Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 84 of 328
Found at i:23432098 original size:63 final size:64
Alignment explanation
Indices: 23431985--23432108 Score: 223
Period size: 63 Copynumber: 2.0 Consensus size: 64
23431975 AATATGTCTT
*
23431985 GACCGAAGTAATTATGTGCAAGAGATTTGAAGATGGTTTGAACAAATATATCTGCTTGTTACTC
1 GACCGAAGCAATTATGTGCAAGAGATTTGAAGATGGTTTGAACAAATATATCTGCTTGTTACTC
*
23432049 GACCGAAGCAATTATGTGCAAGATATTT-AAGATGGTTTGAACAAATATATCTGCTTGTTA
1 GACCGAAGCAATTATGTGCAAGAGATTTGAAGATGGTTTGAACAAATATATCTGCTTGTTA
23432109 GTTGGGATTC
Statistics
Matches: 58, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
63 32 0.55
64 26 0.45
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (64 bp):
GACCGAAGCAATTATGTGCAAGAGATTTGAAGATGGTTTGAACAAATATATCTGCTTGTTACTC
Found at i:23436995 original size:2 final size:2
Alignment explanation
Indices: 23436988--23437012 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
23436978 TCATTAGAAA
23436988 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
23437013 CACGCATGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:23437741 original size:27 final size:27
Alignment explanation
Indices: 23437703--23437757 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
23437693 TATAAAATAG
23437703 AATAACAAGAACACACAGAGTAAGCTA
1 AATAACAAGAACACACAGAGTAAGCTA
23437730 AATAACAAGAACACACAGAGTAAGCTA
1 AATAACAAGAACACACAGAGTAAGCTA
23437757 A
1 A
23437758 CTTAGCTTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.56, C:0.18, G:0.15, T:0.11
Consensus pattern (27 bp):
AATAACAAGAACACACAGAGTAAGCTA
Found at i:23440134 original size:31 final size:31
Alignment explanation
Indices: 23440093--23440156 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
23440083 CCTTTTCATA
*
23440093 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
23440124 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
23440155 TT
1 TT
23440157 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:23440401 original size:24 final size:24
Alignment explanation
Indices: 23440364--23440538 Score: 266
Period size: 24 Copynumber: 7.4 Consensus size: 24
23440354 CTAGAGGCCT
*
23440364 AGCCTCTTTTAATAACTGGGGCAAA
1 AGCC-CTTTTAATAACTGGGGCATA
23440389 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
23440413 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
23440436 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
* *
23440460 AGCCC-TTTAATAACTAGAGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
23440483 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
23440507 AGCCC-TTTAATAACTAGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
23440530 AGCCCTTTT
1 AGCCCTTTT
23440539 GCACTTCCTC
Statistics
Matches: 137, Mismatches: 10, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
23 64 0.47
24 69 0.50
25 4 0.03
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:23440424 original size:47 final size:47
Alignment explanation
Indices: 23440371--23440539 Score: 293
Period size: 47 Copynumber: 3.6 Consensus size: 47
23440361 CCTAGCCTCT
* * *
23440371 TTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTAGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
*
23440418 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
1 TTTAATAACTAGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
*
23440465 TTTAATAACTAGAGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
1 TTTAATAACTAGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
23440512 TTTAATAACTAGGGCATAAGCCCTTTTG
1 TTTAATAACTAGGGCATAAGCCCTTTTG
23440540 CACTTCCTCC
Statistics
Matches: 117, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 117 1.00
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (47 bp):
TTTAATAACTAGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
Found at i:23440425 original size:23 final size:23
Alignment explanation
Indices: 23440371--23440537 Score: 253
Period size: 23 Copynumber: 7.1 Consensus size: 23
23440361 CCTAGCCTCT
*
23440371 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
23440394 TTTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
23440418 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
23440441 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
* *
23440465 TTTAATAACTAGAGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
23440488 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
*
23440512 TTTAATAACTAGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
23440535 TTT
1 TTT
23440538 TGCACTTCCT
Statistics
Matches: 131, Mismatches: 10, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
23 67 0.51
24 64 0.49
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:23440610 original size:9 final size:9
Alignment explanation
Indices: 23440596--23440652 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
23440586 ATCTCATGTG
23440596 CATATCATA
1 CATATCATA
*
23440605 CATATCATGTG
1 CATATCA--TA
23440616 CATATCATA
1 CATATCATA
* *
23440625 CATGTCATGTG
1 CATATCA--TA
23440636 CATATCATA
1 CATATCATA
23440645 CATATCAT
1 CATATCAT
23440653 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:23440612 original size:20 final size:20
Alignment explanation
Indices: 23440584--23440654 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
23440574 GCATTTATGA
*
23440584 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
23440604 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
23440624 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
23440644 ACATATCATGT
1 ACATATCATGT
23440655 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:23440619 original size:11 final size:11
Alignment explanation
Indices: 23440589--23440643 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
23440579 TATGAACATC
23440589 TCATGTGCATA
1 TCATGTGCATA
*
23440600 TCA--TACATA
1 TCATGTGCATA
23440609 TCATGTGCATA
1 TCATGTGCATA
* *
23440620 TCA--TACATG
1 TCATGTGCATA
23440629 TCATGTGCATA
1 TCATGTGCATA
23440640 TCAT
1 TCAT
23440644 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:23440737 original size:25 final size:25
Alignment explanation
Indices: 23440691--23440738 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
23440681 ATATATAAAC
* * * *
23440691 CCTAGGGGTATAATGGTTATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
23440716 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
23440739 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:23441926 original size:27 final size:26
Alignment explanation
Indices: 23441896--23441973 Score: 68
Period size: 27 Copynumber: 2.9 Consensus size: 26
23441886 AGGCATATTC
23441896 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACC-TACAGGGGTATTACG
* *
23441923 GTCACTTTACCCTACAAGGGCT-TTACG
1 GTCATTTTA-CCTAC-AGGGGTATTACG
* * *
23441950 ATCTTTTTACCTAATAGGGGTATT
1 GTCATTTTACCT-ACAGGGGTATT
23441974 TTAGTCATTT
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
26 8 0.20
27 25 0.62
28 7 0.17
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (26 bp):
GTCATTTTACCTACAGGGGTATTACG
Found at i:23442044 original size:27 final size:27
Alignment explanation
Indices: 23441991--23442243 Score: 159
Period size: 27 Copynumber: 9.3 Consensus size: 27
23441981 TTTCATCCTA
* * * * *
23441991 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTCGGTAATTTTACAAAT
* ** *
23442018 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTCGGTAATTTTACAAAT
* ** *
23442045 CAATGGTATTTCTATAATTTTTAGAAAGT
1 CAAGGGTATTTCGGTAA-TTTTACAAA-T
* * * **
23442074 CAAGGGCATTTCTGTAACTTTGTAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAT
* *
23442101 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAT
** *
23442128 TGAGGGTATTTCGGTAATTTCACAAA-
1 CAAGGGTATTTCGGTAATTTTACAAAT
* *
23442154 CCAGTGGTATTTTGGTAATTTTACAAA-
1 CAAG-GGTATTTCGGTAATTTTACAAAT
* *
23442181 CTAGGGGTATTTTGGTAATTTTACAAAT
1 C-AAGGGTATTTCGGTAATTTTACAAAT
** * **
23442209 TGAGGGTATTTCTGTAATTTTGTAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAT
*
23442236 CGAGGGTA
1 CAAGGGTA
23442244 AAATAGTAAT
Statistics
Matches: 176, Mismatches: 45, Indels: 10
0.76 0.19 0.04
Matches are distributed among these distances:
26 2 0.01
27 146 0.83
28 14 0.08
29 14 0.08
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTCGGTAATTTTACAAAT
Found at i:23442252 original size:27 final size:27
Alignment explanation
Indices: 23442222--23442497 Score: 237
Period size: 27 Copynumber: 9.8 Consensus size: 27
23442212 GGGTATTTCT
* *
23442222 GTAATTTTGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAATG
* * *
23442249 GTAATTCTATAAATCAAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAATG
* * *
23442276 GTAATTCTATAAATCGACGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* * *
23442303 ATAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATG
*
23442330 GTAATTCTGTAAGTCGAGGGTAAAACGGGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGT--AA-------AA--TG
* * *
23442368 GTAATTATGTAAATTGGGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* *
23442395 GTAATTATGTAAATCGGGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* *
23442422 GTAATTCTGTAAATCAAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* * *
23442449 GTACTTCTATAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* *
23442476 GTAATTATGTAAATCGGGGGTA
1 GTAATTCTGTAAATCGAGGGTA
23442498 CTTCAATAAT
Statistics
Matches: 207, Mismatches: 31, Indels: 22
0.80 0.12 0.08
Matches are distributed among these distances:
27 181 0.87
29 4 0.02
36 4 0.02
38 18 0.09
ACGTcount: A:0.39, C:0.08, G:0.25, T:0.29
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAATG
Found at i:23442270 original size:81 final size:80
Alignment explanation
Indices: 23442096--23442351 Score: 210
Period size: 81 Copynumber: 3.2 Consensus size: 80
23442086 TGTAACTTTG
* *** *
23442096 TAAATCAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAA-CCAGTG
1 TAAATCAAGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTC-GTAATTTTGTAAATCGAG-G
*** *
23442160 GTATTTTGGTAATTTTA
64 GTAAAATGGTAATTCTA
* *
23442177 CAAA-CTAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCTGTAATTTTGTAAATCGAGG
1 TAAATC-AAGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTC-GTAATTTTGTAAATCGAGG
*
23442241 GTAAAATAGTAATTCTA
64 GTAAAATGGTAATTCTA
*** * * * * * ***
23442258 TAAATCAAGGGTAAAATAGTAATTCTATAAATCGACGGTAAAACGATAATTTTGTAAATCGAGGG
1 TAAATCAAGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCG-TAATTTTGTAAATCGAGGG
* *
23442323 TAAAACGGTAATTCTG
65 TAAAATGGTAATTCTA
* *
23442339 TAAGTCGAGGGTA
1 TAAATCAAGGGTA
23442352 AAACGGGGGT
Statistics
Matches: 142, Mismatches: 29, Indels: 8
0.79 0.16 0.04
Matches are distributed among these distances:
80 2 0.01
81 136 0.96
82 4 0.03
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (80 bp):
TAAATCAAGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGTAATTTTGTAAATCGAGGGT
AAAATGGTAATTCTA
Found at i:23442352 original size:81 final size:81
Alignment explanation
Indices: 23442222--23442497 Score: 282
Period size: 81 Copynumber: 3.3 Consensus size: 81
23442212 GGGTATTTCT
* * *
23442222 GTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCAAGGGTAAAATAGTAATTCTATA
1 GTAATTATGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCAAGGGTAAAATAGTAATTCTATA
*
23442287 AATCGACGGTAAAACG
66 AATCGAGGGTAAAACG
* * * * *
23442303 ATAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAGTCGAGGGTAAAACGGGGGTAAAATG
1 GTAATTATGTAAATCGAGGGTAAAATGGTAATTCTGTAA----A---T-CAA---GGGTAAAATA
* * * * *
23442368 GTAATTATGTAAATTGGGGGTAAAATG
55 GTAATTCTATAAATCGAGGGTAAAACG
* ** *
23442395 GTAATTATGTAAATCGGGGGTAAAATGGTAATTCTGTAAATCAAGGGTAAAACGGTACTTCTATA
1 GTAATTATGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCAAGGGTAAAATAGTAATTCTATA
23442460 AATCGAGGGTAAAACG
66 AATCGAGGGTAAAACG
*
23442476 GTAATTATGTAAATCGGGGGTA
1 GTAATTATGTAAATCGAGGGTA
23442498 CTTCAATAAT
Statistics
Matches: 160, Mismatches: 24, Indels: 22
0.78 0.12 0.11
Matches are distributed among these distances:
81 87 0.54
84 2 0.01
85 2 0.01
88 2 0.01
89 2 0.01
92 65 0.41
ACGTcount: A:0.39, C:0.08, G:0.25, T:0.29
Consensus pattern (81 bp):
GTAATTATGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCAAGGGTAAAATAGTAATTCTATA
AATCGAGGGTAAAACG
Found at i:23442381 original size:92 final size:92
Alignment explanation
Indices: 23442266--23442449 Score: 251
Period size: 92 Copynumber: 2.0 Consensus size: 92
23442256 TATAAATCAA
* *
23442266 GGGTAAAATAGTAATTCTATAAATCGACGGTAAAACGATAATTTTGTAAATCGAGGGTAAAACGG
1 GGGTAAAATAGTAATTATATAAATCGACGGTAAAACGATAATTATGTAAATCGAGGGTAAAACGG
* *
23442331 TAATTCTGTAAGTCGAGGGTAAAACGG
66 TAATTCTGTAAATCAAGGGTAAAACGG
* * * ** * * * *
23442358 GGGTAAAATGGTAATTATGTAAATTGGGGGTAAAATGGTAATTATGTAAATCGGGGGTAAAATGG
1 GGGTAAAATAGTAATTATATAAATCGACGGTAAAACGATAATTATGTAAATCGAGGGTAAAACGG
23442423 TAATTCTGTAAATCAAGGGTAAAACGG
66 TAATTCTGTAAATCAAGGGTAAAACGG
23442450 TACTTCTATA
Statistics
Matches: 79, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
92 79 1.00
ACGTcount: A:0.39, C:0.07, G:0.27, T:0.27
Consensus pattern (92 bp):
GGGTAAAATAGTAATTATATAAATCGACGGTAAAACGATAATTATGTAAATCGAGGGTAAAACGG
TAATTCTGTAAATCAAGGGTAAAACGG
Found at i:23442389 original size:38 final size:38
Alignment explanation
Indices: 23442311--23442392 Score: 101
Period size: 38 Copynumber: 2.2 Consensus size: 38
23442301 CGATAATTTT
* * *
23442311 GTAAATCGAGGGTAAAACGGTAATTCTGTAAGTCGAGG
1 GTAAAACGAGGGTAAAACGGTAATTATGTAAATCGAGG
* * * *
23442349 GTAAAACGGGGGTAAAATGGTAATTATGTAAATTGGGG
1 GTAAAACGAGGGTAAAACGGTAATTATGTAAATCGAGG
23442387 GTAAAA
1 GTAAAA
23442393 TGGTAATTAT
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:0.06, G:0.32, T:0.24
Consensus pattern (38 bp):
GTAAAACGAGGGTAAAACGGTAATTATGTAAATCGAGG
Found at i:23442442 original size:119 final size:119
Alignment explanation
Indices: 23442230--23442476 Score: 314
Period size: 119 Copynumber: 2.1 Consensus size: 119
23442220 CTGTAATTTT
* * * *
23442230 GTAAATCGAGGGTAAAATAGTAATTCTATAAATCAAGGGTAAAATAGTAATTCTATAAATCGACG
1 GTAAAACGGGGGTAAAATAGTAATTATATAAATCAAGGGTAAAATAGTAATTATATAAATCGACG
* * * *
23442295 GTAAAACGATAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAGTCGAGG
66 GTAAAACGATAATTCTGTAAATCAAGGGTAAAACGGTAATTCTATAAATCGAGG
* * *** * * **
23442349 GTAAAACGGGGGTAAAATGGTAATTATGTAAATTGGGGGTAAAATGGTAATTATGTAAATCGGGG
1 GTAAAACGGGGGTAAAATAGTAATTATATAAATCAAGGGTAAAATAGTAATTATATAAATCGACG
* * *
23442414 GTAAAATGGTAATTCTGTAAATCAAGGGTAAAACGGTACTTCTATAAATCGAGG
66 GTAAAACGATAATTCTGTAAATCAAGGGTAAAACGGTAATTCTATAAATCGAGG
23442468 GTAAAACGG
1 GTAAAACGG
23442477 TAATTATGTA
Statistics
Matches: 108, Mismatches: 20, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
119 108 1.00
ACGTcount: A:0.40, C:0.08, G:0.25, T:0.27
Consensus pattern (119 bp):
GTAAAACGGGGGTAAAATAGTAATTATATAAATCAAGGGTAAAATAGTAATTATATAAATCGACG
GTAAAACGATAATTCTGTAAATCAAGGGTAAAACGGTAATTCTATAAATCGAGG
Found at i:23458077 original size:44 final size:43
Alignment explanation
Indices: 23457933--23458091 Score: 198
Period size: 43 Copynumber: 3.7 Consensus size: 43
23457923 AGCTAGTACA
* * *
23457933 ATGCTAATGTCCCAAACATGGTCTTACATGT-AATCAAATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCAAATAT-G
** * *
23457976 ATGCCGCTGTCCCAGACAGGGTCTTACACG-AAATCAAATATT
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCAAATATG
23458018 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCATAAGT-TG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCA-AA-TATG
*
23458062 ATGCCAATGTCCCAGACGTGGTCTTACACG
1 ATGCCAATGTCCCAGACATGGTCTTACACG
23458092 AATACACATA
Statistics
Matches: 100, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
42 27 0.27
43 40 0.40
44 32 0.32
45 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCAAATATG
Found at i:23458085 original size:86 final size:85
Alignment explanation
Indices: 23457933--23458093 Score: 220
Period size: 86 Copynumber: 1.9 Consensus size: 85
23457923 AGCTAGTACA
* * **
23457933 ATGCTAATGTCCCAAACATGGTCTTACATGTAATCAAATATCGATGCCGCTGTCCCAGACAGGGT
1 ATGCCAATGTCCCAAACATGGTCTTACACGTAATCAAATATCGATGCCAATGTCCCAGACAGGGT
23457998 CTTACACGAAATCAAATATT
66 CTTACACGAAATCAAATATT
*
23458018 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCATAAGT-T-GATGCCAATGTCCCAGAC-G
1 ATGCCAATGTCCCAAACATGGTCTTACACGT-AATCA-AA-TATCGATGCCAATGTCCCAGACAG
23458080 TGGTCTTACACGAA
63 -GGTCTTACACGAA
23458094 TACACATATC
Statistics
Matches: 67, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
85 29 0.43
86 34 0.51
87 3 0.04
88 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (85 bp):
ATGCCAATGTCCCAAACATGGTCTTACACGTAATCAAATATCGATGCCAATGTCCCAGACAGGGT
CTTACACGAAATCAAATATT
Found at i:23464278 original size:18 final size:17
Alignment explanation
Indices: 23464251--23464284 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
23464241 CATTTCTCGC
23464251 CAAACACATACAATCGG
1 CAAACACATACAATCGG
23464268 CAAAGCACATACAATCG
1 CAAA-CACATACAATCG
23464285 CAGCTAACTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.47, C:0.29, G:0.12, T:0.12
Consensus pattern (17 bp):
CAAACACATACAATCGG
Found at i:23468590 original size:42 final size:43
Alignment explanation
Indices: 23468482--23468610 Score: 154
Period size: 42 Copynumber: 3.0 Consensus size: 43
23468472 AGCTCGTACA
* * *
23468482 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGAAATCAAATATCG
* * * *
23468525 ATGCC-ACTATCCTACACAGGGTCTTACACGAAATCAAATA-CG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGAAATCAAATATCG
* *
23468567 ATGCCAACGTCCCAGACATGGTCTTACACGAAAACACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGAAATCAAATATCG
23468610 A
1 A
23468611 ATCCTATGTC
Statistics
Matches: 70, Mismatches: 13, Indels: 6
0.79 0.15 0.07
Matches are distributed among these distances:
42 35 0.50
43 35 0.50
ACGTcount: A:0.34, C:0.28, G:0.16, T:0.22
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGAAATCAAATATCG
Found at i:23469883 original size:26 final size:26
Alignment explanation
Indices: 23469852--23469904 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
23469842 ATTTTAGAAG
23469852 TTCCACTTAAACCCTTAAATATTTAT
1 TTCCACTTAAACCCTTAAATATTTAT
23469878 TTCCACTTAAACCCTTAAATATTTAT
1 TTCCACTTAAACCCTTAAATATTTAT
23469904 T
1 T
23469905 AACTAAGCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.34, C:0.23, G:0.00, T:0.43
Consensus pattern (26 bp):
TTCCACTTAAACCCTTAAATATTTAT
Found at i:23474463 original size:46 final size:47
Alignment explanation
Indices: 23474414--23474593 Score: 174
Period size: 46 Copynumber: 3.9 Consensus size: 47
23474404 AACACTAACA
* *
23474414 CATCTCGTA-GCTGATGCATGTCCCAGACATGTCTTACACTTGCT-T
1 CATCTCGTAGGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCT
* *
23474459 ACATCTCG-AGGCCAATGCATGTCCCAAACATGTCTTACACTAGCTCT
1 -CATCTCGTAGGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCT
* * * * *
23474506 CGTCTC-AATGCTGATGACATGTCCCAGACATGGTCTTACACTGGCTCT
1 CATCTCGTAGGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCT
* * *
23474554 CATAAT-GT-GGCCGATGCATTTCCCAGGCATGTCTTACACT
1 CAT-CTCGTAGGCCGATGCATGTCCCAGACATGTCTTACACT
23474594 GGCGCACAAA
Statistics
Matches: 110, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
45 1 0.01
46 59 0.54
47 26 0.24
48 23 0.21
49 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.18, T:0.29
Consensus pattern (47 bp):
CATCTCGTAGGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCT
Found at i:23474571 original size:94 final size:96
Alignment explanation
Indices: 23474183--23474593 Score: 293
Period size: 94 Copynumber: 4.3 Consensus size: 96
23474173 AGGGTAAAAT
* *
23474183 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-T-ATCCATCAAGTTGATGCCATGTCCC
1 GCCGATGCCATGTCCCAGACAT-GTCTTACACTAGCTCTCAT-CATCAAGCTGATGCCATGTCCC
* *
23474246 AGACATGTTCTTACACTGACTATCGA-AATCGAG
64 AGACATGGTCTTACACTGACTCTC-ATAATCGAG
* * **
23474279 GCCGACGCCGTGTCCCAGACATGGTCTTACACTAGCTCTCA-CATATCCGTGCTGATGCCATGTC
1 GCCGATGCCATGTCCCAGACAT-GTCTTACACTAGCTCTCATC--AT-CAAGCTGATGCCATGTC
* * * * * *
23474343 TCAAATATGGTCTTACACTAACACCTC-T-ATACG-T
62 CCAGACATGGTCTTACACTGAC-TCTCATAAT-CGAG
* * * * * * *
23474377 GTCGATGCCATGTCCCAAACACGGTCTAACACTA--ACACATC-TCGTAGCTGATG-CATGTCCC
1 GCCGATGCCATGTCCCAGACA-TGTCTTACACTAGCTCTCATCATC-AAGCTGATGCCATGTCCC
*
23474438 AGACAT-GTCTTACACTTG-CT-TACAT-CTCGAG
64 AGACATGGTCTTACAC-TGACTCT-CATAATCGAG
* * * *
23474469 GCCAATG-CATGTCCCAAACATGTCTTACACTAGCTCTCGTC-TCAATGCTGATGACATGTCCCA
1 GCCGATGCCATGTCCCAGACATGTCTTACACTAGCTCTCATCATCAA-GCTGATGCCATGTCCCA
* *
23474532 GACATGGTCTTACACTGGCTCTCATAAT-GTG
65 GACATGGTCTTACACTGACTCTCATAATCGAG
* *
23474563 GCCGATG-CATTTCCCAGGCATGTCTTACACT
1 GCCGATGCCATGTCCCAGACATGTCTTACACT
23474594 GGCGCACAAA
Statistics
Matches: 247, Mismatches: 45, Indels: 48
0.73 0.13 0.14
Matches are distributed among these distances:
90 11 0.04
91 17 0.07
92 30 0.12
93 29 0.12
94 51 0.21
95 2 0.01
96 38 0.15
97 2 0.01
98 32 0.13
99 33 0.13
100 2 0.01
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.27
Consensus pattern (96 bp):
GCCGATGCCATGTCCCAGACATGTCTTACACTAGCTCTCATCATCAAGCTGATGCCATGTCCCAG
ACATGGTCTTACACTGACTCTCATAATCGAG
Found at i:23474967 original size:30 final size:30
Alignment explanation
Indices: 23474931--23474987 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
23474921 TCATACTTGG
*
23474931 ACAAAATGACCATTTTACCCTTAGACTTTC
1 ACAAAATGACCATTTTACCCCTAGACTTTC
23474961 ACAAAATGACCATTTTACCCCTAGACT
1 ACAAAATGACCATTTTACCCCTAGACT
23474988 CGAAAATTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.35, C:0.28, G:0.07, T:0.30
Consensus pattern (30 bp):
ACAAAATGACCATTTTACCCCTAGACTTTC
Found at i:23480570 original size:2 final size:2
Alignment explanation
Indices: 23480557--23480615 Score: 109
Period size: 2 Copynumber: 29.5 Consensus size: 2
23480547 CTAGTTTTAA
*
23480557 TG TG TG TA TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
23480599 TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG T
23480616 TTGTTTTGAT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.02, C:0.00, G:0.47, T:0.51
Consensus pattern (2 bp):
TG
Found at i:23480795 original size:52 final size:53
Alignment explanation
Indices: 23480698--23480802 Score: 194
Period size: 52 Copynumber: 2.0 Consensus size: 53
23480688 GGGGGTATTT
23480698 GACCTACCACAAATAGTAGTGACAATTTAATTACTTTTTACCACATAACGAGC
1 GACCTACCACAAATAGTAGTGACAATTTAATTACTTTTTACCACATAACGAGC
*
23480751 GACCTACCACAAATAGTAGTGA-AATTTAATTACTTTTTGCCACATAACGAGC
1 GACCTACCACAAATAGTAGTGACAATTTAATTACTTTTTACCACATAACGAGC
23480803 TTATTTTTAA
Statistics
Matches: 51, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
52 29 0.57
53 22 0.43
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.29
Consensus pattern (53 bp):
GACCTACCACAAATAGTAGTGACAATTTAATTACTTTTTACCACATAACGAGC
Found at i:23483601 original size:21 final size:23
Alignment explanation
Indices: 23483577--23483624 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 23
23483567 TAAAGAGTAA
*
23483577 CACACGCTCACGT-G-GCAGAGG
1 CACACGCCCACGTGGTGCAGAGG
*
23483598 CACACGCCCATGTGGTGCAGAGG
1 CACACGCCCACGTGGTGCAGAGG
23483621 CACA
1 CACA
23483625 ACCGTGTGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 11 0.48
22 1 0.04
23 11 0.48
ACGTcount: A:0.25, C:0.33, G:0.31, T:0.10
Consensus pattern (23 bp):
CACACGCCCACGTGGTGCAGAGG
Found at i:23484427 original size:20 final size:20
Alignment explanation
Indices: 23484398--23484440 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
23484388 ACGTACAAAG
23484398 TAAAAGAAAATCAAAA-AGAA
1 TAAAAGAAAAT-AAAATAGAA
*
23484418 TAAAATAAAATAAAATAGAA
1 TAAAAGAAAATAAAATAGAA
23484438 TAA
1 TAA
23484441 TAACCGTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.74, C:0.02, G:0.07, T:0.16
Consensus pattern (20 bp):
TAAAAGAAAATAAAATAGAA
Found at i:23493529 original size:26 final size:26
Alignment explanation
Indices: 23493499--23493606 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
23493489 TGAAATTCCC
23493499 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
23493525 ATCATAGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
23493551 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
23493577 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
23493603 ATCA
1 ATCA
23493607 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.37, C:0.27, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:23497152 original size:23 final size:23
Alignment explanation
Indices: 23497070--23497156 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
23497060 TACCTGATAG
*
23497070 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
23497092 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
23497112 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
23497135 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
23497157 TCGATAAAGC
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.62
22 1 0.02
23 19 0.35
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.15
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:23497552 original size:15 final size:15
Alignment explanation
Indices: 23497527--23497584 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
23497517 TCATATATAT
23497527 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
23497543 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
23497558 AATAATTTCAATCAA
1 TATAAATTCAATCAA
23497573 TATAAATTCAAT
1 TATAAATTCAAT
23497585 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:23498862 original size:5 final size:5
Alignment explanation
Indices: 23498854--23498885 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
23498844 TCTTTAGTTT
23498854 ATATA ATATA ATATA ATATA ATATA ATATA AT
1 ATATA ATATA ATATA ATATA ATATA ATATA AT
23498886 TAAAACATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:23505206 original size:22 final size:23
Alignment explanation
Indices: 23505181--23505228 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
23505171 TTACGTAGTA
*
23505181 AAGTTAA-TTT-TTTTTATATAAT
1 AAGTTAACTTTGTATTTATAT-AT
23505203 AAGTTAACTTTGTATTTATATAT
1 AAGTTAACTTTGTATTTATATAT
23505226 AAG
1 AAG
23505229 ATGTTTTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 7 0.30
23 8 0.35
24 8 0.35
ACGTcount: A:0.38, C:0.02, G:0.08, T:0.52
Consensus pattern (23 bp):
AAGTTAACTTTGTATTTATATAT
Found at i:23506008 original size:18 final size:18
Alignment explanation
Indices: 23505987--23506046 Score: 50
Period size: 18 Copynumber: 3.4 Consensus size: 18
23505977 TTTATAAATA
23505987 AAAAATAAAAAATATATT
1 AAAAATAAAAAATATATT
* * *
23506005 AAAATTTAAAATTATA-T
1 AAAAATAAAAAATATATT
* * *
23506022 AAAAATTAATAATATTTT
1 AAAAATAAAAAATATATT
*
23506040 AATAATA
1 AAAAATA
23506047 TTAAGTAAAA
Statistics
Matches: 32, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
17 13 0.41
18 19 0.59
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
AAAAATAAAAAATATATT
Found at i:23509073 original size:21 final size:21
Alignment explanation
Indices: 23509024--23509064 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
23509014 TATGAGATTT
* *
23509024 AATGATTGCTGATAGATTATA
1 AATGTTTGATGATAGATTATA
23509045 AATGTTTGATGATAG-TTATA
1 AATGTTTGATGATAGATTATA
23509065 CAAGTTTTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.37, C:0.02, G:0.20, T:0.41
Consensus pattern (21 bp):
AATGTTTGATGATAGATTATA
Found at i:23512244 original size:18 final size:18
Alignment explanation
Indices: 23512218--23512252 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
23512208 ATTCAAGTTG
*
23512218 ACTCGAATAACTTGATTA
1 ACTCGAATAACTCGATTA
*
23512236 ACTCTAATAACTCGATT
1 ACTCGAATAACTCGATT
23512253 CGTTTAATTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.20, G:0.09, T:0.34
Consensus pattern (18 bp):
ACTCGAATAACTCGATTA
Found at i:23516054 original size:36 final size:36
Alignment explanation
Indices: 23516013--23516094 Score: 101
Period size: 36 Copynumber: 2.3 Consensus size: 36
23516003 AGTAAGTTGC
*
23516013 GCCCAACACTAGTTGGTAAAACCGAAAAATAGATGT
1 GCCCAACACTAGTTAGTAAAACCGAAAAATAGATGT
* * * * *
23516049 GCCCAACACTGGTTAGTATAACCGACAAATGGGTGT
1 GCCCAACACTAGTTAGTAAAACCGAAAAATAGATGT
*
23516085 GCCCAGCACT
1 GCCCAACACT
23516095 CCCGATACGT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.34, C:0.24, G:0.22, T:0.20
Consensus pattern (36 bp):
GCCCAACACTAGTTAGTAAAACCGAAAAATAGATGT
Found at i:23516844 original size:51 final size:51
Alignment explanation
Indices: 23516768--23516864 Score: 178
Period size: 51 Copynumber: 1.9 Consensus size: 51
23516758 TGAATTCCCC
23516768 TATACTTTTTCATTTTATTCAATTTAGTCCCTAAAATCAAAACTATGCCCT
1 TATACTTTTTCATTTTATTCAATTTAGTCCCTAAAATCAAAACTATGCCCT
23516819 TATACTTTTGT-ATTTTATTCAATTTAGTCCCTAAAATCAAAACTAT
1 TATACTTTT-TCATTTTATTCAATTTAGTCCCTAAAATCAAAACTAT
23516865 CATAGTTTTT
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
51 44 0.98
52 1 0.02
ACGTcount: A:0.33, C:0.19, G:0.04, T:0.44
Consensus pattern (51 bp):
TATACTTTTTCATTTTATTCAATTTAGTCCCTAAAATCAAAACTATGCCCT
Found at i:23520202 original size:19 final size:20
Alignment explanation
Indices: 23520178--23520215 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
23520168 ACTTTTTTTA
*
23520178 TTTTACTT-TCTCTCAAAAC
1 TTTTACTTCTCCCTCAAAAC
23520197 TTTTACTTCTCCCTCAAAA
1 TTTTACTTCTCCCTCAAAA
23520216 AATTTAATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.26, C:0.29, G:0.00, T:0.45
Consensus pattern (20 bp):
TTTTACTTCTCCCTCAAAAC
Found at i:23520217 original size:75 final size:73
Alignment explanation
Indices: 23520112--23520287 Score: 239
Period size: 74 Copynumber: 2.4 Consensus size: 73
23520102 CCTCAACCCC
* * * *
23520112 CTCTCAAACCCTTTTACTT-TCCCCTAAAAAATTTTAGTTCTCCCCAAACTCTCAAAACTTTTTT
1 CTCTCAAA-ACTTTTACTTCTCCCC-AAAAAA-TTTAATTCTCCCCAAACCCCCAAAACTTTTTT
23520176 TATTTTACTTT
63 TATTTTACTTT
*
23520187 CTCTCAAAACTTTTACTTCTCCCTCAAAAAATTTAATTCTCTCCAAACCCCCAAAACTTTTTTTA
1 CTCTCAAAACTTTTACTTCTCCC-CAAAAAATTTAATTCTCCCCAAACCCCCAAAACTTTTTTTA
23520252 TTTTACTTT
65 TTTTACTTT
*
23520261 CTCCCTAAAACTTTTACTTC-CCCCAAA
1 CTCTC-AAAACTTTTACTTCTCCCCAAA
23520288 CTTCCAAACA
Statistics
Matches: 92, Mismatches: 6, Indels: 8
0.87 0.06 0.08
Matches are distributed among these distances:
73 4 0.04
74 55 0.60
75 32 0.35
76 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.01, T:0.41
Consensus pattern (73 bp):
CTCTCAAAACTTTTACTTCTCCCCAAAAAATTTAATTCTCCCCAAACCCCCAAAACTTTTTTTAT
TTTACTTT
Found at i:23520221 original size:20 final size:20
Alignment explanation
Indices: 23520179--23520227 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
23520169 CTTTTTTTAT
* **
23520179 TTTACTT-TCTCTCAAAACT
1 TTTACTTCTCCCTCAAAAAA
23520198 TTTACTTCTCCCTCAAAAAA
1 TTTACTTCTCCCTCAAAAAA
*
23520218 TTTAATTCTC
1 TTTACTTCTC
23520228 TCCAAACCCC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 7 0.28
20 18 0.72
ACGTcount: A:0.29, C:0.27, G:0.00, T:0.45
Consensus pattern (20 bp):
TTTACTTCTCCCTCAAAAAA
Found at i:23521762 original size:5 final size:5
Alignment explanation
Indices: 23521752--23521781 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
23521742 GCTCTCAGAG
23521752 TCTCC TCTCC TCTCC TCTCC TCTCC TCTCC
1 TCTCC TCTCC TCTCC TCTCC TCTCC TCTCC
23521782 CTGCCTGGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.00, C:0.60, G:0.00, T:0.40
Consensus pattern (5 bp):
TCTCC
Found at i:23524394 original size:17 final size:17
Alignment explanation
Indices: 23524354--23524394 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
23524344 TTTTAATTTC
23524354 TTAAATTTTTAAAAATAA
1 TTAAA-TTTTAAAAATAA
**
23524372 AAAAATTTTAAAAATAA
1 TTAAATTTTAAAAATAA
23524389 TTAAAT
1 TTAAAT
23524395 GATTATGTGT
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
17 16 0.84
18 3 0.16
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TTAAATTTTAAAAATAA
Found at i:23525433 original size:29 final size:29
Alignment explanation
Indices: 23525401--23525461 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
23525391 TTTTTATATT
* *
23525401 AATAATACGAAAAATTAATTAATTACAAA
1 AATAAAACGAAAAATAAATTAATTACAAA
* * *
23525430 AATAAAATGAAAAATAAATTATTTATAAA
1 AATAAAACGAAAAATAAATTAATTACAAA
23525459 AAT
1 AAT
23525462 TAGTTGTTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (29 bp):
AATAAAACGAAAAATAAATTAATTACAAA
Found at i:23526109 original size:23 final size:22
Alignment explanation
Indices: 23526083--23526126 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
23526073 AATTTATAAT
* *
23526083 TATAAAATATTAAAAAATAAAAA
1 TATAAAAT-TAAAAAAACAAAAA
23526106 TATAAAATTAAAAAAACAAAA
1 TATAAAATTAAAAAAACAAAA
23526127 CAACTCAACT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (22 bp):
TATAAAATTAAAAAAACAAAAA
Found at i:23526563 original size:15 final size:15
Alignment explanation
Indices: 23526539--23526577 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
23526529 GGCCGTGAGT
23526539 GAAGGAGAAGAAAAA
1 GAAGGAGAAGAAAAA
* *
23526554 GAATGAGAAGAAGAA
1 GAAGGAGAAGAAAAA
23526569 GAAGGAGAA
1 GAAGGAGAA
23526578 TGAGAGGGCG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.36, T:0.03
Consensus pattern (15 bp):
GAAGGAGAAGAAAAA
Found at i:23526563 original size:21 final size:21
Alignment explanation
Indices: 23526539--23526582 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
23526529 GGCCGTGAGT
*
23526539 GAAGGAGAAGAAAAAGAATGA
1 GAAGAAGAAGAAAAAGAATGA
**
23526560 GAAGAAGAAGAAGGAGAATGA
1 GAAGAAGAAGAAAAAGAATGA
23526581 GA
1 GA
23526583 GGGCGGGAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.36, T:0.05
Consensus pattern (21 bp):
GAAGAAGAAGAAAAAGAATGA
Found at i:23527055 original size:62 final size:63
Alignment explanation
Indices: 23526984--23527109 Score: 245
Period size: 63 Copynumber: 2.0 Consensus size: 63
23526974 TTGGCATGTT
23526984 ATTTTTTTGATTATTTTATTTTTTA-TTTTTTATGTAGGTAAAAGATGAGACCATTGATATGG
1 ATTTTTTTGATTATTTTATTTTTTATTTTTTTATGTAGGTAAAAGATGAGACCATTGATATGG
23527046 ATTTTTTTGATTATTTTATTTTTTATTTTTTTATGTAGGTAAAAGATGAGACCATTGATATGG
1 ATTTTTTTGATTATTTTATTTTTTATTTTTTTATGTAGGTAAAAGATGAGACCATTGATATGG
23527109 A
1 A
23527110 ATTTGGAATT
Statistics
Matches: 63, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
62 25 0.40
63 38 0.60
ACGTcount: A:0.28, C:0.03, G:0.16, T:0.53
Consensus pattern (63 bp):
ATTTTTTTGATTATTTTATTTTTTATTTTTTTATGTAGGTAAAAGATGAGACCATTGATATGG
Found at i:23527468 original size:108 final size:112
Alignment explanation
Indices: 23527289--23527509 Score: 315
Period size: 114 Copynumber: 2.0 Consensus size: 112
23527279 ACAAAAAATG
* * * *
23527289 TTTACTTATTATCATTTTAAAGTAATAATAAAAATATTCGTATTTATTATGTATCGTTTATGTTA
1 TTTACTTATTATCATTTTAAAATAATAATAAAAATATTCATATTTATTATATATCATTTATGTTA
23527354 -TAT-T-TTTGTTATTGACATATTATTTTTAGTATTTTAATATAAAA
66 TTATATATTTGTTATTGACATATTATTTTTAGTATTTTAATATAAAA
23527398 TTTACTTATTATCATTTTAAAATAATAAT-AAAATATTCATATTTATTATATATCATTTATGTTA
1 TTTACTTATTATCATTTTAAAATAATAATAAAAATATTCATATTTATTATATATCATTTATGTTA
* * * *
23527462 TTTTTTTATATTTTTTATTGGCATATTATTTTTCGTATTTTAATATAA
66 ---TTATATATTTGTTATTGACATATTATTTTTAGTATTTTAATATAA
23527510 TTTTTTTATG
Statistics
Matches: 98, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
108 32 0.33
109 28 0.29
112 2 0.02
113 1 0.01
114 35 0.36
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.55
Consensus pattern (112 bp):
TTTACTTATTATCATTTTAAAATAATAATAAAAATATTCATATTTATTATATATCATTTATGTTA
TTATATATTTGTTATTGACATATTATTTTTAGTATTTTAATATAAAA
Found at i:23528708 original size:14 final size:14
Alignment explanation
Indices: 23528689--23528717 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
23528679 GACAAATTCT
23528689 TTATAATGATACTA
1 TTATAATGATACTA
23528703 TTATAATGATACTA
1 TTATAATGATACTA
23528717 T
1 T
23528718 ATTTACCTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.45
Consensus pattern (14 bp):
TTATAATGATACTA
Found at i:23529384 original size:12 final size:12
Alignment explanation
Indices: 23529363--23529394 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
23529353 TATAGAGGAT
*
23529363 GAGCCTGAGCCA
1 GAGCCAGAGCCA
23529375 GAGCCAGAGCCA
1 GAGCCAGAGCCA
23529387 GAGCCAGA
1 GAGCCAGA
23529395 TCTCGAGCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.31, C:0.31, G:0.34, T:0.03
Consensus pattern (12 bp):
GAGCCAGAGCCA
Found at i:23529588 original size:33 final size:33
Alignment explanation
Indices: 23529551--23529642 Score: 103
Period size: 33 Copynumber: 2.8 Consensus size: 33
23529541 TCTTTGGGTT
* * * *
23529551 GTATCCACCGTAGTACAGCACTTCTTTCGACCC
1 GTATCCACCGCAGTACAACACTCCTCTCGACCC
*
23529584 GTATCCACCGCAGTACAACACTCCTCTCGGCCC
1 GTATCCACCGCAGTACAACACTCCTCTCGACCC
** **
23529617 GTATCCACTACAGTACTTCACTCCTC
1 GTATCCACCGCAGTACAACACTCCTC
23529643 CTAGGTCGTA
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 50 1.00
ACGTcount: A:0.22, C:0.40, G:0.13, T:0.25
Consensus pattern (33 bp):
GTATCCACCGCAGTACAACACTCCTCTCGACCC
Found at i:23536754 original size:10 final size:10
Alignment explanation
Indices: 23536739--23536764 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
23536729 TTATACTTAA
23536739 TTTTGATTAT
1 TTTTGATTAT
23536749 TTTTGATTAT
1 TTTTGATTAT
23536759 TTTTGA
1 TTTTGA
23536765 CAGATTCGCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.12, T:0.69
Consensus pattern (10 bp):
TTTTGATTAT
Found at i:23541286 original size:27 final size:27
Alignment explanation
Indices: 23541248--23541299 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
23541238 GATAATAGTC
*
23541248 CATTTCTAACAAAATCAAATTTATTGT
1 CATTTCTAACAAAATCAAATATATTGT
*
23541275 CATTTCTAACAATATCAAATATATT
1 CATTTCTAACAAAATCAAATATATT
23541300 AAAATTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.42, C:0.15, G:0.02, T:0.40
Consensus pattern (27 bp):
CATTTCTAACAAAATCAAATATATTGT
Found at i:23541306 original size:27 final size:27
Alignment explanation
Indices: 23541249--23541306 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
23541239 ATAATAGTCC
* ***
23541249 ATTTCTAACAAAATCAAATTTATTGTC
1 ATTTCTAACAAAATCAAATATATTAAA
*
23541276 ATTTCTAACAATATCAAATATATTAAA
1 ATTTCTAACAAAATCAAATATATTAAA
23541303 ATTT
1 ATTT
23541307 TTTATAAGAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.45, C:0.12, G:0.02, T:0.41
Consensus pattern (27 bp):
ATTTCTAACAAAATCAAATATATTAAA
Found at i:23542723 original size:21 final size:21
Alignment explanation
Indices: 23542697--23542736 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
23542687 ATATAATTAT
23542697 AAAA-TTACACTTTCATTTTCA
1 AAAATTTACA-TTTCATTTTCA
*
23542718 AAAATTTATATTTCATTTT
1 AAAATTTACATTTCATTTT
23542737 TACTCTTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (21 bp):
AAAATTTACATTTCATTTTCA
Found at i:23545733 original size:15 final size:15
Alignment explanation
Indices: 23545715--23545743 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
23545705 TTATTTTTAA
23545715 TATATATATTTGAAG
1 TATATATATTTGAAG
23545730 TATATATATTTGAA
1 TATATATATTTGAA
23545744 AATATTTCTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.48
Consensus pattern (15 bp):
TATATATATTTGAAG
Found at i:23547432 original size:16 final size:16
Alignment explanation
Indices: 23547398--23547432 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
23547388 TTGACAATCT
*
23547398 AAAATGGAAAGAAACA
1 AAAATGGAAAAAAACA
*
23547414 AAAATGGAAAAAAAGA
1 AAAATGGAAAAAAACA
23547430 AAA
1 AAA
23547433 GAAACGAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.74, C:0.03, G:0.17, T:0.06
Consensus pattern (16 bp):
AAAATGGAAAAAAACA
Found at i:23550518 original size:18 final size:19
Alignment explanation
Indices: 23550492--23550529 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
23550482 AAACTTTAAT
*
23550492 TCTATATCTAATTC-ACTA
1 TCTAAATCTAATTCTACTA
*
23550510 TCTAAATCTATTTCTACTA
1 TCTAAATCTAATTCTACTA
23550529 T
1 T
23550530 TTTTAGTGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.32, C:0.21, G:0.00, T:0.47
Consensus pattern (19 bp):
TCTAAATCTAATTCTACTA
Found at i:23551432 original size:55 final size:53
Alignment explanation
Indices: 23551242--23551496 Score: 227
Period size: 55 Copynumber: 4.8 Consensus size: 53
23551232 ACGCGGGTAC
* * * ** * *
23551242 CTTACCATTGCCATGACTTGTCATGGTCTTATGTGGTATCCTT---TT-TAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAA
* *
23551291 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAA
* * *
23551344 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCC-TTGCCTTAT-G-AA
* *** *
23551399 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTGA-GAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG-AA
* *
23551452 CCTTACCAATTGCCATGCCTT-AGCATGGTCTTACATGGTATCCTT
1 -CTTACCAA-TGCCATGTCTTGA-CATGGTCTTACATGGGATCCTT
23551497 AAACCCTAAT
Statistics
Matches: 172, Mismatches: 23, Indels: 16
0.82 0.11 0.08
Matches are distributed among these distances:
49 39 0.23
52 4 0.02
53 48 0.28
54 9 0.05
55 70 0.41
56 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (53 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAA
Found at i:23551433 original size:108 final size:110
Alignment explanation
Indices: 23551289--23551489 Score: 309
Period size: 108 Copynumber: 1.8 Consensus size: 110
23551279 ATCCTTTTTA
* * *
23551289 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTGA-GAAACCTCACCAA
*
23551352 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTAGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * *
23551397 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTGAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTGAGAAACCTCACCAAT
23551462 TGCCATGCCTTAGCATGGTCTTACATGG
66 TGCCATGCCTTAGCATGGTCTTACATGG
23551490 TATCCTTAAA
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
107 1 0.01
108 48 0.58
109 7 0.08
110 27 0.33
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTGAGAAACCTCACCAAT
TGCCATGCCTTAGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:23561256 original size:17 final size:17
Alignment explanation
Indices: 23561202--23561260 Score: 55
Period size: 17 Copynumber: 3.2 Consensus size: 17
23561192 TAGGCGTGTT
23561202 GGCCACACGAGCATGTG
1 GGCCACACGAGCATGTG
***
23561219 GGCCATGGGTCAGGCCATGTG
1 GGCCACACG--A-G-CATGTG
23561240 GGCCACACGAGCATGTG
1 GGCCACACGAGCATGTG
23561257 GGCC
1 GGCC
23561261 TAAAATTCTA
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
17 16 0.50
18 1 0.03
19 2 0.06
20 1 0.03
21 12 0.38
ACGTcount: A:0.19, C:0.29, G:0.39, T:0.14
Consensus pattern (17 bp):
GGCCACACGAGCATGTG
Found at i:23566094 original size:84 final size:84
Alignment explanation
Indices: 23565953--23566120 Score: 336
Period size: 84 Copynumber: 2.0 Consensus size: 84
23565943 ACAATGTGTT
23565953 CCATAAGTCAATGTTATGGCGCTATTGTTCTGATCCTTCCTATATCATTCTCGTCAAAGAAATCG
1 CCATAAGTCAATGTTATGGCGCTATTGTTCTGATCCTTCCTATATCATTCTCGTCAAAGAAATCG
23566018 AGTTCCGATTGGATTTATC
66 AGTTCCGATTGGATTTATC
23566037 CCATAAGTCAATGTTATGGCGCTATTGTTCTGATCCTTCCTATATCATTCTCGTCAAAGAAATCG
1 CCATAAGTCAATGTTATGGCGCTATTGTTCTGATCCTTCCTATATCATTCTCGTCAAAGAAATCG
23566102 AGTTCCGATTGGATTTATC
66 AGTTCCGATTGGATTTATC
23566121 TTTTAAAGAG
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 84 1.00
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.37
Consensus pattern (84 bp):
CCATAAGTCAATGTTATGGCGCTATTGTTCTGATCCTTCCTATATCATTCTCGTCAAAGAAATCG
AGTTCCGATTGGATTTATC
Found at i:23567004 original size:30 final size:30
Alignment explanation
Indices: 23566968--23567037 Score: 97
Period size: 30 Copynumber: 2.3 Consensus size: 30
23566958 ACTATCTCGC
23566968 ATGCGAACCCCCTTGCATGT-GAACCTCTAT
1 ATGCGAACCCCCTTGCATGTAGAACC-CTAT
* *
23566998 ATGCGAAACCGCTTGCATGTAGAACCCTAT
1 ATGCGAACCCCCTTGCATGTAGAACCCTAT
*
23567028 ATACGAACCC
1 ATGCGAACCC
23567038 ATTTATACGT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 30 0.86
31 5 0.14
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (30 bp):
ATGCGAACCCCCTTGCATGTAGAACCCTAT
Found at i:23568165 original size:48 final size:48
Alignment explanation
Indices: 23568094--23568189 Score: 174
Period size: 48 Copynumber: 2.0 Consensus size: 48
23568084 CAAGATCACT
*
23568094 TCGATGATCAATGTAACACCTTCGACTTAGCTGAAACTCTTAGGCCGG
1 TCGATAATCAATGTAACACCTTCGACTTAGCTGAAACTCTTAGGCCGG
*
23568142 TCGATAATCAATGTAACGCCTTCGACTTAGCTGAAACTCTTAGGCCGG
1 TCGATAATCAATGTAACACCTTCGACTTAGCTGAAACTCTTAGGCCGG
23568190 GACGGGAGTG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (48 bp):
TCGATAATCAATGTAACACCTTCGACTTAGCTGAAACTCTTAGGCCGG
Found at i:23574553 original size:25 final size:26
Alignment explanation
Indices: 23574502--23574564 Score: 83
Period size: 25 Copynumber: 2.5 Consensus size: 26
23574492 AGTTTGGCAA
23574502 TACTTTTGAAAAGTACTGTAGAAAAG
1 TACTTTTGAAAAGTACTGTAGAAAAG
* * * *
23574528 TACTTTTGAGAA-TACTTTTGAGAAG
1 TACTTTTGAAAAGTACTGTAGAAAAG
23574553 TACTTTTGAAAA
1 TACTTTTGAAAA
23574565 ATTTAAGTGT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
25 21 0.66
26 11 0.34
ACGTcount: A:0.38, C:0.08, G:0.17, T:0.37
Consensus pattern (26 bp):
TACTTTTGAAAAGTACTGTAGAAAAG
Found at i:23574558 original size:13 final size:13
Alignment explanation
Indices: 23574502--23574564 Score: 83
Period size: 13 Copynumber: 4.9 Consensus size: 13
23574492 AGTTTGGCAA
23574502 TACTTTTGAAAAG
1 TACTTTTGAAAAG
* *
23574515 TACTGTAGAAAAG
1 TACTTTTGAAAAG
*
23574528 TACTTTTGAGAA-
1 TACTTTTGAAAAG
*
23574540 TACTTTTGAGAAG
1 TACTTTTGAAAAG
23574553 TACTTTTGAAAA
1 TACTTTTGAAAA
23574565 ATTTAAGTGT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
12 12 0.28
13 31 0.72
ACGTcount: A:0.38, C:0.08, G:0.17, T:0.37
Consensus pattern (13 bp):
TACTTTTGAAAAG
Found at i:23580135 original size:3 final size:3
Alignment explanation
Indices: 23580127--23580183 Score: 105
Period size: 3 Copynumber: 18.7 Consensus size: 3
23580117 TGCATTTTAA
23580127 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
23580175 TAT ATAT TA
1 TAT -TAT TA
23580184 GTGTATATTT
Statistics
Matches: 53, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 50 0.94
4 3 0.06
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:23580286 original size:3 final size:3
Alignment explanation
Indices: 23580278--23580310 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
23580268 TGTATTTCTA
23580278 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
23580311 AATGTGGTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:23580439 original size:16 final size:15
Alignment explanation
Indices: 23580408--23580450 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
23580398 CCTTCATTCC
*
23580408 ATTATTATTATTACT
1 ATTATTATTTTTACT
23580423 ATTATTATATTTTACT
1 ATTATTAT-TTTTACT
*
23580439 ATCATTATTTTT
1 ATTATTATTTTT
23580451 CATACGTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (15 bp):
ATTATTATTTTTACT
Found at i:23580575 original size:16 final size:16
Alignment explanation
Indices: 23580554--23580585 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
23580544 CTATTGTTAC
23580554 TGTTATTATCATCACT
1 TGTTATTATCATCACT
*
23580570 TGTTATTCTCATCACT
1 TGTTATTATCATCACT
23580586 ATTATTATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.22, G:0.06, T:0.50
Consensus pattern (16 bp):
TGTTATTATCATCACT
Found at i:23580593 original size:3 final size:3
Alignment explanation
Indices: 23580585--23580719 Score: 107
Period size: 3 Copynumber: 44.7 Consensus size: 3
23580575 TTCTCATCAC
* * *
23580585 TAT TAT TAT AATT TAT TAT TGT TACT TAT TAT T-T TAC TAT TAT TAT
1 TAT TAT TAT TA-T TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT
* * * * * * *
23580631 CTAA TA- TAT CAT CAT TAT CAT TAT T-T TCAT TAT AACT TAA TA- GAT
1 -TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TA-T TAT TAT TAT
23580676 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
23580720 GCACTACTTT
Statistics
Matches: 107, Mismatches: 16, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
2 7 0.07
3 89 0.83
4 11 0.10
ACGTcount: A:0.34, C:0.06, G:0.01, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:23580627 original size:11 final size:13
Alignment explanation
Indices: 23580597--23580628 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
23580587 TTATTATAAT
23580597 TTATTATTGTTAC
1 TTATTATTGTTAC
23580610 TTATTATT-TTAC
1 TTATTATTGTTAC
23580622 -TATTATT
1 TTATTATT
23580629 ATCTAATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.37
12 4 0.21
13 8 0.42
ACGTcount: A:0.25, C:0.06, G:0.03, T:0.66
Consensus pattern (13 bp):
TTATTATTGTTAC
Found at i:23580736 original size:9 final size:9
Alignment explanation
Indices: 23580674--23580742 Score: 57
Period size: 9 Copynumber: 7.7 Consensus size: 9
23580664 AACTTAATAG
*
23580674 ATTATTATT
1 ATTATTACT
*
23580683 ATTATTATT
1 ATTATTACT
*
23580692 ATTATTATT
1 ATTATTACT
*
23580701 ATTATTATT
1 ATTATTACT
*
23580710 ATTATTATT
1 ATTATTACT
** *
23580719 AGCACTACT
1 ATTATTACT
*
23580728 TTTATTACT
1 ATTATTACT
23580737 ATTATT
1 ATTATT
23580743 TAATATATTA
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 51 1.00
ACGTcount: A:0.32, C:0.06, G:0.01, T:0.61
Consensus pattern (9 bp):
ATTATTACT
Found at i:23580763 original size:12 final size:12
Alignment explanation
Indices: 23580514--23580765 Score: 86
Period size: 12 Copynumber: 19.6 Consensus size: 12
23580504 TTTACTACCT
23580514 CTATTATGTATTA
1 CTATTAT-TATTA
23580527 CTAATATATTATTA
1 CT-AT-TATTATTA
* *
23580541 CTACTATTGTTA
1 CTATTATTATTA
*
23580553 CTGTTATTATCATCA
1 CTATTATTAT--T-A
* *
23580568 CTTGTTATTCTCATCA
1 C-TATTA-T-T-ATTA
*
23580584 CTATTATTATAA
1 CTATTATTATTA
* *
23580596 TTTATTATTGTTA
1 -CTATTATTATTA
23580609 CTTATTATT-TTA
1 C-TATTATTATTA
23580621 CTATTATTATCTA
1 CTATTATTAT-TA
* *
23580634 ATATATCATCATTA
1 CTAT-T-ATTATTA
23580648 -TCATTATT-TT-
1 CT-ATTATTATTA
*
23580658 C-ATTATAACTTA
1 CTATTATTA-TTA
*
23580670 ATAGATTATTATTA
1 CT--ATTATTATTA
*
23580684 TTATTATTATTA
1 CTATTATTATTA
*
23580696 TTATTATTATTA
1 CTATTATTATTA
*
23580708 TTATTATTATTAGCA
1 CTATTATTATT---A
23580723 CTACTT-TTATTA
1 CTA-TTATTATTA
*
23580735 CTATTATTTAATA
1 CTATTA-TTATTA
*
23580748 -TATTATTTTTA
1 CTATTATTATTA
23580759 CTATTAT
1 CTATTAT
23580766 CGTCATATTG
Statistics
Matches: 186, Mismatches: 23, Indels: 61
0.69 0.09 0.23
Matches are distributed among these distances:
9 5 0.03
11 17 0.09
12 72 0.39
13 32 0.17
14 20 0.11
15 27 0.15
16 9 0.05
17 1 0.01
18 1 0.01
19 2 0.01
ACGTcount: A:0.32, C:0.10, G:0.03, T:0.56
Consensus pattern (12 bp):
CTATTATTATTA
Found at i:23580936 original size:17 final size:17
Alignment explanation
Indices: 23580914--23580946 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
23580904 GATAACTGTA
23580914 TATTTT-TTTAGCATATT
1 TATTTTATTTA-CATATT
23580931 TATTTTATTTACATAT
1 TATTTTATTTACATAT
23580947 CATTACTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.27, C:0.06, G:0.03, T:0.64
Consensus pattern (17 bp):
TATTTTATTTACATATT
Found at i:23584284 original size:27 final size:28
Alignment explanation
Indices: 23584247--23584385 Score: 175
Period size: 27 Copynumber: 5.2 Consensus size: 28
23584237 GCAATGGCTG
* *
23584247 CCAGA-ACAGATA-ATGTGACAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
23584273 CCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGATACAGATATAT-GTGGCAGAGCCA
23584301 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
23584328 CCAGAT-CAGATATTTGTGGCAGA-CCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* *
23584354 CCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
23584381 CCAGA
1 CCAGA
23584386 ACGCTTCCTC
Statistics
Matches: 104, Mismatches: 4, Indels: 9
0.89 0.03 0.08
Matches are distributed among these distances:
26 30 0.29
27 57 0.55
28 17 0.16
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:23584372 original size:53 final size:55
Alignment explanation
Indices: 23584247--23584385 Score: 194
Period size: 53 Copynumber: 2.6 Consensus size: 55
23584237 GCAATGGCTG
* *
23584247 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* *
23584301 CCAGAACAGATATATGTGGCAGAGCCACCAGAT-CAGATATTTGTGGCAGA-CCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * *
23584354 CCAGATCAGATATTTGTGGCATAGCCACCAGA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGA
23584386 ACGCTTCCTC
Statistics
Matches: 77, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
53 32 0.42
54 27 0.35
55 18 0.23
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (55 bp):
CCAGAACAGATATATGTGGCAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:23586094 original size:25 final size:26
Alignment explanation
Indices: 23586000--23586108 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
23585990 CATGAAATTC
23586000 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
23586026 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
23586052 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
23586078 TTATCATG-AACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
23586103 TTATCA
1 TTATCA
23586109 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
25 23 0.28
26 58 0.72
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:23590116 original size:27 final size:28
Alignment explanation
Indices: 23590079--23590218 Score: 184
Period size: 27 Copynumber: 5.2 Consensus size: 28
23590069 AGCATGGCTG
* *
23590079 CCAGA-ACAGATA-ATGTGACAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
23590105 CCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGATACAGATATAT-GTGGCAGAGCCA
23590133 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
23590160 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* *
23590187 CCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
23590214 CCAGA
1 CCAGA
23590219 ATGCTTTCCA
Statistics
Matches: 106, Mismatches: 4, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
26 5 0.05
27 84 0.79
28 17 0.16
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:23591865 original size:26 final size:26
Alignment explanation
Indices: 23591829--23591964 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
23591819 ACATGAATTC
23591829 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
23591855 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
23591881 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
23591907 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
23591933 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
23591959 TTATCA
1 TTATCA
23591965 ATTTGTATCA
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:23593763 original size:15 final size:15
Alignment explanation
Indices: 23593743--23593773 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
23593733 TTTACTTTCC
23593743 AGAGAGGTAGAAAAG
1 AGAGAGGTAGAAAAG
23593758 AGAGAGGTAGAAAAG
1 AGAGAGGTAGAAAAG
23593773 A
1 A
23593774 AAATCTGGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.39, T:0.06
Consensus pattern (15 bp):
AGAGAGGTAGAAAAG
Found at i:23602043 original size:205 final size:205
Alignment explanation
Indices: 23601691--23602682 Score: 1717
Period size: 205 Copynumber: 4.9 Consensus size: 205
23601681 GTAATAGGCC
* * *
23601691 ACACATAGCAGATCTCGCCTTCAGATG-TTTATGCTGAAGCGGATCCAAGATGGTTTGGCATCCT
1 ACACATAGCAGATCTCACCTTCAGATGATTT-CGCTGAAGCAGATCCAAGATGGTTTGGCATCCT
23601755 TGTGTTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAA
65 TGTGTTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAA
23601820 ATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTG
130 ATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTG
23601885 ATGGAGAGCAG
195 ATGGAGAGCAG
23601896 ACACATAGCAGATCTCACCTTCAGATGATTTCGCTGAAGCAGATCCAAGATGGTTTGGCATCCTT
1 ACACATAGCAGATCTCACCTTCAGATGATTTCGCTGAAGCAGATCCAAGATGGTTTGGCATCCTT
23601961 GTGTTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAA
66 GTGTTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAA
23602026 TCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGA
131 TCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGA
23602091 TGGAGAGCAG
196 TGGAGAGCAG
23602101 ACACATAGCAGATCTCACCTTCAGATGATTTCGCTGAAGCAGATCCAAGATGGTTTGGCATCCTT
1 ACACATAGCAGATCTCACCTTCAGATGATTTCGCTGAAGCAGATCCAAGATGGTTTGGCATCCTT
*
23602166 GTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTT-ACGTGATTACGATGAAGCAAA
66 GTGTTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAA
23602230 TCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGA
131 TCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGA
23602295 TGGAGAGCAG
196 TGGAGAGCAG
* * *
23602305 ACACATAGCAGATCTCGCCTTCAGACGATTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTT
1 ACACATAGCAGATCTCACCTTCAGATGATTTCGCTGAAGCAGATCCAAGATGGTTTGGCATCCTT
* *
23602370 GTGTTTACAAGGAACAAATCGAAGACATAGTTGATTTGGCTTTCACGTGATTACGA-GAAGCAAA
66 GTGTTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAA
*
23602434 TCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGA
131 TCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGA
23602499 T-GAGAGCAG
196 TGGAGAGCAG
* *
23602508 ACACATAGCAGATCTCACCTTCAGATG-TTTATGCTGAAGCGGATCCAAGATGGTTTGGCATCCT
1 ACACATAGCAGATCTCACCTTCAGATGATTT-CGCTGAAGCAGATCCAAGATGGTTTGGCATCCT
* * * * * * *
23602572 TATGCTTACAAGGAGCAAATCGAA-TCATAGTTGATTTGGCTTTCACGTGCTTACGTTAAAGCAA
65 TGTGTTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAA
* * * *
23602636 ATCTAAGATGATTTGGCATCTCTGTATTGTCAGGGAACAAATCGAAG
130 ATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGAACGAATCGAAG
23602683 AAATAGATCT
Statistics
Matches: 757, Mismatches: 26, Indels: 10
0.95 0.03 0.01
Matches are distributed among these distances:
202 32 0.04
203 132 0.17
204 273 0.36
205 317 0.42
206 3 0.00
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (205 bp):
ACACATAGCAGATCTCACCTTCAGATGATTTCGCTGAAGCAGATCCAAGATGGTTTGGCATCCTT
GTGTTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAA
TCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGA
TGGAGAGCAG
Found at i:23603027 original size:12 final size:12
Alignment explanation
Indices: 23603010--23603034 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
23603000 ACCCAAAACC
23603010 CTTAGCCCAAAA
1 CTTAGCCCAAAA
23603022 CTTAGCCCAAAA
1 CTTAGCCCAAAA
23603034 C
1 C
23603035 ACTAACCCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.36, G:0.08, T:0.16
Consensus pattern (12 bp):
CTTAGCCCAAAA
Found at i:23603762 original size:3 final size:3
Alignment explanation
Indices: 23603754--23603795 Score: 75
Period size: 3 Copynumber: 13.7 Consensus size: 3
23603744 TGCATTTTAA
23603754 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT ATAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TA
23603796 GTGTATATTT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 35 0.92
4 3 0.08
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:23603897 original size:3 final size:3
Alignment explanation
Indices: 23603889--23603939 Score: 84
Period size: 3 Copynumber: 17.0 Consensus size: 3
23603879 TGTATTTCTA
* *
23603889 TAT TAT TAT TAT TAT TTT TAT GAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
23603937 TAT
1 TAT
23603940 AATATGGTAG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:23604070 original size:16 final size:15
Alignment explanation
Indices: 23604039--23604081 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
23604029 CCTTCATTCC
*
23604039 ATTATTATTATTACT
1 ATTATTATTTTTACT
23604054 ATTATTATATTTTACT
1 ATTATTAT-TTTTACT
*
23604070 ATCATTATTTTT
1 ATTATTATTTTT
23604082 CATACGTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (15 bp):
ATTATTATTTTTACT
Found at i:23604207 original size:16 final size:16
Alignment explanation
Indices: 23604186--23604217 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
23604176 CTATTGTTAC
23604186 TGTTATTATCATCACT
1 TGTTATTATCATCACT
*
23604202 TGTTATTCTCATCACT
1 TGTTATTATCATCACT
23604218 ATTATTATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.22, G:0.06, T:0.50
Consensus pattern (16 bp):
TGTTATTATCATCACT
Found at i:23604259 original size:11 final size:13
Alignment explanation
Indices: 23604229--23604260 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
23604219 TTATTATAAT
23604229 TTATTATTGTTAC
1 TTATTATTGTTAC
23604242 TTATTATT-TTAC
1 TTATTATTGTTAC
23604254 -TATTATT
1 TTATTATT
23604261 ATCTAATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.37
12 4 0.21
13 8 0.42
ACGTcount: A:0.25, C:0.06, G:0.03, T:0.66
Consensus pattern (13 bp):
TTATTATTGTTAC
Found at i:23604463 original size:22 final size:22
Alignment explanation
Indices: 23604433--23604493 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
23604423 TTATTATATC
*
23604433 TTTTACTATTATTATTGTTGTA
1 TTTTACTATTATTATTGTTATA
* * *
23604455 TTTTTCTATTATTGTTATTATA
1 TTTTACTATTATTATTGTTATA
* *
23604477 TTTTCCT-TTATTTTTGT
1 TTTTACTATTATTATTGT
23604494 ATTTACTTAT
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 8 0.25
22 24 0.75
ACGTcount: A:0.18, C:0.07, G:0.07, T:0.69
Consensus pattern (22 bp):
TTTTACTATTATTATTGTTATA
Found at i:23604467 original size:3 final size:3
Alignment explanation
Indices: 23604217--23604448 Score: 124
Period size: 3 Copynumber: 78.3 Consensus size: 3
23604207 TTCTCATCAC
* * *
23604217 TAT TAT TAT AATT TAT TAT TGT TACT TAT TAT T-T TAC TAT TAT TAT
1 TAT TAT TAT TA-T TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT
* * * * * * *
23604263 CTAA TA- TAT CAT CAT TAT CAT T-T T-T TCAT TAT AACT TAA TA- GAT
1 -TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TA-T TAT TAT TAT
23604307 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * ** * *
23604355 TAC TAT TAT T-T AAT ATAT TAT TTT TAC TAT TAT CGT CA- TAT TGT
1 TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
23604399 TAC TAT TAC TAT TA- TAT TAT TA- TGT TAT TA- TAT CTTT TAC TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT
23604442 TAT TAT T
1 TAT TAT T
23604449 GTTGTATTTT
Statistics
Matches: 173, Mismatches: 40, Indels: 32
0.71 0.16 0.13
Matches are distributed among these distances:
2 16 0.09
3 142 0.82
4 15 0.09
ACGTcount: A:0.32, C:0.07, G:0.02, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:23604563 original size:17 final size:17
Alignment explanation
Indices: 23604541--23604573 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
23604531 GATAACTGTA
23604541 TATTTT-TTTAGCATATT
1 TATTTTATTTA-CATATT
23604558 TATTTTATTTACATAT
1 TATTTTATTTACATAT
23604574 CATTACTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.27, C:0.06, G:0.03, T:0.64
Consensus pattern (17 bp):
TATTTTATTTACATATT
Found at i:23611500 original size:3 final size:3
Alignment explanation
Indices: 23611492--23611737 Score: 130
Period size: 3 Copynumber: 80.3 Consensus size: 3
23611482 CTATTTTACC
* *
23611492 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -TGT ATC CTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT
* * ** *
23611537 ATT AAT A-T ATT ATT ATC ATT -TCCT CCT ATT ATT ATT AACCT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT AT--T ATT ATT ATT ATT -A-TT ATT ATT
* * *
23611584 ATT CTT ATT AGT A-T ATT ATT ATT -TCCT ATT CTT -TAT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT--T ATT ATT AT-T ATT ATT ATT
* * *
23611629 ATT ATT CATGT ATAT ATT ATT ATT GTT ATT ATT TTT ATT ATT AAT ATT
1 ATT ATT -AT-T AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * * * *
23611677 CTT ATC GTT ACT ATT ATT TTT ATT CCTT -TT ATT AGTT ATT ATC AAT
1 ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT A-TT ATT ATT ATT
23611723 A-T ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT A
23611738 CCACCTTATT
Statistics
Matches: 186, Mismatches: 37, Indels: 40
0.71 0.14 0.15
Matches are distributed among these distances:
2 12 0.06
3 153 0.82
4 18 0.10
5 3 0.02
ACGTcount: A:0.29, C:0.08, G:0.02, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:23612114 original size:14 final size:14
Alignment explanation
Indices: 23612065--23612116 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 14
23612055 TAATTTCAAA
23612065 TATTT-TTTTAGCT
1 TATTTATTTTAGCT
*
23612078 TATTTATTATT-TCT
1 TATTTATT-TTAGCT
*
23612092 TTTTTATTTTAGCT
1 TATTTATTTTAGCT
*
23612106 TATTCATTTTA
1 TATTTATTTTA
23612117 CCCATTTGTT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
13 7 0.23
14 22 0.71
15 2 0.06
ACGTcount: A:0.19, C:0.08, G:0.04, T:0.69
Consensus pattern (14 bp):
TATTTATTTTAGCT
Found at i:23614257 original size:27 final size:27
Alignment explanation
Indices: 23614210--23614265 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
23614200 TAAATTAGAA
* *
23614210 AAAAAATTAAATATAATTTTTAATATT
1 AAAAAATTAAATATAAGTTTTAACATT
* *
23614237 AAAAAATTGAATTTAAGTTTTAACATT
1 AAAAAATTAAATATAAGTTTTAACATT
23614264 AA
1 AA
23614266 TTTTAAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.41
Consensus pattern (27 bp):
AAAAAATTAAATATAAGTTTTAACATT
Found at i:23615146 original size:23 final size:22
Alignment explanation
Indices: 23615120--23615165 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
23615110 TGTATATATC
23615120 TTTTAAAGATTATGCAATATACT
1 TTTTAAAGATTATGCAAT-TACT
** *
23615143 TTTTAATTATTGTGCAATTACT
1 TTTTAAAGATTATGCAATTACT
23615165 T
1 T
23615166 AATTATTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.33, C:0.09, G:0.09, T:0.50
Consensus pattern (22 bp):
TTTTAAAGATTATGCAATTACT
Found at i:23615272 original size:75 final size:75
Alignment explanation
Indices: 23615182--23615333 Score: 304
Period size: 75 Copynumber: 2.0 Consensus size: 75
23615172 TATTTGAAAG
23615182 AATGTTACGAAATAAAATATTTTATTGAATAAAAATATCAATTTAGCCCCTGTACGTTATATGAG
1 AATGTTACGAAATAAAATATTTTATTGAATAAAAATATCAATTTAGCCCCTGTACGTTATATGAG
23615247 TGAGCAAAAC
66 TGAGCAAAAC
23615257 AATGTTACGAAATAAAATATTTTATTGAATAAAAATATCAATTTAGCCCCTGTACGTTATATGAG
1 AATGTTACGAAATAAAATATTTTATTGAATAAAAATATCAATTTAGCCCCTGTACGTTATATGAG
23615322 TGAGCAAAAC
66 TGAGCAAAAC
23615332 AA
1 AA
23615334 CACTTCCATT
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 77 1.00
ACGTcount: A:0.43, C:0.12, G:0.13, T:0.32
Consensus pattern (75 bp):
AATGTTACGAAATAAAATATTTTATTGAATAAAAATATCAATTTAGCCCCTGTACGTTATATGAG
TGAGCAAAAC
Found at i:23617309 original size:17 final size:17
Alignment explanation
Indices: 23617284--23617329 Score: 51
Period size: 16 Copynumber: 2.6 Consensus size: 17
23617274 AAAAATTTAG
23617284 GGGGAAATAAAAAGTTTT
1 GGGGAAAT-AAAAGTTTT
23617302 GGGG-AATAAAAG-TTT
1 GGGGAAATAAAAGTTTT
23617317 GAGGGAAAGTAAA
1 G-GGGAAA-TAAA
23617330 TAGGGGAGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 4 0.16
16 8 0.32
17 5 0.20
18 8 0.32
ACGTcount: A:0.46, C:0.00, G:0.33, T:0.22
Consensus pattern (17 bp):
GGGGAAATAAAAGTTTT
Found at i:23617670 original size:9 final size:9
Alignment explanation
Indices: 23617656--23617692 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
23617646 TATAGTTTAA
23617656 TATTCGAAT
1 TATTCGAAT
23617665 TATTCGAAT
1 TATTCGAAT
*
23617674 TATTCGAGT
1 TATTCGAAT
*
23617683 TATTCAAAT
1 TATTCGAAT
23617692 T
1 T
23617693 CGAAAACTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:23617756 original size:9 final size:9
Alignment explanation
Indices: 23617742--23617774 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
23617732 AATCGAGTTG
23617742 ACTCGAATA
1 ACTCGAATA
*
23617751 ACTCGATTA
1 ACTCGAATA
23617760 ACTCGAATA
1 ACTCGAATA
23617769 ACTCGA
1 ACTCGA
23617775 TTTGTTTAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.39, C:0.24, G:0.12, T:0.24
Consensus pattern (9 bp):
ACTCGAATA
Found at i:23617765 original size:18 final size:18
Alignment explanation
Indices: 23617742--23617776 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
23617732 AATCGAGTTG
23617742 ACTCGAATAACTCGATTA
1 ACTCGAATAACTCGATTA
23617760 ACTCGAATAACTCGATT
1 ACTCGAATAACTCGATT
23617777 TGTTTAACTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.37, C:0.23, G:0.11, T:0.29
Consensus pattern (18 bp):
ACTCGAATAACTCGATTA
Found at i:23623832 original size:20 final size:21
Alignment explanation
Indices: 23623786--23623833 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
23623776 GGTAAATTAA
* **
23623786 TTAAAATTTTCAAAAAAATTG
1 TTAAAATTATCAAAAAAAAAG
*
23623807 TAAAAATTAT-AAAAAAAAAG
1 TTAAAATTATCAAAAAAAAAG
23623827 TTAAAAT
1 TTAAAAT
23623834 AAAAATATTT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.31
Consensus pattern (21 bp):
TTAAAATTATCAAAAAAAAAG
Found at i:23627573 original size:44 final size:46
Alignment explanation
Indices: 23627513--23627681 Score: 152
Period size: 46 Copynumber: 3.7 Consensus size: 46
23627503 TATGCGTGTT
*
23627513 GATGCATGTCCCAGACATGTCTTACACTAGCACAACTCT-T-A-GCC
1 GATGCATGTCCTAGACATGTCTTACACTAGC-CAACTCTGTCAGGCC
* * * * *
23627557 GATGCGTGTCCTAGACACGTCTTACACTGGCTATCTCTGTCGAGGCC
1 GATGCATGTCCTAGACATGTCTTACACTAGCCAACTCTGTC-AGGCC
* * * *
23627604 GATGCATGTCCTAGACATGTCTTACTCT-GGC-ACTCATAAT-ATGGCT
1 GATGCATGTCCTAGACATGTCTTACACTAGCCAACTC-T-GTCA-GGCC
*
23627650 GAAGCATGTCCTAGACATGTCTTACACTAGCC
1 GATGCATGTCCTAGACATGTCTTACACTAGCC
23627682 CTTATCTGGA
Statistics
Matches: 100, Mismatches: 17, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
43 5 0.05
44 28 0.28
45 4 0.04
46 32 0.32
47 31 0.31
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (46 bp):
GATGCATGTCCTAGACATGTCTTACACTAGCCAACTCTGTCAGGCC
Found at i:23627752 original size:47 final size:45
Alignment explanation
Indices: 23627516--23627774 Score: 150
Period size: 47 Copynumber: 5.6 Consensus size: 45
23627506 GCGTGTTGAT
* * * ** *
23627516 GCATGTCCCAGACATGTCTTACACTAGCAC-AACTCTTA-GCCGAT
1 GCATGTCCCAGACATGTCTTATACTGGCACTCA-TAGTAGGCCGAA
* * * * *
23627560 GCGTGTCCTAGACACGTCTTACACTGGCTATCTC-T-GTCGAGGCCGAT
1 GCATGTCCCAGACATGTCTTATACTGGC-A-CTCATAGT--AGGCCGAA
* * *
23627607 GCATGTCCTAGACATGTCTTACT-CTGGCACTCATAATATGGCTGAA
1 GCATGTCCCAGACATGTCTTA-TACTGGCACTCATAGTA-GGCCGAA
* * * * * * * * *
23627653 GCATGTCCTAGACATGTCTTACACTAGCCCTTATCTGGATGCCGAT
1 GCATGTCCCAGACATGTCTTATACTGGCACTCAT-AGTAGGCCGAA
*
23627699 GCCATGTCCCAGACATGGTCTTATACTGGCTCTCATAGTACGGCCGAA
1 G-CATGTCCCAGACAT-GTCTTATACTGGCACTCATAGTA-GGCCGAA
* *
23627747 GCATGTCCCAGACATGTTTTACACTGGC
1 GCATGTCCCAGACATGTCTTATACTGGC
23627775 GCACAAATCA
Statistics
Matches: 167, Mismatches: 33, Indels: 28
0.73 0.14 0.12
Matches are distributed among these distances:
44 25 0.15
45 6 0.04
46 54 0.32
47 61 0.37
48 21 0.13
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.28
Consensus pattern (45 bp):
GCATGTCCCAGACATGTCTTATACTGGCACTCATAGTAGGCCGAA
Found at i:23627760 original size:94 final size:92
Alignment explanation
Indices: 23627601--23627771 Score: 245
Period size: 94 Copynumber: 1.8 Consensus size: 92
23627591 CTCTGTCGAG
* * * *
23627601 GCCGATGCATGTCCTAGACATGTCTTACTCTGGCACTCATAATATGGCTGAAGCATGTCCTAGAC
1 GCCGATGCATGTCCCAGACATGTCTTACTCTGGCACTCATAATACGGCCGAAGCATGTCCCAGAC
23627666 ATGTCTTACACTAGCCCTTATCTGGAT
66 ATGTCTTACACTAGCCCTTATCTGGAT
* *
23627693 GCCGATGCCATGTCCCAGACATGGTCTTA-TACTGGCTCTCATAGTACGGCCGAAGCATGTCCCA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACT-CTGGCACTCATAATACGGCCGAAGCATGTCCCA
*
23627757 GACATGTTTTACACT
63 GACATGTCTTACACT
23627772 GGCGCACAAA
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
92 7 0.10
93 14 0.20
94 48 0.70
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.29
Consensus pattern (92 bp):
GCCGATGCATGTCCCAGACATGTCTTACTCTGGCACTCATAATACGGCCGAAGCATGTCCCAGAC
ATGTCTTACACTAGCCCTTATCTGGAT
Found at i:23631579 original size:47 final size:46
Alignment explanation
Indices: 23631459--23631640 Score: 192
Period size: 47 Copynumber: 3.9 Consensus size: 46
23631449 ATAATTTCAC
*
23631459 CCATAATGAACTCGGAACGCAACTCAACGAGCTCAGG-TGCTCACAT
1 CCATAATGAACTCGGAACGCAACTCAACGAGTTC-GGATGCTCACAT
* * * **
23631505 CCATAATGAACTCGGAACACAATTCAACAAGTTCGGATGCTTGCAT
1 CCATAATGAACTCGGAACGCAACTCAACGAGTTCGGATGCTCACAT
* *
23631551 CCATAAGTGAAC-CTGTAACGCAACTCAACGAGTTCGGATGCCTCATAAT
1 CCATAA-TGAACTC-GGAACGCAACTCAACGAGTTCGGATG-CTCA-CAT
* * *
23631600 TC-TCACGAACTCGGAACGCAACTCAACGAGTTCGGAT-CTCA
1 CCATAATGAACTCGGAACGCAACTCAACGAGTTCGGATGCTCA
23631641 ATTTCCTAGT
Statistics
Matches: 113, Mismatches: 17, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
45 6 0.05
46 44 0.39
47 55 0.49
48 5 0.04
49 3 0.03
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAATGAACTCGGAACGCAACTCAACGAGTTCGGATGCTCACAT
Found at i:23639761 original size:174 final size:174
Alignment explanation
Indices: 23639471--23639820 Score: 673
Period size: 174 Copynumber: 2.0 Consensus size: 174
23639461 GCCTATAGCA
23639471 TTACTACTGCAGGTAATAATCTATTTTATGCTTACATTACATATGTTTCATAAATATATGAAGAG
1 TTACTACTGCAGGTAATAATCTATTTTATGCTTACATTACATATGTTTCATAAATATATGAAGAG
23639536 GTAAAAGGAAGTTGATATGATATGAATGTATCGGGCAGTAATCCCTATTTGAGTGGCTTAGTAAG
66 GTAAAAGGAAGTTGATATGATATGAATGTATCGGGCAGTAATCCCTATTTGAGTGGCTTAGTAAG
23639601 CATCTTTCCTCATGGTCTTTGTTTCAGCATATGAGTAAACTGTC
131 CATCTTTCCTCATGGTCTTTGTTTCAGCATATGAGTAAACTGTC
* * *
23639645 TTACTACTGCAGGTAATAATGTATTTTATGCTTCCATTACGTATGTTTCATAAATATATGAAGAG
1 TTACTACTGCAGGTAATAATCTATTTTATGCTTACATTACATATGTTTCATAAATATATGAAGAG
23639710 GTAAAAGGAAGTTGATATGATATGAATGTATCGGGCAGTAATCCCTATTTGAGTGGCTTAGTAAG
66 GTAAAAGGAAGTTGATATGATATGAATGTATCGGGCAGTAATCCCTATTTGAGTGGCTTAGTAAG
23639775 CATCTTTCCTCATGGTCTTTGTTTCAGCATATGAGTAAACTGTC
131 CATCTTTCCTCATGGTCTTTGTTTCAGCATATGAGTAAACTGTC
23639819 TT
1 TT
23639821 TCTATCACTT
Statistics
Matches: 173, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
174 173 1.00
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.37
Consensus pattern (174 bp):
TTACTACTGCAGGTAATAATCTATTTTATGCTTACATTACATATGTTTCATAAATATATGAAGAG
GTAAAAGGAAGTTGATATGATATGAATGTATCGGGCAGTAATCCCTATTTGAGTGGCTTAGTAAG
CATCTTTCCTCATGGTCTTTGTTTCAGCATATGAGTAAACTGTC
Found at i:23641517 original size:21 final size:22
Alignment explanation
Indices: 23641493--23641533 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
23641483 TTGGTTTAAG
*
23641493 TAGTTAAAG-TATGTATTTAGT
1 TAGTTAAAGCTATCTATTTAGT
*
23641514 TAGTTCAAGCTATCTATTTA
1 TAGTTAAAGCTATCTATTTA
23641534 CTGATATTGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.32, C:0.07, G:0.15, T:0.46
Consensus pattern (22 bp):
TAGTTAAAGCTATCTATTTAGT
Found at i:23644256 original size:26 final size:25
Alignment explanation
Indices: 23644227--23644275 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
23644217 ATATATCAAT
*
23644227 TTTAAAAAATTATAAAATATAAAAAA
1 TTTAAAAAAGTATAAAA-ATAAAAAA
*
23644253 TTTAGAAAAGTATAAAAATAAAA
1 TTTAAAAAAGTATAAAAATAAAA
23644276 TTATAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 6 0.29
26 15 0.71
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (25 bp):
TTTAAAAAAGTATAAAAATAAAAAA
Found at i:23644261 original size:18 final size:18
Alignment explanation
Indices: 23644229--23644270 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
23644219 ATATCAATTT
*
23644229 TAAAAAATTATAAAA-TA
1 TAAAAAATTAGAAAAGTA
23644246 TAAAAAATTTAGAAAAGTA
1 TAAAAAA-TTAGAAAAGTA
23644265 TAAAAA
1 TAAAAA
23644271 TAAAATTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.32
18 7 0.32
19 8 0.36
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (18 bp):
TAAAAAATTAGAAAAGTA
Found at i:23644271 original size:18 final size:17
Alignment explanation
Indices: 23644229--23644271 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
23644219 ATATCAATTT
* *
23644229 TAAAAAATTATAAAATA
1 TAAAAATTTAGAAAATA
23644246 TAAAAAATTTAGAAAAGTA
1 T-AAAAATTTAGAAAA-TA
23644265 TAAAAAT
1 TAAAAAT
23644272 AAAATTATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 1 0.05
18 18 0.82
19 3 0.14
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (17 bp):
TAAAAATTTAGAAAATA
Found at i:23644280 original size:14 final size:15
Alignment explanation
Indices: 23644258--23644290 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
23644248 AAAAATTTAG
23644258 AAAAGTAT-AAAAAT
1 AAAAGTATAAAAAAT
*
23644272 AAAATTATAAAAAAT
1 AAAAGTATAAAAAAT
23644287 AAAA
1 AAAA
23644291 ATCATTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (15 bp):
AAAAGTATAAAAAAT
Found at i:23647223 original size:41 final size:42
Alignment explanation
Indices: 23647161--23647239 Score: 117
Period size: 41 Copynumber: 1.9 Consensus size: 42
23647151 TACCTAGTAC
*
23647161 CTCATCGGATTTAATCCGAAGCAATCA-TACAACACATAGTGT
1 CTCATCGGAATTAATCCGAAGCAAT-ATTACAACACATAGTGT
*
23647203 CTCATCGGAATT-ATCCGAAGCAATATTACGACACATA
1 CTCATCGGAATTAATCCGAAGCAATATTACAACACATA
23647240 TAGTGCCTCA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
40 1 0.03
41 22 0.65
42 11 0.32
ACGTcount: A:0.37, C:0.24, G:0.14, T:0.25
Consensus pattern (42 bp):
CTCATCGGAATTAATCCGAAGCAATATTACAACACATAGTGT
Found at i:23647479 original size:43 final size:43
Alignment explanation
Indices: 23647401--23647690 Score: 316
Period size: 43 Copynumber: 6.7 Consensus size: 43
23647391 GCCACAAAAC
* *
23647401 TTAGCGGCGTTTTTTTCTAAAAAACGCCGCTAAAGACCTGCACTT
1 TTAGCGGCG-CTTTTT-TAAAAAACGCCGCTAAAGACCTGTACTT
* * *
23647446 TTAGCGGCGCTTTTTTAAGAAACGCCGCTAAAGACCAAG-ACCT
1 TTAGCGGCGCTTTTTTAAAAAACGCCGCTAAAGACC-TGTACTT
* * * *
23647489 TTAGCGGTGCTTCTATAAAAAACGCCGCAAAAGACCTGTACTT
1 TTAGCGGCGCTTTTTTAAAAAACGCCGCTAAAGACCTGTACTT
* * * * *
23647532 TTAGCGGCGCTTTTTTAAGAAACGCCACTAAAGACCAGGACCT
1 TTAGCGGCGCTTTTTTAAAAAACGCCGCTAAAGACCTGTACTT
* *
23647575 TTAGCGGCGC-TTTTTGAAAAACGCCGCTAAAGACCTATACTT
1 TTAGCGGCGCTTTTTTAAAAAACGCCGCTAAAGACCTGTACTT
* ** * *
23647617 TTAGTGGCGCTTTTTATAAAAAACGCCGCTAGGGACCTATGCTT
1 TTAGCGGCGCTTTTT-TAAAAAACGCCGCTAAAGACCTGTACTT
* *
23647661 TTAGCGGCGC-TTTTTGAAAAACGCTGCTAA
1 TTAGCGGCGCTTTTTTAAAAAACGCCGCTAA
23647691 TTTGCCCAGT
Statistics
Matches: 205, Mismatches: 36, Indels: 11
0.81 0.14 0.04
Matches are distributed among these distances:
42 48 0.23
43 109 0.53
44 39 0.19
45 9 0.04
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (43 bp):
TTAGCGGCGCTTTTTTAAAAAACGCCGCTAAAGACCTGTACTT
Found at i:23647516 original size:86 final size:85
Alignment explanation
Indices: 23647418--23647690 Score: 359
Period size: 86 Copynumber: 3.2 Consensus size: 85
23647408 CGTTTTTTTC
*
23647418 TAAAAAACGCCGCTAAAGACCTGCACTTTTAGCGGCGCTTTTTTAAGAAACGCCGCTAAAGACCA
1 TAAAAAACGCCGCTAAAGACCTGTACTTTTAGCGGCGCTTTTTTAAGAAACGCCGCTAAAGACCA
*
23647483 AGACCTTTAGCGGTGCTTCTA
66 AGACCTTTAGCGGCGCTT-TA
* *
23647504 TAAAAAACGCCGCAAAAGACCTGTACTTTTAGCGGCGCTTTTTTAAGAAACGCCACTAAAGACCA
1 TAAAAAACGCCGCTAAAGACCTGTACTTTTAGCGGCGCTTTTTTAAGAAACGCCGCTAAAGACCA
* *
23647569 GGACCTTTAGCGGCGCTTTT
66 AGACCTTTAGCGGCGCTTTA
* * * * **
23647589 TGAAAAACGCCGCTAAAGACCTATACTTTTAGTGGCGCTTTTTATAAAAAACGCCGCTAGGGACC
1 TAAAAAACGCCGCTAAAGACCTGTACTTTTAGCGGCGCTTTTT-TAAGAAACGCCGCTAAAGACC
* * *
23647654 TATG-CTTTTAGCGGCGCTTTT
65 -AAGACCTTTAGCGGCGCTTTA
* *
23647675 TGAAAAACGCTGCTAA
1 TAAAAAACGCCGCTAA
23647691 TTTGCCCAGT
Statistics
Matches: 168, Mismatches: 17, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
85 40 0.24
86 126 0.75
87 2 0.01
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (85 bp):
TAAAAAACGCCGCTAAAGACCTGTACTTTTAGCGGCGCTTTTTTAAGAAACGCCGCTAAAGACCA
AGACCTTTAGCGGCGCTTTA
Found at i:23647567 original size:129 final size:128
Alignment explanation
Indices: 23647401--23647684 Score: 354
Period size: 129 Copynumber: 2.2 Consensus size: 128
23647391 GCCACAAAAC
* * * * *
23647401 TTAGCGGCGTTTTTTTCTAAAAAACGCCGCTAAAGACCTGCACTTTTAGCGGCGCTTTTTTAAGA
1 TTAGCGGCG-CTTTTT-T-AAAAACGCCACTAAAGACCAGCACCTTTAGCGGCGCTTTTTGAA-A
* *
23647466 AACGCCGCTAAAGACCAAGACCTTTAGCGGTGC-TTCTATAAAAAACGCCGCAAAAGACCTGTAC
62 AACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTCTATAAAAAACGCCGCAAAAGACCTATAC
23647530 TT
127 TT
*
23647532 TTAGCGGCGCTTTTTTAAGAAACGCCACTAAAGACCAGGACCTTTAGCGGCGCTTTTTGAAAAAC
1 TTAGCGGCGCTTTTTTAA-AAACGCCACTAAAGACCAGCACCTTTAGCGGCGCTTTTTGAAAAAC
* * * * * * ** *
23647597 GCCGCTAAAGACCTATACTTTTAGTGGCGCTTTTTATAAAAAACGCCGCTAGGGACCTATGCTT
65 GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTCTATAAAAAACGCCGCAAAAGACCTATACTT
*
23647661 TTAGCGGCGCTTTTTGAAAAACGC
1 TTAGCGGCGCTTTTTTAAAAACGC
23647685 TGCTAATTTG
Statistics
Matches: 133, Mismatches: 18, Indels: 7
0.84 0.11 0.04
Matches are distributed among these distances:
128 37 0.28
129 82 0.62
130 5 0.04
131 9 0.07
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (128 bp):
TTAGCGGCGCTTTTTTAAAAACGCCACTAAAGACCAGCACCTTTAGCGGCGCTTTTTGAAAAACG
CCGCTAAAGACCAAGACCTTTAGCGGCGCTTTCTATAAAAAACGCCGCAAAAGACCTATACTT
Found at i:23651416 original size:26 final size:25
Alignment explanation
Indices: 23651354--23651436 Score: 139
Period size: 26 Copynumber: 3.2 Consensus size: 25
23651344 TGATACAAAT
23651354 TGATAATAGGTTAGGTAAATGTTCA
1 TGATAATAGGTTAGGTAAATGTTCA
23651379 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTT-CA
*
23651405 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATG-TTCA
23651431 TGATAA
1 TGATAA
23651437 GAATTTCATG
Statistics
Matches: 55, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
25 23 0.42
26 30 0.55
27 2 0.04
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.36
Consensus pattern (25 bp):
TGATAATAGGTTAGGTAAATGTTCA
Done.