Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 7 of 284
Found at i:2173099 original size:58 final size:58
Alignment explanation
Indices: 2173029--2173138 Score: 166
Period size: 58 Copynumber: 1.9 Consensus size: 58
2173019 AACATGAAGC
* * *
2173029 AATTCACTACTCTCACATTTCAAAACAATATACTTCTGTTTAGAATTCACCACTGAAT
1 AATTCACCACTCTCACATTTCAAAACAATATACTTATGTTTACAATTCACCACTGAAT
* * *
2173087 AATTCACCACTCTTACATTTCAATACAATATATTTATGTTTACAATTCACCA
1 AATTCACCACTCTCACATTTCAAAACAATATACTTATGTTTACAATTCACCA
2173139 TTTCATCATA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
58 46 1.00
ACGTcount: A:0.36, C:0.24, G:0.04, T:0.36
Consensus pattern (58 bp):
AATTCACCACTCTCACATTTCAAAACAATATACTTATGTTTACAATTCACCACTGAAT
Found at i:2177186 original size:46 final size:47
Alignment explanation
Indices: 2177095--2177366 Score: 191
Period size: 46 Copynumber: 5.8 Consensus size: 47
2177085 CCACATTATA
* * *
2177095 AGAGCCAGAGTAAGATCATGTCTAGGACATGGCATCGGCATTGAGATG-
1 AGAGCCAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCTTGAGACGT
* * *
2177143 AGAGCTAGTGTAAGACAGGTCTAGGACATGTATCGGCCTTGAGACGT
1 AGAGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCTTGAGACGT
* * * *
2177190 A-AGCCAGTGTAAGACATGTCTGGGACATGCATCGACCTCGAGACAT
1 AGAGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCTTGAGACGT
* * * * * *
2177236 A-AGCCAGAGTAAGTCATGTTTGGGACATGCAACGG-CTATGAGATG-
1 AGAGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCT-TGAGACGT
* ** * * **
2177281 ATAGTTAGTGTAAGACCATGTTTGGGACATGGCATC-AACTTGAGA--T
1 AGAGCCAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCTTGAGACGT
* *
2177327 ATGAGCCAGTGTAAAACCATGTCTGGGACATGGCATCGGC
1 A-GAGCCAGTGTAAGA-CATGTCTAGGACAT-GCATCGGC
2177367 ACCTTACCCA
Statistics
Matches: 181, Mismatches: 34, Indels: 18
0.78 0.15 0.08
Matches are distributed among these distances:
45 3 0.02
46 96 0.53
47 63 0.35
48 19 0.10
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.23
Consensus pattern (47 bp):
AGAGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCTTGAGACGT
Found at i:2177325 original size:47 final size:48
Alignment explanation
Indices: 2177191--2177363 Score: 135
Period size: 47 Copynumber: 3.7 Consensus size: 48
2177181 TTGAGACGTA
* * * * * *
2177191 AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGACCT-CGAGACATA
1 AGCCAGTGTAAAACCATGTTTGGGACATGGCATC-AACTATGAGATATG
* ** * **
2177237 AGCCAGAGT-AAGTCATGTTTGGGACAT-GCAACGGCTATGAGATGAT-
1 AGCCAGTGTAAAACCATGTTTGGGACATGGCATCAACTATGAGAT-ATG
** *
2177283 AGTTAGTGTAAGACCATGTTTGGGACATGGCATCAACT-TGAGATATG
1 AGCCAGTGTAAAACCATGTTTGGGACATGGCATCAACTATGAGATATG
*
2177330 AGCCAGTGTAAAACCATGTCTGGGACATGGCATC
1 AGCCAGTGTAAAACCATGTTTGGGACATGGCATC
2177364 GGCACCTTAC
Statistics
Matches: 99, Mismatches: 22, Indels: 11
0.75 0.17 0.08
Matches are distributed among these distances:
45 3 0.03
46 37 0.37
47 53 0.54
48 6 0.06
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (48 bp):
AGCCAGTGTAAAACCATGTTTGGGACATGGCATCAACTATGAGATATG
Found at i:2180944 original size:33 final size:33
Alignment explanation
Indices: 2180907--2180977 Score: 142
Period size: 33 Copynumber: 2.2 Consensus size: 33
2180897 CTTAAAATTT
2180907 TAAAAGGCCTTATTACATTAAAAATACCCAAAA
1 TAAAAGGCCTTATTACATTAAAAATACCCAAAA
2180940 TAAAAGGCCTTATTACATTAAAAATACCCAAAA
1 TAAAAGGCCTTATTACATTAAAAATACCCAAAA
2180973 TAAAA
1 TAAAA
2180978 CCATTTATAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.54, C:0.17, G:0.06, T:0.24
Consensus pattern (33 bp):
TAAAAGGCCTTATTACATTAAAAATACCCAAAA
Found at i:2192375 original size:17 final size:18
Alignment explanation
Indices: 2192342--2192375 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
2192332 ATGGGCCAAA
*
2192342 ATGGGCTGTGTGGGCCCC
1 ATGGGCTGTGGGGGCCCC
2192360 ATGGGCT-TGGGGGCCC
1 ATGGGCTGTGGGGGCCC
2192376 GCATTGGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.06, C:0.26, G:0.47, T:0.21
Consensus pattern (18 bp):
ATGGGCTGTGGGGGCCCC
Found at i:2194374 original size:41 final size:42
Alignment explanation
Indices: 2194326--2194429 Score: 122
Period size: 43 Copynumber: 2.5 Consensus size: 42
2194316 TTAGACCATG
* * *
2194326 TCTGGGACATTGGCATTGTATTTGA-GTCGTGTAAGACC-CTA
1 TCTGGGACATTGGCATTGTATGTGATGGCATGTAAGACCAC-A
* *
2194367 TCTGGGACAGTGGCATCGATATGTGATGGCATGTAAGACCACA
1 TCTGGGACATTGGCATTG-TATGTGATGGCATGTAAGACCACA
*
2194410 TTTGGGACATTGGCATTGTA
1 TCTGGGACATTGGCATTGTA
2194430 CGATATGTGT
Statistics
Matches: 52, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
41 16 0.31
42 8 0.15
43 27 0.52
44 1 0.02
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.31
Consensus pattern (42 bp):
TCTGGGACATTGGCATTGTATGTGATGGCATGTAAGACCACA
Found at i:2196970 original size:27 final size:27
Alignment explanation
Indices: 2196940--2196993 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
2196930 TCATACAACC
* *
2196940 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
2196967 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
2196994 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:2203167 original size:7 final size:7
Alignment explanation
Indices: 2203155--2203179 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
2203145 AAGGAAGAAT
2203155 TGGCAAG
1 TGGCAAG
2203162 TGGCAAG
1 TGGCAAG
2203169 TGGCAAG
1 TGGCAAG
2203176 TGGC
1 TGGC
2203180 GTCACATGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.24, C:0.16, G:0.44, T:0.16
Consensus pattern (7 bp):
TGGCAAG
Found at i:2204478 original size:29 final size:29
Alignment explanation
Indices: 2204436--2204560 Score: 182
Period size: 29 Copynumber: 4.3 Consensus size: 29
2204426 GAAAGCATGT
2204436 ATATGAACT-TGATTTGGGCCTAATGGGCC
1 ATATGAA-TGTGATTTGGGCCTAATGGGCC
2204465 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
2204494 ATACGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* * *
2204523 ATATGAATGAGA-TTAGGCCTAGTGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
2204551 ATATGCATGT
1 ATATGAATGT
2204561 ATGTAGACTT
Statistics
Matches: 88, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
28 23 0.26
29 65 0.74
ACGTcount: A:0.26, C:0.15, G:0.30, T:0.30
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:2205217 original size:5 final size:5
Alignment explanation
Indices: 2205209--2205234 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
2205199 TTGGGGTGGG
2205209 TTGCA TTGCA TTGCA TTGCA TTGCA T
1 TTGCA TTGCA TTGCA TTGCA TTGCA T
2205235 GTATGATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTGCA
Found at i:2217576 original size:41 final size:42
Alignment explanation
Indices: 2217490--2217630 Score: 167
Period size: 43 Copynumber: 3.3 Consensus size: 42
2217480 AGACAACGTT
* * *
2217490 TGGGACGTTGGCATCGATATGTGATTATGTGTTAGACCATGTC
1 TGGGACATTGGCATCGATATGTGATT-CGTGTTAGACCATATC
* *
2217533 TGGGACATTGGCATTG-TATTTGATTCGTGTTAGACCATATC
1 TGGGACATTGGCATCGATATGTGATTCGTGTTAGACCATATC
* * * * *
2217574 TGGGACAGTGGCATCGATATGTGATGGCATGTAAGACCACATC
1 TGGGACATTGGCATCGATATGTGAT-TCGTGTTAGACCATATC
2217617 TGGGACATTGGCAT
1 TGGGACATTGGCAT
2217631 TGTACGATAT
Statistics
Matches: 83, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
41 28 0.34
42 15 0.18
43 40 0.48
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.32
Consensus pattern (42 bp):
TGGGACATTGGCATCGATATGTGATTCGTGTTAGACCATATC
Found at i:2219859 original size:49 final size:49
Alignment explanation
Indices: 2219803--2219897 Score: 163
Period size: 49 Copynumber: 1.9 Consensus size: 49
2219793 TAGACAAGGC
* *
2219803 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
*
2219852 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC
2219898 TCACAATGAT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 43 1.00
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.27
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:2220173 original size:27 final size:27
Alignment explanation
Indices: 2220143--2220196 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
2220133 TCATACAACC
* *
2220143 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
2220170 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
2220197 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:2220526 original size:30 final size:30
Alignment explanation
Indices: 2220492--2220550 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
2220482 CCAAAATCAT
2220492 ATTTTGGAAAAATTACAATTTTGCCCCTAA
1 ATTTTGGAAAAATTACAATTTTGCCCCTAA
** *
2220522 ATTTTGTCAAAATTACATTTTTGCCCCTA
1 ATTTTGGAAAAATTACAATTTTGCCCCTA
2220551 GGCTCGTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.32, C:0.19, G:0.08, T:0.41
Consensus pattern (30 bp):
ATTTTGGAAAAATTACAATTTTGCCCCTAA
Found at i:2222677 original size:57 final size:57
Alignment explanation
Indices: 2222608--2222722 Score: 221
Period size: 57 Copynumber: 2.0 Consensus size: 57
2222598 ACAATAAAGT
2222608 TAGCTTTTCTCAATTCGTCATTTTCATCAATGATGTCTCAAGATAATTCGCAAACAA
1 TAGCTTTTCTCAATTCGTCATTTTCATCAATGATGTCTCAAGATAATTCGCAAACAA
*
2222665 TAGCTTTTCTCAATTCGTCATTTTCATCAATGATGTCTCAAGATAATTTGCAAACAA
1 TAGCTTTTCTCAATTCGTCATTTTCATCAATGATGTCTCAAGATAATTCGCAAACAA
2222722 T
1 T
2222723 CATGCATTGG
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.31, C:0.20, G:0.10, T:0.38
Consensus pattern (57 bp):
TAGCTTTTCTCAATTCGTCATTTTCATCAATGATGTCTCAAGATAATTCGCAAACAA
Found at i:2226949 original size:7 final size:7
Alignment explanation
Indices: 2226937--2226961 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
2226927 AAGGAAGAAT
2226937 TGGCAAG
1 TGGCAAG
2226944 TGGCAAG
1 TGGCAAG
2226951 TGGCAAG
1 TGGCAAG
2226958 TGGC
1 TGGC
2226962 GTCACAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.24, C:0.16, G:0.44, T:0.16
Consensus pattern (7 bp):
TGGCAAG
Found at i:2229777 original size:47 final size:47
Alignment explanation
Indices: 2229699--2230049 Score: 567
Period size: 47 Copynumber: 7.4 Consensus size: 47
2229689 CCCTTCGGGA
* * * * * *
2229699 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
2229746 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
2229793 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
2229840 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
2229887 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
2229934 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
2229981 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
2230030 CCTATCACATATATATACTT
1 CTTATCACATATATACACTT
2230050 GTACATCAAT
Statistics
Matches: 287, Mismatches: 15, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
47 244 0.85
49 43 0.15
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:2231672 original size:56 final size:56
Alignment explanation
Indices: 2231605--2231836 Score: 437
Period size: 56 Copynumber: 4.1 Consensus size: 56
2231595 TATTAGTTTA
*
2231605 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTGATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
2231661 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
2231717 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
2231773 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
2231829 TTGCCCAT
1 TTGCCCAT
2231837 CATCCCTTGT
Statistics
Matches: 172, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 172 1.00
ACGTcount: A:0.23, C:0.22, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:2232283 original size:16 final size:16
Alignment explanation
Indices: 2232264--2232295 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
2232254 GCAAAAGGCA
2232264 AAATGCCAAAAAGCTG
1 AAATGCCAAAAAGCTG
*
2232280 AAATGCCGAAAAGCTG
1 AAATGCCAAAAAGCTG
2232296 GAAGTTTGGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.19, G:0.22, T:0.12
Consensus pattern (16 bp):
AAATGCCAAAAAGCTG
Found at i:2232593 original size:28 final size:29
Alignment explanation
Indices: 2232508--2232603 Score: 140
Period size: 29 Copynumber: 3.3 Consensus size: 29
2232498 GAAAGCATGT
2232508 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
2232537 ATACGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* * *
2232566 ATATGAATGGGA-TTAGGCCTAGTGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
2232594 ATATGCATGT
1 ATATGAATGT
2232604 ATGTAGACTT
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
28 22 0.37
29 38 0.63
ACGTcount: A:0.25, C:0.15, G:0.31, T:0.29
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:2243578 original size:34 final size:34
Alignment explanation
Indices: 2243535--2243604 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
2243525 CTTAAAAGTA
*
2243535 AGAGGTACCTTTTTTTTTGAACGATGACCTTAGT
1 AGAGGTACCTTTTTTTTCGAACGATGACCTTAGT
2243569 AGAGGTACCTTTTTTTTCGAACGATGACCTTAGT
1 AGAGGTACCTTTTTTTTCGAACGATGACCTTAGT
2243603 AG
1 AG
2243605 CATCTTGTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.24, C:0.16, G:0.21, T:0.39
Consensus pattern (34 bp):
AGAGGTACCTTTTTTTTCGAACGATGACCTTAGT
Found at i:2252352 original size:40 final size:40
Alignment explanation
Indices: 2252254--2252516 Score: 309
Period size: 40 Copynumber: 6.6 Consensus size: 40
2252244 TCCTCGTTCA
* * * ** *
2252254 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
2252293 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
2252333 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
2252373 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
2252413 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
2252453 AAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACG
* *
2252493 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
2252517 CAGCATTCAA
Statistics
Matches: 199, Mismatches: 20, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
39 37 0.19
40 154 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:2260293 original size:40 final size:40
Alignment explanation
Indices: 2260195--2260577 Score: 538
Period size: 40 Copynumber: 9.6 Consensus size: 40
2260185 TCCTCGTTCA
* * * * *
2260195 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
2260234 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
2260274 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
2260314 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
2260354 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
2260394 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
2260434 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
2260474 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
2260514 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
2260554 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
2260578 CAGCATTCAA
Statistics
Matches: 320, Mismatches: 20, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
39 37 0.12
40 275 0.86
41 8 0.03
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:2260586 original size:41 final size:41
Alignment explanation
Indices: 2260509--2260586 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
2260499 TTAGTATCTC
* * *
2260509 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
2260550 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
2260587 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:2262730 original size:43 final size:43
Alignment explanation
Indices: 2262682--2262782 Score: 121
Period size: 43 Copynumber: 2.3 Consensus size: 43
2262672 ATTTCTCCTG
* * * *
2262682 CTAGGCTTGAAGCCCGATATCATTTCACCGGCATGATAGCCTA
1 CTAGGCTCGAAGCCCAATATCATCTAACCGGCATGATAGCCTA
* * * *
2262725 CTAGGCTCGAAGCCCAATATTATCTAACTGGCATTATAGCCTG
1 CTAGGCTCGAAGCCCAATATCATCTAACCGGCATGATAGCCTA
*
2262768 CTAGGCCCGAAGCCC
1 CTAGGCTCGAAGCCC
2262783 TATAATATTA
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 49 1.00
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.24
Consensus pattern (43 bp):
CTAGGCTCGAAGCCCAATATCATCTAACCGGCATGATAGCCTA
Found at i:2263997 original size:29 final size:28
Alignment explanation
Indices: 2263956--2264024 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 28
2263946 ACACTCACAC
* *
2263956 AACCCATATATTT-CACAATTTCACATTTT
1 AACCCA-AAATTTCCAC-ATTTCACAATTT
2263985 AACCACAAAATTTCCACATTTCACAATTT
1 AACC-CAAAATTTCCACATTTCACAATTT
*
2264014 AATCCAAAATT
1 AACCCAAAATT
2264025 GACAGTTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
28 7 0.20
29 23 0.66
30 5 0.14
ACGTcount: A:0.41, C:0.25, G:0.00, T:0.35
Consensus pattern (28 bp):
AACCCAAAATTTCCACATTTCACAATTT
Found at i:2264723 original size:6 final size:6
Alignment explanation
Indices: 2264686--2264869 Score: 108
Period size: 6 Copynumber: 29.8 Consensus size: 6
2264676 TATCAAAACT
* * * * *
2264686 AGAATC AAAATG AGAATT AGAATC AAAATC AGAATC AG-GTGAC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC
* * * * *
2264735 AAAATC AGAATC AAAATC AAAATT AGGTAA-C AGAATC AGAATC AGTATC
1 AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAATC
* * *
2264784 AGGTAA-C AGAATC AAAATC AGAACC AGAATC AGAATT AGGTAAT- AGAATC
1 A-G-AATC AGAATC AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC
* *
2264834 AGAATT AGTATC AGGTAA-C AGAATC AGAATC AGAAT
1 AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAAT
2264870 GTGAATGCAA
Statistics
Matches: 137, Mismatches: 26, Indels: 30
0.71 0.13 0.16
Matches are distributed among these distances:
5 10 0.07
6 107 0.78
7 12 0.09
8 8 0.06
ACGTcount: A:0.51, C:0.13, G:0.17, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:2264768 original size:37 final size:37
Alignment explanation
Indices: 2264704--2264784 Score: 117
Period size: 37 Copynumber: 2.2 Consensus size: 37
2264694 AATGAGAATT
* *
2264704 AGAATCAAAATCAGAATCAGGTGACAGAATCAAAATC
1 AGAATCAAAATCAAAATCAGGTAACAGAATCAAAATC
* *
2264741 AGAATCAAAATCAAAATTAGGTAACAGAATCAGAATC
1 AGAATCAAAATCAAAATCAGGTAACAGAATCAAAATC
*
2264778 AGTATCA
1 AGAATCA
2264785 GGTAACAGAA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.52, C:0.15, G:0.15, T:0.19
Consensus pattern (37 bp):
AGAATCAAAATCAAAATCAGGTAACAGAATCAAAATC
Found at i:2264785 original size:62 final size:62
Alignment explanation
Indices: 2264704--2264869 Score: 251
Period size: 62 Copynumber: 2.7 Consensus size: 62
2264694 AATGAGAATT
* * *
2264704 AGAATCAAAATCAGAATCAGGTGACAGAATCAAAATCAGAATCAAAATCAAAATTAGGTAAC
1 AGAATCAGAATCAGTATCAGGTAACAGAATCAAAATCAGAATCAAAATCAAAATTAGGTAAC
* * * *
2264766 AGAATCAGAATCAGTATCAGGTAACAGAATCAAAATCAGAACCAGAATCAGAATTAGGTAAT
1 AGAATCAGAATCAGTATCAGGTAACAGAATCAAAATCAGAATCAAAATCAAAATTAGGTAAC
* *
2264828 AGAATCAGAATTAGTATCAGGTAACAGAATCAGAATCAGAAT
1 AGAATCAGAATCAGTATCAGGTAACAGAATCAAAATCAGAAT
2264870 GTGAATGCAA
Statistics
Matches: 94, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
62 94 1.00
ACGTcount: A:0.50, C:0.14, G:0.17, T:0.19
Consensus pattern (62 bp):
AGAATCAGAATCAGTATCAGGTAACAGAATCAAAATCAGAATCAAAATCAAAATTAGGTAAC
Found at i:2264795 original size:19 final size:19
Alignment explanation
Indices: 2264712--2264866 Score: 84
Period size: 19 Copynumber: 7.6 Consensus size: 19
2264702 TTAGAATCAA
*
2264712 AATCAGAATCAGGTGACAG
1 AATCAGAATCAGGTAACAG
* *
2264731 AATCAAAATCA-G-AATCAA
1 AATCAGAATCAGGTAA-CAG
* *
2264749 AATCAAAATTAGGTAACAG
1 AATCAGAATCAGGTAACAG
2264768 AATCAGAATCAGTATCAGGTAACAG
1 AATCAG----A--ATCAGGTAACAG
*
2264793 AATCAAAATCA-G-AACCAG
1 AATCAGAATCAGGTAA-CAG
* *
2264811 AATCAGAATTAGGTAATAG
1 AATCAGAATCAGGTAACAG
2264830 AATCAGAATTAGTATCAGGTAACAG
1 AATCAG----A--ATCAGGTAACAG
2264855 AATCAGAATCAG
1 AATCAGAATCAG
2264867 AATGTGAATG
Statistics
Matches: 105, Mismatches: 13, Indels: 36
0.68 0.08 0.23
Matches are distributed among these distances:
17 3 0.03
18 26 0.25
19 36 0.34
20 4 0.04
21 2 0.02
23 2 0.02
25 32 0.30
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.19
Consensus pattern (19 bp):
AATCAGAATCAGGTAACAG
Found at i:2264804 original size:25 final size:25
Alignment explanation
Indices: 2264740--2264806 Score: 98
Period size: 25 Copynumber: 2.7 Consensus size: 25
2264730 GAATCAAAAT
* *
2264740 CAGAATCAAAATCAAAATTAGGTAA
1 CAGAATCAAAATCAGAATCAGGTAA
* *
2264765 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAAAATCAGAATCAGGTAA
2264790 CAGAATCAAAATCAGAA
1 CAGAATCAAAATCAGAA
2264807 CCAGAATCAG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.52, C:0.15, G:0.15, T:0.18
Consensus pattern (25 bp):
CAGAATCAAAATCAGAATCAGGTAA
Found at i:2264834 original size:31 final size:31
Alignment explanation
Indices: 2264737--2264847 Score: 93
Period size: 31 Copynumber: 3.6 Consensus size: 31
2264727 ACAGAATCAA
* * *
2264737 AATCAGAATCAAAATCAAAATTAGGTAACAG
1 AATCAGAATCAGAATCAGAATTAGGTAATAG
* * *
2264768 AATCAGAATCAGTATCAGGTAA-CA-G-AATCAA
1 AATCAGAATCAGAATCA-G-AATTAGGTAAT-AG
*
2264799 AATCAGAACCAGAATCAGAATTAGGTAATAG
1 AATCAGAATCAGAATCAGAATTAGGTAATAG
* *
2264830 AATCAGAATTAGTATCAG
1 AATCAGAATCAGAATCAG
2264848 GTAACAGAAT
Statistics
Matches: 61, Mismatches: 13, Indels: 12
0.71 0.15 0.14
Matches are distributed among these distances:
29 2 0.03
30 4 0.07
31 49 0.80
32 4 0.07
33 2 0.03
ACGTcount: A:0.50, C:0.14, G:0.16, T:0.21
Consensus pattern (31 bp):
AATCAGAATCAGAATCAGAATTAGGTAATAG
Found at i:2264836 original size:25 final size:25
Alignment explanation
Indices: 2264802--2264869 Score: 91
Period size: 25 Copynumber: 2.7 Consensus size: 25
2264792 GAATCAAAAT
* *
2264802 CAGAACCAGAATCAGAATTAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
* * *
2264827 TAGAATCAGAATTAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
2264852 CAGAATCAGAATCAGAAT
1 CAGAATCAGAATCAGAAT
2264870 GTGAATGCAA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.47, C:0.13, G:0.19, T:0.21
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATCAGGTAA
Found at i:2265134 original size:27 final size:26
Alignment explanation
Indices: 2265087--2265137 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
2265077 CGAGGCTGCC
*
2265087 AGATATTGTGACGAAGTCACCAGAAT
1 AGATATTGTGACGAAGCCACCAGAAT
* *
2265113 AGATATATGTGGCGAGGCCACCAGA
1 AGATAT-TGTGACGAAGCCACCAGA
2265138 TTGCAGCGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.35, C:0.18, G:0.27, T:0.20
Consensus pattern (26 bp):
AGATATTGTGACGAAGCCACCAGAAT
Found at i:2265412 original size:27 final size:27
Alignment explanation
Indices: 2265382--2265633 Score: 226
Period size: 27 Copynumber: 9.3 Consensus size: 27
2265372 AGGGTAAAAT
* *
2265382 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
2265409 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* * * * *
2265436 AGTAATTCTACCCTATAGGGGTATTTT
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
2265463 GGT-ATTTCTACCTTACAAGGGTATTCC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* *
2265490 AAG-AATTTTACCCTACAAGGGTATTTT
1 -GGTAATTTTACCCTACAAGGGTATTTC
* * *
2265517 AGTAATTTTACCCTACAGGGGTATTTT
1 GGTAATTTTACCCTACAAGGGTATTTC
* * *
2265544 GGT-ATTTCTACCTTACAGGGGTATTTT
1 GGTAATTT-TACCCTACAAGGGTATTTC
*
2265571 GGT-ATTTCTACCCTACAAGGATATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
*
2265598 AG-AATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
*
2265625 GATAATTTT
1 GGTAATTTT
2265634 GTAAATCGAG
Statistics
Matches: 189, Mismatches: 29, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
26 9 0.05
27 170 0.90
28 10 0.05
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.38
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAGGGTATTTC
Found at i:2265441 original size:54 final size:54
Alignment explanation
Indices: 2265383--2265623 Score: 263
Period size: 54 Copynumber: 4.5 Consensus size: 54
2265373 GGGTAAAATG
* * * *
2265383 GTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTTTACCCTACAAGGGTATTTTGGTAATTCTACCCTACAAGGGTATTTCA
* * * * * *
2265437 GTAATTCTACCCTATAGGGGTATTTTGGTATTTCTACCTTACAAGGGTATTCCAA
1 GTAATTTTACCCTACAAGGGTATTTTGGTAATTCTACCCTACAAGGGTATTTC-A
* * * **
2265492 G-AATTTTACCCTACAAGGGTATTTTAGTAATTTTACCCTACAGGGGTATTTTG
1 GTAATTTTACCCTACAAGGGTATTTTGGTAATTCTACCCTACAAGGGTATTTCA
* * * *
2265545 GT-ATTTCTACCTTACAGGGGTATTTTGGTATTTCTACCCTACAAGGATATTTCA
1 GTAATTT-TACCCTACAAGGGTATTTTGGTAATTCTACCCTACAAGGGTATTTCA
2265599 G-AATTTCTACCCTACAAGGGTATTT
1 GTAATTT-TACCCTACAAGGGTATTT
2265624 CGATAATTTT
Statistics
Matches: 151, Mismatches: 32, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
53 5 0.03
54 144 0.95
55 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (54 bp):
GTAATTTTACCCTACAAGGGTATTTTGGTAATTCTACCCTACAAGGGTATTTCA
Found at i:2265502 original size:81 final size:80
Alignment explanation
Indices: 2265412--2265623 Score: 282
Period size: 81 Copynumber: 2.6 Consensus size: 80
2265402 GTATCTCGGT
* * *
2265412 AATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTTGGTATTTCTACCTT
1 AATTTTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTTGGTATTTCTACCTT
2265477 ACAAGGGTATTCCAAG
66 ACAAGGGTATT-CAAG
* *
2265493 AATTTTACCCTACAAGGGTATTTTAGTAATTTTACCCTACAGGGGTATTTTGGTATTTCTACCTT
1 AATTTTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTTGGTATTTCTACCTT
* ***
2265558 ACAGGGGTATTTTGG
66 ACAAGGGTATTCAAG
* * *
2265573 TATTTCTACCCTACAAGGATATTTCAG-AATTTCTACCCTACAAGGGTATTT
1 AATTT-TACCCTACAAGGGTATTTCAGTAA-TTCTACCCTACAGGGGTATTT
2265624 CGATAATTTT
Statistics
Matches: 115, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
80 7 0.06
81 108 0.94
ACGTcount: A:0.26, C:0.18, G:0.17, T:0.38
Consensus pattern (80 bp):
AATTTTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTTGGTATTTCTACCTT
ACAAGGGTATTCAAG
Found at i:2265645 original size:27 final size:27
Alignment explanation
Indices: 2265615--2265713 Score: 78
Period size: 27 Copynumber: 3.7 Consensus size: 27
2265605 CTACCCTACA
2265615 AGGGTATTTCGATAATTTTGTAAATCG
1 AGGGTATTTCGATAATTTTGTAAATCG
** * *
2265642 AGGGTAAAATAG-TAATTTCGTAAATC-
1 AGGGT-ATTTCGATAATTTTGTAAATCG
* ** *
2265668 AGGGTACTTT-GGTAATTTTACAAGTCG
1 AGGGTA-TTTCGATAATTTTGTAAATCG
*
2265695 AGGGTATTTCAATAATTTT
1 AGGGTATTTCGATAATTTT
2265714 ACAGGTCGAG
Statistics
Matches: 55, Mismatches: 12, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
25 2 0.04
26 19 0.35
27 31 0.56
28 3 0.05
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.38
Consensus pattern (27 bp):
AGGGTATTTCGATAATTTTGTAAATCG
Found at i:2265710 original size:80 final size:81
Alignment explanation
Indices: 2265615--2265771 Score: 199
Period size: 80 Copynumber: 2.0 Consensus size: 81
2265605 CTACCCTACA
* ** **
2265615 AGGGTATTTCGATAATTTTGTAAATCGAGGGTAAAATAGTAATTTCGTAAATC-AGGGTACTTTG
1 AGGGTATTTCAATAATTTTACAAATCGAGGGTAAAATAGTAATTTCACAAATCAAGGGTACTTTG
2265679 GTAATTTTACAAGTCG
66 GTAATTTTACAAGTCG
** *** * *
2265695 AGGGTATTTCAATAATTTTACAGGTCGAGGGTATTTTAGTAATTTTACAAATCAAGGGTAGTTTG
1 AGGGTATTTCAATAATTTTACAAATCGAGGGTAAAATAGTAATTTCACAAATCAAGGGTACTTTG
2265760 GTAATTTTACAA
66 GTAATTTTACAA
2265772 ACTAGGAGTA
Statistics
Matches: 64, Mismatches: 12, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
80 42 0.66
81 22 0.34
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (81 bp):
AGGGTATTTCAATAATTTTACAAATCGAGGGTAAAATAGTAATTTCACAAATCAAGGGTACTTTG
GTAATTTTACAAGTCG
Found at i:2265772 original size:27 final size:27
Alignment explanation
Indices: 2265668--2265948 Score: 294
Period size: 27 Copynumber: 10.4 Consensus size: 27
2265658 TTCGTAAATC
* ** *
2265668 AGGGTACTTTGGTAATTTTACAAGTCG
1 AGGGTATTTTGGTAATTTTACAAACCA
*** *** *
2265695 AGGGTATTTCAATAATTTTACAGGTCG
1 AGGGTATTTTGGTAATTTTACAAACCA
* *
2265722 AGGGTATTTTAGTAATTTTACAAATCA
1 AGGGTATTTTGGTAATTTTACAAACCA
* *
2265749 AGGGTAGTTTGGTAATTTTACAAA-CT
1 AGGGTATTTTGGTAATTTTACAAACCA
*
2265775 AGGAGTATTTTGGTAAGTTTACAAACCA
1 AGG-GTATTTTGGTAATTTTACAAACCA
*
2265803 GGGGTATTTTGGTAATTTTACAAACCA
1 AGGGTATTTTGGTAATTTTACAAACCA
* * *
2265830 AGGGTATTTTGGTGATTTTATAAACTA
1 AGGGTATTTTGGTAATTTTACAAACCA
* * *
2265857 AGGGTATTATAGTAATTTTGCAAACCA
1 AGGGTATTTTGGTAATTTTACAAACCA
* **
2265884 GGGGTATTTTGGTAATTTTGTAAACCA
1 AGGGTATTTTGGTAATTTTACAAACCA
*
2265911 CGGGTATTTTGGTAATTTTACAAACCA
1 AGGGTATTTTGGTAATTTTACAAACCA
*
2265938 GGGGTATTTTG
1 AGGGTATTTTG
2265949 ATGATTTGGT
Statistics
Matches: 216, Mismatches: 36, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
26 4 0.02
27 209 0.97
28 3 0.01
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.38
Consensus pattern (27 bp):
AGGGTATTTTGGTAATTTTACAAACCA
Found at i:2268772 original size:18 final size:16
Alignment explanation
Indices: 2268750--2268801 Score: 59
Period size: 18 Copynumber: 3.0 Consensus size: 16
2268740 GACAATTCTT
2268750 TTCTCTTCTTCTTTTC
1 TTCTCTTCTTCTTTTC
*
2268766 TCATCTCTTCATCTATTTC
1 T--TCTCTTCTTCT-TTTC
2268785 TTCTTCTTCTTCTTTTC
1 TTC-TCTTCTTCTTTTC
2268802 CTCTATAGCT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
16 1 0.03
17 6 0.20
18 18 0.60
19 5 0.17
ACGTcount: A:0.06, C:0.31, G:0.00, T:0.63
Consensus pattern (16 bp):
TTCTCTTCTTCTTTTC
Found at i:2269895 original size:27 final size:27
Alignment explanation
Indices: 2269865--2269922 Score: 75
Period size: 26 Copynumber: 2.2 Consensus size: 27
2269855 TAATAAAGTA
*
2269865 CCCTAAGTATG-AAAATTACCATTATAC
1 CCCTAAG-ATGCAAAATGACCATTATAC
*
2269892 CCCT-AGGTGCAAAATGACCATTATAC
1 CCCTAAGATGCAAAATGACCATTATAC
2269918 CCCTA
1 CCCTA
2269923 GGGTTGATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 2 0.07
26 21 0.78
27 4 0.15
ACGTcount: A:0.36, C:0.28, G:0.10, T:0.26
Consensus pattern (27 bp):
CCCTAAGATGCAAAATGACCATTATAC
Found at i:2270070 original size:28 final size:28
Alignment explanation
Indices: 2270030--2270090 Score: 95
Period size: 28 Copynumber: 2.2 Consensus size: 28
2270020 GGAAGCGTTC
* *
2270030 TGGTGGCTCTGCCACAAATATCTGTTTT
1 TGGTGGCCCTGCCACAAATATCTGTATT
*
2270058 TGGTGGCCCTGCCACAATTATCTGTATT
1 TGGTGGCCCTGCCACAAATATCTGTATT
2270086 TGGTG
1 TGGTG
2270091 ACTTTGTCAC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.16, C:0.21, G:0.25, T:0.38
Consensus pattern (28 bp):
TGGTGGCCCTGCCACAAATATCTGTATT
Found at i:2270101 original size:28 final size:27
Alignment explanation
Indices: 2270038--2270109 Score: 81
Period size: 28 Copynumber: 2.6 Consensus size: 27
2270028 TCTGGTGGCT
* *
2270038 CTGCCACAAATATCTGTTTTTGGTGGCC
1 CTGCCAC-AATATCTGTATTTGGTGACC
*
2270066 CTGCCACAATTATCTGTATTTGGTGACT
1 CTGCCACAA-TATCTGTATTTGGTGACC
* *
2270094 TTGTCACAATATCTGT
1 CTGCCACAATATCTGT
2270110 TCTGGCACCC
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
27 9 0.24
28 29 0.76
ACGTcount: A:0.21, C:0.22, G:0.18, T:0.39
Consensus pattern (27 bp):
CTGCCACAATATCTGTATTTGGTGACC
Found at i:2276650 original size:18 final size:18
Alignment explanation
Indices: 2276629--2276679 Score: 68
Period size: 18 Copynumber: 2.8 Consensus size: 18
2276619 ACAATTCTTT
2276629 TCTCTTCTTCTTTTCTCC
1 TCTCTTCTTCTTTTCTCC
* *
2276647 TCTCTTCATCTATTTCTTC
1 TCTCTTCTTCT-TTTCTCC
2276666 T-TCTTCTTCTTTTC
1 TCTCTTCTTCTTTTC
2276680 CTCTATAGCC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
17 4 0.14
18 18 0.62
19 7 0.24
ACGTcount: A:0.04, C:0.33, G:0.00, T:0.63
Consensus pattern (18 bp):
TCTCTTCTTCTTTTCTCC
Found at i:2277920 original size:28 final size:28
Alignment explanation
Indices: 2277877--2277965 Score: 112
Period size: 28 Copynumber: 3.3 Consensus size: 28
2277867 TGGAGGAAGC
2277877 GTTT-TGGTGGCTCTGCCACAAATATCT
1 GTTTCTGGTGGCTCTGCCACAAATATCT
* *
2277904 GTTTCTGGTGGCCCTGCCACAATTATCT
1 GTTTCTGGTGGCTCTGCCACAAATATCT
* * *
2277932 GTATCTGGTGACTCTGTCAC-AATATCT
1 GTTTCTGGTGGCTCTGCCACAAATATCT
2277959 G-TTCTGG
1 GTTTCTGG
2277966 CAGCCATGCT
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
26 5 0.09
27 11 0.21
28 37 0.70
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.37
Consensus pattern (28 bp):
GTTTCTGGTGGCTCTGCCACAAATATCT
Found at i:2279346 original size:672 final size:672
Alignment explanation
Indices: 2278063--2279406 Score: 2643
Period size: 672 Copynumber: 2.0 Consensus size: 672
2278053 ACGGATGGAT
2278063 CTGGGTTGGGTTTTCTACATACAGTTCTGTTTCTGTTATGGGCCTATGGGCTTTATTCTGAATTC
1 CTGGGTTGGGTTTTCTACATACAGTTCTGTTTCTGTTATGGGCCTATGGGCTTTATTCTGAATTC
2278128 TGTATAGGGCTAAGGCCGAACTTAATCTGTTTCTGTGGTTTGAACTGGTTTAGACTATGGTTGGG
66 TGTATAGGGCTAAGGCCGAACTTAATCTGTTTCTGTGGTTTGAACTGGTTTAGACTATGGTTGGG
*
2278193 TTATTTTACACACTGAGTTTCCCAAACTCATCCCTTATTTTCATCCACGCAGGTAATCCCCAACC
131 TTATTTTACACACTGAGTTTCCCAAACTCATCCCTTATTTTCATCCACGCAGGTAACCCCCAACC
2278258 ATAGTGGGCTTGGAGCTGTGAGGGATTCGGAGTGGCCACACGTACTGCAAACTTGATTTTCTTCT
196 ATAGTGGGCTTGGAGCTGTGAGGGATTCGGAGTGGCCACACGTACTGCAAACTTGATTTTCTTCT
2278323 TATAATTTAATTAGTTTTTATTTACTTTAATTGTTTTAGGTTTTAAGTTGTAATAAGGACGCTTT
261 TATAATTTAATTAGTTTTTATTTACTTTAATTGTTTTAGGTTTTAAGTTGTAATAAGGACGCTTT
2278388 AATTATTTTAAATGGTTTTAATATGTTTTACTAGAATAGGTATGATATTATCTTAATCGCTGAAA
326 AATTATTTTAAATGGTTTTAATATGTTTTACTAGAATAGGTATGATATTATCTTAATCGCTGAAA
2278453 CTGATTAGTTTTAGGGCGCGTTTTCAAAAATAGTAATTGATTTTAAAATAACACGACAACAAAGC
391 CTGATTAGTTTTAGGGCGCGTTTTCAAAAATAGTAATTGATTTTAAAATAACACGACAACAAAGC
2278518 AAAACTTCCACAACGAAAACGTTTTTCCAAAATTAATCACTTTTCCTTAAATTGGACTTAATTGA
456 AAAACTTCCACAACGAAAACGTTTTTCCAAAATTAATCACTTTTCCTTAAATTGGACTTAATTGA
2278583 AACAGTTTCCTAAGAACATACACTAAGTTAAGGTGTGGCAATGGTGGTGTGCATGTCTAGGATTG
521 AACAGTTTCCTAAGAACATACACTAAGTTAAGGTGTGGCAATGGTGGTGTGCATGTCTAGGATTG
*
2278648 GATCCGAAGGGAGCTTGGTACTTAAGCAGTCTGATGGACTCACCTCCTCTTTTCTGGTTTCCTAC
586 GATCCGAAGGGAGCTTGGTACTTAAGCAGTCCGATGGACTCACCTCCTCTTTTCTGGTTTCCTAC
2278713 CTGGTGCTCAGCTTCCATTCAC
651 CTGGTGCTCAGCTTCCATTCAC
2278735 CTGGGTTGGGTTTTCTACATACAGTTCTGTTTCTGTTATGGGCCTATGGGCTTTATTCTGAATTC
1 CTGGGTTGGGTTTTCTACATACAGTTCTGTTTCTGTTATGGGCCTATGGGCTTTATTCTGAATTC
2278800 TGTATAGGGCTAAGGCCGAACTTAATCTGTTTCTGTGGTTTGAACTGGTTTAGACTATGGTTGGG
66 TGTATAGGGCTAAGGCCGAACTTAATCTGTTTCTGTGGTTTGAACTGGTTTAGACTATGGTTGGG
*
2278865 TTATTTTACACACTGAGTTTCCCAAACTCATCCCTTATTTTCATCCATGCAGGTAACCCCCAACC
131 TTATTTTACACACTGAGTTTCCCAAACTCATCCCTTATTTTCATCCACGCAGGTAACCCCCAACC
*
2278930 ATAGTGGGCTTGGAGCTGTGAGGGATTCGGAGTGGCCACATGTACTGCAAACTTGATTTTCTTCT
196 ATAGTGGGCTTGGAGCTGTGAGGGATTCGGAGTGGCCACACGTACTGCAAACTTGATTTTCTTCT
2278995 TATAATTTAATTAGTTTTTATTTACTTTAATTGTTTTAGGTTTTAAGTTGTAATAAGGACGCTTT
261 TATAATTTAATTAGTTTTTATTTACTTTAATTGTTTTAGGTTTTAAGTTGTAATAAGGACGCTTT
2279060 AATTATTTTAAATGGTTTTAATATGTTTTACTAGAATAGGTATGATATTATCTTAATCGCTGAAA
326 AATTATTTTAAATGGTTTTAATATGTTTTACTAGAATAGGTATGATATTATCTTAATCGCTGAAA
2279125 CTGATTAGTTTTAGGGCGCGTTTTCAAAAATAGTAATTGATTTTAAAATAACACGACAACAAAGC
391 CTGATTAGTTTTAGGGCGCGTTTTCAAAAATAGTAATTGATTTTAAAATAACACGACAACAAAGC
2279190 AAAACTTCCACAACGAAAACGTTTTTCCAAAATTAATCACTTTTCCTTAAATTGGACTTAATTGA
456 AAAACTTCCACAACGAAAACGTTTTTCCAAAATTAATCACTTTTCCTTAAATTGGACTTAATTGA
2279255 AACAGTTTCCTAAGAACATACACTAAGTTAAGGTGTGGCAATGGTGGTGTGCATGTCTAGGATTG
521 AACAGTTTCCTAAGAACATACACTAAGTTAAGGTGTGGCAATGGTGGTGTGCATGTCTAGGATTG
*
2279320 GATCCGAAGGGAGCTTGGTTCTTAAGCAGTCCGATGGACTCACCTCCTCTTTTCTGGTTTCCTAC
586 GATCCGAAGGGAGCTTGGTACTTAAGCAGTCCGATGGACTCACCTCCTCTTTTCTGGTTTCCTAC
2279385 CTGGTGCTCAGCTTCCATTCAC
651 CTGGTGCTCAGCTTCCATTCAC
2279407 TTTAACCTAT
Statistics
Matches: 667, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
672 667 1.00
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (672 bp):
CTGGGTTGGGTTTTCTACATACAGTTCTGTTTCTGTTATGGGCCTATGGGCTTTATTCTGAATTC
TGTATAGGGCTAAGGCCGAACTTAATCTGTTTCTGTGGTTTGAACTGGTTTAGACTATGGTTGGG
TTATTTTACACACTGAGTTTCCCAAACTCATCCCTTATTTTCATCCACGCAGGTAACCCCCAACC
ATAGTGGGCTTGGAGCTGTGAGGGATTCGGAGTGGCCACACGTACTGCAAACTTGATTTTCTTCT
TATAATTTAATTAGTTTTTATTTACTTTAATTGTTTTAGGTTTTAAGTTGTAATAAGGACGCTTT
AATTATTTTAAATGGTTTTAATATGTTTTACTAGAATAGGTATGATATTATCTTAATCGCTGAAA
CTGATTAGTTTTAGGGCGCGTTTTCAAAAATAGTAATTGATTTTAAAATAACACGACAACAAAGC
AAAACTTCCACAACGAAAACGTTTTTCCAAAATTAATCACTTTTCCTTAAATTGGACTTAATTGA
AACAGTTTCCTAAGAACATACACTAAGTTAAGGTGTGGCAATGGTGGTGTGCATGTCTAGGATTG
GATCCGAAGGGAGCTTGGTACTTAAGCAGTCCGATGGACTCACCTCCTCTTTTCTGGTTTCCTAC
CTGGTGCTCAGCTTCCATTCAC
Found at i:2280382 original size:7 final size:7
Alignment explanation
Indices: 2280372--2280402 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
2280362 AATGATGAAT
2280372 GATGAGG
1 GATGAGG
2280379 GATGAGG
1 GATGAGG
2280386 GATGAGG
1 GATGAGG
2280393 GATGAGG
1 GATGAGG
2280400 GAT
1 GAT
2280403 CATTAGAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.29, C:0.00, G:0.55, T:0.16
Consensus pattern (7 bp):
GATGAGG
Found at i:2285100 original size:30 final size:30
Alignment explanation
Indices: 2285065--2285134 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
2285055 TAGCATATAG
* * * *
2285065 GCGTGTGGCCAGCTCGTTTGGCTGACACAA
1 GCGTGTGGCCAGCCCATGTGGCTCACACAA
*
2285095 GCGTGTGGCCAGCCCATGTGGCTCACACAG
1 GCGTGTGGCCAGCCCATGTGGCTCACACAA
*
2285125 GCGTGCGGCC
1 GCGTGTGGCC
2285135 TACTGTGTGG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.14, C:0.31, G:0.36, T:0.19
Consensus pattern (30 bp):
GCGTGTGGCCAGCCCATGTGGCTCACACAA
Found at i:2287186 original size:27 final size:27
Alignment explanation
Indices: 2287152--2287205 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
2287142 CTTAAAAATG
2287152 TTATTATATTTTATTCTTCTTCTTGTT
1 TTATTATATTTTATTCTTCTTCTTGTT
*
2287179 TTATTATATTTTATTTTTCTTCTTGTT
1 TTATTATATTTTATTCTTCTTCTTGTT
2287206 CGACCAAGAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.15, C:0.09, G:0.04, T:0.72
Consensus pattern (27 bp):
TTATTATATTTTATTCTTCTTCTTGTT
Found at i:2298174 original size:40 final size:40
Alignment explanation
Indices: 2298091--2298276 Score: 252
Period size: 40 Copynumber: 4.7 Consensus size: 40
2298081 TTGAATGATG
* * * *
2298091 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
2298131 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
2298171 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
2298211 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
2298252 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
2298277 AACGAGTAGC
Statistics
Matches: 133, Mismatches: 9, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
39 1 0.01
40 122 0.92
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:2298283 original size:80 final size:79
Alignment explanation
Indices: 2298144--2298309 Score: 228
Period size: 80 Copynumber: 2.1 Consensus size: 79
2298134 GGACTAAGAT
* **
2298144 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAG-TAGCT
*
2298208 AAATCCGGGTTAAGTC
65 AAATCC-GGTTAAATC
*
2298224 CCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCT
1 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCT
* *
2298288 ATATCCGGTTAAATT
65 AAATCCGGTTAAATC
2298303 CCGAAGG
1 CCGAAGG
2298310 TACGTGATTT
Statistics
Matches: 77, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
79 16 0.21
80 59 0.77
81 2 0.03
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCTA
AATCCGGTTAAATC
Found at i:2312013 original size:8 final size:8
Alignment explanation
Indices: 2311997--2312028 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
2311987 TTTTGGGCTT
2311997 AATGGGCC
1 AATGGGCC
*
2312005 AACGGGCC
1 AATGGGCC
2312013 AATGGGCC
1 AATGGGCC
2312021 AATGGGCC
1 AATGGGCC
2312029 CACTTTGGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.25, C:0.28, G:0.38, T:0.09
Consensus pattern (8 bp):
AATGGGCC
Found at i:2318258 original size:33 final size:33
Alignment explanation
Indices: 2318212--2318293 Score: 85
Period size: 34 Copynumber: 2.5 Consensus size: 33
2318202 CTAATTTTGT
*
2318212 AATGGGCTTAGGCCCCACTGATACTGAT-ACTGA
1 AATGGGCTAAGGCCCCACTGATACTG-TCACTGA
* ** *
2318245 AATGGGCTCAGGCCTAGATTGATACTGTCACTGA
1 AATGGGCTAAGGCC-CCACTGATACTGTCACTGA
*
2318279 AATAGGCTAAGGCCC
1 AATGGGCTAAGGCCC
2318294 TAACTGAAAC
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
33 14 0.35
34 26 0.65
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (33 bp):
AATGGGCTAAGGCCCCACTGATACTGTCACTGA
Found at i:2321236 original size:13 final size:13
Alignment explanation
Indices: 2321203--2321243 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
2321193 GTGAAATCAA
2321203 TAAAATAAT-T-C
1 TAAAATAATATGC
*
2321214 -AAAATAATATGT
1 TAAAATAATATGC
2321226 TAAAATAATATGC
1 TAAAATAATATGC
2321239 TAAAA
1 TAAAA
2321244 AATGAATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
10 8 0.32
11 1 0.04
13 16 0.64
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.32
Consensus pattern (13 bp):
TAAAATAATATGC
Found at i:2321322 original size:17 final size:19
Alignment explanation
Indices: 2321272--2321322 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 19
2321262 TATAAAGAAT
2321272 ATAAAAACATAAATTGGAAA
1 ATAAAAACA-AAATTGGAAA
* **
2321292 AAAAAAACTCAATT-G-AA
1 ATAAAAACAAAATTGGAAA
2321309 ATAAAAACAAAATT
1 ATAAAAACAAAATT
2321323 AGGAGGATAA
Statistics
Matches: 25, Mismatches: 6, Indels: 3
0.74 0.18 0.09
Matches are distributed among these distances:
17 13 0.52
18 1 0.04
19 4 0.16
20 7 0.28
ACGTcount: A:0.67, C:0.08, G:0.06, T:0.20
Consensus pattern (19 bp):
ATAAAAACAAAATTGGAAA
Found at i:2331126 original size:55 final size:54
Alignment explanation
Indices: 2331017--2331143 Score: 164
Period size: 55 Copynumber: 2.3 Consensus size: 54
2331007 CCTCAGATTA
**
2331017 TAAAATTACCGAAATACCCTCAATTTATAAAATTATCGAAATACCCATGATTTG
1 TAAAATTACCGAAATACCCTCAATTTATAAAATTATCGAAATACCCACCATTTG
* * * * * *
2331071 TAAAATTACTGAAATACCCTCAGGTTTGTAAAATTATTGAGATACCCCCCATTTG
1 TAAAATTACCGAAATACCCTCA-ATTTATAAAATTATCGAAATACCCACCATTTG
*
2331126 TGAAATTACCGAAATACC
1 TAAAATTACCGAAATACC
2331144 TTAGAAGTGT
Statistics
Matches: 62, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
54 21 0.34
55 41 0.66
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (54 bp):
TAAAATTACCGAAATACCCTCAATTTATAAAATTATCGAAATACCCACCATTTG
Found at i:2331228 original size:28 final size:27
Alignment explanation
Indices: 2331017--2331240 Score: 179
Period size: 27 Copynumber: 8.2 Consensus size: 27
2331007 CCTCAGATTA
* * *
2331017 TAAAATTACCGAAATACCCTCA-ATTTA
1 TAAAATTACCGAAATACCCTTATA-GTG
* * *
2331044 TAAAATTATCGAAATACCCATGAT-TTG
1 TAAAATTACCGAAATACCC-TTATAGTG
* * *
2331071 TAAAATTACTGAAATACCCTCAGGT-TTG
1 TAAAATTACCGAAATACCCTTA--TAGTG
** * ** *
2331099 TAAAATTATTGAGATACCCCCCAT-TTG
1 TAAAATTACCGAAATA-CCCTTATAGTG
* *
2331126 TGAAATTACCGAAATA-CCTTAGAAGTG
1 TAAAATTACCGAAATACCCTTA-TAGTG
2331153 TAAAATTACCGAAATACCCTTATAGTG
1 TAAAATTACCGAAATACCCTTATAGTG
* *
2331180 TAAATTTACCAAAATACCCTTATAGTG
1 TAAAATTACCGAAATACCCTTATAGTG
2331207 TAAAATTACCGAAATACACCTTATAGTG
1 TAAAATTACCGAAATAC-CCTTATAGTG
2331235 TAAAAT
1 TAAAAT
2331241 GACCAGCTTA
Statistics
Matches: 165, Mismatches: 23, Indels: 17
0.80 0.11 0.08
Matches are distributed among these distances:
25 3 0.02
26 2 0.01
27 114 0.69
28 41 0.25
29 5 0.03
ACGTcount: A:0.41, C:0.18, G:0.11, T:0.31
Consensus pattern (27 bp):
TAAAATTACCGAAATACCCTTATAGTG
Found at i:2331497 original size:50 final size:50
Alignment explanation
Indices: 2331422--2331520 Score: 144
Period size: 50 Copynumber: 2.0 Consensus size: 50
2331412 ATATGGAGGA
* * *
2331422 AGTATTGTTCTGATAGGGTCGCACGGGTCGCACGAGATGACTATGGATCC
1 AGTATTGATCTGATAAGGTCGCACGGGTCGCACGAGACGACTATGGATCC
* * *
2331472 AGTATTGATCTGTTAAGGTCTCACGGGTCGCACGAGACGACTGTGGATC
1 AGTATTGATCTGATAAGGTCGCACGGGTCGCACGAGACGACTATGGATC
2331521 GGCGGACGGC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 43 1.00
ACGTcount: A:0.22, C:0.20, G:0.31, T:0.26
Consensus pattern (50 bp):
AGTATTGATCTGATAAGGTCGCACGGGTCGCACGAGACGACTATGGATCC
Found at i:2333520 original size:40 final size:40
Alignment explanation
Indices: 2333476--2333739 Score: 360
Period size: 40 Copynumber: 6.7 Consensus size: 40
2333466 GCTCCTCGTT
* *
2333476 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
2333516 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
2333556 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
2333596 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
2333636 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
2333675 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TTAGTAAC-TCGCA
2333716 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
2333740 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:2336797 original size:47 final size:46
Alignment explanation
Indices: 2336709--2336934 Score: 192
Period size: 46 Copynumber: 4.8 Consensus size: 46
2336699 GTAAGGTGCT
* * * *
2336709 GATGTCATATCCCAGACATGGTTTTACACTAGCTCAT-ATCTCAAGTC
1 GATG-CATGTCCCAGACATTGTCTTACACTAGCT-ATCATCTCAAGCC
2336756 GATGCCATGTCCCAGACATTGTCTTACACT-GACTATCATCTCATAGCC
1 GATG-CATGTCCCAGACATTGTCTTACACTAG-CTATCATCTCA-AGCC
* * * *
2336804 GATGCATGTCCCTGACA-TGTCTTACACTGGCT-TACATCTCGAGGCT
1 GATGCATGTCCCAGACATTGTCTTACACTAGCTAT-CATCTC-AAGCC
* * * *
2336850 GATGCATGTCCCAAACA-TGTCTTACACTATCTCTCGTCTCAATGCC
1 GATGCATGTCCCAGACATTGTCTTACACTAGCTATCATCTCAA-GCC
* * * *
2336896 GGTGCCATGTCCCAGACATGGTCTTCCACTAGCTCTCAT
1 GATG-CATGTCCCAGACATTGTCTTACACTAGCTATCAT
2336935 AAGCTGGTCG
Statistics
Matches: 148, Mismatches: 21, Indels: 19
0.79 0.11 0.10
Matches are distributed among these distances:
45 2 0.01
46 62 0.42
47 61 0.41
48 23 0.16
ACGTcount: A:0.23, C:0.30, G:0.17, T:0.30
Consensus pattern (46 bp):
GATGCATGTCCCAGACATTGTCTTACACTAGCTATCATCTCAAGCC
Found at i:2336842 original size:46 final size:46
Alignment explanation
Indices: 2336709--2336925 Score: 181
Period size: 47 Copynumber: 4.6 Consensus size: 46
2336699 GTAAGGTGCT
* * * * * * *
2336709 GATGTCATATCCCAGACATGGTTTTACACTAGCTCATATCTCAAGTC
1 GATGCCATGTCCCAGACAT-GTCTTACACTGGCTTACATCTCAAGCC
*
2336756 GATGCCATGTCCCAGACATTGTCTTACACTGAC-TATCATCTCATAGCC
1 GATGCCATGTCCCAGACA-TGTCTTACACTGGCTTA-CATCTCA-AGCC
* * *
2336804 GATG-CATGTCCCTGACATGTCTTACACTGGCTTACATCTCGAGGCT
1 GATGCCATGTCCCAGACATGTCTTACACTGGCTTACATCTC-AAGCC
* ** *
2336850 GATG-CATGTCCCAAACATGTCTTACACTATCTCT-CGTCTCAATGCC
1 GATGCCATGTCCCAGACATGTCTTACACTGGCT-TACATCTCAA-GCC
* *
2336896 GGTGCCATGTCCCAGACATGGTCTTCCACT
1 GATGCCATGTCCCAGACAT-GTCTTACACT
2336926 AGCTCTCATA
Statistics
Matches: 139, Mismatches: 22, Indels: 17
0.78 0.12 0.10
Matches are distributed among these distances:
45 1 0.01
46 60 0.43
47 61 0.44
48 17 0.12
ACGTcount: A:0.23, C:0.30, G:0.17, T:0.30
Consensus pattern (46 bp):
GATGCCATGTCCCAGACATGTCTTACACTGGCTTACATCTCAAGCC
Found at i:2338754 original size:47 final size:46
Alignment explanation
Indices: 2338666--2338891 Score: 192
Period size: 46 Copynumber: 4.8 Consensus size: 46
2338656 GTAAGGTGCT
* * * *
2338666 GATGTCATATCCCAGACATGGTTTTACACTAGCTCAT-ATCTCAAGTC
1 GATG-CATGTCCCAGACATTGTCTTACACTAGCT-ATCATCTCAAGCC
2338713 GATGCCATGTCCCAGACATTGTCTTACACT-GACTATCATCTCATAGCC
1 GATG-CATGTCCCAGACATTGTCTTACACTAG-CTATCATCTCA-AGCC
* * * *
2338761 GATGCATGTCCCTGACA-TGTCTTACACTGGCT-TACATCTCGAGGCT
1 GATGCATGTCCCAGACATTGTCTTACACTAGCTAT-CATCTC-AAGCC
* * * *
2338807 GATGCATGTCCCAAACA-TGTCTTACACTATCTCTCGTCTCAATGCC
1 GATGCATGTCCCAGACATTGTCTTACACTAGCTATCATCTCAA-GCC
* * * *
2338853 GGTGCCATGTCCCAGACATGGTCTTCCACTAGCTCTCAT
1 GATG-CATGTCCCAGACATTGTCTTACACTAGCTATCAT
2338892 AAGCTGGTCG
Statistics
Matches: 148, Mismatches: 21, Indels: 19
0.79 0.11 0.10
Matches are distributed among these distances:
45 2 0.01
46 62 0.42
47 61 0.41
48 23 0.16
ACGTcount: A:0.23, C:0.30, G:0.17, T:0.30
Consensus pattern (46 bp):
GATGCATGTCCCAGACATTGTCTTACACTAGCTATCATCTCAAGCC
Found at i:2338799 original size:46 final size:46
Alignment explanation
Indices: 2338666--2338882 Score: 181
Period size: 47 Copynumber: 4.6 Consensus size: 46
2338656 GTAAGGTGCT
* * * * * * *
2338666 GATGTCATATCCCAGACATGGTTTTACACTAGCTCATATCTCAAGTC
1 GATGCCATGTCCCAGACAT-GTCTTACACTGGCTTACATCTCAAGCC
*
2338713 GATGCCATGTCCCAGACATTGTCTTACACTGAC-TATCATCTCATAGCC
1 GATGCCATGTCCCAGACA-TGTCTTACACTGGCTTA-CATCTCA-AGCC
* * *
2338761 GATG-CATGTCCCTGACATGTCTTACACTGGCTTACATCTCGAGGCT
1 GATGCCATGTCCCAGACATGTCTTACACTGGCTTACATCTC-AAGCC
* ** *
2338807 GATG-CATGTCCCAAACATGTCTTACACTATCTCT-CGTCTCAATGCC
1 GATGCCATGTCCCAGACATGTCTTACACTGGCT-TACATCTCAA-GCC
* *
2338853 GGTGCCATGTCCCAGACATGGTCTTCCACT
1 GATGCCATGTCCCAGACAT-GTCTTACACT
2338883 AGCTCTCATA
Statistics
Matches: 139, Mismatches: 22, Indels: 17
0.78 0.12 0.10
Matches are distributed among these distances:
45 1 0.01
46 60 0.43
47 61 0.44
48 17 0.12
ACGTcount: A:0.23, C:0.30, G:0.17, T:0.30
Consensus pattern (46 bp):
GATGCCATGTCCCAGACATGTCTTACACTGGCTTACATCTCAAGCC
Found at i:2340318 original size:139 final size:139
Alignment explanation
Indices: 2340068--2340346 Score: 488
Period size: 139 Copynumber: 2.0 Consensus size: 139
2340058 TTGATAACTA
* * *
2340068 TTATTATCAGCAAATTCTACCAACGGTAAGTACTTTTCCCAACTACCTTGAAATTCCAATACGCA
1 TTATTATAAGCAAATTCTACCAACGGTAAATACTTTTCCCAACTACCTTGAAATTCCAATACACA
*
2340133 ACATCTGAGCATGTCTTCAAGAATCTGAATTACTCTCTCTAATTGTCCATTAGTTTGTGGATGAA
66 ACATCTGAGCATGTCTTCAAGAATCTGAATTACTCTCTCTAATTGTCCATCAGTTTGTGGATGAA
2340198 AGGCAGTGC
131 AGGCAGTGC
*
2340207 TTATTATAAGCAAATTCTACCAACGGTAAATACTTTTCCCAACTACCTTGAAATTCCAATACATA
1 TTATTATAAGCAAATTCTACCAACGGTAAATACTTTTCCCAACTACCTTGAAATTCCAATACACA
*
2340272 ACATCTGAGCATGTCTTCAAGAATCT-AATTTACTCTCTCTGATTGTCCATCAGTTTGTGGATGA
66 ACATCTGAGCATGTCTTCAAGAATCTGAA-TTACTCTCTCTAATTGTCCATCAGTTTGTGGATGA
2340336 AAGGCAGTGC
130 AAGGCAGTGC
2340346 T
1 T
2340347 GAAATTTAAC
Statistics
Matches: 133, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
138 2 0.02
139 131 0.98
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.33
Consensus pattern (139 bp):
TTATTATAAGCAAATTCTACCAACGGTAAATACTTTTCCCAACTACCTTGAAATTCCAATACACA
ACATCTGAGCATGTCTTCAAGAATCTGAATTACTCTCTCTAATTGTCCATCAGTTTGTGGATGAA
AGGCAGTGC
Found at i:2351071 original size:13 final size:13
Alignment explanation
Indices: 2351049--2351081 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
2351039 CAGGGTTTGT
2351049 TTAT-TAAACTAA
1 TTATCTAAACTAA
2351061 TTATCTAAACTAA
1 TTATCTAAACTAA
*
2351074 TTAACTAA
1 TTATCTAA
2351082 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:2354021 original size:6 final size:6
Alignment explanation
Indices: 2354010--2354037 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
2354000 AATTAGAATG
2354010 AAAATA AAAATA AAAATA AAAATA AAAA
1 AAAATA AAAATA AAAATA AAAATA AAAA
2354038 ATATGAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAATA
Found at i:2354037 original size:13 final size:13
Alignment explanation
Indices: 2354010--2354050 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
2354000 AATTAGAATG
2354010 AAAATAAAAAT-A
1 AAAATAAAAATAA
2354022 AAAATAAAAATAA
1 AAAATAAAAATAA
**
2354035 AAAATATGAATAA
1 AAAATAAAAATAA
2354048 AAA
1 AAA
2354051 GATAGGAGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
12 11 0.42
13 15 0.58
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.17
Consensus pattern (13 bp):
AAAATAAAAATAA
Found at i:2359447 original size:13 final size:13
Alignment explanation
Indices: 2359425--2359457 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
2359415 CAAGGTTTGT
2359425 TTAT-TAAACTAA
1 TTATCTAAACTAA
2359437 TTATCTAAACTAA
1 TTATCTAAACTAA
*
2359450 TTAACTAA
1 TTATCTAA
2359458 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:2361172 original size:46 final size:46
Alignment explanation
Indices: 2361068--2361289 Score: 173
Period size: 46 Copynumber: 4.8 Consensus size: 46
2361058 GGGTAAGGTA
* * * *
2361068 CCGATGCCATGTCTCAGACATGGTCTTACACTAGC-TCATATCTC-AAG
1 CCGATGCCATGTCCCAAACAT-GTCTTACACTAGCTTC--GTCTCGAGG
* * *
2361115 TCGATGTCATGTCCCAAACATGTCTTACACTGGCTTACGTCTCGAGG
1 CCGATGCCATGTCCCAAACATGTCTTACACTAGCTT-CGTCTCGAGG
* * *
2361162 CCGATG-CATGTCTCAAACATGTCTTACACTAGCTTTCGTCTCAATG
1 CCGATGCCATGTCCCAAACATGTCTTACACTAGC-TTCGTCTCGAGG
* * * * * *** *
2361208 CCAATGCCACGTCCCAGACATAGTCTTACATTAGCTCTCATAAGGTGG
1 CCGATGCCATGTCCCAAACAT-GTCTTACACTAGCT-TCGTCTCGAGG
*
2361256 CCGATG-CATGTCCCAGACATGTCTTACACTAGCT
1 CCGATGCCATGTCCCAAACATGTCTTACACTAGCT
2361290 CACACACAAA
Statistics
Matches: 141, Mismatches: 27, Indels: 15
0.77 0.15 0.08
Matches are distributed among these distances:
46 67 0.48
47 52 0.37
48 22 0.16
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.28
Consensus pattern (46 bp):
CCGATGCCATGTCCCAAACATGTCTTACACTAGCTTCGTCTCGAGG
Found at i:2364558 original size:27 final size:27
Alignment explanation
Indices: 2364520--2364602 Score: 107
Period size: 27 Copynumber: 3.1 Consensus size: 27
2364510 GTCGTTAGAG
2364520 CCCTAGTTTGTAAAATTACCTAAATAC
1 CCCTAGTTTGTAAAATTACCTAAATAC
2364547 CCCTAGTTTGTAAAATTA-CTGAAATA-
1 CCCTAGTTTGTAAAATTACCT-AAATAC
* * *
2364573 CCCTTGTAGTGTAAAATTACCAAAATAC
1 CCCTAGT-TTGTAAAATTACCTAAATAC
2364601 CC
1 CC
2364603 ATGTAGAGCA
Statistics
Matches: 49, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
26 8 0.16
27 38 0.78
28 3 0.06
ACGTcount: A:0.37, C:0.22, G:0.10, T:0.31
Consensus pattern (27 bp):
CCCTAGTTTGTAAAATTACCTAAATAC
Found at i:2364615 original size:27 final size:27
Alignment explanation
Indices: 2364558--2364616 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
2364548 CCTAGTTTGT
** * * *
2364558 AAAATTACTGAAATACCCTTGTAGTGT
1 AAAATTACCAAAATACCCATGTAGAGC
2364585 AAAATTACCAAAATACCCATGTAGAGC
1 AAAATTACCAAAATACCCATGTAGAGC
2364612 AAAAT
1 AAAAT
2364617 GACTATTTTG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.46, C:0.17, G:0.12, T:0.25
Consensus pattern (27 bp):
AAAATTACCAAAATACCCATGTAGAGC
Found at i:2365457 original size:27 final size:27
Alignment explanation
Indices: 2365390--2365457 Score: 68
Period size: 27 Copynumber: 2.6 Consensus size: 27
2365380 TGTTACTGAG
* * *
2365390 ATGGGC-TAGGCCCAATTGATTCTGTT
1 ATGGGCTTTGGCCCAAATGATTCTGTA
* *
2365416 ATGGGCTGTGACCCAAATGATAT-TGTA
1 ATGGGCTTTGGCCCAAATGAT-TCTGTA
2365443 ATGGGCTTTGGCCCA
1 ATGGGCTTTGGCCCA
2365458 CGTATGCTCT
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
26 6 0.18
27 26 0.79
28 1 0.03
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (27 bp):
ATGGGCTTTGGCCCAAATGATTCTGTA
Found at i:2371860 original size:23 final size:24
Alignment explanation
Indices: 2371834--2371888 Score: 58
Period size: 26 Copynumber: 2.2 Consensus size: 24
2371824 CCAGCACACC
* *
2371834 AATAT-TACAGCATAGCTGCCAGA
1 AATATATACAGCAAAGCTGCCAAA
*
2371857 AATAATAATGCAGCAAAGCTGCCAAA
1 AAT-AT-ATACAGCAAAGCTGCCAAA
2371883 AATATA
1 AATATA
2371889 CACGGCTTAC
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
23 3 0.12
24 3 0.12
25 2 0.08
26 18 0.69
ACGTcount: A:0.47, C:0.18, G:0.15, T:0.20
Consensus pattern (24 bp):
AATATATACAGCAAAGCTGCCAAA
Found at i:2372061 original size:31 final size:32
Alignment explanation
Indices: 2371903--2372048 Score: 235
Period size: 32 Copynumber: 4.6 Consensus size: 32
2371893 GCTTACATCT
*
2371903 ATCAGTAGCGGTAATATGATCGGCACAAAGCC
1 ATCAGTAGCTGTAATATGATCGGCACAAAGCC
*
2371935 AAT-AGTAGCTGTAATATGATCAGCACAAAGCC
1 -ATCAGTAGCTGTAATATGATCGGCACAAAGCC
2371967 ATCAGTAGCTGTAATATGATCGGCACAAAGCC
1 ATCAGTAGCTGTAATATGATCGGCACAAAGCC
*
2371999 ATCAGTA-TTGTAATATGATCGGCACAAAGCC
1 ATCAGTAGCTGTAATATGATCGGCACAAAGCC
2372030 ATCAGTA-CTGTAATATGAT
1 ATCAGTAGCTGTAATATGAT
2372049 TGACACCAAG
Statistics
Matches: 107, Mismatches: 5, Indels: 4
0.92 0.04 0.03
Matches are distributed among these distances:
31 43 0.40
32 62 0.58
33 2 0.02
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (32 bp):
ATCAGTAGCTGTAATATGATCGGCACAAAGCC
Found at i:2372558 original size:27 final size:27
Alignment explanation
Indices: 2372502--2372584 Score: 96
Period size: 27 Copynumber: 3.1 Consensus size: 27
2372492 ACCCTATAAC
* ** *
2372502 GGTATTTCAGTAATTTTACAAATTGGG
1 GGTATTTCGGTAATTTTACAAACCGAG
2372529 GGTATTTCGGTAATTTTACAAACCGAG
1 GGTATTTCGGTAATTTTACAAACCGAG
* * *
2372556 GGTATTTTGGTAATCTTATAAACC-AG
1 GGTATTTCGGTAATTTTACAAACCGAG
2372582 GGT
1 GGT
2372585 CTTAACGACC
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
26 5 0.10
27 44 0.90
ACGTcount: A:0.29, C:0.11, G:0.23, T:0.37
Consensus pattern (27 bp):
GGTATTTCGGTAATTTTACAAACCGAG
Found at i:2374090 original size:12 final size:12
Alignment explanation
Indices: 2374075--2374102 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
2374065 CATTCCTTGA
2374075 CCAATTCAAATT
1 CCAATTCAAATT
2374087 CCAATTCAAATT
1 CCAATTCAAATT
2374099 CCAA
1 CCAA
2374103 CCACCCTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.43, C:0.29, G:0.00, T:0.29
Consensus pattern (12 bp):
CCAATTCAAATT
Found at i:2379750 original size:37 final size:37
Alignment explanation
Indices: 2379700--2379773 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
2379690 ACATTTTATC
2379700 TTCAAAATAATATCTTTACTAAATGGTGGCGAATATA
1 TTCAAAATAATATCTTTACTAAATGGTGGCGAATATA
2379737 TTCAAAATAATATCTTTACTAAATGGTGGCGAATATA
1 TTCAAAATAATATCTTTACTAAATGGTGGCGAATATA
2379774 ATTATGTTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.35
Consensus pattern (37 bp):
TTCAAAATAATATCTTTACTAAATGGTGGCGAATATA
Found at i:2381903 original size:24 final size:24
Alignment explanation
Indices: 2381876--2381921 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
2381866 GTAAAACTAC
2381876 AAAGGCTAAAAAGCCAAAAAGTCG
1 AAAGGCTAAAAAGCCAAAAAGTCG
*
2381900 AAAGGCTAAAAAGCCGAAAAGT
1 AAAGGCTAAAAAGCCAAAAAGT
2381922 GGATTGTCGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.54, C:0.15, G:0.22, T:0.09
Consensus pattern (24 bp):
AAAGGCTAAAAAGCCAAAAAGTCG
Found at i:2383712 original size:14 final size:15
Alignment explanation
Indices: 2383688--2383719 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
2383678 TTTAAAAACT
2383688 AATAAACTAAAAGAA
1 AATAAACTAAAAGAA
2383703 AATAAA-TAAAAGAA
1 AATAAACTAAAAGAA
2383717 AAT
1 AAT
2383720 CAGAAAACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.75, C:0.03, G:0.06, T:0.16
Consensus pattern (15 bp):
AATAAACTAAAAGAA
Found at i:2384418 original size:17 final size:17
Alignment explanation
Indices: 2384392--2384456 Score: 51
Period size: 17 Copynumber: 3.7 Consensus size: 17
2384382 ACGGCCATAG
*
2384392 ACATGTCCGTGTGGTTC
1 ACATGGCCGTGTGGTTC
* *
2384409 ACATGGCCGTGCTGCATGGC
1 ACATGGCCGTG-TG-GT-TC
*
2384429 -CATGTCCGTGTGGTTC
1 ACATGGCCGTGTGGTTC
*
2384445 ACACGGCCGTGT
1 ACATGGCCGTGT
2384457 CGCATGTCTA
Statistics
Matches: 36, Mismatches: 8, Indels: 8
0.69 0.15 0.15
Matches are distributed among these distances:
16 1 0.03
17 20 0.56
18 4 0.11
19 10 0.28
20 1 0.03
ACGTcount: A:0.12, C:0.28, G:0.32, T:0.28
Consensus pattern (17 bp):
ACATGGCCGTGTGGTTC
Found at i:2389028 original size:6 final size:6
Alignment explanation
Indices: 2389012--2389041 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
2389002 TAAATTAAAG
*
2389012 TAAAAA CAAAAA TAAAAA TAAAAA TAAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA
2389042 AATGGCTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.83, C:0.03, G:0.00, T:0.13
Consensus pattern (6 bp):
TAAAAA
Found at i:2390897 original size:40 final size:40
Alignment explanation
Indices: 2390813--2390905 Score: 127
Period size: 40 Copynumber: 2.3 Consensus size: 40
2390803 GACGATATTC
*
2390813 GGCACTAAGTGTGCAGTTCGAAATAGCTTTGGCTATAAAT
1 GGCACTAAGTGTGCAGTTCGAAATAGCTTCGGCTATAAAT
* *
2390853 GGCACTAACTGTGCGAGTT-GAAATAGCTTCGGCTATATGA-
1 GGCACTAAGTGTGC-AGTTCGAAATAGCTTCGGCTATA-AAT
2390893 GGCACTAAGTGTG
1 GGCACTAAGTGTG
2390906 AGATATCGAG
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
40 42 0.89
41 5 0.11
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (40 bp):
GGCACTAAGTGTGCAGTTCGAAATAGCTTCGGCTATAAAT
Found at i:2393783 original size:34 final size:33
Alignment explanation
Indices: 2393744--2393808 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 33
2393734 GTAGTAATAA
* *
2393744 CAGTCTGGGCCTAAGCCTATTGCAGTATCAGTGG
1 CAGTCTAGACCTAAGCCTATTGCAGTA-CAGTGG
* *
2393778 CAGTCTAGACCTTAGCCTATTTCAGTACAGT
1 CAGTCTAGACCTAAGCCTATTGCAGTACAGT
2393809 ATGCAAACAC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
33 4 0.15
34 23 0.85
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.29
Consensus pattern (33 bp):
CAGTCTAGACCTAAGCCTATTGCAGTACAGTGG
Found at i:2395853 original size:43 final size:43
Alignment explanation
Indices: 2395806--2395961 Score: 131
Period size: 43 Copynumber: 3.6 Consensus size: 43
2395796 GTGTTCTTGT
*
2395806 GTAAGACTACGTCTGGGACATTGGCATCAATATGTGATTTCGA
1 GTAAGACCACGTCTGGGACATTGGCATCAATATGTGATTTCGA
* * ** *
2395849 GTAAGTCCAGGTCTGGGACATCAGCATCGTAAT-TGTGA-TTCGT
1 GTAAGACCACGTCTGGGACATTGGCATC--AATATGTGATTTCGA
* * * * * *
2395892 GCAAGACC-CTGTCTAGGACAGTGGCATCGACATGTGATTAC-A
1 GTAAGACCAC-GTCTGGGACATTGGCATCAATATGTGATTTCGA
*
2395934 TGTAAGACCACGTCTGGGACGTTGGCAT
1 -GTAAGACCACGTCTGGGACATTGGCAT
2395962 TGTACGATAT
Statistics
Matches: 85, Mismatches: 21, Indels: 14
0.71 0.17 0.12
Matches are distributed among these distances:
41 1 0.01
42 5 0.06
43 70 0.82
44 6 0.07
45 3 0.04
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.27
Consensus pattern (43 bp):
GTAAGACCACGTCTGGGACATTGGCATCAATATGTGATTTCGA
Found at i:2401391 original size:47 final size:44
Alignment explanation
Indices: 2401327--2401492 Score: 140
Period size: 47 Copynumber: 3.6 Consensus size: 44
2401317 ATGACAGCCC
*
2401327 GTGTAAGACCA-CGTCTGGGACATGGCATTGGCGTAGAGGTGAGTGCCA
1 GTGTAAGA-CATC-TCTGGGACAT-GCATCGGC-TAGA-GTGAGTGCCA
*
2401375 GTGTAAGACATCTCTGGGACATGCATCGGCCTCGA-TGATGTTAGCCA
1 GTGTAAGACATCTCTGGGACATGCATCGG-CTAGAGTGA-G-T-GCCA
* * ** *
2401422 GTGTAAGACGTGTCTGGGACATGCATCGGCTA-AGTTTCGTGCTA
1 GTGTAAGACATCTCTGGGACATGCATCGGCTAGAG-TGAGTGCCA
* *
2401466 GTGTAAGACATGTCTAGGACATGCATC
1 GTGTAAGACATCTCTGGGACATGCATC
2401493 AGCACGTATA
Statistics
Matches: 101, Mismatches: 10, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
44 31 0.31
45 3 0.03
46 13 0.13
47 45 0.45
48 9 0.09
ACGTcount: A:0.23, C:0.20, G:0.31, T:0.25
Consensus pattern (44 bp):
GTGTAAGACATCTCTGGGACATGCATCGGCTAGAGTGAGTGCCA
Found at i:2401536 original size:49 final size:48
Alignment explanation
Indices: 2401462--2401586 Score: 146
Period size: 49 Copynumber: 2.6 Consensus size: 48
2401452 TAAGTTTCGT
*
2401462 GCTAGTGTAAGA-CATGTCTAGGACATGCATCAG-CACGTATACATGAAA
1 GCTAGTGTAAGACCATGTCTGGGACATGCATCAGCCACG-ATACA-GAAA
* ** *
2401510 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGATGGAGATA
1 GCTAGTGTAAGACCATGTCTGGGACAT-GCATCAGCCACGATACAGAAA
* *
2401559 GCCAGCGTAAGACCATGTCTGGGACATG
1 GCTAGTGTAAGACCATGTCTGGGACATG
2401587 GCAGTAGCAA
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
48 13 0.19
49 41 0.61
50 10 0.15
51 3 0.04
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.22
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTCTGGGACATGCATCAGCCACGATACAGAAA
Found at i:2402390 original size:55 final size:55
Alignment explanation
Indices: 2402310--2402428 Score: 143
Period size: 55 Copynumber: 2.2 Consensus size: 55
2402300 CTTAAACTTT
* * * *
2402310 TAAA-TCAGTATTGTCCACGGTTAGGCCACACGGGCGTGTGCCATAGCCGTG-TC
1 TAAAGTCAGTATTGCCCACGGATAGGCCACACAGGCGTGTGCCATAGCCGTGCCC
* * * *
2402363 TATAAGTCAGTATTGCCCATGGATAGGCCACATAGGCGTGTGTCATGGCCGTGCCC
1 TA-AAGTCAGTATTGCCCACGGATAGGCCACACAGGCGTGTGCCATAGCCGTGCCC
2402419 TAAAGTCAGT
1 TAAAGTCAGT
2402429 GTCATACACG
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
53 2 0.04
54 2 0.04
55 48 0.87
56 3 0.05
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (55 bp):
TAAAGTCAGTATTGCCCACGGATAGGCCACACAGGCGTGTGCCATAGCCGTGCCC
Found at i:2404447 original size:111 final size:111
Alignment explanation
Indices: 2404253--2404475 Score: 392
Period size: 111 Copynumber: 2.0 Consensus size: 111
2404243 GTTAGTAGAG
2404253 TCCACTAAGTTTGTAATAAAAGTGTCTAACCCGTTAGGCAAGCATGTATTAGTGGACCAAGTATG
1 TCCACTAAGTTTGTAATAAAAGTGTCTAACCCGTTAGGCAAGCATGTATTAGTGGACCAAGTATG
* ** * *
2404318 TAGAAACTGTCCTTTGATGATTAAAGGTTATTGCTTTCTAGCCAAC
66 TAGAAACTATCCTTTGATGATTAAAGGCCATTGCTTTATAACCAAC
*
2404364 TCCACTAAGTTTGTAATAAAAGTGTCTAACCTGTTAGGCAAGCATGTATTAGTGGACCAAGTATG
1 TCCACTAAGTTTGTAATAAAAGTGTCTAACCCGTTAGGCAAGCATGTATTAGTGGACCAAGTATG
2404429 TAGAAACTATCCTTTGATGATTAAAGGCCATTGCTTTATAACCAAC
66 TAGAAACTATCCTTTGATGATTAAAGGCCATTGCTTTATAACCAAC
2404475 T
1 T
2404476 TGATGTTATT
Statistics
Matches: 106, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
111 106 1.00
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (111 bp):
TCCACTAAGTTTGTAATAAAAGTGTCTAACCCGTTAGGCAAGCATGTATTAGTGGACCAAGTATG
TAGAAACTATCCTTTGATGATTAAAGGCCATTGCTTTATAACCAAC
Found at i:2407786 original size:18 final size:17
Alignment explanation
Indices: 2407756--2407798 Score: 68
Period size: 18 Copynumber: 2.5 Consensus size: 17
2407746 CCCGATTGCG
*
2407756 AAAAAAGACTAAATCGC
1 AAAAAAGGCTAAATCGC
2407773 AAAAAAGGCATAAATCGC
1 AAAAAAGGC-TAAATCGC
2407791 AAAAAAGG
1 AAAAAAGG
2407799 AAAAAGTTAC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 8 0.33
18 16 0.67
ACGTcount: A:0.60, C:0.14, G:0.16, T:0.09
Consensus pattern (17 bp):
AAAAAAGGCTAAATCGC
Found at i:2409003 original size:94 final size:92
Alignment explanation
Indices: 2408891--2409191 Score: 261
Period size: 94 Copynumber: 3.2 Consensus size: 92
2408881 GGCTACTATT
* * *
2408891 AGACGTGTTTGGGACATGCATCAACCGCATCATGATAGCCTGTGTAAGACCACGTCTGGGACATG
1 AGACATGTTTGGGACATGCATCAGCCGCATCATGATAGCCTGTGTAAGACCATGTCTGGGACATG
*
2408956 GCATCGGTGTAGAGGTGAGTGCCAGTGTA
66 GCATCGG-CTA-AGGTGAGTGCCAGTGTA
* * * * **
2408985 AGACATGTCTGGGACATGCATCAGCCTCGATGAT-ATTAGCCAGTGTAAGA-TGTGTCTGGGACA
1 AGACATGTTTGGGACATGCATCAGCCGC-ATCATGA-TAGCCTGTGTAAGACCATGTCTGGGACA
* * ** *
2409048 T-GCATTGGCTAAGTTTCGTGCTAGTGTA
64 TGGCATCGGCTAAGGTGAGTGCCAGTGTA
* * * *
2409076 ATACATGTTTGGGACATGCATCAGCACGTATGCACGAGAG-CTAGTGTAAGACCATGTCTGGGAC
1 AGACATGTTTGGGACATGCATCAGC-CGCAT-CATGATAGCCT-GTGTAAGACCATGTCTGGGAC
* * *
2409140 ATGGCATCGGCCT-CGATGGAGATAGCCAGCGTA
63 ATGGCATCGG-CTAAGGT-GAG-T-GCCAGTGTA
2409173 AGACCATGTTTGGGACATG
1 AGA-CATGTTTGGGACATG
2409192 GCAGCGGTAA
Statistics
Matches: 161, Mismatches: 33, Indels: 22
0.75 0.15 0.10
Matches are distributed among these distances:
91 39 0.24
92 14 0.09
93 19 0.12
94 44 0.27
95 20 0.12
96 1 0.01
97 9 0.06
98 15 0.09
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (92 bp):
AGACATGTTTGGGACATGCATCAGCCGCATCATGATAGCCTGTGTAAGACCATGTCTGGGACATG
GCATCGGCTAAGGTGAGTGCCAGTGTA
Found at i:2409027 original size:47 final size:46
Alignment explanation
Indices: 2408891--2409191 Score: 166
Period size: 47 Copynumber: 6.4 Consensus size: 46
2408881 GGCTACTATT
* * * * * *
2408891 AGACGTGTTTGGGACATGCATCAACCGC-ATCATGATAGCCTGTGTA
1 AGACATGTCTGGGACATGCATCAGCCTCGATGA-GATAGCCAGTGTA
* * ** *
2408937 AGACCACGTCTGGGACATGGCATCGGTGTAGAGGTGAG-T-GCCAGTGTA
1 AGA-CATGTCTGGGACAT-GCATCAGCCTCGA--TGAGATAGCCAGTGTA
*
2408985 AGACATGTCTGGGACATGCATCAGCCTCGATGATATTAGCCAGTGTA
1 AGACATGTCTGGGACATGCATCAGCCTCGATGAGA-TAGCCAGTGTA
** * * * * ** *
2409032 AGATGTGTCTGGGACATGCAT-TGGCTAAGTTTCG-T-GCTAGTGTA
1 AGACATGTCTGGGACATGCATCAGCCT-CGATGAGATAGCCAGTGTA
* * * * *
2409076 ATACATGTTTGGGACATGCATCAG-CACGTATGCACGAGAGCTAGTGTA
1 AGACATGTCTGGGACATGCATCAGCCTCG-ATG-A-GATAGCCAGTGTA
* *
2409124 AGACCATGTCTGGGACATGGCATCGGCCTCGATGGAGATAGCCAGCGTA
1 AGA-CATGTCTGGGACAT-GCATCAGCCTCGAT-GAGATAGCCAGTGTA
*
2409173 AGACCATGTTTGGGACATG
1 AGA-CATGTCTGGGACATG
2409192 GCAGCGGTAA
Statistics
Matches: 190, Mismatches: 46, Indels: 36
0.70 0.17 0.13
Matches are distributed among these distances:
43 1 0.01
44 30 0.16
45 2 0.01
46 17 0.09
47 54 0.28
48 28 0.15
49 42 0.22
50 10 0.05
51 6 0.03
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (46 bp):
AGACATGTCTGGGACATGCATCAGCCTCGATGAGATAGCCAGTGTA
Found at i:2409140 original size:49 final size:48
Alignment explanation
Indices: 2409067--2409191 Score: 137
Period size: 49 Copynumber: 2.6 Consensus size: 48
2409057 TAAGTTTCGT
*
2409067 GCTAGTGTAATA-CATGTTTGGGACATGCATCAG-CACGTATGCACGAGA
1 GCTAGTGTAAGACCATGTTTGGGACATGCATCAGCCACG-ATGCA-GAGA
* * * * *
2409115 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGGAGATA
1 GCTAGTGTAAGACCATGTTTGGGACAT-GCATCAGCCACGATGCAGAGA
* *
2409164 GCCAGCGTAAGACCATGTTTGGGACATG
1 GCTAGTGTAAGACCATGTTTGGGACATG
2409192 GCAGCGGTAA
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
48 12 0.18
49 40 0.62
50 10 0.15
51 3 0.05
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.23
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTTTGGGACATGCATCAGCCACGATGCAGAGA
Found at i:2410073 original size:55 final size:55
Alignment explanation
Indices: 2409964--2410074 Score: 134
Period size: 55 Copynumber: 2.0 Consensus size: 55
2409954 CTTTTAAATT
* * *
2409964 AGTATTGTCCACGGTTAGGCCACACGGGCGTGTGCCATAGTCGTGCCTATAAGTC
1 AGTATTGCCCACGGGTAGGCCACACGGGCGTGTGCCATAGCCGTGCCTATAAGTC
* * * * *
2410019 AGTATTGCCCACGGGTAGGCCACATGGGTGTGTGTCATGGCCTTGCCCTA-AAGTC
1 AGTATTGCCCACGGGTAGGCCACACGGGCGTGTGCCATAGCCGTG-CCTATAAGTC
2410074 A
1 A
2410075 ATGTCGCACA
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
55 43 0.91
56 4 0.09
ACGTcount: A:0.20, C:0.25, G:0.30, T:0.25
Consensus pattern (55 bp):
AGTATTGCCCACGGGTAGGCCACACGGGCGTGTGCCATAGCCGTGCCTATAAGTC
Found at i:2413202 original size:43 final size:43
Alignment explanation
Indices: 2413138--2413310 Score: 140
Period size: 43 Copynumber: 4.0 Consensus size: 43
2413128 CATAGGATTT
*
2413138 TCGATATGTG-TTCTCGTGTAAGACCACATCTGGGACGTTGGCA
1 TCGATATGTGATT-TCGAGTAAGACCACATCTGGGACGTTGGCA
* ** * *
2413181 TCGATATTTGATTTCGAGTAAGACCATGTCTGGGACATCGGCA
1 TCGATATGTGATTTCGAGTAAGACCACATCTGGGACGTTGGCA
* ** * *
2413224 TCG-TAATTGTGA-TTCGTGTAAGACCTTATTTGGGATAG-TGGCA
1 TCGAT-A-TGTGATTTCGAGTAAGACCACATCTGGGA-CGTTGGCA
* * *
2413267 TCGACATGTGATTAC-ATGTAAGACCACGTCTGGGACGTTGGCA
1 TCGATATGTGATTTCGA-GTAAGACCACATCTGGGACGTTGGCA
2413310 T
1 T
2413311 TGTACGATAT
Statistics
Matches: 100, Mismatches: 22, Indels: 16
0.72 0.16 0.12
Matches are distributed among these distances:
42 7 0.07
43 87 0.87
44 6 0.06
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (43 bp):
TCGATATGTGATTTCGAGTAAGACCACATCTGGGACGTTGGCA
Found at i:2417295 original size:47 final size:48
Alignment explanation
Indices: 2417219--2417444 Score: 153
Period size: 47 Copynumber: 4.6 Consensus size: 48
2417209 AGGGTAAGGT
* * *
2417219 GCCGATTCCATGTCCTAGACACGGTCTTACACTGGCTCAT-ATCTC-AA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-ATCATCTCGAA
* * *
2417266 GTCGATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCTCGTA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATCTCGAA
* *
2417314 GCCGATG-AATGTCCCAGATAT-GTCTTACACTGGCTTACGTC-TCTAGGCCGATGCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TA--TCATCT----CGA---A
* * ** **
2417369 TGCCGATGCCATGTCCCAGACATGGTCTTACGCTGGCTCTCAAAAT-GTG
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATC-ATCTCGAA
2417418 GCCGATG-CATGTCCCAGACAT-GTCTTA
1 GCCGATGCCATGTCCCAGACATGGTCTTA
2417445 TACTAGGTCA
Statistics
Matches: 143, Mismatches: 19, Indels: 35
0.73 0.10 0.18
Matches are distributed among these distances:
46 20 0.14
47 65 0.45
48 17 0.12
49 2 0.01
52 3 0.02
55 3 0.02
56 7 0.05
57 14 0.10
58 12 0.08
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.27
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATCTCGAA
Found at i:2426511 original size:40 final size:40
Alignment explanation
Indices: 2426415--2426516 Score: 111
Period size: 40 Copynumber: 2.5 Consensus size: 40
2426405 TGATTATCGA
* *
2426415 CTATATTAGGCAG-TAAGTGTGCGGTTCGAAATAGCTTTGG
1 CTATATAAGGC-GCTAAGTGTGCGGTTCGAAATAGCTTCGG
* *
2426455 CTACA-AATGGCACTAAGTGTGCGAGTT-GAAATAGCTTCGG
1 CTATATAA-GGCGCTAAGTGTGCG-GTTCGAAATAGCTTCGG
*
2426495 CTATATGAGGCGCTAAGTGTGC
1 CTATATAAGGCGCTAAGTGTGC
2426517 AATACCGAGA
Statistics
Matches: 51, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
39 1 0.02
40 46 0.90
41 4 0.08
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.28
Consensus pattern (40 bp):
CTATATAAGGCGCTAAGTGTGCGGTTCGAAATAGCTTCGG
Found at i:2443790 original size:34 final size:34
Alignment explanation
Indices: 2443747--2443814 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
2443737 ATTATTAGTG
*
2443747 TGGGCCTTAGCCCA-TAGCAGTAGCAGTATCAATA
1 TGGGCCTTAGCCCATTA-CAGTAACAGTATCAATA
* *
2443781 TGGGCCTTAGCCTATTACAGTAATAGTATCAATA
1 TGGGCCTTAGCCCATTACAGTAACAGTATCAATA
2443815 ATGCCATAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
34 28 0.93
35 2 0.07
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.28
Consensus pattern (34 bp):
TGGGCCTTAGCCCATTACAGTAACAGTATCAATA
Found at i:2447702 original size:43 final size:42
Alignment explanation
Indices: 2447643--2447737 Score: 100
Period size: 42 Copynumber: 2.2 Consensus size: 42
2447633 TCCCAGATGT
* * * * *
2447643 GGTCTTACATGTAATCAAACATCGATGTCACTATCCCAGACAG
1 GGTCTTACACGAAATCAAACA-CGAAGCCAATATCCCAGACAG
* * * *
2447686 GGTCTTACACGAAATCATATACGAAGCCAATGTCCCAGACAT
1 GGTCTTACACGAAATCAAACACGAAGCCAATATCCCAGACAG
2447728 GGTCTTACAC
1 GGTCTTACAC
2447738 ATAAAACAGA
Statistics
Matches: 43, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
42 26 0.60
43 17 0.40
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (42 bp):
GGTCTTACACGAAATCAAACACGAAGCCAATATCCCAGACAG
Found at i:2447732 original size:42 final size:43
Alignment explanation
Indices: 2447676--2447780 Score: 124
Period size: 44 Copynumber: 2.4 Consensus size: 43
2447666 GATGTCACTA
* * *
2447676 TCCCAGACAGGGTCTTACAC-GAAATCATATA-CGAAGCCAATG
1 TCCCAGACATGGTCTTACACAGAAAACAGA-AGCGAAGCCAATG
* *
2447718 TCCCAGACATGGTCTTACACATAAAACAGAAGTCGATGCCAATG
1 TCCCAGACATGGTCTTACACAGAAAACAGAAG-CGAAGCCAATG
*
2447762 TCCCAGACGTGGTCTTACA
1 TCCCAGACATGGTCTTACA
2447781 TGCAAAACAG
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
42 20 0.37
43 6 0.11
44 28 0.52
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.21
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACACAGAAAACAGAAGCGAAGCCAATG
Found at i:2454082 original size:30 final size:29
Alignment explanation
Indices: 2454048--2454111 Score: 119
Period size: 30 Copynumber: 2.2 Consensus size: 29
2454038 ATGAATCGGA
2454048 AGCTTTGGCACTAAGTGTGCAATTTAAACT
1 AGCTTTGGCACTAAGTGTGCAATTT-AACT
2454078 AGCTTTGGCACTAAGTGTGCAATTTAACT
1 AGCTTTGGCACTAAGTGTGCAATTTAACT
2454107 AGCTT
1 AGCTT
2454112 CGACTACTTG
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 9 0.26
30 25 0.74
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.34
Consensus pattern (29 bp):
AGCTTTGGCACTAAGTGTGCAATTTAACT
Found at i:2456182 original size:34 final size:35
Alignment explanation
Indices: 2456139--2456210 Score: 128
Period size: 34 Copynumber: 2.1 Consensus size: 35
2456129 AAAAGAAAGA
2456139 AAGCTTTAGTTATTCGACCAT-GTTGTCCAAAATT
1 AAGCTTTAGTTATTCGACCATGGTTGTCCAAAATT
*
2456173 AAGCTTTAGTTATTCGGCCATGGTTGTCCAAAATT
1 AAGCTTTAGTTATTCGACCATGGTTGTCCAAAATT
2456208 AAG
1 AAG
2456211 GTATGTAACT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
34 20 0.56
35 16 0.44
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (35 bp):
AAGCTTTAGTTATTCGACCATGGTTGTCCAAAATT
Found at i:2457739 original size:27 final size:27
Alignment explanation
Indices: 2457699--2457810 Score: 138
Period size: 27 Copynumber: 4.1 Consensus size: 27
2457689 AGGAAGCGTC
*
2457699 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
2457726 CTGGTGGCTCTGCCACATATT-TCTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTGAT
*
2457753 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * *
2457781 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGAT
2457807 CTGG
1 CTGG
2457811 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 8 0.11
27 49 0.65
28 18 0.24
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:2457805 original size:54 final size:54
Alignment explanation
Indices: 2457699--2457810 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
2457689 AGGAAGCGTC
* *
2457699 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATTTCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * *
2457753 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
2457807 CTGG
1 CTGG
2457811 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:2459527 original size:42 final size:43
Alignment explanation
Indices: 2459468--2459563 Score: 142
Period size: 42 Copynumber: 2.3 Consensus size: 43
2459458 AATGATATTT
* *
2459468 GGGCTTTATT-TTCTAGCAGGCTTTATGCCAGTGTATTATATC
1 GGGCTTTATTGCTCTAGCAGGCTTTATGCCAGTGTATCATATC
*
2459510 GGGCTTTATTGCT-TAGCAGGCTTTATGCCGGTGTATCATATC
1 GGGCTTTATTGCTCTAGCAGGCTTTATGCCAGTGTATCATATC
*
2459552 AGGCTTTATTGC
1 GGGCTTTATTGC
2459564 AACAGAATCA
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
42 48 0.98
43 1 0.02
ACGTcount: A:0.18, C:0.18, G:0.24, T:0.41
Consensus pattern (43 bp):
GGGCTTTATTGCTCTAGCAGGCTTTATGCCAGTGTATCATATC
Found at i:2476202 original size:27 final size:27
Alignment explanation
Indices: 2476172--2476242 Score: 106
Period size: 27 Copynumber: 2.6 Consensus size: 27
2476162 CTAATTTTTT
*
2476172 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACTGAAATACCCTCAACCTGTA
* *
2476199 AAATTACCGAAATACCCTCAACTTGTA
1 AAATTACTGAAATACCCTCAACCTGTA
*
2476226 AAATTACTAAAATACCC
1 AAATTACTGAAATACCC
2476243 CTGATTTAGA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.42, C:0.25, G:0.07, T:0.25
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCAACCTGTA
Found at i:2476215 original size:54 final size:54
Alignment explanation
Indices: 2476133--2476242 Score: 150
Period size: 54 Copynumber: 2.0 Consensus size: 54
2476123 ACAGAAAAAG
* * * *
2476133 CCTCGACCTATAAAATTACCAAAATACCC-CTAATTTTTTAAATTACTGAAATAC
1 CCTCGACCTATAAAATTACCAAAATACCCTC-AACTTGTAAAATTACTAAAATAC
* *
2476187 CCTCGACCTGTAAAATTACCGAAATACCCTCAACTTGTAAAATTACTAAAATAC
1 CCTCGACCTATAAAATTACCAAAATACCCTCAACTTGTAAAATTACTAAAATAC
2476241 CC
1 CC
2476243 CTGATTTAGA
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
54 48 0.98
55 1 0.02
ACGTcount: A:0.40, C:0.26, G:0.05, T:0.28
Consensus pattern (54 bp):
CCTCGACCTATAAAATTACCAAAATACCCTCAACTTGTAAAATTACTAAAATAC
Found at i:2476255 original size:27 final size:27
Alignment explanation
Indices: 2476225--2476404 Score: 113
Period size: 27 Copynumber: 6.6 Consensus size: 27
2476215 CTCAACTTGT
*
2476225 AAAATTACTAAAATACCCCTGATTTAG
1 AAAATTACTAAAATACCCCTGATTTAC
* * * *
2476252 AAAATTA-TCGAAATACACTTGATTTAG
1 AAAATTACT-AAAATACCCCTGATTTAC
*
2476279 AAAATTA-TAAAAATATCCCTGATTTAC
1 AAAATTACT-AAAATACCCCTGATTTAC
* * *
2476306 AAAATTTC-AGAAATACCCTTAAGTTT-C
1 AAAATTACTA-AAATACCCCTGA-TTTAC
* *
2476333 AAAAATTA-TATAAATACCCCTAATTTAA
1 -AAAATTACTA-AAATACCCCTGATTTAC
* * *
2476361 AAAATTTCAAAAATACCCTTGACTTT-C
1 AAAATTACTAAAATACCCCTGA-TTTAC
2476388 AAAATTAC-AGAAATACC
1 AAAATTACTA-AAATACC
2476405 ATTGGTTTGT
Statistics
Matches: 120, Mismatches: 23, Indels: 20
0.74 0.14 0.12
Matches are distributed among these distances:
26 3 0.03
27 92 0.77
28 25 0.21
ACGTcount: A:0.47, C:0.17, G:0.06, T:0.31
Consensus pattern (27 bp):
AAAATTACTAAAATACCCCTGATTTAC
Found at i:2476256 original size:54 final size:54
Alignment explanation
Indices: 2476198--2476434 Score: 203
Period size: 54 Copynumber: 4.4 Consensus size: 54
2476188 CTCGACCTGT
*
2476198 AAAATTACCGAAATACCCTCAACTTGT-AAAATTACTA-AAATACCCCTGATTTAG
1 AAAATTACCGAAATACCCTTAACTT-TCAAAATTA-TAGAAATACCCCTGATTTAG
* * * * * * *
2476252 AAAATTATCGAAATACACTTGA-TTTAGAAAATTATAAAAATATCCCTGATTTAC
1 AAAATTACCGAAATACCCTTAACTTT-CAAAATTATAGAAATACCCCTGATTTAG
* * * * * *
2476306 AAAATTTCAGAAATACCCTTAAGTTTCAAAAATTATATAAATACCCCTAATTTAA
1 AAAATTACCGAAATACCCTTAACTTTC-AAAATTATAGAAATACCCCTGATTTAG
* ** * * ** *
2476361 AAAATTTCAAAAATACCCTTGACTTTCAAAATTACAGAAATACCATTGGTTT-G
1 AAAATTACCGAAATACCCTTAACTTTCAAAATTATAGAAATACCCCTGATTTAG
2476414 TAAAATTACCGAAATACCCTT
1 -AAAATTACCGAAATACCCTT
2476435 GGTTTGTAGA
Statistics
Matches: 148, Mismatches: 29, Indels: 12
0.78 0.15 0.06
Matches are distributed among these distances:
52 1 0.01
53 4 0.03
54 93 0.63
55 50 0.34
ACGTcount: A:0.44, C:0.18, G:0.07, T:0.31
Consensus pattern (54 bp):
AAAATTACCGAAATACCCTTAACTTTCAAAATTATAGAAATACCCCTGATTTAG
Found at i:2476419 original size:109 final size:108
Alignment explanation
Indices: 2476195--2476434 Score: 256
Period size: 109 Copynumber: 2.2 Consensus size: 108
2476185 ACCCTCGACC
* * *
2476195 TGTAAAATTACCGAAATACCCTCAACTTGTAAAATTACTAAAATACCCCTGATTTAGAAAATTAT
1 TGTAAAATTACCGAAATACCCTTAACTTGTAAAATTACTAAAATACCCCTAATTTAAAAAATTAT
* * *
2476260 CGAAATACACTTGATTTAGAAAATTATAAAAATATCCCTGATT
66 CAAAATACACTTGATTTACAAAATTACAAAAATATCCCTGATT
** * * *
2476303 TACAAAATTTCAGAAATACCCTTAAGTT-TCAAAAATTA-TATAAATACCCCTAATTTAAAAAAT
1 TGTAAAATTACCGAAATACCCTTAACTTGT--AAAATTACTA-AAATACCCCTAATTTAAAAAAT
* * * *
2476366 T-TCAAAAATACCCTTGACTTT-CAAAATTACAGAAATA-CCATTGGTT
63 TATC-AAAATACACTTGA-TTTACAAAATTACAAAAATATCC-CTGATT
2476412 TGTAAAATTACCGAAATACCCTT
1 TGTAAAATTACCGAAATACCCTT
2476435 GGTTTGTAGA
Statistics
Matches: 107, Mismatches: 19, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
107 1 0.01
108 28 0.26
109 75 0.70
110 3 0.03
ACGTcount: A:0.44, C:0.17, G:0.07, T:0.32
Consensus pattern (108 bp):
TGTAAAATTACCGAAATACCCTTAACTTGTAAAATTACTAAAATACCCCTAATTTAAAAAATTAT
CAAAATACACTTGATTTACAAAATTACAAAAATATCCCTGATT
Found at i:2476449 original size:27 final size:27
Alignment explanation
Indices: 2476143--2476462 Score: 99
Period size: 27 Copynumber: 11.8 Consensus size: 27
2476133 CCTCGACCTA
* * ** *
2476143 TAAAATTACCAAAATACCCCTAATTTT
1 TAAAATTACCGAAATACCCTTGGTTTG
* * * ***
2476170 TTAAATTACTGAAATACCCTCGACCTG
1 TAAAATTACCGAAATACCCTTGGTTTG
****
2476197 TAAAATTACCGAAATACCCTCAACTTG
1 TAAAATTACCGAAATACCCTTGGTTTG
** * *
2476224 TAAAATTACTAAAATACCCCTGATTTAG
1 TAAAATTACCGAAATACCCTTGGTTT-G
* * *
2476252 -AAAATTATCGAAATACACTTGATTTAG
1 TAAAATTACCGAAATACCCTTGGTTT-G
*** * *
2476279 -AAAATTATAAAAATATCCC-TGATTTA
1 TAAAATTACCGAAATA-CCCTTGGTTTG
* * * * *
2476305 CAAAATTTCAGAAATACCCTTAAGTTTC
1 TAAAATTACCGAAATACCCTT-GGTTTG
* *** * ** *
2476333 AAAAATTATATAAATACCCCTAATTTA
1 TAAAATTACCGAAATACCCTTGGTTTG
* * ** *
2476360 AAAAATTTCAAAAATACCCTTGACTTT-
1 TAAAATTACCGAAATACCCTTG-GTTTG
* * *
2476387 CAAAATTACAGAAATACCATTGGTTTG
1 TAAAATTACCGAAATACCCTTGGTTTG
2476414 TAAAATTACCGAAATACCCTTGGTTTG
1 TAAAATTACCGAAATACCCTTGGTTTG
* * * *
2476441 TAGATTTACCAAAACACCCTTG
1 TAAAATTACCGAAATACCCTTG
2476463 TAGGGTGAAA
Statistics
Matches: 227, Mismatches: 59, Indels: 14
0.76 0.20 0.05
Matches are distributed among these distances:
26 6 0.03
27 196 0.86
28 25 0.11
ACGTcount: A:0.42, C:0.19, G:0.07, T:0.32
Consensus pattern (27 bp):
TAAAATTACCGAAATACCCTTGGTTTG
Found at i:2476934 original size:22 final size:22
Alignment explanation
Indices: 2476882--2476946 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
2476872 GCCAATTATT
* *
2476882 CTGATTATGGCTTTGCGCCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
2476904 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
* *
2476926 CTGATTATGGTTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
2476947 ACGTATTTGC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 1 0.03
22 33 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.25, G:0.23, T:0.32
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:2477175 original size:22 final size:22
Alignment explanation
Indices: 2477149--2477193 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
2477139 GTTGCTACGA
2477149 TGTTTATGGCTATGTGATGTCC
1 TGTTTATGGCTATGTGATGTCC
* *
2477171 TGTTTATGGCTATTTGCTGTCC
1 TGTTTATGGCTATGTGATGTCC
2477193 T
1 T
2477194 AATTACAACC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.11, C:0.16, G:0.24, T:0.49
Consensus pattern (22 bp):
TGTTTATGGCTATGTGATGTCC
Found at i:2484808 original size:34 final size:34
Alignment explanation
Indices: 2484755--2484825 Score: 106
Period size: 34 Copynumber: 2.1 Consensus size: 34
2484745 TTAGCCCCTC
2484755 TTTCAGTAGCAGTAACAGTCTGGGCCTGAGCCCA
1 TTTCAGTAGCAGTAACAGTCTGGGCCTGAGCCCA
* ** *
2484789 TTTCAGTAGTAGTGGCAGTCTGGGCCTTAGCCCA
1 TTTCAGTAGCAGTAACAGTCTGGGCCTGAGCCCA
2484823 TTT
1 TTT
2484826 TAGAACAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.20, C:0.24, G:0.27, T:0.30
Consensus pattern (34 bp):
TTTCAGTAGCAGTAACAGTCTGGGCCTGAGCCCA
Found at i:2484897 original size:13 final size:13
Alignment explanation
Indices: 2484860--2484901 Score: 52
Period size: 11 Copynumber: 3.3 Consensus size: 13
2484850 CCTACCCAAT
2484860 CCATCCGCTACACA
1 CCATCC-CTACACA
*
2484874 CCAT--CTCCACA
1 CCATCCCTACACA
2484885 CCATCCCTACACA
1 CCATCCCTACACA
2484898 CCAT
1 CCAT
2484902 GTGAGGATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
11 10 0.42
13 10 0.42
14 4 0.17
ACGTcount: A:0.29, C:0.52, G:0.02, T:0.17
Consensus pattern (13 bp):
CCATCCCTACACA
Found at i:2487185 original size:26 final size:27
Alignment explanation
Indices: 2487156--2487222 Score: 70
Period size: 26 Copynumber: 2.6 Consensus size: 27
2487146 CATTTATCCC
*
2487156 TTTTAAAATTATTTATA-ACTTA-TTTA
1 TTTTAAAATTATATATATA-TTATTTTA
*
2487182 TTTT-AAATTGTATATATATTATTTTA
1 TTTTAAAATTATATATATATTATTTTA
*
2487208 TTTTAATA-TATATAT
1 TTTTAAAATTATATAT
2487223 GTGTATTATA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
25 13 0.38
26 19 0.56
27 2 0.06
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.60
Consensus pattern (27 bp):
TTTTAAAATTATATATATATTATTTTA
Found at i:2487261 original size:23 final size:24
Alignment explanation
Indices: 2487231--2487313 Score: 89
Period size: 26 Copynumber: 3.4 Consensus size: 24
2487221 ATGTGTATTA
2487231 TATATTTTATATTATTAT-TTACT
1 TATATTTTATATTATTATATTACT
2487254 TATATTTTAT-TATATTATATTACT
1 TATATTTTATAT-TATTATATTACT
* * *
2487278 TCATATTTTTCTATTATCATATTAAT
1 T-ATA-TTTTATATTATTATATTACT
2487304 ATATATTTTA
1 -TATATTTTA
2487314 ACATATATCA
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
22 1 0.02
23 16 0.32
24 6 0.12
25 7 0.14
26 18 0.36
27 2 0.04
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (24 bp):
TATATTTTATATTATTATATTACT
Found at i:2487271 original size:8 final size:8
Alignment explanation
Indices: 2487226--2487307 Score: 57
Period size: 8 Copynumber: 10.4 Consensus size: 8
2487216 TATATATGTG
2487226 TATTA-TA
1 TATTATTA
2487233 TATT-TTA
1 TATTATTA
2487240 TATTATTA
1 TATTATTA
2487248 T-TTACTTA
1 TATTA-TTA
2487256 TATT-TTA
1 TATTATTA
2487263 T-TATATTA
1 TAT-TATTA
2487271 TATTACTTCA
1 TATTA-TT-A
* *
2487281 TATTTTTC
1 TATTATTA
*
2487289 TATTATCA
1 TATTATTA
*
2487297 TATTAATA
1 TATTATTA
2487305 TAT
1 TAT
2487308 ATTTTAACAT
Statistics
Matches: 59, Mismatches: 7, Indels: 17
0.71 0.08 0.20
Matches are distributed among these distances:
6 1 0.02
7 18 0.31
8 28 0.47
9 7 0.12
10 5 0.08
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (8 bp):
TATTATTA
Found at i:2487275 original size:5 final size:5
Alignment explanation
Indices: 2487192--2487275 Score: 57
Period size: 5 Copynumber: 16.4 Consensus size: 5
2487182 TTTTAAATTG
* * * *
2487192 TATA- TATAT TATTT TATTT TAATAT ATATAT GTGTAT TATA- TATTT
1 TATAT TATAT TATAT TATAT T-ATAT -TATAT -TATAT TATAT TATAT
*
2487238 TATAT TATTAT T-TACT TATAT TTTAT TATAT TATAT TA
1 TATAT TA-TAT TATA-T TATAT TATAT TATAT TATAT TA
2487276 CTTCATATTT
Statistics
Matches: 64, Mismatches: 9, Indels: 13
0.74 0.10 0.15
Matches are distributed among these distances:
4 9 0.14
5 37 0.58
6 17 0.27
7 1 0.02
ACGTcount: A:0.35, C:0.01, G:0.02, T:0.62
Consensus pattern (5 bp):
TATAT
Found at i:2492397 original size:39 final size:40
Alignment explanation
Indices: 2492302--2492563 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
2492292 TTGAATGATG
*
2492302 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
2492340 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
2492381 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
2492420 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
2492459 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
2492498 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
2492537 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
2492564 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Done.