Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 135 of 214
Found at i:41007288 original size:84 final size:85
Alignment explanation
Indices: 41007082--41007326 Score: 347
Period size: 84 Copynumber: 2.9 Consensus size: 85
41007072 TGCACCAAGG
* *
41007082 TGCCGATGGTG-CTCGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGATGGTGCTCGAGGCTCC
1 TGCCGATCGTGTC-CGAGGCTCCCGCACATCCATGCACCAAGGTGCCGATGGTGCTCGAGGCTCC
*
41007146 CGCACGACCAAGGGCCTAGGT
65 CGCACAACCAAGGGCCTAGGT
* *
41007167 TGCTGA-CAGTGTCCGAGGCTCCCGCACAT-CATAGCACCGAGGTGCCGATGGT-CTCCGAGGCT
1 TGCCGATC-GTGTCCGAGGCTCCCGCACATCCAT-GCACCAAGGTGCCGATGGTGCT-CGAGGCT
*
41007229 CCC-CACAACCAAGGGCCTAGTT
63 CCCGCACAACCAAGGGCCTAGGT
*
41007251 TGCCGATCGTGTCCGATGCTCCCGCACATCCATGCACCAAGGTGCCGATGGTGCTCGAGGCTCCC
1 TGCCGATCGTGTCCGAGGCTCCCGCACATCCATGCACCAAGGTGCCGATGGTGCTCGAGGCTCCC
*
41007316 GCACATCCAAG
66 GCACAACCAAG
41007327 CATCATGGTT
Statistics
Matches: 142, Mismatches: 10, Indels: 16
0.85 0.06 0.10
Matches are distributed among these distances:
84 74 0.52
85 67 0.47
86 1 0.01
ACGTcount: A:0.19, C:0.35, G:0.29, T:0.17
Consensus pattern (85 bp):
TGCCGATCGTGTCCGAGGCTCCCGCACATCCATGCACCAAGGTGCCGATGGTGCTCGAGGCTCCC
GCACAACCAAGGGCCTAGGT
Found at i:41011179 original size:42 final size:42
Alignment explanation
Indices: 41011132--41011532 Score: 181
Period size: 42 Copynumber: 9.5 Consensus size: 42
41011122 ACTTTAGCTT
* * * *
41011132 TGGTGCTCAAGGCTCCCGCTCATCCATGCACCAAGGTGCCGA
1 TGGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGGTGACGA
41011174 TGGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGGTGACGA
1 TGGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGGTGACGA
* ** * *
41011216 TGGTGCTCGAGGCTCTCGCACGA-CCAAGGGCCTAGGTTGCCGA
1 TGGTGCTCGAGGCTCCCGCAC-ATCCAAGCACCAAGG-TGACGA
** * * *
41011259 CAGTG-TCCGAGGCTCCCACACAT-CATAGCACCGAGGTGCCGA
1 TGGTGCT-CGAGGCTCCCGCACATCCA-AGCACCAAGGTGACGA
* * * * *
41011301 TGGT-CTCCGAGGCTCCC-CACAACCAAAG-GCCTAGTTTGCCGA
1 TGGTGCT-CGAGGCTCCCGCACATCC-AAGCACCAAG-GTGACGA
* ** * * * * *
41011343 TTGTG-TCCGATACTCGCGCACATCTACGTACCAAGGTGCCGA
1 TGGTGCT-CGAGGCTCCCGCACATCCAAGCACCAAGGTGACGA
** * * * * * *
41011385 TGGCACCCGAGGCTCCCGCACATCGAAACACCGAGGTGCCAA
1 TGGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGGTGACGA
* * * * ** ** * *
41011427 TGGCGCCCGAGGCTCCTGCATGA-CCAAGGGCTTAGTTTGCCGA
1 TGGTGCTCGAGGCTCCCGCA-CATCCAAGCACCAAG-GTGACGA
* * * * *
41011470 TGGTGTTCGGGGCTCCTGCACATCCTAGCACCGAGGTG-CTGA
1 TGGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGGTGAC-GA
*
41011512 TGGTGCCCGAGGCTCCCGCAC
1 TGGTGCTCGAGGCTCCCGCAC
41011533 GACCAAGGGC
Statistics
Matches: 271, Mismatches: 71, Indels: 34
0.72 0.19 0.09
Matches are distributed among these distances:
41 9 0.03
42 195 0.72
43 67 0.25
ACGTcount: A:0.20, C:0.34, G:0.29, T:0.18
Consensus pattern (42 bp):
TGGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGGTGACGA
Found at i:41011273 original size:85 final size:83
Alignment explanation
Indices: 41011181--41011406 Score: 238
Period size: 84 Copynumber: 2.7 Consensus size: 83
41011171 CGATGGTGCT
* * *
41011181 CGAGGCTCCCGCACATCCAAGCACCAAGGTGACGATGGTGCTCGAGGCTCTCGCACGACCAAGGG
1 CGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGATGGT-CTCGAGGCTC-CGCACAACCAAAGG
41011246 CCTAGGTTGCCGACAGTGTC
64 CCTAGGTTGCCGACAGTGTC
* * *
41011266 CGAGGCTCCCACACAT-CATAGCACCGAGGTGCCGATGGTCTCCGAGGCTCCCCACAACCAAAGG
1 CGAGGCTCCCGCACATCCA-AGCACCAAGGTGCCGATGGTCT-CGAGGCTCCGCACAACCAAAGG
* **
41011330 CCTAGTTTGCCGATTGTGTC
64 CCTAGGTTGCCGACAGTGTC
** * * * * * *
41011350 CGATACTCGCGCACATCTACGTACCAAGGTGCCGATGGCACCCGAGGCTCCCGCACA
1 CGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGATGG-TCTCGAGGCT-CCGCACA
41011407 TCGAAACACC
Statistics
Matches: 116, Mismatches: 20, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
84 67 0.58
85 49 0.42
ACGTcount: A:0.22, C:0.35, G:0.27, T:0.16
Consensus pattern (83 bp):
CGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGATGGTCTCGAGGCTCCGCACAACCAAAGGCC
TAGGTTGCCGACAGTGTC
Found at i:41011521 original size:127 final size:126
Alignment explanation
Indices: 41011265--41011532 Score: 292
Period size: 127 Copynumber: 2.1 Consensus size: 126
41011255 CCGACAGTGT
* * * *
41011265 CCGAGGCTCCCACACATCATAGCACCGAGGTGCCGATGGTCTCCGAGGCTCCCCACAACCAAAGG
1 CCGAGGCTCCCGCACATCATAACACCGAGGTGCCAATGGTCCCCGAGGCTCCCCACAACCAAAGG
* * *
41011330 CCTAGTTTGCCGATTGTGTCCGATACTCGCGCACATCTACGTACCAAGGTGCCGATGGCAC
66 CCTAGTTTGCCGATGGTGTCCGAGACTCGCGCACATCTACGCACCAAGGTGCCGATGGCAC
* **
41011391 CCGAGGCTCCCGCACATCGA-AACACCGAGGTGCCAATGG-CGCCCGAGGCTCCTGCATGACCAA
1 CCGAGGCTCCCGCACATC-ATAACACCGAGGTGCCAATGGTC-CCCGAGGCTCC-CCACAACCAA
* * * * * * * **
41011454 GGGCTTAGTTTGCCGATGGTGTTCGGGGCTC-CTGCACATCCTA-GCACCGAGGTGCTGATGGTG
63 AGGCCTAGTTTGCCGATGGTGTCCGAGACTCGC-GCACAT-CTACGCACCAAGGTGCCGATGGCA
41011517 C
126 C
41011518 CCGAGGCTCCCGCAC
1 CCGAGGCTCCCGCAC
41011533 GACCAAGGGC
Statistics
Matches: 118, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
125 1 0.01
126 45 0.38
127 69 0.58
128 3 0.03
ACGTcount: A:0.20, C:0.34, G:0.28, T:0.18
Consensus pattern (126 bp):
CCGAGGCTCCCGCACATCATAACACCGAGGTGCCAATGGTCCCCGAGGCTCCCCACAACCAAAGG
CCTAGTTTGCCGATGGTGTCCGAGACTCGCGCACATCTACGCACCAAGGTGCCGATGGCAC
Found at i:41011525 original size:211 final size:212
Alignment explanation
Indices: 41011161--41011545 Score: 524
Period size: 211 Copynumber: 1.8 Consensus size: 212
41011151 TCATCCATGC
** * * * * *
41011161 ACCAAGGTGCCGATGGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGGTGACGATGGTGCTCGA
1 ACCAAGGTGCCGATGGCACCCGAGGCTCCCGCACATCCAAACACCAAGGTGACAATGGCGCCCGA
41011226 GGCTCTCGCACGACCAAGGGCCTAGGTTGCCGACAGTGTCCGAGGCTCCCACACATCATAGCACC
66 GGCTCTCGCACGACCAAGGGCCTAGGTTGCCGACAGTGTCCGAGGCTCCCACACATCATAGCACC
41011291 GAGGTGCCGATGGTCTCCGAGGCTCCC-CACAACCAAAGGCCTAGTTTGCCGATTGTGTCCGATA
131 GAGGTGCCGATGGTCTCCGAGGCTCCCGCACAACCAAAGGCCTAGTTTGCCGATTGTGTCCGATA
41011355 CTCGCGCACATCTACGT
196 CTCGCGCACATCTACGT
* * *
41011372 ACCAAGGTGCCGATGGCACCCGAGGCTCCCGCACATCGAAACACCGAGGTGCCAATGGCGCCCGA
1 ACCAAGGTGCCGATGGCACCCGAGGCTCCCGCACATCCAAACACCAAGGTGACAATGGCGCCCGA
* * * ** * * ** *
41011437 GGCTC-CTGCATGACCAAGGGCTTAGTTTGCCGATGGTGTTCGGGGCTCCTGCACATCCTAGCAC
66 GGCTCTC-GCACGACCAAGGGCCTAGGTTGCCGACAGTGTCCGAGGCTCCCACACATCATAGCAC
* * *
41011501 CGAGGTGCTGATGGTGC-CCGAGGCTCCCGCACGACCAAGGGCCTA
130 CGAGGTGCCGATGGT-CTCCGAGGCTCCCGCACAACCAAAGGCCTA
41011546 TGCTACCGGA
Statistics
Matches: 148, Mismatches: 23, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
210 1 0.01
211 132 0.89
212 15 0.10
ACGTcount: A:0.21, C:0.33, G:0.29, T:0.17
Consensus pattern (212 bp):
ACCAAGGTGCCGATGGCACCCGAGGCTCCCGCACATCCAAACACCAAGGTGACAATGGCGCCCGA
GGCTCTCGCACGACCAAGGGCCTAGGTTGCCGACAGTGTCCGAGGCTCCCACACATCATAGCACC
GAGGTGCCGATGGTCTCCGAGGCTCCCGCACAACCAAAGGCCTAGTTTGCCGATTGTGTCCGATA
CTCGCGCACATCTACGT
Found at i:41011563 original size:85 final size:85
Alignment explanation
Indices: 41011395--41011563 Score: 180
Period size: 85 Copynumber: 2.0 Consensus size: 85
41011385 TGGCACCCGA
* * * *
41011395 GGCTCCCGCACATCGAAACACCGAGGTGCCAATGGCGCCCGAGGCTCCTGCATGACCAAGGGCTT
1 GGCTCCCGCACATCCAAACACCGAGGTGCCAATGGCGCCCGAGGCTCCCGCACGACCAAGGGCCT
* * **
41011460 AGTTTGCCGATGGTGTTCGG
66 AGTCTACCGAACGTGTTCGG
* * * ** *
41011480 GGCTCCTGCACATCCTAGCACCGAGGTGCTGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCT
1 GGCTCCCGCACATCCAAACACCGAGGTGCCAATGGCGCCCGAGGCTCCCGCACGACCAAGGGCCT
41011545 A-TGCTACCGGAACG-GTTCG
66 AGT-CTACC-GAACGTGTTCG
41011564 CCGGAGCCCC
Statistics
Matches: 68, Mismatches: 14, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
84 1 0.01
85 64 0.94
86 3 0.04
ACGTcount: A:0.18, C:0.33, G:0.31, T:0.18
Consensus pattern (85 bp):
GGCTCCCGCACATCCAAACACCGAGGTGCCAATGGCGCCCGAGGCTCCCGCACGACCAAGGGCCT
AGTCTACCGAACGTGTTCGG
Found at i:41011623 original size:24 final size:24
Alignment explanation
Indices: 41011551--41011625 Score: 87
Period size: 24 Copynumber: 3.1 Consensus size: 24
41011541 GCCTATGCTA
* *
41011551 CCGGAACGGTTCGCCGGAGCCCCG
1 CCGGGACGGTTCGCCGGAGCACCG
* ** *
41011575 ACGGGATAGTTCGTCGGAGCACCG
1 CCGGGACGGTTCGCCGGAGCACCG
*
41011599 CCGGGACGGATCGCCGGAGCACCG
1 CCGGGACGGTTCGCCGGAGCACCG
41011623 CCG
1 CCG
41011626 AGAACCTAAC
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.16, C:0.36, G:0.39, T:0.09
Consensus pattern (24 bp):
CCGGGACGGTTCGCCGGAGCACCG
Found at i:41011885 original size:42 final size:42
Alignment explanation
Indices: 41011837--41012071 Score: 187
Period size: 42 Copynumber: 5.6 Consensus size: 42
41011827 AATTTATCTT
* *
41011837 TGGTGCTCAAGGCTCCCGCTCATCCATGCACCAAGGTGCCGA
1 TGGTGCTCGAGGCTCCCGCACATCCATGCACCAAGGTGCCGA
* *
41011879 TGGTGCTCGAGGCTCCCGCACGA-CCAATGGC-CTAAGTTGCCGA
1 TGGTGCTCGAGGCTCCCGCAC-ATCC-AT-GCACCAAGGTGCCGA
* * * * *
41011922 TAGT-TTCCGAAGCTCCCGCACAT-CATAGCATCGAGGTGCCGA
1 TGGTGCT-CGAGGCTCCCGCACATCCAT-GCACCAAGGTGCCGA
* * ** * *
41011964 TGGT-CTCTGAGGCTCCC-CACAACCAAGGGCCTAGTTTGCCGA
1 TGGTGCTC-GAGGCTCCCGCACATCCATGCACCAAG-GTGCCGA
* *
41012006 TGGTG-TCCGATGCTCCCGCACATCCACGCACCAAGGTGCCGA
1 TGGTGCT-CGAGGCTCCCGCACATCCATGCACCAAGGTGCCGA
*
41012048 TGGTGCTCGAGGCTCCCACACATC
1 TGGTGCTCGAGGCTCCCGCACATC
41012072 TGAGCCACCA
Statistics
Matches: 149, Mismatches: 31, Indels: 26
0.72 0.15 0.13
Matches are distributed among these distances:
41 13 0.09
42 91 0.61
43 43 0.29
44 2 0.01
ACGTcount: A:0.20, C:0.34, G:0.26, T:0.20
Consensus pattern (42 bp):
TGGTGCTCGAGGCTCCCGCACATCCATGCACCAAGGTGCCGA
Found at i:41012022 original size:84 final size:85
Alignment explanation
Indices: 41011848--41012069 Score: 299
Period size: 84 Copynumber: 2.6 Consensus size: 85
41011838 GGTGCTCAAG
* * * *
41011848 GCTCCCGCTCATCCATGCACCAAGGTGCCGATGGTGCTCGAGGCTCCCGCACGACCAATGGCCTA
1 GCTCCCGCACATCCATGCACCAAGGTGCCGATGGTGCTCGAGGCTCCCACACAACCAAGGGCCTA
*
41011913 AGTTGCCGATAGTTTCCGAA
66 AGTTGCCGATAGTGTCCGAA
* *
41011933 GCTCCCGCACAT-CATAGCATCGAGGTGCCGATGGT-CTCTGAGGCTCCC-CACAACCAAGGGCC
1 GCTCCCGCACATCCAT-GCACCAAGGTGCCGATGGTGCTC-GAGGCTCCCACACAACCAAGGGCC
* *
41011995 T-AGTTTGCCGATGGTGTCCGAT
64 TAAG-TTGCCGATAGTGTCCGAA
*
41012017 GCTCCCGCACATCCACGCACCAAGGTGCCGATGGTGCTCGAGGCTCCCACACA
1 GCTCCCGCACATCCATGCACCAAGGTGCCGATGGTGCTCGAGGCTCCCACACA
41012070 TCTGAGCCAC
Statistics
Matches: 120, Mismatches: 11, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
83 2 0.02
84 72 0.60
85 46 0.38
ACGTcount: A:0.20, C:0.35, G:0.26, T:0.19
Consensus pattern (85 bp):
GCTCCCGCACATCCATGCACCAAGGTGCCGATGGTGCTCGAGGCTCCCACACAACCAAGGGCCTA
AGTTGCCGATAGTGTCCGAA
Found at i:41013263 original size:17 final size:17
Alignment explanation
Indices: 41013241--41013304 Score: 67
Period size: 17 Copynumber: 3.6 Consensus size: 17
41013231 CATCAAAGGC
*
41013241 TACAATTAAAAGCTGTA
1 TACAATTAGAAGCTGTA
*
41013258 TACAATTAGAA-CTCTAA
1 TACAATTAGAAGCTGT-A
*
41013275 GACATAATTAGAAGCTGTA
1 TAC--AATTAGAAGCTGTA
41013294 TACAATTAGAA
1 TACAATTAGAA
41013305 CTCTAAGATT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
16 3 0.08
17 21 0.55
19 11 0.29
20 3 0.08
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.28
Consensus pattern (17 bp):
TACAATTAGAAGCTGTA
Found at i:41013285 original size:19 final size:17
Alignment explanation
Indices: 41013259--41013312 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
41013249 AAAGCTGTAT
41013259 ACAATTAGAACTCTAAG
1 ACAATTAGAACTCTAAG
* *
41013276 ACATAATTAGAAGCTGT-AT
1 AC--AATTAGAA-CTCTAAG
41013295 ACAATTAGAACTCTAAG
1 ACAATTAGAACTCTAAG
41013312 A
1 A
41013313 TTAAATAATC
Statistics
Matches: 29, Mismatches: 4, Indels: 8
0.71 0.10 0.20
Matches are distributed among these distances:
16 3 0.10
17 12 0.41
19 11 0.38
20 3 0.10
ACGTcount: A:0.46, C:0.15, G:0.13, T:0.26
Consensus pattern (17 bp):
ACAATTAGAACTCTAAG
Found at i:41013291 original size:36 final size:36
Alignment explanation
Indices: 41013244--41013312 Score: 129
Period size: 36 Copynumber: 1.9 Consensus size: 36
41013234 CAAAGGCTAC
41013244 AATTAAAAGCTGTATACAATTAGAACTCTAAGACAT
1 AATTAAAAGCTGTATACAATTAGAACTCTAAGACAT
*
41013280 AATTAGAAGCTGTATACAATTAGAACTCTAAGA
1 AATTAAAAGCTGTATACAATTAGAACTCTAAGA
41013313 TTAAATAATC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.46, C:0.13, G:0.13, T:0.28
Consensus pattern (36 bp):
AATTAAAAGCTGTATACAATTAGAACTCTAAGACAT
Found at i:41018495 original size:14 final size:14
Alignment explanation
Indices: 41018476--41018507 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
41018466 TCCAATCACC
41018476 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
41018490 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
41018504 GGGC
1 GGGC
41018508 TAAATGACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.16, G:0.47, T:0.31
Consensus pattern (14 bp):
GGGCCAGTTTGGTT
Found at i:41025586 original size:43 final size:43
Alignment explanation
Indices: 41025441--41026087 Score: 334
Period size: 43 Copynumber: 15.2 Consensus size: 43
41025431 TCTTCTTTAG
* *
41025441 CCCGCACATCCCAGGCACCAAGGTGCCGATGGGTGCCCGAGGCT
1 CCCGCACATCCAAGCCACCAAGGTGCCGAT-GGTGCCCGAGGCT
* * *
41025485 CCCGCACATCCAAG-CACCAAGTTGCCAATGGTGTCCGAGGCT
1 CCCGCACATCCAAGCCACCAAGGTGCCGATGGTGCCCGAGGCT
* * * *
41025527 CCCGCACCTCCTAGCCACCGAGGTGCCGATGCTGCCCGAGGCT
1 CCCGCACATCCAAGCCACCAAGGTGCCGATGGTGCCCGAGGCT
* *
41025570 CCCGCACATCCGAGCCACCAAGGTGCCGATGGTGCCCAAGGCT
1 CCCGCACATCCAAGCCACCAAGGTGCCGATGGTGCCCGAGGCT
** * ** * *
41025613 CCCGCACGA-CCAAG-GGCCGAGGTAACGATGGTGGCCGCGG-T
1 CCCGCAC-ATCCAAGCCACCAAGGTGCCGATGGTGCCCGAGGCT
* * * *** *
41025654 GCCCGCACGA-CCAGGGGC-CTATTTTGCCGATGGTGCCCGAGGAT
1 -CCCGCAC-ATCCA-AGCCACCAAGGTGCCGATGGTGCCCGAGGCT
** ** * * *
41025698 CCCGCACGA-CCAAG-GGCTTAGTTTGCCGATAGTGCCCGAGCCT
1 CCCGCAC-ATCCAAGCCACCAAG-GTGCCGATGGTGCCCGAGGCT
* * * * *
41025741 CTCGCACGA-CCAAAG--GCCTAGGTTGCCGATGGTGCGCGAGGTT
1 CCCGCAC-ATCC-AAGCCACCAAGG-TGCCGATGGTGCCCGAGGCT
* *
41025784 CTCGCACATCCAAG-CACCAAGGTGCCGATGGTGCTCGAGGCT
1 CCCGCACATCCAAGCCACCAAGGTGCCGATGGTGCCCGAGGCT
** * ** **
41025826 CCCGCACGA-CCAAG-GGCCTAGGTTGCCGACAGTGTTCGAGGCT
1 CCCGCAC-ATCCAAGCCACCAAGG-TGCCGATGGTGCCCGAGGCT
* * *
41025869 CCCGCACAT-CATAG-CA-CAGAGGTACCGATGGTGCCTGAGGTT
1 CCCGCACATCCA-AGCCACCA-AGGTGCCGATGGTGCCCGAGGCT
* ** *
41025911 CTCGCACGA-CCAAG-GGCCTAGGTTGCCGATGGTGCCCGAGGCT
1 CCCGCAC-ATCCAAGCCACCAAGG-TGCCGATGGTGCCCGAGGCT
* * * *
41025954 CCCGCACATCGAAG-CACCAAGATGCTGATGGCGCCCGAGGCT
1 CCCGCACATCCAAGCCACCAAGGTGCCGATGGTGCCCGAGGCT
* * * ** * * *
41025996 CCTGCATGA-CCAATG--GCTTAGTTTGCCGATGGTGTCCGGGGCT
1 CCCGCA-CATCCAA-GCCACCAAG-GTGCCGATGGTGCCCGAGGCT
* * * *
41026039 TCTGCACATCCTAG-CACCGAGGTGCCGATGGTGCCCGAGGCT
1 CCCGCACATCCAAGCCACCAAGGTGCCGATGGTGCCCGAGGCT
41026081 CCCGCAC
1 CCCGCAC
41026088 GACCAAGGGC
Statistics
Matches: 467, Mismatches: 109, Indels: 56
0.74 0.17 0.09
Matches are distributed among these distances:
41 1 0.00
42 178 0.38
43 270 0.58
44 18 0.04
ACGTcount: A:0.19, C:0.34, G:0.31, T:0.16
Consensus pattern (43 bp):
CCCGCACATCCAAGCCACCAAGGTGCCGATGGTGCCCGAGGCT
Found at i:41025725 original size:128 final size:127
Alignment explanation
Indices: 41025550--41026100 Score: 420
Period size: 128 Copynumber: 4.3 Consensus size: 127
41025540 GCCACCGAGG
* * ** * * *
41025550 TGCCGATGCTGCCCGAGGCTCCCGCAC-ATCCGAGCCACCAAGG-TGCCGATGGTGCCCAAGGCT
1 TGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAG-GGCCTAGGTTGCCGATAGTGCCCGAGGCT
* * * * * **
41025613 CCCGCACGACCAAGGGCCGAGGTAACGATGGTGGCCGCGGTGCCCGCACGACCAGGGGCCTATTT
64 CCCGCACGACCAAGGGCCGAGGTACCGATGGT-GCCGAGGTTCTCGCACGACCAAGGGCCTAAGT
* * * * *
41025678 TGCCGATGGTGCCCGAGGATCCCGCACGACCAAGGGCTTAGTTTGCCGATAGTGCCCGAGCCTCT
1 TGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATAGTGCCCGAGGCTCC
* * * ** *
41025743 CGCACGACCAAAGGCCTAGGTTGCCGATGGTGCGCGAGGTTCTCGCAC-ATCCAAGCACC-AAGG
66 CGCACGACCAAGGGCCGAGG-TACCGATGGTGC-CGAGGTTCTCGCACGA-CCAAGGGCCTAAGT
* * **
41025806 TGCCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGACAGTGTTCGAGGCTCC
1 TGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATAGTGCCCGAGGCTCC
* ** * *
41025871 CGCAC-ATCATAGCACAGAGGTACCGATGGTGCCTGAGGTTCTCGCACGACCAAGGGCCTAGGT
66 CGCACGACCA-AGGGCCGAGGTACCGATGGTGCC-GAGGTTCTCGCACGACCAAGGGCCTAAGT
* ** * * * * *
41025934 TGCCGATGGTGCCCGAGGCTCCCGCAC-ATCGAAGCACC-AAGATGCTGATGGCGCCCGAGGCTC
1 TGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGGCCTAGGTTGCCGATAGTGCCCGAGGCTC
* * * ** * * * * ** *
41025997 CTGCATGACCAATGGCTTAGTTTGCCGATGGTGTCCGGGGCTTCT-GCAC-ATCCTAGCACC-GA
65 CCGCACGACCAAGGGCCGAG-GTACCGATGGTG-CCGAGG-TTCTCGCACGA-CCAAGGGCCTAA
*
41026059 GG
126 GT
41026061 TGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTA
1 TGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTA
41026101 TGCTACCGGA
Statistics
Matches: 329, Mismatches: 77, Indels: 34
0.75 0.17 0.08
Matches are distributed among these distances:
126 1 0.00
127 98 0.30
128 198 0.60
129 32 0.10
ACGTcount: A:0.19, C:0.33, G:0.32, T:0.17
Consensus pattern (127 bp):
TGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATAGTGCCCGAGGCTCC
CGCACGACCAAGGGCCGAGGTACCGATGGTGCCGAGGTTCTCGCACGACCAAGGGCCTAAGT
Found at i:41025849 original size:85 final size:85
Alignment explanation
Indices: 41025441--41026100 Score: 591
Period size: 85 Copynumber: 7.7 Consensus size: 85
41025431 TCTTCTTTAG
* **
41025441 CCCGCACATCCCAGGCACCAAGGTGCCGATGGGTGCCCGAGGCTCCCGCAC-ATCCAAGCACC-A
1 CCCGCACAT-CCAAGCACCAAGGTGCCGAT-GGTGCCCGAGGCTCCCGCACGA-CCAAGGGCCTA
* * *
41025504 AGTTGCCAATGGTGTCCGAGGCT
63 GGTTGCCGATGGTGCCCGAGGCT
* * * * * ** *
41025527 CCCGCACCTCCTAGCCACCGAGGTGCCGATGCTGCCCGAGGCTCCCGCAC-ATCCGAGCCACCAA
1 CCCGCACATCCAAG-CACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAG-GGCCTA
*
41025591 GG-TGCCGATGGTGCCCAAGGCT
63 GGTTGCCGATGGTGCCCGAGGCT
** * ** * * * *
41025613 CCCGCACGA-CCAAGGGCCGAGGTAACGATGGTGGCCGCGG-TGCCCGCACGACCAGGGGCCTAT
1 CCCGCAC-ATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCT-CCCGCACGACCAAGGGCCTAG
* *
41025676 TTTGCCGATGGTGCCCGAGGAT
64 GTTGCCGATGGTGCCCGAGGCT
** ** * * * * *
41025698 CCCGCACGA-CCAAGGGCTTAGTTTGCCGATAGTGCCCGAGCCTCTCGCACGACCAAAGGCCTAG
1 CCCGCAC-ATCCAAGCACCAAG-GTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAG
* *
41025762 GTTGCCGATGGTGCGCGAGGTT
64 GTTGCCGATGGTGCCCGAGGCT
* *
41025784 CTCGCACATCCAAGCACCAAGGTGCCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGT
1 CCCGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGT
** **
41025849 TGCCGACAGTGTTCGAGGCT
66 TGCCGATGGTGCCCGAGGCT
* * * *
41025869 CCCGCACAT-CATAGCA-CAGAGGTACCGATGGTGCCTGAGGTTCTCGCACGACCAAGGGCCTAG
1 CCCGCACATCCA-AGCACCA-AGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAG
41025932 GTTGCCGATGGTGCCCGAGGCT
64 GTTGCCGATGGTGCCCGAGGCT
* * * * * * * * *
41025954 CCCGCACATCGAAGCACCAAGATGCTGATGGCGCCCGAGGCTCCTGCATGACCAATGGCTTAGTT
1 CCCGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGT
* *
41026019 TGCCGATGGTGTCCGGGGCT
66 TGCCGATGGTGCCCGAGGCT
* * * *
41026039 TCTGCACATCCTAGCACCGAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTA
1 CCCGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTA
41026101 TGCTACCGGA
Statistics
Matches: 463, Mismatches: 97, Indels: 29
0.79 0.16 0.05
Matches are distributed among these distances:
84 8 0.02
85 332 0.72
86 120 0.26
87 3 0.01
ACGTcount: A:0.19, C:0.34, G:0.31, T:0.16
Consensus pattern (85 bp):
CCCGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGT
TGCCGATGGTGCCCGAGGCT
Found at i:41026441 original size:42 final size:43
Alignment explanation
Indices: 41026392--41026683 Score: 235
Period size: 42 Copynumber: 6.9 Consensus size: 43
41026382 ACTTTAGCTT
* * *
41026392 TGGTGCT-CAAGGCTCCCGCTCATCCATGCACCAAGGTGCCGA
1 TGGTGCTCCGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGA
** *
41026434 TGGTGCT-CGAGGCTCCCGCACGA-CCAAGGGCCTAGGTTGCCGA
1 TGGTGCTCCGAGGCTCCCGCAC-ATCCAAGCACCAAGG-TGCCGA
** * * * *
41026477 CAGTG-TCCGAGGCTCCCGCACCT-CATAGTACCGAGGTGTCGA
1 TGGTGCTCCGAGGCTCCCGCACATCCA-AGCACCAAGGTGCCGA
* ** * *
41026519 TGGT-CTCCGAGGCTCCC-CACAACCAAGGGCCTAGTTTGCCGA
1 TGGTGCTCCGAGGCTCCCGCACATCCAAGCACCAAG-GTGCCGA
* * *
41026561 TAGTG-TCCGATGCTCCCGCACATCCATGCACCAAGGTGCCGA
1 TGGTGCTCCGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGA
* *
41026603 TGGTGCT-CGAGGCTCCCGCACATCCAAGCATCAAGGTTACCGA
1 TGGTGCTCCGAGGCTCCCGCACATCCAAGCACCAAGG-TGCCGA
* * *
41026646 TGGTG-TCTGAGGCTCCCACACATCCGAGCCACCAAGGT
1 TGGTGCTCCGAGGCTCCCGCACATCCAAG-CACCAAGGT
41026684 CATGGAGGCT
Statistics
Matches: 197, Mismatches: 39, Indels: 27
0.75 0.15 0.10
Matches are distributed among these distances:
41 9 0.05
42 108 0.55
43 73 0.37
44 7 0.04
ACGTcount: A:0.20, C:0.34, G:0.27, T:0.18
Consensus pattern (43 bp):
TGGTGCTCCGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGA
Found at i:41026668 original size:85 final size:84
Alignment explanation
Indices: 41026401--41026683 Score: 331
Period size: 85 Copynumber: 3.3 Consensus size: 84
41026391 TTGGTGCTCA
*
41026401 AGGCTCCCGCTCATCCATGCACCAAGGTGCCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCC
1 AGGCTCCCGCACATCCATGCACCAAGGTGCCGATGGTGCTCGAGGCTCCCGCAC-ACCAAGGGCC
*
41026466 TAGGTTGCCGACAGTGTCCG
65 TAGGTTGCCGATAGTGTCCG
* * * *
41026486 AGGCTCCCGCACCT-CATAGTACCGAGGTGTCGATGGT-CTCCGAGGCTCCC-CACAACCAAGGG
1 AGGCTCCCGCACATCCAT-GCACCAAGGTGCCGATGGTGCT-CGAGGCTCCCGCAC-ACCAAGGG
*
41026548 CCTAGTTTGCCGATAGTGTCCG
63 CCTAGGTTGCCGATAGTGTCCG
* ***
41026570 ATGCTCCCGCACATCCATGCACCAAGGTGCCGATGGTGCTCGAGGCTCCCGCACATCCAAGCATC
1 AGGCTCCCGCACATCCATGCACCAAGGTGCCGATGGTGCTCGAGGCTCCCGCACA-CCAAGGGCC
* * * *
41026635 AAGGTTACCGATGGTGTCTG
65 TAGGTTGCCGATAGTGTCCG
*
41026655 AGGCTCCCACACATCCGA-GCCACCAAGGT
1 AGGCTCCCGCACATCC-ATG-CACCAAGGT
41026684 CATGGAGGCT
Statistics
Matches: 167, Mismatches: 23, Indels: 15
0.81 0.11 0.07
Matches are distributed among these distances:
84 75 0.45
85 82 0.49
86 10 0.06
ACGTcount: A:0.20, C:0.35, G:0.27, T:0.18
Consensus pattern (84 bp):
AGGCTCCCGCACATCCATGCACCAAGGTGCCGATGGTGCTCGAGGCTCCCGCACACCAAGGGCCT
AGGTTGCCGATAGTGTCCG
Found at i:41029508 original size:43 final size:42
Alignment explanation
Indices: 41029438--41029895 Score: 271
Period size: 43 Copynumber: 10.7 Consensus size: 42
41029428 TCTTCTTTAG
*
41029438 CCCGCACATCCCAGGCACCAAGGTGCCGATGGGTGCCCGAGGCT
1 CCCGCACAT-CCAAGCACCAAGGTGCCGAT-GGTGCCCGAGGCT
* * *
41029482 CCCGCACATCCAAGCACCAAGTTGCCGATGGTGTCCGAGGTT
1 CCCGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCT
* * * * ** * *
41029524 CCCGCACCTCCTAGCCACCGAGGTACCGATACTGGCCGAGGGT
1 CCCGCACATCCAAG-CACCAAGGTGCCGATGGTGCCCGAGGCT
** * *
41029567 CCCGCACATCCGATCCACCAAGGTGTCGATGGTGCTCGAGGCT
1 CCCGCACATCC-AAGCACCAAGGTGCCGATGGTGCCCGAGGCT
** * * * * *
41029610 CCCGCACGA-CCAAGGGCCGAGGTACCGATCGTGGCCGAGGCC
1 CCCGCAC-ATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCT
**** * *** * *
41029652 CCCGCACGACTTGGGGC-CTATTTTGCCGATGGTGCGCGAGGTT
1 CCCGCAC-A-TCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCT
* *
41029695 CTCGCACATCCAAGCACCAAGGTGCCGATGGTGCTCGAGGCT
1 CCCGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCT
* ** * ** **
41029737 TCCGCACGA-CCAAGGGCCTAGGTTGCC-ACCAGTATCCGAGGCT
1 CCCGCAC-ATCCAAGCACCAAGG-TGCCGA-TGGTGCCCGAGGCT
* *
41029780 CCCGCACAT-CATAGCACCGAGGTGCCGGTGGTGCCCGAGGCT
1 CCCGCACATCCA-AGCACCAAGGTGCCGATGGTGCCCGAGGCT
* * ** * * *
41029822 CCCGTACGA-CTAAGGGCCTAGTTTACCGATGGTGCCCGAGGCT
1 CCCGCAC-ATCCAAGCACCAAG-GTGCCGATGGTGCCCGAGGCT
* *
41029865 CTCGCACATCGAAGCACCAAGGTGCCGATGG
1 CCCGCACATCCAAGCACCAAGGTGCCGATGG
41029896 CTCCCGTACA
Statistics
Matches: 300, Mismatches: 98, Indels: 34
0.69 0.23 0.08
Matches are distributed among these distances:
41 3 0.01
42 127 0.42
43 159 0.53
44 11 0.04
ACGTcount: A:0.19, C:0.34, G:0.30, T:0.16
Consensus pattern (42 bp):
CCCGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCT
Found at i:41029723 original size:85 final size:84
Alignment explanation
Indices: 41029438--41029895 Score: 311
Period size: 85 Copynumber: 5.4 Consensus size: 84
41029428 TCTTCTTTAG
* * * ** *
41029438 CCCGCACATCCCAGGCACCAAGGTGCCGATGGGTGCCCGAGGCTCCCGCAC-ATCCAAGCACCAA
1 CCCGCACAT-CCAAGCACCAAGGTGCCGAT-GGTGGCCGAGGCTCCCGCACGA-CTAAGGGCCTA
*
41029502 G-TTGCCGATGGTGTCCGAGGTT
63 GTTTGCCGATGGTG-CCGAGGCT
* * * * ** * * **** *
41029524 CCCGCACCTCCTAGCCACCGAGGTACCGATACTGGCCGAGGGTCCCGCAC-ATCCGATCCACCAA
1 CCCGCACATCCAAG-CACCAAGGTGCCGATGGTGGCCGAGGCTCCCGCACGA--CTAAGGGCCTA
* *
41029588 G-GTGTCGATGGTGCTCGAGGCT
63 GTTTGCCGATGGTGC-CGAGGCT
** * * * * ** *
41029610 CCCGCACGA-CCAAGGGCCGAGGTACCGATCGTGGCCGAGGCCCCCGCACGACTTGGGGCCTATT
1 CCCGCAC-ATCCAAGCACCAAGGTGCCGATGGTGGCCGAGGCTCCCGCACGACTAAGGGCCTAGT
*
41029674 TTGCCGATGGTGCGCGAGGTT
65 TTGCCGATGGTGC-CGAGGCT
* * * *
41029695 CTCGCACATCCAAGCACCAAGGTGCCGATGGT-GCTCGAGGCTTCCGCACGACCAAGGGCCTAGG
1 CCCGCACATCCAAGCACCAAGGTGCCGATGGTGGC-CGAGGCTCCCGCACGACTAAGGGCCTAGT
** *
41029759 TTGCC-ACCAGTATCCGAGGCT
65 TTGCCGA-TGGT-GCCGAGGCT
* * * *
41029780 CCCGCACAT-CATAGCACCGAGGTGCCGGTGGTGCCCGAGGCTCCCGTACGACTAAGGGCCTAGT
1 CCCGCACATCCA-AGCACCAAGGTGCCGATGGTGGCCGAGGCTCCCGCACGACTAAGGGCCTAGT
*
41029844 TTACCGATGGTGCCCGAGGCT
65 TTGCCGATGGTG-CCGAGGCT
* *
41029865 CTCGCACATCGAAGCACCAAGGTGCCGATGG
1 CCCGCACATCCAAGCACCAAGGTGCCGATGG
41029896 CTCCCGTACA
Statistics
Matches: 288, Mismatches: 69, Indels: 31
0.74 0.18 0.08
Matches are distributed among these distances:
84 10 0.03
85 216 0.75
86 62 0.22
ACGTcount: A:0.19, C:0.34, G:0.30, T:0.16
Consensus pattern (84 bp):
CCCGCACATCCAAGCACCAAGGTGCCGATGGTGGCCGAGGCTCCCGCACGACTAAGGGCCTAGTT
TGCCGATGGTGCCGAGGCT
Found at i:41029898 original size:33 final size:33
Alignment explanation
Indices: 41029852--41029934 Score: 114
Period size: 33 Copynumber: 2.5 Consensus size: 33
41029842 GTTTACCGAT
*
41029852 GGTGCCCGA-GGCTCTCGCACATCGAAGCACCAA
1 GGTG-CCGATGGCTCCCGCACATCGAAGCACCAA
* *
41029885 GGTGCCGATGGCTCCCGTACATCGAAGCACCGA
1 GGTGCCGATGGCTCCCGCACATCGAAGCACCAA
*
41029918 GGTGCCGATGGCGCCCG
1 GGTGCCGATGGCTCCCG
41029935 AGGCTCCTGC
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
32 4 0.09
33 41 0.91
ACGTcount: A:0.19, C:0.35, G:0.33, T:0.13
Consensus pattern (33 bp):
GGTGCCGATGGCTCCCGCACATCGAAGCACCAA
Found at i:41029990 original size:118 final size:117
Alignment explanation
Indices: 41029772--41029992 Score: 284
Period size: 118 Copynumber: 1.9 Consensus size: 117
41029762 CCACCAGTAT
* * * *
41029772 CCGAGGCTCCCGCACATCATAGCACCGAGGTGCCGGTGGTGCCCGAGGCTCCCGTACGACTAAGG
1 CCGAGGCTCCCGCACATCATAGCACCGAGGTGCCGATGGCGCCCGAGGCTCCCGCACGACCAAGG
**
41029837 GCCTAGTTTACCGATGGTGCCCGAGGCTCTCGCACATCGAAGCACCAAGGTG
66 GCCTAGTTTACCGATGGAACCCGAGGCTCTCGCACATCGAAGCACCAAGGTG
* * *
41029889 CCGATGGCTCCCGTACATCGA-AGCACCGAGGTGCCGATGGCGCCCGAGGCTCCTGCATGACCAA
1 CCGA-GGCTCCCGCACATC-ATAGCACCGAGGTGCCGATGGCGCCCGAGGCTCCCGCACGACCAA
* * * *
41029953 GGGCTTAGTTTGCCGATGGAATCCGGGGCTCAT-GCACATC
64 GGGCCTAGTTTACCGATGGAACCCGAGGCTC-TCGCACATC
41029993 CTAGCACTGG
Statistics
Matches: 88, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
117 4 0.05
118 82 0.93
119 2 0.02
ACGTcount: A:0.19, C:0.33, G:0.31, T:0.17
Consensus pattern (117 bp):
CCGAGGCTCCCGCACATCATAGCACCGAGGTGCCGATGGCGCCCGAGGCTCCCGCACGACCAAGG
GCCTAGTTTACCGATGGAACCCGAGGCTCTCGCACATCGAAGCACCAAGGTG
Found at i:41030082 original size:24 final size:23
Alignment explanation
Indices: 41030055--41030127 Score: 67
Period size: 24 Copynumber: 3.0 Consensus size: 23
41030045 TTCTACCGGA
41030055 ACGGTTAGCCGGAGCACCGACGGG
1 ACGGTTAGCCGGAGCACCG-CGGG
*
41030079 ACGGTTCA-CCGGAGCACAGCTGGG
1 ACGGTT-AGCCGGAGCACCGC-GGG
* * *
41030103 ACGGATCGCCAGAGCACCGCCGGG
1 ACGGTTAGCCGGAGCACCG-CGGG
41030127 A
1 A
41030128 ACCTAACCGG
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
23 1 0.03
24 37 0.93
25 2 0.05
ACGTcount: A:0.22, C:0.32, G:0.38, T:0.08
Consensus pattern (23 bp):
ACGGTTAGCCGGAGCACCGCGGG
Found at i:41030385 original size:42 final size:42
Alignment explanation
Indices: 41030337--41030670 Score: 268
Period size: 42 Copynumber: 7.9 Consensus size: 42
41030327 ACTTTAGCTT
* * * *
41030337 TGGTGCTCAAGGCTCCCGCTCATCCATGCACCAAGGTGCCGA
1 TGGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGGTACCGA
41030379 TGGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGGTACCGA
1 TGGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGGTACCGA
* ** *
41030421 TGGTGCTCGAGTCTCCCGCACGA-CCAAGGGCCTAGGTTACCGA
1 TGGTGCTCGAGGCTCCCGCAC-ATCCAAGCACCAAGG-TACCGA
** * * * *
41030464 CAGTG-TCTGAGGCTCCCGTACAT-CATAGCACCGAGGTGCAGA
1 TGGTGCTC-GAGGCTCCCGCACATCCA-AGCACCAAGGTACCGA
* ** * *
41030506 TGGT-CTCCGAGGCTCCC-CACAACCAAGGGCCTAGTTTACCGA
1 TGGTGCT-CGAGGCTCCCGCACATCCAAGCACCAAG-GTACCGA
* * * *
41030548 TGGTG-TCCGATGCTCCCACACATCCATGCACCAAGGTACCGG
1 TGGTGCT-CGAGGCTCCCGCACATCCAAGCACCAAGGTACCGA
* * * *
41030590 TGGTGCTCGAGGCTCCCACATATCCAAGCATCAAGGTTACTGA
1 TGGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGG-TACCGA
* *
41030633 TGGTG-TCTGAGGCTCCCACACATCCGAGCCACCAAGGT
1 TGGTGCTC-GAGGCTCCCGCACATCCAAG-CACCAAGGT
41030671 CATGGAGGCT
Statistics
Matches: 233, Mismatches: 44, Indels: 29
0.76 0.14 0.09
Matches are distributed among these distances:
41 9 0.04
42 147 0.63
43 70 0.30
44 7 0.03
ACGTcount: A:0.22, C:0.33, G:0.26, T:0.19
Consensus pattern (42 bp):
TGGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGGTACCGA
Found at i:41038145 original size:35 final size:35
Alignment explanation
Indices: 41038105--41038222 Score: 155
Period size: 35 Copynumber: 3.2 Consensus size: 35
41038095 CATTCGAGCC
41038105 ACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACG
1 ACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACG
* *
41038140 ACCAAGGTGCCGATGGTGGCCGAGGCCCCCGCACG
1 ACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACG
*
41038175 ACCAAGGCCTATTTGCCGATGGTGCTCGAGGCTCCCGCACG
1 ACCAAGG------TGCCGATGGTGCCCGAGGCTCCCGCACG
41038216 ACCAAGG
1 ACCAAGG
41038223 CTTAGTTTGG
Statistics
Matches: 72, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
35 40 0.56
41 32 0.44
ACGTcount: A:0.19, C:0.36, G:0.33, T:0.13
Consensus pattern (35 bp):
ACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACG
Found at i:41038256 original size:42 final size:42
Alignment explanation
Indices: 41038147--41039279 Score: 829
Period size: 42 Copynumber: 26.9 Consensus size: 42
41038137 ACGACCAAGG
* * *
41038147 TGCCGATGGTGGCCGAGGCCCCCGCACGACCAAGGCCTA-TT
1 TGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGCCTAGGT
* * *
41038188 TGCCGATGGTGCTCGAGGCTCCCGCACGACCAAGGCTTAGTT
1 TGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGCCTAGGT
* * * * *
41038230 TGGCGATGGTGCCCGAGCCTCTCGCACGATCAAGGGCTTAGGT
1 TGCCGATGGTGCCCGAGGCTCCCGCACGACCAA-GGCCTAGGT
* * *
41038273 TGCAGATGGTGCCCGAGGTTCCCACAC-ATCCAA-GCCTCAAGG-
1 TGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGCCT--AGGT
* * * *
41038315 TGTCTATGGTGCTCAAGGCTCCCGCACGACCAAGGGCCTAGGT
1 TGCCGATGGTGCCCGAGGCTCCCGCACGACCAA-GGCCTAGGT
** ** * * * *
41038358 TGCCGACAGTATCCGAGGCTCCCGC-CCATCATAGCACCGAGG-
1 TGCCGATGGTGCCCGAGGCTCCCGCACGACCA-AG-GCCTAGGT
*
41038400 TGCCGATGGTG-CCGAGGCTCCCGCACGACCAAGGGACTA-GT
1 TGCCGATGGTGCCCGAGGCTCCCGCACGACCAA-GGCCTAGGT
* * *
41038441 TGCCGATGGTGTCCGAGGCTCCCGCAC-ATCCCAGCACCTAGG-
1 TGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAG-GCCTAGGT
* * *
41038483 -GCCGATGGTGGCCGAGGCTCCAGCACGACCAAGGGCCTA-TT
1 TGCCGATGGTGCCCGAGGCTCCCGCACGACCAA-GGCCTAGGT
* *
41038524 TGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCTTAGAT
1 TGCCGATGGTGCCCGAGGCTCCCGCACGACCAA-GGCCTAGGT
* **
41038567 TGCCGATGGTGCCCGAGCCTTTCGCACGACCAAGGGCCTAGGT
1 TGCCGATGGTGCCCGAGGCTCCCGCACGACCAA-GGCCTAGGT
* *
41038610 TACCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGT
1 TGCCGATGGTGCCCGAGGCTCCCGCACGACCAA-GGCCTAGGT
* ** * * *
41038653 TACCGACAGTGTCTGAGGCTCCCGCAC-ATCATA-GCACTGAGGT
1 TGCCGATGGTGCCCGAGGCTCCCGCACGACCA-AGGC-CT-AGGT
*
41038696 T-CCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGTT
1 TGCCGATGGTGCCCGAGGCTCCCGCACGACCAA-GGCCTAGGT
* * * * *
41038738 TGCCGATGGTGTCCGACGCTCCTGCAC-ATCCCAGCACCTAGG-
1 TGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAG-GCCTAGGT
* * *
41038780 -GCCGATGGTGGCCGAGGCTCCTGCACGACCAAGGCCTA-TT
1 TGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGCCTAGGT
* * *
41038820 TGCCGATGGTG-CCGAGGCTTCCGCACGACCAAGGCTTAGTT
1 TGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGCCTAGGT
* * * * *
41038861 TGTCGATAGTGCCCGAGCCTCTCGCACGACCAGGGCCTAGGT
1 TGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGCCTAGGT
* * * * * *
41038903 TGCCGATGGTGCGCGAGGTTCTCGCAC-ATACAAGCACCAAGG-
1 TGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAG-GCCTAGGT
* *
41038945 TGCCGATGGTGCTCGAGGCTCCCGCACAACCAAGGGCCTAGGT
1 TGCCGATGGTGCCCGAGGCTCCCGCACGACCAA-GGCCTAGGT
* ** * *
41038988 TTCCGACAGTGTCCGAGGCTCCCGCAC-ATCATA-GCACTGAGG-
1 TGCCGATGGTGCCCGAGGCTCCCGCACGACCA-AGGC-CT-AGGT
41039030 TGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGCCTAGGT
1 TGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGCCTAGGT
* * * * *
41039072 TGCCGATGGCGCCCGAGGCTCCAGCAC-ATCGAAGCACCGAGG-
1 TGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAG-GCCTAGGT
* * * *
41039114 TGCCGATGGCG-CCGAGGCTCCCGCAC-ATCGAAGCACCGAGG-
1 TGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAG-GCCTAGGT
* * * *
41039155 TGCCGATGGCT-CCCGAGGCTCCTGCATGACCAAAGGCTTAGTT
1 TGCCGATGG-TGCCCGAGGCTCCCGCACGACC-AAGGCCTAGGT
* * * * * * *
41039198 TGCCGATAGTGTCCGGGGCTCCTGCAC-ATCCTAGCACCAAGG-
1 TGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAG-GCCTAGGT
* * *
41039240 TGCCAATGGTGCCCGAGGCTCCCGCATGACAAAGGGCCTA
1 TGCCGATGGTGCCCGAGGCTCCCGCACGACCAA-GGCCTA
41039280 TGGTACCGGA
Statistics
Matches: 872, Mismatches: 160, Indels: 119
0.76 0.14 0.10
Matches are distributed among these distances:
40 29 0.03
41 194 0.22
42 368 0.42
43 275 0.32
44 6 0.01
ACGTcount: A:0.19, C:0.33, G:0.31, T:0.17
Consensus pattern (42 bp):
TGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGCCTAGGT
Found at i:41038324 original size:85 final size:85
Alignment explanation
Indices: 41038144--41039279 Score: 764
Period size: 85 Copynumber: 13.5 Consensus size: 85
41038134 CGCACGACCA
* * * *
41038144 AGGTGCCGATGGTGGCCGAGGCCCCCGCACGACCAA-GGCCTA-TTTGCCGATGGTGCTCGAGGC
1 AGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGC
* *
41038207 TCCCGCACGA-CCAAG-GCTT
66 TCCCGCAC-ATCCAAGCACCT
* * * * * * *
41038226 AGTTTGGCGATGGTGCCCGAGCCTCTCGCACGATCAAGGGCTTAGGTTGCAGATGGTGCCCGAGG
1 AG-GTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGG
* * *
41038291 TTCCCACACATCCAAGC-CTCA
65 CTCCCGCACATCCAAGCAC-CT
* * * * ** **
41038312 AGGTGTCTATGGTGCTCAAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGACAGTATCCGAGGC
1 AGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGC
* *
41038377 TCCCGCCCAT-CATAGCACCG
66 TCCCGCACATCCA-AGCACCT
* *
41038397 AGGTGCCGATGGTG-CCGAGGCTCCCGCACGACCAAGGGACTA-GTTGCCGATGGTGTCCGAGGC
1 AGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGC
*
41038460 TCCCGCACATCCCAGCACCT
66 TCCCGCACATCCAAGCACCT
* * *
41038480 AGG-GCCGATGGTGGCCGAGGCTCCAGCACGACCAAGGGCCTA-TTTGCCGATGGTGCCCGAGGC
1 AGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGC
** *
41038543 TCCCGCACGA-CCAAGGGCTT
66 TCCCGCAC-ATCCAAGCACCT
* * ** * *
41038563 AGATTGCCGATGGTGCCCGAGCCTTTCGCACGACCAAGGGCCTAGGTTACCGATGGTGCTCGAGG
1 AG-GTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGG
**
41038628 CTCCCGCACGA-CCAAGGGCCT
65 CTCCCGCAC-ATCCAAGCACCT
* ** * * *
41038649 AGGTTACCGACAGTGTCTGAGGCTCCCGCAC-ATCATA--GCACTGAGGTT-CCGATGGTGCCCG
1 AGG-TGCCGATGGTGCCCGAGGCTCCCGCACGACCA-AGGGC-CT-AGGTTGCCGATGGTGCCCG
**
41038710 AGGCTCCCGCACGA-CCAAGGGCCT
62 AGGCTCCCGCAC-ATCCAAGCACCT
* * * * * ** *
41038734 AGTTTGCCGATGGTGTCCGACGCTCCTGCAC-ATCCCAGCACCTAGG--GCCGATGGTGGCCGAG
1 AG-GTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGGCCTAGGTTGCCGATGGTGCCCGAG
* *
41038796 GCTCCTGCACGA-CCAAG-GCCT
64 GCTCCCGCAC-ATCCAAGCACCT
** * * * * * *
41038817 ATTTGCCGATGGTG-CCGAGGCTTCCGCACGACCAA-GGCTTAGTTTGTCGATAGTGCCCGAGCC
1 AGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGC
* **
41038880 TCTCGCACGA-CC-AGGGCCT
66 TCCCGCAC-ATCCAAGCACCT
* * * * ** * *
41038899 AGGTTGCCGATGGTGCGCGAGGTTCTCGCAC-ATACAAGCACCAAGG-TGCCGATGGTGCTCGAG
1 AGG-TGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGGCCTAGGTTGCCGATGGTGCCCGAG
* **
41038962 GCTCCCGCACAACCAAGGGCCT
64 GCTCCCGCACATCCAAGCACCT
* ** * *
41038984 AGGTTTCCGACAGTGTCCGAGGCTCCCGCAC-ATCATA--GCACTGAGG-TGCCGATGGTGCCCG
1 AGG-TGCCGATGGTGCCCGAGGCTCCCGCACGACCA-AGGGC-CT-AGGTTGCCGATGGTGCCCG
*
41039045 AGGCTCCCGCACGA-CCAAG-GCCT
62 AGGCTCCCGCAC-ATCCAAGCACCT
* * * ** * *
41039068 AGGTTGCCGATGGCGCCCGAGGCTCCAGCAC-ATCGAAGCACCGAGG-TGCCGATGGCG-CCGAG
1 AGG-TGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGGCCTAGGTTGCCGATGGTGCCCGAG
* *
41039130 GCTCCCGCACATCGAAGCACCG
64 GCTCCCGCACATCCAAGCACCT
* * * * * * * *
41039152 AGGTGCCGATGGCT-CCCGAGGCTCCTGCATGACCAAAGGCTTAGTTTGCCGATAGTGTCCGGGG
1 AGGTGCCGATGG-TGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGG
* * *
41039216 CTCCTGCACATCCTAGCACCA
65 CTCCCGCACATCCAAGCACCT
* * *
41039237 AGGTGCCAATGGTGCCCGAGGCTCCCGCATGACAAAGGGCCTA
1 AGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTA
41039280 TGGTACCGGA
Statistics
Matches: 843, Mismatches: 164, Indels: 91
0.77 0.15 0.08
Matches are distributed among these distances:
80 4 0.00
81 17 0.02
82 55 0.07
83 191 0.23
84 168 0.20
85 335 0.40
86 72 0.09
87 1 0.00
ACGTcount: A:0.19, C:0.33, G:0.31, T:0.17
Consensus pattern (85 bp):
AGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGC
TCCCGCACATCCAAGCACCT
Found at i:41039319 original size:24 final size:24
Alignment explanation
Indices: 41039292--41039338 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
41039282 GTACCGGAAC
41039292 GGTTCACCAGAGCACCGACGGGAT
1 GGTTCACCAGAGCACCGACGGGAT
* * *
41039316 GGTTCGCCGGAGCACCGCCGGGA
1 GGTTCACCAGAGCACCGACGGGA
41039339 CGGATCATCG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.19, C:0.32, G:0.38, T:0.11
Consensus pattern (24 bp):
GGTTCACCAGAGCACCGACGGGAT
Found at i:41045208 original size:19 final size:18
Alignment explanation
Indices: 41045164--41045209 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
41045154 ACAAAACCAC
41045164 CGTAAAACCAAGAGAGAA
1 CGTAAAACCAAGAGAGAA
* *
41045182 CTTAAAAATCAAGAGAGAAA
1 CGT-AAAACCAAGAGAG-AA
41045202 CGTAAAAC
1 CGTAAAAC
41045210 AAAGGTGAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
18 2 0.09
19 16 0.73
20 4 0.18
ACGTcount: A:0.57, C:0.15, G:0.17, T:0.11
Consensus pattern (18 bp):
CGTAAAACCAAGAGAGAA
Found at i:41045761 original size:42 final size:42
Alignment explanation
Indices: 41045712--41046045 Score: 315
Period size: 42 Copynumber: 7.9 Consensus size: 42
41045702 ACTTTAGCTT
* * *
41045712 TGGTGCTCAAGGCTCCCGCTCATCCATGCACCAAGGTGCCGA
1 TGGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGA
*
41045754 CGGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGA
1 TGGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGA
** *
41045796 TGGTGCTCGAGGCT-CCGCACGA-CCAAGGGCCTAAGTTGCCGA
1 TGGTGCTCGAGGCTCCCGCAC-ATCCAAGCACC-AAGGTGCCGA
** *
41045838 CAGTG-TCTGAGGCTCCCGCACAT-CATAGCACCGAGGTGCCGA
1 TGGTGCTC-GAGGCTCCCGCACATCCA-AGCACCAAGGTGCCGA
* ** * *
41045880 TGGT-CTCCGAGGCTCCC-CACAACCAAGGGCCTAGTTTGCCGA
1 TGGTGCT-CGAGGCTCCCGCACATCCAAGCACCAAG-GTGCCGA
* * *
41045922 TGGTG-TCCGATGCTCCCGCACATCCATGCACAAAGGTGCCGA
1 TGGTGCT-CGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGA
* * *
41045964 TGGTGCTCGAGGCTCCCGTACATCCAAGCATCAAGGTTACCGA
1 TGGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGG-TGCCGA
* *
41046007 TGGTG-TCTGAGGCTCCCACACATCCGAGCCACCAAGGTG
1 TGGTGCTC-GAGGCTCCCGCACATCCAAG-CACCAAGGTG
41046046 ATGGAGGCTC
Statistics
Matches: 236, Mismatches: 40, Indels: 31
0.77 0.13 0.10
Matches are distributed among these distances:
41 25 0.11
42 153 0.65
43 51 0.22
44 7 0.03
ACGTcount: A:0.21, C:0.34, G:0.28, T:0.18
Consensus pattern (42 bp):
TGGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGA
Found at i:41051696 original size:85 final size:84
Alignment explanation
Indices: 41051517--41052795 Score: 1005
Period size: 85 Copynumber: 15.0 Consensus size: 84
41051507 CCAGGCACCA
** * * *
41051517 AGGTGCCGATGGGTGCCCGAGGCTCCCATACATCCAAGCACCAAGTTGCCGATGGTGTCCGAGGC
1 AGGTGCCGAT-GGTGCCCGAGGCTCCCGCACATCTAAGCACCAAGGTGCCGATGGTGCCCGAGGC
** * ** *
41051582 TCCCGCACCTCCTAGCCACCG
65 TCCCGCACGACCAAG-GGCCT
* * * ** *
41051603 AGGTGCCGATGCTGCCCGAGGCTCCCGCACATCTGAGCCACCAAGGTGCTGATGGTGCCAAAGGT
1 AGGTGCCGATGGTGCCCGAGGCTCCCGCACATCTAAG-CACCAAGGTGCCGATGGTGCCCGAGGC
*
41051668 TCCCGCACGACCAAGGGCCG
65 TCCCGCACGACCAAGGGCCT
* * * * ** ***
41051688 AGGTGCCGATGGTGACCGAGGCCCCCGCACAACCAAGGGCCTATTTTGCCGATGGTGCCCGAGGC
1 AGGTGCCGATGGTGCCCGAGGCTCCCGCACATCTAAGCACC-AAGGTGCCGATGGTGCCCGAGGC
*
41051753 TCCCGCACGACCAAGGGCTT
65 TCCCGCACGACCAAGGGCCT
* * * * * ** * *
41051773 AGTTTACCGATGGTGCCCGAGCCTCTCGCACGA-CCAAGGGCCTAGGTTGCAGATGGTGCCCGAG
1 AG-GTGCCGATGGTGCCCGAGGCTCCCGCAC-ATCTAAGCACCAAGG-TGCCGATGGTGCCCGAG
* ** *
41051837 GTTCCCGCAC-ATCCAAGCACCA
63 GCTCCCGCACGA-CCAAGGGCCT
* * * ** * ** * *
41051859 AGGTGTCGATGGTGCTCGAGGCTCCCGCACGA-CCAAGGGCCTAGGTTGCCGACAGTGTCTGAGG
1 AGGTGCCGATGGTGCCCGAGGCTCCCGCAC-ATCTAAGCACCAAGG-TGCCGATGGTGCCCGAGG
* * ** *
41051923 CTCCCGC-CCATCATAGCACCG
64 CTCCCGCACGACCA-AGGGCCT
* * * * * * *
41051944 AGGTGCCGGTGGTGTCCAAGGCTCCCGCACAT-TCCAGCACCTAGGGGCCGATGGTGGCCGAGGC
1 AGGTGCCGATGGTGCCCGAGGCTCCCGCACATCT-AAGCACCAAGGTGCCGATGGTGCCCGAGGC
41052008 TCCCGCACGACCAAGGGCCT
65 TCCCGCACGACCAAGGGCCT
** ** * ** *
41052028 ATTTTGCCGATGGTGCCCGAGGCTCCCGCACGA-CTAAGGGCTTAAATTGTCGATGGTGCCCGAG
1 A-GGTGCCGATGGTGCCCGAGGCTCCCGCAC-ATCTAAGCAC-CAAGGTGCCGATGGTGCCCGAG
* *
41052092 CCTCTCGCACGACCAAGGGCCT
63 GCTCCCGCACGACCAAGGGCCT
* * * * * *
41052114 AGGTTACCGATGGTGCGCGAGG-TCCTCGCACATCCAACCACCAAGGTGACGATGGTGCCTGAGG
1 AGG-TGCCGATGGTGCCCGAGGCTCC-CGCACATCTAAGCACCAAGGTGCCGATGGTGCCCGAGG
*
41052178 CTCCCGTACGACCAAGGGCCT
64 CTCCCGCACGACCAAGGGCCT
* ** * * * *
41052199 AGGTTGACGACAGTGTCCGAGGCTCCCGCACATCTTAGCACCGAGGTACCGATGGTGCCCGAGGC
1 AGG-TGCCGATGGTGCCCGAGGCTCCCGCACATCTAAGCACCAAGGTGCCGATGGTGCCCGAGGC
41052264 TCCCGCACGACCAAGGGCCT
65 TCCCGCACGACCAAGGGCCT
* * * ** * * *
41052284 AGTTCGCCGATAGTGTCCGAGGCTCCCGCACATCCCAGCACCTAGGGGCCGATGGTGGCCGAGGC
1 AGGT-GCCGATGGTGCCCGAGGCTCCCGCACATCTAAGCACCAAGGTGCCGATGGTGCCCGAGGC
41052349 TCCCGCACGACCAAGGGCCT
65 TCCCGCACGACCAAGGGCCT
** * * * ** * * *
41052369 ATTTTGCCGATGGTGCCCGAGGCTCCAGCACGA-CCAATG-GCTTAGTTTGCCGATAGTGCCGGA
1 A-GGTGCCGATGGTGCCCGAGGCTCCCGCAC-ATCTAA-GCACCAAG-GTGCCGATGGTGCCCGA
* * **
41052432 GCCTCTCGCAAAACCAAGGGCCT
62 GGCTCCCGCACGACCAAGGGCCT
* * * * * * *
41052455 AGGTTGCCGATGGTGCGCGAGGTTCTCTCACATCCAAGCACCAAGGTGTCGATGGTGCTCGAGGC
1 AGG-TGCCGATGGTGCCCGAGGCTCCCGCACATCTAAGCACCAAGGTGCCGATGGTGCCCGAGGC
41052520 TCCCGCACGACCAAGGGCCT
65 TCCCGCACGACCAAGGGCCT
** * *
41052540 AGGTTGCCGACAGTGTCCGAGGCTCCCGCACATC-ATAGCACCGAGGTGCCGATGGTGCCCGAGG
1 AGG-TGCCGATGGTGCCCGAGGCTCCCGCACATCTA-AGCACCAAGGTGCCGATGGTGCCCGAGG
*
41052604 CTCCCGCACGATCAAGGGCCT
64 CTCCCGCACGACCAAGGGCCT
* * * * *
41052625 AGGTTGCCGATGGTGCCCGAGGCTCCTGCACATCGAAGCACCGAGGTGTCGATGGCGCCCGAGGC
1 AGG-TGCCGATGGTGCCCGAGGCTCCCGCACATCTAAGCACCAAGGTGCCGATGGTGCCCGAGGC
* * *
41052690 TCCTGCATGACCAAGGGCTT
65 TCCCGCACGACCAAGGGCCT
** * * * *
41052710 ATTTTGCCGATGGTGCCCGGGGCTCCTGCACATCCT-AGCACCGAGGTGCCGTTGGTGCCCGAGG
1 A-GGTGCCGATGGTGCCCGAGGCTCCCGCACAT-CTAAGCACCAAGGTGCCGATGGTGCCCGAGG
41052774 CTCCCGCACGACCAAGGGCCT
64 CTCCCGCACGACCAAGGGCCT
41052795 A
1 A
41052796 TGCTACCAGA
Statistics
Matches: 958, Mismatches: 204, Indels: 63
0.78 0.17 0.05
Matches are distributed among these distances:
84 33 0.03
85 684 0.71
86 240 0.25
87 1 0.00
ACGTcount: A:0.19, C:0.33, G:0.31, T:0.17
Consensus pattern (84 bp):
AGGTGCCGATGGTGCCCGAGGCTCCCGCACATCTAAGCACCAAGGTGCCGATGGTGCCCGAGGCT
CCCGCACGACCAAGGGCCT
Found at i:41052069 original size:298 final size:297
Alignment explanation
Indices: 41051520--41052795 Score: 1193
Period size: 298 Copynumber: 4.3 Consensus size: 297
41051510 GGCACCAAGG
** *
41051520 TGCCGATGGGTGCCCGAGGCTCCCATACATCCAAGCACCAAGTTGCCGATGGTG-TCCGAGGCTC
1 TGCCGAT-GGTGCCCGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGATGGTGCT-CGAGGCTC
** * ** * * * *
41051584 CCGCACCTCCTAGCCACCGAGGTGCCGA-TGCTGCCCGAGGCTCCCGCACATC-TGAGCCACCAA
64 CCGCACGACCAAG-GGCCTAGGTGCCGACAG-TGTCCGAGGCTCCCGCACATCAT-AG-CACCGA
* * ** *
41051647 GGTGCTGATGGTG-CCAAAGGTTCCCGCACGACCAAGGGCCGAGGTGCCGATGGTGACCGAGGCC
125 GGTGCCGATGGTGTCC-AAGGCTCCCGCACGACCAAGCACCGAGGTGCCGATGGTGACCGAGGCT
* * *
41051711 CCCGCACAACCAAGGGCCTATTTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCTTAGT
189 CCCGCACGACCAAGGGCCTATGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGT
*
41051776 TTACCGATGGTGCCCGAGCCTCTC-GCACGACCAAGGGCCTAGGT
254 TTGCCGATGGTGCCCGAGCCTC-CAGCACGACCAAGGGCCTAGGT
* * *
41051820 TGCAGATGGTGCCCGAGGTTCCCGCACATCCAAGCACCAAGGTGTCGATGGTGCTCGAGGCTCCC
1 TGCCGATGGTGCCCGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGATGGTGCTCGAGGCTCCC
* *
41051885 GCACGACCAAGGGCCTAGGTTGCCGACAGTGTCTGAGGCTCCCGCCCATCATAGCACCGAGGTGC
66 GCACGACCAAGGGCCTAGG-TGCCGACAGTGTCCGAGGCTCCCGCACATCATAGCACCGAGGTGC
* * * *
41051950 CGGTGGTGTCCAAGGCTCCCGCAC-ATTCC-AGCACCTAGGGGCCGATGGTGGCCGAGGCTCCCG
130 CGATGGTGTCCAAGGCTCCCGCACGA--CCAAGCACCGAGGTGCCGATGGTGACCGAGGCTCCCG
* * * ** *
41052013 CACGACCAAGGGCCTATTTTGCCGATGGTGCCCGAGGCTCCCGCACGACTAAGGGCTTAAATTGT
193 CACGACCAAGGGCCTATGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGTTTGC
41052078 CGATGGTGCCCGAGCCTCTC-GCACGACCAAGGGCCTAGGT
258 CGATGGTGCCCGAGCCTC-CAGCACGACCAAGGGCCTAGGT
* * * *
41052118 TACCGATGGTGCGCGAGG-TCCTCGCACATCCAACCACCAAGGTGACGATGGTGC-CTGAGGCTC
1 TGCCGATGGTGCCCGAGGCTCC-CGCACATCCAAGCACCAAGGTGCCGATGGTGCTC-GAGGCTC
* * *
41052181 CCGTACGACCAAGGGCCTAGGTTGACGACAGTGTCCGAGGCTCCCGCACATCTTAGCACCGAGGT
64 CCGCACGACCAAGGGCCTAGG-TGCCGACAGTGTCCGAGGCTCCCGCACATCATAGCACCGAGGT
* * * ** * * * *
41052246 ACCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGTTCGCCGATAGTGTCCGAGGCTCCC
128 GCCGATGGTGTCCAAGGCTCCCGCACGACCAAGCACCGAGGT-GCCGATGGTGACCGAGGCTCCC
* ** ** * *
41052311 GCAC-ATCCCAGCACCTA-GGGGCCGATGGTGGCCGAGGCTCCCGCACGACCAAGGGCCTATTTT
192 GCACGA-CCAAGGGCCTATGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGTTT
* * * *
41052374 GCCGATGGTGCCCGAGGCTCCAGCACGACCAATGGCTTAGTT
256 GCCGATGGTGCCCGAGCCTCCAGCACGACCAAGGGCCTAGGT
* * * * * * ** * * * *
41052416 TGCCGATAGTGCCGGAGCCTCTCGCAAAACCAAGGGCCTAGGTTGCCGATGGTGCGCGAGGTTCT
1 TGCCGATGGTGCCCGAGGCTCCCGCACATCCAAGCACCAAGG-TGCCGATGGTGCTCGAGGCTCC
* ** * * ** * ** *
41052481 CTCAC-ATCCAAGCACCAAGGTGTCGATGGTG-CTCGAGGCTCCCGCACGACCA-AGGGCCTAGG
65 CGCACGA-CCAAGGGCCTAGGTGCCGACAGTGTC-CGAGGCTCCCGCAC-ATCATAGCACCGAGG
** * * *
41052543 TTGCCGACAGTGTCCGAGGCTCCCGCAC-ATCATAGCACCGAGGTGCCGATGGTGCCCGAGGCTC
127 -TGCCGATGGTGTCCAAGGCTCCCGCACGACCA-AGCACCGAGGTGCCGATGGTGACCGAGGCTC
* * * * ** *
41052607 CCGCACGATCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCTCCTGCAC-ATCGAAGCACCGAG-
190 CCGCACGACCAAGGGCCTATGTTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGGCCTAGT
* * * * * * * **
41052670 GTGTCGATGGCGCCCGAGGCTCCTGCATGACCAAGGGCTTATTT
254 TTGCCGATGGTGCCCGAGCCTCCAGCACGACCAAGGGCCTAGGT
* * * * * *
41052714 TGCCGATGGTGCCCGGGGCTCCTGCACATCCTAGCACCGAGGTGCCGTTGGTGCCCGAGGCTCCC
1 TGCCGATGGTGCCCGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGATGGTGCTCGAGGCTCCC
41052779 GCACGACCAAGGGCCTA
66 GCACGACCAAGGGCCTA
41052796 TGCTACCAGA
Statistics
Matches: 803, Mismatches: 147, Indels: 55
0.80 0.15 0.05
Matches are distributed among these distances:
297 39 0.05
298 535 0.67
299 219 0.27
300 10 0.01
ACGTcount: A:0.19, C:0.33, G:0.31, T:0.17
Consensus pattern (297 bp):
TGCCGATGGTGCCCGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGATGGTGCTCGAGGCTCCC
GCACGACCAAGGGCCTAGGTGCCGACAGTGTCCGAGGCTCCCGCACATCATAGCACCGAGGTGCC
GATGGTGTCCAAGGCTCCCGCACGACCAAGCACCGAGGTGCCGATGGTGACCGAGGCTCCCGCAC
GACCAAGGGCCTATGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGTTTGCCGA
TGGTGCCCGAGCCTCCAGCACGACCAAGGGCCTAGGT
Found at i:41052222 original size:341 final size:338
Alignment explanation
Indices: 41051533--41052740 Score: 1297
Period size: 341 Copynumber: 3.5 Consensus size: 338
41051523 CGATGGGTGC
** * * * *
41051533 CCGAGGCTCCCATACATCCAAGCACCAAGTTGCCGATGGTGTCCGAGGCTCCCGCACC-TCCTAG
1 CCGAGGCTCCCGCACA-CCAAGCACCGAGGTGCCGATGGTGCCCGAGGCTCCCGCACCAT-CAAG
* * * *
41051597 CCACCGAGGTGCCGATGCTGCCCGAGGCTCCCGCACATCTG-AGCCACCAAGGTGCTGATGGT-G
64 -CACCGAGGTGCCGATGGTGCCCGAGGCTCCCGCACATC-GCAG-CACCTAGGGGCCGATGGTGG
* * * ** * * *
41051660 CCAAAGGTTCCCGCACGACCAAGGGCCGA-GGTGCCGATGGTGACCGAGGCCCCCGCACAACCAA
126 CC-GAGGCTCCCGCACGACCAAGGGCCTATTTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAA
* * * * * *
41051724 GGGCCTATTTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCTTAGTTTACCGATGGTGC
190 GGGCTTAATTTGCCGATGGTGCCCGAGCCTCTCGCACGACCAAGGGCCTAGGTTACCGATGGTGC
* * ** * * *
41051789 CCGA-GCCTCTCGCACGA-CCAAGGGCCTAGGTTGCAGATGGTGCCCGAGGTTCCCGCAC-ATCC
255 GCGAGGTC-CTCGCAC-ATCCAAGCACCAAGG-TGC-GATGGTGCCTGAGGCTCCCGCACGA-CC
** * * **
41051851 AAGCACCAAGG-TGTCGATGGTG-
315 AAGGGCCTAGGTTGACGACAGTGT
** * ** * *
41051873 CTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGACAGTGTCTGAGGCTCCCGC-CCATCAT
1 C-CGAGGCTCCCGCAC-ACCAAGCACCGAGG-TGCCGATGGTGCCCGAGGCTCCCGCACCATCA-
* * *
41051937 AGCACCGAGGTGCCGGTGGTGTCCAAGGCTCCCGCACATTC-CAGCACCTAGGGGCCGATGGTGG
62 AGCACCGAGGTGCCGATGGTGCCCGAGGCTCCCGCACA-TCGCAGCACCTAGGGGCCGATGGTGG
*
41052001 CCGAGGCTCCCGCACGACCAAGGGCCTATTTTGCCGATGGTGCCCGAGGCTCCCGCACGACTAAG
126 CCGAGGCTCCCGCACGACCAAGGGCCTATTTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAG
* *
41052066 GGCTTAAATTGTCGATGGTGCCCGAGCCTCTCGCACGACCAAGGGCCTAGGTTACCGATGGTGCG
191 GGCTTAATTTGCCGATGGTGCCCGAGCCTCTCGCACGACCAAGGGCCTAGGTTACCGATGGTGCG
* *
41052131 CGAGGTCCTCGCACATCCAACCACCAAGGTGACGATGGTGCCTGAGGCTCCCGTACGACCAAGGG
256 CGAGGTCCTCGCACATCCAAGCACCAAGGTG-CGATGGTGCCTGAGGCTCCCGCACGACCAAGGG
41052196 CCTAGGTTGACGACAGTGT
320 CCTAGGTTGACGACAGTGT
** * * * *
41052215 CCGAGGCTCCCGCACATCTTAGCACCGAGGTACCGATGGTGCCCGAGGCTCCCGCACGACCAAGG
1 CCGAGGCTCCCGCACA-CCAAGCACCGAGGTGCCGATGGTGCCCGAGGCTCCCGCACCATCAAGC
* * * * * *
41052280 GCCTAGTTCGCCGATAGTGTCCGAGGCTCCCGCACATCCCAGCACCTAGGGGCCGATGGTGGCCG
65 ACCGAGGT-GCCGATGGTGCCCGAGGCTCCCGCACATCGCAGCACCTAGGGGCCGATGGTGGCCG
* *
41052345 AGGCTCCCGCACGACCAAGGGCCTATTTTGCCGATGGTGCCCGAGGCTCCAGCACGACCAATGGC
129 AGGCTCCCGCACGACCAAGGGCCTATTTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGC
* * * ** *
41052410 TTAGTTTGCCGATAGTGCCGGAGCCTCTCGCAAAACCAAGGGCCTAGGTTGCCGATGGTGCGCGA
194 TTAATTTGCCGATGGTGCCCGAGCCTCTCGCACGACCAAGGGCCTAGGTTACCGATGGTGCGCGA
* *
41052475 GGTTCTCTCACATCCAAGCACCAAGGTGTCGATGGTG-CTCGAGGCTCCCGCACGACCAAGGGCC
259 GGTCCTCGCACATCCAAGCACCAAGGTG-CGATGGTGCCT-GAGGCTCCCGCACGACCAAGGGCC
*
41052539 TAGGTTGCCGACAGTGT
322 TAGGTTGACGACAGTGT
* * *
41052556 CCGAGGCTCCCGCACATCATAGCACCGAGGTGCCGATGGTGCCCGAGGCTCCCGCACGATCAAGG
1 CCGAGGCTCCCGCACACCA-AGCACCGAGGTGCCGATGGTGCCCGAGGCTCCCGCACCATCAAGC
* * * * * * * * *
41052621 GCCTAGGTTGCCGATGGTGCCCGAGGCTCCTGCACATCGAAGCACCGAGGTGTCGATGGCGCCCG
65 ACCGAGG-TGCCGATGGTGCCCGAGGCTCCCGCACATCGCAGCACCTAGGGGCCGATGGTGGCCG
* * * * *
41052686 AGGCTCCTGCATGACCAAGGGCTTATTTTGCCGATGGTGCCCGGGGCTCCTGCAC
129 AGGCTCCCGCACGACCAAGGGCCTATTTTGCCGATGGTGCCCGAGGCTCCCGCAC
41052741 ATCCTAGCAC
Statistics
Matches: 740, Mismatches: 106, Indels: 43
0.83 0.12 0.05
Matches are distributed among these distances:
340 104 0.14
341 604 0.82
342 32 0.04
ACGTcount: A:0.19, C:0.33, G:0.31, T:0.17
Consensus pattern (338 bp):
CCGAGGCTCCCGCACACCAAGCACCGAGGTGCCGATGGTGCCCGAGGCTCCCGCACCATCAAGCA
CCGAGGTGCCGATGGTGCCCGAGGCTCCCGCACATCGCAGCACCTAGGGGCCGATGGTGGCCGAG
GCTCCCGCACGACCAAGGGCCTATTTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCTT
AATTTGCCGATGGTGCCCGAGCCTCTCGCACGACCAAGGGCCTAGGTTACCGATGGTGCGCGAGG
TCCTCGCACATCCAAGCACCAAGGTGCGATGGTGCCTGAGGCTCCCGCACGACCAAGGGCCTAGG
TTGACGACAGTGT
Found at i:41052691 original size:42 final size:41
Alignment explanation
Indices: 41051497--41052782 Score: 625
Period size: 43 Copynumber: 30.2 Consensus size: 41
41051487 TCTTCTTTAG
* *
41051497 CCCGCACATCCCAGGCACCAAGGTGCCGATGGGTGCCCGAGGCT
1 CCCGCACAT--CAAGCACCGAGGTGCCGAT-GGTGCCCGAGGCT
** * * *
41051541 CCCATACATCCAAGCACCAAGTTGCCGATGGTGTCCGAGGCT
1 CCCGCACAT-CAAGCACCGAGGTGCCGATGGTGCCCGAGGCT
* * *
41051583 CCCGCACCTCCTAGCCACCGAGGTGCCGATGCTGCCCGAGGCT
1 CCCGCACAT-CAAG-CACCGAGGTGCCGATGGTGCCCGAGGCT
* * * ** *
41051626 CCCGCACATCTGAGCCACCAAGGTGCTGATGGTGCCAAAGGTT
1 CCCGCACATC-AAG-CACCGAGGTGCCGATGGTGCCCGAGGCT
* ** * *
41051669 CCCGCACGACCAAGGGCCGAGGTGCCGATGGTGACCGAGGCC
1 CCCGCAC-ATCAAGCACCGAGGTGCCGATGGTGCCCGAGGCT
* ** * **
41051711 CCCGCACAACCAAGGGCCTATTTTGCCGATGGTGCCCGAGGCT
1 CCCGCAC-ATCAAGCACCGA-GGTGCCGATGGTGCCCGAGGCT
* ** ** * * *
41051754 CCCGCACGACCAAGGGCTTAGTTTACCGATGGTGCCCGAGCCT
1 CCCGCAC-ATCAAGCACCGAG-GTGCCGATGGTGCCCGAGGCT
* * ** * * *
41051797 CTCGCACGACCAAGGGCCTAGGTTGCAGATGGTGCCCGAGGTT
1 CCCGCAC-ATCAAGCACCGAGG-TGCCGATGGTGCCCGAGGCT
* * *
41051840 CCCGCACATCCAAGCACCAAGGTGTCGATGGTGCTCGAGGCT
1 CCCGCACAT-CAAGCACCGAGGTGCCGATGGTGCCCGAGGCT
* ** * ** * *
41051882 CCCGCACGACCAAGGGCCTAGGTTGCCGACAGTGTCTGAGGCT
1 CCCGCAC-ATCAAGCACCGAGG-TGCCGATGGTGCCCGAGGCT
* * * *
41051925 CCCGCCCATCATAGCACCGAGGTGCCGGTGGTGTCCAAGGCT
1 CCCGCACATCA-AGCACCGAGGTGCCGATGGTGCCCGAGGCT
* * * *
41051967 CCCGCACATTCCAGCACCTAGGGGCCGATGGTGGCCGAGGCT
1 CCCGCACA-TCAAGCACCGAGGTGCCGATGGTGCCCGAGGCT
* ** * **
41052009 CCCGCACGACCAAGGGCCTATTTTGCCGATGGTGCCCGAGGCT
1 CCCGCAC-ATCAAGCACCGA-GGTGCCGATGGTGCCCGAGGCT
** ** ** * *
41052052 CCCGCACGA-CTAAGGGCTTAAATTGTCGATGGTGCCCGAGCCT
1 CCCGCAC-ATC-AAGCAC-CGAGGTGCCGATGGTGCCCGAGGCT
* * ** * * *
41052095 CTCGCACGACCAAGGGCCTAGGTTACCGATGGTGCGCGAGG-T
1 CCCGCAC-ATCAAGCACCGAGG-TGCCGATGGTGCCCGAGGCT
* * * *
41052137 CCTCGCACATCCAACCACCAAGGTGACGATGGTGCCTGAGGCT
1 CC-CGCACAT-CAAGCACCGAGGTGCCGATGGTGCCCGAGGCT
* * ** * * ** *
41052180 CCCGTACGACCAAGGGCCTAGGTTGACGACAGTGTCCGAGGCT
1 CCCGCAC-ATCAAGCACCGAGG-TGCCGATGGTGCCCGAGGCT
* *
41052223 CCCGCACATCTTAGCACCGAGGTACCGATGGTGCCCGAGGCT
1 CCCGCACATC-AAGCACCGAGGTGCCGATGGTGCCCGAGGCT
* ** * * * *
41052265 CCCGCACGACCAAGGGCCTAGTTCGCCGATAGTGTCCGAGGCT
1 CCCGCAC-ATCAAGCACCGAGGT-GCCGATGGTGCCCGAGGCT
* * * *
41052308 CCCGCACATCCCAGCACCTAGGGGCCGATGGTGGCCGAGGCT
1 CCCGCACAT-CAAGCACCGAGGTGCCGATGGTGCCCGAGGCT
* ** * **
41052350 CCCGCACGACCAAGGGCCTATTTTGCCGATGGTGCCCGAGGCT
1 CCCGCAC-ATCAAGCACCGA-GGTGCCGATGGTGCCCGAGGCT
* * * ** * * * *
41052393 CCAGCACGACCAATG-GCTTAGTTTGCCGATAGTGCCGGAGCCT
1 CCCGCAC-ATCAA-GCACCGAG-GTGCCGATGGTGCCCGAGGCT
* * * ** * * *
41052436 CTCGCAAAACCAAGGGCCTAGGTTGCCGATGGTGCGCGAGGTT
1 CCCGC-ACATCAAGCACCGAGG-TGCCGATGGTGCCCGAGGCT
* * * * *
41052479 CTCTCACATCCAAGCACCAAGGTGTCGATGGTGCTCGAGGCT
1 CCCGCACAT-CAAGCACCGAGGTGCCGATGGTGCCCGAGGCT
* ** * ** *
41052521 CCCGCACGACCAAGGGCCTAGGTTGCCGACAGTGTCCGAGGCT
1 CCCGCAC-ATCAAGCACCGAGG-TGCCGATGGTGCCCGAGGCT
41052564 CCCGCACATCATAGCACCGAGGTGCCGATGGTGCCCGAGGCT
1 CCCGCACATCA-AGCACCGAGGTGCCGATGGTGCCCGAGGCT
** *
41052606 CCCGCACGATCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCT
1 CCCGCAC-ATCAAGCACCGAGG-TGCCGATGGTGCCCGAGGCT
* * *
41052649 CCTGCACATCGAAGCACCGAGGTGTCGATGGCGCCCGAGGCT
1 CCCGCACATC-AAGCACCGAGGTGCCGATGGTGCCCGAGGCT
* * * ** ** ** *
41052691 CCTGCATGACCAAGGGCTTATTTTGCCGATGGTGCCCGGGGCT
1 CCCGCA-CATCAAGCACCGA-GGTGCCGATGGTGCCCGAGGCT
* * *
41052734 CCTGCACATCCTAGCACCGAGGTGCCGTTGGTGCCCGAGGCT
1 CCCGCACAT-CAAGCACCGAGGTGCCGATGGTGCCCGAGGCT
41052776 CCCGCAC
1 CCCGCAC
41052783 GACCAAGGGC
Statistics
Matches: 960, Mismatches: 239, Indels: 88
0.75 0.19 0.07
Matches are distributed among these distances:
42 376 0.39
43 571 0.59
44 13 0.01
ACGTcount: A:0.19, C:0.34, G:0.31, T:0.17
Consensus pattern (41 bp):
CCCGCACATCAAGCACCGAGGTGCCGATGGTGCCCGAGGCT
Found at i:41052873 original size:24 final size:24
Alignment explanation
Indices: 41052811--41052873 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
41052801 CCAGAACGGT
* * *
41052811 TCACCAGAGCACCGACGGGAAAGT
1 TCACCGGAGCACCGCCGGGAAAGA
* *
41052835 TCGCCGGAGCACCGCCGGGACAGA
1 TCACCGGAGCACCGCCGGGAAAGA
41052859 TCACCGGAGCACCGC
1 TCACCGGAGCACCGC
41052874 TGGGGACCTA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.25, C:0.37, G:0.32, T:0.06
Consensus pattern (24 bp):
TCACCGGAGCACCGCCGGGAAAGA
Found at i:41053134 original size:42 final size:42
Alignment explanation
Indices: 41053085--41053377 Score: 233
Period size: 42 Copynumber: 6.9 Consensus size: 42
41053075 AACTTAGCTT
* * *
41053085 TGGTGCTCAAGGCTCCCGCTCATCCATGCACCAAGGTGCCGA
1 TGGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGA
* ** *
41053127 TGGTGCTCAAGGCTCCCGCACGA-CCAAGGGCCTAGGTTGCCGAA
1 TGGTGCTCGAGGCTCCCGCAC-ATCCAAGCACCAAGG-TGCCG-A
* *
41053171 T-GTG-TCCGAGGCTCCCACACAT-CATAGCACCGAGGTGCCGA
1 TGGTGCT-CGAGGCTCCCGCACATCCA-AGCACCAAGGTGCCGA
* ** ** *
41053212 TGGT-CTCCGAGGCTCCC-CACAACCAAGGGCTTAGTTTGCCGA
1 TGGTGCT-CGAGGCTCCCGCACATCCAAGCACCAAG-GTGCCGA
* * *
41053254 TGGTG-TCTGATGCTCTCGCACATCCATGCACCAAGGTGCCGA
1 TGGTGCTC-GAGGCTCCCGCACATCCAAGCACCAAGGTGCCGA
* *
41053296 TGGTGCTCGAGGCTCCCGCACATCCAAGCATCAAGGTTACCGA
1 TGGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGG-TGCCGA
* *
41053339 TGGTG-TCTGAGGCTCCCACACATCCGAGCCACCAAGGTG
1 TGGTGCTC-GAGGCTCCCGCACATCCAAG-CACCAAGGTG
41053378 ATGGAGGCTC
Statistics
Matches: 200, Mismatches: 34, Indels: 33
0.75 0.13 0.12
Matches are distributed among these distances:
41 12 0.06
42 109 0.55
43 70 0.35
44 9 0.05
ACGTcount: A:0.20, C:0.33, G:0.27, T:0.19
Consensus pattern (42 bp):
TGGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGA
Found at i:41053201 original size:85 final size:84
Alignment explanation
Indices: 41053094--41053377 Score: 326
Period size: 85 Copynumber: 3.3 Consensus size: 84
41053084 TTGGTGCTCA
* * *
41053094 AGGCTCCCGCTCATCCATGCACCAAGGTGCCGATGGTGCTCAAGGCTCCCGCACGACCAAGGGCC
1 AGGCTCCCACACATCCATGCACCAAGGTGCCGATGGTGCTCGAGGCTCCCGCAC-ACCAAGGGCC
*
41053159 TAGGTTGCCGAAT-GTGTCCG
65 TAGGTTGCCG-ATGGTGTCTG
*
41053179 AGGCTCCCACACAT-CATAGCACCGAGGTGCCGATGGT-CTCCGAGGCTCCC-CACAACCAAGGG
1 AGGCTCCCACACATCCAT-GCACCAAGGTGCCGATGGTGCT-CGAGGCTCCCGCAC-ACCAAGGG
* *
41053241 CTTAGTTTGCCGATGGTGTCTG
63 CCTAGGTTGCCGATGGTGTCTG
* * * ***
41053263 ATGCTCTCGCACATCCATGCACCAAGGTGCCGATGGTGCTCGAGGCTCCCGCACATCCAAGCATC
1 AGGCTCCCACACATCCATGCACCAAGGTGCCGATGGTGCTCGAGGCTCCCGCACA-CCAAGGGCC
* *
41053328 AAGGTTACCGATGGTGTCTG
65 TAGGTTGCCGATGGTGTCTG
41053348 AGGCTCCCACACATCCGA-GCCACCAAGGTG
1 AGGCTCCCACACATCC-ATG-CACCAAGGTG
41053378 ATGGAGGCTC
Statistics
Matches: 168, Mismatches: 22, Indels: 17
0.81 0.11 0.08
Matches are distributed among these distances:
83 2 0.01
84 72 0.43
85 83 0.49
86 11 0.07
ACGTcount: A:0.21, C:0.33, G:0.27, T:0.19
Consensus pattern (84 bp):
AGGCTCCCACACATCCATGCACCAAGGTGCCGATGGTGCTCGAGGCTCCCGCACACCAAGGGCCT
AGGTTGCCGATGGTGTCTG
Found at i:41058145 original size:21 final size:22
Alignment explanation
Indices: 41058119--41058160 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
41058109 AAGGGACTTT
*
41058119 ATGATGATGTTTGAC-TATGAG
1 ATGATGATGTATGACTTATGAG
41058140 ATGATGATGTATGACTTATGA
1 ATGATGATGTATGACTTATGA
41058161 TTGTGAAGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.31, C:0.05, G:0.26, T:0.38
Consensus pattern (22 bp):
ATGATGATGTATGACTTATGAG
Found at i:41060436 original size:6 final size:6
Alignment explanation
Indices: 41060414--41060455 Score: 50
Period size: 6 Copynumber: 6.8 Consensus size: 6
41060404 TACTATATTA
*
41060414 ATTTTT AATTATTT ATTTTT ATTTCT ATTTTT A-TTTT ATTTT
1 ATTTTT -ATT-TTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTT
41060456 AGGTCGTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
5 5 0.16
6 17 0.55
7 6 0.19
8 3 0.10
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.76
Consensus pattern (6 bp):
ATTTTT
Found at i:41066901 original size:19 final size:19
Alignment explanation
Indices: 41066877--41066913 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
41066867 AATTACGGGC
*
41066877 TTTTGGAATTTTAATTTTT
1 TTTTGGAACTTTAATTTTT
*
41066896 TTTTGGGACTTTAATTTT
1 TTTTGGAACTTTAATTTT
41066914 GATTTTGGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.19, C:0.03, G:0.14, T:0.65
Consensus pattern (19 bp):
TTTTGGAACTTTAATTTTT
Found at i:41068179 original size:19 final size:19
Alignment explanation
Indices: 41068155--41068192 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
41068145 ATGCTTGATA
41068155 ATAATTCAATTTAATTATG
1 ATAATTCAATTTAATTATG
41068174 ATAATTCAATTTAATTATG
1 ATAATTCAATTTAATTATG
41068193 TGTGTGATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.47
Consensus pattern (19 bp):
ATAATTCAATTTAATTATG
Found at i:41074040 original size:14 final size:14
Alignment explanation
Indices: 41074021--41074050 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
41074011 TAAGTACTAA
*
41074021 AAGTAACATATTTT
1 AAGTAAAATATTTT
41074035 AAGTAAAATATTTT
1 AAGTAAAATATTTT
41074049 AA
1 AA
41074051 CCTCATTCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.03, G:0.07, T:0.40
Consensus pattern (14 bp):
AAGTAAAATATTTT
Found at i:41075674 original size:36 final size:36
Alignment explanation
Indices: 41075626--41075706 Score: 99
Period size: 36 Copynumber: 2.2 Consensus size: 36
41075616 GTAAGTTGCA
* * *
41075626 CCCAACGCTAGTCGGTAAAACTGACAAATAGATGTG
1 CCCAACACTAGTCGGTAAAACCGAAAAATAGATGTG
* * * *
41075662 CCCAGCACTAGTCGGTATAACCGAAAAATGGGTGTG
1 CCCAACACTAGTCGGTAAAACCGAAAAATAGATGTG
41075698 CCCAACACT
1 CCCAACACT
41075707 CCCCAACACG
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.33, C:0.26, G:0.22, T:0.19
Consensus pattern (36 bp):
CCCAACACTAGTCGGTAAAACCGAAAAATAGATGTG
Found at i:41084449 original size:101 final size:102
Alignment explanation
Indices: 41084334--41084518 Score: 311
Period size: 101 Copynumber: 1.8 Consensus size: 102
41084324 AAAGTGATGG
*
41084334 TCACGTGTGTAGTACTATGTGCAAGCTACTACGTGTACCAGAATGAT-A-GGTCGCATGTGTAGT
1 TCACGTGTGTAGTACTATGTGCAAGCTACTACGTGTACC-GAATGATAATGGTCACATGTGTAGT
41084397 ACTATGTGCAGGCTACTATGCGTACCGGATAGTTTAGA
65 ACTATGTGCAGGCTACTATGCGTACCGGATAGTTTAGA
* * *
41084435 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGAATGGTAATGGTCACATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGCAAGCTACTACGTGTACCGAATGATAATGGTCACATGTGTAGTA
41084500 CTATGTGCAGGCTACTATG
66 CTATGTGCAGGCTACTATG
41084519 TGAACTGAAC
Statistics
Matches: 78, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
100 6 0.08
101 38 0.49
102 34 0.44
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAAGCTACTACGTGTACCGAATGATAATGGTCACATGTGTAGTA
CTATGTGCAGGCTACTATGCGTACCGGATAGTTTAGA
Found at i:41084456 original size:51 final size:51
Alignment explanation
Indices: 41084332--41084516 Score: 214
Period size: 51 Copynumber: 3.6 Consensus size: 51
41084322 TGAAAGTGAT
* * * *
41084332 GGTCACGTGTGTAGTACTATGTGCAAGCTACTACGTGTACCAGA-A-TGATA
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGT-TTA
* * *
41084382 GGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTTTA
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTTTA
* * * * * *
41084433 GATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGAAT-GGTAA
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTTTA
41084483 TGGTCACATGTGTAGTACTATGTGCAGGCTACTA
1 -GGTCACATGTGTAGTACTATGTGCAGGCTACTA
41084517 TGTGAACTGA
Statistics
Matches: 114, Mismatches: 18, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
50 41 0.36
51 72 0.63
52 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (51 bp):
GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTTTA
Found at i:41084520 original size:26 final size:26
Alignment explanation
Indices: 41084440--41084520 Score: 64
Period size: 26 Copynumber: 3.2 Consensus size: 26
41084430 TTAGATCACG
41084440 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
* * *
41084466 CGTGTA-T-CGAATG-GTAATGG-TCAC-A
1 TGTGTAGTAC-TATGTG-CA-GGCT-ACTA
41084491 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
41084517 TGTG
1 TGTG
41084521 AACTGAACAT
Statistics
Matches: 40, Mismatches: 6, Indels: 18
0.62 0.09 0.28
Matches are distributed among these distances:
24 2 0.05
25 16 0.40
26 20 0.50
27 2 0.05
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.33
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAGGCTACTA
Found at i:41084613 original size:45 final size:45
Alignment explanation
Indices: 41084527--41084615 Score: 124
Period size: 45 Copynumber: 2.0 Consensus size: 45
41084517 TGTGAACTGA
* * * * *
41084527 ACATCATTGATTAGTAAAGTGGTTGCTATGTGTTTATTCCACCGG
1 ACATCATTGATTAATAAAGTGGTTGCTACGTGCTGAATCCACCGG
*
41084572 ACATCATTGATTAATAAGGTGGTTGCTACGTGCTGAATCCACCG
1 ACATCATTGATTAATAAAGTGGTTGCTACGTGCTGAATCCACCG
41084616 AGTATCTGTT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (45 bp):
ACATCATTGATTAATAAAGTGGTTGCTACGTGCTGAATCCACCGG
Found at i:41086101 original size:13 final size:13
Alignment explanation
Indices: 41086080--41086115 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
41086070 TGAAATGTAT
*
41086080 ATTGGATTGAGAA
1 ATTGAATTGAGAA
41086093 ATTGAATTGAGAA
1 ATTGAATTGAGAA
41086106 ATTGAATTGA
1 ATTGAATTGA
41086116 ATTGTGAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.25, T:0.33
Consensus pattern (13 bp):
ATTGAATTGAGAA
Found at i:41098550 original size:27 final size:27
Alignment explanation
Indices: 41098514--41098567 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
41098504 GAAGTACAAA
*
41098514 AAAAAAAGTAAATAACAGGGAATCCAC
1 AAAAAAAGTAAATAACAGAGAATCCAC
41098541 AAAAAAAGTAAATAACAGAGAATCCAC
1 AAAAAAAGTAAATAACAGAGAATCCAC
41098568 CTAGTTGCAT
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:0.61, C:0.15, G:0.13, T:0.11
Consensus pattern (27 bp):
AAAAAAAGTAAATAACAGAGAATCCAC
Found at i:41102389 original size:2 final size:2
Alignment explanation
Indices: 41102384--41102438 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
41102374 TTTTGTTGTT
41102384 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
41102426 TC TC TC TC TC TC T
1 TC TC TC TC TC TC T
41102439 AAGAATCCGA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:41103432 original size:65 final size:65
Alignment explanation
Indices: 41103309--41103432 Score: 162
Period size: 65 Copynumber: 1.9 Consensus size: 65
41103299 ATAATGCATT
* * *
41103309 ATGTCAAATTTAGCCCTTAACGTTTACATATTTTTTCAACTTGGCTCTTATTCTTTTTTGGTATA
1 ATGTCAAATTTAGCCCTTAACGTTGACATATTTTTTCAACTTAGCTCTTATTCATTTTTGGTATA
* * *
41103374 ATGTCAAATTTTA-CCCTTAATGTTGACATCTTTTTATCAATTTAGCTCTTATT-ATTTTT
1 ATGTCAAA-TTTAGCCCTTAACGTTGACATATTTTT-TCAACTTAGCTCTTATTCATTTTT
41103433 CAAAATTACT
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
65 32 0.63
66 19 0.37
ACGTcount: A:0.24, C:0.16, G:0.09, T:0.51
Consensus pattern (65 bp):
ATGTCAAATTTAGCCCTTAACGTTGACATATTTTTTCAACTTAGCTCTTATTCATTTTTGGTATA
Found at i:41103989 original size:20 final size:22
Alignment explanation
Indices: 41103964--41104008 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 22
41103954 TTATTTTAGA
*
41103964 ATTTTTTTA-ACTTTTTAT-AT
1 ATTTTTTTAGAATTTTTATAAT
41103984 A-TTTTTTAGAATTTTTATAAT
1 ATTTTTTTAGAATTTTTATAAT
41104005 ATTT
1 ATTT
41104009 AAAAATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 7 0.33
20 9 0.43
21 3 0.14
22 2 0.10
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (22 bp):
ATTTTTTTAGAATTTTTATAAT
Found at i:41105844 original size:16 final size:16
Alignment explanation
Indices: 41105815--41105850 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
41105805 AAAGTATAAT
*
41105815 TTTATCATTATATTAA
1 TTTATAATTATATTAA
*
41105831 TTTATAATTTTATTAA
1 TTTATAATTATATTAA
41105847 TTTA
1 TTTA
41105851 GAGGAGACTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTATAATTATATTAA
Found at i:41114965 original size:100 final size:100
Alignment explanation
Indices: 41114792--41115854 Score: 1742
Period size: 100 Copynumber: 10.7 Consensus size: 100
41114782 ACTATAGATT
41114792 TTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATAT
1 TTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATAT
** *
41114857 TGCAATTAAAAAGATTGAAGCCATGACGGTGGATC
66 TGCAATTAAAAAGATTGAAGCCACAACGGCGGATC
*
41114892 TTACTTCCTTAGCAGTGCAATGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATAT
1 TTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATAT
41114957 TGCAATTAAAAAGATTGAAGCCACAACGGCGGATC
66 TGCAATTAAAAAGATTGAAGCCACAACGGCGGATC
* *
41114992 TTACTTCCTTAGCAGTGCAGTAGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGAAAT
1 TTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATAT
* *
41115057 TGCAATTAAAAAGATTGAAGCCATAACGGCAGATC
66 TGCAATTAAAAAGATTGAAGCCACAACGGCGGATC
* *
41115092 TTACTTCCTTA--A---CAATGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTTCCTGATAT
1 TTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATAT
* *
41115152 TGCAATTAAAAAGATTGAAGCCACGACGGCAGATC
66 TGCAATTAAAAAGATTGAAGCCACAACGGCGGATC
*
41115187 TTACTTCTTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATAT
1 TTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATAT
* *
41115252 TGCAATTAAAAAGGTTGAAGCCACAATGGCGGATC
66 TGCAATTAAAAAGATTGAAGCCACAACGGCGGATC
* *
41115287 TTACTTCCTTAGCAGTGCAATGGAACAGATTGAAGCTACGACGGTGGATCTGGTTTCCCTGATAT
1 TTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATAT
**
41115352 TGCAATTAAAAAGATTGAAGCCACAACGGTAGATC
66 TGCAATTAAAAAGATTGAAGCCACAACGGCGGATC
* *
41115387 TTACTTCCTTAGTAGTGCAGTGGAACAGATTGAAGCCACGACGGCGGATCTGGTTTCCCTGATAT
1 TTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATAT
*
41115452 TGCAATTAAAAAGATTGAAGCCACGAA-GGTGGATC
66 TGCAATTAAAAAGATTGAAGCCAC-AACGGCGGATC
* *
41115487 TTACTTTCTTAGCAGTGCAGTGAAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATAT
1 TTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATAT
* *
41115552 TGCAATTAAAAAGATTGAAACCACAACGGTGGATC
66 TGCAATTAAAAAGATTGAAGCCACAACGGCGGATC
* * * *
41115587 TTACTTCCTTAACAGTGCAGTGGAATAGATTGAAGCTACGAAGGTGGATCTGGTTTCCCTGATAT
1 TTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATAT
41115652 TGCAATTAAAAAGATTGAAGCCACAACGGCGGATC
66 TGCAATTAAAAAGATTGAAGCCACAACGGCGGATC
* *
41115687 TTACTTCCTTAGCAGTGCAGTGGAACAAATTGAAGCTACGACGGTGGATCTGGTTTCCCTGATAT
1 TTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATAT
*
41115752 TGCAATTAAAAAGAATTGAAGCCACAACGGTGGATC
66 TGCAATTAAAAAG-ATTGAAGCCACAACGGCGGATC
* * *
41115788 TTACTTCCTTAGCGGTGCAGTGGAACAGATTGAAGCTATGACGGCGGATCTGGTTTCCCTGACAT
1 TTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATAT
41115853 TG
66 TG
41115855 TAGTTGAACA
Statistics
Matches: 898, Mismatches: 57, Indels: 15
0.93 0.06 0.02
Matches are distributed among these distances:
95 87 0.10
97 1 0.00
98 1 0.00
99 2 0.00
100 722 0.80
101 85 0.09
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (100 bp):
TTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATAT
TGCAATTAAAAAGATTGAAGCCACAACGGCGGATC
Found at i:41115864 original size:50 final size:50
Alignment explanation
Indices: 41114814--41115864 Score: 647
Period size: 50 Copynumber: 21.1 Consensus size: 50
41114804 CAGTGCAGTG
* *
41114814 GAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGCAATT
1 GAACAGATTGAAGCCACGACGGCGGATCTGGTTTCCCTGACATTGCAATT
* * * * *** * * *
41114864 AAAAAGATTGAAGCCATGACGGTGGATCTTACTT-CCTTAGCAGTGCAATG
1 GAACAGATTGAAGCCACGACGGCGGATCTGGTTTCCCTGA-CATTGCAATT
* *
41114914 GAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGCAATT
1 GAACAGATTGAAGCCACGACGGCGGATCTGGTTTCCCTGACATTGCAATT
* * * *** * * * *
41114964 AAAAAGATTGAAGCCACAACGGCGGATCTTACTT-CCTTAGCAGTGCAGTA
1 GAACAGATTGAAGCCACGACGGCGGATCTGGTTTCCCTGA-CATTGCAATT
* *
41115014 GAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGAAATTGCAATT
1 GAACAGATTGAAGCCACGACGGCGGATCTGGTTTCCCTGACATTGCAATT
* * ** * *** * *
41115064 AAAAAGATTGAAGCCATAACGGCAGATCTTACTT-CCTTA-A---CAATG
1 GAACAGATTGAAGCCACGACGGCGGATCTGGTTTCCCTGACATTGCAATT
* * *
41115109 GAACAGATTGAAGCTACGACGGCGGATCTGGTTTTCCTGATATTGCAATT
1 GAACAGATTGAAGCCACGACGGCGGATCTGGTTTCCCTGACATTGCAATT
* * * *** * * * * *
41115159 AAAAAGATTGAAGCCACGACGGCAGATCTTACTT-CTTTAGCAGTGCAGTG
1 GAACAGATTGAAGCCACGACGGCGGATCTGGTTTCCCTGA-CATTGCAATT
* *
41115209 GAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGCAATT
1 GAACAGATTGAAGCCACGACGGCGGATCTGGTTTCCCTGACATTGCAATT
* * * * * *** * * *
41115259 AAAAAGGTTGAAGCCACAATGGCGGATCTTACTT-CCTTAGCAGTGCAATG
1 GAACAGATTGAAGCCACGACGGCGGATCTGGTTTCCCTGA-CATTGCAATT
* * *
41115309 GAACAGATTGAAGCTACGACGGTGGATCTGGTTTCCCTGATATTGCAATT
1 GAACAGATTGAAGCCACGACGGCGGATCTGGTTTCCCTGACATTGCAATT
* * * ** *** * * * * *
41115359 AAAAAGATTGAAGCCACAACGGTAGATCTTACTT-CCTTAGTAGTGCAGTG
1 GAACAGATTGAAGCCACGACGGCGGATCTGGTTTCCCTGA-CATTGCAATT
*
41115409 GAACAGATTGAAGCCACGACGGCGGATCTGGTTTCCCTGATATTGCAATT
1 GAACAGATTGAAGCCACGACGGCGGATCTGGTTTCCCTGACATTGCAATT
* * * * ** * * *
41115459 AAAAAGATTGAAGCCACGAAGGTGGATCTTACTTT--CTTAGCAGTGC-AGT
1 GAACAGATTGAAGCCACGACGGCGGATC-TGGTTTCCCTGA-CATTGCAATT
* *
41115508 GAAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGCAATT
1 G-AACAGATTGAAGCCACGACGGCGGATCTGGTTTCCCTGACATTGCAATT
* * * * * *** * * * * *
41115559 AAAAAGATTGAAACCACAACGGTGGATCTTACTTCCTTAACAGTGCAGTG
1 GAACAGATTGAAGCCACGACGGCGGATCTGGTTTCCCTGACATTGCAATT
* * * * *
41115609 GAATAGATTGAAGCTACGAAGGTGGATCTGGTTTCCCTGATATTGCAATT
1 GAACAGATTGAAGCCACGACGGCGGATCTGGTTTCCCTGACATTGCAATT
* * * *** * * * *
41115659 AAAAAGATTGAAGCCACAACGGCGGATCTTACTT-CCTTAGCAGTGCAGTG
1 GAACAGATTGAAGCCACGACGGCGGATCTGGTTTCCCTGA-CATTGCAATT
* * * *
41115709 GAACAAATTGAAGCTACGACGGTGGATCTGGTTTCCCTGATATTGCAATT
1 GAACAGATTGAAGCCACGACGGCGGATCTGGTTTCCCTGACATTGCAATT
* * * * *** * ** * *
41115759 AAAAAGAATTGAAGCCACAACGGTGGATCTTACTT-CCTTAGCGGTGCAGTG
1 GAACAG-ATTGAAGCCACGACGGCGGATCTGGTTTCCCTGA-CATTGCAATT
* * * *
41115810 GAACAGATTGAAGCTATGACGGCGGATCTGGTTTCCCTGACATTGTAGTT
1 GAACAGATTGAAGCCACGACGGCGGATCTGGTTTCCCTGACATTGCAATT
41115860 GAACA
1 GAACA
41115865 AATTCAAGAT
Statistics
Matches: 721, Mismatches: 254, Indels: 52
0.70 0.25 0.05
Matches are distributed among these distances:
45 29 0.04
46 4 0.01
47 1 0.00
48 1 0.00
49 36 0.05
50 582 0.81
51 68 0.09
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.26
Consensus pattern (50 bp):
GAACAGATTGAAGCCACGACGGCGGATCTGGTTTCCCTGACATTGCAATT
Found at i:41116108 original size:132 final size:132
Alignment explanation
Indices: 41115871--41116375 Score: 780
Period size: 132 Copynumber: 3.8 Consensus size: 132
41115861 AACAAATTCA
*
41115871 AGATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCAAAGATGGCAGATTTTACCTCCC
1 AGATTACAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTACCTCCC
* * *
41115936 TGTGGTTACAGCGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGCAATAGATC
66 TGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATC
41116001 AC
131 AC
* * *
41116003 AGATTTCAGATCTTGTCTCCCTAAGCAGAAGTGGAGCAGATCAAAGATGGCGGATTTTACCTCCC
1 AGATTACAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTACCTCCC
*
41116068 TGAGGTTACAGTGGAGTACATTGAAGCCAG-AATTTCTATCTCCCTGGGCAGCAATGGAATAGAT
66 TGAGGTTACAGTGGAGTACATTGAAGCCAGTAA-TTCTATCTCCCTGGGCAGCAGTGGAATAGAT
41116132 CAC
130 CAC
* * * *
41116135 AGATTTCAGATATTGTCTCCCAAAACAGTAGTGGAGCAGATCAAAGATGGCAGATTTTACCTCCC
1 AGATTACAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTACCTCCC
* * *
41116200 TGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTAGGCAACAGTGGAATAGATT
66 TGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGA-T
*
41116265 GA-
130 CAC
* *
41116267 AGATTACAGATCTTGCCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCGGATTTTACCTCCC
1 AGATTACAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTACCTCCC
* * * *
41116332 TGAAGTTGCAGTGGAGTATATTAAAGCCAGTAATTCTATCTCCC
66 TGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCC
41116376 CGGTCGATAG
Statistics
Matches: 341, Mismatches: 29, Indels: 6
0.91 0.08 0.02
Matches are distributed among these distances:
131 2 0.01
132 335 0.98
133 4 0.01
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.26
Consensus pattern (132 bp):
AGATTACAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTACCTCCC
TGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATC
AC
Found at i:41116457 original size:132 final size:129
Alignment explanation
Indices: 41115898--41116479 Score: 538
Period size: 132 Copynumber: 4.4 Consensus size: 129
41115888 TCCCTAAGCA
* ** *
41115898 GTAGCGGAGCAGATCAAAGATGGCAGATTTTACCTCCCTGTGGTTACAGCGGAGTACATTGAAGC
1 GTAGTGGAGCAGATCAAAGATGGCAGATTTTACCTCCCTGAAGTTACAGTGGAGTACATTGAAGC
* * * * * *
41115963 CAGTAATTCTATCTCCCTGGGCAGCAGTGCAATAGATC-ACAGATTTCAGATCTTGTC-TCCCTA
66 CAGTAATTCTATCTCCC-AGGC-GAAGTGGAATAGATCGA-AGA-TACAGATATTGTCTTCCATA
41116026 -AG
127 CAG
* * *
41116028 CAGAAGTGGAGCAGATCAAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAA
1 --GTAGTGGAGCAGATCAAAGATGGCAGATTTTACCTCCCTGAAGTTACAGTGGAGTACATTGAA
* * *
41116093 GCCAG-AATTTCTATCTCCCTGGGCAGCAA-TGGAATAGATC-ACAGATTTCAGATATTGTCTCC
64 GCCAGTAA-TTCTATCTCCC-AGGC-G-AAGTGGAATAGATCGA-AGA-TACAGATATTGTCTTC
*
41116155 CAAAACA-
123 C-ATACAG
**
41116162 GTAGTGGAGCAGATCAAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGC
1 GTAGTGGAGCAGATCAAAGATGGCAGATTTTACCTCCCTGAAGTTACAGTGGAGTACATTGAAGC
* * * * *
41116227 CAGTAATTCTATCTCCCTAGGCAACAGTGGAATAGATTGAAGATTACAGATCTTG-CCTCCCTA-
66 CAGTAATTCTATCTCCC-AGGCGA-AGTGGAATAGATCGAAGA-TACAGATATTGTCTTCCATAC
41116290 AG
128 AG
* * * *
41116292 CAGTAGTGGAGCAGATCAAAGATGGCGGATTTTACCTCCCTGAAGTTGCAGTGGAGTATATTAAA
1 --GTAGTGGAGCAGATCAAAGATGGCAGATTTTACCTCCCTGAAGTTACAGTGGAGTACATTGAA
* * *
41116357 GCCAGTAATTCTATCTCCCCGGTCGATAGTGGAATCGATCGAAGAAAGCAGATATTGTCTTTCCA
64 GCCAGTAATTCTATCTCCCAGG-CGA-AGTGGAATAGATCGAAGATA-CAGATATTGTC-TTCCA
41116422 TACAG
125 TACAG
* * * * * * *
41116427 GTGGTGAAGTAGATCAAAGAT-ACA-AGTTTTATCTCTCTGAAGTTGCAGTGGAG
1 GTAGTGGAGCAGATCAAAGATGGCAGA-TTTTACCTCCCTGAAGTTACAGTGGAG
41116480 CAAACAAAAG
Statistics
Matches: 387, Mismatches: 45, Indels: 36
0.83 0.10 0.08
Matches are distributed among these distances:
129 1 0.00
130 2 0.01
131 10 0.03
132 340 0.88
133 25 0.06
134 6 0.02
135 3 0.01
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.26
Consensus pattern (129 bp):
GTAGTGGAGCAGATCAAAGATGGCAGATTTTACCTCCCTGAAGTTACAGTGGAGTACATTGAAGC
CAGTAATTCTATCTCCCAGGCGAAGTGGAATAGATCGAAGATACAGATATTGTCTTCCATACAG
Found at i:41116478 original size:264 final size:264
Alignment explanation
Indices: 41115877--41116479 Score: 745
Period size: 264 Copynumber: 2.3 Consensus size: 264
41115867 TTCAAGATTA
* * * * * * **
41115877 CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCAAAGATGGCAGATTTTACCTCCCTGTGGT
1 CAGATATTGTCTCCCAAAACAGTAGTGAAGCAGATCAAAGATGACAGATTTTACCTCCCTGAAGT
* * *
41115942 TACAGCGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGCAATAGATCACAGAT
66 TACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTAGGCAACAGTGCAATAGATCACAGAT
* * *
41116007 TTCAGATCTTGTCTCCCTAAGCAGAAGTGGAGCAGATCAAAGATGGCGGATTTTACCTCCCTGAG
131 TACAGATCTTGCCTCCCTAAGCAGAAGTGGAGCAGATCAAAGATGGCGGATTTTACCTCCCTGAA
* *
41116072 GTTACAGTGGAGTACATTGAAGCCAGAATTTCTATCTCCCTGGGCAGCAATGGAATAGATCACAG
196 GTTACAGTGGAGTACATTAAAGCCAGAATTTCTATCTCCCCGGGCAGCAATGGAATAGATCACAG
***
41116137 ATTT
261 AAAG
* * **
41116141 CAGATATTGTCTCCCAAAACAGTAGTGGAGCAGATCAAAGATGGCAGATTTTACCTCCCTGTGGT
1 CAGATATTGTCTCCCAAAACAGTAGTGAAGCAGATCAAAGATGACAGATTTTACCTCCCTGAAGT
* *
41116206 TACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTAGGCAACAGTGGAATAGATTGA-AGA
66 TACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTAGGCAACAGTGCAATAGA-TCACAGA
*
41116270 TTACAGATCTTGCCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCGGATTTTACCTCCCTGA
130 TTACAGATCTTGCCTCCCTAAGCAGAAGTGGAGCAGATCAAAGATGGCGGATTTTACCTCCCTGA
* * * *
41116335 AGTTGCAGTGGAGTATATTAAAGCCAGTAA-TTCTATCTCCCCGGTC-G-ATAGTGGAATCGATC
195 AGTTACAGTGGAGTACATTAAAGCCAG-AATTTCTATCTCCCCGGGCAGCA-A-TGGAATAGATC
41116397 GA-AGAAAG
257 -ACAGAAAG
* * * * * *
41116405 CAGATATTGTCTTTCC-ATACAGGTGGTGAAGTAGATCAAAGAT-ACA-AGTTTTATCTCTCTGA
1 CAGATATTGTC-TCCCAAAACA-GTAGTGAAGCAGATCAAAGATGACAGA-TTTTACCTCCCTGA
*
41116467 AGTTGCAGTGGAG
63 AGTTACAGTGGAG
41116480 CAAACAAAAG
Statistics
Matches: 298, Mismatches: 33, Indels: 16
0.86 0.10 0.05
Matches are distributed among these distances:
262 1 0.00
263 3 0.01
264 268 0.90
265 26 0.09
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (264 bp):
CAGATATTGTCTCCCAAAACAGTAGTGAAGCAGATCAAAGATGACAGATTTTACCTCCCTGAAGT
TACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTAGGCAACAGTGCAATAGATCACAGAT
TACAGATCTTGCCTCCCTAAGCAGAAGTGGAGCAGATCAAAGATGGCGGATTTTACCTCCCTGAA
GTTACAGTGGAGTACATTAAAGCCAGAATTTCTATCTCCCCGGGCAGCAATGGAATAGATCACAG
AAAG
Found at i:41124850 original size:16 final size:16
Alignment explanation
Indices: 41124831--41124866 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
41124821 AAAATATAAT
*
41124831 TTTATCATTATATTAA
1 TTTATAATTATATTAA
*
41124847 TTTATAATTTTATTAA
1 TTTATAATTATATTAA
41124863 TTTA
1 TTTA
41124867 GATGAGACTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTATAATTATATTAA
Found at i:41135538 original size:23 final size:22
Alignment explanation
Indices: 41135486--41135538 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
41135476 TCCACGTCTT
*
41135486 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
41135508 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
41135531 TTTCTTTT
1 TTTCTTTT
41135539 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:41139179 original size:61 final size:58
Alignment explanation
Indices: 41139070--41139198 Score: 152
Period size: 61 Copynumber: 2.2 Consensus size: 58
41139060 ATTCATATTT
* * * *
41139070 TAATAATAATTATATTAAGAATGTTATTAAATTATATATTATTTTATTAAATTGTATG
1 TAATAATAATTATATTAAGAATATGATTAAATTATATATTATTTTATTAAAATATATG
* * *
41139128 TAATAATAATTATGTTAA-AATATGATTAAATTATTTCTTATTATTTTTATTAAAATATATT
1 TAATAATAATTATATTAAGAATATGATTAAATTA--T-ATATTA-TTTTATTAAAATATATG
41139189 TAATAATAAT
1 TAATAATAAT
41139199 CTTATTGAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
57 13 0.22
58 17 0.28
59 1 0.02
60 5 0.08
61 24 0.40
ACGTcount: A:0.44, C:0.01, G:0.05, T:0.50
Consensus pattern (58 bp):
TAATAATAATTATATTAAGAATATGATTAAATTATATATTATTTTATTAAAATATATG
Found at i:41140945 original size:22 final size:21
Alignment explanation
Indices: 41140910--41140986 Score: 77
Period size: 19 Copynumber: 3.7 Consensus size: 21
41140900 AAAGGGTATC
* *
41140910 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
41140931 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
*
41140954 TACATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
41140973 TGCATATCATATCT
1 TACAAATCATATCT
41140987 AAGATTGCAT
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
19 18 0.38
21 4 0.08
22 15 0.31
23 11 0.23
ACGTcount: A:0.42, C:0.17, G:0.05, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:41140953 original size:23 final size:22
Alignment explanation
Indices: 41140910--41140967 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
41140900 AAAGGGTATC
* *
41140910 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
41140931 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
41140954 TACATATCATATCT
1 TACAAATCATATCT
41140968 AAGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:41140970 original size:19 final size:19
Alignment explanation
Indices: 41140923--41140992 Score: 86
Period size: 19 Copynumber: 3.5 Consensus size: 19
41140913 AAATTAAATC
*
41140923 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
41140943 TCTTCTAAGATTACATATCATA
1 ---TCTAAGATTACATATCATA
*
41140965 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
41140984 TCTAAGATT
1 TCTAAGATT
41140993 GCATTAACTT
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
19 27 0.60
22 7 0.16
23 11 0.24
ACGTcount: A:0.40, C:0.16, G:0.07, T:0.37
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:41140993 original size:19 final size:19
Alignment explanation
Indices: 41140946--41140996 Score: 93
Period size: 19 Copynumber: 2.7 Consensus size: 19
41140936 AATCATATCT
*
41140946 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
41140965 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
41140984 TCTAAGATTGCAT
1 TCTAAGATTGCAT
41140997 TAACTTGAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:41141589 original size:44 final size:44
Alignment explanation
Indices: 41141540--41141745 Score: 174
Period size: 44 Copynumber: 4.8 Consensus size: 44
41141530 TTCTGATCCA
* *
41141540 CTCCACTGTAACTTCAGGGAGATAAGATTGGTTTCTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTGGTTTATTCAATCTG
* * * *
41141584 TTCCACTGCAACCTCAGAGAGATAAGATTGGCTTATTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTGGTTTATTCAATCTG
* * * * * *
41141628 CTCTACTGCAACCTC-GGGAAGATGAGACTGG---ATGCGATCTG
1 CTCCACTGCAACTTCAGGG-AGATAAGATTGGTTTATTCAATCTG
* * * *
41141669 CTCTACCGCAACTTCAGAGAGATAAGATCT-GTAGTT-TT-AACCTG
1 CTCCACTGCAACTTCAGGGAGATAAGAT-TGGT--TTATTCAATCTG
*
41141713 CTCCACTGTAACTTCAGGGAGATAAGATTGGTT
1 CTCCACTGCAACTTCAGGGAGATAAGATTGGTT
41141746 ACTTCAGTTT
Statistics
Matches: 128, Mismatches: 25, Indels: 20
0.74 0.14 0.12
Matches are distributed among these distances:
41 29 0.23
42 4 0.03
43 3 0.02
44 91 0.71
45 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTGGTTTATTCAATCTG
Found at i:41142341 original size:45 final size:45
Alignment explanation
Indices: 41141755--41142336 Score: 689
Period size: 45 Copynumber: 12.9 Consensus size: 45
41141745 TACTTCAGTT
* * * * *
41141755 TTCGATCTACTTCGCTGCCAATATAGGAAGCCCAGATCTGCTATA
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTATC
* * *
41141800 TTTGATCTACTTCGCTGCCAATATAGGAAGACAAGATCTGCTATC
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTATC
* * * *
41141845 TTTGATCTACTTCGCTACCGATACAGGAAGACAAAATCTGTTATC
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTATC
* * * *
41141890 TTCGATCTACTTGGCTACCAATATAGGAAGACAAGATCTGCTATC
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTATC
* * *
41141935 TTTGATCTACTTCGCTGCTAGTACAGGAAGACAAGATCTGTTATC
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTATC
* * * *
41141980 TTCGATCTACTTGGCTACCAATATAGGAAGACAAGATCTGCTATC
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTATC
* *
41142025 TTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATATGTTATC
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTATC
* * * * *
41142070 TTCGATCTACTTCGCTACCAATATAGGAAAACAAGATCTGCTATA
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTATC
* * * *
41142115 TTTGATCTACTTTGCTGCCAACACAGGAAGACAAGATATGTTATC
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTATC
* * * * * *
41142160 TTCGATCTACTTCACTACCAATATAGGAAGATAAGATCTATTATT
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTATC
* * *
41142205 TTCGATCTACTTCGCTGTCAATACAGGAAGACAAGATCTGTTGTT
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTATC
* * * * *
41142250 TTCGATCTGCTTCGCTGCCAATACAGGAAGATAAGATCTGCTGTT
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTATC
* * *
41142295 TTTGATCTATTTTGCTGCCAATACAAGG-AGACAAGATCTGTT
1 TTCGATCTACTTCGCTGCCAATAC-AGGAAGACAAGATCTGTT
41142337 GTTTTCACTG
Statistics
Matches: 458, Mismatches: 78, Indels: 2
0.85 0.14 0.00
Matches are distributed among these distances:
45 455 0.99
46 3 0.01
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (45 bp):
TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTATC
Found at i:41142342 original size:90 final size:90
Alignment explanation
Indices: 41141758--41142336 Score: 811
Period size: 90 Copynumber: 6.4 Consensus size: 90
41141748 TTCAGTTTTC
* * * * * * *
41141758 GATCTACTTCGCTGCCAATATAGGAAGCCCAGATCTGCTATATTTGATCTACTTCGCTGCCAATA
1 GATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTATCTTCGATCTACTTCGCTACCAATA
41141823 TAGGAAGACAAGATCTGCTATCTTT
66 TAGGAAGACAAGATCTGCTATCTTT
* * * *
41141848 GATCTACTTCGCTACCGATACAGGAAGACAAAATCTGTTATCTTCGATCTACTTGGCTACCAATA
1 GATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTATCTTCGATCTACTTCGCTACCAATA
41141913 TAGGAAGACAAGATCTGCTATCTTT
66 TAGGAAGACAAGATCTGCTATCTTT
* * *
41141938 GATCTACTTCGCTGCTAGTACAGGAAGACAAGATCTGTTATCTTCGATCTACTTGGCTACCAATA
1 GATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTATCTTCGATCTACTTCGCTACCAATA
41142003 TAGGAAGACAAGATCTGCTATCTTT
66 TAGGAAGACAAGATCTGCTATCTTT
*
41142028 GATCTACTTCGCTGCCAATACAGGAAGACAAGATATGTTATCTTCGATCTACTTCGCTACCAATA
1 GATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTATCTTCGATCTACTTCGCTACCAATA
* *
41142093 TAGGAAAACAAGATCTGCTATATTT
66 TAGGAAGACAAGATCTGCTATCTTT
* * * *
41142118 GATCTACTTTGCTGCCAACACAGGAAGACAAGATATGTTATCTTCGATCTACTTCACTACCAATA
1 GATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTATCTTCGATCTACTTCGCTACCAATA
* **
41142183 TAGGAAGATAAGATCTATTAT-TTT
66 TAGGAAGACAAGATCTGCTATCTTT
* * * * *
41142207 CGATCTACTTCGCTGTCAATACAGGAAGACAAGATCTGTTGTTTTCGATCTGCTTCGCTGCCAAT
1 -GATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTATCTTCGATCTACTTCGCTACCAAT
* * * *
41142272 ACAGGAAGATAAGATCTGCTGTTTTT
65 ATAGGAAGACAAGATCTGCTATCTTT
* *
41142298 GATCTATTTTGCTGCCAATACAAGG-AGACAAGATCTGTT
1 GATCTACTTCGCTGCCAATAC-AGGAAGACAAGATCTGTT
41142337 GTTTTCACTG
Statistics
Matches: 441, Mismatches: 45, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
89 3 0.01
90 432 0.98
91 6 0.01
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (90 bp):
GATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTATCTTCGATCTACTTCGCTACCAATA
TAGGAAGACAAGATCTGCTATCTTT
Found at i:41147206 original size:13 final size:14
Alignment explanation
Indices: 41147188--41147216 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
41147178 TTTCTGCTTG
41147188 TTTTATTTTAT-TT
1 TTTTATTTTATATT
41147201 TTTTATTTTATATT
1 TTTTATTTTATATT
41147215 TT
1 TT
41147217 ACATAAGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTATTTTATATT
Found at i:41148044 original size:21 final size:21
Alignment explanation
Indices: 41148004--41148046 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
41147994 TAATATAGTA
*
41148004 TTATTATTATTATTGCTTACC
1 TTATTATTATTATTACTTACC
* *
41148025 TTATTATTATTTTTATTTACC
1 TTATTATTATTATTACTTACC
41148046 T
1 T
41148047 ATTTATACCC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.23, C:0.12, G:0.02, T:0.63
Consensus pattern (21 bp):
TTATTATTATTATTACTTACC
Found at i:41148134 original size:25 final size:25
Alignment explanation
Indices: 41148106--41148166 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
41148096 ATTTTAAAAC
*
41148106 TTTATAATTTATATATATACATATT
1 TTTATAATTTATATACATACATATT
* * *
41148131 TTTATAATATATATACGTTCATATT
1 TTTATAATTTATATACATACATATT
*
41148156 TTCATAATTTA
1 TTTATAATTTA
41148167 CTTGTATATA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.38, C:0.07, G:0.02, T:0.54
Consensus pattern (25 bp):
TTTATAATTTATATACATACATATT
Found at i:41148269 original size:9 final size:10
Alignment explanation
Indices: 41148201--41148271 Score: 56
Period size: 10 Copynumber: 7.0 Consensus size: 10
41148191 TGCATATTTT
41148201 TATATTT-TA
1 TATATTTATA
*
41148210 TA-ACTTATA
1 TATATTTATA
*
41148219 TATATCTATA
1 TATATTTATA
*
41148229 TATATCTACATA
1 TATAT-T-TATA
*
41148241 TATATTTTTA
1 TATATTTATA
*
41148251 TATATTTTTA
1 TATATTTATA
41148261 TAATATTTATA
1 T-ATATTTATA
41148272 CGTATTTATG
Statistics
Matches: 49, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
8 3 0.06
9 6 0.12
10 23 0.47
11 9 0.18
12 8 0.16
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (10 bp):
TATATTTATA
Found at i:41151107 original size:3 final size:3
Alignment explanation
Indices: 41151099--41151137 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
41151089 ATCAAGAACA
41151099 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
41151138 GAAAAGATAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:41151496 original size:42 final size:41
Alignment explanation
Indices: 41151407--41151496 Score: 103
Period size: 42 Copynumber: 2.1 Consensus size: 41
41151397 TTAATATGTA
* *
41151407 AAAAATATATATATAAGTATGTATATAAAATTATGAAACAT
1 AAAAATATATATATAAGTATGTATATAAAATTATAAAAAAT
*
41151448 AGAAAATATATA-A-AAGTATGTATATATATATTTATAAAAAATT
1 A-AAAATATATATATAAGTATGTATATA-A-AATTATAAAAAA-T
41151491 AAAAAT
1 AAAAAT
41151497 GTGTATGTAT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
40 13 0.31
41 3 0.07
42 24 0.57
43 2 0.05
ACGTcount: A:0.58, C:0.01, G:0.07, T:0.34
Consensus pattern (41 bp):
AAAAATATATATATAAGTATGTATATAAAATTATAAAAAAT
Found at i:41152120 original size:21 final size:19
Alignment explanation
Indices: 41152085--41152150 Score: 105
Period size: 19 Copynumber: 3.4 Consensus size: 19
41152075 TCATATCTTT
41152085 TAAGATTGCATATCATATC
1 TAAGATTGCATATCATATC
41152104 TAAGATTGCATATATCATATC
1 TAAGATTGC--ATATCATATC
*
41152125 TAAGATTGCGTATCATATC
1 TAAGATTGCATATCATATC
41152144 TAAGATT
1 TAAGATT
41152151 ATGTTTCGAT
Statistics
Matches: 44, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
19 25 0.57
21 19 0.43
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (19 bp):
TAAGATTGCATATCATATC
Found at i:41158467 original size:31 final size:31
Alignment explanation
Indices: 41158432--41158491 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
41158422 TTACTTAGCT
41158432 ATATCGGTGTGAGGCTGCTTGGAGTTGATCC
1 ATATCGGTGTGAGGCTGCTTGGAGTTGATCC
41158463 ATATCGGTGTGAGGCTGCTTGGAGTTGAT
1 ATATCGGTGTGAGGCTGCTTGGAGTTGAT
41158492 GCTGAGATAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.17, C:0.13, G:0.37, T:0.33
Consensus pattern (31 bp):
ATATCGGTGTGAGGCTGCTTGGAGTTGATCC
Found at i:41176735 original size:24 final size:25
Alignment explanation
Indices: 41176705--41176751 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
41176695 ATGTTGATGT
*
41176705 AAATGGA-CCAATTTTTAACAGATA
1 AAATGGATACAATTTTTAACAGATA
*
41176729 AAATGGATAGAATTTTTAACAGA
1 AAATGGATACAATTTTTAACAGA
41176752 AGAACCGGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.47, C:0.09, G:0.15, T:0.30
Consensus pattern (25 bp):
AAATGGATACAATTTTTAACAGATA
Found at i:41189969 original size:44 final size:43
Alignment explanation
Indices: 41189916--41190023 Score: 128
Period size: 44 Copynumber: 2.5 Consensus size: 43
41189906 TAGTTTTAAT
*
41189916 TTGCTCCACTGCAACTTCAGGGAGTTAGGTTTTG-TATCTTCAAC
1 TTGCTCCACTGCAACTTCAGGGAGTAAGG-TTTGCTA-CTTCAAC
* * *
41189960 TTGCCCCACTGCAACGTCATGGGGGTAAGGTTTGCTACTTCAAC
1 TTGCTCCACTGCAACTTCA-GGGAGTAAGGTTTGCTACTTCAAC
* *
41190004 CTGCTCTACTGCAACTTCAG
1 TTGCTCCACTGCAACTTCAG
41190024 AGAGAAAATT
Statistics
Matches: 54, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
43 1 0.02
44 43 0.80
45 10 0.19
ACGTcount: A:0.20, C:0.27, G:0.21, T:0.31
Consensus pattern (43 bp):
TTGCTCCACTGCAACTTCAGGGAGTAAGGTTTGCTACTTCAAC
Found at i:41190226 original size:45 final size:44
Alignment explanation
Indices: 41190162--41190404 Score: 192
Period size: 45 Copynumber: 5.5 Consensus size: 44
41190152 AACTATGGTG
* * *
41190162 TCTTCAATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTC
1 TCTTCAGTCTGCTCCGCTGTCAGTACAGGAAGGCAAG-TCTGCTA
* * * *
41190207 TCTTCAGTCTGCTCCGCTGTCAGTACAAGAAGGCAAGGCTGGTG
1 TCTTCAGTCTGCTCCGCTGTCAGTACAGGAAGGCAAGTCTGCTA
* *
41190251 TCTT-TGATCTGCTTCGCTGTCAGTACAGGAAGGCAATGTCTGCTA
1 TCTTCAG-TCTGCTCCGCTGTCAGTACAGGAAGGCAA-GTCTGCTA
* * * *
41190296 TCTTCAGTCTGCTCCGCTG-CAAGCT-CAAGG-AGGCGAGGCTGGTG
1 TCTTCAGTCTGCTCCGCTGTC-AG-TAC-AGGAAGGCAAGTCTGCTA
* * * * *
41190340 TCTTC-GATCTGTTTCACTG-CTAATACAGGAAGACAAGATCTGCTA
1 TCTTCAG-TCTGCTCCGCTGTC-AGTACAGGAAGGCAAG-TCTGCTA
*
41190385 TCTTCAGTTTGCTCCGCTGT
1 TCTTCAGTCTGCTCCGCTGT
41190405 AAACTCAGGG
Statistics
Matches: 154, Mismatches: 32, Indels: 23
0.74 0.15 0.11
Matches are distributed among these distances:
43 6 0.04
44 63 0.41
45 79 0.51
46 6 0.04
ACGTcount: A:0.20, C:0.25, G:0.25, T:0.30
Consensus pattern (44 bp):
TCTTCAGTCTGCTCCGCTGTCAGTACAGGAAGGCAAGTCTGCTA
Found at i:41190308 original size:89 final size:88
Alignment explanation
Indices: 41190157--41190447 Score: 381
Period size: 89 Copynumber: 3.3 Consensus size: 88
41190147 CTGCAAACTA
* *
41190157 TGGTGTCTTCAATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTCTCTTCAGTCTGCTCC
1 TGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCC
* *
41190222 GCTGTCAGTACAAGAAGGCAAGGC
66 GCTGTCAGT-CAAGGAGGCGAGGC
*
41190246 TGGTGTCTTTGATCTGCTTCGCTGTCAGTACAGGAAGGCAATG-TCTGCTATCTTCAGTCTGCTC
1 TGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAA-GATCTGCTATCTTCAGTCTGCTC
41190310 CGCTG-CAAGCTCAAGGAGGCGAGGC
65 CGCTGTC-AG-TCAAGGAGGCGAGGC
* * * * *
41190335 TGGTGTCTTCGATCTGTTTCACTG-CTAATACAGGAAGACAAGATCTGCTATCTTCAGTTTGCTC
1 TGGTGTCTTCGATCTGCTTCGCTGTC-AGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTC
* * *
41190399 CGCTGTAAACTCAGGGAGGCGAGGC
65 CGCTGT-CAGTCAAGGAGGCGAGGC
*
41190424 TGGTGTATTCGATCTGCTTCGCTG
1 TGGTGTCTTCGATCTGCTTCGCTG
41190448 CAAACTCAAG
Statistics
Matches: 178, Mismatches: 17, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
88 3 0.02
89 172 0.97
90 3 0.02
ACGTcount: A:0.20, C:0.24, G:0.27, T:0.29
Consensus pattern (88 bp):
TGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCC
GCTGTCAGTCAAGGAGGCGAGGC
Found at i:41190656 original size:16 final size:15
Alignment explanation
Indices: 41190634--41190671 Score: 58
Period size: 16 Copynumber: 2.5 Consensus size: 15
41190624 CCAGATGTGT
41190634 ATGAATGATATTTAC
1 ATGAATGATATTTAC
*
41190649 ATTGAATGATATTTGC
1 A-TGAATGATATTTAC
41190665 ATGAATG
1 ATGAATG
41190672 TATAATGTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 7 0.33
16 14 0.67
ACGTcount: A:0.37, C:0.05, G:0.18, T:0.39
Consensus pattern (15 bp):
ATGAATGATATTTAC
Found at i:41198447 original size:12 final size:12
Alignment explanation
Indices: 41198430--41198454 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
41198420 ACAATCTGAC
41198430 TCCTAATACAAA
1 TCCTAATACAAA
41198442 TCCTAATACAAA
1 TCCTAATACAAA
41198454 T
1 T
41198455 ATTTTCTTAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.28
Consensus pattern (12 bp):
TCCTAATACAAA
Found at i:41199577 original size:13 final size:13
Alignment explanation
Indices: 41199559--41199586 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
41199549 ATCTGCAGAA
41199559 AACCCTGCTCTTC
1 AACCCTGCTCTTC
41199572 AACCCTGCTCTTC
1 AACCCTGCTCTTC
41199585 AA
1 AA
41199587 TTGACACTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.43, G:0.07, T:0.29
Consensus pattern (13 bp):
AACCCTGCTCTTC
Found at i:41201118 original size:10 final size:10
Alignment explanation
Indices: 41201103--41201138 Score: 72
Period size: 10 Copynumber: 3.6 Consensus size: 10
41201093 TAGCTAAACT
41201103 GTGGCTATCA
1 GTGGCTATCA
41201113 GTGGCTATCA
1 GTGGCTATCA
41201123 GTGGCTATCA
1 GTGGCTATCA
41201133 GTGGCT
1 GTGGCT
41201139 TGACCACGAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.17, C:0.19, G:0.33, T:0.31
Consensus pattern (10 bp):
GTGGCTATCA
Found at i:41208172 original size:39 final size:39
Alignment explanation
Indices: 41208129--41208216 Score: 149
Period size: 39 Copynumber: 2.3 Consensus size: 39
41208119 AGTTAATTTT
*
41208129 GTTAGATTGACTCGTACAAAATATAAATCGGTCAATTCG
1 GTTAGATTGACTCATACAAAATATAAATCGGTCAATTCG
* *
41208168 GTTAGATTGACTCATACAAAATATAAATTGGTCGATTCG
1 GTTAGATTGACTCATACAAAATATAAATCGGTCAATTCG
41208207 GTTAGATTGA
1 GTTAGATTGA
41208217 TGAACCAACC
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (39 bp):
GTTAGATTGACTCATACAAAATATAAATCGGTCAATTCG
Found at i:41214325 original size:18 final size:18
Alignment explanation
Indices: 41214304--41214338 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
41214294 ATTAATTAGT
* *
41214304 TTAATTAAATTAATAAAA
1 TTAATAAAAATAATAAAA
41214322 TTAATAAAAATAATAAA
1 TTAATAAAAATAATAAA
41214339 TTTTGATTCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
TTAATAAAAATAATAAAA
Found at i:41216498 original size:18 final size:18
Alignment explanation
Indices: 41216477--41216516 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
41216467 TTCTTTTTGT
41216477 ATTTTATATGTTCAATTA
1 ATTTTATATGTTCAATTA
* * *
41216495 ATTTTATTTTTTTAATTA
1 ATTTTATATGTTCAATTA
41216513 ATTT
1 ATTT
41216517 ATTTATTAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.65
Consensus pattern (18 bp):
ATTTTATATGTTCAATTA
Found at i:41217539 original size:21 final size:22
Alignment explanation
Indices: 41217515--41217562 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
41217505 TTTATACGAT
* *
41217515 ATAAATTATATAATA-TATAAA
1 ATAAATTAAAAAATATTATAAA
41217536 ATAAATTAAAAAATATTATAAA
1 ATAAATTAAAAAATATTATAAA
*
41217558 TTAAA
1 ATAAA
41217563 AAATAGACCA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (22 bp):
ATAAATTAAAAAATATTATAAA
Found at i:41222121 original size:20 final size:18
Alignment explanation
Indices: 41222085--41222134 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
41222075 CTTTCTTTTT
*
41222085 TTATAATATTTTTAATAA
1 TTATAATATTTTAAATAA
41222103 TTATATATATTTTAAAATAA
1 TTATA-ATATTTT-AAATAA
* *
41222123 TTTTCATATTTT
1 TTATAATATTTT
41222135 TATTTTTTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 5 0.19
19 14 0.52
20 8 0.30
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (18 bp):
TTATAATATTTTAAATAA
Found at i:41222135 original size:20 final size:18
Alignment explanation
Indices: 41222085--41222136 Score: 52
Period size: 20 Copynumber: 2.7 Consensus size: 18
41222075 CTTTCTTTTT
41222085 TTATAATATTTTT-AATAA
1 TTAT-ATATTTTTAAATAA
41222103 TTATATATATTTTAAAATAA
1 TTATATAT-TTTT-AAATAA
*
41222123 TTTTCATATTTTTA
1 TTAT-ATATTTTTA
41222137 TTTTTTGTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
17 4 0.14
18 8 0.28
19 1 0.03
20 12 0.41
21 4 0.14
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (18 bp):
TTATATATTTTTAAATAA
Found at i:41222158 original size:25 final size:25
Alignment explanation
Indices: 41222120--41222219 Score: 84
Period size: 25 Copynumber: 4.0 Consensus size: 25
41222110 TATTTTAAAA
*
41222120 TAATTT-TCATATTTTTATTTTTTG
1 TAATTTATAATATTTTTATTTTTTG
*
41222144 TAATTTAT-ATGATTTTTA-ATTTT-
1 TAATTTATAAT-ATTTTTATTTTTTG
41222167 TAATTT-TAATAATTTTTGCAATTTTTTG
1 TAATTTATAAT-ATTTTT---ATTTTTTG
* *
41222195 TCATTTATAATATATTTATTTTTTG
1 TAATTTATAATATTTTTATTTTTTG
41222220 CTTGTTGATT
Statistics
Matches: 62, Mismatches: 5, Indels: 17
0.74 0.06 0.20
Matches are distributed among these distances:
22 1 0.02
23 14 0.23
24 12 0.19
25 16 0.26
26 1 0.02
27 4 0.06
28 10 0.16
29 4 0.06
ACGTcount: A:0.27, C:0.03, G:0.05, T:0.65
Consensus pattern (25 bp):
TAATTTATAATATTTTTATTTTTTG
Found at i:41226494 original size:132 final size:132
Alignment explanation
Indices: 41226273--41226678 Score: 686
Period size: 132 Copynumber: 3.1 Consensus size: 132
41226263 CGTTATTGTT
* * * *
41226273 GATCTGCTCCACTAATGCTTAGGGGGACAGAATCTACAGTCTTTGACCTACTCCACTACTGCTTA
1 GATCTGCTCCACTAATGCTTAGGGTGACAGAATCTGCAATCTTTAACCTACTCCACTACTGCTTA
41226338 GGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGATAAGATTCACCATCT
66 GGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGATAAGATTCACCATCT
41226403 TC
131 TC
* * *
41226405 GATCTGCTCCACTACTGCTTAGGGTGACAGAACCTGCAATCTTCAACCTACTCCACTACTGCTTA
1 GATCTGCTCCACTAATGCTTAGGGTGACAGAATCTGCAATCTTTAACCTACTCCACTACTGCTTA
* * *
41226470 GGGTGATAGGACTAATGACTTAAATCTGTTTCTCCACTATATTGGGAAGATAAGATTCACCATCT
66 GGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGATAAGATTCACCATCT
41226535 TC
131 TC
* *
41226537 GATTTGCTCCACTATTGCTTAGGGTGACAGAATCTGCAATCTTTAACCTACTCCACTACTGCTTA
1 GATCTGCTCCACTAATGCTTAGGGTGACAGAATCTGCAATCTTTAACCTACTCCACTACTGCTTA
*
41226602 GGGTGATAGGACTAATGGCTTAAATCTGCTTCTCTACTGTATTGGGAAGATAAGATTCACCATCT
66 GGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGATAAGATTCACCATCT
41226667 TC
131 TC
*
41226669 GATCTCCTCC
1 GATCTGCTCC
41226679 GCTGCCAAAT
Statistics
Matches: 254, Mismatches: 20, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
132 254 1.00
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (132 bp):
GATCTGCTCCACTAATGCTTAGGGTGACAGAATCTGCAATCTTTAACCTACTCCACTACTGCTTA
GGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGATAAGATTCACCATCT
TC
Found at i:41226720 original size:46 final size:46
Alignment explanation
Indices: 41226663--41227208 Score: 749
Period size: 46 Copynumber: 12.1 Consensus size: 46
41226653 AAGATTCACC
*
41226663 ATCTTCGATCTCCTCCGCTGCCAAATACAGAAAGACAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* *
41226709 ATCTTCAATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGTT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* *
41226755 ATCTTTGATCTCCTCCGCTGCCAAATATAGGAAGACAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* *
41226801 ATC--CG-----CT--G-T--CAAATATAGGAAGACAAGATCTTCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * *
41226835 ATCCTCGATCTCATTCGCTGCCAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * *
41226881 ATCCTCGATCTCTTCCGCTGCCAAATACAAGAAGACAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * *
41226927 ATCTTCGATCCCCTCCACTGCCAATTACAGGAAGACAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * * *
41226973 ATCTTCGATCTCCTCCGCTGTCAATTACAGGAAGATAAGATCTACT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
*
41227019 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGATAAGATCTG-T
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
*
41227064 AATCTTCGATCTCCTCCGCTGCCAAATATAGGAAGACAAGATCTGCT
1 -ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* *
41227111 ATCTTTGATCTCCTCCGCTGCCAAATACAGAAAGACAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * *
41227157 ATCTTCGATCTCTTTCGCTGCCAAATACAGGAAGATAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
41227203 ATCTTC
1 ATCTTC
41227209 ATTGATCTGT
Statistics
Matches: 447, Mismatches: 39, Indels: 28
0.87 0.08 0.05
Matches are distributed among these distances:
34 27 0.06
36 3 0.01
37 1 0.00
39 2 0.00
41 1 0.00
43 1 0.00
44 2 0.00
45 1 0.00
46 408 0.91
47 1 0.00
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.27
Consensus pattern (46 bp):
ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
Found at i:41226806 original size:34 final size:34
Alignment explanation
Indices: 41226768--41226838 Score: 124
Period size: 34 Copynumber: 2.1 Consensus size: 34
41226758 TTTGATCTCC
41226768 TCCGCTGCCAAATATAGGAAGACAAGATCTGCTA
1 TCCGCTGCCAAATATAGGAAGACAAGATCTGCTA
* *
41226802 TCCGCTGTCAAATATAGGAAGACAAGATCTTCTA
1 TCCGCTGCCAAATATAGGAAGACAAGATCTGCTA
41226836 TCC
1 TCC
41226839 TCGATCTCAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (34 bp):
TCCGCTGCCAAATATAGGAAGACAAGATCTGCTA
Found at i:41228265 original size:21 final size:21
Alignment explanation
Indices: 41228239--41228285 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
41228229 GGTATAGTAA
41228239 GATCACCACATGCCCCAATCT
1 GATCACCACATGCCCCAATCT
** *
41228260 GATCACTTCATGCCCCATTCT
1 GATCACCACATGCCCCAATCT
41228281 GATCA
1 GATCA
41228286 ATATTTGAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.26, C:0.38, G:0.11, T:0.26
Consensus pattern (21 bp):
GATCACCACATGCCCCAATCT
Found at i:41228387 original size:7 final size:7
Alignment explanation
Indices: 41228368--41228419 Score: 61
Period size: 7 Copynumber: 7.0 Consensus size: 7
41228358 TTAGCCTCTC
41228368 CATTTTT
1 CATTTTT
41228375 -ACTTTTT
1 CA-TTTTT
41228382 CATTTTTTT
1 CA--TTTTT
41228391 CATTTTT
1 CATTTTT
41228398 CATTTTT
1 CATTTTT
41228405 CATTTTTT
1 CA-TTTTT
41228413 CATTTTT
1 CATTTTT
41228420 TTCATCTCTT
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
6 1 0.03
7 24 0.60
8 8 0.20
9 7 0.17
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.73
Consensus pattern (7 bp):
CATTTTT
Found at i:41228394 original size:23 final size:22
Alignment explanation
Indices: 41228368--41228419 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 22
41228358 TTAGCCTCTC
41228368 CATTTTT-ACTTTTTCATTTTTTT
1 CATTTTTCA-TTTTTCA-TTTTTT
41228391 CATTTTTCATTTTTCATTTTTT
1 CATTTTTCATTTTTCATTTTTT
41228413 CATTTTT
1 CATTTTT
41228420 TTCATCTCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
22 13 0.46
23 14 0.50
24 1 0.04
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.73
Consensus pattern (22 bp):
CATTTTTCATTTTTCATTTTTT
Found at i:41228424 original size:9 final size:8
Alignment explanation
Indices: 41228377--41228420 Score: 65
Period size: 7 Copynumber: 5.6 Consensus size: 8
41228367 CCATTTTTAC
41228377 TTTTTCATT
1 TTTTTCA-T
41228386 TTTTTCA-
1 TTTTTCAT
41228393 TTTTTCA-
1 TTTTTCAT
41228400 TTTTTCAT
1 TTTTTCAT
41228408 TTTTTCAT
1 TTTTTCAT
41228416 TTTTT
1 TTTTT
41228421 TCATCTCTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
7 14 0.41
8 13 0.38
9 7 0.21
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTTCAT
Found at i:41229258 original size:18 final size:16
Alignment explanation
Indices: 41229237--41229313 Score: 75
Period size: 17 Copynumber: 4.5 Consensus size: 16
41229227 TTTTTCTTCT
*
41229237 TTTTTTTTCTATGATTGA
1 TTTTTTTT-TAT-TTTGA
41229255 TTTTTTTTTTATTTTTGA
1 -TTTTTTTTTA-TTTTGA
41229273 TTTTTTTTTATTTTGA
1 TTTTTTTTTATTTTGA
*
41229289 TTTTGTTTTTGTTTTTG-
1 TTTT-TTTTT-ATTTTGA
41229306 TTTTTTTT
1 TTTTTTTT
41229314 AGTCTGAACT
Statistics
Matches: 53, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
16 14 0.26
17 19 0.36
18 11 0.21
19 9 0.17
ACGTcount: A:0.09, C:0.01, G:0.09, T:0.81
Consensus pattern (16 bp):
TTTTTTTTTATTTTGA
Found at i:41229273 original size:22 final size:23
Alignment explanation
Indices: 41229248--41229292 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
41229238 TTTTTTTCTA
41229248 TGATTGATTTTTT-TTTT-ATTTT
1 TGATT-ATTTTTTATTTTGATTTT
*
41229270 TGATTTTTTTTTATTTTGATTTT
1 TGATTATTTTTTATTTTGATTTT
41229293 GTTTTTGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 6 0.30
22 9 0.45
23 5 0.25
ACGTcount: A:0.13, C:0.00, G:0.09, T:0.78
Consensus pattern (23 bp):
TGATTATTTTTTATTTTGATTTT
Found at i:41229276 original size:16 final size:16
Alignment explanation
Indices: 41229257--41229314 Score: 66
Period size: 16 Copynumber: 3.6 Consensus size: 16
41229247 ATGATTGATT
41229257 TTTTTTTTATTTTTGA
1 TTTTTTTTATTTTTGA
41229273 TTTTTTTT-TATTTTGA
1 TTTTTTTTAT-TTTTGA
*
41229289 TTTTGTTTTTGTTTTTG-
1 -TTT-TTTTTATTTTTGA
41229306 TTTTTTTTA
1 TTTTTTTTA
41229315 GTCTGAACTC
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
15 6 0.16
16 17 0.46
17 3 0.08
18 10 0.27
19 1 0.03
ACGTcount: A:0.09, C:0.00, G:0.09, T:0.83
Consensus pattern (16 bp):
TTTTTTTTATTTTTGA
Found at i:41229277 original size:34 final size:34
Alignment explanation
Indices: 41229238--41229313 Score: 98
Period size: 34 Copynumber: 2.2 Consensus size: 34
41229228 TTTTCTTCTT
*
41229238 TTTTTTTCTATGATTGATTTTTTTTTTATTTTTGA
1 TTTTTTTCTAT-ATTGATTTTGTTTTTATTTTTGA
* * * *
41229273 TTTTTTTTTATTTTGATTTTGTTTTTGTTTTTGT
1 TTTTTTTCTATATTGATTTTGTTTTTATTTTTGA
41229307 TTTTTTT
1 TTTTTTT
41229314 AGTCTGAACT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
34 26 0.72
35 10 0.28
ACGTcount: A:0.09, C:0.01, G:0.09, T:0.80
Consensus pattern (34 bp):
TTTTTTTCTATATTGATTTTGTTTTTATTTTTGA
Found at i:41232022 original size:19 final size:20
Alignment explanation
Indices: 41231993--41232044 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
41231983 CACTTCGTGA
* *
41231993 AAATCTAATGCATATG-ATG
1 AAATGTAATGCAAATGCATG
*
41232012 CAATGTAATGCAAATGCATG
1 AAATGTAATGCAAATGCATG
41232032 AAATG-AATGCAAA
1 AAATGTAATGCAAA
41232045 AAAGAGACGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 21 0.75
20 7 0.25
ACGTcount: A:0.46, C:0.12, G:0.17, T:0.25
Consensus pattern (20 bp):
AAATGTAATGCAAATGCATG
Found at i:41234394 original size:14 final size:14
Alignment explanation
Indices: 41234372--41234409 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
41234362 TATAAGTGTA
*
41234372 AATATAATAATAAT
1 AATAAAATAATAAT
41234386 AATAAAATAATAAT
1 AATAAAATAATAAT
*
41234400 AACAAAATAA
1 AATAAAATAA
41234410 CCTAAATACA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (14 bp):
AATAAAATAATAAT
Found at i:41244350 original size:58 final size:59
Alignment explanation
Indices: 41244244--41244356 Score: 142
Period size: 58 Copynumber: 1.9 Consensus size: 59
41244234 TTTTCAAGAA
*
41244244 CTAACTTGAACAAAAAAAAGTTCAAGCCCCAATGTAAGAACAATTGCCAAGTTCAGGGT
1 CTAACTTGAACAAAAAAAAGTTCAAGCCCCAATATAAGAACAATTGCCAAGTTCAGGGT
* ** *
41244303 CTAACTTGAATAAAAAAAA-TTC-AGATTCCAATATGAGAA-AAGTTGCCAAGTTCA
1 CTAACTTGAACAAAAAAAAGTTCAAG-CCCCAATATAAGAACAA-TTGCCAAGTTCA
41244357 AACCCTAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
57 4 0.09
58 25 0.53
59 18 0.38
ACGTcount: A:0.44, C:0.18, G:0.15, T:0.23
Consensus pattern (59 bp):
CTAACTTGAACAAAAAAAAGTTCAAGCCCCAATATAAGAACAATTGCCAAGTTCAGGGT
Found at i:41247320 original size:21 final size:21
Alignment explanation
Indices: 41247296--41247335 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
41247286 GAATGGAAAA
* *
41247296 TAAATAAATAAAAAAGAAAGT
1 TAAAAAAACAAAAAAGAAAGT
*
41247317 TAAAAAAACATAAAAGAAA
1 TAAAAAAACAAAAAAGAAA
41247336 AAAAATTAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.75, C:0.03, G:0.07, T:0.15
Consensus pattern (21 bp):
TAAAAAAACAAAAAAGAAAGT
Found at i:41248543 original size:15 final size:15
Alignment explanation
Indices: 41248520--41248553 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
41248510 ATTATTTTTT
41248520 AATTCAAATAAAATA
1 AATTCAAATAAAATA
* *
41248535 AATTTAAATATAATA
1 AATTCAAATAAAATA
41248550 AATT
1 AATT
41248554 ATTTTATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (15 bp):
AATTCAAATAAAATA
Found at i:41254404 original size:22 final size:22
Alignment explanation
Indices: 41254379--41254436 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
41254369 AAAACTGTTA
* * *
41254379 TTTTGTTGTTGTTTTTCTATTG
1 TTTTGTTGTTATTTTCCTACTG
*
41254401 TTTTGCTGTTATTTTCCTACTG
1 TTTTGTTGTTATTTTCCTACTG
*
41254423 TTTTGTTGTCATTT
1 TTTTGTTGTTATTT
41254437 CACTATTATA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.07, C:0.10, G:0.16, T:0.67
Consensus pattern (22 bp):
TTTTGTTGTTATTTTCCTACTG
Found at i:41256303 original size:2 final size:2
Alignment explanation
Indices: 41256298--41256327 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
41256288 AAAAAATCTC
41256298 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
41256328 AAAAGCTCTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:41259422 original size:17 final size:17
Alignment explanation
Indices: 41259400--41259433 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
41259390 AATACTCTCG
*
41259400 GATTAATTTGAAGAGTT
1 GATTAATTTCAAGAGTT
41259417 GATTAATTTCAAGAGTT
1 GATTAATTTCAAGAGTT
41259434 TAAAATTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.35, C:0.03, G:0.21, T:0.41
Consensus pattern (17 bp):
GATTAATTTCAAGAGTT
Found at i:41267961 original size:16 final size:15
Alignment explanation
Indices: 41267940--41267970 Score: 53
Period size: 15 Copynumber: 2.0 Consensus size: 15
41267930 TTTTGCAATT
41267940 TTTTTATTTGTTTTTA
1 TTTTTA-TTGTTTTTA
41267956 TTTTTATTGTTTTTA
1 TTTTTATTGTTTTTA
41267971 ATAGATTGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.13, C:0.00, G:0.06, T:0.81
Consensus pattern (15 bp):
TTTTTATTGTTTTTA
Found at i:41271801 original size:16 final size:16
Alignment explanation
Indices: 41271780--41271818 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
41271770 TAACAATGGC
*
41271780 GATTTTAGGGTTTGAA
1 GATTTTAGGGTTTAAA
41271796 GATTTTAGGGTTTAAA
1 GATTTTAGGGTTTAAA
*
41271812 GGTTTTA
1 GATTTTA
41271819 AGAAGCAGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.46
Consensus pattern (16 bp):
GATTTTAGGGTTTAAA
Found at i:41273868 original size:61 final size:60
Alignment explanation
Indices: 41273752--41273886 Score: 184
Period size: 61 Copynumber: 2.2 Consensus size: 60
41273742 CACACTAGTA
* * *
41273752 GTCACCCAAATATTAGTAAATTTCTTCTTTGGTCACCCAACTCTGAAAAGCTACAAAATG
1 GTCACCTAACTATTAGTAAATTTCTTATTTGGTCACCCAACTCTGAAAAGCTACAAAATG
* *
41273812 GTCACCTAACTATTAGTAAATTTCTTTATTTGGTTACCCAAC-CATGAAAAGTTACAAAATG
1 GTCACCTAACTATTAGTAAATTTC-TTATTTGGTCACCCAACTC-TGAAAAGCTACAAAATG
41273873 GTCA-CTAAACTATT
1 GTCACCT-AACTATT
41273887 CAATTTTGTC
Statistics
Matches: 67, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
60 25 0.37
61 42 0.63
ACGTcount: A:0.36, C:0.21, G:0.11, T:0.33
Consensus pattern (60 bp):
GTCACCTAACTATTAGTAAATTTCTTATTTGGTCACCCAACTCTGAAAAGCTACAAAATG
Found at i:41274117 original size:60 final size:59
Alignment explanation
Indices: 41274045--41274169 Score: 135
Period size: 60 Copynumber: 2.1 Consensus size: 59
41274035 TAGCTAGCTA
* * * *
41274045 GTGACCAGAAAAGACAAAATT-GAATAATTGGGTGACGATTTTGTAACTTTTCATAGTTAG
1 GTGACCA-AAAA-AGAAAATTAGAATAATTGGATGACCATTTTGTAAATTTTCATAGTTAG
* * * *
41274105 GTGACCAAAAAAGGAATTTACTAATAGTTGGATGACCATTTTGTAAATTTTCATAGTTAG
1 GTGACCAAAAAAGAAAATTA-GAATAATTGGATGACCATTTTGTAAATTTTCATAGTTAG
*
41274165 ATGAC
1 GTGAC
41274170 TAGATAAGAA
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
58 5 0.09
59 4 0.07
60 45 0.83
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.33
Consensus pattern (59 bp):
GTGACCAAAAAAGAAAATTAGAATAATTGGATGACCATTTTGTAAATTTTCATAGTTAG
Found at i:41274183 original size:60 final size:60
Alignment explanation
Indices: 41274067--41274193 Score: 173
Period size: 60 Copynumber: 2.1 Consensus size: 60
41274057 GACAAAATTG
* * * * * *
41274067 AATAATTGGGTGACGATTTTGTAACTTTTCATAGTTAGGTGACCAAAAAAGGAATTTACT
1 AATAGTTGGATGACCATTTTGTAAATTTTCATAGTTAGATGACCAAAAAAGAAATTTACT
* * *
41274127 AATAGTTGGATGACCATTTTGTAAATTTTCATAGTTAGATGACTAGATAAGAAATTTACT
1 AATAGTTGGATGACCATTTTGTAAATTTTCATAGTTAGATGACCAAAAAAGAAATTTACT
41274187 AATAGTT
1 AATAGTT
41274194 TAGTTGATTA
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.36, C:0.09, G:0.18, T:0.37
Consensus pattern (60 bp):
AATAGTTGGATGACCATTTTGTAAATTTTCATAGTTAGATGACCAAAAAAGAAATTTACT
Found at i:41282973 original size:23 final size:22
Alignment explanation
Indices: 41282930--41282987 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
41282920 AAAGGGTATC
* *
41282930 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
41282951 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
41282974 TACATATCATATCT
1 TACAAATCATATCT
41282988 AAGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:41282990 original size:19 final size:19
Alignment explanation
Indices: 41282943--41283040 Score: 115
Period size: 19 Copynumber: 4.8 Consensus size: 19
41282933 AAATTAAATC
*
41282943 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
41282963 TCTTCTAAGATTACATATCATA
1 ---TCTAAGATTACATATCATA
*
41282985 TCTAAGATTGCATATATCATA
1 TCTAAGATT--ACATATCATA
*
41283006 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
41283025 TCTAAGATTACATATC
1 TCTAAGATTACATATC
41283041 CTCGAAGATT
Statistics
Matches: 68, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
19 32 0.47
21 18 0.26
22 7 0.10
23 11 0.16
ACGTcount: A:0.40, C:0.16, G:0.07, T:0.37
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:41283003 original size:21 final size:21
Alignment explanation
Indices: 41282977--41283039 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
41282967 CTAAGATTAC
41282977 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
41282998 ATATCATATCTAAGATTGC--
1 ATATCATATCTAAGATTGCAT
*
41283017 ATATCATATCTAAGATTACAT
1 ATATCATATCTAAGATTGCAT
41283038 AT
1 AT
41283040 CCTCGAAGAT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
19 18 0.46
21 21 0.54
ACGTcount: A:0.40, C:0.14, G:0.08, T:0.38
Consensus pattern (21 bp):
ATATCATATCTAAGATTGCAT
Found at i:41284726 original size:13 final size:13
Alignment explanation
Indices: 41284708--41284744 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
41284698 TAACAAGATT
*
41284708 CCACAATCCAATC
1 CCACAAACCAATC
41284721 CCACAAACCAATC
1 CCACAAACCAATC
41284734 CCACAAACCAA
1 CCACAAACCAA
41284745 GGTCATCGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.46, C:0.46, G:0.00, T:0.08
Consensus pattern (13 bp):
CCACAAACCAATC
Found at i:41292328 original size:3 final size:3
Alignment explanation
Indices: 41292320--41292361 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
41292310 TCACACCTAA
41292320 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
41292362 CTTTTTTTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Done.