Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 232 of 297
Found at i:79225704 original size:48 final size:48
Alignment explanation
Indices: 79225645--79225740 Score: 183
Period size: 48 Copynumber: 2.0 Consensus size: 48
79225635 AAAAAGGTTC
79225645 TCATGTTGTTGAACTTGGCCGAATAGAAGAAAGAAAAAGAAGGGAAAG
1 TCATGTTGTTGAACTTGGCCGAATAGAAGAAAGAAAAAGAAGGGAAAG
*
79225693 TCATGTTGTTGAACTTGGCCGAATAGAAGAAAGAAAAAGAGGGGAAAG
1 TCATGTTGTTGAACTTGGCCGAATAGAAGAAAGAAAAAGAAGGGAAAG
79225741 AGCTTGGAGA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.43, C:0.08, G:0.30, T:0.19
Consensus pattern (48 bp):
TCATGTTGTTGAACTTGGCCGAATAGAAGAAAGAAAAAGAAGGGAAAG
Found at i:79227719 original size:98 final size:95
Alignment explanation
Indices: 79227432--79228207 Score: 1108
Period size: 98 Copynumber: 7.9 Consensus size: 95
79227422 TAAGATATGT
*
79227432 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATATATATATGAGATATGTATATGTGGTAAAGCC
1 ATATGTGGTAAAGCCGAATGG-T-ATGTGAAATATATATA-GAGATATGTATATGTGGTAAA---
* **
79227497 GACCGAATGGCTAATGTGAAATATATATATGAGATATGT
60 G-CCGAATGGCTAATGTG-AA-ATATGTATGAGATATAC
79227536 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGCC
1 ATATGTGGTAAAGCCGAATGG-T-ATGTGAAATATATATA-GAGATATGTATATGTGGTAAAGCC
* ** *
79227601 GAATGACTAACATGAAATATGTATGAGATATAT
63 GAATGGCTAATGTGAAATATGTATGAGATATAC
* * **
79227634 ATGTGTGGTAAGGCCGAAT-G-ATGTGAAATATGCATA-AGATATGTATATGTGGTAAAGCCGAA
1 ATATGTGGTAAAGCCGAATGGTATGTGAAATATATATAGAGATATGTATATGTGGTAAAGCCGAA
* * **
79227696 TGGCTAATGCGAAATATATATATGAGATATGT
66 TGGCTAATGTG-AA-ATATGTATGAGATATAC
*
79227728 ATATGTGGTAAAGCTGAATGGTTAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGCC
1 ATATGTGGTAAAGCCGAATGG-T-ATGTGAAATATATATA-GAGATATGTATATGTGGTAAAGCC
79227793 GAATGGCTAATGTGAAATATGTATGAGATATAC
63 GAATGGCTAATGTGAAATATGTATGAGATATAC
79227826 ATATGTGGTAAAGCCGAATGGTCAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGCC
1 ATATGTGGTAAAGCCGAATGGT--ATGTGAAATATATATA-GAGATATGTATATGTGGTAAAGCC
79227891 GAATGGCTAATGTGAAATATGTATGAGATATAC
63 GAATGGCTAATGTGAAATATGTATGAGATATAC
79227924 ATATGTGGTAAAGCCGAATGGTCAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGCC
1 ATATGTGGTAAAGCCGAATGGT--ATGTGAAATATATATA-GAGATATGTATATGTGGTAAAGCC
79227989 GAATGGCTAATGTGAAATATGTATGAGATATAC
63 GAATGGCTAATGTGAAATATGTATGAGATATAC
79228022 ATATGTGGTAAAGCCGAATGGTCAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGCC
1 ATATGTGGTAAAGCCGAATGGT--ATGTGAAATATATATA-GAGATATGTATATGTGGTAAAGCC
79228087 GAATGGCTAATGTGAAATATGTATGAGATATAC
63 GAATGGCTAATGTGAAATATGTATGAGATATAC
79228120 ATATGTGGTAAAGCCGAATGGTCAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGCC
1 ATATGTGGTAAAGCCGAATGGT--ATGTGAAATATATATA-GAGATATGTATATGTGGTAAAGCC
*
79228185 GAATGGCTAGTGTGAAATATGTA
63 GAATGGCTAATGTGAAATATGTA
79228208 GGCGATGTGT
Statistics
Matches: 636, Mismatches: 27, Indels: 24
0.93 0.04 0.03
Matches are distributed among these distances:
92 33 0.05
93 2 0.00
94 45 0.07
95 1 0.00
97 2 0.00
98 438 0.69
99 4 0.01
100 49 0.08
101 1 0.00
104 61 0.10
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.31
Consensus pattern (95 bp):
ATATGTGGTAAAGCCGAATGGTATGTGAAATATATATAGAGATATGTATATGTGGTAAAGCCGAA
TGGCTAATGTGAAATATGTATGAGATATAC
Found at i:79227988 original size:196 final size:197
Alignment explanation
Indices: 79227432--79228207 Score: 1239
Period size: 196 Copynumber: 3.9 Consensus size: 197
79227422 TAAGATATGT
*
79227432 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATATATATATGAGATATGTATATGTGGTAAAGCC
1 ATATGTGGTAAAGCCGAATGGC-AATGTGAAATATATATATGAGATATGTATATGTGGTAAA---
**
79227497 GACCGAATGGCTAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGCCGAATGG-CTAA
62 G-CCGAATGGCTAATGTGAAATATATATATGAGATATACATATGTGGTAAAGCCGAATGGTC-AA
* **
79227561 TGTGAAATATATATATGAGATATGTATATGTGGTAAAGCCGAATGACTAACATGAAATATGTATG
125 TGTGAAATATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
*
79227626 AGATATAT
190 AGATATAC
* * **
79227634 ATGTGTGGTAAGGCCGAAT-G--ATGTGAAATATGCATA--AGATATGTATATGTGGTAAAGCCG
1 ATATGTGGTAAAGCCGAATGGCAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGCCG
* ** * *
79227694 AATGGCTAATGCGAAATATATATATGAGATATGTATATGTGGTAAAGCTGAATGGTTAATGTGAA
66 AATGGCTAATGTGAAATATATATATGAGATATACATATGTGGTAAAGCCGAATGGTCAATGTGAA
79227759 ATATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAT
131 ATATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAT
79227824 AC
196 AC
79227826 ATATGTGGTAAAGCCGAATGGTCAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGCC
1 ATATGTGGTAAAGCCGAATGG-CAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGCC
*
79227891 GAATGGCTAATGTG-AA-ATATGTATGAGATATACATATGTGGTAAAGCCGAATGGTCAATGTGA
65 GAATGGCTAATGTGAAATATATATATGAGATATACATATGTGGTAAAGCCGAATGGTCAATGTGA
79227954 AATATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATA
130 AATATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATA
79228019 TAC
195 TAC
79228022 ATATGTGGTAAAGCCGAATGGTCAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGCC
1 ATATGTGGTAAAGCCGAATGG-CAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGCC
*
79228087 GAATGGCTAATGTG-AA-ATATGTATGAGATATACATATGTGGTAAAGCCGAATGGTCAATGTGA
65 GAATGGCTAATGTGAAATATATATATGAGATATACATATGTGGTAAAGCCGAATGGTCAATGTGA
*
79228150 AATATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
130 AATATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
79228208 GGCGATGTGT
Statistics
Matches: 544, Mismatches: 23, Indels: 20
0.93 0.04 0.03
Matches are distributed among these distances:
192 144 0.26
193 2 0.00
196 329 0.60
197 2 0.00
198 49 0.09
201 1 0.00
202 17 0.03
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.31
Consensus pattern (197 bp):
ATATGTGGTAAAGCCGAATGGCAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGCCG
AATGGCTAATGTGAAATATATATATGAGATATACATATGTGGTAAAGCCGAATGGTCAATGTGAA
ATATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAT
AC
Found at i:79228223 original size:50 final size:50
Alignment explanation
Indices: 79227424--79228204 Score: 1116
Period size: 50 Copynumber: 15.9 Consensus size: 50
79227414 TTGATGCATA
*
79227424 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGCGAAATATATATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
79227474 AGATATGTATATGTGGTAAAGCCGACCGAATGGCTAATGTGAAATATATATATG
1 AGATATGTATATGTGGTAAA---G-CCGAATGGCTAATGTGAAATATATATATG
79227528 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
* ** *
79227578 AGATATGTATATGTGGTAAAGCCGAATGACTAACATG-AA-ATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
* * * **
79227626 AGATATATATGTGTGGTAAGGCCGAAT-G---ATGTGAAATATGCATA--
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
*
79227670 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGCGAAATATATATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
* *
79227720 AGATATGTATATGTGGTAAAGCTGAATGGTTAATGTGAAATATATATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
*
79227770 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
**
79227818 AGATATACATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCT-AATGTGAAATATATATATG
*
79227868 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
**
79227916 AGATATACATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCT-AATGTGAAATATATATATG
*
79227966 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
**
79228014 AGATATACATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCT-AATGTGAAATATATATATG
*
79228064 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
**
79228112 AGATATACATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCT-AATGTGAAATATATATATG
*
79228162 AGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATAT
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATAT
79228205 GTAGGCGATG
Statistics
Matches: 653, Mismatches: 50, Indels: 56
0.86 0.07 0.07
Matches are distributed among these distances:
44 27 0.04
45 3 0.00
46 4 0.01
47 4 0.01
48 209 0.32
49 18 0.03
50 334 0.51
51 5 0.01
53 1 0.00
54 48 0.07
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.31
Consensus pattern (50 bp):
AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
Found at i:79228399 original size:37 final size:37
Alignment explanation
Indices: 79228349--79228456 Score: 162
Period size: 37 Copynumber: 2.9 Consensus size: 37
79228339 GGAAATATAT
79228349 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
79228386 TCCGGGTAAGACCCGATGACTATGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * * *
79228423 TCCGGGTAAGACCTGATAACTTCGTATGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
79228457 TCATCTGAAC
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.24, C:0.18, G:0.31, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:79229968 original size:28 final size:28
Alignment explanation
Indices: 79229936--79229995 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 28
79229926 TTGTGTTGAA
*
79229936 TGATTTATAAGAATGAATGCTTTATGTT
1 TGATTTATAAGAATAAATGCTTTATGTT
* *
79229964 TGATTTATGAGAATAAATGTTTTATGTT
1 TGATTTATAAGAATAAATGCTTTATGTT
79229992 TGAT
1 TGAT
79229996 AAATGTATGC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.32, C:0.02, G:0.18, T:0.48
Consensus pattern (28 bp):
TGATTTATAAGAATAAATGCTTTATGTT
Found at i:79236142 original size:40 final size:40
Alignment explanation
Indices: 79236079--79236171 Score: 132
Period size: 40 Copynumber: 2.3 Consensus size: 40
79236069 CAGTTATTTG
* * * *
79236079 TGGCACTTAGTGTGCGATACAACATATCGTCGGCTATATA
1 TGGCACTTAGTGTACGATACAACAGAGCGTCAGCTATATA
* *
79236119 TGGCACTTAGTGTACGATTCAACAGAGCTTCAGCTATATA
1 TGGCACTTAGTGTACGATACAACAGAGCGTCAGCTATATA
79236159 TGGCACTTAGTGT
1 TGGCACTTAGTGT
79236172 GCAACTTGAG
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (40 bp):
TGGCACTTAGTGTACGATACAACAGAGCGTCAGCTATATA
Found at i:79236188 original size:40 final size:39
Alignment explanation
Indices: 79236079--79236213 Score: 119
Period size: 40 Copynumber: 3.4 Consensus size: 39
79236069 CAGTTATTTG
* * * * *
79236079 TGGCACTTAGTGTGCGATACAACATATCGTCGGCTATATA
1 TGGCACTTAGTGTGCAATTCAACAGAGCTTC-GCTATATA
* *
79236119 TGGCACTTAGTGTACGATTCAACAGAGCTTCAGCTATATA
1 TGGCACTTAGTGTGCAATTCAACAGAGCTTC-GCTATATA
* * * *
79236159 TGGCACTTAGTGTGCAACTT-GAGATAGCTTCGACTATGTA
1 TGGCACTTAGTGTGCAA-TTCAACAGAGCTTCG-CTATATA
*
79236199 CGGCACTTAGTGTGC
1 TGGCACTTAGTGTGC
79236214 TAGATATCAA
Statistics
Matches: 80, Mismatches: 13, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
39 1 0.01
40 77 0.96
41 2 0.03
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (39 bp):
TGGCACTTAGTGTGCAATTCAACAGAGCTTCGCTATATA
Found at i:79239268 original size:45 final size:45
Alignment explanation
Indices: 79239204--79239289 Score: 138
Period size: 45 Copynumber: 1.9 Consensus size: 45
79239194 TATGAAATAT
79239204 GAACTCATTAAGTTGTGGTCT-GAGTTCATGATATATGTGACGTCC
1 GAACTCATTAAGTTGTGGTCTAG-GTTCATGATATATGTGACGTCC
* *
79239249 GAACTCATTGAGTTGTGGTCTAGGTTCGTGATATATGTGAC
1 GAACTCATTAAGTTGTGGTCTAGGTTCATGATATATGTGAC
79239290 ACATGTTTTG
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
45 37 0.97
46 1 0.03
ACGTcount: A:0.23, C:0.14, G:0.27, T:0.36
Consensus pattern (45 bp):
GAACTCATTAAGTTGTGGTCTAGGTTCATGATATATGTGACGTCC
Found at i:79242922 original size:40 final size:40
Alignment explanation
Indices: 79242848--79243109 Score: 465
Period size: 40 Copynumber: 6.6 Consensus size: 40
79242838 AACCCAAGTA
* *
79242848 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
79242887 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
79242927 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
79242967 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
79243007 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
79243047 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
79243087 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
79243110 CATTCGAATA
Statistics
Matches: 215, Mismatches: 6, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
39 12 0.06
40 202 0.94
41 1 0.00
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:79252905 original size:76 final size:76
Alignment explanation
Indices: 79252811--79252962 Score: 277
Period size: 76 Copynumber: 2.0 Consensus size: 76
79252801 TAGTGTGGGC
* *
79252811 GACTTCGACCTTGACACTCCCGAGTCTGATAGCTGACGAACCAAAATCTATAAAACAGAGAATCA
1 GACTTCGACCTTGACACTCCCGAGTCCGATAGCTGACGAACCAAAATCTATAAAACAGAGAAACA
79252876 AAGAAACGGAA
66 AAGAAACGGAA
*
79252887 GACTTCGACCTTGACACTCCCGAGTCCGATAGTTGACGAACCAAAATCTATAAAACAGAGAAACA
1 GACTTCGACCTTGACACTCCCGAGTCCGATAGCTGACGAACCAAAATCTATAAAACAGAGAAACA
79252952 AAGAAACGGAA
66 AAGAAACGGAA
79252963 TAAGCATTTA
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
76 73 1.00
ACGTcount: A:0.41, C:0.24, G:0.18, T:0.16
Consensus pattern (76 bp):
GACTTCGACCTTGACACTCCCGAGTCCGATAGCTGACGAACCAAAATCTATAAAACAGAGAAACA
AAGAAACGGAA
Found at i:79253352 original size:40 final size:40
Alignment explanation
Indices: 79253278--79253499 Score: 331
Period size: 40 Copynumber: 5.6 Consensus size: 40
79253268 AACCCAAGTA
* * *
79253278 CCTTCGAGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
79253317 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
79253357 CCTTCGGGACTTGGCCCGGATATAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
79253397 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
79253437 ACTTCAGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
79253477 CCTTTGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
79253500 CATTCGAATA
Statistics
Matches: 165, Mismatches: 16, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
39 11 0.07
40 153 0.93
41 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:79255924 original size:12 final size:12
Alignment explanation
Indices: 79255907--79255938 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
79255897 CTCATTTATT
79255907 CACACTTTACCA
1 CACACTTTACCA
79255919 CACACTTTA-CA
1 CACACTTTACCA
79255930 -ACACTTTAC
1 CACACTTTAC
79255939 AAATAAGTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
10 8 0.42
11 2 0.11
12 9 0.47
ACGTcount: A:0.34, C:0.38, G:0.00, T:0.28
Consensus pattern (12 bp):
CACACTTTACCA
Found at i:79257462 original size:3 final size:3
Alignment explanation
Indices: 79257454--79257489 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
79257444 TGTCTTAGAG
79257454 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
79257490 AAGGAAGAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:79258491 original size:19 final size:17
Alignment explanation
Indices: 79258448--79258486 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
79258438 TGAGATATAT
79258448 TAACATTTTTTATACAC
1 TAACATTTTTTATACAC
*
79258465 TAACATTTTTTATACCC
1 TAACATTTTTTATACAC
79258482 TAACA
1 TAACA
79258487 CATTTCCTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.44
Consensus pattern (17 bp):
TAACATTTTTTATACAC
Found at i:79259859 original size:40 final size:40
Alignment explanation
Indices: 79259815--79259895 Score: 144
Period size: 40 Copynumber: 2.0 Consensus size: 40
79259805 TTAATTTTTG
79259815 GACTTTATTAAACTCATCTTAGTTAATTATTGATTTGCTA
1 GACTTTATTAAACTCATCTTAGTTAATTATTGATTTGCTA
**
79259855 GACTTTATTTTACTCATCTTAGTTAATTATTGATTTGCTA
1 GACTTTATTAAACTCATCTTAGTTAATTATTGATTTGCTA
79259895 G
1 G
79259896 TGTAACAGCC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.27, C:0.12, G:0.11, T:0.49
Consensus pattern (40 bp):
GACTTTATTAAACTCATCTTAGTTAATTATTGATTTGCTA
Found at i:79262511 original size:21 final size:22
Alignment explanation
Indices: 79262472--79262512 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
79262462 TTGGAATGGT
79262472 CACACGGGCGTGTTGCCCCTCC
1 CACACGGGCGTGTTGCCCCTCC
*
79262494 CACATGGGCGTG-TGCCCCT
1 CACACGGGCGTGTTGCCCCT
79262513 GTGTCAAGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.10, C:0.41, G:0.29, T:0.20
Consensus pattern (22 bp):
CACACGGGCGTGTTGCCCCTCC
Found at i:79266814 original size:40 final size:40
Alignment explanation
Indices: 79266712--79266814 Score: 161
Period size: 40 Copynumber: 2.6 Consensus size: 40
79266702 TAGTTTGATA
* * **
79266712 ATTGAGTTGCTAGACTTTATTAAACTCATCTTAGTTAATT
1 ATTGATTTGCTGGACTTTATTTTACTCATCTTAGTTAATT
79266752 ATTGATTTGCTGGACTTTATTTTACTCATCTTAGTTAATT
1 ATTGATTTGCTGGACTTTATTTTACTCATCTTAGTTAATT
*
79266792 ATTGATTTGCTGGACTTCATTTT
1 ATTGATTTGCTGGACTTTATTTT
79266815 CATTAAACTC
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 58 1.00
ACGTcount: A:0.24, C:0.13, G:0.14, T:0.50
Consensus pattern (40 bp):
ATTGATTTGCTGGACTTTATTTTACTCATCTTAGTTAATT
Found at i:79267110 original size:24 final size:24
Alignment explanation
Indices: 79267074--79267146 Score: 73
Period size: 24 Copynumber: 3.1 Consensus size: 24
79267064 TTAATGCGGC
*
79267074 TATTACATTACTTAAAGAAGAGCAT
1 TATTACATCACTTAAAG-AGAGCAT
*
79267099 TATT-CATCACTTAAAG-GA-C-C
1 TATTACATCACTTAAAGAGAGCAT
*
79267119 TATTACATCATTTAAAGGAGAGCAT
1 TATTACATCACTTAAA-GAGAGCAT
79267144 TAT
1 TAT
79267147 ATATCCTTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
20 4 0.10
21 11 0.28
22 3 0.08
23 2 0.05
24 12 0.31
25 7 0.18
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (24 bp):
TATTACATCACTTAAAGAGAGCAT
Found at i:79267133 original size:21 final size:20
Alignment explanation
Indices: 79267099--79267137 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
79267089 AGAAGAGCAT
79267099 TATTCATCACTTAAAGGACC
1 TATTCATCACTTAAAGGACC
*
79267119 TATTACATCATTTAAAGGA
1 TATT-CATCACTTAAAGGA
79267138 GAGCATTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.38, C:0.18, G:0.10, T:0.33
Consensus pattern (20 bp):
TATTCATCACTTAAAGGACC
Found at i:79268603 original size:13 final size:13
Alignment explanation
Indices: 79268585--79268611 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
79268575 TTTAAATACC
79268585 AAATTAAATTTTG
1 AAATTAAATTTTG
79268598 AAATTAAATTTTG
1 AAATTAAATTTTG
79268611 A
1 A
79268612 TATCAAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.44
Consensus pattern (13 bp):
AAATTAAATTTTG
Found at i:79269033 original size:25 final size:25
Alignment explanation
Indices: 79269005--79269052 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
79268995 TTATTCATTT
79269005 ATTAAAAATAGTAATTAAAAAATAA
1 ATTAAAAATAGTAATTAAAAAATAA
** **
79269030 ATTAATTATTTTAATTAAAAAAT
1 ATTAAAAATAGTAATTAAAAAAT
79269053 TATTTATTTC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (25 bp):
ATTAAAAATAGTAATTAAAAAATAA
Found at i:79269043 original size:21 final size:20
Alignment explanation
Indices: 79269019--79269066 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 20
79269009 AAAATAGTAA
79269019 TTAAAAAATAAATTAATTATT
1 TTAAAAAA-AAATTAATTATT
* *
79269040 TTAATTAAAAAATTATTTATT
1 TTAA-AAAAAAATTAATTATT
79269061 TCTAAA
1 T-TAAA
79269067 TTAAAAACTA
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (20 bp):
TTAAAAAAAAATTAATTATT
Found at i:79269174 original size:17 final size:17
Alignment explanation
Indices: 79269152--79269185 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
79269142 TTTTTAATAA
*
79269152 TAAAAATAAATAAATTT
1 TAAAAAAAAATAAATTT
*
79269169 TAAAAAAAAATTAATTT
1 TAAAAAAAAATAAATTT
79269186 AATTTTTAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
TAAAAAAAAATAAATTT
Found at i:79269192 original size:23 final size:23
Alignment explanation
Indices: 79269141--79269216 Score: 66
Period size: 23 Copynumber: 3.2 Consensus size: 23
79269131 ATAGATATCT
79269141 ATTTTTAATAATAAAAATAAATA
1 ATTTTTAATAATAAAAATAAATA
* *
79269164 AATTTTAA-AA-AAAAATTAATTTA
1 ATTTTTAATAATAAAAA-TAA-ATA
*
79269187 ATTTTTAATCTAATATAAATAAATTA
1 ATTTTTAA--TAATAAAAATAAA-TA
79269213 ATTT
1 ATTT
79269217 ATCTATTTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
21 5 0.12
22 5 0.12
23 16 0.39
26 11 0.27
27 4 0.10
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.43
Consensus pattern (23 bp):
ATTTTTAATAATAAAAATAAATA
Found at i:79270957 original size:20 final size:20
Alignment explanation
Indices: 79270932--79270971 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
79270922 TGAATGAAAA
79270932 TTGAAAGTGATTAAATTAAG
1 TTGAAAGTGATTAAATTAAG
79270952 TTGAAAGTGATTAAATTAAG
1 TTGAAAGTGATTAAATTAAG
79270972 GTTTAATTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.20, T:0.35
Consensus pattern (20 bp):
TTGAAAGTGATTAAATTAAG
Found at i:79277584 original size:15 final size:15
Alignment explanation
Indices: 79277561--79277596 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
79277551 CTAGGACTGA
79277561 TGGGCCGATTAGAGC
1 TGGGCCGATTAGAGC
*
79277576 TGGGTCGATTAGAGC
1 TGGGCCGATTAGAGC
79277591 TGGGCC
1 TGGGCC
79277597 CCTTGTTGCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.17, C:0.19, G:0.42, T:0.22
Consensus pattern (15 bp):
TGGGCCGATTAGAGC
Found at i:79288157 original size:18 final size:18
Alignment explanation
Indices: 79288134--79288172 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
79288124 TACGAAAGGG
79288134 AGTTTGTAAGGCTAAGTC
1 AGTTTGTAAGGCTAAGTC
79288152 AGTTTGTAAGGCTAAGTC
1 AGTTTGTAAGGCTAAGTC
79288170 AGT
1 AGT
79288173 ATGCGACTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.28, C:0.10, G:0.28, T:0.33
Consensus pattern (18 bp):
AGTTTGTAAGGCTAAGTC
Found at i:79290421 original size:47 final size:47
Alignment explanation
Indices: 79290358--79290562 Score: 279
Period size: 47 Copynumber: 4.3 Consensus size: 47
79290348 CCCTTCGGGA
* * *
79290358 CTTATCACATTTATACACT-TCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
*
79290405 CTTATCACATATATACACT-TTCACATTCAACACATTGGCCATTCGGC
1 CTTATCACATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
* *
79290452 CTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* * *
79290499 CTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCAGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
79290546 CTTATCACGCATATATA
1 CTTATCA--CATATATA
79290563 TACTGTAACA
Statistics
Matches: 141, Mismatches: 14, Indels: 4
0.89 0.09 0.03
Matches are distributed among these distances:
46 1 0.01
47 134 0.95
49 6 0.04
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
Found at i:79291934 original size:27 final size:27
Alignment explanation
Indices: 79291904--79291972 Score: 93
Period size: 27 Copynumber: 2.6 Consensus size: 27
79291894 ATATTGAGTC
* * *
79291904 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAAAT
* *
79291931 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
79291958 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
79291973 GTACAATTTA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.32, C:0.29, G:0.14, T:0.25
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAAAT
Found at i:79295352 original size:21 final size:21
Alignment explanation
Indices: 79295318--79295358 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
79295308 AAAATACAAG
*
79295318 TGAAAAAGAAGAAAATGAAAA
1 TGAAAAAGAAGAAAAGGAAAA
**
79295339 TGAAAAAGGCGAAAAGGAAA
1 TGAAAAAGAAGAAAAGGAAA
79295359 GCGAGAGAGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.66, C:0.02, G:0.24, T:0.07
Consensus pattern (21 bp):
TGAAAAAGAAGAAAAGGAAAA
Found at i:79301829 original size:42 final size:42
Alignment explanation
Indices: 79301770--79301852 Score: 148
Period size: 42 Copynumber: 2.0 Consensus size: 42
79301760 AAATTCAAAG
79301770 GGATAAGAACAAGAGTTCAAATGTTTGAAATTCAAACGTTTT
1 GGATAAGAACAAGAGTTCAAATGTTTGAAATTCAAACGTTTT
* *
79301812 GGATAAGAACAAGAGTTCAAATGTTTGAATTTCAAATGTTT
1 GGATAAGAACAAGAGTTCAAATGTTTGAAATTCAAACGTTT
79301853 CACACATATT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.40, C:0.08, G:0.19, T:0.33
Consensus pattern (42 bp):
GGATAAGAACAAGAGTTCAAATGTTTGAAATTCAAACGTTTT
Found at i:79302560 original size:46 final size:43
Alignment explanation
Indices: 79302467--79302560 Score: 100
Period size: 45 Copynumber: 2.1 Consensus size: 43
79302457 TTATATATTG
** *
79302467 ATCAAAGTTAAAAAAAAGCAAAAAAACAAAAAAAAATTCGAAT
1 ATCAAAGTTAAAAAAAAGCAAAAAAACAAAAAAAAATAAGAAA
* *
79302510 ATCAAAGTTTAAAAGAAAAAG-AAAAAAAGAAAAAAAATATAATAAA
1 ATCAAAG-TT-AAA-AAAAAGCAAAAAAACAAAAAAAA-ATAAGAAA
79302556 ATCAA
1 ATCAA
79302561 TTTTTGACAT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
43 7 0.17
44 2 0.05
45 18 0.43
46 15 0.36
ACGTcount: A:0.71, C:0.06, G:0.07, T:0.15
Consensus pattern (43 bp):
ATCAAAGTTAAAAAAAAGCAAAAAAACAAAAAAAAATAAGAAA
Found at i:79305031 original size:40 final size:40
Alignment explanation
Indices: 79304987--79305250 Score: 360
Period size: 40 Copynumber: 6.7 Consensus size: 40
79304977 GCTCCTCGTT
* *
79304987 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
79305027 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
79305067 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
79305107 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
79305147 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
79305186 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TTAGTAAC-TCGCA
79305227 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
79305251 CATCATTCAA
Statistics
Matches: 206, Mismatches: 12, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
38 2 0.01
39 49 0.24
40 146 0.71
41 9 0.04
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:79315690 original size:20 final size:20
Alignment explanation
Indices: 79315644--79315690 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
79315634 AGCTCGTTTC
*
79315644 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* *
79315664 CAACTCACTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
79315684 CAGCTCA
1 CAGCTCA
79315691 AGTGAAATAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.36, G:0.13, T:0.21
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:79319773 original size:10 final size:10
Alignment explanation
Indices: 79319745--79319774 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
79319735 AGCCCTATTG
79319745 AGCTCATTTC
1 AGCTCATTTC
79319755 AGCTACATTTC
1 AGCT-CATTTC
79319766 AGCTCATTT
1 AGCTCATTT
79319775 ATTTTATTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.23, C:0.27, G:0.10, T:0.40
Consensus pattern (10 bp):
AGCTCATTTC
Found at i:79321144 original size:16 final size:17
Alignment explanation
Indices: 79321123--79321162 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
79321113 AGAAGAAATT
79321123 AAAAAAAAT-CG-AGTA
1 AAAAAAAATACGAAGTA
*
79321138 AAAAAAAGTACGAAGTA
1 AAAAAAAATACGAAGTA
79321155 AAAAAAAA
1 AAAAAAAA
79321163 GAAAAAAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 8 0.38
16 2 0.10
17 11 0.52
ACGTcount: A:0.72, C:0.05, G:0.12, T:0.10
Consensus pattern (17 bp):
AAAAAAAATACGAAGTA
Found at i:79325597 original size:30 final size:32
Alignment explanation
Indices: 79325563--79325648 Score: 83
Period size: 30 Copynumber: 2.8 Consensus size: 32
79325553 TTCTCGTGCA
79325563 AGCTCATTTCAGCTCCATTTCAGCTCCT-CT-
1 AGCTCATTTCAGCTCCATTTCAGCTCCTACTG
* * * *
79325593 AGCTCGTTTCAACTCCGA--CCAGCT-CTATTG
1 AGCTCATTTCAGCTCC-ATTTCAGCTCCTACTG
*
79325623 AGCTCATTTCAGCTACATTTCAGCTC
1 AGCTCATTTCAGCTCCATTTCAGCTC
79325649 ATTTATTTTA
Statistics
Matches: 42, Mismatches: 8, Indels: 10
0.70 0.13 0.17
Matches are distributed among these distances:
28 2 0.05
29 7 0.17
30 27 0.64
31 6 0.14
ACGTcount: A:0.20, C:0.34, G:0.13, T:0.34
Consensus pattern (32 bp):
AGCTCATTTCAGCTCCATTTCAGCTCCTACTG
Found at i:79325643 original size:11 final size:10
Alignment explanation
Indices: 79325623--79325652 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
79325613 AGCTCTATTG
79325623 AGCTCATTTC
1 AGCTCATTTC
79325633 AGCTACATTTC
1 AGCT-CATTTC
79325644 AGCTCATTT
1 AGCTCATTT
79325653 ATTTTATTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.23, C:0.27, G:0.10, T:0.40
Consensus pattern (10 bp):
AGCTCATTTC
Found at i:79331515 original size:47 final size:47
Alignment explanation
Indices: 79330985--79331480 Score: 866
Period size: 47 Copynumber: 10.6 Consensus size: 47
79330975 ATACATGAGC
* * * *
79330985 TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATTTGTGTGC
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGA
** * *
79331032 TAAGGCCGAATGGAAAATGTGATGAATGTGAACATGCATTTGTGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGA
* * * *
79331079 TAAGACCGAATGGCCAATGTGATGAATGTGAACTTGCATATGTTTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGA
79331126 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGA
79331173 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGA
79331220 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGA
79331267 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGA
79331314 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGA
79331361 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGA
79331408 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGA
**
79331455 TAAGGTAGAATGGCCAATGTGATGAA
1 TAAGGCCGAATGGCCAATGTGATGAA
79331481 CGTGGAAGTG
Statistics
Matches: 435, Mismatches: 14, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 435 1.00
ACGTcount: A:0.34, C:0.12, G:0.28, T:0.26
Consensus pattern (47 bp):
TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGA
Found at i:79331558 original size:50 final size:47
Alignment explanation
Indices: 79331504--79331634 Score: 174
Period size: 46 Copynumber: 2.7 Consensus size: 47
79331494 ATATGTGGCG
*
79331504 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGACGGATATGAGGTA
1 AAGCCGAATGGCTAATGCGAAACGTGTATGAGAT-G--GGATATGAGGGA
*
79331554 AAGCCGAATGGCTAATGCAAAACGTGTATGAGAT-GGATATGAGGGA
1 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGGATATGAGGGA
* * **
79331600 AAGCCGAATGGCTAATGTGAGATATGTATGAGATG
1 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATG
79331635 TGTATATATA
Statistics
Matches: 73, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
46 40 0.55
50 33 0.45
ACGTcount: A:0.35, C:0.11, G:0.33, T:0.21
Consensus pattern (47 bp):
AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGGATATGAGGGA
Found at i:79331609 original size:46 final size:47
Alignment explanation
Indices: 79331504--79331616 Score: 174
Period size: 50 Copynumber: 2.4 Consensus size: 47
79331494 ATATGTGGCG
* *
79331504 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGACGGATATGAGGTA
1 AAGCCGAATGGCTAATGCAAAACGTGTATGAGAT-G--GGATATGAGGGA
79331554 AAGCCGAATGGCTAATGCAAAACGTGTATGAGAT-GGATATGAGGGA
1 AAGCCGAATGGCTAATGCAAAACGTGTATGAGATGGGATATGAGGGA
79331600 AAGCCGAATGGCTAATG
1 AAGCCGAATGGCTAATG
79331617 TGAGATATGT
Statistics
Matches: 61, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
46 28 0.46
50 33 0.54
ACGTcount: A:0.35, C:0.12, G:0.33, T:0.19
Consensus pattern (47 bp):
AAGCCGAATGGCTAATGCAAAACGTGTATGAGATGGGATATGAGGGA
Found at i:79334455 original size:64 final size:64
Alignment explanation
Indices: 79334374--79334557 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
79334364 AGACATTATG
* *
79334374 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAC
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
79334438 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
79334503 AA
63 AA
* * * *
79334505 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
79334558 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.18, G:0.30, T:0.22
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:79336304 original size:35 final size:35
Alignment explanation
Indices: 79336258--79336327 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
79336248 TATTTTAGTT
79336258 TAATGTTTGTATGTTTGTCTGGTAACGCCTCGTAC
1 TAATGTTTGTATGTTTGTCTGGTAACGCCTCGTAC
79336293 TAATGTTTGTATGTTTGTCTGGTAACGCCTCGTAC
1 TAATGTTTGTATGTTTGTCTGGTAACGCCTCGTAC
79336328 CTTAGCCCGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.17, C:0.17, G:0.23, T:0.43
Consensus pattern (35 bp):
TAATGTTTGTATGTTTGTCTGGTAACGCCTCGTAC
Found at i:79338999 original size:43 final size:43
Alignment explanation
Indices: 79338948--79339085 Score: 156
Period size: 43 Copynumber: 3.2 Consensus size: 43
79338938 ATATGATTTT
79338948 ATGTAAGACCCTGTCTGGGACAGAGGCATCGATATTGAATTAC
1 ATGTAAGACCCTGTCTGGGACAGAGGCATCGATATTGAATTAC
* * * * * *
79338991 ATATAAGACCATGTCTAGGACATCA-GCATTG-TATCTG-ATTTC
1 ATGTAAGACCCTGTCTGGGACA-GAGGCATCGATAT-TGAATTAC
* * *
79339033 ATGTAAGACCCTATCTGGGACGGAGGCATCAATATTGAATTAC
1 ATGTAAGACCCTGTCTGGGACAGAGGCATCGATATTGAATTAC
79339076 ATGTAAGACC
1 ATGTAAGACC
79339086 ATATCCGGGA
Statistics
Matches: 75, Mismatches: 15, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
41 1 0.01
42 30 0.40
43 43 0.57
44 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.28
Consensus pattern (43 bp):
ATGTAAGACCCTGTCTGGGACAGAGGCATCGATATTGAATTAC
Found at i:79339115 original size:85 final size:85
Alignment explanation
Indices: 79338931--79339108 Score: 257
Period size: 85 Copynumber: 2.1 Consensus size: 85
79338921 GGTGTTACAT
* * * * *
79338931 GCATCGTATATGATTTTATGTAAGACCCTGTCTGGGACAGAGGCATCGATATTGAATTACATATA
1 GCATTGTATCTGATTTCATGTAAGACCCTATCTGGGACAGAGGCATCAATATTGAATTACATATA
* *
79338996 AGACCATGTCTAGGACATCA
66 AGACCATATCCAGGACATCA
* *
79339016 GCATTGTATCTGATTTCATGTAAGACCCTATCTGGGACGGAGGCATCAATATTGAATTACATGTA
1 GCATTGTATCTGATTTCATGTAAGACCCTATCTGGGACAGAGGCATCAATATTGAATTACATATA
* *
79339081 AGACCATATCCGGGACGTCA
66 AGACCATATCCAGGACATCA
79339101 GCATTGTA
1 GCATTGTA
79339109 CTTGATTATA
Statistics
Matches: 82, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
85 82 1.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (85 bp):
GCATTGTATCTGATTTCATGTAAGACCCTATCTGGGACAGAGGCATCAATATTGAATTACATATA
AGACCATATCCAGGACATCA
Found at i:79342415 original size:86 final size:86
Alignment explanation
Indices: 79342270--79342441 Score: 317
Period size: 86 Copynumber: 2.0 Consensus size: 86
79342260 TGATTTCAAT
* *
79342270 AGCTCCGTATAGAATGGCTCTGATCGAGTTAAAAGAATTAAAATCTCAGTTGCAAGAATTGACCG
1 AGCTCCGTATAGAATGGCTCCGATCGAGTTAAAAGAATTAAAATCTCAGTTCCAAGAATTGACCG
79342335 ATCGAGGGTTTGCTAGATCGA
66 ATCGAGGGTTTGCTAGATCGA
*
79342356 AGCTCCGTATAGAATGGCTCCGATCGAGTTAAAAGGATTAAAATCTCAGTTCCAAGAATTGACCG
1 AGCTCCGTATAGAATGGCTCCGATCGAGTTAAAAGAATTAAAATCTCAGTTCCAAGAATTGACCG
79342421 ATCGAGGGTTTGCTAGATCGA
66 ATCGAGGGTTTGCTAGATCGA
79342442 GTTTTTCACC
Statistics
Matches: 83, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
86 83 1.00
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.26
Consensus pattern (86 bp):
AGCTCCGTATAGAATGGCTCCGATCGAGTTAAAAGAATTAAAATCTCAGTTCCAAGAATTGACCG
ATCGAGGGTTTGCTAGATCGA
Found at i:79346474 original size:43 final size:42
Alignment explanation
Indices: 79346327--79346561 Score: 163
Period size: 43 Copynumber: 5.5 Consensus size: 42
79346317 TCTGAGATAT
* * * * *
79346327 CGTGTAAGACCGTGTCTGGGACACATGCCTCGAT-TGAGATTCA
1 CGTGTAAGACCATGTCTGGGACAGAGGCATCGATATTA-ATT-A
* ** *
79346370 CGTATAAGACCATG-CATGGGACATCGGCATC-ATATCTAATTT
1 CGTGTAAGACCATGTC-TGGGACAGAGGCATCGATAT-TAATTA
* *
79346412 CGTGTAAGACCCTATCTGGGACAGAGGCATCGATATTGAATTA
1 CGTGTAAGACCATGTCTGGGACAGAGGCATCGATATT-AATTA
* * ** * * *
79346455 CATATAAGACCATGTCTGGGACATCGACATCG-TACCTAATTT
1 CGTGTAAGACCATGTCTGGGACAGAGGCATCGATA-TTAATTA
* *
79346497 TGTGTAAGACCCTGTCTGGGACAGAGGCATCGATATTTAATTA
1 CGTGTAAGACCATGTCTGGGACAGAGGCATCGATA-TTAATTA
* * * *
79346540 CATGCAAGACCACGTCCGGGAC
1 CGTGTAAGACCATGTCTGGGAC
79346562 GTTGGCATTG
Statistics
Matches: 145, Mismatches: 39, Indels: 16
0.73 0.19 0.08
Matches are distributed among these distances:
42 59 0.41
43 85 0.59
44 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (42 bp):
CGTGTAAGACCATGTCTGGGACAGAGGCATCGATATTAATTA
Found at i:79346475 original size:85 final size:85
Alignment explanation
Indices: 79346326--79346561 Score: 289
Period size: 85 Copynumber: 2.8 Consensus size: 85
79346316 GTCTGAGATA
* * * * *
79346326 TCGTGTAAGACCGTGTCTGGGACACATGCCTCG--ATTGAGATTCACGTATAAGACCATG-CATG
1 TCGTGTAAGACCCTGTCTGGGACAGAGGCATCGATATTGA-ATT-ACATATAAGACCATGTC-TG
* *
79346388 GGACATCGGCATCATATCTAATT
63 GGACATCGACATCATACCTAATT
*
79346411 TCGTGTAAGACCCTATCTGGGACAGAGGCATCGATATTGAATTACATATAAGACCATGTCTGGGA
1 TCGTGTAAGACCCTGTCTGGGACAGAGGCATCGATATTGAATTACATATAAGACCATGTCTGGGA
*
79346476 CATCGACATCGTACCTAATT
66 CATCGACATCATACCTAATT
* * ** * *
79346496 TTGTGTAAGACCCTGTCTGGGACAGAGGCATCGATATTTAATTACATGCAAGACCACGTCCGGGA
1 TCGTGTAAGACCCTGTCTGGGACAGAGGCATCGATATTGAATTACATATAAGACCATGTCTGGGA
79346561 C
66 C
79346562 GTTGGCATTG
Statistics
Matches: 132, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
85 123 0.93
86 4 0.03
87 5 0.04
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.26
Consensus pattern (85 bp):
TCGTGTAAGACCCTGTCTGGGACAGAGGCATCGATATTGAATTACATATAAGACCATGTCTGGGA
CATCGACATCATACCTAATT
Found at i:79353275 original size:13 final size:13
Alignment explanation
Indices: 79353257--79353290 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
79353247 CCAACCACAT
79353257 GCCCATGTGACTA
1 GCCCATGTGACTA
79353270 GCCCATGTGACTA
1 GCCCATGTGACTA
79353283 GCCCATGT
1 GCCCATGT
79353291 ACCCTTCGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.21, C:0.32, G:0.24, T:0.24
Consensus pattern (13 bp):
GCCCATGTGACTA
Found at i:79354443 original size:7 final size:7
Alignment explanation
Indices: 79354431--79354456 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
79354421 CTCTATCTCA
79354431 TATATTG
1 TATATTG
79354438 TATATTG
1 TATATTG
79354445 TATATTG
1 TATATTG
79354452 TATAT
1 TATAT
79354457 ACACGGTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.58
Consensus pattern (7 bp):
TATATTG
Found at i:79367364 original size:26 final size:26
Alignment explanation
Indices: 79367287--79367397 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
79367277 TTAGTTTACC
* *
79367287 AAATTACCAAAGTACCCCCGATTTATA
1 AAATTACCAAA-TACCCTCGATTTGTA
*
79367314 AAATTACCTAAATATCCTCGATTTGTA
1 AAATTACC-AAATACCCTCGATTTGTA
*
79367341 AAATTACCAAATACCCTC-AGTTTGCA
1 AAATTACCAAATACCCTCGA-TTTGTA
*
79367367 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTAC-CAAATACCCTCGATTTGTA
79367394 AAAT
1 AAAT
79367398 GACTGAAATA
Statistics
Matches: 73, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
25 1 0.01
26 21 0.29
27 47 0.64
28 4 0.05
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.31
Consensus pattern (26 bp):
AAATTACCAAATACCCTCGATTTGTA
Found at i:79367371 original size:53 final size:54
Alignment explanation
Indices: 79367287--79367397 Score: 147
Period size: 53 Copynumber: 2.1 Consensus size: 54
79367277 TTAGTTTACC
* * *
79367287 AAATTACCAAAGTACCCCCGATTTATAAAATTACCT-AAATATCCTCGATTTGTA
1 AAATTACCAAAGTACCCCAGATTTACAAAATTA-CTGAAATACCCTCGATTTGTA
*
79367341 AAATTACCAAA-TACCCTCAG-TTTGCAAAATTACTGAAATACCCTCGATTTGTA
1 AAATTACCAAAGTACCC-CAGATTTACAAAATTACTGAAATACCCTCGATTTGTA
79367394 AAAT
1 AAAT
79367398 GACTGAAATA
Statistics
Matches: 51, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
52 2 0.04
53 36 0.71
54 13 0.25
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.31
Consensus pattern (54 bp):
AAATTACCAAAGTACCCCAGATTTACAAAATTACTGAAATACCCTCGATTTGTA
Found at i:79367458 original size:27 final size:27
Alignment explanation
Indices: 79367420--79367507 Score: 140
Period size: 27 Copynumber: 3.3 Consensus size: 27
79367410 CTTGTAAGAT
79367420 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
* *
79367447 AGAATTATCATTTTACCCTCGATTTAT
1 AGAATTACCATTTTACCCTCGATTTAC
*
79367474 AGAATTACCATTGTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
*
79367501 AAAATTA
1 AGAATTA
79367508 TTGAAATACC
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.33, C:0.22, G:0.08, T:0.38
Consensus pattern (27 bp):
AGAATTACCATTTTACCCTCGATTTAC
Found at i:79367517 original size:27 final size:27
Alignment explanation
Indices: 79367433--79367543 Score: 91
Period size: 27 Copynumber: 4.1 Consensus size: 27
79367423 ATTACCATTT
* **
79367433 TACCCTCGATTTACAGAATTATC-ATTT
1 TACCCTCGATTTACAAAATTATCGA-AA
* * * **
79367460 TACCCTCGATTTATAGAATTA-CCATTG
1 TACCCTCGATTTACAAAATTATCGA-AA
*
79367487 TACCCTCGATTTACAAAATTATTGAAA
1 TACCCTCGATTTACAAAATTATCGAAA
* *
79367514 TACCCTTGGTTTACAAAATTATCGAAA
1 TACCCTCGATTTACAAAATTATCGAAA
79367541 TAC
1 TAC
79367544 TCCTGTAGGG
Statistics
Matches: 71, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
26 1 0.01
27 69 0.97
28 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.09, T:0.36
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTATCGAAA
Found at i:79367534 original size:54 final size:54
Alignment explanation
Indices: 79367422--79367534 Score: 129
Period size: 54 Copynumber: 2.1 Consensus size: 54
79367412 TGTAAGATAG
* * ** * *
79367422 AATTACCATTTTACCCTCGATTTACAGAATTATCATTTTACCCTCGATTTATAG
1 AATTACCATTGTACCCTCGATTTACAAAATTATCATAATACCCTCGATTTACAA
* * *
79367476 AATTACCATTGTACCCTCGATTTACAAAATTATTGA-AATACCCTTGGTTTACAA
1 AATTACCATTGTACCCTCGATTTACAAAATTA-TCATAATACCCTCGATTTACAA
79367530 AATTA
1 AATTA
79367535 TCGAAATACT
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
54 47 0.96
55 2 0.04
ACGTcount: A:0.34, C:0.20, G:0.08, T:0.38
Consensus pattern (54 bp):
AATTACCATTGTACCCTCGATTTACAAAATTATCATAATACCCTCGATTTACAA
Found at i:79367560 original size:27 final size:27
Alignment explanation
Indices: 79367530--79367734 Score: 284
Period size: 27 Copynumber: 7.6 Consensus size: 27
79367520 TGGTTTACAA
* *
79367530 AATTATCGAAATACTCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
79367557 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
79367584 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
79367611 TATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
79367638 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
79367665 AATTACCAAAATACCTCTATACGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
79367692 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
79367719 AATTATCGCAATACCC
1 AATTACCGAAATACCC
79367735 AATTACTGAA
Statistics
Matches: 157, Mismatches: 21, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 157 1.00
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:79367588 original size:54 final size:54
Alignment explanation
Indices: 79367530--79367938 Score: 450
Period size: 54 Copynumber: 7.8 Consensus size: 54
79367520 TGGTTTACAA
* *
79367530 AATTATCGAAATACTCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
1 AATTATCGAAATACCCCTATAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* * *
79367584 AATTATCGCAATACCCCTGTAGGGTAGTATTACCGAAATACCCCTGTAGGGTAG
1 AATTATCGAAATACCCCTATAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* * * * *
79367638 AATTACCGAAATACCCCTATAGGGTAGAATTACCAAAATACCTCTATACGGTAG
1 AATTATCGAAATACCCCTATAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* * * *
79367692 AATTA-CTGAAATACCCTTGTAGGGTAGAATTATCGCAATA-CCC----------
1 AATTATC-GAAATACCCCTATAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* * * *
79367735 AATTA-CTGAAATACTCCTGTAGGGTAAAATTATCGAAATACCCCTGTAGGGTAG
1 AATTATC-GAAATACCCCTATAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
*
79367789 AATTATCGCAATACCCCTATAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
1 AATTATCGAAATACCCCTATAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* * ** *
79367843 AATTATCGTAATACCCCTATAGGGTCGAATTTTCGAAATACCCCAGTAGGGTAG
1 AATTATCGAAATACCCCTATAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* * *
79367897 AATTA-CTAAAATACCCCTATAGGGTGGAATTACCGAGATACC
1 AATTATC-GAAATACCCCTATAGGGTAGAATTACCGAAATACC
79367939 TTGTTGGGTA
Statistics
Matches: 304, Mismatches: 37, Indels: 28
0.82 0.10 0.08
Matches are distributed among these distances:
43 36 0.12
44 3 0.01
53 4 0.01
54 260 0.86
55 1 0.00
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (54 bp):
AATTATCGAAATACCCCTATAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
Found at i:79367588 original size:81 final size:81
Alignment explanation
Indices: 79367528--79367956 Score: 402
Period size: 81 Copynumber: 5.4 Consensus size: 81
79367518 CTTGGTTTAC
* * * *
79367528 AAAATTATCGAAATACTCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATCGC
1 AAAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAGAATTATCGA
79367593 AATACCCCTGTAGGGT
66 AATACCCCTGTAGGGT
** * *
79367609 AGTATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAGAATTACCAA
1 AAAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAGAATTATCGA
* * *
79367674 AATACCTCTATACGGT
66 AATACCCCTGTAGGGT
* * * * *
79367690 AGAATTACTGAAATACCCTTGTAGGGTAGAATTATCGCAATA-CCC----------AATTA-CTG
1 AAAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAGAATTATC-G
*
79367743 AAATACTCCTGTAGGGT
65 AAATACCCCTGTAGGGT
* * * *
79367760 AAAATTATCGAAATACCCCTGTAGGGTAGAATTATCGCAATACCCCTATAGGGTAGAATTACCGA
1 AAAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAGAATTATCGA
79367825 AATACCCCTGTAGGGT
66 AATACCCCTGTAGGGT
* * * * * **
79367841 AGAATTATCGTAATACCCCTATAGGGTCGAATTTTCGAAATACCCC-AGTAGGGTAGAATTA-CT
1 AAAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTA-TAGGGTAGAATTATC-
* *
79367904 AAAATACCCCTATAGGGT
64 GAAATACCCCTGTAGGGT
** * * * *
79367922 GGAATTACCGAGATA-CCTTGTTGGGTAAAATTACC
1 AAAATTACCGAAATACCCCTGTAGGGTAGAATTACC
79367957 ATTTTGCCCC
Statistics
Matches: 288, Mismatches: 45, Indels: 31
0.79 0.12 0.09
Matches are distributed among these distances:
69 1 0.00
70 56 0.19
71 3 0.01
80 18 0.06
81 209 0.73
82 1 0.00
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.26
Consensus pattern (81 bp):
AAAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAGAATTATCGA
AATACCCCTGTAGGGT
Found at i:79367756 original size:43 final size:43
Alignment explanation
Indices: 79367692--79367777 Score: 138
Period size: 43 Copynumber: 2.0 Consensus size: 43
79367682 TATACGGTAG
* *
79367692 AATTACTGAAATACCCTTGTAGGGTAGAATTATCGCAATACCC
1 AATTACTGAAATACCCTTGTAGGGTAAAATTATCGAAATACCC
79367735 AATTACTGAAATACTCC-TGTAGGGTAAAATTATCGAAATACCC
1 AATTACTGAAATAC-CCTTGTAGGGTAAAATTATCGAAATACCC
79367778 CTGTAGGGTA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
43 38 0.95
44 2 0.05
ACGTcount: A:0.37, C:0.20, G:0.15, T:0.28
Consensus pattern (43 bp):
AATTACTGAAATACCCTTGTAGGGTAAAATTATCGAAATACCC
Found at i:79367773 original size:27 final size:27
Alignment explanation
Indices: 79367742--79367938 Score: 243
Period size: 27 Copynumber: 7.3 Consensus size: 27
79367732 CCCAATTACT
* *
79367742 GAAATACTCCTGTAGGGTAAAATTATC
1 GAAATACCCCTGTAGGGTAGAATTATC
79367769 GAAATACCCCTGTAGGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTATC
* * *
79367796 GCAATACCCCTATAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTATC
79367823 GAAATACCCCTGTAGGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTATC
* * * *
79367850 GTAATACCCCTATAGGGTCGAATTTTC
1 GAAATACCCCTGTAGGGTAGAATTATC
*
79367877 GAAATACCCCAGTAGGGTAGAATTA-C
1 GAAATACCCCTGTAGGGTAGAATTATC
* * * *
79367903 TAAAATACCCCTATAGGGTGGAATTACC
1 -GAAATACCCCTGTAGGGTAGAATTATC
*
79367931 GAGATACC
1 GAAATACC
79367939 TTGTTGGGTA
Statistics
Matches: 145, Mismatches: 23, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
26 1 0.01
27 143 0.99
28 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.25
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTATC
Found at i:79367804 original size:97 final size:97
Alignment explanation
Indices: 79367638--79367938 Score: 246
Period size: 97 Copynumber: 3.0 Consensus size: 97
79367628 TGTAGGGTAG
* *
79367638 AATTACCGAAATACCCCTATAGGGTAGAATTACCAAAATACCTCTATACGGTAGAATTACTGAAA
1 AATTACCGAAATACCCCTATAGGGTAAAATTACCAAAATACCCCTATACGGTAGAATTACTGAAA
* * * *
79367703 TACCCTTGTAGGGTAGAATTATCGCAATACCC
66 TACCCCTATAGGGTAGAATTACCGAAATACCC
* * * * * * * *
79367735 AATTACTGAAATACTCCTGTAGGGTAAAATTATCGAAATACCCCTGTAGGGTAGAATTA-TCGCA
1 AATTACCGAAATACCCCTATAGGGTAAAATTACCAAAATACCCCTATACGGTAGAATTACT-GAA
79367799 ATACCCCTATAGGGTAGAATTACCGAAATACCCC
65 ATACCCCTATAGGGTAGAATTACCGAAATA-CCC
* * ** ** * *
79367833 TGTAGGGTAGAATTATCGTAATACCCCTATAGGGTCGAATTTTCGAAATACCCC-AGTAGGGTAG
1 ----------AATTACCGAAATACCCCTATAGGGTAAAATTACCAAAATACCCCTA-TACGGTAG
* * *
79367897 AATTACTAAAATACCCCTATAGGGTGGAATTACCGAGATACC
55 AATTACTGAAATACCCCTATAGGGTAGAATTACCGAAATACC
79367939 TTGTTGGGTA
Statistics
Matches: 163, Mismatches: 27, Indels: 18
0.78 0.13 0.09
Matches are distributed among these distances:
96 1 0.01
97 78 0.48
98 3 0.02
107 2 0.01
108 78 0.48
109 1 0.01
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (97 bp):
AATTACCGAAATACCCCTATAGGGTAAAATTACCAAAATACCCCTATACGGTAGAATTACTGAAA
TACCCCTATAGGGTAGAATTACCGAAATACCC
Found at i:79367837 original size:124 final size:124
Alignment explanation
Indices: 79367612--79367858 Score: 377
Period size: 124 Copynumber: 2.0 Consensus size: 124
79367602 GTAGGGTAGT
*
79367612 ATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAGAATTACCAAAAT
1 ATTACCGAAATACCCCTGTAGGGTAAAATTACCGAAATACCCCTATAGGGTAGAATTACCAAAAT
* * *
79367677 ACCTCTATACGGTAGAATTACTGAAATACCCTTGTAGGGTAGAATTATCGCAATACCCA
66 ACCCCTATACGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATCGCAATACCCA
* * * * * **
79367736 ATTACTGAAATACTCCTGTAGGGTAAAATTATCGAAATACCCCTGTAGGGTAGAATTATCGCAAT
1 ATTACCGAAATACCCCTGTAGGGTAAAATTACCGAAATACCCCTATAGGGTAGAATTACCAAAAT
* *
79367801 ACCCCTATAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATCGTAATACCC
66 ACCCCTATACGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATCGCAATACCC
79367859 CTATAGGGTC
Statistics
Matches: 110, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
124 110 1.00
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (124 bp):
ATTACCGAAATACCCCTGTAGGGTAAAATTACCGAAATACCCCTATAGGGTAGAATTACCAAAAT
ACCCCTATACGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATCGCAATACCCA
Found at i:79367858 original size:151 final size:151
Alignment explanation
Indices: 79367593--79367885 Score: 426
Period size: 151 Copynumber: 1.9 Consensus size: 151
79367583 GAATTATCGC
**
79367593 AATACCCCTGTAGGGTAGTATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTAT
1 AATACCCCTGTAGGGTAAAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTAT
* * *
79367658 AGGGTAGAATTACCAAAATACCTCTATACGGTAGAATTACTGAAATACCCTTGTAGGGTAGAATT
66 AGGGTAGAATTACCAAAATACCCCTATACGGTAGAATTACTGAAATACCCCTATAGGGTAGAATT
*
79367723 ATCGCAATACCCAATTACTGA
131 ATCGAAATACCCAATTACTGA
* * * *
79367744 AATACTCCTGTAGGGTAAAATTATCGAAATACCCCTGTAGGGTAGAATTATCGCAATACCCCTAT
1 AATACCCCTGTAGGGTAAAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTAT
* * * * *
79367809 AGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTA-TCGTAATACCCCTATAGGGTCGAAT
66 AGGGTAGAATTACCAAAATACCCCTATACGGTAGAATTACT-GAAATACCCCTATAGGGTAGAAT
*
79367873 TTTCGAAATACCC
130 TATCGAAATACCC
79367886 CAGTAGGGTA
Statistics
Matches: 125, Mismatches: 16, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
150 1 0.01
151 124 0.99
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.26
Consensus pattern (151 bp):
AATACCCCTGTAGGGTAAAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTAT
AGGGTAGAATTACCAAAATACCCCTATACGGTAGAATTACTGAAATACCCCTATAGGGTAGAATT
ATCGAAATACCCAATTACTGA
Found at i:79368286 original size:20 final size:20
Alignment explanation
Indices: 79368246--79368286 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
79368236 TATGTGCTGT
*
79368246 TATTATGGGCTTCGTATCGA
1 TATTATGGGCTTCGTACCGA
* *
79368266 TATTGTGGGCTTCGTGCCGA
1 TATTATGGGCTTCGTACCGA
79368286 T
1 T
79368287 TATAGACCCG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.15, C:0.17, G:0.29, T:0.39
Consensus pattern (20 bp):
TATTATGGGCTTCGTACCGA
Found at i:79368571 original size:27 final size:26
Alignment explanation
Indices: 79368541--79368626 Score: 93
Period size: 27 Copynumber: 3.2 Consensus size: 26
79368531 CATTATCTAA
*
79368541 TTCTGGTGGCTATGCCACAAATATTTG
1 TTCTGGTGGCTCTGCCAC-AATATTTG
* *
79368568 TTCTGGTGGCTCTACCACAATATCTG
1 TTCTGGTGGCTCTGCCACAATATTTG
* *
79368594 CATT-TGGTGACTCTGTCACAATATTTG
1 --TTCTGGTGGCTCTGCCACAATATTTG
79368621 TTCTGG
1 TTCTGG
79368627 CAGCCATGCT
Statistics
Matches: 49, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
25 2 0.04
26 10 0.20
27 35 0.71
28 2 0.04
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.38
Consensus pattern (26 bp):
TTCTGGTGGCTCTGCCACAATATTTG
Found at i:79368577 original size:54 final size:53
Alignment explanation
Indices: 79368519--79368626 Score: 128
Period size: 54 Copynumber: 2.0 Consensus size: 53
79368509 ATCCTGTTAA
* * * *
79368519 GTGGCTTTGCCACATTATCT-AATTCTGGTGGCTATGCCACAAATATTTGTTCTG
1 GTGGCTCTACCACAATATCTGAATT-TGGTGACTATGCCAC-AATATTTGTTCTG
* * *
79368573 GTGGCTCTACCACAATATCTGCATTTGGTGACTCTGTCACAATATTTGTTCTG
1 GTGGCTCTACCACAATATCTGAATTTGGTGACTATGCCACAATATTTGTTCTG
79368626 G
1 G
79368627 CAGCCATGCT
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
53 14 0.30
54 29 0.63
55 3 0.07
ACGTcount: A:0.20, C:0.21, G:0.20, T:0.38
Consensus pattern (53 bp):
GTGGCTCTACCACAATATCTGAATTTGGTGACTATGCCACAATATTTGTTCTG
Found at i:79368781 original size:31 final size:30
Alignment explanation
Indices: 79368746--79368847 Score: 132
Period size: 31 Copynumber: 3.3 Consensus size: 30
79368736 TTGTATTCAC
79368746 ATTCTGATTTTGATTATGTTACCTGATACTG
1 ATTCTGATTTTGATT-TGTTACCTGATACTG
*
79368777 ATTCTGATTTTGATTTGGTTACTTGATACTG
1 ATTCTGATTTTGATTT-GTTACCTGATACTG
* * * *
79368808 ATTCTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTTTGATT-TGTTACCTGATACTG
79368839 ATTCTGATT
1 ATTCTGATT
79368848 CTAGTTCTGA
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
30 1 0.02
31 61 0.97
32 1 0.02
ACGTcount: A:0.21, C:0.15, G:0.16, T:0.49
Consensus pattern (30 bp):
ATTCTGATTTTGATTTGTTACCTGATACTG
Found at i:79368785 original size:6 final size:6
Alignment explanation
Indices: 79368746--79368858 Score: 63
Period size: 6 Copynumber: 18.3 Consensus size: 6
79368736 TTGTATTCAC
* * * *
79368746 ATTCTG ATTTTG ATTATG -TTACCTG ATACTG ATTCTG ATTTTG ATT-TG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * *
79368794 GTTACTTG ATACTG ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTG
1 ATT-C-TG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
79368845 ATTCT- AGTTCTG AT
1 ATTCTG A-TTCTG AT
79368859 AATGTTGCTT
Statistics
Matches: 82, Mismatches: 14, Indels: 22
0.69 0.12 0.19
Matches are distributed among these distances:
5 8 0.10
6 63 0.77
7 6 0.07
8 5 0.06
ACGTcount: A:0.20, C:0.15, G:0.16, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:79372531 original size:50 final size:50
Alignment explanation
Indices: 79372413--79372688 Score: 280
Period size: 50 Copynumber: 5.6 Consensus size: 50
79372403 TTGTGAGAAG
* * * *** *
79372413 ACATGTGTAGTACTATGTGCAGGATACTATGTGTTTAAGATGGTTTTAGGTC
1 ACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT--TGTTAGGTC
*
79372465 ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTC
1 ACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTC
* * * * *
79372515 ACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGACAACT-TTA-ATC
1 ACATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CC-A-GATTGTTAGGTC
* * **
79372566 ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-TA-A--AAT-GGTC
1 ACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTC
* *
79372611 ACGTGTGTAGTACTAAGTGCAGCCTACTACGTGTACCAGATTGTT-GGTC
1 ACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTC
79372660 ACATGTGTAGTACTAAGTGCAGGCTACTA
1 ACATGTGTAGTACTAAGTGCAGGCTACTA
79372689 TGCATACCAG
Statistics
Matches: 189, Mismatches: 26, Indels: 21
0.80 0.11 0.09
Matches are distributed among these distances:
45 37 0.20
46 2 0.01
47 1 0.01
48 1 0.01
49 32 0.17
50 40 0.21
51 36 0.19
52 38 0.20
53 2 0.01
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.31
Consensus pattern (50 bp):
ACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTC
Found at i:79372597 original size:101 final size:94
Alignment explanation
Indices: 79372463--79372688 Score: 265
Period size: 101 Copynumber: 2.3 Consensus size: 94
79372453 TGGTTTTAGG
**
79372463 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCACATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CA-A--AAT-GGTCACATGTGTAGTAC
* *
79372528 TAAGTGCAGGCTACTATGCGTACCCGACAACT-TTAA
61 TAAGTGCAGCCTACTACGCGTA-CC-A-AACTGTTAA
* *
79372564 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATAAAATGGTCACGTGTGTAGTACTAAGT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACAAAATGGTCACATGTGTAGTACTAAGT
* * * **
79372629 GCAGCCTACTACGTGTACCAGATTGTTGG
66 GCAGCCTACTACGCGTACCAAACTGTTAA
*
79372658 TCACATGTGTAGTACTAAGTGCAGGCTACTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTA
79372689 TGCATACCAG
Statistics
Matches: 112, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
93 2 0.02
94 33 0.29
95 2 0.02
96 35 0.31
97 1 0.01
99 1 0.01
100 1 0.01
101 37 0.33
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (94 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACAAAATGGTCACATGTGTAGTACTAAGT
GCAGCCTACTACGCGTACCAAACTGTTAA
Found at i:79374776 original size:30 final size:30
Alignment explanation
Indices: 79374742--79374848 Score: 108
Period size: 30 Copynumber: 3.6 Consensus size: 30
79374732 ATATGGATGA
* *
79374742 GACACGGCCGTA-TGTCTCAACCGTGTGAGG
1 GACACGGCC-TAGTGACACAACCGTGTGAGG
*
79374772 GACACGGCCTAGTGACACAAGCGTGTGAGG
1 GACACGGCCTAGTGACACAACCGTGTGAGG
* * * * * *
79374802 GATACGTCCTGGTGACACGAGCGTATGAGG
1 GACACGGCCTAGTGACACAACCGTGTGAGG
*
79374832 GACACGGCCTGGTGACA
1 GACACGGCCTAGTGACA
79374849 TGAGCGTGTA
Statistics
Matches: 66, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
29 2 0.03
30 64 0.97
ACGTcount: A:0.23, C:0.24, G:0.36, T:0.17
Consensus pattern (30 bp):
GACACGGCCTAGTGACACAACCGTGTGAGG
Found at i:79374854 original size:30 final size:30
Alignment explanation
Indices: 79374767--79374855 Score: 124
Period size: 30 Copynumber: 3.0 Consensus size: 30
79374757 CTCAACCGTG
* * *
79374767 TGAGGGACACGGCCTAGTGACACAAGCGTG
1 TGAGGGACACGGCCTGGTGACACGAGCGTA
* *
79374797 TGAGGGATACGTCCTGGTGACACGAGCGTA
1 TGAGGGACACGGCCTGGTGACACGAGCGTA
*
79374827 TGAGGGACACGGCCTGGTGACATGAGCGT
1 TGAGGGACACGGCCTGGTGACACGAGCGT
79374856 GTAGCCTGAC
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 51 1.00
ACGTcount: A:0.24, C:0.21, G:0.38, T:0.17
Consensus pattern (30 bp):
TGAGGGACACGGCCTGGTGACACGAGCGTA
Found at i:79380075 original size:26 final size:26
Alignment explanation
Indices: 79379996--79380076 Score: 64
Period size: 25 Copynumber: 3.2 Consensus size: 26
79379986 TCAATCACGT
* *
79379996 GTGTAGTACTAAGTGAAGGCAACTAC
1 GTGTAGTACTAAGTGTAGGCTACTAC
* *
79380022 GTGTA-TA--AAATGGTTAGG-TCAC-AT
1 GTGTAGTACTAAGT-G-TAGGCT-ACTAC
79380046 GTGTAGTACTAAGTGTAGGCTACTAC
1 GTGTAGTACTAAGTGTAGGCTACTAC
79380072 GTGTA
1 GTGTA
79380077 CCAGATTTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 16
0.65 0.10 0.25
Matches are distributed among these distances:
23 3 0.07
24 7 0.17
25 15 0.37
26 13 0.32
27 3 0.07
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.30
Consensus pattern (26 bp):
GTGTAGTACTAAGTGTAGGCTACTAC
Found at i:79380078 original size:101 final size:98
Alignment explanation
Indices: 79379892--79380078 Score: 257
Period size: 101 Copynumber: 1.9 Consensus size: 98
79379882 TGGTTTTAGG
* * * *
79379892 TCACGTGTGTAGTAAGTGCAGGCAACTACGTGTACCAGATAGTTAGGTTACATGTGTAATACTAA
1 TCACGTGTGTAGTAAGTGAAGGCAACTACGTGTACAAAATAGTTAGGTCACATGTGTAATACTAA
*
79379957 GTGCAGGCTACTATGCGTACCCAACAACTTCAA
66 GTGCAGGCTACTACGCGTACCCAACAACTTCAA
* * *
79379990 TCACGTGTGTAGTACTAAGTGAAGGCAACTACGTGTATAAAATGGTTAGGTCACATGTGTAGTAC
1 TCACGTGTGTAG---TAAGTGAAGGCAACTACGTGTACAAAATAGTTAGGTCACATGTGTAATAC
* *
79380055 TAAGTGTAGGCTACTACGTGTACC
63 TAAGTGCAGGCTACTACGCGTACC
79380079 AGATTTTTGG
Statistics
Matches: 76, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
98 12 0.16
101 64 0.84
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (98 bp):
TCACGTGTGTAGTAAGTGAAGGCAACTACGTGTACAAAATAGTTAGGTCACATGTGTAATACTAA
GTGCAGGCTACTACGCGTACCCAACAACTTCAA
Found at i:79380115 original size:49 final size:50
Alignment explanation
Indices: 79379887--79380119 Score: 217
Period size: 50 Copynumber: 4.7 Consensus size: 50
79379877 TAAGATGGTT
* *
79379887 TTAGGTCAC--GTGT-GTAGTAAGTGCAGGCAACTACGTGTACCAGATAG
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
* * * * * *
79379934 TTAGGTTACATGTGTAATACTAAGTGCAGGCTACTATGCGTACCCA-ACAAC
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCAGA-TAG
* * * * ** * *
79379985 TTCA-ATCACGTGTGTAGTACTAAGTGAAGGCAACTACGTGTATAAAATGG
1 TT-AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
* *
79380035 TTAGGTCACATGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGAT-T
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
* *
79380084 TTTGGTCACATGCGTAGTACTAAGTGCAGGCTACTA
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
79380120 TTCATACCAG
Statistics
Matches: 146, Mismatches: 32, Indels: 14
0.76 0.17 0.07
Matches are distributed among these distances:
47 8 0.05
49 38 0.26
50 62 0.42
51 37 0.25
52 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (50 bp):
TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
Found at i:79391620 original size:94 final size:90
Alignment explanation
Indices: 79391456--79391673 Score: 239
Period size: 94 Copynumber: 2.4 Consensus size: 90
79391446 ATATCTGTGC
*
79391456 CGATGCCATGTCCCAAACATGGTCTTACACT-GACACCTCTCGTAGCCGACGCATGTCCCAATCA
1 CGATG-CATGTCCCAAACAT-GTCTTACACTAG-CACCTCTCATAGCCGACGCATGTCCCAATCA
* *
79391520 TGTCTTACACTGGCT-TACGT-TTCGAGGT
63 TGTCTTACACTGGCTCT-CATAAT-GAGGT
* * *
79391548 TGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCA-ATGCCGATGCCATGTCCCAGA-
1 CGATGCATGTCCCAAACATGTCTTACACTAGCAC-C-TCTCATA-GCCGACG-CATGTCCCA-AT
*
79391611 CATGGTCTTACACTGGCTCTCATAATGTGGT
61 CAT-GTCTTACACTGGCTCTCATAATGAGGT
79391642 CGATGCATGTCCCAAACATGTCTTACACTAGC
1 CGATGCATGTCCCAAACATGTCTTACACTAGC
79391674 TCAGAATAAC
Statistics
Matches: 108, Mismatches: 9, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
90 13 0.12
91 16 0.15
92 14 0.13
93 12 0.11
94 51 0.47
95 2 0.02
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (90 bp):
CGATGCATGTCCCAAACATGTCTTACACTAGCACCTCTCATAGCCGACGCATGTCCCAATCATGT
CTTACACTGGCTCTCATAATGAGGT
Found at i:79391651 original size:47 final size:44
Alignment explanation
Indices: 79391453--79391675 Score: 157
Period size: 46 Copynumber: 4.8 Consensus size: 44
79391443 AGGATATCTG
* * * * *
79391453 TGCCGATGCCATGTCCCAAACATGGTCTTACACTGACACCTCTC-G
1 TGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCGTCTCAA
* * *
79391498 TAGCCGACGCATGTCCCA-ATCATGTCTTACACTGGCTTACGTTTCGA
1 T-GCCGATGCATGTCCCAGA-CATGTCTTACACTGGC-T-CGTCTCAA
* ** *
79391545 GGTTGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAA
1 TGCCGATGCATGTCCCAGACATGTCTTACACT-G-GCTCGTCTCAA
79391591 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCAT-AA
1 TGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCGTC-TCAA
* * *
79391636 TGTGGTCGATGCATGTCCCAAACATGTCTTACACTAGCTC
1 --T-GCCGATGCATGTCCCAGACATGTCTTACACTGGCTC
79391676 AGAATAACCC
Statistics
Matches: 144, Mismatches: 20, Indels: 27
0.75 0.10 0.14
Matches are distributed among these distances:
44 13 0.09
45 17 0.12
46 65 0.45
47 32 0.22
48 17 0.12
ACGTcount: A:0.22, C:0.30, G:0.19, T:0.28
Consensus pattern (44 bp):
TGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCGTCTCAA
Found at i:79399264 original size:46 final size:44
Alignment explanation
Indices: 79399201--79399367 Score: 147
Period size: 46 Copynumber: 3.6 Consensus size: 44
79399191 AGTTGATACT
* * *
79399201 TGTCCCAGATATGTCTTACACTGGCTTACGTCTCACGGCCGATGCA
1 TGTCCCAGACATGTCTTACACTGGC-T-CGTCTAAAGGCCGATGCA
* * * *
79399247 TGTCTCAGACATGTCTTACACTAGCACTCGTCTTAATGCCGATGCCA
1 TGTCCCAGACATGTCTTACACT-G-GCTCGTCTAAAGGCCGATG-CA
* * *
79399294 TGTCCCAGAAATAGTCTTACACTGGCTC-TCATAATGTGGCCAATGCA
1 TGTCCCAGACAT-GTCTTACACTGGCTCGTC-TAA--AGGCCGATGCA
*
79399341 TGTCCCAGACATGTCTTACACTAGCTC
1 TGTCCCAGACATGTCTTACACTGGCTC
79399368 ACAATAACCC
Statistics
Matches: 99, Mismatches: 15, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
45 2 0.02
46 52 0.53
47 28 0.28
48 17 0.17
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (44 bp):
TGTCCCAGACATGTCTTACACTGGCTCGTCTAAAGGCCGATGCA
Found at i:79415224 original size:39 final size:40
Alignment explanation
Indices: 79415141--79415224 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 40
79415131 NNNNNNNNNN
* * **
79415141 GAAGGCATTTGTGCAAGTTACTATAACCGGGCTAAGTTCC
1 GAAGGCATTTGAGCAAGTGACTATAACCGGGCTAAACTCC
* * *
79415181 GAAGGCATTTGAGCTAGTGGCTATATCC-GGCTAAACTCC
1 GAAGGCATTTGAGCAAGTGACTATAACCGGGCTAAACTCC
79415220 GAAGG
1 GAAGG
79415225 TACTTGGTTT
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
39 14 0.38
40 23 0.62
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.25
Consensus pattern (40 bp):
GAAGGCATTTGAGCAAGTGACTATAACCGGGCTAAACTCC
Found at i:79421437 original size:46 final size:45
Alignment explanation
Indices: 79421381--79421553 Score: 206
Period size: 46 Copynumber: 3.8 Consensus size: 45
79421371 TGGTTGAGCA
79421381 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAA-G
* ** * *
79421427 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCAT-TTATG-GA-T-GCGAAG
*
79421474 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAA-G
* *
79421520 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCATTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTA
79421554 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 64 0.60
47 32 0.30
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAAG
Found at i:79421537 original size:93 final size:93
Alignment explanation
Indices: 79421378--79421548 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
79421368 GGATGGTTGA
* * *
79421378 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
79421443 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
79421471 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
79421536 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
79421549 ATTTAGGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:79438010 original size:67 final size:67
Alignment explanation
Indices: 79437902--79438036 Score: 261
Period size: 67 Copynumber: 2.0 Consensus size: 67
79437892 CAATTTCAAC
79437902 AGTTAAAATAAGTAATACCTATCTAAGTAATACATATTAAAACCATCAAAAATAATTAAGCGGCC
1 AGTTAAAATAAGTAATACCTATCTAAGTAATACATATTAAAACCATCAAAAATAATTAAGCGGCC
79437967 TT
66 TT
*
79437969 AGTTAAAATAAGTAATACCTATCTTAGTAATACATATTAAAACCATCAAAAATAATTAAGCGGCC
1 AGTTAAAATAAGTAATACCTATCTAAGTAATACATATTAAAACCATCAAAAATAATTAAGCGGCC
79438034 TT
66 TT
79438036 A
1 A
79438037 TTACATTTAA
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 67 1.00
ACGTcount: A:0.47, C:0.15, G:0.09, T:0.29
Consensus pattern (67 bp):
AGTTAAAATAAGTAATACCTATCTAAGTAATACATATTAAAACCATCAAAAATAATTAAGCGGCC
TT
Found at i:79438509 original size:27 final size:27
Alignment explanation
Indices: 79438461--79438618 Score: 173
Period size: 27 Copynumber: 5.9 Consensus size: 27
79438451 ACGAGACTGC
* *
79438461 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
*
79438488 TAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
79438514 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
79438541 CAGATAATTGTGGCATAGCCACCAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
79438568 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
79438595 TAGATAATTGTGGCATAGCCACCA
1 CAGAT-ATTGTGGCAGAGCCACCA
79438619 AGACGCTTCC
Statistics
Matches: 113, Mismatches: 10, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
26 9 0.08
27 99 0.88
28 5 0.04
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.20
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:79438551 original size:54 final size:54
Alignment explanation
Indices: 79438479--79438618 Score: 237
Period size: 54 Copynumber: 2.6 Consensus size: 54
79438469 GTGACGAAGT
*
79438479 CACCAGATATAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-TAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
* *
79438533 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAGATTAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
79438587 CACCAGATTAGATAATTGTGGCATAGCCACCA
1 CACCAGATTAGATAATTGTGGCATAGCCACCA
79438619 AGACGCTTCC
Statistics
Matches: 81, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
53 4 0.05
54 77 0.95
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.19
Consensus pattern (54 bp):
CACCAGATTAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:79440853 original size:46 final size:46
Alignment explanation
Indices: 79440786--79440963 Score: 193
Period size: 46 Copynumber: 3.8 Consensus size: 46
79440776 TGTAACCCAC
*
79440786 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCAT
* * * * **
79440832 CCATAAGTGAACTCGAACTCAACTCAACAAGTTCAGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG--T--TCGCAT
* *
79440882 CTCA-CA---AACTCGGACTCAACTCAACGAGCTCGCATGTTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCAT
*
79440925 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG
79440964 CCTAGTTACA
Statistics
Matches: 105, Mismatches: 18, Indels: 18
0.74 0.13 0.13
Matches are distributed among these distances:
42 2 0.02
43 6 0.06
45 1 0.01
46 62 0.59
47 25 0.24
48 1 0.01
50 6 0.06
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCAT
Found at i:79441007 original size:47 final size:46
Alignment explanation
Indices: 79440840--79441008 Score: 180
Period size: 47 Copynumber: 3.6 Consensus size: 46
79440830 ATCCATAAGT
* * *
79440840 GAACTCGAACTCAACTCAACAAGTTCAGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-TCAC
* * * * * * * * *
79440887 AAACTCGGACTCAACTCAACGAGCTCGCATG-TTCGCATCCA-TAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG-TTACATTCA-C
79440933 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACA-TTCAC
79440980 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGTTCGGA
79441009 CATTCGCATC
Statistics
Matches: 96, Mismatches: 21, Indels: 10
0.76 0.17 0.08
Matches are distributed among these distances:
45 2 0.02
46 33 0.34
47 59 0.61
48 2 0.02
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTCAC
Found at i:79441015 original size:93 final size:93
Alignment explanation
Indices: 79440794--79441019 Score: 362
Period size: 93 Copynumber: 2.4 Consensus size: 93
79440784 ACCCATAAGT
*
79440794 GAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAAGTGAACTCGAACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCATCCATAAGTGAACTCGAACTCAACTCAA
79440859 CAAGTTCAGATGCCTAGTTACATCTCAC
66 CAAGTTCAGATGCCTAGTTACATCTCAC
* * *
79440887 AAACTCGGACTCAACTCAACGAGCTCGCATGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCATCCATAAGTGAACTCGAACTCAACTCAA
* * *
79440952 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CAAGTTCAGATGCCTAGTTACATCTCAC
* **
79440980 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCATCC
79441020 TCGGAACTCA
Statistics
Matches: 121, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 121 1.00
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCATCCATAAGTGAACTCGAACTCAACTCAA
CAAGTTCAGATGCCTAGTTACATCTCAC
Found at i:79442737 original size:27 final size:27
Alignment explanation
Indices: 79442707--79442813 Score: 137
Period size: 27 Copynumber: 3.9 Consensus size: 27
79442697 GGCTGCCAGG
* *
79442707 ACAGATAATGTGACAGAGTCACCAGAT
1 ACAGATAATGTGGCAGAGCCACCAGAT
79442734 ACAGATAATCGTGGCAGAGCCACCAGA-
1 ACAGATAAT-GTGGCAGAGCCACCAGAT
*
79442761 ACAGAAATATGTGGCAGAGCCACCAGAT
1 ACAGATA-ATGTGGCAGAGCCACCAGAT
*
79442789 -CAGATAATTGTGGCATAGCCACCAG
1 ACAGATAA-TGTGGCAGAGCCACCAG
79442814 GACGCTTCCT
Statistics
Matches: 71, Mismatches: 5, Indels: 8
0.85 0.06 0.10
Matches are distributed among these distances:
26 1 0.01
27 53 0.75
28 17 0.24
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.16
Consensus pattern (27 bp):
ACAGATAATGTGGCAGAGCCACCAGAT
Found at i:79445334 original size:3 final size:3
Alignment explanation
Indices: 79445326--79445350 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
79445316 CTTTCCTGAA
79445326 CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT C
79445351 GGAGCAACCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
CTT
Found at i:79447687 original size:27 final size:28
Alignment explanation
Indices: 79447564--79447688 Score: 159
Period size: 27 Copynumber: 4.6 Consensus size: 28
79447554 AAAGTACCAC
* *
79447564 CGATTTACATAATTA-TCGTTTTACCCT
1 CGATTTACAGAATTACTCATTTTACCCT
79447591 CGATTTACAGAATTA-TCATTTTACCCT
1 CGATTTACAGAATTACTCATTTTACCCT
*
79447618 CGATTTATAGAATTACT-ATTTTACCCT
1 CGATTTACAGAATTACTCATTTTACCCT
* * *
79447645 TGATTTATAGAATTACT-GTTTTACCCT
1 CGATTTACAGAATTACTCATTTTACCCT
*
79447672 CGATTTACAAAATTACT
1 CGATTTACAGAATTACT
79447689 AAAATACCAC
Statistics
Matches: 89, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
27 88 0.99
28 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.08, T:0.43
Consensus pattern (28 bp):
CGATTTACAGAATTACTCATTTTACCCT
Found at i:79447696 original size:27 final size:27
Alignment explanation
Indices: 79447612--79447998 Score: 178
Period size: 27 Copynumber: 14.3 Consensus size: 27
79447602 ATTATCATTT
* * ***
79447612 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTTGATTTATAAAATTACTAAAA
* ****
79447639 TACCCTTGATTTATAGAATTACTGTTT
1 TACCCTTGATTTATAAAATTACTAAAA
* *
79447666 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGATTTATAAAATTACTAAAA
* * *
79447693 TACCAC-TGGTTTACAAAATTACCAAAA
1 TACC-CTTGATTTATAAAATTACTAAAA
* * * * *
79447720 TACCCTCGA-TCAGCAAAATTACCAATA
1 TACCCTTGATTTA-TAAAATTACTAAAA
* * * *
79447747 TACCC-TGGTCTGTAAAATTGCTAAAA
1 TACCCTTGATTTATAAAATTACTAAAA
* * *
79447773 TACCCTTGGTTTGTAAAATTACCAAAA
1 TACCCTTGATTTATAAAATTACTAAAA
* * * *
79447800 TATCCCTAG-TTTGTAAAGTTACCAAAA
1 TA-CCCTTGATTTATAAAATTACTAAAA
* * * **
79447827 TACCAC-TGGTTTGTGAAATTACCGAAA
1 TACC-CTTGATTTATAAAATTACTAAAA
* * * *
79447854 TACCCTTAATTTGTAAAATTGCCAAAA
1 TACCCTTGATTTATAAAATTACTAAAA
*
79447881 TACCCTTGATTTACAAAATTAC-AGAAA
1 TACCCTTGATTTATAAAATTACTA-AAA
*
79447908 TACCCTTGATTTTTTAAAAATTA-TAGAAA
1 TACCCTTGA-TTTAT-AAAATTACTA-AAA
* * *
79447937 TACCATT-AGTTTACAAAATTACTGAAA
1 TACCCTTGA-TTTATAAAATTACTAAAA
* * * * *
79447964 TACCCTTGGTTTGTAGATTTACCAAAA
1 TACCCTTGATTTATAAAATTACTAAAA
*
79447991 CACCCTTG
1 TACCCTTG
79447999 TAGGGTGAAA
Statistics
Matches: 286, Mismatches: 59, Indels: 30
0.76 0.16 0.08
Matches are distributed among these distances:
26 24 0.08
27 230 0.80
28 14 0.05
29 18 0.06
ACGTcount: A:0.37, C:0.19, G:0.10, T:0.34
Consensus pattern (27 bp):
TACCCTTGATTTATAAAATTACTAAAA
Found at i:79447713 original size:54 final size:54
Alignment explanation
Indices: 79447585--79447714 Score: 129
Period size: 54 Copynumber: 2.4 Consensus size: 54
79447575 ATTATCGTTT
* * * * * ***
79447585 TACCCTCGATTTACAGAATTA-TCATTTTACCCTCGATTTATAGAATTACTATTT
1 TACCCTTGATTTACAAAATTACT-GTTTTACCCTCGATTTACAAAATTACTAAAA
* *
79447639 TACCCTTGATTTATAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGATTTACAAAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAA
*
79447693 TACCAC-TGGTTTACAAAATTAC
1 TACC-CTTGATTTACAAAATTAC
79447715 CAAAATACCC
Statistics
Matches: 63, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
54 61 0.97
55 2 0.03
ACGTcount: A:0.33, C:0.20, G:0.08, T:0.39
Consensus pattern (54 bp):
TACCCTTGATTTACAAAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAA
Found at i:79447724 original size:54 final size:53
Alignment explanation
Indices: 79447666--79447913 Score: 214
Period size: 54 Copynumber: 4.6 Consensus size: 53
79447656 ATTACTGTTT
* * **
79447666 TACCCTCGATTTACAAAATTACTAAAATACCACTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACCAAAATACC-CTAGTTTGTAAAATTACCAAAA
* * * * * *
79447720 TACCCTCGA-TCAGCAAAATTACCAATATACCCTGGTCTGTAAAATTGCTAAAA
1 TACCCTCGATTTA-CAAAATTACCAAAATACCCTAGTTTGTAAAATTACCAAAA
* * ** *
79447773 TACCCTTGGTTTGTAAAATTACCAAAATATCCCTAGTTTGTAAAGTTACCAAAA
1 TACCCTCGATTTACAAAATTACCAAAATA-CCCTAGTTTGTAAAATTACCAAAA
* *** * * *
79447827 TACCACT-GGTTTGTGAAATTACCGAAATACCCTTAATTTGTAAAATTGCCAAAA
1 TACC-CTCGATTTACAAAATTACCAAAATACCC-TAGTTTGTAAAATTACCAAAA
*
79447881 TACCCTTGATTTACAAAATTA-CAGAAATACCCT
1 TACCCTCGATTTACAAAATTACCA-AAATACCCT
79447914 TGATTTTTTA
Statistics
Matches: 158, Mismatches: 29, Indels: 15
0.78 0.14 0.07
Matches are distributed among these distances:
53 47 0.30
54 109 0.69
55 2 0.01
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (53 bp):
TACCCTCGATTTACAAAATTACCAAAATACCCTAGTTTGTAAAATTACCAAAA
Found at i:79447778 original size:53 final size:54
Alignment explanation
Indices: 79447666--79447801 Score: 132
Period size: 53 Copynumber: 2.5 Consensus size: 54
79447656 ATTACTGTTT
* * *
79447666 TACCCTCGATTTACAAAATTACTAAAATACCACTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTCACAAAATTACCAAAATACCACTGGTCTACAAAATTACCAAAA
* ** * *
79447720 TACCCTCGA-TCAGCAAAATTACCAATATACC-CTGGTCTGTAAAATTGCTAAAA
1 TACCCTCGATTCA-CAAAATTACCAAAATACCACTGGTCTACAAAATTACCAAAA
* * ***
79447773 TACCCTTGGTTTGTAAAATTACCAAAATA
1 TACCCTCGATTCACAAAATTACCAAAATA
79447802 TCCCTAGTTT
Statistics
Matches: 66, Mismatches: 14, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
53 40 0.61
54 26 0.39
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.29
Consensus pattern (54 bp):
TACCCTCGATTCACAAAATTACCAAAATACCACTGGTCTACAAAATTACCAAAA
Found at i:79447791 original size:80 final size:80
Alignment explanation
Indices: 79447680--79447886 Score: 229
Period size: 80 Copynumber: 2.6 Consensus size: 80
79447670 CTCGATTTAC
** *
79447680 AAAATTACTAAAATACCAC-TGGTTTACAAAATTACCAAAATACCCTCGATCAGCAAAATTACCA
1 AAAATTACTAAAATACC-CTTGGTTTGTAAAATTACCAAAATACCCTAG-TCAGCAAAATTACCA
*
79447744 ATATACC-CTGGTCTGT
64 AAATACCACTGGTCTGT
* ** * *
79447760 AAAATTGCTAAAATACCCTTGGTTTGTAAAATTACCAAAATATCCCTAGTTTGTAAAGTTACCAA
1 AAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAATA-CCCTAGTCAGCAAAATTACCAA
*
79447825 AATACCACTGGTTTGT
65 AATACCACTGGTCTGT
* ** ** *
79447841 GAAATTACCGAAATACCCTTAATTTGTAAAATTGCCAAAATACCCT
1 AAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCT
79447887 TGATTTACAA
Statistics
Matches: 107, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
79 1 0.01
80 58 0.54
81 48 0.45
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (80 bp):
AAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCTAGTCAGCAAAATTACCAAA
ATACCACTGGTCTGT
Found at i:79447869 original size:81 final size:80
Alignment explanation
Indices: 79447707--79447913 Score: 213
Period size: 81 Copynumber: 2.6 Consensus size: 80
79447697 ACTGGTTTAC
* * * *
79447707 AAAATTACCAAAATACCCTCGATCAGCAAAATTACCAATATACCCTGGTCTGTAAAATTGCTAAA
1 AAAATTACCAAAATACCCTAGATCAGCAAAATTACCAAAATACCCTGGTCTGTAAAATTACCAAA
**
79447772 ATACCCTTGGTTTGT
66 ATACCCTTAATTTGT
** * * * * *
79447787 AAAATTACCAAAATATCCCTAG-TTTGTAAAGTTACCAAAATACCACTGGTTTGTGAAATTACCG
1 AAAATTACCAAAATA-CCCTAGATCAGCAAAATTACCAAAATACC-CTGGTCTGTAAAATTACCA
79447851 AAATACCCTTAATTTGT
64 AAATACCCTTAATTTGT
* * *
79447868 AAAATTGCCAAAATACCCTTGATTTA-CAAAATTA-CAGAAATACCCT
1 AAAATTACCAAAATACCCTAGA-TCAGCAAAATTACCA-AAATACCCT
79447914 TGATTTTTTA
Statistics
Matches: 104, Mismatches: 18, Indels: 10
0.79 0.14 0.08
Matches are distributed among these distances:
80 41 0.39
81 61 0.59
82 2 0.02
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (80 bp):
AAAATTACCAAAATACCCTAGATCAGCAAAATTACCAAAATACCCTGGTCTGTAAAATTACCAAA
ATACCCTTAATTTGT
Found at i:79447914 original size:54 final size:52
Alignment explanation
Indices: 79447666--79447998 Score: 206
Period size: 54 Copynumber: 6.2 Consensus size: 52
79447656 ATTACTGTTT
* * **
79447666 TACCCTCGATTTACAAAATTACTAAAATACCACTGGTTTACAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTAC-AAAATACC-CTAGTTTGTAAAATTACCAAAA
* * * * * * *
79447720 TACCCTCGA-TCAGCAAAATTACCAATATACCCTGGTCTGTAAAATTGCTAAAA
1 TACCCTTGATTTA-CAAAATTA-CAAAATACCCTAGTTTGTAAAATTACCAAAA
* ** *
79447773 TACCCTTGGTTTGTAAAATTACCAAAATATCCCTAGTTTGTAAAGTTACCAAAA
1 TACCCTTGATTTACAAAATTA-CAAAATA-CCCTAGTTTGTAAAATTACCAAAA
* *** * * *
79447827 TACCAC-TGGTTTGTGAAATTACCGAAATACCCTTAATTTGTAAAATTGCCAAAA
1 TACC-CTTGATTTACAAAATTA-CAAAATACCC-TAGTTTGTAAAATTACCAAAA
* * *
79447881 TACCCTTGATTTACAAAATTACAGAAATACCCTTGATTTTTTAAAAATTA-TAGAAA
1 TACCCTTGATTTACAAAATTACA-AAATACCC-T-AGTTTGT-AAAATTACCA-AAA
* * * * *
79447937 TACCATT-AGTTTACAAAATTACTGAAATACCCTTGGTTTGTAGATTTACCAAAA
1 TACCCTTGA-TTTACAAAATTAC-AAAATACCC-TAGTTTGTAAAATTACCAAAA
*
79447991 CACCCTTG
1 TACCCTTG
79447999 TAGGGTGAAA
Statistics
Matches: 222, Mismatches: 42, Indels: 29
0.76 0.14 0.10
Matches are distributed among these distances:
53 45 0.20
54 125 0.56
55 14 0.06
56 38 0.17
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.32
Consensus pattern (52 bp):
TACCCTTGATTTACAAAATTACAAAATACCCTAGTTTGTAAAATTACCAAAA
Found at i:79448093 original size:27 final size:27
Alignment explanation
Indices: 79448016--79448093 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
79448006 AAATGACTAA
* *
79448016 AATACCCCTAT-TAGGTAAAAAGACCGT
1 AATACCCCTGTAT-GGTAAAATGACCGT
* *
79448043 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTATGGTAAAATGACCGT
79448070 AATACCCCTGTATGGTAAAATGAC
1 AATACCCCTGTATGGTAAAATGAC
79448094 TAATATGCCC
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
26 1 0.02
27 40 0.95
28 1 0.02
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTATGGTAAAATGACCGT
Found at i:79448931 original size:25 final size:25
Alignment explanation
Indices: 79448903--79448996 Score: 138
Period size: 25 Copynumber: 3.8 Consensus size: 25
79448893 AGGAAGTGCT
79448903 AAAAGGG-TTATGCCCCAGTTTACCG
1 AAAAGGGCTT-TGCCCCAGTTTACCG
* *
79448928 AAAAGGGCTTTGCCCTAGTTTACAG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
79448953 AAAAGGGCTTTGCCCCAGTTTATC-
1 AAAAGGGCTTTGCCCCAGTTTACCG
79448977 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
79448997 ATTAAAAGAG
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
24 20 0.32
25 41 0.65
26 2 0.03
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:79449009 original size:24 final size:24
Alignment explanation
Indices: 79448903--79449009 Score: 121
Period size: 25 Copynumber: 4.4 Consensus size: 24
79448893 AGGAAGTGCT
*
79448903 AAAAGGG-TTATGCCCCAGTTTACC
1 AAAAGGGCTT-TGCCCCAGTTTATC
*
79448927 GAAAAGGGCTTTGCCCTAGTTTA-C
1 -AAAAGGGCTTTGCCCCAGTTTATC
79448951 AGAAAAGGGCTTTGCCCCAGTTTATC
1 --AAAAGGGCTTTGCCCCAGTTTATC
*
79448977 AAAAGGGCTTTGCCCCAG-TTATT
1 AAAAGGGCTTTGCCCCAGTTTATC
79449000 AAAAGAGGCT
1 AAAAG-GGCT
79449010 AGGCCTCCAG
Statistics
Matches: 75, Mismatches: 3, Indels: 9
0.86 0.03 0.10
Matches are distributed among these distances:
23 9 0.12
24 23 0.31
25 40 0.53
26 3 0.04
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTATC
Found at i:79452249 original size:40 final size:39
Alignment explanation
Indices: 79452196--79452340 Score: 218
Period size: 40 Copynumber: 3.6 Consensus size: 39
79452186 GCTACTCACT
* *
79452196 CAAATGCCTTCGGGACTTAGCCCGGTTCTAGTAACTCGCG
1 CAAATGCCTTCGGGACTTAGCCCGGAT-TAGTAACTCGCA
*
79452236 CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAT-TAGTAACTCGCA
* *
79452276 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-ATTAGTAACTCGCA
79452316 CAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
79452341 TTATCATCCG
Statistics
Matches: 97, Mismatches: 7, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
40 95 0.98
41 2 0.02
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.22
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCA
Found at i:79461659 original size:42 final size:42
Alignment explanation
Indices: 79461554--79461664 Score: 134
Period size: 42 Copynumber: 2.6 Consensus size: 42
79461544 TACTGTATCA
* *
79461554 AATGCCATATCCCAAATATGGTCTTATATGAAATATCATATC
1 AATGCCATATCCCAAATATGGTCTTATACGAAATATCATACC
* * * ** *
79461596 GATTCCATGTCCCTCACATGGTCTTATACGAAATCA-CATACC
1 AATGCCATATCCCAAATATGGTCTTATACGAAAT-ATCATACC
79461638 AATGCCATATCCCAAATATGGTCTTAT
1 AATGCCATATCCCAAATATGGTCTTAT
79461665 TTAGAATCTC
Statistics
Matches: 54, Mismatches: 14, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
42 53 0.98
43 1 0.02
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.32
Consensus pattern (42 bp):
AATGCCATATCCCAAATATGGTCTTATACGAAATATCATACC
Found at i:79462746 original size:13 final size:13
Alignment explanation
Indices: 79462728--79462753 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
79462718 TGCCCAAACG
79462728 TCAAAATTTTCAA
1 TCAAAATTTTCAA
79462741 TCAAAATTTTCAA
1 TCAAAATTTTCAA
79462754 AAAAATCATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (13 bp):
TCAAAATTTTCAA
Found at i:79466222 original size:14 final size:15
Alignment explanation
Indices: 79466203--79466232 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
79466193 GTTTATTATA
79466203 TGTG-AAGTATCATG
1 TGTGAAAGTATCATG
79466217 TGTGAAAGTATCATG
1 TGTGAAAGTATCATG
79466232 T
1 T
79466233 CTAAATTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.37
Consensus pattern (15 bp):
TGTGAAAGTATCATG
Found at i:79466933 original size:182 final size:182
Alignment explanation
Indices: 79466626--79466987 Score: 697
Period size: 182 Copynumber: 2.0 Consensus size: 182
79466616 AATAGATGTG
79466626 TGATCCTTGTTTAATTAGTGTTAAAGCCCATGTTGAAATTTTGATTTCGGTTGAGGTATGTGCAT
1 TGATCCTTGTTTAATTAGTGTTAAAGCCCATGTTGAAATTTTGATTTCGGTTGAGGTATGTGCAT
79466691 TCGGTCATAGAAGAAATTGAATAAAATTTGGTTGTTTGTCTTAATTAAGGAGAGAAATTTATGAA
66 TCGGTCATAGAAGAAATTGAATAAAATTTGGTTGTTTGTCTTAATTAAGGAGAGAAATTTATGAA
* *
79466756 TCTATAATTGTAAGTGACTAAATGGTAAAATAATGAGTTGGAGGGACTTGTA
131 TCTATAATTATAAGTGACTAAATGGCAAAATAATGAGTTGGAGGGACTTGTA
79466808 TGATCCTTGTTTAATTAGTGTTAAAGCCCATGTTGAAATTTTGATTTCGGTTGAGGTATGTGCAT
1 TGATCCTTGTTTAATTAGTGTTAAAGCCCATGTTGAAATTTTGATTTCGGTTGAGGTATGTGCAT
*
79466873 TCGGTCATAGAGGAAATTGAATAAAATTTGGTTGTTTGTCTTAATTAAGGAGAGAAATTTATGAA
66 TCGGTCATAGAAGAAATTGAATAAAATTTGGTTGTTTGTCTTAATTAAGGAGAGAAATTTATGAA
79466938 TCTATAATTATAAGTGACTAAATGGCAAAATAATGAGTTGGAGGGACTTG
131 TCTATAATTATAAGTGACTAAATGGCAAAATAATGAGTTGGAGGGACTTG
79466988 AATGTAAAGA
Statistics
Matches: 177, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
182 177 1.00
ACGTcount: A:0.32, C:0.07, G:0.23, T:0.37
Consensus pattern (182 bp):
TGATCCTTGTTTAATTAGTGTTAAAGCCCATGTTGAAATTTTGATTTCGGTTGAGGTATGTGCAT
TCGGTCATAGAAGAAATTGAATAAAATTTGGTTGTTTGTCTTAATTAAGGAGAGAAATTTATGAA
TCTATAATTATAAGTGACTAAATGGCAAAATAATGAGTTGGAGGGACTTGTA
Found at i:79472686 original size:14 final size:15
Alignment explanation
Indices: 79472667--79472696 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
79472657 ATTTATTATA
79472667 TGTG-AAGTATCATG
1 TGTGAAAGTATCATG
79472681 TGTGAAAGTATCATG
1 TGTGAAAGTATCATG
79472696 T
1 T
79472697 CTAAATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.37
Consensus pattern (15 bp):
TGTGAAAGTATCATG
Found at i:79475282 original size:93 final size:93
Alignment explanation
Indices: 79475167--79475338 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
79475157 CGCCCATAAG
* *
79475167 CGAACTCAGACTCAACTCAACGAGCTC-GAGCGTTCACATCCGTAAGTGAACTCGGACTCAACTC
1 CGAACTCAGACTCAACTCAACGAGCTCGGA-CATTCACATCCATAAGTGAACTCGGACTCAACTC
79475231 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
* * *
79475260 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
79475325 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
79475339 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
93 71 0.97
94 2 0.03
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:79475334 original size:46 final size:47
Alignment explanation
Indices: 79475160--79475335 Score: 202
Period size: 46 Copynumber: 3.8 Consensus size: 47
79475150 TGTAACCCGC
* * *
79475160 CCATAAGCGAACTCAGACTCAACTCAACGAGCTC-GAGCGTTCACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCACAT
* *
79475206 CCGTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA-G-C-A-TTCACAT
* *
79475256 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA-CATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCACAT
*
79475299 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
79475336 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 59 0.53
47 31 0.28
48 3 0.03
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (47 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCACAT
Found at i:79475790 original size:30 final size:30
Alignment explanation
Indices: 79475756--79475815 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
79475746 ATTTAATACG
79475756 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
79475786 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
79475816 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:79480261 original size:44 final size:43
Alignment explanation
Indices: 79480183--79480312 Score: 122
Period size: 43 Copynumber: 3.0 Consensus size: 43
79480173 CAGAGGATTC
* * * *
79480183 CAATAGGTGATTTCGTGTAAGACCACGTCCGGGACGTTGGCAT
1 CAATAGTTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
* * **
79480226 CGATA-TATGATT-TATGTGGAAGACC-CTGTCTGGGACAATGGCAT
1 CAATAGT-TGATTACATGT--AAGACCAC-GTCTGGGACGTTGGCAT
*
79480270 CAATAGTTGGTTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 CAATAGTTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
79480313 TGTATGAGCT
Statistics
Matches: 68, Mismatches: 12, Indels: 14
0.72 0.13 0.15
Matches are distributed among these distances:
42 3 0.04
43 31 0.46
44 29 0.43
45 5 0.07
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.28
Consensus pattern (43 bp):
CAATAGTTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
Found at i:79480311 original size:43 final size:42
Alignment explanation
Indices: 79480198--79480312 Score: 117
Period size: 44 Copynumber: 2.7 Consensus size: 42
79480188 GGTGATTTCG
* * *
79480198 TGTAAGACCACGTCCGGGACGTTGGCATCGATATATGATTTA
1 TGTAAGACCACGTCTGGGACGTTGGCATCAATATATGATTCA
** *
79480240 TGTGGAAGACC-CTGTCTGGGACAATGGCATCAATAGT-TGGTTACA
1 TGT--AAGACCAC-GTCTGGGACGTTGGCATCAATA-TATGATT-CA
79480285 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
79480313 TGTATGAGCT
Statistics
Matches: 59, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
42 3 0.05
43 22 0.37
44 29 0.49
45 5 0.08
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCAATATATGATTCA
Found at i:79486711 original size:7 final size:7
Alignment explanation
Indices: 79486699--79486725 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
79486689 CACGAGGTTA
79486699 AAGAAAT
1 AAGAAAT
79486706 AAGAAAT
1 AAGAAAT
79486713 AAGAAAT
1 AAGAAAT
79486720 AAGAAA
1 AAGAAA
79486726 ATCTCTTTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.74, C:0.00, G:0.15, T:0.11
Consensus pattern (7 bp):
AAGAAAT
Found at i:79488935 original size:49 final size:49
Alignment explanation
Indices: 79488882--79488980 Score: 189
Period size: 49 Copynumber: 2.0 Consensus size: 49
79488872 GGAAATTGTT
*
79488882 TATAATGTGCTTGTGTATTCGGTTTATGTGATGAAAATATATGTGATGA
1 TATAATGTGCTTGTGTATTCGGTTTATGCGATGAAAATATATGTGATGA
79488931 TATAATGTGCTTGTGTATTCGGTTTATGCGATGAAAATATATGTGATGA
1 TATAATGTGCTTGTGTATTCGGTTTATGCGATGAAAATATATGTGATGA
79488980 T
1 T
79488981 TATCATCAAC
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.28, C:0.05, G:0.24, T:0.42
Consensus pattern (49 bp):
TATAATGTGCTTGTGTATTCGGTTTATGCGATGAAAATATATGTGATGA
Found at i:79489320 original size:24 final size:24
Alignment explanation
Indices: 79489293--79489342 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
79489283 CAAGAGGGTT
79489293 TAAATTAATGTGGACATATGCACA
1 TAAATTAATGTGGACATATGCACA
*
79489317 TAAATTAATGTGGACATATGCGCA
1 TAAATTAATGTGGACATATGCACA
79489341 TA
1 TA
79489343 GTTTCGTGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.40, C:0.12, G:0.18, T:0.30
Consensus pattern (24 bp):
TAAATTAATGTGGACATATGCACA
Found at i:79494026 original size:15 final size:15
Alignment explanation
Indices: 79494002--79494051 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
79493992 ATCAATTATG
* *
79494002 ATTAAGGTTTGGTTA
1 ATTAAAGTTTGATTA
*
79494017 ATTAAAGTTTAATTA
1 ATTAAAGTTTGATTA
*
79494032 ATT-AATTTTGATTA
1 ATTAAAGTTTGATTA
79494046 ATTAAA
1 ATTAAA
79494052 TTTTAAATCA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
14 12 0.41
15 17 0.59
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (15 bp):
ATTAAAGTTTGATTA
Found at i:79494053 original size:15 final size:15
Alignment explanation
Indices: 79494009--79494055 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
79493999 ATGATTAAGG
* *
79494009 TTTGGTTAATTAAAG
1 TTTGATTAATTAAAT
*
79494024 TTTAATTAATT-AAT
1 TTTGATTAATTAAAT
79494038 TTTGATTAATTAAAT
1 TTTGATTAATTAAAT
79494053 TTT
1 TTT
79494056 AAATCAAGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 12 0.44
15 15 0.56
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (15 bp):
TTTGATTAATTAAAT
Found at i:79495076 original size:9 final size:9
Alignment explanation
Indices: 79495062--79495088 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
79495052 GATTCATTAC
79495062 CAAAACATT
1 CAAAACATT
79495071 CAAAACATT
1 CAAAACATT
79495080 CAAAACATT
1 CAAAACATT
79495089 TTCAATTCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.56, C:0.22, G:0.00, T:0.22
Consensus pattern (9 bp):
CAAAACATT
Found at i:79500634 original size:39 final size:40
Alignment explanation
Indices: 79500517--79500701 Score: 198
Period size: 40 Copynumber: 4.7 Consensus size: 40
79500507 GCTACTCGTT
* *
79500517 CAAATGCCTTCGGGACATAGCCTGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
79500557 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
79500597 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
** * * * * *
79500636 CAAATGCCTTC-GGATCTTAGTTCAGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
79500677 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
79500702 CATCATTCGA
Statistics
Matches: 120, Mismatches: 20, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.27
40 73 0.61
41 13 0.11
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:79501147 original size:218 final size:218
Alignment explanation
Indices: 79500769--79501203 Score: 816
Period size: 218 Copynumber: 2.0 Consensus size: 218
79500759 TTTCATTAGC
* *
79500769 AAAACTCAAACACAAGACACTTATCACTCTTGCAATTTCGGCTGAATAGCCACACACAAAGAGCA
1 AAAACTCAAACACAAGACACTTATCACTCGTGCAATTTCGGCTCAATAGCCACACACAAAGAGCA
* *
79500834 TGATTTTGATTTGCTTAAAACATGATCTAATCAAATCATAATTTAAGCTCTATTACTCAAGAACT
66 TGATTTTGATCTACTTAAAACATGATCTAATCAAATCATAATTTAAGCTCTATTACTCAAGAACT
79500899 TACCTCGGATGTTGTCGAACGATTTCGATGGCTATTCGACCACTTTTTCCTTCCCTTTGTCGGAT
131 TACCTCGGATGTTGTCGAACGATTTCGATGGCTATTCGACCACTTTTTCCTTCCCTTTGTCGGAT
*
79500964 TTAGATCCTCTTTGCTCTTGAGA
196 TTAGATCCCCTTTGCTCTTGAGA
*
79500987 AAAACTCAAACACAAGATACTTATCACTCGTGCAATTTCGGCTCAATAGCCACACACAAAGAGCA
1 AAAACTCAAACACAAGACACTTATCACTCGTGCAATTTCGGCTCAATAGCCACACACAAAGAGCA
79501052 TGATTTTGATCTACTTAAAACATGATCTAATCAAATCATAATTTAAGCTCTATTACTCAAGAACT
66 TGATTTTGATCTACTTAAAACATGATCTAATCAAATCATAATTTAAGCTCTATTACTCAAGAACT
79501117 TACCTCGGATGTTGTCGAACGATTTCGATGGCTATTCGACCACTTTTTCCTTCCCTTTGTCGGAT
131 TACCTCGGATGTTGTCGAACGATTTCGATGGCTATTCGACCACTTTTTCCTTCCCTTTGTCGGAT
79501182 TTAGATCCCCTTTGCTCTTGAG
196 TTAGATCCCCTTTGCTCTTGAG
79501204 CTTAATTAAA
Statistics
Matches: 211, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
218 211 1.00
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (218 bp):
AAAACTCAAACACAAGACACTTATCACTCGTGCAATTTCGGCTCAATAGCCACACACAAAGAGCA
TGATTTTGATCTACTTAAAACATGATCTAATCAAATCATAATTTAAGCTCTATTACTCAAGAACT
TACCTCGGATGTTGTCGAACGATTTCGATGGCTATTCGACCACTTTTTCCTTCCCTTTGTCGGAT
TTAGATCCCCTTTGCTCTTGAGA
Done.