Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 198 of 438
Found at i:61443521 original size:31 final size:31
Alignment explanation
Indices: 61443480--61443543 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
61443470 CCTTTTCATA
*
61443480 TTTCATATTTCATAACACTAGGCCGAAGCCT
1 TTTCAAATTTCATAACACTAGGCCGAAGCCT
** *
61443511 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTAGGCCGAAGCCT
61443542 TT
1 TT
61443544 ACGGTAAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTAGGCCGAAGCCT
Found at i:61443836 original size:23 final size:24
Alignment explanation
Indices: 61443735--61443921 Score: 269
Period size: 24 Copynumber: 8.0 Consensus size: 24
61443725 GCTTTATCAT
*
61443735 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
61443760 ATAACTGGGGCAAAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTA
61443784 ATAACTGGGGCATAAGCCC-TTT-
1 ATAACTGGGGCATAAGCCCTTTTA
61443806 ATAACTGGGGCATAAG-CCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
61443829 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
61443853 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
61443877 ATAACT-GGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
61443899 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
61443922 TCACTTCCTC
Statistics
Matches: 150, Mismatches: 6, Indels: 13
0.89 0.04 0.08
Matches are distributed among these distances:
21 2 0.01
22 28 0.19
23 43 0.29
24 65 0.43
25 12 0.08
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:61443864 original size:93 final size:95
Alignment explanation
Indices: 61443735--61443921 Score: 292
Period size: 93 Copynumber: 2.0 Consensus size: 95
61443725 GCTTTATCAT
* *
61443735 ATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATAAG
1 ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTGATAACT-GGGCATAAG
61443800 CCCTTT-ATAACTGGGGCATAAG-CCTTTTA
65 CCCTTTAATAACTGGGGCATAAGCCCTTTTA
* *
61443829 ATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGCATAAG
1 ATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTGATAACTGGGCATAAG
61443892 CCCTTTAATAACTGGGGCATAAGCCCTTTT
65 CCCTTTAATAACTGGGGCATAAGCCCTTTT
61443922 TCACTTCCTC
Statistics
Matches: 86, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
92 15 0.17
93 53 0.62
94 18 0.21
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.29
Consensus pattern (95 bp):
ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTGATAACTGGGCATAAGC
CCTTTAATAACTGGGGCATAAGCCCTTTTA
Found at i:61443994 original size:9 final size:9
Alignment explanation
Indices: 61443980--61444036 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
61443970 ATCTCGTGTG
61443980 CATATCATA
1 CATATCATA
*
61443989 CATATCATGTG
1 CATATCA--TA
61444000 CATATCATA
1 CATATCATA
* *
61444009 CATGTCATGTG
1 CATATCA--TA
61444020 CATATCATA
1 CATATCATA
61444029 CATATCAT
1 CATATCAT
61444037 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:61443999 original size:20 final size:20
Alignment explanation
Indices: 61443976--61444038 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
61443966 GAACATCTCG
61443976 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
61443996 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
61444016 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
61444036 TGT
1 TGT
61444039 TTATCAAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.37
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:61444121 original size:25 final size:25
Alignment explanation
Indices: 61444075--61444122 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
61444065 ATATATAAAC
* * * *
61444075 CCTAGGGGTATAATGGTTATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
61444100 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
61444123 CATATTATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:61445289 original size:26 final size:27
Alignment explanation
Indices: 61445256--61445352 Score: 107
Period size: 26 Copynumber: 3.7 Consensus size: 27
61445246 TCATACGAAA
*
61445256 CATA-AGGGCATATT-C-GTCATTTTAC
1 CATACAGGGC-TATTACGGTCACTTTAC
61445281 CATACAGGG-TATTACGGTCACTTTAC
1 CATACAGGGCTATTACGGTCACTTTAC
*
61445307 CTTACAGGGCT-TTACGGTCACTTTAC
1 CATACAGGGCTATTACGGTCACTTTAC
*
61445333 CCTACAGGGGCT-TTACGGTC
1 CATACA-GGGCTATTACGGTC
61445353 TTTTTACCTA
Statistics
Matches: 64, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
24 4 0.06
25 5 0.08
26 41 0.64
27 14 0.22
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.32
Consensus pattern (27 bp):
CATACAGGGCTATTACGGTCACTTTAC
Found at i:61445362 original size:26 final size:26
Alignment explanation
Indices: 61445271--61445352 Score: 112
Period size: 26 Copynumber: 3.1 Consensus size: 26
61445261 GGGCATATTC
*
61445271 GTCATTTTACCATACAGGG-TATTACG
1 GTCACTTTACCATACAGGGCT-TTACG
*
61445297 GTCACTTTACCTTACAGGGCTTTACG
1 GTCACTTTACCATACAGGGCTTTACG
*
61445323 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCATACA-GGGCTTTACG
61445350 GTC
1 GTC
61445353 TTTTTACCTA
Statistics
Matches: 51, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
26 37 0.73
27 14 0.27
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.33
Consensus pattern (26 bp):
GTCACTTTACCATACAGGGCTTTACG
Found at i:61445433 original size:27 final size:27
Alignment explanation
Indices: 61445403--61445497 Score: 77
Period size: 27 Copynumber: 3.4 Consensus size: 27
61445393 GTAAATCTAC
61445403 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
* *
61445430 AAACTAATGGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTTC-AGTAATTTTGT
* * *
61445456 AGAAAGTCAAGGGTATTTCTGTAACTTTGT
1 --AAA-CCAAGGGTATTTCAGTAATTTTGT
* *
61445486 AAATCGAGGGTA
1 AAACCAAGGGTA
61445498 AAATAGTAAT
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
26 1 0.02
27 29 0.54
28 7 0.13
29 16 0.30
30 1 0.02
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.38
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTGT
Found at i:61445506 original size:27 final size:27
Alignment explanation
Indices: 61445483--61445745 Score: 221
Period size: 27 Copynumber: 9.6 Consensus size: 27
61445473 TCTGTAACTT
*
61445483 TGTAAATCGAGGGTAAAATAGTAATTC
1 TGTAAATCGAGGGTAAAACAGTAATTC
* * *
61445510 TGTAAATCAATGGTAAAATAGTAATTC
1 TGTAAATCGAGGGTAAAACAGTAATTC
* **
61445537 TATAAATCGACAGTAAAAC-GATAATT-
1 TGTAAATCGAGGGTAAAACAG-TAATTC
*
61445563 TGTAAATCGAGGGTAAAACGGTAATTC
1 TGTAAATCGAGGGTAAAACAGTAATTC
* *
61445590 TGT-AAGCGAGGGTAAAACGGGGTAAAATGTAATTA
1 TGTAAATCGAGGGTAAAAC--------A-GTAATTC
**
61445625 TGTAAATCG-GGGTAAAATGGTAATTC
1 TGTAAATCGAGGGTAAAACAGTAATTC
*
61445651 TGTAAATCAAGGGTAAAACAGTAATTC
1 TGTAAATCGAGGGTAAAACAGTAATTC
* * * *
61445678 TATAAATCAAGGGTAAAACGGTACTTC
1 TGTAAATCGAGGGTAAAACAGTAATTC
* * *
61445705 TATAAATCGAGGGTAAAACGGTAATTA
1 TGTAAATCGAGGGTAAAACAGTAATTC
61445732 TGTAAATCG-GGGTA
1 TGTAAATCGAGGGTA
61445746 CTTTGGTAAT
Statistics
Matches: 195, Mismatches: 27, Indels: 29
0.78 0.11 0.12
Matches are distributed among these distances:
26 55 0.28
27 119 0.61
35 17 0.09
36 4 0.02
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.27
Consensus pattern (27 bp):
TGTAAATCGAGGGTAAAACAGTAATTC
Found at i:61445622 original size:88 final size:90
Alignment explanation
Indices: 61445521--61445698 Score: 227
Period size: 88 Copynumber: 2.0 Consensus size: 90
61445511 GTAAATCAAT
* * *
61445521 GGTAAAATAGTAATTCTATAAATCGACAGTAAAACGATAATT-TGTAAATCGAGGGTAAAACGGT
1 GGTAAAATAGTAATTATATAAATCG-CAGTAAAACGATAATTCTGTAAATCAAGGGTAAAACAGT
* *
61445585 AATTCTGT-AAGCGAGGGTAAAACGG
65 AATTCTATAAAGCAAGGGTAAAACGG
* ** * *
61445610 GGTAAAAT-GTAATTATGTAAATCGGGGTAAAATGGTAATTCTGTAAATCAAGGGTAAAACAGTA
1 GGTAAAATAGTAATTATATAAATCGCAGTAAAACGATAATTCTGTAAATCAAGGGTAAAACAGTA
*
61445674 ATTCTATAAATCAAGGGTAAAACGG
66 ATTCTATAAAGCAAGGGTAAAACGG
61445699 TACTTCTATA
Statistics
Matches: 76, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
87 12 0.16
88 41 0.54
89 23 0.30
ACGTcount: A:0.42, C:0.09, G:0.23, T:0.26
Consensus pattern (90 bp):
GGTAAAATAGTAATTATATAAATCGCAGTAAAACGATAATTCTGTAAATCAAGGGTAAAACAGTA
ATTCTATAAAGCAAGGGTAAAACGG
Found at i:61445623 original size:61 final size:63
Alignment explanation
Indices: 61445549--61445669 Score: 176
Period size: 62 Copynumber: 2.0 Consensus size: 63
61445539 TAAATCGACA
*
61445549 GTAAAACGATAATT-TGTAAATCGAGGGTAAAACGGTAATTCTGT-AAGCGAGGGTAAAACGGG
1 GTAAAACGATAATTATGTAAATCG-GGGTAAAACGGTAATTCTGTAAAGCAAGGGTAAAACGGG
* * *
61445611 GTAAAATG-TAATTATGTAAATCGGGGTAAAATGGTAATTCTGTAAATCAAGGGTAAAAC
1 GTAAAACGATAATTATGTAAATCGGGGTAAAACGGTAATTCTGTAAAGCAAGGGTAAAAC
61445670 AGTAATTCTA
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
61 24 0.45
62 29 0.55
ACGTcount: A:0.40, C:0.08, G:0.26, T:0.26
Consensus pattern (63 bp):
GTAAAACGATAATTATGTAAATCGGGGTAAAACGGTAATTCTGTAAAGCAAGGGTAAAACGGG
Found at i:61445674 original size:141 final size:143
Alignment explanation
Indices: 61445475--61445736 Score: 404
Period size: 141 Copynumber: 1.8 Consensus size: 143
61445465 AGGGTATTTC
* *
61445475 TGTAACTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCAATGGTAAAATAGTAATTCTAT
1 TGTAACTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTAT
* * *
61445540 AAATCGACAGTAAAACGATAATT-TGTAAATCGAGGGTAAAACGGTAATTCTGTAAGCGAGGGTA
66 AAATCAACAGTAAAACGATAATTCTATAAATCGAGGGTAAAACGGTAATTATGTAAGCGAGGGTA
61445604 AAACGGGGTAAAA
131 AAACGGGGTAAAA
*
61445617 TGTAA-TTATGTAAATCG-GGGTAAAATGGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTA
1 TGTAACTT-TGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTA
** * *
61445680 TAAATCAAGGGTAAAACGGTACTTCTATAAATCGAGGGTAAAACGGTAATTATGTAA
65 TAAATCAACAGTAAAACGATAATTCTATAAATCGAGGGTAAAACGGTAATTATGTAA
61445737 ATCGGGGTAC
Statistics
Matches: 108, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
141 64 0.59
142 44 0.41
ACGTcount: A:0.41, C:0.09, G:0.21, T:0.28
Consensus pattern (143 bp):
TGTAACTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTAT
AAATCAACAGTAAAACGATAATTCTATAAATCGAGGGTAAAACGGTAATTATGTAAGCGAGGGTA
AAACGGGGTAAAA
Found at i:61449080 original size:27 final size:27
Alignment explanation
Indices: 61449011--61449146 Score: 182
Period size: 27 Copynumber: 4.9 Consensus size: 27
61449001 AAATACTTTG
*
61449011 GTTTATAAAATTACCAAAATACCCCTA
1 GTTTGTAAAATTACCAAAATACCCCTA
61449038 GTTTGTTTGTAAAATTACCAAAATACCCCTA
1 ----GTTTGTAAAATTACCAAAATACCCCTA
*
61449069 GTTTGTAAAATTATCAAAATACCCCTA
1 GTTTGTAAAATTACCAAAATACCCCTA
61449096 GTTTGTAAAATTACCAAAATACCCCTA
1 GTTTGTAAAATTACCAAAATACCCCTA
* * **
61449123 ATTTGTGAAATTACTGAAATACCC
1 GTTTGTAAAATTACCAAAATACCC
61449147 TCGACCTGTA
Statistics
Matches: 98, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
27 72 0.73
31 26 0.27
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (27 bp):
GTTTGTAAAATTACCAAAATACCCCTA
Found at i:61449157 original size:54 final size:54
Alignment explanation
Indices: 61449045--61449162 Score: 150
Period size: 54 Copynumber: 2.2 Consensus size: 54
61449035 CTAGTTTGTT
* * **
61449045 TGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTATCAAAATACCCCTAGTT
1 TGTAAAATTACCAAAATACCCCTAATTTGTAAAATTATCAAAATACCCCGAGCC
* *
61449099 TGTAAAATTACCAAAATACCCCTAATTTGTGAAATTA-CTGAAATACCCTCGA-CC
1 TGTAAAATTACCAAAATACCCCTAATTTGTAAAATTATC-AAAATACCC-CGAGCC
61449153 TGTAAAATTA
1 TGTAAAATTA
61449163 TTGAAATACC
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
53 1 0.02
54 53 0.95
55 2 0.04
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (54 bp):
TGTAAAATTACCAAAATACCCCTAATTTGTAAAATTATCAAAATACCCCGAGCC
Found at i:61449159 original size:81 final size:82
Alignment explanation
Indices: 61449011--61449199 Score: 197
Period size: 81 Copynumber: 2.3 Consensus size: 82
61449001 AAATACTTTG
* * * **
61449011 GTTTATAAAATTACCAAAATACCCCTAGTTTGTTTGTAAAATTACCAAAATACCCCTAGTTTGTA
1 GTTTGTAAAATTACCAAAATACCCCTAATTTG-TTG-AAAATTACCAAAATACCCCGAGCCTGTA
61449076 AAATTATCAAAATACCCCTA
64 AAATTATCAAAATA-CCCTA
**
61449096 GTTTGTAAAATTACCAAAATACCCCTAATTTG-TG-AAATTACTGAAATACCCTCGA-CCTGTAA
1 GTTTGTAAAATTACCAAAATACCCCTAATTTGTTGAAAATTACCAAAATACCC-CGAGCCTGTAA
** *
61449158 AATTATTGAAATACCCTC
65 AATTATCAAAATACCCTA
* *
61449176 GACTTGTAAAATTA-CAAAGTACCC
1 G-TTTGTAAAATTACCAAAATACCC
61449200 TCGATTTATA
Statistics
Matches: 90, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
80 14 0.16
81 42 0.47
82 2 0.02
83 2 0.02
85 30 0.33
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (82 bp):
GTTTGTAAAATTACCAAAATACCCCTAATTTGTTGAAAATTACCAAAATACCCCGAGCCTGTAAA
ATTATCAAAATACCCTA
Found at i:61449160 original size:27 final size:27
Alignment explanation
Indices: 61449130--61449203 Score: 107
Period size: 27 Copynumber: 2.8 Consensus size: 27
61449120 CTAATTTGTG
61449130 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACTGAAATACCCTCGACCTGTA
* *
61449157 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCGACCTGTA
61449184 AAATTAC--AAAGTACCCTCGA
1 AAATTACTGAAA-TACCCTCGA
61449204 TTTATAGAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
25 3 0.07
26 9 0.21
27 31 0.72
ACGTcount: A:0.39, C:0.23, G:0.11, T:0.27
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGACCTGTA
Found at i:61449539 original size:27 final size:27
Alignment explanation
Indices: 61449195--61449538 Score: 444
Period size: 27 Copynumber: 12.8 Consensus size: 27
61449185 AATTACAAAG
*
61449195 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
** *
61449222 TACCCTCGATTTGTAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
61449249 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
**
61449276 TACCCTC-AGTTTACAGAATTACTATTT
1 TACCCTCGA-TTTACAGAATTACCGTTT
*
61449303 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
61449330 TACCC-CTAATTTACATAATTACCATTT
1 TACCCTC-GATTTACAGAATTACCGTTT
* *
61449357 TACCC-CGATTTACATAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
61449383 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
61449410 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
61449437 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
61449464 TACCCTTGATTTACA-AATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
61449490 TACCCTTGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
61449517 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
61449539 TAAAATACCC
Statistics
Matches: 286, Mismatches: 26, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
26 50 0.17
27 235 0.82
28 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.08, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:61449549 original size:107 final size:108
Alignment explanation
Indices: 61449195--61449538 Score: 437
Period size: 107 Copynumber: 3.2 Consensus size: 108
61449185 AATTACAAAG
* * *
61449195 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTGTAAAATTACCGTTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAAAATTACCGTTTTACCCTCGATT
* * * *
61449260 TATAGAATTACCGTTTTACCC-TCAGTTTACAGAATTACTATTT
66 TACAGAATTACTGTTTTACCCTTGA-TTTACAGAATTACTGTTT
* * * * * *
61449303 TACCCTCGATTTATAGAATTACCGTTTTACCC-CTAATTTACATAATTACCATTTTACCC-CGAT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTC-GATTTATAAAATTACCGTTTTACCCTCGAT
* * *
61449366 TTACATAATTA-TCGTTTTACCCTCGATTTACAGAATTACCGTTT
65 TTACAGAATTACT-GTTTTACCCTTGATTTACAGAATTACTGTTT
* * *
61449410 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACTGTTTTACCCTTGATT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAAAATTACCGTTTTACCCTCGATT
*
61449475 TACA-AATTACTGTTTTACCCTTGATTTACAAAATTACTGTTT
66 TACAGAATTACTGTTTTACCCTTGATTTACAGAATTACTGTTT
*
61449517 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
61449539 TAAAATACCC
Statistics
Matches: 206, Mismatches: 24, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
107 143 0.69
108 63 0.31
ACGTcount: A:0.28, C:0.23, G:0.08, T:0.41
Consensus pattern (108 bp):
TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAAAATTACCGTTTTACCCTCGATT
TACAGAATTACTGTTTTACCCTTGATTTACAGAATTACTGTTT
Found at i:61449549 original size:134 final size:135
Alignment explanation
Indices: 61449195--61449538 Score: 498
Period size: 134 Copynumber: 2.6 Consensus size: 135
61449185 AATTACAAAG
* * ** *
61449195 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTGTAAAATTACCGTTTTACCCTCGATT
1 TACCCTTGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTGTTTTACCCTCGATT
* *
61449260 TATAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTATTTTACCCTCGATTTATAGAATTAC
66 TACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACCATTTTACCCTCGATTTATAGAATTAC
61449325 CGTTT
131 CGTTT
* * * * *
61449330 TACCCCTAATTTACATAATTACCATTTTACCC-CGATTTACATAATTA-TCGTTTTACCCTCGAT
1 TACCCTTGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACT-GTTTTACCCTCGAT
61449393 TTACAGAATTACCGTTTTACCCTC-GATTTACAGAATTACCATTTTACCCTCGATTTATAGAATT
65 TTACAGAATTACCGTTTTACCCTCAG-TTTACAGAATTACCATTTTACCCTCGATTTATAGAATT
*
61449457 ACTGTTT
129 ACCGTTT
* *
61449464 TACCCTTGATTTACA-AATTACTGTTTTACCCTTGATTTACAAAATTACTGTTTTACCCTCGATT
1 TACCCTTGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTGTTTTACCCTCGATT
*
61449528 TACAAAATTAC
66 TACAGAATTAC
61449539 TAAAATACCC
Statistics
Matches: 185, Mismatches: 20, Indels: 9
0.86 0.09 0.04
Matches are distributed among these distances:
133 15 0.08
134 143 0.77
135 27 0.15
ACGTcount: A:0.28, C:0.23, G:0.08, T:0.41
Consensus pattern (135 bp):
TACCCTTGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTGTTTTACCCTCGATT
TACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACCATTTTACCCTCGATTTATAGAATTAC
CGTTT
Found at i:61450801 original size:25 final size:25
Alignment explanation
Indices: 61450772--61450819 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
61450762 TTATAATATG
* * *
61450772 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
61450797 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
61450820 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:61450888 original size:20 final size:20
Alignment explanation
Indices: 61450863--61450921 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
61450853 TAAATATGGT
61450863 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
* *
61450883 ATGTATGCTATGCACATGAT
1 ATGTATGATATGCACATGAA
61450903 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
61450922 GGTAATCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:61450998 original size:24 final size:24
Alignment explanation
Indices: 61450972--61451136 Score: 239
Period size: 24 Copynumber: 7.0 Consensus size: 24
61450962 GAGGAAGTGA
61450972 AAAAGGGCTTATG-CCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
61450995 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
61451019 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
61451043 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
61451066 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
61451089 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
61451113 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
61451137 ATGATAAAGC
Statistics
Matches: 133, Mismatches: 4, Indels: 8
0.92 0.03 0.06
Matches are distributed among these distances:
22 22 0.17
23 13 0.10
24 87 0.65
25 11 0.08
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:61451086 original size:70 final size:70
Alignment explanation
Indices: 61450972--61451137 Score: 237
Period size: 70 Copynumber: 2.3 Consensus size: 70
61450962 GAGGAAGTGA
61450972 AAAAGGGCTTATG-CCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
1 AAAAGGGCTTATGCCCCAGTTAT--AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
61451036 AGTTATC
64 AGTTATC
** *
61451043 AAAAGGGCTTATGCCCCAGTTATAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAG
1 AAAAGGGCTTATGCCCCAGTTATAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAG
*
61451108 TTATT
66 TTATC
*
61451113 AAAAGAGGC-TAGGCCTCCAGTTATA
1 AAAAG-GGCTTATGCC-CCAGTTATA
61451138 TGATAAAGCA
Statistics
Matches: 87, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
70 53 0.61
71 25 0.29
72 9 0.10
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (70 bp):
AAAAGGGCTTATGCCCCAGTTATAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAG
TTATC
Found at i:61451087 original size:46 final size:47
Alignment explanation
Indices: 61450972--61451136 Score: 237
Period size: 46 Copynumber: 3.5 Consensus size: 47
61450962 GAGGAAGTGA
61450972 AAAAGGGCTTATG-CCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
61451018 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
** *
61451066 -AAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTA-T
*
61451113 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
61451137 ATGATAAAGC
Statistics
Matches: 109, Mismatches: 4, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
46 42 0.39
47 14 0.13
48 42 0.39
49 11 0.10
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
Found at i:61451362 original size:31 final size:31
Alignment explanation
Indices: 61451324--61451405 Score: 155
Period size: 31 Copynumber: 2.6 Consensus size: 31
61451314 ATACCGTTTA
61451324 CAGTAATATGAAATATGAAAAGGCTTCGGCC
1 CAGTAATATGAAATATGAAAAGGCTTCGGCC
61451355 CAGTAATATGAAATATGAAAAGGCTTCGGCC
1 CAGTAATATGAAATATGAAAAGGCTTCGGCC
*
61451386 CAGTATTATGAAATATGAAA
1 CAGTAATATGAAATATGAAA
61451406 TATGAAAAGG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 50 1.00
ACGTcount: A:0.41, C:0.13, G:0.21, T:0.24
Consensus pattern (31 bp):
CAGTAATATGAAATATGAAAAGGCTTCGGCC
Found at i:61454246 original size:26 final size:26
Alignment explanation
Indices: 61454210--61454387 Score: 194
Period size: 27 Copynumber: 6.7 Consensus size: 26
61454200 TTTGGTTTAC
61454210 AAATTACCAAAATACCCTAGTTTGTA
1 AAATTACCAAAATACCCTAGTTTGTA
61454236 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATA-CCCTAGTTTGTA
*
61454263 AAATTATCAAAATACCCTAGTTTGTA
1 AAATTACCAAAATACCCTAGTTTGTA
* *
61454289 AAATTACCAAAATACCCCTAATTTGTG
1 AAATTACCAAAATA-CCCTAGTTTGTA
** * **
61454316 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACCAAAATACCCTAG-TTTGTA
*** * *
61454343 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTAG-TTTGTA
*
61454370 AAATTACCAAAGTACCCT
1 AAATTACCAAAATACCCT
61454388 CGATTTATAG
Statistics
Matches: 132, Mismatches: 17, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
26 43 0.33
27 89 0.67
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.30
Consensus pattern (26 bp):
AAATTACCAAAATACCCTAGTTTGTA
Found at i:61454274 original size:53 final size:53
Alignment explanation
Indices: 61454210--61454387 Score: 205
Period size: 53 Copynumber: 3.3 Consensus size: 53
61454200 TTTGGTTTAC
*
61454210 AAATTACCAAAATACCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCTAGTTTGTAAAATTACCAAAATACCCCTAATTTGTA
* *
61454263 AAATTATCAAAATACCCTAGTTTGTAAAATTACCAAAATACCCCTAATTTGTG
1 AAATTACCAAAATACCCTAGTTTGTAAAATTACCAAAATACCCCTAATTTGTA
** * ** *** * *
61454316 AAATTACTGAAATACCCTCGACCTGTAAAATTATTGAAATA-CCCTCGACTTGTA
1 AAATTACCAAAATACCCTAG-TTTGTAAAATTACCAAAATACCCCT-AATTTGTA
*
61454370 AAATTACCAAAGTACCCT
1 AAATTACCAAAATACCCT
61454388 CGATTTATAG
Statistics
Matches: 105, Mismatches: 18, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
53 70 0.67
54 35 0.33
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.30
Consensus pattern (53 bp):
AAATTACCAAAATACCCTAGTTTGTAAAATTACCAAAATACCCCTAATTTGTA
Found at i:61454402 original size:54 final size:54
Alignment explanation
Indices: 61454210--61454513 Score: 163
Period size: 54 Copynumber: 5.7 Consensus size: 54
61454200 TTTGGTTTAC
* * * * * * *
61454210 AAATTACCAAAATACCCTAG-TTTGTAAAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAGTACCCTCGATTTATAGAATTACCGAAATACCCTCGA-CTTGTA
* * * * * * * * *
61454263 AAATTATCAAAATACCCTAG-TTTGTAAAATTACCAAAATACCC-CTAATTTGTG
1 AAATTACCAAAGTACCCTCGATTTATAGAATTACCGAAATACCCTC-GACTTGTA
* ** * * **
61454316 AAATTACTGAAA-TACCCTCGACCTGTAAAATTATTGAAATACCCTCGACTTGTA
1 AAATTAC-CAAAGTACCCTCGATTTATAGAATTACCGAAATACCCTCGACTTGTA
*** *
61454370 AAATTACCAAAGTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTGTA
1 AAATTACCAAAGTACCCTCGATTTATAGAATTACCGAAATACCCTCGACTTGTA
**** *** *
61454424 AAATTACCGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTC-AGTT-TA
1 AAATTACCAAAGTACCCTCGATTTATAGAATTACCGAAATACCCTCGACTTGTA
* ***
61454476 CAGAATTACTATTTTACCCTCGATTTATAGAATTACCG
1 -A-AATTACCAAAGTACCCTCGATTTATAGAATTACCG
61454514 TTTTACCCTA
Statistics
Matches: 212, Mismatches: 32, Indels: 13
0.82 0.12 0.05
Matches are distributed among these distances:
52 2 0.01
53 68 0.32
54 141 0.67
55 1 0.00
ACGTcount: A:0.35, C:0.21, G:0.10, T:0.34
Consensus pattern (54 bp):
AAATTACCAAAGTACCCTCGATTTATAGAATTACCGAAATACCCTCGACTTGTA
Found at i:61454413 original size:81 final size:80
Alignment explanation
Indices: 61454210--61454429 Score: 196
Period size: 80 Copynumber: 2.8 Consensus size: 80
61454200 TTTGGTTTAC
* * * * * **
61454210 AAATTACCAAAATA-CCCTAGTTTGTAAAATTACCAAAATACCC-CTAGTTTGTAAAATTATCAA
1 AAATTACCAAAATACCCCTAATTTATGAAATTACCGAAATACCCTCGA-CCTGTAAAATTATCAA
*
61454273 AATACCCTAGTTTGTA
65 AATACCCTAGCTTGTA
* * **
61454289 AAATTACCAAAATACCCCTAATTTGTGAAATTACTGAAATACCCTCGACCTGTAAAATTATTGAA
1 AAATTACCAAAATACCCCTAATTTATGAAATTACCGAAATACCCTCGACCTGTAAAATTATCAAA
*
61454354 ATACCCTCGACTTGTA
66 ATACCCTAG-CTTGTA
* * *** **
61454370 AAATTACCAAAGTA-CCCTCGATTTAT-AGAATTACCGTTTTACCCTCGATTTGTAAAATTA
1 AAATTACCAAAATACCCCT-AATTTATGA-AATTACCGAAATACCCTCGACCTGTAAAATTA
61454430 CCGTTTTACC
Statistics
Matches: 116, Mismatches: 20, Indels: 8
0.81 0.14 0.06
Matches are distributed among these distances:
79 14 0.12
80 51 0.44
81 51 0.44
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (80 bp):
AAATTACCAAAATACCCCTAATTTATGAAATTACCGAAATACCCTCGACCTGTAAAATTATCAAA
ATACCCTAGCTTGTA
Found at i:61454535 original size:26 final size:27
Alignment explanation
Indices: 61454382--61454720 Score: 406
Period size: 27 Copynumber: 12.8 Consensus size: 27
61454372 ATTACCAAAG
*
61454382 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
** *
61454409 TACCCTCGATTTGTAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
61454436 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
**
61454463 TACCCTC-AGTTTACAGAATTACTATTT
1 TACCCTCGA-TTTACAGAATTACCGTTT
*
61454490 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
61454517 TACCCT-AATTTACATAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
61454543 TACCC-CAATTTACATAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
61454569 TACCCTCGATTTACAGAATTA-CG-TT
1 TACCCTCGATTTACAGAATTACCGTTT
*
61454594 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
61454621 TACCCTCGATTTATAGAATTA--TTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
61454646 TACCCTTGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
61454673 TACCCTTGATTTACA-AATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
61454699 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
61454721 TAAAATACCC
Statistics
Matches: 277, Mismatches: 26, Indels: 18
0.86 0.08 0.06
Matches are distributed among these distances:
25 44 0.16
26 73 0.26
27 159 0.57
28 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:61454606 original size:52 final size:53
Alignment explanation
Indices: 61454382--61454720 Score: 375
Period size: 52 Copynumber: 6.4 Consensus size: 53
61454372 ATTACCAAAG
* ** * *
61454382 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTGTAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACAG-TT
* *
61454436 TACCCTCGATTTATAGAATTACCGTTTTACCCTC-AGTTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGA-TTTACAGAATTAC-AGTT
* * * *
61454490 TACCCTCGATTTATAGAATTACCGTTTTACCCT-AATTTACATAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTA-CAGTT
* * *
61454543 TACCC-CAATTTACATAATTATCGTTTTACCCTCGATTTACAGAATTAC-GTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACAGTT
* * **
61454594 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTA-TTTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACAGTT
* * * * *
61454646 TACCCTTGATTTACAAAATTACTGTTTTACCCTTGATTTACA-AATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACAG-TT
*
61454699 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
61454721 TAAAATACCC
Statistics
Matches: 249, Mismatches: 27, Indels: 19
0.84 0.09 0.06
Matches are distributed among these distances:
51 12 0.05
52 100 0.40
53 56 0.22
54 81 0.33
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (53 bp):
TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACAGTT
Found at i:61455987 original size:25 final size:25
Alignment explanation
Indices: 61455958--61456005 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
61455948 TTATAATATG
* * *
61455958 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
61455983 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
61456006 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:61456074 original size:20 final size:20
Alignment explanation
Indices: 61456049--61456107 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
61456039 TAAATATGGT
61456049 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
* *
61456069 ATGTATGCTATGCACATGAT
1 ATGTATGATATGCACATGAA
61456089 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
61456108 GGTAATCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:61456187 original size:22 final size:23
Alignment explanation
Indices: 61456159--61456293 Score: 190
Period size: 22 Copynumber: 6.0 Consensus size: 23
61456149 AGGAAGTGAA
61456159 AAAGGGCTTATG-CCCAGTTATC
1 AAAGGGCTTATGCCCCAGTTATC
61456181 AAAGGGCTTATG-CCCAGTTATC
1 AAAGGGCTTATGCCCCAGTTATC
61456203 AAAAGGGCTTATGCCCCAGTTATC
1 -AAAGGGCTTATGCCCCAGTTATC
61456227 AAAAGGGC-T-TGCCCCAGTTAT-
1 -AAAGGGCTTATGCCCCAGTTATC
*
61456248 AAAGGGCTTATGCCCCAGTTATTG
1 AAAGGGCTTATGCCCCAGTTA-TC
*
61456272 AAAGGGCTTTTGCCCCAGTTAT
1 AAAGGGCTTATGCCCCAGTTAT
61456294 TAAAAGAGGC
Statistics
Matches: 106, Mismatches: 1, Indels: 11
0.90 0.01 0.09
Matches are distributed among these distances:
20 7 0.07
21 1 0.01
22 45 0.42
23 15 0.14
24 38 0.36
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATC
Found at i:61456225 original size:24 final size:24
Alignment explanation
Indices: 61456158--61456318 Score: 203
Period size: 24 Copynumber: 7.0 Consensus size: 24
61456148 GAGGAAGTGA
61456158 AAAAGGGCTTATG-CCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
61456181 -AAAGGGCTTATG-CCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
61456203 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
61456227 AAAAGGGC-T-TGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
61456248 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
61456271 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
61456295 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
61456319 ATGATAAAGC
Statistics
Matches: 126, Mismatches: 4, Indels: 14
0.88 0.03 0.10
Matches are distributed among these distances:
20 7 0.06
21 1 0.01
22 46 0.37
23 13 0.10
24 48 0.38
25 11 0.09
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:61456276 original size:68 final size:68
Alignment explanation
Indices: 61456158--61456319 Score: 220
Period size: 68 Copynumber: 2.3 Consensus size: 68
61456148 GAGGAAGTGA
61456158 AAAAGGGCTTATG-CCCAGTTATCAAAGGGCTTATGCCCAGTTATCAAAAGGGCTTATGCCCCAG
1 AAAAGGGC-TATGCCCCAGTTAT-AAAGGGCTTATGCCCAGTTATCAAAAGGGCTTATGCCCCAG
61456222 TTATC
64 TTATC
** *
61456227 AAAAGGGCT-TGCCCCAGTTATAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGT
1 AAAAGGGCTATGCCCCAGTTATAAAGGGCTTATG-CCCAGTTATCAAAAGGGCTTATGCCCCAGT
*
61456291 TATT
65 TATC
*
61456295 AAAAGAGGCTAGGCCTCCAGTTATA
1 AAAAG-GGCTATGCC-CCAGTTATA
61456320 TGATAAAGCA
Statistics
Matches: 83, Mismatches: 5, Indels: 8
0.86 0.05 0.08
Matches are distributed among these distances:
67 14 0.17
68 45 0.54
69 12 0.14
70 3 0.04
71 9 0.11
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (68 bp):
AAAAGGGCTATGCCCCAGTTATAAAGGGCTTATGCCCAGTTATCAAAAGGGCTTATGCCCCAGTT
ATC
Found at i:61456551 original size:31 final size:31
Alignment explanation
Indices: 61456505--61456585 Score: 146
Period size: 31 Copynumber: 2.6 Consensus size: 31
61456495 ATACCGTTTA
61456505 CAGTAATA-GAAATATGAAAAGGCTTCGGCC
1 CAGTAATATGAAATATGAAAAGGCTTCGGCC
61456535 CAGTAATATGAAATATGAAAAGGCTTCGGCC
1 CAGTAATATGAAATATGAAAAGGCTTCGGCC
*
61456566 CAGTATTATGAAATATGAAA
1 CAGTAATATGAAATATGAAA
61456586 TATGAAAAGG
Statistics
Matches: 49, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
30 8 0.16
31 41 0.84
ACGTcount: A:0.42, C:0.14, G:0.21, T:0.23
Consensus pattern (31 bp):
CAGTAATATGAAATATGAAAAGGCTTCGGCC
Found at i:61459128 original size:31 final size:31
Alignment explanation
Indices: 61459087--61459150 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
61459077 CCTTTTCATA
*
61459087 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
61459118 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
61459149 TT
1 TT
61459151 ACGGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:61459422 original size:47 final size:47
Alignment explanation
Indices: 61459363--61459501 Score: 208
Period size: 47 Copynumber: 2.9 Consensus size: 47
61459353 GGCCTAGCCT
* * *
61459363 CTTTTAATAACTGGGGCAAAATCCCTTTTTATAACTGGGGCATAAACC
1 CTTTTGATAACTGGGGCATAA-CCCTTTTGATAACTGGGGCATAAACC
* *
61459411 C-TTTGATAACTGGGGCATAAGCCTTTTGATAACTGGGGCATAAGCC
1 CTTTTGATAACTGGGGCATAACCCTTTTGATAACTGGGGCATAAACC
61459457 CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAA
1 CTTTTGATAACTGGGGCATAA-CCCTTTTGATAACTGGGGCATAA
61459502 GTGTAACACC
Statistics
Matches: 83, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
46 24 0.29
47 36 0.43
48 23 0.28
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.30
Consensus pattern (47 bp):
CTTTTGATAACTGGGGCATAACCCTTTTGATAACTGGGGCATAAACC
Found at i:61459502 original size:24 final size:24
Alignment explanation
Indices: 61459358--61459502 Score: 222
Period size: 24 Copynumber: 6.1 Consensus size: 24
61459348 CTAGAGGCCT
* *
61459358 AGCCTCTTTTAATAACTGGGGCAAA
1 AGCC-CTTTTGATAACTGGGGCATA
* *
61459383 ATCCCTTTTTATAACTGGGGCATA
1 AGCCCTTTTGATAACTGGGGCATA
*
61459407 AACCC-TTTGATAACTGGGGCATA
1 AGCCCTTTTGATAACTGGGGCATA
61459430 AG-CCTTTTGATAACTGGGGCATA
1 AGCCCTTTTGATAACTGGGGCATA
61459453 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTGATAACTGGGGCATA
61459477 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTGATAACTGGGGCATA
61459501 AG
1 AG
61459503 TGTAACACCC
Statistics
Matches: 112, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
22 2 0.02
23 38 0.34
24 69 0.62
25 3 0.03
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTGATAACTGGGGCATA
Found at i:61461056 original size:39 final size:40
Alignment explanation
Indices: 61460963--61461071 Score: 139
Period size: 39 Copynumber: 2.8 Consensus size: 40
61460953 TTCACAATTT
* *
61460963 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
61461003 GCACAATTGCCTTC-GGTCTTAACCCGGATGTAATTACCA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
61461042 GCATAAATGTCTTCGGGACTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
61461072 ATCATTCAAT
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
39 32 0.55
40 26 0.45
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.27
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
Found at i:61466535 original size:39 final size:40
Alignment explanation
Indices: 61466442--61466550 Score: 139
Period size: 39 Copynumber: 2.8 Consensus size: 40
61466432 TTCACAATTT
* *
61466442 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
61466482 GCACAATTGCCTTC-GGTCTTAACCCGGATGTAATTACCA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
61466521 GCATAAATGTCTTCGGGACTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
61466551 ATCATTCAAT
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
39 32 0.55
40 26 0.45
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.27
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
Found at i:61471964 original size:40 final size:40
Alignment explanation
Indices: 61471920--61472029 Score: 139
Period size: 40 Copynumber: 2.8 Consensus size: 40
61471910 TTCACAATTT
* *
61471920 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * * *
61471960 GCACAATTGCCTTCGAGTCTTAACCCGGATGTAATTACCA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
61472000 GCATAAATGTCTTCGGGACTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
61472030 ATCATTCAAT
Statistics
Matches: 58, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 58 1.00
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
Found at i:61473820 original size:20 final size:20
Alignment explanation
Indices: 61473797--61473839 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
61473787 GAACATCTCG
61473797 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
61473817 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
61473837 TGT
1 TGT
61473840 TTATCAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.37
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:61473922 original size:25 final size:25
Alignment explanation
Indices: 61473876--61473923 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
61473866 ATATATAAAC
* * * *
61473876 CCTAGGGGTATAATGGTTATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
61473901 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
61473924 CATATTATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:61475171 original size:27 final size:27
Alignment explanation
Indices: 61475080--61475163 Score: 125
Period size: 27 Copynumber: 3.1 Consensus size: 27
61475070 GGGCATATTC
*
61475080 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCATACAGGGGCT-TTACG
*
61475107 GTCACTTTACCTTACAGGGGCTTTACG
1 GTCACTTTACCATACAGGGGCTTTACG
*
61475134 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCATACAGGGGCTTTACG
61475161 GTC
1 GTC
61475164 TTTTTACCTA
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
27 52 0.98
28 1 0.02
ACGTcount: A:0.20, C:0.25, G:0.23, T:0.32
Consensus pattern (27 bp):
GTCACTTTACCATACAGGGGCTTTACG
Found at i:61475179 original size:27 final size:26
Alignment explanation
Indices: 61475080--61475173 Score: 118
Period size: 27 Copynumber: 3.5 Consensus size: 26
61475070 GGGCATATTC
*
61475080 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACC-TACAGGGGCT-TTACG
61475107 GTCACTTTACCTTACAGGGGCTTTACG
1 GTCACTTTACC-TACAGGGGCTTTACG
61475134 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTA-CCTACAGGGGCTTTACG
**
61475161 GTCTTTTTACCTA
1 GTCACTTTACCTA
61475174 ATAGGGTTAT
Statistics
Matches: 61, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
26 4 0.07
27 54 0.89
28 3 0.05
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.35
Consensus pattern (26 bp):
GTCACTTTACCTACAGGGGCTTTACG
Found at i:61475255 original size:27 final size:27
Alignment explanation
Indices: 61475225--61475319 Score: 86
Period size: 27 Copynumber: 3.4 Consensus size: 27
61475215 GTAAATCTAC
61475225 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
*
61475252 AAACCAATGGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTTC-AGTAATTTTGT
* * *
61475278 AGAAAGTCAAGGGTATTTCTGTAACTTTGT
1 --AAA-CCAAGGGTATTTCAGTAATTTTGT
* *
61475308 AAATCGAGGGTA
1 AAACCAAGGGTA
61475320 AAATAGTAAT
Statistics
Matches: 56, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
26 1 0.02
27 30 0.54
28 7 0.12
29 17 0.30
30 1 0.02
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.37
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTGT
Found at i:61475328 original size:27 final size:27
Alignment explanation
Indices: 61475305--61475573 Score: 207
Period size: 27 Copynumber: 9.6 Consensus size: 27
61475295 TCTGTAACTT
61475305 TGTAAATCGAGGGTAAAATAGTAATTC
1 TGTAAATCGAGGGTAAAATAGTAATTC
* *
61475332 TGTAAATCAATGGTAAAATAGTAATTC
1 TGTAAATCGAGGGTAAAATAGTAATTC
* * *
61475359 TATAAATCGACGGTAAAA-CGATAATTC
1 TGTAAATCGAGGGTAAAATAG-TAATTC
**
61475386 TGTAAATCGAGGGTAAAACGGTAATTC
1 TGTAAATCGAGGGTAAAATAGTAATTC
** *
61475413 TGTAAGCCGAGGGTAAAACGGGGGTAAAATGGTAATTA
1 TGTAAATCGAGGGTAAAA------T---A--GTAATTC
* *
61475451 TGTAAATCGGGGGTAAAATGGTAATTC
1 TGTAAATCGAGGGTAAAATAGTAATTC
* *
61475478 TGTAAATCAAGGGTAAAACAGTAATTC
1 TGTAAATCGAGGGTAAAATAGTAATTC
* * ** *
61475505 TATAAATCAAGGGTAAAACGGTACTTC
1 TGTAAATCGAGGGTAAAATAGTAATTC
* ** *
61475532 TATAAATCGAGGGTAAAACGGTAATTA
1 TGTAAATCGAGGGTAAAATAGTAATTC
*
61475559 TGTAAATCGGGGGTA
1 TGTAAATCGAGGGTA
61475574 CTTTGGTAAT
Statistics
Matches: 198, Mismatches: 31, Indels: 26
0.78 0.12 0.10
Matches are distributed among these distances:
26 1 0.01
27 174 0.88
28 1 0.01
32 1 0.01
38 21 0.11
ACGTcount: A:0.40, C:0.10, G:0.24, T:0.27
Consensus pattern (27 bp):
TGTAAATCGAGGGTAAAATAGTAATTC
Found at i:61475374 original size:54 final size:54
Alignment explanation
Indices: 61475307--61475566 Score: 234
Period size: 54 Copynumber: 4.6 Consensus size: 54
61475297 TGTAACTTTG
* * **
61475307 TAAATCGAGGGTAAAATAGTAATTCTGTAAATCAATGGTAAAATAGTAATTCTA
1 TAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACGGTAATTCTA
* * *
61475361 TAAATCGACGGTAAAAC-GATAATTCTGTAAATCGAGGGTAAAACGGTAATTCTG
1 TAAATCGAGGGTAAAACAG-TAATTCTGTAAATCAAGGGTAAAACGGTAATTCTA
** * ** * *
61475415 TAAGCCGAGGGTAAAACGGGGGTAAAATGGTAATTATGTAAATCGGGGGTAAAATGGTAATTCTG
1 TAAATCGAGGGTAAAAC---------A--GTAATTCTGTAAATCAAGGGTAAAACGGTAATTCTA
* * *
61475480 TAAATCAAGGGTAAAACAGTAATTCTATAAATCAAGGGTAAAACGGTACTTCTA
1 TAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACGGTAATTCTA
* *
61475534 TAAATCGAGGGTAAAACGGTAATTATGTAAATC
1 TAAATCGAGGGTAAAACAGTAATTCTGTAAATC
61475567 GGGGGTACTT
Statistics
Matches: 166, Mismatches: 27, Indels: 26
0.76 0.12 0.12
Matches are distributed among these distances:
53 1 0.01
54 117 0.70
56 1 0.01
65 46 0.28
66 1 0.01
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.27
Consensus pattern (54 bp):
TAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACGGTAATTCTA
Found at i:61475439 original size:92 final size:92
Alignment explanation
Indices: 61475343--61475525 Score: 249
Period size: 92 Copynumber: 2.0 Consensus size: 92
61475333 GTAAATCAAT
* * *
61475343 GGTAAAATAGTAATTCTATAAATCGACGGTAAAACGATAATTCTGTAAATCGAGGGTAAAACGGT
1 GGTAAAATAGTAATTATATAAATCGACGGTAAAACGATAATTCTGTAAATCAAGGGTAAAACAGT
* * *
61475408 AATTCTGTAAGCCGAGGGTAAAACGGG
66 AATTCTATAAACCAAGGGTAAAACGGG
* * ** * *
61475435 GGTAAAATGGTAATTATGTAAATCGGGGGTAAAATGGTAATTCTGTAAATCAAGGGTAAAACAGT
1 GGTAAAATAGTAATTATATAAATCGACGGTAAAACGATAATTCTGTAAATCAAGGGTAAAACAGT
*
61475500 AATTCTATAAATCAAGGGTAAAACGG
66 AATTCTATAAACCAAGGGTAAAACGG
61475526 TACTTCTATA
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
92 78 1.00
ACGTcount: A:0.40, C:0.10, G:0.25, T:0.25
Consensus pattern (92 bp):
GGTAAAATAGTAATTATATAAATCGACGGTAAAACGATAATTCTGTAAATCAAGGGTAAAACAGT
AATTCTATAAACCAAGGGTAAAACGGG
Found at i:61475449 original size:65 final size:65
Alignment explanation
Indices: 61475370--61475496 Score: 182
Period size: 65 Copynumber: 2.0 Consensus size: 65
61475360 ATAAATCGAC
* * *
61475370 GGTAAAACGATAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAGCCGAGGGTAAAACGGG
1 GGTAAAACGATAATTATGTAAATCGAGGGTAAAACGGTAATTCTGTAAACCAAGGGTAAAACGGG
* * * * *
61475435 GGTAAAATGGTAATTATGTAAATCGGGGGTAAAATGGTAATTCTGTAAATCAAGGGTAAAAC
1 GGTAAAACGATAATTATGTAAATCGAGGGTAAAACGGTAATTCTGTAAACCAAGGGTAAAAC
61475497 AGTAATTCTA
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
65 54 1.00
ACGTcount: A:0.39, C:0.09, G:0.28, T:0.24
Consensus pattern (65 bp):
GGTAAAACGATAATTATGTAAATCGAGGGTAAAACGGTAATTCTGTAAACCAAGGGTAAAACGGG
Found at i:61475465 original size:38 final size:38
Alignment explanation
Indices: 61475387--61475468 Score: 101
Period size: 38 Copynumber: 2.2 Consensus size: 38
61475377 CGATAATTCT
* * *
61475387 GTAAATCGAGGGTAAAACGGTAATTCTGTAAGCCGAGG
1 GTAAAACGAGGGTAAAACGGTAATTATGTAAACCGAGG
* * * *
61475425 GTAAAACGGGGGTAAAATGGTAATTATGTAAATCGGGG
1 GTAAAACGAGGGTAAAACGGTAATTATGTAAACCGAGG
61475463 GTAAAA
1 GTAAAA
61475469 TGGTAATTCT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.38, C:0.09, G:0.32, T:0.22
Consensus pattern (38 bp):
GTAAAACGAGGGTAAAACGGTAATTATGTAAACCGAGG
Found at i:61475518 original size:119 final size:119
Alignment explanation
Indices: 61475306--61475552 Score: 325
Period size: 119 Copynumber: 2.1 Consensus size: 119
61475296 CTGTAACTTT
* * * * *
61475306 GTAAATCGAGGGTAAAATAGTAATTCTGTAAATCAATGGTAAAATAGTAATTCTATAAATCGACG
1 GTAAAACGGGGGTAAAATAGTAATTATGTAAATCAAGGGTAAAATAGTAATTCTATAAATCAACG
* * * *
61475371 GTAAAACGATAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAGCCGAGG
66 GTAAAACGATAATTCTATAAATCAAGGGTAAAACGGTAATTCTATAAACCGAGG
* ** * * *
61475425 GTAAAACGGGGGTAAAATGGTAATTATGTAAATCGGGGGTAAAATGGTAATTCTGTAAATCAAGG
1 GTAAAACGGGGGTAAAATAGTAATTATGTAAATCAAGGGTAAAATAGTAATTCTATAAATCAACG
* *
61475490 GTAAAAC-AGTAATTCTATAAATCAAGGGTAAAACGGTACTTCTATAAATCGAGG
66 GTAAAACGA-TAATTCTATAAATCAAGGGTAAAACGGTAATTCTATAAACCGAGG
61475544 GTAAAACGG
1 GTAAAACGG
61475553 TAATTATGTA
Statistics
Matches: 110, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
118 1 0.01
119 109 0.99
ACGTcount: A:0.40, C:0.10, G:0.23, T:0.26
Consensus pattern (119 bp):
GTAAAACGGGGGTAAAATAGTAATTATGTAAATCAAGGGTAAAATAGTAATTCTATAAATCAACG
GTAAAACGATAATTCTATAAATCAAGGGTAAAACGGTAATTCTATAAACCGAGG
Found at i:61475573 original size:146 final size:146
Alignment explanation
Indices: 61475305--61475573 Score: 421
Period size: 146 Copynumber: 1.8 Consensus size: 146
61475295 TCTGTAACTT
* * *
61475305 TGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCAATGGTAAAATAGTAATTCTATAAATCGAC
1 TGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATAAATCAAC
* * *
61475370 GGTAAAACGATAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAGCCGAGGGTAAAACGGG
66 GGTAAAACGATAATTCTATAAATCGAGGGTAAAACGGTAATTATGTAAACCGAGGGTAAAACGGG
61475435 GGTAAAATGGTAATTA
131 GGTAAAATGGTAATTA
* * *
61475451 TGTAAATCGGGGGTAAAATGGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATAAATCAAG
1 TGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATAAATCAAC
* * * *
61475516 GGTAAAACGGTACTTCTATAAATCGAGGGTAAAACGGTAATTATGTAAATCGGGGGTA
66 GGTAAAACGATAATTCTATAAATCGAGGGTAAAACGGTAATTATGTAAACCGAGGGTA
61475574 CTTTGGTAAT
Statistics
Matches: 110, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
146 110 1.00
ACGTcount: A:0.40, C:0.10, G:0.24, T:0.27
Consensus pattern (146 bp):
TGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATAAATCAAC
GGTAAAACGATAATTCTATAAATCGAGGGTAAAACGGTAATTATGTAAACCGAGGGTAAAACGGG
GGTAAAATGGTAATTA
Found at i:61475596 original size:54 final size:52
Alignment explanation
Indices: 61475434--61475600 Score: 172
Period size: 54 Copynumber: 3.1 Consensus size: 52
61475424 GGTAAAACGG
* *
61475434 GGGTAAAATGGTAATTATGTAAATCGGGGGTAAAATGGTAATTCTGTAAATCAA
1 GGGTAAAACGGTAATTATGTAAATCGGGGGTAAAATGGTAATT-T-TAAATCGA
* * * ** * *
61475488 GGGTAAAACAGTAATTCTATAAATCAAGGGTAAAACGGTACTTCTATAAATCGA
1 GGGTAAAACGGTAATTATGTAAATCGGGGGTAAAATGGTAATT-T-TAAATCGA
***
61475542 GGGTAAAACGGTAATTATGTAAATCGGGGGTACTTTGGTAATTTTACAAGTCGA
1 GGGTAAAACGGTAATTATGTAAATCGGGGGTAAAATGGTAATTTTA-AA-TCGA
61475596 GGGTA
1 GGGTA
61475601 TTTCAATAAT
Statistics
Matches: 91, Mismatches: 20, Indels: 4
0.79 0.17 0.03
Matches are distributed among these distances:
52 2 0.02
53 3 0.03
54 86 0.95
ACGTcount: A:0.37, C:0.09, G:0.25, T:0.29
Consensus pattern (52 bp):
GGGTAAAACGGTAATTATGTAAATCGGGGGTAAAATGGTAATTTTAAATCGA
Found at i:61479517 original size:48 final size:48
Alignment explanation
Indices: 61479461--61479637 Score: 230
Period size: 48 Copynumber: 3.7 Consensus size: 48
61479451 TCTCAATACA
* *
61479461 GATGCCATGTCCTAGACATGGTCTTACACTAGCTTTCATAATGTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGTGGCC
** * * * ** *
61479509 GACACCATGTCCCAGACATGGTCTTACACTAGCACACATATTGACGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGTGGCC
* *
61479557 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCAT-ATCGTGGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAAT-GTGGCC
61479605 GATGCCATGTCCCAGACATGGTCTTACACTAGC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGC
61479638 ACACATATCA
Statistics
Matches: 107, Mismatches: 21, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
47 1 0.01
48 106 0.99
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGTGGCC
Found at i:61479576 original size:96 final size:96
Alignment explanation
Indices: 61479461--61479645 Score: 300
Period size: 96 Copynumber: 1.9 Consensus size: 96
61479451 TCTCAATACA
* * *
61479461 GATGCCATGTCCTAGACATGGTCTTACACTAGCTTTCATAAT-GTGGCCGACACCATGTCCCAGA
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCAT-ATCGTGGCCGACACCATGTCCCAGA
61479525 CATGGTCTTACACTAGCACACATATTGACGCT
65 CATGGTCTTACACTAGCACACATATTGACGCT
* **
61479557 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCGTGGTCGATGCCATGTCCCAGAC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCGTGGCCGACACCATGTCCCAGAC
61479622 ATGGTCTTACACTAGCACACATAT
66 ATGGTCTTACACTAGCACACATAT
61479646 CACCCAATGT
Statistics
Matches: 82, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
95 2 0.02
96 80 0.98
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (96 bp):
GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCGTGGCCGACACCATGTCCCAGAC
ATGGTCTTACACTAGCACACATATTGACGCT
Found at i:61484072 original size:14 final size:14
Alignment explanation
Indices: 61484053--61484080 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
61484043 AAAAGCGAAG
61484053 CAAGATCTACGTAA
1 CAAGATCTACGTAA
61484067 CAAGATCTACGTAA
1 CAAGATCTACGTAA
61484081 TGAGGCAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.21, G:0.14, T:0.21
Consensus pattern (14 bp):
CAAGATCTACGTAA
Found at i:61487293 original size:12 final size:12
Alignment explanation
Indices: 61487276--61487306 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
61487266 AGCCGTGTGA
*
61487276 AACACACAGCCT
1 AACACACAACCT
61487288 AACACACAACCT
1 AACACACAACCT
61487300 AACACAC
1 AACACAC
61487307 GGGCATATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.48, C:0.42, G:0.03, T:0.06
Consensus pattern (12 bp):
AACACACAACCT
Found at i:61491326 original size:47 final size:49
Alignment explanation
Indices: 61491206--61491384 Score: 191
Period size: 46 Copynumber: 3.8 Consensus size: 49
61491196 TGTAACCCGC
* * *
61491206 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C-GTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTT-ACAT
*
61491252 CCAT-AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-AGTTACAT
* * *
61491301 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTACAT
*
61491344 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC
61491385 CAAATATCCA
Statistics
Matches: 114, Mismatches: 7, Indels: 21
0.80 0.05 0.15
Matches are distributed among these distances:
43 6 0.05
44 2 0.02
45 32 0.28
46 33 0.29
47 31 0.27
48 3 0.03
49 4 0.04
50 3 0.03
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (49 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTACAT
Found at i:61491380 original size:93 final size:92
Alignment explanation
Indices: 61491214--61491384 Score: 297
Period size: 92 Copynumber: 1.8 Consensus size: 92
61491204 GCCCATAAGT
* *
61491214 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAGTGAACTCGGACTCAACTCAAC
61491279 GAGTTCGGATGCCTAGTTACATCTCAC
66 GAGTTCGGATGCCTAGTTACATCTCAC
* *
61491306 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCAT-AGTGAACTCGGACTCAACTCAA
61491371 CGAGTTCGGATGCC
65 CGAGTTCGGATGCC
61491385 CAAATATCCA
Statistics
Matches: 74, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
92 38 0.51
93 36 0.49
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:61496842 original size:93 final size:93
Alignment explanation
Indices: 61496683--61496853 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
61496673 CCCATAAGTG
* * * *
61496683 AACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATGAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAATGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
61496748 GAGTTCGGATGCCTAGTTACATCTCACA
66 GAGTTCGGATGCCTAGTTACATCTCACA
* * *
61496776 AACTCGGACTCAACTCAATGAGTTCAGACATTTGCATCCATAAGTGAACTTGGACTCAACTCAAC
1 AACTCGGACTCAACTCAATGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
61496841 GAGTTCGGATGCC
66 GAGTTCGGATGCC
61496854 CAAATATCCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.23
Consensus pattern (93 bp):
AACTCGGACTCAACTCAATGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCACA
Found at i:61496845 original size:46 final size:46
Alignment explanation
Indices: 61496674--61496846 Score: 156
Period size: 46 Copynumber: 3.7 Consensus size: 46
61496664 TGTAACCCGC
* * * * * *
61496674 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCAT
* * * *
61496720 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC--A-GAC-ATTTGCAT
* *
61496770 CTCA-CA---AACTCGGACTCAACTCAATGAGTTCAGACATTTGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCAT
*
61496813 CCATAAGTGAACTTGGACTCAACTCAACGAGTTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
61496847 GGATGCCCAA
Statistics
Matches: 101, Mismatches: 17, Indels: 18
0.74 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 8 0.08
44 2 0.02
45 1 0.01
46 54 0.53
47 24 0.24
49 2 0.02
50 6 0.06
51 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCAT
Found at i:61500122 original size:40 final size:40
Alignment explanation
Indices: 61500077--61500284 Score: 206
Period size: 40 Copynumber: 5.2 Consensus size: 40
61500067 TGAATGATAC
*
61500077 CCGGGCTAAGTCCCGAAGGCATTTATGCTAATGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAATGATTATAT
* * *
61500117 CCGGGCTAAGTCCCGAAGGAATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAATGATTATAT
** * *
61500157 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTA-ATGATTATAT
* * ** *
61500197 CCGGGCTAAGACCCGAAGGCATTTGTGC-AAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAA-TGATTATAT
* * * ** *
61500237 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAATGATTATAT
61500277 CC-GGCTAA
1 CCGGGCTAA
61500285 ATTCCGAAGA
Statistics
Matches: 140, Mismatches: 24, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
39 7 0.05
40 131 0.94
41 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCTAATGATTATAT
Found at i:61500212 original size:80 final size:79
Alignment explanation
Indices: 61500077--61500284 Score: 231
Period size: 80 Copynumber: 2.6 Consensus size: 79
61500067 TGAATGATAC
* * * *
61500077 CCGGGCTAAGTCCCGAAGGCATTTATGCTA-ATGATTATATCCGGGCTAAGTCCCGAAGGAATTT
1 CCGGGCTAAGACCCGAAGGCA-TTGTGCTAGTTG-TTATATCCGGGCTAAGACCCGAAGGAATTT
* ** *
61500141 ATGCTAGTGATTATAT
64 ATGCAAGTGACCAAAT
* * *
61500157 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCATT-GTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGGAATTTA
*
61500222 TGCAAGTTACCAAAT
65 TGCAAGTGACCAAAT
* * *
61500237 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAA
1 CCGGGCTAAGACCCGAAGGC-ATTGTGCTAGTTGTTATATCCGGGCTAA
61500285 ATTCCGAAGA
Statistics
Matches: 109, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
79 8 0.07
80 96 0.88
81 5 0.05
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (79 bp):
CCGGGCTAAGACCCGAAGGCATTGTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGGAATTTAT
GCAAGTGACCAAAT
Found at i:61508167 original size:40 final size:40
Alignment explanation
Indices: 61508112--61508318 Score: 258
Period size: 40 Copynumber: 5.2 Consensus size: 40
61508102 TTGAATGATA
* *
61508112 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
*
61508152 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
61508192 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGT--TGTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGAT-TATAT
* * ** *
61508231 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
61508271 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
61508311 CC-GGCTAA
1 CCGGGCTAA
61508319 ATTCCGAAGA
Statistics
Matches: 145, Mismatches: 19, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
38 1 0.01
39 40 0.28
40 104 0.72
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:61508327 original size:79 final size:80
Alignment explanation
Indices: 61508112--61508318 Score: 258
Period size: 79 Copynumber: 2.6 Consensus size: 80
61508102 TTGAATGATA
* * * *
61508112 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCATTTA
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTTATATCCGGGCTAAGACCCGAAGGCATTTA
* ** *
61508177 TGCTAGTGATTATAT
66 TGCAAGTGACCAAAT
* *
61508192 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TATATCCGGGCTAAGACCCGAAGGCATTT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTGGTTATATCCGGGCTAAGACCCGAAGGCATTT
* *
61508255 GTGCAAGTTACCAAAT
65 ATGCAAGTGACCAAAT
* *
61508271 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAA
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTTATATCCGGGCTAA
61508319 ATTCCGAAGA
Statistics
Matches: 108, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
79 73 0.68
80 35 0.32
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTTATATCCGGGCTAAGACCCGAAGGCATTTA
TGCAAGTGACCAAAT
Found at i:61510533 original size:40 final size:40
Alignment explanation
Indices: 61510488--61510655 Score: 178
Period size: 40 Copynumber: 4.2 Consensus size: 40
61510478 CGGAATACAA
61510488 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
61510528 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
61510568 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*** * ** * *
61510608 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
61510648 CCGGATAT
1 CCGGATAT
61510656 CATTCAATTG
Statistics
Matches: 107, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
39 3 0.03
40 102 0.95
41 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:61518492 original size:40 final size:40
Alignment explanation
Indices: 61518447--61518614 Score: 178
Period size: 40 Copynumber: 4.2 Consensus size: 40
61518437 CGGAATACAA
61518447 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
61518487 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
61518527 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*** * ** * *
61518567 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
61518607 CCGGATAT
1 CCGGATAT
61518615 CATTCAATTG
Statistics
Matches: 107, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
39 3 0.03
40 102 0.95
41 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:61526425 original size:7 final size:7
Alignment explanation
Indices: 61526413--61526439 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
61526403 GCCAGGTAAA
61526413 ATTTTAC
1 ATTTTAC
61526420 ATTTTAC
1 ATTTTAC
61526427 ATTTTAC
1 ATTTTAC
61526434 ATTTTA
1 ATTTTA
61526440 ACTAATAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.11, G:0.00, T:0.59
Consensus pattern (7 bp):
ATTTTAC
Found at i:61535427 original size:94 final size:94
Alignment explanation
Indices: 61535261--61535745 Score: 826
Period size: 94 Copynumber: 5.2 Consensus size: 94
61535251 CCCTTCGGGA
* *
61535261 CTTATCACACATATGCACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACACATATACACTTTCACATTCATCACATGGGCCATTAGGCCTTATCACATATATACAC
* *
61535326 TTTCACATCCATCATATTGGCCGTTCGAC
66 TTTCACATCCATCACATTGGCCGTTCGGC
*
61535355 CTTACCACACATATACACTTTCACATTCATCACATGGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACACATATACACTTTCACATTCATCACATGGGCCATTAGGCCTTATCACATATATACAC
61535420 TTTCACATCCATCACATTGGCCGTTCGGC
66 TTTCACATCCATCACATTGGCCGTTCGGC
*
61535449 CTTATCACACATATACACTTTCACATTCATCACATGGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATGGGCCATTAGGCCTTATCACATATATACAC
* * *
61535514 TTTCACATTCATCACATTGGCCATTCGGT
66 TTTCACATCCATCACATTGGCCGTTCGGC
* *
61535543 CTTACCACAAATATACACTTTCACATTCATCACATGGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACACATATACACTTTCACATTCATCACATGGGCCATTAGGCCTTATCACATATATACAC
61535608 TTTCACATCCATCACATTGGCCGTTCGGC
66 TTTCACATCCATCACATTGGCCGTTCGGC
*
61535637 CTTATCACACATATACACTTTCACATTCATCACATGGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATGGGCCATTAGGCCTTATCACATATATACAC
* * * *
61535702 TATCACATTCATCACATTGGCCATTTGGC
66 TTTCACATCCATCACATTGGCCGTTCGGC
61535731 CTTATCACACATATA
1 CTTATCACACATATA
61535746 TGTATATCAT
Statistics
Matches: 368, Mismatches: 23, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
94 368 1.00
ACGTcount: A:0.29, C:0.30, G:0.10, T:0.32
Consensus pattern (94 bp):
CTTATCACACATATACACTTTCACATTCATCACATGGGCCATTAGGCCTTATCACATATATACAC
TTTCACATCCATCACATTGGCCGTTCGGC
Found at i:61535746 original size:47 final size:47
Alignment explanation
Indices: 61535261--61535745 Score: 691
Period size: 47 Copynumber: 10.3 Consensus size: 47
61535251 CCCTTCGGGA
* *
61535261 CTTATCACACATATGCACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * * * * *
61535308 CTTATCACATATATACACTTTCACATCCATCATATTGGCCGTTCGAC
1 CTTATCACACATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
61535355 CTTACCACACATATACACTTTCACATTCATCACATGGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * * *
61535402 CTTATCACATATATACACTTTCACATCCATCACATTGGCCGTTCGGC
1 CTTATCACACATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
61535449 CTTATCACACATATACACTTTCACATTCATCACATGGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * * *
61535496 CTTATCACATATATATACTTTCACATTCATCACATTGGCCATTCGGT
1 CTTATCACACATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * *
61535543 CTTACCACAAATATACACTTTCACATTCATCACATGGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * * *
61535590 CTTATCACATATATACACTTTCACATCCATCACATTGGCCGTTCGGC
1 CTTATCACACATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
61535637 CTTATCACACATATACACTTTCACATTCATCACATGGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * * *
61535684 CTTATCACATATATATACTATCACATTCATCACATTGGCCATTTGGC
1 CTTATCACACATATACACTTTCACATTCATCACATTGGCCATTAGGC
61535731 CTTATCACACATATA
1 CTTATCACACATATA
61535746 TGTATATCAT
Statistics
Matches: 383, Mismatches: 55, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 383 1.00
ACGTcount: A:0.29, C:0.30, G:0.10, T:0.32
Consensus pattern (47 bp):
CTTATCACACATATACACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:61541159 original size:23 final size:24
Alignment explanation
Indices: 61541142--61541232 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
61541132 TGCTGAAAAG
*
61541142 GTAAGCTCTGACGAGCTGA-AATA
1 GTAAGCTCTTACGAGCTGAGAATA
** *
61541165 GTAAGCTGATACGAGCTGAGAACA
1 GTAAGCTCTTACGAGCTGAGAATA
* * * *
61541189 GTGAGCTCTTACGAACTGATATATTG
1 GTAAGCTCTTACGAGCTGAGA-A-TA
61541215 GTAAGCTCTTACGAGCTG
1 GTAAGCTCTTACGAGCTG
61541233 TGGTGAGTCT
Statistics
Matches: 52, Mismatches: 13, Indels: 3
0.76 0.19 0.04
Matches are distributed among these distances:
23 16 0.31
24 19 0.37
25 1 0.02
26 16 0.31
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (24 bp):
GTAAGCTCTTACGAGCTGAGAATA
Found at i:61541201 original size:24 final size:23
Alignment explanation
Indices: 61541133--61541232 Score: 76
Period size: 23 Copynumber: 4.2 Consensus size: 23
61541123 GCTCTATTGT
*
61541133 GCTGAAA-AGGTAAGCTCTGACGA
1 GCTGAAACA-GTAAGCTCTTACGA
* **
61541156 GCTGAAATAGTAAGCTGATACGA
1 GCTGAAACAGTAAGCTCTTACGA
*
61541179 GCTGAGAACAGTGAGCTCTTACGA
1 GCTGA-AACAGTAAGCTCTTACGA
* **
61541203 ACTGATATATTGGTAAGCTCTTACGA
1 GCTGA-A-A-CAGTAAGCTCTTACGA
61541229 GCTG
1 GCTG
61541233 TGGTGAGTCT
Statistics
Matches: 60, Mismatches: 13, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
23 23 0.38
24 20 0.33
25 1 0.02
26 16 0.27
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.24
Consensus pattern (23 bp):
GCTGAAACAGTAAGCTCTTACGA
Found at i:61546298 original size:39 final size:38
Alignment explanation
Indices: 61546167--61546309 Score: 180
Period size: 38 Copynumber: 3.7 Consensus size: 38
61546157 GGCTTGAAGA
* *
61546167 CCCGCAGG-CTATATGCTGGAATTATATCCGGGTTAAAT
1 CCCGCAGGCCTA-GTGCTGGTATTATATCCGGGTTAAAT
* * * * *
61546205 CCCGCAAGCTTCGTACTGGTAATATATCCGGGTTAAAT
1 CCCGCAGGCCTAGTGCTGGTATTATATCCGGGTTAAAT
* *
61546243 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAAGT
1 CCCGCAGGCCTAGTGCTGGTATTATATCCGGGTTAAA-T
61546282 CCCGCAGGCCTAGTGCTGGTATTATATC
1 CCCGCAGGCCTAGTGCTGGTATTATATC
61546310 TGAACTTAAA
Statistics
Matches: 91, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
38 63 0.69
39 28 0.31
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.29
Consensus pattern (38 bp):
CCCGCAGGCCTAGTGCTGGTATTATATCCGGGTTAAAT
Found at i:61546338 original size:40 final size:39
Alignment explanation
Indices: 61546167--61546341 Score: 158
Period size: 38 Copynumber: 4.5 Consensus size: 39
61546157 GGCTTGAAGA
* **
61546167 CCCGCAGGCTATA-TGCTGGAATTATATCCGGGTTAAA-T
1 CCCGCAGGCT-TAGTGCTGGTATTATATCCGACTTAAAGT
* * * * **
61546205 CCCGCAAGCTTCGTACTGGTAATATATCCGGGTTAAA-T
1 CCCGCAGGCTTAGTGCTGGTATTATATCCGACTTAAAGT
* **
61546243 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAAGT
1 CCCGCAGGCTTAGTGCTGGTATTATATCCGACTTAAAGT
* *
61546282 CCCGCAGGCCTAGTGCTGGTATTATATCTGAACTTAAAGT
1 CCCGCAGGCTTAGTGCTGGTATTATATCCG-ACTTAAAGT
* * *
61546322 CTCGCAGGTTTTGTGCTGGT
1 CCCGCAGGCTTAGTGCTGGT
61546342 GACTTGATTC
Statistics
Matches: 117, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
37 1 0.01
38 65 0.56
39 28 0.24
40 23 0.20
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.31
Consensus pattern (39 bp):
CCCGCAGGCTTAGTGCTGGTATTATATCCGACTTAAAGT
Found at i:61557880 original size:38 final size:39
Alignment explanation
Indices: 61557819--61557994 Score: 159
Period size: 38 Copynumber: 4.6 Consensus size: 39
61557809 ATTTGATGTG
* *
61557819 TATCCGGGCTTAAAGACCCGCAGGCTAT-ATGCTGGAATTA
1 TATCCAGG-TTAAAGTCCCGCAGGCT-TCATGCTGGAATTA
**
61557859 TATCTGGGTTAAA-TCCCGCAGGCTTCATGCTGGTAA-TA
1 TATCCAGGTTAAAGTCCCGCAGGCTTCATGCTGG-AATTA
* *
61557897 TATCCAGGTTAAA-TCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCAGGTTAAAGTCCCGCAGGCTTCATGCTGGAATTA
* * *
61557935 TATCCGGGTTAAAGT--CGCAGGCCT-AGTGCTGGTATTA
1 TATCCAGGTTAAAGTCCCGCAGGCTTCA-TGCTGGAATTA
* **
61557972 TATCTAACTTAAAGTCCCGCAGG
1 TATCCAGGTTAAAGTCCCGCAGG
61557995 TTTTGTGCTG
Statistics
Matches: 116, Mismatches: 13, Indels: 15
0.81 0.09 0.10
Matches are distributed among these distances:
37 32 0.28
38 63 0.54
39 14 0.12
40 7 0.06
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.29
Consensus pattern (39 bp):
TATCCAGGTTAAAGTCCCGCAGGCTTCATGCTGGAATTA
Found at i:61557964 original size:37 final size:37
Alignment explanation
Indices: 61557836--61557975 Score: 160
Period size: 38 Copynumber: 3.7 Consensus size: 37
61557826 GCTTAAAGAC
* *
61557836 CCGCAGGCTATA-TGCTGGAATTATATCTGGGTTAAAT
1 CCGCAGGCT-TAGTGCTGGTATTATATCCGGGTTAAAT
* *
61557873 CCCGCAGGCTTCA-TGCTGGTAATATATCCAGGTTAAAT
1 -CCGCAGGCTT-AGTGCTGGTATTATATCCGGGTTAAAT
*
61557911 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAAGT
1 -CCGCAGGCTTAGTGCTGGTATTATATCCGGGTTAAA-T
*
61557950 -CGCAGGCCTAGTGCTGGTATTATATC
1 CCGCAGGCTTAGTGCTGGTATTATATC
61557976 TAACTTAAAG
Statistics
Matches: 90, Mismatches: 9, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
37 25 0.28
38 64 0.71
39 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (37 bp):
CCGCAGGCTTAGTGCTGGTATTATATCCGGGTTAAAT
Found at i:61557984 original size:37 final size:37
Alignment explanation
Indices: 61557886--61557987 Score: 98
Period size: 37 Copynumber: 2.7 Consensus size: 37
61557876 GCAGGCTTCA
* ** * *
61557886 TGCTGGTAATATATCCAGGTTAAA-TCCCGCAGGCTTCG
1 TGCTGGTATTATATCCAACTTAAAGT--CGCAGGCCTAG
***
61557924 TGCTGGTATTATATCCGGGTTAAAGTCGCAGGCCTAG
1 TGCTGGTATTATATCCAACTTAAAGTCGCAGGCCTAG
*
61557961 TGCTGGTATTATATCTAACTTAAAGTC
1 TGCTGGTATTATATCCAACTTAAAGTC
61557988 CCGCAGGTTT
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
37 32 0.58
38 22 0.40
39 1 0.02
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.32
Consensus pattern (37 bp):
TGCTGGTATTATATCCAACTTAAAGTCGCAGGCCTAG
Found at i:61558003 original size:76 final size:76
Alignment explanation
Indices: 61557827--61558006 Score: 204
Period size: 76 Copynumber: 2.4 Consensus size: 76
61557817 TGTATCCGGG
* * * * * *
61557827 CTTAAAGACCCGCAGGCTATATGCTGGAATTATATCTGGGTTAAATCCCGCAGGCTTCATGCTGG
1 CTTAAAGTCCCGCAGGCTTTGTGCTGGTATTATATCCGGGTTAAAT-CCGCAGGCCTCATGCTGG
*
61557892 TAATATATCCAG
65 TAATATATCCAA
* *
61557904 GTTAAA-TCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAAGT-CGCAGGCCT-AGTGCTG
1 CTTAAAGTCCCGCAGGCTTTGTGCTGGTATTATATCCGGGTTAAA-TCCGCAGGCCTCA-TGCTG
* *
61557966 GTATTATATCTAA
64 GTAATATATCCAA
*
61557979 CTTAAAGTCCCGCAGGTTTTGTGCTGGT
1 CTTAAAGTCCCGCAGGCTTTGTGCTGGT
61558007 GACTAGATTC
Statistics
Matches: 86, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
74 1 0.01
75 28 0.33
76 51 0.59
77 6 0.07
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.31
Consensus pattern (76 bp):
CTTAAAGTCCCGCAGGCTTTGTGCTGGTATTATATCCGGGTTAAATCCGCAGGCCTCATGCTGGT
AATATATCCAA
Found at i:61559153 original size:29 final size:29
Alignment explanation
Indices: 61559110--61559205 Score: 115
Period size: 29 Copynumber: 3.4 Consensus size: 29
61559100 AATGTGACTA
61559110 GGCCTAATGGGCCATATAAATGTGATTTG
1 GGCCTAATGGGCCATATAAATGTGATTTG
* * * *
61559139 GGCCTAATGGACCATATATAGGTGATTTA
1 GGCCTAATGGGCCATATAAATGTGATTTG
* *
61559168 GGCCT-ATGGGCCATATGAATATGA-TTG
1 GGCCTAATGGGCCATATAAATGTGATTTG
*
61559195 GGCTTAATGGG
1 GGCCTAATGGG
61559206 TCAGATACAA
Statistics
Matches: 55, Mismatches: 11, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
27 6 0.11
28 19 0.35
29 30 0.55
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (29 bp):
GGCCTAATGGGCCATATAAATGTGATTTG
Found at i:61559205 original size:28 final size:29
Alignment explanation
Indices: 61559095--61559193 Score: 98
Period size: 29 Copynumber: 3.5 Consensus size: 29
61559085 TTGAGCATGA
* *
61559095 ATATGAATGTGA-CTAGGCCTAATGGGCC
1 ATATGAATATGATTTAGGCCTAATGGGCC
* * * *
61559123 ATATAAATGTGATTTGGGCCTAATGGACC
1 ATATGAATATGATTTAGGCCTAATGGGCC
61559152 ATAT--ATAGGTGATTTAGGCCT-ATGGGCC
1 ATATGAATA--TGATTTAGGCCTAATGGGCC
61559180 ATATGAATATGATT
1 ATATGAATATGATT
61559194 GGGCTTAATG
Statistics
Matches: 59, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
27 2 0.03
28 26 0.44
29 28 0.47
30 3 0.05
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.31
Consensus pattern (29 bp):
ATATGAATATGATTTAGGCCTAATGGGCC
Found at i:61559630 original size:8 final size:8
Alignment explanation
Indices: 61559617--61559643 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
61559607 TATGGGGTGC
61559617 GAACGGAG
1 GAACGGAG
61559625 GAACGGAG
1 GAACGGAG
61559633 GAACGGAG
1 GAACGGAG
61559641 GAA
1 GAA
61559644 GTATATGAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.41, C:0.11, G:0.48, T:0.00
Consensus pattern (8 bp):
GAACGGAG
Found at i:61567949 original size:40 final size:40
Alignment explanation
Indices: 61567822--61567951 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
61567812 ATGCTGGAAA
* *
61567822 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
61567862 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
61567902 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
61567942 TTATATCCGG
1 TTATATCCGG
61567952 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 4 0.05
40 74 0.95
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:61571509 original size:49 final size:49
Alignment explanation
Indices: 61571442--61571790 Score: 644
Period size: 49 Copynumber: 7.1 Consensus size: 49
61571432 TACCACATAT
*
61571442 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
61571491 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
61571540 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
61571589 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
61571638 ATATATATACACTTTCACATTCGTCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
61571687 ATATATATACATTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
61571736 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
61571785 ATATAT
1 ATATAT
61571791 TATTATGTAC
Statistics
Matches: 292, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 292 1.00
ACGTcount: A:0.30, C:0.27, G:0.09, T:0.34
Consensus pattern (49 bp):
ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
Found at i:61583218 original size:41 final size:41
Alignment explanation
Indices: 61583154--61583278 Score: 160
Period size: 41 Copynumber: 3.0 Consensus size: 41
61583144 CTTAAAAGCC
* *
61583154 ATCGGTGGATCCATAGTCGTCAAGCAACCATGCGATCCTTA
1 ATCGGTGGATCCACAGTCGTCAAGCAACCATGCGATCCTCA
* * * * *
61583195 ATCGATGGATCCACGGTCATCAAGTACCCATGCGATCCTCA
1 ATCGGTGGATCCACAGTCGTCAAGCAACCATGCGATCCTCA
* * *
61583236 ATTGGTGGATCCACAATCGTCAAGCAACCATACGATCCTCA
1 ATCGGTGGATCCACAGTCGTCAAGCAACCATGCGATCCTCA
61583277 AT
1 AT
61583279 TTCTTCCTCT
Statistics
Matches: 69, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
41 69 1.00
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (41 bp):
ATCGGTGGATCCACAGTCGTCAAGCAACCATGCGATCCTCA
Found at i:61583545 original size:27 final size:27
Alignment explanation
Indices: 61583515--61583585 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
61583505 TTTCACGTTA
* * *
61583515 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTCGATAAATCTACAAAC
* *
61583542 CAAGGGTATTTCGATAATTTTACAAAC
1 CAAGGGTATTTCGATAAATCTACAAAC
* *
61583569 CAATGGTATTTCTATAA
1 CAAGGGTATTTCGATAA
61583586 TTTTTGAAAG
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.34
Consensus pattern (27 bp):
CAAGGGTATTTCGATAAATCTACAAAC
Found at i:61583586 original size:27 final size:27
Alignment explanation
Indices: 61583535--61583850 Score: 251
Period size: 27 Copynumber: 11.7 Consensus size: 27
61583525 TTGGTAAATC
*
61583535 TACAAACCAAGGGTATTTCGATAATTT
1 TACAAATCAAGGGTATTTCGATAATTT
* * *
61583562 TACAAACCAATGGTATTTCTATAATTT
1 TACAAATCAAGGGTATTTCGATAATTT
** *
61583589 TTGAAAGTCAAGGGTATTTTTG-TAATTT
1 TACAAA-TCAAGGGTA-TTTCGATAATTT
** * **
61583617 TGTAAATCAGGGGTATTTTTATAATTT
1 TACAAATCAAGGGTATTTCGATAATTT
*
61583644 TCCAAATCAAGGGTATTTCGATAATTT
1 TACAAATCAAGGGTATTTCGATAATTT
* * * * *
61583671 TCCAAATTAGGGGTATTTTGGTAATTT
1 TACAAATCAAGGGTATTTCGATAATTT
* * *
61583698 TACAAATTAA-GGTATTTAGGTAATTT
1 TACAAATCAAGGGTATTTCGATAATTT
* * *
61583724 TACAAGTCGAGGGTATTTCAATAATTT
1 TACAAATCAAGGGTATTTCGATAATTT
**
61583751 TACAGGTCAAGGGTATTTCGATAATTT
1 TACAAATCAAGGGTATTTCGATAATTT
* * * * *
61583778 CACAAATTAGGGGTATTTTGGTAATTT
1 TACAAATCAAGGGTATTTCGATAATTT
* * * *
61583805 TGCTAATCAAGGGTATTTTGGTAATTT
1 TACAAATCAAGGGTATTTCGATAATTT
**
61583832 TGGAAA-CTAAGGGTATTTC
1 TACAAATC-AAGGGTATTTC
61583851 AGTAATTCTA
Statistics
Matches: 236, Mismatches: 48, Indels: 10
0.80 0.16 0.03
Matches are distributed among these distances:
26 27 0.11
27 189 0.80
28 17 0.07
29 3 0.01
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.41
Consensus pattern (27 bp):
TACAAATCAAGGGTATTTCGATAATTT
Found at i:61583761 original size:107 final size:108
Alignment explanation
Indices: 61583535--61583832 Score: 325
Period size: 107 Copynumber: 2.8 Consensus size: 108
61583525 TTGGTAAATC
* * ** ** * **
61583535 TACAAACCAAGGGTATTTCGATAATTTTACAAACCAATGGTATTTCT-ATAATTTTTGAAAGTCA
1 TACAAATCAAGGGTATTTCGATAATTTCACAAATTAGGGGTATTT-TGGTAATTTTACAAA-TCA
** ** * **
61583599 AGGGTATTTTTGTAATTTTGTAAATC-AGGGGTATTTTTATAATTT
64 AGGGTATTTAGGTAATTTTACAAGTCGA-GGGTATTTCAATAATTT
* *
61583644 TCCAAATCAAGGGTATTTCGATAATTTTC-CAAATTAGGGGTATTTTGGTAATTTTACAAATTAA
1 TACAAATCAAGGGTATTTCGATAA-TTTCACAAATTAGGGGTATTTTGGTAATTTTACAAATCAA
61583708 -GGTATTTAGGTAATTTTACAAGTCGAGGGTATTTCAATAATTT
65 GGGTATTTAGGTAATTTTACAAGTCGAGGGTATTTCAATAATTT
** * *
61583751 TACAGGTCAAGGGTATTTCGATAATTTCACAAATTAGGGGTATTTTGGTAATTTTGCTAATCAAG
1 TACAAATCAAGGGTATTTCGATAATTTCACAAATTAGGGGTATTTTGGTAATTTTACAAATCAAG
*
61583816 GGTATTTTGGTAATTTT
66 GGTATTTAGGTAATTTT
61583833 GGAAACTAAG
Statistics
Matches: 159, Mismatches: 25, Indels: 11
0.82 0.13 0.06
Matches are distributed among these distances:
106 4 0.03
107 87 0.55
108 21 0.13
109 44 0.28
110 3 0.02
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (108 bp):
TACAAATCAAGGGTATTTCGATAATTTCACAAATTAGGGGTATTTTGGTAATTTTACAAATCAAG
GGTATTTAGGTAATTTTACAAGTCGAGGGTATTTCAATAATTT
Found at i:61583876 original size:27 final size:27
Alignment explanation
Indices: 61583846--61583923 Score: 86
Period size: 28 Copynumber: 2.9 Consensus size: 27
61583836 AACTAAGGGT
*
61583846 ATTTCAGTAATTCTACCCTACAGTGGC
1 ATTTCAGTAATTCTACCCTACAGGGGC
* *
61583873 ATTTCAGCAAATTCTACCCTA-ATGGGGT
1 ATTTCAG-TAATTCTACCCTACA-GGGGC
* *
61583901 ATTTCAGTAATACTAGCCTACAG
1 ATTTCAGTAATTCTACCCTACAG
61583924 ATATGAGATT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
27 19 0.45
28 23 0.55
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.32
Consensus pattern (27 bp):
ATTTCAGTAATTCTACCCTACAGGGGC
Found at i:61588185 original size:21 final size:21
Alignment explanation
Indices: 61588159--61588203 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
61588149 ATGCCTGGTA
61588159 AAAGGTATCGACACATTTTGG
1 AAAGGTATCGACACATTTTGG
61588180 AAAGGTATCGACACATTTTGG
1 AAAGGTATCGACACATTTTGG
61588201 AAA
1 AAA
61588204 TCATTGAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.38, C:0.13, G:0.22, T:0.27
Consensus pattern (21 bp):
AAAGGTATCGACACATTTTGG
Found at i:61588542 original size:93 final size:93
Alignment explanation
Indices: 61588379--61588666 Score: 454
Period size: 93 Copynumber: 3.1 Consensus size: 93
61588369 TTAACTTGAT
* * *
61588379 TTTATCAATTTTGCCTAATTTTGTTCAACTTTAA-TTTT-TCTCAAAAACATTTTTATTTGTTAT
1 TTTAACAATTTTGCCCAATTTTGTTCAACTTTAACTTTTAT-TCAAAAACATTTTAATTTGTTAT
*
61588442 ATCAAAACATATTATCAAATAAATCTTAG
65 ATCAAAACATATTATCAAATAAAACTTAG
* *
61588471 TTTAACAATTTTGCCCAATTTTTTTCAACATTAACTTTTATTCAAAAACATTTTAATTTGTTATA
1 TTTAACAATTTTGCCCAATTTTGTTCAACTTTAACTTTTATTCAAAAACATTTTAATTTGTTATA
*
61588536 TCAAAACATATTATCAAATAAAGCTTAG
66 TCAAAACATATTATCAAATAAAACTTAG
* * *
61588564 TTTAATAATTTTGCCCAATTTTGTTCAACTTTAACTTTTATTCAAAAATACTTTAATTTGTTATA
1 TTTAACAATTTTGCCCAATTTTGTTCAACTTTAACTTTTATTCAAAAACATTTTAATTTGTTATA
*
61588629 TCTAAACATATTATCAAATAAAACTTAG
66 TCAAAACATATTATCAAATAAAACTTAG
61588657 TTTAACAATT
1 TTTAACAATT
61588667 ATATAATGTT
Statistics
Matches: 180, Mismatches: 14, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
92 30 0.17
93 149 0.83
94 1 0.01
ACGTcount: A:0.37, C:0.13, G:0.04, T:0.45
Consensus pattern (93 bp):
TTTAACAATTTTGCCCAATTTTGTTCAACTTTAACTTTTATTCAAAAACATTTTAATTTGTTATA
TCAAAACATATTATCAAATAAAACTTAG
Found at i:61592751 original size:55 final size:53
Alignment explanation
Indices: 61592643--61592836 Score: 176
Period size: 55 Copynumber: 3.6 Consensus size: 53
61592633 ATTAGGGTTT
** * * ** *
61592643 AAGGATACTGTGTAAGACCATGCCAAGGCATGAAAATTGGTAAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATG-GCATTGATAA-G-TTCATAAGGC
* * *
61592698 AAGGAAATCATGTAAGACCATGTGAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTT-C-ATAAGGC
* * * * *
61592753 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTCATAAGGC
*
61592806 AAGGATACCATGTAAGACCATGTCAGGACAT
1 AAGGATACCATGTAAGACCATGTCAAGACAT
61592837 AGCAATGGTA
Statistics
Matches: 112, Mismatches: 22, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
52 6 0.05
53 31 0.28
54 8 0.07
55 63 0.56
56 4 0.04
ACGTcount: A:0.36, C:0.16, G:0.26, T:0.22
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTCATAAGGC
Found at i:61593110 original size:16 final size:16
Alignment explanation
Indices: 61593089--61593119 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
61593079 ATAAATTTGA
61593089 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
61593105 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
61593120 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:61598288 original size:24 final size:24
Alignment explanation
Indices: 61598239--61598290 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
61598229 TTGTGGAAGG
* *
61598239 TATGTATGTATGTGCTTTTGTGTA
1 TATGTATGGATGTGCTTATGTGTA
*
61598263 TATGTATGGATGTG-TTCATGTTTA
1 TATGTATGGATGTGCTT-ATGTGTA
61598287 TATG
1 TATG
61598291 GGTATGAAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 2 0.08
24 22 0.92
ACGTcount: A:0.19, C:0.04, G:0.25, T:0.52
Consensus pattern (24 bp):
TATGTATGGATGTGCTTATGTGTA
Found at i:61604418 original size:15 final size:15
Alignment explanation
Indices: 61604368--61604445 Score: 70
Period size: 15 Copynumber: 5.3 Consensus size: 15
61604358 GTATTGTAAT
*
61604368 TTGGATTTCCTTATC
1 TTGGATTTCTTTATC
* *
61604383 TTGGACTTCTCTATC
1 TTGGATTTCTTTATC
* *
61604398 TGGGATTTCTTTATG
1 TTGGATTTCTTTATC
61604413 TTGGATTT-TTTAT-
1 TTGGATTTCTTTATC
* *
61604426 TCTGGGTTTCTCTATC
1 T-TGGATTTCTTTATC
61604442 TTGG
1 TTGG
61604446 TTTTGTGGTT
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
13 1 0.02
14 11 0.22
15 37 0.74
16 1 0.02
ACGTcount: A:0.12, C:0.15, G:0.19, T:0.54
Consensus pattern (15 bp):
TTGGATTTCTTTATC
Found at i:61604430 original size:30 final size:29
Alignment explanation
Indices: 61604370--61604449 Score: 83
Period size: 30 Copynumber: 2.8 Consensus size: 29
61604360 ATTGTAATTT
* *
61604370 GGATTTCCTTATCTTGGACTTCTCTATCTG
1 GGATTTCTTTATCTTGGA-TTTTCTATCTG
* *
61604400 GGATTTCTTTATGTTGGATTTTTTATTCTG
1 GGATTTCTTTATCTTGGATTTTCTA-TCTG
*
61604430 GG-TTTCTCTATCTTGG-TTTT
1 GGATTTCTTTATCTTGGATTTT
61604450 GTGGTTATCC
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
28 4 0.09
29 17 0.40
30 22 0.51
ACGTcount: A:0.11, C:0.15, G:0.19, T:0.55
Consensus pattern (29 bp):
GGATTTCTTTATCTTGGATTTTCTATCTG
Found at i:61607585 original size:59 final size:59
Alignment explanation
Indices: 61607493--61607606 Score: 174
Period size: 59 Copynumber: 1.9 Consensus size: 59
61607483 AGCTCAATTG
*
61607493 ACATGTAATACATGCTAGGGTCCAGGTGCTTTTGAATAGCCCCATTGAGAGGCATTTGA
1 ACATGTAATACATGCTAGGGTCCAGGTGCTTTTGAATAGCCCCATTGACAGGCATTTGA
** * * *
61607552 ACATGTAATACATGCTAGGGTCTGGGTGCTTTTGAGTAGCCTCGTTGACAGGCAT
1 ACATGTAATACATGCTAGGGTCCAGGTGCTTTTGAATAGCCCCATTGACAGGCAT
61607607 GTGATTCCGT
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
59 49 1.00
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (59 bp):
ACATGTAATACATGCTAGGGTCCAGGTGCTTTTGAATAGCCCCATTGACAGGCATTTGA
Found at i:61610254 original size:17 final size:19
Alignment explanation
Indices: 61610212--61610255 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
61610202 ATGAAATTTT
*
61610212 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
61610231 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
61610249 AA-TATTA
1 AATTATTA
61610256 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:61612067 original size:28 final size:27
Alignment explanation
Indices: 61612034--61612102 Score: 113
Period size: 28 Copynumber: 2.6 Consensus size: 27
61612024 AGCGTAGATC
61612034 ACGAAATTACCCCTAAAGAGCAAAATT
1 ACGAAATTACCCCTAAAGAGCAAAATT
*
61612061 ACCGAAATTACCCCTAAAGAGTAAAATT
1 A-CGAAATTACCCCTAAAGAGCAAAATT
61612089 ACGAAA-TACCCCTA
1 ACGAAATTACCCCTA
61612103 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
26 8 0.20
27 6 0.15
28 26 0.65
ACGTcount: A:0.46, C:0.25, G:0.10, T:0.19
Consensus pattern (27 bp):
ACGAAATTACCCCTAAAGAGCAAAATT
Found at i:61614555 original size:17 final size:19
Alignment explanation
Indices: 61614513--61614556 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
61614503 ATGAAATTTT
*
61614513 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
61614532 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
61614550 AA-TATTA
1 AATTATTA
61614557 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:61616421 original size:27 final size:28
Alignment explanation
Indices: 61616341--61616409 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
61616331 GCGTAGATCA
*
61616341 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGTAAAATTAC
61616369 CGAAATTACCCCTAAAGAGTAAAATTAC
1 CGAAATTACCCCTAAAGAGTAAAATTAC
61616397 CGAAA-TACCCCTA
1 CGAAATTACCCCTA
61616410 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.45, C:0.26, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGTAAAATTAC
Found at i:61625309 original size:25 final size:23
Alignment explanation
Indices: 61625281--61625326 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
61625271 TTTGGCCTTA
*
61625281 TTTTAATTCTAGAAACTCTTTGAGC
1 TTTTAATT-GAGAAA-TCTTTGAGC
*
61625306 TTTTGATTGAGAAATCTTTGA
1 TTTTAATTGAGAAATCTTTGA
61625327 CTGTTATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 7 0.37
24 5 0.26
25 7 0.37
ACGTcount: A:0.28, C:0.11, G:0.15, T:0.46
Consensus pattern (23 bp):
TTTTAATTGAGAAATCTTTGAGC
Found at i:61628964 original size:29 final size:29
Alignment explanation
Indices: 61628931--61629003 Score: 146
Period size: 29 Copynumber: 2.5 Consensus size: 29
61628921 GTGACGAGAT
61628931 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
61628960 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
61628989 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
61629004 GAGCTCGAAG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:61629019 original size:29 final size:30
Alignment explanation
Indices: 61628931--61629063 Score: 141
Period size: 29 Copynumber: 4.6 Consensus size: 30
61628921 GTGACGAGAT
61628931 TGGCACTAAGTGTGC-ATGCTGGAAATATA
1 TGGCACTAAGTGTGCGATGCTGGAAATATA
61628960 TGGCACTAAGTGTGC-ATGCTGGAAATATA
1 TGGCACTAAGTGTGCGATGCTGGAAATATA
* ***
61628989 TGGCACTAAGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGCGATGCTGGAAATATA
* * * **
61629018 TGGCACTATGTGTGCG-GGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGATGCTGGAAAT-ATA
61629047 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
61629064 AATCGAGTAT
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
28 2 0.02
29 87 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.26
Consensus pattern (30 bp):
TGGCACTAAGTGTGCGATGCTGGAAATATA
Found at i:61636237 original size:29 final size:29
Alignment explanation
Indices: 61636143--61636215 Score: 146
Period size: 29 Copynumber: 2.5 Consensus size: 29
61636133 GTGACAAGAT
61636143 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
61636172 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
61636201 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
61636216 GAGCTCGAAG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:61640095 original size:27 final size:27
Alignment explanation
Indices: 61640061--61640179 Score: 157
Period size: 27 Copynumber: 4.4 Consensus size: 27
61640051 TGGATAAGTT
*
61640061 GTAGAATTACCGAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
61640088 GTAGAATTACCGAAATACCCTTATAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
61640115 GTAGAAATATCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
61640142 GTAGAATTACCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
61640169 GTAAAATTACC
1 GTAGAATTACC
61640180 ATTTTGCCCC
Statistics
Matches: 79, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 79 1.00
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.24
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:61640224 original size:27 final size:26
Alignment explanation
Indices: 61640180--61640233 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 26
61640170 TAAAATTACC
61640180 ATTTTGCCCCTAGGGTGTTAAATGACT
1 ATTTTGCCCCTAGGGTG-TAAATGACT
* *
61640207 ATTTTGCCCCTCGTGTGTAAATGACT
1 ATTTTGCCCCTAGGGTGTAAATGACT
61640233 A
1 A
61640234 ACTTGTGTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 10 0.40
27 15 0.60
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.37
Consensus pattern (26 bp):
ATTTTGCCCCTAGGGTGTAAATGACT
Found at i:61640858 original size:2 final size:2
Alignment explanation
Indices: 61640853--61640888 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
61640843 ACACACACAC
61640853 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
61640889 GTTCTGGTGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:61649247 original size:49 final size:47
Alignment explanation
Indices: 61649130--61649446 Score: 465
Period size: 47 Copynumber: 6.7 Consensus size: 47
61649120 GATTTTACGC
* * *
61649130 GATGAATGTGAATGTGTATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGT
61649177 GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGT
* *
61649224 GATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTG-AAG-GTGTATATATGTGATAAGGCCGAATGGCCAATGT
* *
61649273 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGG-CAGATGT
1 GATGAATGTG-AAG-GTGTATATATGTGATAAGGCCGAATGGCCA-ATGT
61649322 GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGT
* * *
61649369 GATGAATGTGAAGGTGTATATATGTGATAGGGCCGAGTGGCCAACGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGT
* * *
61649416 GATGGATGTGAAAGTGTATAAATGTGATAAG
1 GATGAATGTGAAGGTGTATATATGTGATAAG
61649447 TCCCGAAGGG
Statistics
Matches: 250, Mismatches: 16, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
47 154 0.62
48 9 0.04
49 87 0.35
ACGTcount: A:0.32, C:0.08, G:0.32, T:0.29
Consensus pattern (47 bp):
GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGT
Found at i:61649254 original size:96 final size:93
Alignment explanation
Indices: 61649130--61649446 Score: 465
Period size: 96 Copynumber: 3.3 Consensus size: 93
61649120 GATTTTACGC
61649130 GATGAATGTGAATGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTA
1 GATGAATGTGAA-GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTA
61649195 TATATGTGATAAGGCCGAATGGCCAATGT
65 TATATGTGATAAGGCCGAATGGCCAATGT
61649224 GATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 GATGAATGTG-AA--GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAG-G
* *
61649289 TATATATATGTGATAAGGCCTAATGG-CAGATGT
61 TGTATATATGTGATAAGGCCGAATGGCCA-ATGT
* *
61649322 GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAGGTGTA
1 GATGAATGTGAA-GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTA
* * *
61649387 TATATGTGATAGGGCCGAGTGGCCAACGT
65 TATATGTGATAAGGCCGAATGGCCAATGT
* *
61649416 GATGGATGTGAAAGTGTATAAATGTGATAAG
1 GATGAATGTG-AAGTGTATATATGTGATAAG
61649447 TCCCGAAGGG
Statistics
Matches: 204, Mismatches: 12, Indels: 14
0.89 0.05 0.06
Matches are distributed among these distances:
94 62 0.30
95 9 0.04
96 87 0.43
97 7 0.03
98 39 0.19
ACGTcount: A:0.32, C:0.08, G:0.32, T:0.29
Consensus pattern (93 bp):
GATGAATGTGAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTAT
ATATGTGATAAGGCCGAATGGCCAATGT
Found at i:61651442 original size:42 final size:41
Alignment explanation
Indices: 61651378--61651589 Score: 214
Period size: 40 Copynumber: 5.2 Consensus size: 41
61651368 CTCGACGATG
* * *
61651378 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGCGATATAT
1 ATCCGGGCTAAATCCCGAAGAGCATTCATGCTGGTG-TATAT
* * * * *
61651420 ATCCGGGTTAAGTCCCGTAGAGCATTCGTGCTGGTGT-TAC
1 ATCCGGGCTAAATCCCGAAGAGCATTCATGCTGGTGTATAT
*
61651460 ATCCGGGCTAAATCCCGAAGAGCATTCATGCTAGTG-ATAT
1 ATCCGGGCTAAATCCCGAAGAGCATTCATGCTGGTGTATAT
* *
61651500 ATCCGGGCTAAATCCCGAAGAGCATTCATGCTAGTG-ATGT
1 ATCCGGGCTAAATCCCGAAGAGCATTCATGCTGGTGTATAT
* * ** * * *
61651540 ATCCGGACCAGGTTCCGAAGAGCAGTCATGCTGGTGATATGT
1 ATCCGGGCTAAATCCCGAAGAGCATTCATGCTGGTG-TATAT
*
61651582 ATTCGGGC
1 ATCCGGGC
61651590 CTTCGTGCCT
Statistics
Matches: 147, Mismatches: 20, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
40 103 0.70
41 1 0.01
42 43 0.29
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (41 bp):
ATCCGGGCTAAATCCCGAAGAGCATTCATGCTGGTGTATAT
Found at i:61651620 original size:43 final size:43
Alignment explanation
Indices: 61651572--61651706 Score: 225
Period size: 43 Copynumber: 3.1 Consensus size: 43
61651562 CAGTCATGCT
61651572 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
1 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
*
61651615 GGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCTTTGTGCC
1 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
* * **
61651658 GGTGATATGTATTCGGGTCTTCGTGCTTAGCAGGCTTAATGCC
1 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
61651701 GGTGAT
1 GGTGAT
61651707 TCGAGCAAGG
Statistics
Matches: 86, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 86 1.00
ACGTcount: A:0.14, C:0.21, G:0.33, T:0.33
Consensus pattern (43 bp):
GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
Found at i:61655563 original size:49 final size:47
Alignment explanation
Indices: 61655446--61655762 Score: 465
Period size: 47 Copynumber: 6.7 Consensus size: 47
61655436 GATTTTACGC
* * *
61655446 GATGAATGTGAATGTGTATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGT
61655493 GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGT
* *
61655540 GATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTG-AAG-GTGTATATATGTGATAAGGCCGAATGGCCAATGT
* *
61655589 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGG-CAGATGT
1 GATGAATGTG-AAG-GTGTATATATGTGATAAGGCCGAATGGCCA-ATGT
61655638 GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGT
* * *
61655685 GATGAATGTGAAGGTGTATATATGTGATAGGGCCGAGTGGCCAACGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGT
* * *
61655732 GATGGATGTGAAAGTGTATAAATGTGATAAG
1 GATGAATGTGAAGGTGTATATATGTGATAAG
61655763 TCCCGAAGGG
Statistics
Matches: 250, Mismatches: 16, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
47 154 0.62
48 9 0.04
49 87 0.35
ACGTcount: A:0.32, C:0.08, G:0.32, T:0.29
Consensus pattern (47 bp):
GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGT
Found at i:61655570 original size:96 final size:93
Alignment explanation
Indices: 61655446--61655762 Score: 465
Period size: 96 Copynumber: 3.3 Consensus size: 93
61655436 GATTTTACGC
61655446 GATGAATGTGAATGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTA
1 GATGAATGTGAA-GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTA
61655511 TATATGTGATAAGGCCGAATGGCCAATGT
65 TATATGTGATAAGGCCGAATGGCCAATGT
61655540 GATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 GATGAATGTG-AA--GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAG-G
* *
61655605 TATATATATGTGATAAGGCCTAATGG-CAGATGT
61 TGTATATATGTGATAAGGCCGAATGGCCA-ATGT
* *
61655638 GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAGGTGTA
1 GATGAATGTGAA-GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTA
* * *
61655703 TATATGTGATAGGGCCGAGTGGCCAACGT
65 TATATGTGATAAGGCCGAATGGCCAATGT
* *
61655732 GATGGATGTGAAAGTGTATAAATGTGATAAG
1 GATGAATGTG-AAGTGTATATATGTGATAAG
61655763 TCCCGAAGGG
Statistics
Matches: 204, Mismatches: 12, Indels: 14
0.89 0.05 0.06
Matches are distributed among these distances:
94 62 0.30
95 9 0.04
96 87 0.43
97 7 0.03
98 39 0.19
ACGTcount: A:0.32, C:0.08, G:0.32, T:0.29
Consensus pattern (93 bp):
GATGAATGTGAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTAT
ATATGTGATAAGGCCGAATGGCCAATGT
Found at i:61657175 original size:47 final size:47
Alignment explanation
Indices: 61657124--61657361 Score: 386
Period size: 47 Copynumber: 5.1 Consensus size: 47
61657114 TTCCACGTTT
* **
61657124 ATCACATTAGCCATTCTACCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
61657171 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
*
61657218 ATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
61657265 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
* * * * **
61657312 ATCACATTGGCCATTAGGCCTTATCTCATATATACACATTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
61657359 ATC
1 ATC
61657362 TCATAAAATC
Statistics
Matches: 180, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 180 1.00
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.33
Consensus pattern (47 bp):
ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
Found at i:61657198 original size:22 final size:22
Alignment explanation
Indices: 61657171--61657292 Score: 65
Period size: 22 Copynumber: 5.3 Consensus size: 22
61657161 GTTCACATTC
61657171 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* *
61657193 ATCACACATAT-G-CATGTTC-ACATT
1 AT--CACAT-TGGCCA--TTCGGCCTT
61657217 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * *
61657240 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
61657264 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
61657287 ATCACA
1 ATCACA
61657293 CATATGCATG
Statistics
Matches: 74, Mismatches: 10, Indels: 32
0.64 0.09 0.28
Matches are distributed among these distances:
22 22 0.30
23 18 0.24
24 18 0.24
25 16 0.22
ACGTcount: A:0.25, C:0.30, G:0.13, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:61662816 original size:29 final size:29
Alignment explanation
Indices: 61662769--61662857 Score: 110
Period size: 29 Copynumber: 3.1 Consensus size: 29
61662759 GTGAGCATTG
* * *
61662769 ATAT-AATATGATTTAGGCCTAATGGGCC
1 ATATGAATATGAATTGGGCCTAGTGGGCC
61662797 ATATGAATATGAATTGGGCCTAGTGGGCC
1 ATATGAATATGAATTGGGCCTAGTGGGCC
* * *
61662826 ATTTGAATAAG-ATTGGGCCTAGTGGGCT
1 ATATGAATATGAATTGGGCCTAGTGGGCC
61662854 ATAT
1 ATAT
61662858 ACCTATATGT
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
28 23 0.43
29 30 0.57
ACGTcount: A:0.29, C:0.12, G:0.27, T:0.31
Consensus pattern (29 bp):
ATATGAATATGAATTGGGCCTAGTGGGCC
Done.