48349092 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
48349119 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
48349147 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
48349174 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
* *
48349202 CACACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
48349229 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
48349244 GCACAATTTA
Statistics
Matches: 117, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
27 65 0.56
28 52 0.44
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:48349176 original size:55 final size:55
Alignment explanation
Indices: 48349092--48349243 Score: 250
Period size: 55 Copynumber: 2.8 Consensus size: 55
48349082 ATATTAAGTC
* * *
48349092 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
48349147 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
* *
48349202 CACACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
48349244 GCACAATTTA
Statistics
Matches: 91, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 91 1.00
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:48357198 original size:28 final size:27
Alignment explanation
Indices: 48357135--48357286 Score: 241
Period size: 27 Copynumber: 5.6 Consensus size: 27
48357125 ATATTAAGTC
* * *
48357135 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
48357162 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
48357190 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
48357217 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
48357245 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
48357272 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
48357287 GCACAATTTA
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:48357219 original size:55 final size:55
Alignment explanation
Indices: 48357135--48357286 Score: 259
Period size: 55 Copynumber: 2.8 Consensus size: 55
48357125 ATATTAAGTC
* * *
48357135 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
48357190 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
48357245 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
48357287 GCACAATTTA
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 92 1.00
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:48359853 original size:29 final size:29
Alignment explanation
Indices: 48359819--48359892 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
48359809 TAATCAACCG
*
48359819 CGCACACTTAGTGCCATGTACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAACT
**
48359848 CGCACACTTAGTGCCATGCATTTCAAGTT
1 CGCACACTTAGTGCCATGCATTTCAAACT
*
48359877 CGCACACCTAGTGCCA
1 CGCACACTTAGTGCCA
48359893 ATCTCACAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 3 0.08
29 37 0.93
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAACT
Found at i:48361931 original size:19 final size:19
Alignment explanation
Indices: 48361907--48361945 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
48361897 AAGGAATAAT
*
48361907 ATATATAGTAAAATATATA
1 ATATATACTAAAATATATA
*
48361926 ATATATACTAAAATTTATA
1 ATATATACTAAAATATATA
48361945 A
1 A
48361946 ATAAAATGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (19 bp):
ATATATACTAAAATATATA
Found at i:48361965 original size:21 final size:20
Alignment explanation
Indices: 48361941--48362006 Score: 73
Period size: 18 Copynumber: 3.2 Consensus size: 20
48361931 TACTAAAATT
*
48361941 TATAAATAAAATGTATAATAA
1 TATAAATAAAATGAATAAT-A
48361962 TATAAATAATATAATGAATAATA
1 TATAAAT-A-A-AATGAATAATA
48361985 TATAAATAAAA--AATAATA
1 TATAAATAAAATGAATAATA
48362003 TATA
1 TATA
48362007 CTATTTTATA
Statistics
Matches: 41, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
18 11 0.27
20 2 0.05
21 8 0.20
22 2 0.05
23 9 0.22
24 9 0.22
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (20 bp):
TATAAATAAAATGAATAATA
Found at i:48363617 original size:44 final size:44
Alignment explanation
Indices: 48363558--48364065 Score: 604
Period size: 44 Copynumber: 11.5 Consensus size: 44
48363548 ACTCAAGAAT
* * * *
48363558 GCCAAATATGTTATCTCCGACCTGCTCTCTGACAATACAGAGAC
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAC
* * * * * * *
48363602 ACCGAATCTGCTATCTTTGATCTGCTCTTTGACAACATAGAGAT
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAC
* * * *
48363646 ACCAAATCTGTTATCTTCTATCTACTCTCTGACAATACAGAGAC
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAC
* * * *
48363690 GCCAAAT-TCACTATCTTTGATCTACTCTCTGAAAATACAGAGAC
1 GCCAAATCT-GCTATCTTCGATCTGCTCTCTGACAATACAGAGAC
* * *
48363734 GCCAAATCTGCTATCTTCTATCTGCTCTCTAACAATACAGAGAT
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAC
* *
48363778 GCCAAATCTGCTATTCTTCGATCTGCTCTTTGACAATACAAAGAC
1 GCCAAATCTGCTA-TCTTCGATCTGCTCTCTGACAATACAGAGAC
** * *
48363823 GCCAAATCTATTCTCTTCGATCTGCTCTCTGACAATACAGAGAT
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAC
* *
48363867 GCCAAATCTGCTATCTTCGATCTACTTTCTGACAATACAGAGAC
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAC
** * * *
48363911 TTCAAATCTGCTATCTTCGATCTGTTCGCTGACAATACTGAGAC
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAC
* * * *
48363955 ACCAAATCTGTTCTCTTCGATCTGCTCTCTGACAATATAGAGAC
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAC
* * *
48363999 GCCAAATCTGTTCTCTTCGATCTGCTCTCTGACGATACAGAGAC
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAC
*
48364043 ACCAAATCTGCTATCTTCGATCT
1 GCCAAATCTGCTATCTTCGATCT
48364066 TAAAGGACAT
Statistics
Matches: 390, Mismatches: 71, Indels: 6
0.84 0.15 0.01
Matches are distributed among these distances:
43 1 0.00
44 352 0.90
45 37 0.09
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (44 bp):
GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAC
Found at i:48374143 original size:40 final size:40
Alignment explanation
Indices: 48374084--48374287 Score: 250
Period size: 40 Copynumber: 5.1 Consensus size: 40
48374074 CGGATGATAA
* * *
48374084 CCGGGCTAAGTCCCAAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
* * *
48374124 CCGGGCTAAGCCCCGAAGGCATTTGTGTGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
48374164 CCGGGCTATGTCCCGAAGGCATTCGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
48374204 CCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACCATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
48374244 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
48374284 CCGG
1 CCGG
48374288 TTAAATTTCG
Statistics
Matches: 140, Mismatches: 22, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
39 2 0.01
40 137 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:48374213 original size:80 final size:80
Alignment explanation
Indices: 48374080--48374287 Score: 312
Period size: 80 Copynumber: 2.6 Consensus size: 80
48374070 TATTCGGATG
* * * * *
48374080 ATAACCGGGCTAAGTCCCAAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGCCCCGAAGGC
1 ATAACCGGGCTATGTCCCGAAGGCATTCGTGCGAGTTACTATA-TCCGGGCTAAGCCCCGAAGGC
* *
48374144 ATTTGTGTGAGTTACT
65 ATTTGTGCGAGTTACC
48374160 ATAACCGGGCTATGTCCCGAAGGCATTCGTGCGAGTTACTATATCCGGGCTAAGCCCCGAAGGCA
1 ATAACCGGGCTATGTCCCGAAGGCATTCGTGCGAGTTACTATATCCGGGCTAAGCCCCGAAGGCA
48374225 TTTGTGCGAGTTACC
66 TTTGTGCGAGTTACC
*
48374240 ATAACCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATATCCGG
1 ATAACCGGGCTATGTCCCGAAGGCATTCGTGCGAGTTA-CTATATCCGG
48374288 TTAAATTTCG
Statistics
Matches: 118, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
79 2 0.02
80 115 0.97
81 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.27, T:0.24
Consensus pattern (80 bp):
ATAACCGGGCTATGTCCCGAAGGCATTCGTGCGAGTTACTATATCCGGGCTAAGCCCCGAAGGCA
TTTGTGCGAGTTACC
Found at i:48379301 original size:7 final size:7
Alignment explanation
Indices: 48379289--48379324 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
48379279 TTCTTATATC
48379289 TAATAAA
1 TAATAAA
48379296 TAATAAA
1 TAATAAA
48379303 TAATGAAA
1 TAAT-AAA
*
48379311 TAATATA
1 TAATAAA
48379318 TAATAAA
1 TAATAAA
48379325 AGAAAGATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
7 19 0.73
8 7 0.27
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (7 bp):
TAATAAA
Found at i:48379313 original size:15 final size:14
Alignment explanation
Indices: 48379289--48379324 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
48379279 TTCTTATATC
48379289 TAATAAATAATAAA
1 TAATAAATAATAAA
*
48379303 TAATGAAATAATATA
1 TAAT-AAATAATAAA
48379318 TAATAAA
1 TAATAAA
48379325 AGAAAGATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (14 bp):
TAATAAATAATAAA
Found at i:48379357 original size:10 final size:10
Alignment explanation
Indices: 48379309--48379403 Score: 52
Period size: 10 Copynumber: 9.2 Consensus size: 10
48379299 TAAATAATGA
48379309 AATAATATAT
1 AATAATATAT
* * *
48379319 AATAAAAGAA
1 AATAATATAT
*
48379329 AGATAATATAGGG
1 A-ATAATATA--T
48379342 AATAATATAT
1 AATAATATAT
48379352 AATAATATAT
1 AATAATATAT
* *
48379362 GAT-ATGTAAT
1 AATAATAT-AT
48379372 AA-AATATAT
1 AATAATATAT
*
48379381 AAATAAAATAT
1 -AATAATATAT
48379392 AATGAA-ATAT
1 AAT-AATATAT
48379402 AA
1 AA
48379404 ATGATGTGAT
Statistics
Matches: 65, Mismatches: 12, Indels: 16
0.70 0.13 0.17
Matches are distributed among these distances:
9 5 0.08
10 37 0.57
11 14 0.22
12 8 0.12
13 1 0.02
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.31
Consensus pattern (10 bp):
AATAATATAT
Found at i:48379567 original size:19 final size:19
Alignment explanation
Indices: 48379543--48379581 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
48379533 AAGGAATAAT
*
48379543 ATATATAGTAAAATATATA
1 ATATATACTAAAATATATA
*
48379562 ATATATACTAAAATTTATA
1 ATATATACTAAAATATATA
48379581 A
1 A
48379582 AAAATGTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (19 bp):
ATATATACTAAAATATATA
Found at i:48379595 original size:14 final size:14
Alignment explanation
Indices: 48379578--48379638 Score: 50
Period size: 15 Copynumber: 4.0 Consensus size: 14
48379568 ACTAAAATTT
*
48379578 ATAAAAAATGTATA
1 ATAAAAAATATATA
48379592 ATAATATAAATAATATA
1 ATAA-A-AAAT-ATATA
* *
48379609 ATGAATAATATATAA
1 ATAAAAAATATAT-A
48379624 ATAAAAAATAATATA
1 ATAAAAAAT-ATATA
48379639 TACTATTTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 9
0.73 0.10 0.18
Matches are distributed among these distances:
14 8 0.22
15 13 0.35
16 9 0.24
17 7 0.19
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (14 bp):
ATAAAAAATATATA
Found at i:48379606 original size:12 final size:11
Alignment explanation
Indices: 48379589--48379627 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
48379579 TAAAAAATGT
48379589 ATAATAATATAA
1 ATAAT-ATATAA
*
48379601 ATAATATAATGA
1 ATAATAT-ATAA
48379613 ATAATATATAA
1 ATAATATATAA
48379624 ATAA
1 ATAA
48379628 AAAATAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 9 0.38
12 15 0.62
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (11 bp):
ATAATATATAA
Found at i:48379627 original size:18 final size:19
Alignment explanation
Indices: 48379591--48379640 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
48379581 AAAAATGTAT
**
48379591 AATAATATAAATAATATAATG
1 AATAATAT--ATAATATAAAA
48379612 AATAATATATAA-ATAAAA
1 AATAATATATAATATAAAA
48379630 AATAATATATA
1 AATAATATATA
48379641 CTATTTTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 15 0.56
19 4 0.15
21 8 0.30
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (19 bp):
AATAATATATAATATAAAA
Found at i:48384043 original size:45 final size:44
Alignment explanation
Indices: 48383977--48384156 Score: 175
Period size: 45 Copynumber: 4.0 Consensus size: 44
48383967 GCCTATATGC
* *
48383977 ATAAAAATGAGTAAAACCATAGCTAAAAGATGCTATGACATCATG
1 ATAAAGATGAGTAAGACCATAGCTAAAAGATG-TATGACATCATG
* * **
48384022 ATAAAGATGAGTAAGATCATAGCTAAAAGATTTTATGGA-ATCACC
1 ATAAAGATGAGTAAGACCATAGCTAAAAGA-TGTAT-GACATCATG
* * * * *
48384067 ATAAAGATAAGTAATACCATAGCTGAAAGAAGATATGGCATCATG
1 ATAAAGATGAGTAAGACCATAGCTAAAAGATG-TATGACATCATG
* *
48384112 ATAGAA-ATGAGTAAGACCATATCTAAAAGATGTCATGATATCATG
1 ATA-AAGATGAGTAAGACCATAGCTAAAAGATGT-ATGACATCATG
48384157 TGAAAGTATG
Statistics
Matches: 107, Mismatches: 22, Indels: 12
0.76 0.16 0.09
Matches are distributed among these distances:
44 2 0.02
45 100 0.93
46 5 0.05
ACGTcount: A:0.46, C:0.12, G:0.18, T:0.24
Consensus pattern (44 bp):
ATAAAGATGAGTAAGACCATAGCTAAAAGATGTATGACATCATG
Found at i:48384052 original size:23 final size:22
Alignment explanation
Indices: 48383978--48384052 Score: 57
Period size: 22 Copynumber: 3.4 Consensus size: 22
48383968 CCTATATGCA
*
48383978 TAAAA-ATGAGTAAAACCATAGC
1 TAAAAGATGAGTAAGA-CATAGC
* * *
48384000 TAAAAGATG-CTATGACATCATGA
1 TAAAAGATGAGTAAGACAT-A-GC
48384023 T-AAAGATGAGTAAGATCATAGC
1 TAAAAGATGAGTAAGA-CATAGC
48384045 TAAAAGAT
1 TAAAAGAT
48384053 TTTATGGAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 11
0.69 0.12 0.19
Matches are distributed among these distances:
21 3 0.08
22 18 0.45
23 16 0.40
24 3 0.08
ACGTcount: A:0.49, C:0.11, G:0.17, T:0.23
Consensus pattern (22 bp):
TAAAAGATGAGTAAGACATAGC
Found at i:48384096 original size:90 final size:90
Alignment explanation
Indices: 48383976--48384142 Score: 237
Period size: 90 Copynumber: 1.9 Consensus size: 90
48383966 AGCCTATATG
* * * *
48383976 CATAAAAATGAGTAAAACCATAGCTAAAAGATGCTATGACATCATGATA-AAGATGAGTAAGATC
1 CATAAAAATAAGTAAAACCATAGCTAAAAGAAGATATGACATCATGATAGAA-ATGAGTAAGACC
48384040 ATAGCTAAAAGATTTTATGGAATCAC
65 ATAGCTAAAAGATTTTATGGAATCAC
* * * *
48384066 CATAAAGATAAGTAATACCATAGCTGAAAGAAGATATGGCATCATGATAGAAATGAGTAAGACCA
1 CATAAAAATAAGTAAAACCATAGCTAAAAGAAGATATGACATCATGATAGAAATGAGTAAGACCA
*
48384131 TATCTAAAAGAT
66 TAGCTAAAAGAT
48384143 GTCATGATAT
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
90 65 0.97
91 2 0.03
ACGTcount: A:0.47, C:0.12, G:0.17, T:0.23
Consensus pattern (90 bp):
CATAAAAATAAGTAAAACCATAGCTAAAAGAAGATATGACATCATGATAGAAATGAGTAAGACCA
TAGCTAAAAGATTTTATGGAATCAC
Found at i:48384348 original size:27 final size:27
Alignment explanation
Indices: 48384300--48384402 Score: 107
Period size: 27 Copynumber: 3.8 Consensus size: 27
48384290 AGATAGTTCA
* **
48384300 ATGGGATGTTAAACACATGATAGTCTG
1 ATGGGACGTTAAACACGGGATAGTCTG
* * *
48384327 ATGGGATGTTAAACATGGGATACTCTG
1 ATGGGACGTTAAACACGGGATAGTCTG
* *
48384354 ATGGAACGTTAAACACGGGATAGTCCG
1 ATGGGACGTTAAACACGGGATAGTCTG
* * *
48384381 ATGGGACATCAAACATGGGATA
1 ATGGGACGTTAAACACGGGATA
48384403 ATCCAACAAG
Statistics
Matches: 63, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 63 1.00
ACGTcount: A:0.34, C:0.14, G:0.28, T:0.24
Consensus pattern (27 bp):
ATGGGACGTTAAACACGGGATAGTCTG
Found at i:48384447 original size:27 final size:27
Alignment explanation
Indices: 48384399--48384450 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
48384389 TCAAACATGG
*
48384399 GATAATCCAACAAGACGTTAAACACAA
1 GATAATCCAACAAGACGCTAAACACAA
* * *
48384426 GATAGTCCAACAGGATGCTAAACAC
1 GATAATCCAACAAGACGCTAAACAC
48384451 GGGTTAGTTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.46, C:0.23, G:0.15, T:0.15
Consensus pattern (27 bp):
GATAATCCAACAAGACGCTAAACACAA
Found at i:48397653 original size:21 final size:21
Alignment explanation
Indices: 48397612--48397653 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
48397602 AAGAAAGGAA
* **
48397612 ATAATAAAAGAAATACTAAGG
1 ATAATAAAAGAAAAAAAAAGG
48397633 ATAATAAAAGAAAAAAAAAGG
1 ATAATAAAAGAAAAAAAAAGG
48397654 GGTTATCACC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.69, C:0.02, G:0.14, T:0.14
Consensus pattern (21 bp):
ATAATAAAAGAAAAAAAAAGG
Found at i:48399340 original size:40 final size:40
Alignment explanation
Indices: 48399222--48399326 Score: 210
Period size: 40 Copynumber: 2.6 Consensus size: 40
48399212 GGATTGATAC
48399222 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
48399262 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
48399302 CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
48399327 AGCTAGTAGC
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 65 1.00
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:48404920 original size:28 final size:28
Alignment explanation
Indices: 48404863--48404945 Score: 105
Period size: 28 Copynumber: 2.9 Consensus size: 28
48404853 GGGCATGATA
*
48404863 GGCCATATGAATATGATTTGGGCCTAATG
1 GGCCATATGAATGTGA-TTGGGCCTAATG
48404892 GGCCATATGAATGTGATTGGGCC-AGATG
1 GGCCATATGAATGTGATTGGGCCTA-ATG
* * *
48404920 GGCCATGTGAACGAGATTGGGCCTAA
1 GGCCATATGAATGTGATTGGGCCTAA
48404946 AGGGGCCAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
27 1 0.02
28 31 0.65
29 16 0.33
ACGTcount: A:0.27, C:0.16, G:0.33, T:0.25
Consensus pattern (28 bp):
GGCCATATGAATGTGATTGGGCCTAATG
Done.