Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 183 of 318
Found at i:57127707 original size:46 final size:46
Alignment explanation
Indices: 57127654--57127961 Score: 222
Period size: 46 Copynumber: 6.5 Consensus size: 46
57127644 TGTGTGTGCT
57127654 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCC
* *
57127700 AGTGTAAGACCATGTCTGGGACATGGCATC-G--ACATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACATT---ATGAGAGCC
* * *
57127748 AGTGTAAGACATGTCTGCGACATGCATCGGCCTCGA-GATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATG-AGAGCC
* * * * *
57127794 AGTGTAAGACATGTCTGGGACATGCATCGACTAC--GA-GATGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGA-GAGCC
* * * *
57127838 AGTGTAAGACCATGTCTGGGACATGGCATTGGCACAAATATGTGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CACAT-TATGAGAGCC
* * * *
57127888 AGTGTAAGAACATGTCTGGGACATGGCATCAGTCTCGAC-TT-CGATAGTC
1 AGTGTAAG-ACATGTCTGGGACAT-GCATC-GGC-C-ACATTATGAGAGCC
57127937 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
57127962 GCATTGGCAT
Statistics
Matches: 209, Mismatches: 30, Indels: 44
0.74 0.11 0.16
Matches are distributed among these distances:
42 1 0.00
43 1 0.00
44 13 0.06
45 19 0.09
46 55 0.26
47 31 0.15
48 23 0.11
49 27 0.13
50 31 0.15
51 7 0.03
52 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCC
Found at i:57127892 original size:94 final size:92
Alignment explanation
Indices: 57127654--57127961 Score: 313
Period size: 94 Copynumber: 3.3 Consensus size: 92
57127644 TGTGTGTGCT
* *
57127654 AGTGTAAGACATGTCTGGGACATGCATCGGCCACAT-TATGAGAGCCAGTGTAAGACCATGTCTG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCAAATATGTGAGAGCCAGTGTAAGA-CATGTCTG
* * * *
57127718 GGACATGGCATCGAC-ATTGAGACGAGAGC
65 GGACATGGCATCGACTA-CGAGATGTG-TC
* ** *
57127747 TAGTGTAAGACATGTCTGCGACATGCATCGGCCTCGAGATGT-A-AGCCAGTGTAAGACATGTCT
1 -AGTGTAAGACATGTCTGGGACATGCATCGGCC-AAATATGTGAGAGCCAGTGTAAGACATGTCT
57127810 GGGACAT-GCATCGACTACGAGATGTGTC
64 GGGACATGGCATCGACTACGAGATGTGTC
* *
57127838 AGTGTAAGACCATGTCTGGGACATGGCATTGGCACAAATATGTGAGAGCTAGTGTAAGAACATGT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CAAATATGTGAGAGCCAGTGTAAG-ACATGT
* **
57127903 CTGGGACATGGCATCAGTCT-CGACTTCGATAGTC
62 CTGGGACATGGCATC-GACTACGAGAT-G-T-GTC
57127937 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
57127962 GCATTGGCAT
Statistics
Matches: 182, Mismatches: 18, Indels: 24
0.81 0.08 0.11
Matches are distributed among these distances:
90 9 0.05
91 14 0.08
92 26 0.14
93 17 0.09
94 55 0.30
95 17 0.09
96 11 0.06
97 4 0.02
98 2 0.01
99 27 0.15
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.23
Consensus pattern (92 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCAAATATGTGAGAGCCAGTGTAAGACATGTCTGG
GACATGGCATCGACTACGAGATGTGTC
Found at i:57138804 original size:40 final size:40
Alignment explanation
Indices: 57138760--57138944 Score: 192
Period size: 40 Copynumber: 4.6 Consensus size: 40
57138750 CTCGCACAAG
* *
57138760 GCCTTTGGGTCTTAGCCCAGATAT-GATCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAG-TCACTAGCATAAAT
* * * *
57138800 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACATAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAAT
* * * *
57138840 GCCTTCGGGTTTTGGCCCGGATATAGTAACTCGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAAT
** * * * *
57138880 GCCTTCGAATCTTAGTCCGGATATAGTCACTTAACACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCAC-TAGCATAAAT
*
57138921 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
57138945 CATTCGGATA
Statistics
Matches: 115, Mismatches: 28, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
40 88 0.77
41 27 0.23
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.28
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAAT
Found at i:57140942 original size:30 final size:30
Alignment explanation
Indices: 57140899--57140955 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
57140889 AATTCACATT
* *
57140899 TTTGGTAAAATGACCATTTTGCCCCTAGAC
1 TTTGGCAAAATGACCATTTTACCCCTAGAC
*
57140929 TTTGGCAAGATGACCATTTTACCCCTA
1 TTTGGCAAAATGACCATTTTACCCCTA
57140956 TGCCTGAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.33
Consensus pattern (30 bp):
TTTGGCAAAATGACCATTTTACCCCTAGAC
Found at i:57143018 original size:19 final size:18
Alignment explanation
Indices: 57142986--57143035 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 18
57142976 ATTTGGTTAG
*
57142986 GTTA-TTTTACTTAATTC
1 GTTAGTTTTATTTAATTC
57143003 TGTTAGTTTTATTTAA--C
1 -GTTAGTTTTATTTAATTC
57143020 -TTAGTTTTATTTAATT
1 GTTAGTTTTATTTAATT
57143036 TCTACAGGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
15 14 0.50
17 1 0.04
18 4 0.14
19 9 0.32
ACGTcount: A:0.24, C:0.06, G:0.08, T:0.62
Consensus pattern (18 bp):
GTTAGTTTTATTTAATTC
Found at i:57143025 original size:15 final size:15
Alignment explanation
Indices: 57143005--57143033 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
57142995 CTTAATTCTG
57143005 TTAGTTTTATTTAAC
1 TTAGTTTTATTTAAC
57143020 TTAGTTTTATTTAA
1 TTAGTTTTATTTAA
57143034 TTTCTACAGG
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:0.28, C:0.03, G:0.07, T:0.62
Consensus pattern (15 bp):
TTAGTTTTATTTAAC
Found at i:57151786 original size:42 final size:40
Alignment explanation
Indices: 57151683--57151787 Score: 120
Period size: 40 Copynumber: 2.6 Consensus size: 40
57151673 CTTTTATCAA
* ** *
57151683 ATCATCGGCATTTAGCCTGCTAGGTTTTAAACCTGAATTC
1 ATCACCGGCATTTAGCCTGCTAGACTTTAAACCTGAACTC
** **
57151723 ATCACCGGCACGTAGCCTGCTAGACTTTAAGTCTGAACTC
1 ATCACCGGCATTTAGCCTGCTAGACTTTAAACCTGAACTC
57151763 ATTCACCGGCATTATAGCCTGCTAG
1 A-TCACCGGCATT-TAGCCTGCTAG
57151788 GCCCGAAGCC
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
40 33 0.62
41 9 0.17
42 11 0.21
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.30
Consensus pattern (40 bp):
ATCACCGGCATTTAGCCTGCTAGACTTTAAACCTGAACTC
Found at i:57151817 original size:43 final size:45
Alignment explanation
Indices: 57151763--57151886 Score: 177
Period size: 43 Copynumber: 2.8 Consensus size: 45
57151753 GTCTGAACTC
57151763 ATTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGAT-A--TT
1 ATTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATAATGTT
57151805 ATTTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATAATGTT
1 A-TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATAATGTT
* * *
57151851 ATTCACCAGC-TTAAAGCTTGCTAGG-CCGAAGCCCGA
1 ATTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGA
57151887 ATATCACATT
Statistics
Matches: 75, Mismatches: 3, Indels: 7
0.88 0.04 0.08
Matches are distributed among these distances:
42 1 0.01
43 49 0.65
44 14 0.19
45 8 0.11
46 3 0.04
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.23
Consensus pattern (45 bp):
ATTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATAATGTT
Found at i:57161626 original size:14 final size:14
Alignment explanation
Indices: 57161607--57161634 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
57161597 GAGACTAACA
57161607 TATTGATGAATGTT
1 TATTGATGAATGTT
57161621 TATTGATGAATGTT
1 TATTGATGAATGTT
57161635 GGTGTATAGG
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:0.29, C:0.00, G:0.21, T:0.50
Consensus pattern (14 bp):
TATTGATGAATGTT
Found at i:57175384 original size:29 final size:27
Alignment explanation
Indices: 57175350--57175452 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
57175340 TACTCAATCA
*
57175350 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
57175379 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
57175408 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
57175437 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
57175453 ATCTCGTCCC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:57183344 original size:23 final size:23
Alignment explanation
Indices: 57183309--57183428 Score: 188
Period size: 23 Copynumber: 5.1 Consensus size: 23
57183299 CCTAGCCTCT
57183309 TTTAATAACTGGGGCA-AAGCCC
1 TTTAATAACTGGGGCATAAGCCC
* *
57183331 TTTTAACAAATGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
57183355 TTTATCATAACTGGGGCATAAGCCC
1 TTTA--ATAACTGGGGCATAAGCCC
57183380 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
57183403 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
57183426 TTT
1 TTT
57183429 TGCACTTCCT
Statistics
Matches: 90, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
23 63 0.70
24 6 0.07
25 21 0.23
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:57183369 original size:48 final size:47
Alignment explanation
Indices: 57183309--57183429 Score: 192
Period size: 48 Copynumber: 2.6 Consensus size: 47
57183299 CCTAGCCTCT
57183309 TTTAATAACTGGGGCA-AAGCCCTTTTAACAAATGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAACAAATGGGGCATAAGCCC
* *
57183355 TTTATCATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCC
1 TTTA--ATAACTGGGGCATAAGCCCTTTTAACAAATGGGGCATAAGCCC
57183403 TTTAATAACTGGGGCATAAGCCCTTTT
1 TTTAATAACTGGGGCATAAGCCCTTTT
57183430 GCACTTCCTC
Statistics
Matches: 69, Mismatches: 2, Indels: 7
0.88 0.03 0.09
Matches are distributed among these distances:
46 23 0.33
47 3 0.04
48 37 0.54
49 6 0.09
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (47 bp):
TTTAATAACTGGGGCATAAGCCCTTTTAACAAATGGGGCATAAGCCC
Found at i:57183501 original size:9 final size:9
Alignment explanation
Indices: 57183487--57183563 Score: 55
Period size: 9 Copynumber: 7.9 Consensus size: 9
57183477 ATCTCGTGTG
57183487 CATATCATA
1 CATATCATA
*
57183496 CATATCATGTG
1 CATATCA--TA
57183507 CATATCATA
1 CATATCATA
* *
57183516 CATGTCATGTG
1 CATATCA--TA
57183527 CATATCATA
1 CATATCATA
*
57183536 CATATCATGTG
1 CATATCA--TA
*
57183547 CATACCATA
1 CATATCATA
57183556 CATATCAT
1 CATATCAT
57183564 GTTTATCAAA
Statistics
Matches: 52, Mismatches: 10, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
9 30 0.58
11 22 0.42
ACGTcount: A:0.35, C:0.22, G:0.09, T:0.34
Consensus pattern (9 bp):
CATATCATA
Found at i:57183506 original size:20 final size:20
Alignment explanation
Indices: 57183483--57183565 Score: 148
Period size: 20 Copynumber: 4.2 Consensus size: 20
57183473 GAACATCTCG
57183483 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
57183503 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
57183523 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
57183543 TGTGCATACCATACATATCA
1 TGTGCATATCATACATATCA
57183563 TGT
1 TGT
57183566 TTATCAAAAT
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 60 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:57183630 original size:25 final size:25
Alignment explanation
Indices: 57183602--57183649 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
57183592 ATGTATAAAC
* * *
57183602 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
57183627 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
57183650 CATATTATAA
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:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:57191445 original size:23 final size:23
Alignment explanation
Indices: 57191410--57191529 Score: 188
Period size: 23 Copynumber: 5.1 Consensus size: 23
57191400 CCTAGCCTCT
57191410 TTTAATAACTGGGGCA-AAGCCC
1 TTTAATAACTGGGGCATAAGCCC
* *
57191432 TTTTAACAAATGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
57191456 TTTATCATAACTGGGGCATAAGCCC
1 TTTA--ATAACTGGGGCATAAGCCC
57191481 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
57191504 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
57191527 TTT
1 TTT
57191530 TGCACTTCCT
Statistics
Matches: 90, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
23 63 0.70
24 6 0.07
25 21 0.23
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:57191470 original size:48 final size:47
Alignment explanation
Indices: 57191410--57191530 Score: 192
Period size: 48 Copynumber: 2.6 Consensus size: 47
57191400 CCTAGCCTCT
57191410 TTTAATAACTGGGGCA-AAGCCCTTTTAACAAATGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAACAAATGGGGCATAAGCCC
* *
57191456 TTTATCATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCC
1 TTTA--ATAACTGGGGCATAAGCCCTTTTAACAAATGGGGCATAAGCCC
57191504 TTTAATAACTGGGGCATAAGCCCTTTT
1 TTTAATAACTGGGGCATAAGCCCTTTT
57191531 GCACTTCCTC
Statistics
Matches: 69, Mismatches: 2, Indels: 7
0.88 0.03 0.09
Matches are distributed among these distances:
46 23 0.33
47 3 0.04
48 37 0.54
49 6 0.09
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (47 bp):
TTTAATAACTGGGGCATAAGCCCTTTTAACAAATGGGGCATAAGCCC
Found at i:57191602 original size:9 final size:9
Alignment explanation
Indices: 57191588--57191664 Score: 55
Period size: 9 Copynumber: 7.9 Consensus size: 9
57191578 ATCTCGTGTG
57191588 CATATCATA
1 CATATCATA
*
57191597 CATATCATGTG
1 CATATCA--TA
57191608 CATATCATA
1 CATATCATA
* *
57191617 CATGTCATGTG
1 CATATCA--TA
57191628 CATATCATA
1 CATATCATA
*
57191637 CATATCATGTG
1 CATATCA--TA
*
57191648 CATACCATA
1 CATATCATA
57191657 CATATCAT
1 CATATCAT
57191665 GTTTATCAAA
Statistics
Matches: 52, Mismatches: 10, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
9 30 0.58
11 22 0.42
ACGTcount: A:0.35, C:0.22, G:0.09, T:0.34
Consensus pattern (9 bp):
CATATCATA
Found at i:57191607 original size:20 final size:20
Alignment explanation
Indices: 57191584--57191666 Score: 148
Period size: 20 Copynumber: 4.2 Consensus size: 20
57191574 GAACATCTCG
57191584 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
57191604 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
57191624 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
57191644 TGTGCATACCATACATATCA
1 TGTGCATATCATACATATCA
57191664 TGT
1 TGT
57191667 TTATCAAAAT
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 60 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:57191731 original size:25 final size:25
Alignment explanation
Indices: 57191703--57191750 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
57191693 ATGTATAAAC
* * *
57191703 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
57191728 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
57191751 CATATTATAA
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:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:57196232 original size:30 final size:30
Alignment explanation
Indices: 57196198--57196258 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
57196188 TCCTTAACTC
57196198 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
57196228 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
57196258 A
1 A
57196259 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:57202489 original size:27 final size:27
Alignment explanation
Indices: 57202451--57202627 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
57202441 GTACCGATGT
* *
57202451 AATGATCGAAATTCCCTCATAGGGTAA
1 AATGACCGAAATACCCTCATAGGGTAA
*
57202478 AATGACCAAAATACCCTCATAGGGTAA
1 AATGACCGAAATACCCTCATAGGGTAA
*
57202505 AATAACCGAAATACCC-CATAGGGTAA
1 AATGACCGAAATACCCTCATAGGGTAA
* * *
57202531 AATGATCGAAATACCCTTATAGGTTAA
1 AATGACCGAAATACCCTCATAGGGTAA
* *
57202558 AATGACCTAAATA-CCTCGGTAGGGTAA
1 AATGACCGAAATACCCTC-ATAGGGTAA
* * * *
57202585 AATGTCTGTAATACCC-CTGTAGGGTAA
1 AATGACCGAAATACCCTC-ATAGGGTAA
* *
57202612 AATGTCCGTAATACCC
1 AATGACCGAAATACCC
57202628 CTGTAAGGTA
Statistics
Matches: 127, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
26 27 0.21
27 98 0.77
28 2 0.02
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (27 bp):
AATGACCGAAATACCCTCATAGGGTAA
Found at i:57202584 original size:80 final size:81
Alignment explanation
Indices: 57202451--57202615 Score: 217
Period size: 80 Copynumber: 2.0 Consensus size: 81
57202441 GTACCGATGT
*
57202451 AATGATCGAAATTCCCTCATAGGGTAAAATGACCAAAATACCCTCATAGGGTAAAATAACCGAAA
1 AATGATCGAAATACCCTCATAGGGTAAAATGACCAAAATACCCTCATAGGGTAAAATAACCGAAA
57202516 TACCCC-ATAGGGTAA
66 TACCCCTATAGGGTAA
* * * * ** * *
57202531 AATGATCGAAATACCCTTATAGGTTAAAATGACCTAAATA-CCTCGGTAGGGTAAAATGTCTGTA
1 AATGATCGAAATACCCTCATAGGGTAAAATGACCAAAATACCCTC-ATAGGGTAAAATAACCGAA
*
57202595 ATACCCCTGTAGGGTAA
65 ATACCCCTATAGGGTAA
57202612 AATG
1 AATG
57202616 TCCGTAATAC
Statistics
Matches: 73, Mismatches: 10, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
79 4 0.05
80 57 0.78
81 12 0.16
ACGTcount: A:0.39, C:0.19, G:0.18, T:0.24
Consensus pattern (81 bp):
AATGATCGAAATACCCTCATAGGGTAAAATGACCAAAATACCCTCATAGGGTAAAATAACCGAAA
TACCCCTATAGGGTAA
Found at i:57206436 original size:41 final size:41
Alignment explanation
Indices: 57206379--57206468 Score: 128
Period size: 41 Copynumber: 2.2 Consensus size: 41
57206369 GGGTGTTACA
*
57206379 ATAAACACTGCAAAAGGTAAAGTAATAGCGGC-GTTTTGCCC
1 ATAAACGCTGCAAAAGGTAAAGTAATAGCGGCAGTTTTG-CC
* * *
57206420 ATAAACGCTGTAAAAGGTAAAGTAATAGTGGCATTTTTGCC
1 ATAAACGCTGCAAAAGGTAAAGTAATAGCGGCAGTTTTGCC
57206461 ATAAACGC
1 ATAAACGC
57206469 CGCGAATTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
41 39 0.89
42 5 0.11
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.24
Consensus pattern (41 bp):
ATAAACGCTGCAAAAGGTAAAGTAATAGCGGCAGTTTTGCC
Found at i:57213381 original size:35 final size:35
Alignment explanation
Indices: 57213335--57213432 Score: 141
Period size: 31 Copynumber: 2.9 Consensus size: 35
57213325 ATATTTAAAG
*
57213335 ATGATAATCATAACTTATATAAACATTCAAAGTTT
1 ATGATAATCATAACTTATATAAACATTTAAAGTTT
57213370 ATGATAATCATAAC---T-TAAACATTTAAAGTTT
1 ATGATAATCATAACTTATATAAACATTTAAAGTTT
* *
57213401 ATGATTATCATAACTTACATAAACATTTAAAG
1 ATGATAATCATAACTTATATAAACATTTAAAG
57213433 AATATGAAAA
Statistics
Matches: 56, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
31 28 0.50
32 1 0.02
35 27 0.48
ACGTcount: A:0.46, C:0.11, G:0.06, T:0.37
Consensus pattern (35 bp):
ATGATAATCATAACTTATATAAACATTTAAAGTTT
Found at i:57213726 original size:7 final size:7
Alignment explanation
Indices: 57213714--57213738 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
57213704 TAAATAATTA
57213714 GATACTT
1 GATACTT
57213721 GATACTT
1 GATACTT
57213728 GATACTT
1 GATACTT
57213735 GATA
1 GATA
57213739 TATATATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.40
Consensus pattern (7 bp):
GATACTT
Found at i:57218272 original size:40 final size:40
Alignment explanation
Indices: 57218213--57218354 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
57218203 AAATTGAATG
* * *
57218213 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
57218253 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
57218293 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
57218333 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
57218355 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:57218355 original size:40 final size:39
Alignment explanation
Indices: 57218252--57218380 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
57218242 TGCTGGAAAT
* * *
57218252 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
57218292 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
57218332 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
57218372 TATATCCGG
1 TATATCCGG
57218381 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:57219868 original size:20 final size:19
Alignment explanation
Indices: 57219843--57219891 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
57219833 GTTTTCATTG
*
57219843 AAAACCCTTCTTAAAATAAA
1 AAAACCCTTATT-AAATAAA
*
57219863 AAAACCCCTAATTAAATAAA
1 AAAA-CCCTTATTAAATAAA
*
57219883 AAAAACCTT
1 AAAACCCTT
57219892 TCAGTTACGA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 3 0.12
20 15 0.62
21 6 0.25
ACGTcount: A:0.57, C:0.20, G:0.00, T:0.22
Consensus pattern (19 bp):
AAAACCCTTATTAAATAAA
Found at i:57220951 original size:28 final size:29
Alignment explanation
Indices: 57220908--57221022 Score: 119
Period size: 29 Copynumber: 4.0 Consensus size: 29
57220898 TACTTGTATC
* * *
57220908 TGGCCCATTAAGCCC-ATTCATATTCATA
1 TGGCCCATTAGGCCCAAGTCACATTCATA
* *
57220936 TGACCCATTAGGCCCAAGTCACCTAT-ATA
1 TGGCCCATTAGGCCCAAGTCACAT-TCATA
* *
57220965 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAGTCACATTCATA
* *
57220994 TGGCCCGTTAGG-CCTAGTCACATTCATA
1 TGGCCCATTAGGCCCAAGTCACATTCATA
57221022 T
1 T
57221023 TCATGCTCAC
Statistics
Matches: 72, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
28 28 0.39
29 43 0.60
30 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.29
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAGTCACATTCATA
Found at i:57221102 original size:17 final size:18
Alignment explanation
Indices: 57221080--57221114 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
57221070 TTGCCTATTA
57221080 CGGGCCCA-ATAGCCCAT
1 CGGGCCCATATAGCCCAT
*
57221097 CGGGCCCATTTAGCCCAT
1 CGGGCCCATATAGCCCAT
57221115 TCTGGCTCGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.20, C:0.40, G:0.23, T:0.17
Consensus pattern (18 bp):
CGGGCCCATATAGCCCAT
Found at i:57222541 original size:16 final size:16
Alignment explanation
Indices: 57222516--57222547 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
57222506 AAGTTCAGGA
*
57222516 TTTCAGGATTTTTGGG
1 TTTCAAGATTTTTGGG
57222532 TTTCAAGATTTTTGGG
1 TTTCAAGATTTTTGGG
57222548 GAGTTACAAC
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:0.16, C:0.06, G:0.28, T:0.50
Consensus pattern (16 bp):
TTTCAAGATTTTTGGG
Found at i:57224426 original size:28 final size:28
Alignment explanation
Indices: 57224361--57224461 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
57224351 ATAGTGAATC
*
57224361 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
57224390 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
57224418 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
57224448 CGCACACTTAGTGC
1 CGCACACTTAGTGC
57224462 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:57237284 original size:26 final size:28
Alignment explanation
Indices: 57237248--57237373 Score: 139
Period size: 28 Copynumber: 4.5 Consensus size: 28
57237238 ATAGTGAATC
*
57237248 CGCACACTTAGTGC-ATA-ATTTTAGCT
1 CGCACACTTAGTGCTATATATTTAAGCT
*
57237274 CGCACACTTAGTGCTATATATTTCAGCT
1 CGCACACTTAGTGCTATATATTTAAGCT
* * *
57237302 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATATTTAAGCT
* * * *
57237330 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATA-TA-TTTAAGCT
57237360 CGCACACTTAGTGC
1 CGCACACTTAGTGC
57237374 CAATCTTGTC
Statistics
Matches: 86, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
26 14 0.16
27 3 0.03
28 49 0.57
29 1 0.01
30 19 0.22
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATATTTAAGCT
Found at i:57239464 original size:40 final size:40
Alignment explanation
Indices: 57239419--57239585 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
57239409 CGGAATATAA
57239419 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
57239459 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
57239499 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
57239539 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
57239578 CCGGATAT
1 CCGGATAT
57239586 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:57239569 original size:80 final size:79
Alignment explanation
Indices: 57239419--57239585 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
57239409 CGGAATATAA
* *
57239419 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
57239484 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
57239499 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
57239561 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
57239578 CCGGATAT
1 CCGGATAT
57239586 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:57247459 original size:40 final size:40
Alignment explanation
Indices: 57247414--57247580 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
57247404 CGGAATATAA
57247414 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
57247454 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
57247494 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
57247534 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
57247573 CCGGATAT
1 CCGGATAT
57247581 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:57247564 original size:80 final size:79
Alignment explanation
Indices: 57247414--57247580 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
57247404 CGGAATATAA
* *
57247414 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
57247479 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
57247494 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
57247556 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
57247573 CCGGATAT
1 CCGGATAT
57247581 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:57248429 original size:17 final size:19
Alignment explanation
Indices: 57248406--57248451 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
57248396 AAGAAGCATG
57248406 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
57248424 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
57248442 AATCATGCTC
1 AATCATGCTC
57248452 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:57250547 original size:43 final size:42
Alignment explanation
Indices: 57250459--57250579 Score: 127
Period size: 43 Copynumber: 2.9 Consensus size: 42
57250449 TCTTGCGATG
* * * *
57250459 TTTGTAAAAAA-CGTCGCTAAAAATCATGTTATTTAGTGGCG
1 TTTGTAAAAAAGCGTCGCTAAAGATCATGTTATATAGCGGCA
* * *
57250500 TTTGTAATAAAAGCATCGCTAAAGATCACGTTCTATAGCGGCA
1 TTTGTAA-AAAAGCGTCGCTAAAGATCATGTTATATAGCGGCA
* * *
57250543 TTTGTAGAAAAAGTGTCACTAAAGATCATGTTTTATA
1 TTTGTA-AAAAAGCGTCGCTAAAGATCATGTTATATA
57250580 ACGGTGTTTT
Statistics
Matches: 65, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
41 7 0.11
42 4 0.06
43 53 0.82
44 1 0.02
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (42 bp):
TTTGTAAAAAAGCGTCGCTAAAGATCATGTTATATAGCGGCA
Found at i:57263443 original size:175 final size:175
Alignment explanation
Indices: 57263137--57263484 Score: 477
Period size: 175 Copynumber: 2.0 Consensus size: 175
57263127 CACACGGGCA
* * * *
57263137 TGTGTCTAGGCCGTGTGTGACACACAGTTTACCACATGGGCGTGTGATATGGCTGTGTATCCCCT
1 TGTGCCTAGGCCATGTGTGACACACAGTTTACCACATAGGCGTGTGATATGGCTGTGTATCCCCA
* * * *
57263202 GCACGTAAGAATTGTAAGTCAATATGCATGGTAGTAAACACATGGGCAGAGACACGGCCGTGTGT
66 GCACATAAGAATTGTAAGTCAATATGCATGGTAGTAAACACACGGGCAGAGACACGACCATGTGT
* *
57263267 CTCAGACC-TATGAAG-GTCACGGCCTAGTACACGAGCGTGTGCCAG
131 CTCAG-CCATATGAAGTG-CAAGGCCTAGCACACGAGCGTGTGCCAG
* *
57263312 TGTGCCTAGGCCATGTGTGACACACGGTTTACCACATAGGCGTGTGATATGG-TCGTGTGTCCCC
1 TGTGCCTAGGCCATGTGTGACACACAGTTTACCACATAGGCGTGTGATATGGCT-GTGTATCCCC
* * * * *
57263376 AGTACATAAGAATTTTAAGTTAGTATGCATGGTAGTAAACACACGGGTAGAGACACGACCATGTG
65 AGCACATAAGAATTGTAAGTCAATATGCATGGTAGTAAACACACGGGCAGAGACACGACCATGTG
* *
57263441 TCTCAGCCATGTGAAGTGCAAGGCCTAGCACACGGGCGTGTGCC
130 TCTCAGCCATATGAAGTGCAAGGCCTAGCACACGAGCGTGTGCC
57263485 TTGGCCGTGT
Statistics
Matches: 151, Mismatches: 19, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
174 3 0.02
175 147 0.97
176 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.24
Consensus pattern (175 bp):
TGTGCCTAGGCCATGTGTGACACACAGTTTACCACATAGGCGTGTGATATGGCTGTGTATCCCCA
GCACATAAGAATTGTAAGTCAATATGCATGGTAGTAAACACACGGGCAGAGACACGACCATGTGT
CTCAGCCATATGAAGTGCAAGGCCTAGCACACGAGCGTGTGCCAG
Found at i:57265052 original size:93 final size:93
Alignment explanation
Indices: 57264940--57265111 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
57264930 GCCCATAAGT
** *
57264940 GAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
57265005 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
57265033 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
57265098 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
57265112 CAAATATCCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:57265107 original size:46 final size:46
Alignment explanation
Indices: 57264932--57265110 Score: 238
Period size: 46 Copynumber: 3.9 Consensus size: 46
57264922 TGTAACCCGC
* * *
57264932 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCGCAT
*
57264978 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG-CTCG---CAT
* * *
57265028 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCGCAT
57265071 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
57265111 CCAAATATCC
Statistics
Matches: 115, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 71 0.62
47 32 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCGCAT
Found at i:57267532 original size:30 final size:30
Alignment explanation
Indices: 57267488--57267576 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
57267478 CAAAGATAAC
57267488 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
57267517 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
57267547 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
57267577 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:57267536 original size:15 final size:15
Alignment explanation
Indices: 57267488--57267567 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
57267478 CAAAGATAAC
*
57267488 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
57267502 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
57267517 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
57267532 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
57267547 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
57267562 AAGAAA
1 AAGAAA
57267568 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:57267576 original size:15 final size:15
Alignment explanation
Indices: 57267499--57267576 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
57267489 AGAAAACCGA
57267499 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
57267514 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
57267528 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
57267543 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
57267559 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
57267574 ATA
1 ATA
57267577 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:57270600 original size:93 final size:93
Alignment explanation
Indices: 57270488--57270659 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
57270478 GCCCATAAGT
* *
57270488 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
57270553 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
57270581 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
57270646 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
57270660 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:57270655 original size:46 final size:46
Alignment explanation
Indices: 57270480--57270655 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
57270470 TGTAACCCGC
* * *
57270480 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
57270526 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
57270576 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
57270619 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
57270656 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:57276152 original size:29 final size:29
Alignment explanation
Indices: 57276119--57276183 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
57276109 GTGACGAGAT
57276119 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
57276148 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
57276177 CGGCACT
1 TGGCACT
57276184 GGGTGTGCGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:57284134 original size:29 final size:29
Alignment explanation
Indices: 57284101--57284165 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
57284091 GTGACGAGAT
57284101 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
57284130 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
57284159 CGGCACT
1 TGGCACT
57284166 GGGTGTGCGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:57288841 original size:21 final size:21
Alignment explanation
Indices: 57288815--57288867 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
57288805 CATTATTTCT
* * *
57288815 AATCTCACTGTTACAGTATCC
1 AATCTCACCGCTACAGTAACC
*
57288836 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
57288857 AATCTCACCGC
1 AATCTCACCGC
57288868 CACCGTTGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.30, C:0.34, G:0.09, T:0.26
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:57299182 original size:49 final size:49
Alignment explanation
Indices: 57299012--57299238 Score: 274
Period size: 49 Copynumber: 4.6 Consensus size: 49
57299002 TGAGGTCGCA
* * * * *
57299012 TGTGTAGTAATAAGTGTAGGCTACTATGTGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAA-T-TGGTCACG
* * * **
57299063 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATT-GGTCACG
*
57299113 TGTGTTGTACTAAGTGCAGGCTACTATGTGTACCGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATTGGTCACG
* * * * *
57299162 TGTGCAGTACTAAGTACAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATTGGTCACG
*
57299211 TGTGTAGTACTATGTGCAGGCTACTATG
1 TGTGTAGTACTAAGTGCAGGCTACTATG
57299239 CGTGTGACAG
Statistics
Matches: 150, Mismatches: 25, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
49 75 0.50
50 43 0.29
51 32 0.21
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATTGGTCACG
Found at i:57299191 original size:99 final size:100
Alignment explanation
Indices: 57299005--57299238 Score: 301
Period size: 99 Copynumber: 2.4 Consensus size: 100
57298995 TCTATTGTGA
* * * *
57299005 GGTCGCATGTGTAGTAATAAGTGTAGGCTACTATGTGTACCCGAAAACTGTGATCACGTGTGTAG
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGAAAACTGTGATCACGTGTGCAG
* * **
57299070 TACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
66 TACTAAGTACAGGCTACTACGTGTACCAGATAATT
* * * * *
57299105 AGGTCACGTGTGTTGTACTAAGTGCAGGCTACTATGTGTACCGGATAA-T-TGGTCACGTGTGCA
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGAAAACTGTGATCACGTGTGCA
*
57299168 GTACTAAGTACAGGCTACTACGTGTACCGGATAATT
65 GTACTAAGTACAGGCTACTACGTGTACCAGATAATT
* *
57299204 GGTCGCATGTGTAGTACTATGTGCAGGCTACTATG
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATG
57299239 CGTGTGACAG
Statistics
Matches: 115, Mismatches: 18, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
98 31 0.27
99 43 0.37
100 1 0.01
101 40 0.35
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (100 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGAAAACTGTGATCACGTGTGCAG
TACTAAGTACAGGCTACTACGTGTACCAGATAATT
Found at i:57301069 original size:40 final size:40
Alignment explanation
Indices: 57300963--57301146 Score: 147
Period size: 40 Copynumber: 4.6 Consensus size: 40
57300953 TGCTGGAAAT
* * * * * **
57300963 TATAACCGGGTTAAGACCCGAAGGCAATGGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
*
57301003 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAT
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * *
57301043 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATC-G
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * * * * *
57301081 TGATATCCGGGTTAAGTCCCGTAGGCCTTGGTGCGGGTTAC
1 T-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * *
57301122 CATATCCGGGCTATGTCCCGAAGGC
1 TATATCCGGGCTAAGACCCGAAGGC
57301147 GTTTGAACGA
Statistics
Matches: 115, Mismatches: 26, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
38 1 0.01
39 29 0.25
40 85 0.74
ACGTcount: A:0.22, C:0.24, G:0.30, T:0.23
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
Found at i:57309071 original size:40 final size:39
Alignment explanation
Indices: 57308983--57309166 Score: 140
Period size: 40 Copynumber: 4.6 Consensus size: 39
57308973 AAATTGAATG
* * * *
57308983 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGCAA-T-TG-TGCAAGTCGT
* * * *
57309023 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTCG-T
* *
57309063 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTC-GT
* * *
57309103 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTCGT
* * *
57309142 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
57309167 CTTGGTGCGG
Statistics
Matches: 116, Mismatches: 21, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
37 4 0.03
38 2 0.02
39 5 0.04
40 103 0.89
41 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTCGT
Found at i:57309191 original size:80 final size:81
Alignment explanation
Indices: 57309023--57309211 Score: 195
Period size: 80 Copynumber: 2.4 Consensus size: 81
57309013 GCTGGAAATT
* * * *
57309023 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTATATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTATATCCGGGCTAAGACCCGAAGGCA
*
57309088 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * *
57309104 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ATATCCGGGCTAAGACCCGAAGGC
* * * *
57309167 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
57309183 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
57309212 AACGAGTAGC
Statistics
Matches: 87, Mismatches: 19, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
79 2 0.02
80 85 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:57311668 original size:40 final size:39
Alignment explanation
Indices: 57311577--57311728 Score: 144
Period size: 40 Copynumber: 3.8 Consensus size: 39
57311567 ATCACGATTT
* * * *
57311577 GCACAAATGCCTTTGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAAT-ACTA
* *
57311617 GCATGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCA-CAATTGCCTTCGGGTCTTAGCCCGGATATA-ATACTA
* * * *
57311657 GCACAATTGCCTTCGGGTCTTAACCCGGTTATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAA-TACTA
* * *
57311697 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
57311729 CATTCAATTT
Statistics
Matches: 92, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
39 2 0.02
40 87 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.25, G:0.24, T:0.29
Consensus pattern (39 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATACTA
Found at i:57311668 original size:80 final size:80
Alignment explanation
Indices: 57311577--57311728 Score: 191
Period size: 80 Copynumber: 1.9 Consensus size: 80
57311567 ATCACGATTT
* * *
57311577 GCACAAATGCCTTTGGGTCTTAGCCCGGATAGAATGACTC-GCATGAA-TGCCTTCGGGTCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGAC-CAGCAT-AATTGCCTTCGGGGCTTAG
57311640 CCCGGATATAGCTACTA
64 CCCGGATATAGCTACTA
* * * ** *
57311657 GCACAATTGCCTTCGGGTCTTAACCCGGTTATAATTTCCAGCATAATTGTCTTCGGGGCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACCAGCATAATTGCCTTCGGGGCTTAGCC
57311722 CGGATAT
66 CGGATAT
57311729 CATTCAATTT
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
79 3 0.05
80 58 0.95
ACGTcount: A:0.22, C:0.25, G:0.24, T:0.29
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACCAGCATAATTGCCTTCGGGGCTTAGCC
CGGATATAGCTACTA
Found at i:57319688 original size:80 final size:80
Alignment explanation
Indices: 57319604--57319752 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
57319594 TATGGTAACC
* * * *
57319604 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
57319668 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
57319684 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
57319749 CCGG
66 CCGG
57319753 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:57319694 original size:40 final size:38
Alignment explanation
Indices: 57319645--57319752 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
57319635 ATCACGATTT
*
57319645 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
57319685 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
57319725 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
57319753 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:57323290 original size:30 final size:29
Alignment explanation
Indices: 57323251--57323392 Score: 140
Period size: 30 Copynumber: 4.7 Consensus size: 29
57323241 GGTGACGACC
*
57323251 ATCAGACTATGGAAAGGGATGGCTTCAGCT
1 ATCA-ACTATGAAAAGGGATGGCTTCAGCT
*
57323281 ATCGAACTATGAAAAGGGATGGCTTCAACT
1 ATC-AACTATGAAAAGGGATGGCTTCAGCT
* *
57323311 ATCAATCTAAGAAAAGGGATGGCTTCAGAT
1 ATCAA-CTATGAAAAGGGATGGCTTCAGCT
* * * * **
57323341 ATCACTCTATGAAATGGGATAGTTTTGGCT
1 ATCA-ACTATGAAAAGGGATGGCTTCAGCT
*
57323371 ATCAAATTATGAAAAGGGATGG
1 ATC-AACTATGAAAAGGGATGG
57323393 TGATGACCAT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
29 2 0.02
30 87 0.96
31 2 0.02
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.26
Consensus pattern (29 bp):
ATCAACTATGAAAAGGGATGGCTTCAGCT
Found at i:57323412 original size:30 final size:30
Alignment explanation
Indices: 57323228--57323450 Score: 107
Period size: 30 Copynumber: 7.4 Consensus size: 30
57323218 GACTATTGAT
*
57323228 TATGTAAAA-GGATGGTGACGACCATCAGAC
1 TATG-AAAAGGGATGGTGACGACCATCAAAC
* * * *
57323258 TATGGAAAGGGATGGCT-TC-AGCTATCGAAC
1 TATGAAAAGGGATGG-TGACGA-CCATCAAAC
* * * *
57323288 TATGAAAAGGGATGGCT-TCAACTATCAATC
1 TATGAAAAGGGATGG-TGACGACCATCAAAC
* * * **
57323318 TAAGAAAAGGGATGGCT-TCAGA-TATCACTC
1 TATGAAAAGGGATGG-TGAC-GACCATCAAAC
* * *** * * *
57323348 TATGAAATGGGATAGTTTTGGCTATCAAAT
1 TATGAAAAGGGATGGTGACGACCATCAAAC
* *
57323378 TATGAAAAGGGATGGTGATGACCATCGAAC
1 TATGAAAAGGGATGGTGACGACCATCAAAC
* * *
57323408 TATGAAAAAGAATGGTGACGACCATCAAAT
1 TATGAAAAGGGATGGTGACGACCATCAAAC
57323438 TATGAAAAGGGAT
1 TATGAAAAGGGAT
57323451 AGTTTCGGCT
Statistics
Matches: 152, Mismatches: 34, Indels: 14
0.76 0.17 0.07
Matches are distributed among these distances:
29 6 0.04
30 143 0.94
31 3 0.02
ACGTcount: A:0.37, C:0.13, G:0.25, T:0.24
Consensus pattern (30 bp):
TATGAAAAGGGATGGTGACGACCATCAAAC
Found at i:57326571 original size:40 final size:40
Alignment explanation
Indices: 57326512--57326718 Score: 211
Period size: 40 Copynumber: 5.2 Consensus size: 40
57326502 CATTGGAATG
* * *
57326512 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
**
57326552 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCATT
* * * * **
57326592 ATAT-CGGGCTAAGACCTGAAGGCATTTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
* * *
57326631 AAATCCGGGTTAAGACCCGAAGGCAATTGTGCGAGTCACT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
* ** * * *
57326671 ATAACCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
57326711 ATATCCGG
1 ATATCCGG
57326719 TTAAATTCCG
Statistics
Matches: 137, Mismatches: 27, Indels: 6
0.81 0.16 0.04
Matches are distributed among these distances:
39 32 0.23
40 105 0.77
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
Found at i:57326721 original size:79 final size:79
Alignment explanation
Indices: 57326516--57326722 Score: 220
Period size: 79 Copynumber: 2.6 Consensus size: 79
57326506 GGAATGATAT
* * *
57326516 CCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAATTATATCCGGGTTAAGACCCGAAGGCATTCG
***
57326581 TGCGAGTTGTTATA
66 TGCGAGTCACTATA
* * * * ** *
57326595 TCGGGCTAAGACCTGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCAATT-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAATTATATCCGGGTTAAGACCCGAAGGC-ATTC
57326659 GTGCGAGTCACTATAA
65 GTGCGAGTCACTAT-A
** * * *
57326675 CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCATTATATCC-GGTTAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAATTATATCCGGGTTAA
57326723 ATTCCGAAGG
Statistics
Matches: 102, Mismatches: 24, Indels: 4
0.78 0.18 0.03
Matches are distributed among these distances:
79 67 0.66
80 35 0.34
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAATTATATCCGGGTTAAGACCCGAAGGCATTCG
TGCGAGTCACTATA
Found at i:57342214 original size:40 final size:40
Alignment explanation
Indices: 57342129--57342279 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
57342119 AATTGAATGA
* * *
57342129 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
57342169 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
57342210 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
57342249 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
57342280 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:57342293 original size:40 final size:40
Alignment explanation
Indices: 57342166--57342295 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
57342156 ATGCTGGAAA
* * * *
57342166 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
57342206 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
57342246 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
57342286 TTATATCCGG
1 TTATATCCGG
57342296 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:57350217 original size:39 final size:38
Alignment explanation
Indices: 57350125--57350274 Score: 126
Period size: 40 Copynumber: 3.8 Consensus size: 38
57350115 AATTGAATGA
* * * **
57350125 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTGGAAATTA
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC--GAGATGC
* *
57350165 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGAT-GC
*
57350203 TAATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 T-ATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAG--ATGC
*
57350244 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
57350275 ACATGGTTAT
Statistics
Matches: 91, Mismatches: 11, Indels: 16
0.77 0.09 0.14
Matches are distributed among these distances:
37 1 0.01
38 5 0.05
39 27 0.30
40 52 0.57
41 5 0.05
42 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (38 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGATGC
Found at i:57350288 original size:40 final size:40
Alignment explanation
Indices: 57350162--57350290 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
57350152 ATGCTGGAAA
* * * *
57350162 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * **
57350202 CTA-ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
57350241 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
57350281 TTATATCCGG
1 TTATATCCGG
57350291 TTATATTCCG
Statistics
Matches: 71, Mismatches: 15, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
39 31 0.44
40 40 0.56
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:57358139 original size:46 final size:46
Alignment explanation
Indices: 57358025--57358295 Score: 248
Period size: 46 Copynumber: 5.8 Consensus size: 46
57358015 GCTATTATGT
* ** * *
57358025 GAGCCAGTGTAAGACATGTCTAAGACATGCATCGACCA-T-ATTATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCG-GCATTGA-GATGA
* *
57358071 AATGCTAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGACGA
1 GA-GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGATGA
* *
57358118 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGATG-A
* * *
57358165 -AGCCAATGTAAGACATGTCTGGGACATGCATCGGC-TACGAGAT--
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCAT-TGAGATGA
* * ** *
57358208 GTGCTAGTGTAAGACATGTCTGGGACATGCATTGGCACAGATATATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCATTG--AGATGA
* *
57358256 GAGCTAGTGTAAGACCATATCTGGGATATGGCATCGGCAT
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCAT
57358296 AGATATGTGT
Statistics
Matches: 187, Mismatches: 25, Indels: 22
0.80 0.11 0.09
Matches are distributed among these distances:
44 32 0.17
45 1 0.01
46 85 0.45
47 35 0.19
48 14 0.07
49 12 0.06
50 8 0.04
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (46 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGATGA
Found at i:57358267 original size:92 final size:91
Alignment explanation
Indices: 57358025--57358295 Score: 291
Period size: 93 Copynumber: 2.9 Consensus size: 91
57358015 GCTATTATGT
* ** * *
57358025 GAGCCAGTGTAAGACATGTCTAAGACATGCATCGACCATAT-TATGAAATGCTAGTGTAAGACAT
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAGATATATG-AA-GCTAGTGTAAGACAT
57358089 GTCTGGGACATGCATCGGCATTGAGACGA
64 GTCTGGGACATGCATCGGCA-TGAGACGA
* * * * *
57358118 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGT-AAGCCAATGTAAGACATG
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCC-AGATATATGAAGCTAGTGTAAGACATG
57358182 TCTGGGACATGCATCGGC-T-ACGA-GA
65 TCTGGGACATGCATCGGCATGA-GACGA
* *
57358207 TGTGCTAGTGTAAGACATGTCTGGGACATGCATTGGCACAGATATATGAGAGCTAGTGTAAGACC
1 -GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGC-CAGATATATGA-AGCTAGTGTAAGA-C
* *
57358272 ATATCTGGGATATGGCATCGGCAT
62 ATGTCTGGGACAT-GCATCGGCAT
57358296 AGATATGTGT
Statistics
Matches: 149, Mismatches: 19, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
89 3 0.02
90 42 0.28
91 2 0.01
92 43 0.29
93 47 0.32
94 9 0.06
95 3 0.02
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (91 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAGATATATGAAGCTAGTGTAAGACATGT
CTGGGACATGCATCGGCATGAGACGA
Found at i:57368703 original size:40 final size:39
Alignment explanation
Indices: 57368612--57368722 Score: 127
Period size: 40 Copynumber: 2.8 Consensus size: 39
57368602 ATAACCACGT
* *
57368612 GCACAAATGCCTTCGGGTCTTAGCCAGGATAGAATGACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
*
57368652 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTA-GCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATG--ACTA
*
57368692 GCACAATTGCCTTCGGGTCTTAACCCGGATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATA
57368723 TAATTTCCAG
Statistics
Matches: 62, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
38 1 0.02
39 4 0.06
40 57 0.92
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.23
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
Found at i:57376664 original size:40 final size:40
Alignment explanation
Indices: 57376619--57376748 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
57376609 CGGAATATAA
57376619 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
57376659 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
57376699 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
57376739 CCGGATATAA
1 CCGGATATAA
57376749 TTTCCAGCAT
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 73 0.99
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:57376769 original size:80 final size:80
Alignment explanation
Indices: 57376635--57376784 Score: 194
Period size: 80 Copynumber: 1.9 Consensus size: 80
57376625 ATAACCACGT
* * *
57376635 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAACGCCTTCGGGGCTTAGCC
57376700 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * ** ** *
57376715 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCATTAACGTCTTCGGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAACGCCTTCGGGGCTTAGC
57376779 CCGGAT
65 CCGGAT
57376785 ATCATTCAAT
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
79 1 0.02
80 58 0.98
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAACGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:57388368 original size:47 final size:47
Alignment explanation
Indices: 57388298--57388661 Score: 237
Period size: 46 Copynumber: 7.7 Consensus size: 47
57388288 GGTGTAATGC
*
57388298 CGATGCCATGTCCAAGACATGGTCTTACACTAGCTCATCCATCAAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCCATCAAGT
* * *
57388345 TGATGCCATGTCCCAGACATGGTCTTACACT-GACT-ATCAAAATCGAGGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAG-CTCATC--CATC-AAGT
* **
57388394 CGATGCCATGTACCAGACATGGTCTTACACTAGCTC-TCACATCTTCAACC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATC-CA---TCAAGT
* * *
57388444 CAATGCCATGTCCCAGACATGGTCTTACAC-GGACACAT-C-TCATAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAG-CTCATCCATCA-AGT
* * ** *
57388490 CGATG-CATG-CCTCAGACAT-CTCTTACACTGGCTTACAT-C-TCGTGGC
1 CGATGCCATGTCC-CAGACATGGTCTTACACTAGC-T-CATCCATC-AAGT
57388536 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTC-TCGTC-TCAATGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATC--CATCAA-GT
* * *
57388582 CGTTGCCATGTCCCAGACATGTTCTTACACTGGCTC-T-CAT-AATGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCCATCAA-GT
57388627 GGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGC
1 ---CGATGCCATGTCCCAGACATGGTCTTACACTAGC
57388662 GCAAAAATGA
Statistics
Matches: 256, Mismatches: 33, Indels: 57
0.74 0.10 0.16
Matches are distributed among these distances:
43 1 0.00
44 12 0.05
45 23 0.09
46 63 0.25
47 61 0.24
48 23 0.09
49 38 0.15
50 32 0.12
51 3 0.01
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.27
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCCATCAAGT
Found at i:57388492 original size:96 final size:94
Alignment explanation
Indices: 57388298--57388657 Score: 289
Period size: 94 Copynumber: 3.8 Consensus size: 94
57388288 GGTGTAATGC
* **
57388298 CGATGCCATGTCCAAGACATGGTCTTACACTAGCTCATC-CA--TCAAGTTGATGCCATGTCCCA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTC-TCACATCTCAAGCCGATGCCATGTCCCA
* ** *
57388360 GACATGGTCTTACACTGACTATCAAAATCGAGGT
65 GACATGGTCTTACACGGAC-A-C-ATCTC-AAGT
* * *
57388394 CGATGCCATGTACCAGACATGGTCTTACACTAGCTCTCACATCTTCAACCCAATGCCATGTCCCA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATC-TCAAGCCGATGCCATGTCCCA
57388459 GACATGGTCTTACACGGACACATCTCATAGT
65 GACATGGTCTTACACGGACACATCTCA-AGT
* * **
57388490 CGATG-CATG-CCTCAGACAT-CTCTTACACTGGCT-T-ACATCTCGTGGCCGATG-CATGTCCC
1 CGATGCCATGTCC-CAGACATGGTCTTACACTAGCTCTCACATCTC-AAGCCGATGCCATGTCCC
** * *
57388549 AGACAT-GTCTTACACTAGCTCTCGTCTCAATGT
64 AGACATGGTCTTACAC--GGACACATCTCAA-GT
* * * * * *
57388582 CGTTGCCATGTCCCAGACATGTTCTTACACTGGCTCTCATAATGT--GGCCGATG-CATGTCCCA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCA-CATCTCAAGCCGATGCCATGTCCCA
57388644 GACAT-GTCTTACAC
65 GACATGGTCTTACAC
57388658 TAGCGCAAAA
Statistics
Matches: 223, Mismatches: 25, Indels: 34
0.79 0.09 0.12
Matches are distributed among these distances:
90 9 0.04
91 17 0.08
92 24 0.11
93 12 0.05
94 59 0.26
95 15 0.07
96 47 0.21
97 4 0.02
98 1 0.00
99 35 0.16
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.27
Consensus pattern (94 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATCTCAAGCCGATGCCATGTCCCAG
ACATGGTCTTACACGGACACATCTCAAGT
Found at i:57388500 original size:50 final size:49
Alignment explanation
Indices: 57388347--57388500 Score: 116
Period size: 50 Copynumber: 3.1 Consensus size: 49
57388337 CATCAAGTTG
* * * *
57388347 ATGCCATGTCCCAGACATGGTCTTACACTG--ACTATCAAAATCGAGGTCG
1 ATGCCATGTCCCAGACATGGTCTTACAC-GACACTCTCATAATCGACG-CA
* * * * ** * *
57388396 ATGCCATGTACCAGACATGGTCTTACACTAGCTCTCACATCTTCAACCCA
1 ATGCCATGTCCCAGACATGGTCTTACACGA-CACTCTCATAATCGACGCA
* *
57388446 ATGCCATGTCCCAGACATGGTCTTACACGGACACATCTCATAGTCGATGC-
1 ATGCCATGTCCCAGACATGGTCTTACAC-GACAC-TCTCATAATCGACGCA
57388496 ATGCC
1 ATGCC
57388501 TCAGACATCT
Statistics
Matches: 79, Mismatches: 21, Indels: 9
0.72 0.19 0.08
Matches are distributed among these distances:
49 27 0.34
50 35 0.44
51 17 0.22
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.25
Consensus pattern (49 bp):
ATGCCATGTCCCAGACATGGTCTTACACGACACTCTCATAATCGACGCA
Found at i:57389036 original size:30 final size:30
Alignment explanation
Indices: 57389002--57389073 Score: 144
Period size: 30 Copynumber: 2.4 Consensus size: 30
57388992 GGGCAAAATA
57389002 ACCATTTTGCCCCTAGACTTTTGTATAATG
1 ACCATTTTGCCCCTAGACTTTTGTATAATG
57389032 ACCATTTTGCCCCTAGACTTTTGTATAATG
1 ACCATTTTGCCCCTAGACTTTTGTATAATG
57389062 ACCATTTTGCCC
1 ACCATTTTGCCC
57389074 GTAGGTCCTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.22, C:0.26, G:0.12, T:0.39
Consensus pattern (30 bp):
ACCATTTTGCCCCTAGACTTTTGTATAATG
Found at i:57389198 original size:19 final size:19
Alignment explanation
Indices: 57389157--57389198 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
57389147 CAGTCCAAAA
*
57389157 TTATCAATATTTCACATAT
1 TTATCAATATTTCACATAC
*
57389176 TTATCACATATTTTACA-AC
1 TTATCA-ATATTTCACATAC
57389195 TTAT
1 TTAT
57389199 GCAACGTGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.36, C:0.17, G:0.00, T:0.48
Consensus pattern (19 bp):
TTATCAATATTTCACATAC
Found at i:57396351 original size:46 final size:45
Alignment explanation
Indices: 57396265--57396480 Score: 195
Period size: 46 Copynumber: 4.7 Consensus size: 45
57396255 TATCTTCGTC
* *
57396265 CTGATGCCATGTCCCAGACATGCTCTTACACT-G-ACACATCTCATAG
1 CTGATG-CATGTCCCAGACATG-TCTTACACTGGCTCTCATCTCA-AG
*
57396311 CTGATGCATGTCCCAGACATGTCTTACACTGGCT-TACATCTCGAGG
1 CTGATGCATGTCCCAGACATGTCTTACACTGGCTCT-CATCTC-AAG
* * *
57396357 CCGACGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAATG
1 CTGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCAA-G
* * * * * ***
57396403 CCGTTGCCATATCCCAGACATGGTCTTATACTGGCTCTCATAATGTGG
1 CTGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCAT-CTCAAG
*
57396451 CTAATGCATGTCCCAGACATGTCTTACACT
1 CTGATGCATGTCCCAGACATGTCTTACACT
57396481 AGCGCACAAA
Statistics
Matches: 140, Mismatches: 21, Indels: 18
0.78 0.12 0.10
Matches are distributed among these distances:
44 9 0.06
45 17 0.12
46 64 0.46
47 28 0.20
48 21 0.15
49 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.28
Consensus pattern (45 bp):
CTGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCAAG
Found at i:57402692 original size:29 final size:29
Alignment explanation
Indices: 57402639--57402715 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
57402629 ATAGCCCACA
* *
57402639 AGGCCC-AATCTCATTCATATGGCCCATT
1 AGGCCCAAATCACATTCATATCGCCCATT
* *
57402667 AGGCTCAAATCACATTCGTATCGCCCATT
1 AGGCCCAAATCACATTCATATCGCCCATT
*
57402696 AGGCCCAAATCACATACATA
1 AGGCCCAAATCACATTCATA
57402716 GTCATGCTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.31, C:0.31, G:0.13, T:0.25
Consensus pattern (29 bp):
AGGCCCAAATCACATTCATATCGCCCATT
Found at i:57407331 original size:4 final size:4
Alignment explanation
Indices: 57407322--57407375 Score: 56
Period size: 4 Copynumber: 13.8 Consensus size: 4
57407312 CTTATAACTA
* * **
57407322 TTAT TTAT TTAT TTAT CTAT TTAT TTAT TTAC TTGC TTAT TT-T TTAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT
*
57407369 ATAT TTA
1 TTAT TTA
57407376 CAAACAAGAT
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
3 3 0.07
4 38 0.93
ACGTcount: A:0.24, C:0.06, G:0.02, T:0.69
Consensus pattern (4 bp):
TTAT
Found at i:57407556 original size:13 final size:13
Alignment explanation
Indices: 57407538--57407563 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
57407528 GCATCTTGCA
57407538 TTTTTATTTTTAT
1 TTTTTATTTTTAT
57407551 TTTTTATTTTTAT
1 TTTTTATTTTTAT
57407564 CACTTTATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTATTTTTAT
Found at i:57410729 original size:19 final size:20
Alignment explanation
Indices: 57410686--57410723 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
57410676 TTTTGTATTT
*
57410686 ATTTCATTCATCTGCATTAC
1 ATTTCATTCATATGCATTAC
57410706 ATTTCA-TCATATGCATTA
1 ATTTCATTCATATGCATTA
57410724 AGTTTCCTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.29, C:0.21, G:0.05, T:0.45
Consensus pattern (20 bp):
ATTTCATTCATATGCATTAC
Found at i:57418940 original size:12 final size:13
Alignment explanation
Indices: 57418923--57418951 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
57418913 AGATGGACAG
57418923 AATTTGGC-TTTT
1 AATTTGGCTTTTT
57418935 AATTTGGCTTTTT
1 AATTTGGCTTTTT
57418948 AATT
1 AATT
57418952 CATTTAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.21, C:0.07, G:0.14, T:0.59
Consensus pattern (13 bp):
AATTTGGCTTTTT
Found at i:57422116 original size:44 final size:45
Alignment explanation
Indices: 57422011--57422952 Score: 264
Period size: 44 Copynumber: 20.4 Consensus size: 45
57422001 CATTATGGTG
* *
57422011 AATCTTATCTCCCTAAAGTTGTAGTGGAGTAGATTAAAGATAGCA
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGATAGCA
* ** *
57422056 AATCTTATCTCTCTAAAGTTGCAGTAAAGCAGATTAAAGCTA-CA
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGATAGCA
*
57422100 AATCTTATCTCCCTAAAGTTTCAGTGGAGCAGATTGAAACGAT---A
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATT-AAA-GATAGCA
* * * * * * *
57422144 AGTCCTATAC-CTCTGAAGTTGCAATAGG-TCAGATTAAATCTACTATAGCA
1 AATCTTAT-CTCCCTAAAGTTGCAGT-GGAGCAGATT-AA---A-GATAGCA
* * * ** * *
57422194 AGTCTTATCTCCCTGAAGTTACAGTGGAATAGACTAAAGCTACAAGTCA
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAG--A-TAG-CA
* * * * * * *
57422243 CTAGTCTTATCTCCCTGAAGTTACAGTGGAGTAGATTGAAGCTA-CT
1 --AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGATAGCA
* * * * * * *
57422289 AATGTTATCTCCTTGAAA-TTACAGTGGAGTAGATTGAAGCTA-CT
1 AATCTTATCTCCCT-AAAGTTGCAGTGGAGCAGATTAAAGATAGCA
* * * * *
57422333 AATCTTATCTCCTTAGAGTTACAATGGAGTAGATTAAAG-T-GACA
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGATAG-CA
* * * * **
57422377 AGTCCTATAC-CTCTAAAGTTGCAGTAGGTTAGATTAGATCT-ACCATAGCA
1 AATCTTAT-CTCCCTAAAGTTGCAGT-GG--AG--CAGAT-TAAAGATAGCA
* * * ** * *
57422427 AACCTTATCT-CCTGAAGTTGTAGTGGAATAGACTAAAGCTTAAAGCCACA
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAG---ATAG---CA
* ** * * *
57422477 AATCTTATCTCCCTAAAGTTGCAATGGAAAAGATCAAAGTTA-CT
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGATAGCA
* * * * * **
57422521 AATTTTACCTCTCTGAATTTATAGT-G-G-A-A-T--AGATA-CA
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGATAGCA
* * * *
57422558 AATCTTATCTCCCTAAAATTGCAGTGGAGTAGATTGAAGATAGCG
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGATAGCA
* * * *
57422603 AATCTTATTTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCTACAAGTTGCA
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAG-----A-TAGCA
* * * * * *
57422654 TATCTTATCTCCCTAAAGTTACGGTGGAGCAGGTTGAAGCTA-CA
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGATAGCA
* * * * *
57422698 AATCTCATCTCCCTGAAGTTGCAGTGTAGTAGATTAAAGATAGAA
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGATAGCA
* * * ** *
57422743 AATCTTATTTCCCTGAAGTTGCAATGGAAAAGATTAAAGCTACAAGTTACA
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAG--A-TAG---CA
* * * * * *
57422794 AATTTTATCTTCCTGAATTTGCAGTGGAACAGATTAAAGCTACAAGTTACA
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAG--A-TAG---CA
* * * * *
57422845 AATCTTATCTCTCTAAAGTTGTAGCT-GAGTAAATTGAAGATA-CA
1 AATCTTATCTCCCTAAAGTTGCAG-TGGAGCAGATTAAAGATAGCA
* * * * *
57422889 AGTCTCATCTCCCTAAAGTTGCAGTGGAGTAGACTAAAGCTA-CA
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGATAGCA
* * *
57422933 AGTCTGATCTCCCTGAAGTT
1 AATCTTATCTCCCTAAAGTT
57422953 ACAATGAAGT
Statistics
Matches: 678, Mismatches: 156, Indels: 127
0.71 0.16 0.13
Matches are distributed among these distances:
37 23 0.03
38 1 0.00
39 1 0.00
40 2 0.00
41 2 0.00
42 1 0.00
43 6 0.01
44 261 0.38
45 118 0.17
46 5 0.01
47 11 0.02
48 9 0.01
49 26 0.04
50 45 0.07
51 166 0.24
52 1 0.00
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.30
Consensus pattern (45 bp):
AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGATAGCA
Found at i:57422427 original size:233 final size:233
Alignment explanation
Indices: 57422011--57422496 Score: 604
Period size: 233 Copynumber: 2.1 Consensus size: 233
57422001 CATTATGGTG
**
57422011 AATCTTATCTCCCTAAAGTTGTAGTGGAGTAGATTAAAGATAGCAAATCTTATCTCTCTAAAGTT
1 AATCTTATCTCCCTAAAGTTACAGTGGAGTAGATTAAAGATAGCAAATCTTATCTCTCTAAAGTT
* * *
57422076 GCAGTAAAGCAGATTAAAGCTACAAATCTTATCTCCCTAAAGTTTCAGTGGAGCAGATTGAAACG
66 ACAGTAAAGCAGATTAAAGCTACAAATCTTATCTCCCTAAAGTTACAATGGAGCAGATTGAAACG
* * * **
57422141 ATAAGTCCTATACCTCTGAAGTTGCAATAGGTCAGATTAAATCTACTATAGCAAGTCTTATCTCC
131 ACAAGTCCTATACCTCTAAAGTTGCAATAGGTCAGATTAAATCTACCATAGCAAACCTTATCT-C
* *
57422206 CTGAAGTTACAGTGGAATAGACTAAAGC-TACAAGTCACT
195 CTGAAGTTACAGTGGAATAGACTAAAGCTTA-AAGCCACA
* * * * * *
57422245 AGTCTTATCTCCCTGAAGTTACAGTGGAGTAGATTGAAGCTA-CTAATGTTATCTC-CTTGAAA-
1 AATCTTATCTCCCTAAAGTTACAGTGGAGTAGATTAAAGATAGCAAATCTTATCTCTC-T-AAAG
** * * * * * *
57422307 TTACAGTGGAGTAGATTGAAGCTACTAATCTTATCTCCTTAGAGTTACAATGGAGTAGATT-AAA
64 TTACAGTAAAGCAGATTAAAGCTACAAATCTTATCTCCCTAAAGTTACAATGGAGCAGATTGAAA
* * * *
57422371 GTGACAAGTCCTATACCTCTAAAGTTGCAGTAGGTTAGATTAGATCTACCATAGCAAACCTTATC
129 -CGACAAGTCCTATACCTCTAAAGTTGCAATAGGTCAGATTAAATCTACCATAGCAAACCTTATC
**
57422436 TCCTGAAGTTGTAGTGGAATAGACTAAAGCTTAAAGCCACA
193 TCCTGAAGTTACAGTGGAATAGACTAAAGCTTAAAGCCACA
57422477 AATCTTATCTCCCTAAAGTT
1 AATCTTATCTCCCTAAAGTT
57422497 GCAATGGAAA
Statistics
Matches: 214, Mismatches: 34, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
232 55 0.26
233 120 0.56
234 39 0.18
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (233 bp):
AATCTTATCTCCCTAAAGTTACAGTGGAGTAGATTAAAGATAGCAAATCTTATCTCTCTAAAGTT
ACAGTAAAGCAGATTAAAGCTACAAATCTTATCTCCCTAAAGTTACAATGGAGCAGATTGAAACG
ACAAGTCCTATACCTCTAAAGTTGCAATAGGTCAGATTAAATCTACCATAGCAAACCTTATCTCC
TGAAGTTACAGTGGAATAGACTAAAGCTTAAAGCCACA
Found at i:57422730 original size:95 final size:96
Alignment explanation
Indices: 57422559--57422935 Score: 286
Period size: 95 Copynumber: 3.9 Consensus size: 96
57422549 ATAGATACAA
* * * * *
57422559 ATCTTATCTCCCTAAAATTGCAGTGGAGTAGATTGAAGATAGCGAATCTTATTTCCCTGAAGTTG
1 ATCTTATCTCCCTAAAATTACAGTGGAGCAGATTGAAGATAGCAAATCTCATCTCCCTGAAGTTG
57422624 CAGTGGAGTAGATTAAAGCTACAAGTTGCAT
66 CAGTGGAGTAGATTAAAGCTACAAGTTGCAT
* * * *
57422655 ATCTTATCTCCCTAAAGTTACGGTGGAGCAGGTTGAAGCTA-CAAATCTCATCTCCCTGAAGTTG
1 ATCTTATCTCCCTAAAATTACAGTGGAGCAGATTGAAGATAGCAAATCTCATCTCCCTGAAGTTG
* * *
57422719 CAGTGTAGTAGATTAAAGATAGAA-----A-
66 CAGTGGAGTAGATTAAAGCTACAAGTTGCAT
* * * * * ** * * * * *
57422744 ATCTTATTTCCCTGAAGTTGCAATGGAAAAGATTAAAGCTACAAGTTACAAATTTTATCTTCCTG
1 ATCTTATCTCCCTAAAATTACAGTGGAGCAGATTGAAG--A-TAG---CAAATCTCATCTCCCTG
* ** * *
57422809 AATTTGCAGTGGAACAGATTAAAGCTACAAGTTACAA
60 AAGTTGCAGTGGAGTAGATTAAAGCTACAAGTTGCAT
* * ** * * * *
57422846 ATCTTATCTCTCTAAAGTTGTAGCT-GAGTAAATTGAAGATA-CAAGTCTCATCTCCCTAAAGTT
1 ATCTTATCTCCCTAAAATTACAG-TGGAGCAGATTGAAGATAGCAAATCTCATCTCCCTGAAGTT
*
57422909 GCAGTGGAGTAGACTAAAGCTACAAGT
65 GCAGTGGAGTAGATTAAAGCTACAAGT
57422936 CTGATCTCCC
Statistics
Matches: 216, Mismatches: 51, Indels: 29
0.73 0.17 0.10
Matches are distributed among these distances:
89 29 0.13
90 1 0.00
92 1 0.00
95 81 0.38
96 73 0.34
99 1 0.00
100 1 0.00
101 1 0.00
102 27 0.12
103 1 0.00
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (96 bp):
ATCTTATCTCCCTAAAATTACAGTGGAGCAGATTGAAGATAGCAAATCTCATCTCCCTGAAGTTG
CAGTGGAGTAGATTAAAGCTACAAGTTGCAT
Found at i:57422821 original size:140 final size:140
Alignment explanation
Indices: 57422554--57422838 Score: 381
Period size: 140 Copynumber: 2.0 Consensus size: 140
57422544 GTGGAATAGA
* * **
57422554 TACAAATCTTATCTCCCTAAAATTGCAGTGGAGTAGATTGAAGATAGCGAATCTTATTTCCCTGA
1 TACAAATCTCATCTCCCTAAAATTGCAGTGGAGTAGATTAAAGATAGAAAATCTTATTTCCCTGA
* ** * * * *
57422619 AGTTGCAGTGGAGTAGATTAAAGCTACAAGTTGCATATCTTATCTCCCTAAAGTTACGGTGGAGC
66 AGTTGCAATGGAAAAGATTAAAGCTACAAGTTACAAATCTTATCTCCCTAAAGTTACAGTGGAAC
* *
57422684 AGGTTGAAGC
131 AGATTAAAGC
* * *
57422694 TACAAATCTCATCTCCCTGAAGTTGCAGTGTAGTAGATTAAAGATAGAAAATCTTATTTCCCTGA
1 TACAAATCTCATCTCCCTAAAATTGCAGTGGAGTAGATTAAAGATAGAAAATCTTATTTCCCTGA
* * * * *
57422759 AGTTGCAATGGAAAAGATTAAAGCTACAAGTTACAAATTTTATCTTCCTGAATTTGCAGTGGAAC
66 AGTTGCAATGGAAAAGATTAAAGCTACAAGTTACAAATCTTATCTCCCTAAAGTTACAGTGGAAC
57422824 AGATTAAAGC
131 AGATTAAAGC
57422834 TACAA
1 TACAA
57422839 GTTACAAATC
Statistics
Matches: 124, Mismatches: 21, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
140 124 1.00
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.30
Consensus pattern (140 bp):
TACAAATCTCATCTCCCTAAAATTGCAGTGGAGTAGATTAAAGATAGAAAATCTTATTTCCCTGA
AGTTGCAATGGAAAAGATTAAAGCTACAAGTTACAAATCTTATCTCCCTAAAGTTACAGTGGAAC
AGATTAAAGC
Found at i:57422828 original size:51 final size:51
Alignment explanation
Indices: 57422742--57422854 Score: 174
Period size: 51 Copynumber: 2.2 Consensus size: 51
57422732 TAAAGATAGA
57422742 AAATCTTAT-TTCCCTGAAGTTGCAATGGAAAAGATTAAAGCTACAAGTTAC
1 AAATCTTATCTT-CCTGAAGTTGCAATGGAAAAGATTAAAGCTACAAGTTAC
* * * *
57422793 AAATTTTATCTTCCTGAATTTGCAGTGGAACAGATTAAAGCTACAAGTTAC
1 AAATCTTATCTTCCTGAAGTTGCAATGGAAAAGATTAAAGCTACAAGTTAC
57422844 AAATCTTATCT
1 AAATCTTATCT
57422855 CTCTAAAGTT
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
51 54 0.96
52 2 0.04
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (51 bp):
AAATCTTATCTTCCTGAAGTTGCAATGGAAAAGATTAAAGCTACAAGTTAC
Found at i:57423646 original size:2 final size:2
Alignment explanation
Indices: 57423639--57423681 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
57423629 TGTATTCACT
57423639 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
57423681 T
1 T
57423682 TGTGTCTCTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:57424434 original size:13 final size:13
Alignment explanation
Indices: 57424418--57424443 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
57424408 GAAATGATTT
57424418 TTTGAAAATTTTG
1 TTTGAAAATTTTG
57424431 TTTGAAAATTTTG
1 TTTGAAAATTTTG
57424444 ACATTTGGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (13 bp):
TTTGAAAATTTTG
Found at i:57427493 original size:37 final size:37
Alignment explanation
Indices: 57427443--57427666 Score: 335
Period size: 37 Copynumber: 6.1 Consensus size: 37
57427433 CTTTAGCTCA
*
57427443 GACAAAATCTCCACACGAAGTTATCGGGTCTTACCCG
1 GACAAAATCTCCACACGAAGTCATCGGGTCTTACCCG
*
57427480 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACAAAATCTCCACACGAAGTCATCGGGTCTTACCCG
*
57427517 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACAAAATCTCCACACGAAGTCATCGGGTCTTACCCG
* *
57427554 GACATAACCTCCACAC-ATAGTCATCGGGTCTTACCCG
1 GACAAAATCTCCACACGA-AGTCATCGGGTCTTACCCG
*
57427591 GACATAATCTCCACAC-ATAGTCATCGGGTCTTACCCG
1 GACAAAATCTCCACACGA-AGTCATCGGGTCTTACCCG
* * *
57427628 GACATAATCTCCACACGTAGTCATTGGGTCTTACCCG
1 GACAAAATCTCCACACGAAGTCATCGGGTCTTACCCG
57427665 GA
1 GA
57427667 ATATATTTCC
Statistics
Matches: 177, Mismatches: 8, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
37 177 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.23
Consensus pattern (37 bp):
GACAAAATCTCCACACGAAGTCATCGGGTCTTACCCG
Found at i:57427531 original size:74 final size:74
Alignment explanation
Indices: 57427443--57427666 Score: 369
Period size: 74 Copynumber: 3.0 Consensus size: 74
57427433 CTTTAGCTCA
* *
57427443 GACAAAATCTCCACACGAAGTTATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGG
1 GACAAAATCTCCACACGAAGTCATCGGGTCTTACCCGGACATAATCTCCACACGTAGTCATCGGG
57427508 TCTTACCCG
66 TCTTACCCG
* * *
57427517 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCGGACATAACCTCCACACATAGTCATCGGG
1 GACAAAATCTCCACACGAAGTCATCGGGTCTTACCCGGACATAATCTCCACACGTAGTCATCGGG
57427582 TCTTACCCG
66 TCTTACCCG
* *
57427591 GACATAATCTCCACAC-ATAGTCATCGGGTCTTACCCGGACATAATCTCCACACGTAGTCATTGG
1 GACAAAATCTCCACACGA-AGTCATCGGGTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
57427655 GTCTTACCCG
65 GTCTTACCCG
57427665 GA
1 GA
57427667 ATATATTTCC
Statistics
Matches: 139, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
74 139 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.23
Consensus pattern (74 bp):
GACAAAATCTCCACACGAAGTCATCGGGTCTTACCCGGACATAATCTCCACACGTAGTCATCGGG
TCTTACCCG
Found at i:57427645 original size:111 final size:111
Alignment explanation
Indices: 57427451--57427666 Score: 371
Period size: 111 Copynumber: 1.9 Consensus size: 111
57427441 CAGACAAAAT
* *
57427451 CTCCACACGAAGTTATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTTACCC
1 CTCCACACGAAGTCATCGGGTCTTACCCGGACAAAATCTCCACACATAGTCATCGGGTCTTACCC
57427516 GGACAAAATCTCCACACGTAGTCATCGGGTCTTACCCGGACATAAC
66 GGACAAAATCTCCACACGTAGTCATCGGGTCTTACCCGGACATAAC
*
57427562 CTCCACAC-ATAGTCATCGGGTCTTACCCGGACATAATCTCCACACATAGTCATCGGGTCTTACC
1 CTCCACACGA-AGTCATCGGGTCTTACCCGGACAAAATCTCCACACATAGTCATCGGGTCTTACC
* *
57427626 CGGACATAATCTCCACACGTAGTCATTGGGTCTTACCCGGA
65 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
57427667 ATATATTTCC
Statistics
Matches: 99, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
110 1 0.01
111 98 0.99
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.23
Consensus pattern (111 bp):
CTCCACACGAAGTCATCGGGTCTTACCCGGACAAAATCTCCACACATAGTCATCGGGTCTTACCC
GGACAAAATCTCCACACGTAGTCATCGGGTCTTACCCGGACATAAC
Found at i:57427938 original size:48 final size:48
Alignment explanation
Indices: 57427812--57428044 Score: 369
Period size: 48 Copynumber: 4.8 Consensus size: 48
57427802 GCACATCGCC
*
57427812 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* * *
57427862 TATATATTTCACATT-GACCATTCAGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
*
57427910 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATTTCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
57427958 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATTTCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
57428006 TACATATTTCACACTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
57428045 TGCATGTTCA
Statistics
Matches: 172, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
48 129 0.75
49 2 0.01
50 41 0.24
ACGTcount: A:0.30, C:0.27, G:0.06, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:57428093 original size:47 final size:47
Alignment explanation
Indices: 57428022--57428207 Score: 282
Period size: 47 Copynumber: 4.0 Consensus size: 47
57428012 TTTCACACTA
* * * *
57428022 GCCATTCGGCTTTACCACATATATGCATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* *
57428069 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
57428116 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* * **
57428163 GCCATTCGGCCTTATCTCATATATACACATTCACATTCATCACAT
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACAT
57428208 AAAATCCTGA
Statistics
Matches: 127, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 127 1.00
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.33
Consensus pattern (47 bp):
GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
Found at i:57428134 original size:22 final size:22
Alignment explanation
Indices: 57428107--57428178 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
57428097 GCTCACATTC
57428107 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
57428129 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
57428153 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
57428176 ATC
1 ATC
57428179 TCATATATAC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 13 0.35
23 7 0.19
24 7 0.19
25 10 0.27
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:57432617 original size:14 final size:14
Alignment explanation
Indices: 57432587--57432626 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
57432577 GTCTTGCATT
*
57432587 TTTATTTTTATT-T
1 TTTATTTTTATTAC
57432600 TTTATTTTTATTAC
1 TTTATTTTTATTAC
*
57432614 TTTATTTATATTA
1 TTTATTTTTATTA
57432627 TACCATGGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 12 0.50
14 12 0.50
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.75
Consensus pattern (14 bp):
TTTATTTTTATTAC
Found at i:57434540 original size:34 final size:34
Alignment explanation
Indices: 57434502--57434572 Score: 79
Period size: 34 Copynumber: 2.1 Consensus size: 34
57434492 ACATTCAACT
** * *
57434502 ATAGAATAATTCATCATTTGAACCACACTTAGCC
1 ATAGAATAACGCATCATTTGAACAACACTCAGCC
* * *
57434536 ATAGAGTAACGCGTCATTTGCACAACACTCAGCC
1 ATAGAATAACGCATCATTTGAACAACACTCAGCC
57434570 ATA
1 ATA
57434573 CAACCCAACA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.37, C:0.25, G:0.13, T:0.25
Consensus pattern (34 bp):
ATAGAATAACGCATCATTTGAACAACACTCAGCC
Found at i:57436001 original size:25 final size:24
Alignment explanation
Indices: 57435962--57436020 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 24
57435952 TTATTTTATT
* * *
57435962 AAATAAAAAAATTT-AAAATATAA
1 AAATAAATATATTTAAAAACATAA
57435985 TAAATCAAATATATTTAAAAACATAA
1 -AAAT-AAATATATTTAAAAACATAA
57436011 AAATAAATAT
1 AAATAAATAT
57436021 TAAAACAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 10 0.33
25 12 0.40
26 8 0.27
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (24 bp):
AAATAAATATATTTAAAAACATAA
Found at i:57436032 original size:22 final size:22
Alignment explanation
Indices: 57435991--57436049 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
57435981 ATAATAAATC
* *
57435991 AAATATAT-TTAAAA-ACATAA
1 AAATAAATATTAAAACAAATAA
57436011 AAATAAATATTAAAACAAATAA
1 AAATAAATATTAAAACAAATAA
*
57436033 AAAT-AATACTAAAACAA
1 AAATAAATATTAAAACAA
57436050 TTCTTAAAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 18 0.53
22 9 0.26
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (22 bp):
AAATAAATATTAAAACAAATAA
Found at i:57436127 original size:17 final size:17
Alignment explanation
Indices: 57436096--57436130 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
57436086 AAATAGTTAT
**
57436096 ATTAAAAATTTAAAATA
1 ATTAAAAATAAAAAATA
57436113 ATTAAAAATAAAAAATA
1 ATTAAAAATAAAAAATA
57436130 A
1 A
57436131 AAAATATATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
ATTAAAAATAAAAAATA
Found at i:57440935 original size:11 final size:12
Alignment explanation
Indices: 57440915--57440939 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
57440905 ACTTTCTTTC
57440915 TTTTCTTTTTTT
1 TTTTCTTTTTTT
57440927 TTTTCTTTTTTT
1 TTTTCTTTTTTT
57440939 T
1 T
57440940 ATGGAATTTT
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:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (12 bp):
TTTTCTTTTTTT
Found at i:57441129 original size:11 final size:11
Alignment explanation
Indices: 57441113--57441145 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
57441103 TTTTTATCCA
57441113 ATTTAAATAAT
1 ATTTAAATAAT
57441124 ATTTAAATAAT
1 ATTTAAATAAT
*
57441135 AGTT-AATAAT
1 ATTTAAATAAT
57441145 A
1 A
57441146 ATGGTTTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
10 7 0.33
11 14 0.67
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (11 bp):
ATTTAAATAAT
Found at i:57450170 original size:49 final size:49
Alignment explanation
Indices: 57450110--57450231 Score: 199
Period size: 49 Copynumber: 2.5 Consensus size: 49
57450100 TACATATGTG
*
57450110 TGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCAATGCGATGAATGTGAAAGTGTATGTATA
* * *
57450159 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCAATGCGATGAATGTGAAAGTGTATGTATA
*
57450208 TGTGATAAGGCCTAATGGCTAATG
1 TGTGATAAGGCCTAATGGCCAATG
57450232 TAAAATATAT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 67 1.00
ACGTcount: A:0.30, C:0.10, G:0.31, T:0.29
Consensus pattern (49 bp):
TGTGATAAGGCCTAATGGCCAATGCGATGAATGTGAAAGTGTATGTATA
Found at i:57450378 original size:37 final size:37
Alignment explanation
Indices: 57450328--57450412 Score: 152
Period size: 37 Copynumber: 2.3 Consensus size: 37
57450318 GGAATATGTT
*
57450328 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
57450365 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
57450402 CCGGGTAAGAC
1 CCGGGTAAGAC
57450413 TTCTTTTATA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:57453919 original size:47 final size:47
Alignment explanation
Indices: 57453864--57454435 Score: 928
Period size: 47 Copynumber: 12.0 Consensus size: 47
57453854 TGTAGGAGAT
57453864 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGA
1 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGA
57453911 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGA
1 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGA
* * * *
57453958 GTATATATGTGATAAGGCCTAATGACCGATGTGATGAATGTGAAGGT
1 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGA
57454005 GTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGA
1 G--TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGA
* *
57454054 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAGGT
1 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGA
57454101 GTATATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGA
1 GTATAT--ATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGA
*
57454150 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGT
1 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGA
57454197 GTATATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGA
1 GTATAT--ATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGA
* * *
57454246 GTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGT
1 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGA
57454293 GTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGA
1 G--TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGA
* * *
57454342 GTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGT
1 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGA
*
57454389 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 G--TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
57454436 CATATGTGTG
Statistics
Matches: 491, Mismatches: 24, Indels: 18
0.92 0.05 0.03
Matches are distributed among these distances:
47 270 0.55
49 221 0.45
ACGTcount: A:0.34, C:0.09, G:0.28, T:0.29
Consensus pattern (47 bp):
GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGA
Found at i:57454039 original size:96 final size:96
Alignment explanation
Indices: 57453864--57454435 Score: 1040
Period size: 96 Copynumber: 6.0 Consensus size: 96
57453854 TGTAGGAGAT
* *
57453864 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAG--TATATATGTGATAAG
1 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAGGTGTATATATATGTGATAAG
57453927 GCCTAATGGCCAATGTGATGAATGTGAAAGA
66 GCCTAATGGCCAATGTGATGAATGTGAAAGA
* *
57453958 GTATATATGTGATAAGGCCTAATGACCGATGTGATGAATGTGAAGGTGTATATATATGTGATAAG
1 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAGGTGTATATATATGTGATAAG
57454023 GCCTAATGGCCAATGTGATGAATGTGAAAGA
66 GCCTAATGGCCAATGTGATGAATGTGAAAGA
*
57454054 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAGGTGTATATACATGTGATAAG
1 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAGGTGTATATATATGTGATAAG
57454119 GCCTAATGGCCAATGTGATGAATGTGAAAGA
66 GCCTAATGGCCAATGTGATGAATGTGAAAGA
* *
57454150 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATACATGTGATAAG
1 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAGGTGTATATATATGTGATAAG
57454215 GCCTAATGGCCAATGTGATGAATGTGAAAGA
66 GCCTAATGGCCAATGTGATGAATGTGAAAGA
*
57454246 GTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTATATATATGTGATAAG
1 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAGGTGTATATATATGTGATAAG
57454311 GCCTAATGGCCAATGTGATGAATGTGAAAGA
66 GCCTAATGGCCAATGTGATGAATGTGAAAGA
*
57454342 GTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTATATATATGTGATAAG
1 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAGGTGTATATATATGTGATAAG
*
57454407 GCCTAATGGCCGATGTGATGAATGTGAAA
66 GCCTAATGGCCAATGTGATGAATGTGAAA
57454436 CATATGTGTG
Statistics
Matches: 464, Mismatches: 12, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
94 44 0.09
96 420 0.91
ACGTcount: A:0.34, C:0.09, G:0.28, T:0.29
Consensus pattern (96 bp):
GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAGGTGTATATATATGTGATAAG
GCCTAATGGCCAATGTGATGAATGTGAAAGA
Found at i:57454483 original size:48 final size:48
Alignment explanation
Indices: 57454427--57454626 Score: 346
Period size: 48 Copynumber: 4.2 Consensus size: 48
57454417 CGATGTGATG
* *
57454427 AATGTGAAACATATGTGTGATATGTATATGTGGTAAAGCCAAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
* *
57454475 AATGTGAAATATATGTGTGATGTGTATATGTGGTAAAGCCGAAGGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
57454523 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
* *
57454571 AATGTGAAATATATGTGTGATGTGTATGTGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
57454619 AATGTGAA
1 AATGTGAA
57454627 TGTTGTAACA
Statistics
Matches: 144, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 144 1.00
ACGTcount: A:0.33, C:0.07, G:0.28, T:0.32
Consensus pattern (48 bp):
AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
Found at i:57454720 original size:37 final size:37
Alignment explanation
Indices: 57454666--57454756 Score: 164
Period size: 37 Copynumber: 2.4 Consensus size: 37
57454656 AACTTGGAAA
*
57454666 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGTAAGACCCGATGACTACGTGTGGAGAT
57454704 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
57454741 TATGTCCGGGTAAGAC
1 TATGTCCGGGTAAGAC
57454757 TTCGTAATAA
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
37 48 0.92
38 4 0.08
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.25
Consensus pattern (37 bp):
TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
Found at i:57463786 original size:12 final size:13
Alignment explanation
Indices: 57463750--57463787 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
57463740 AAATATTTGA
57463750 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
57463763 ATGTGTTCTTAATT
1 CT-TGTTCTTAATT
57463777 CTTG-TCTTAAT
1 CTTGTTCTTAAT
57463788 ATTCCAGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 7 0.32
13 3 0.14
14 12 0.55
ACGTcount: A:0.18, C:0.13, G:0.11, T:0.58
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:57471413 original size:19 final size:19
Alignment explanation
Indices: 57471389--57471425 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
57471379 AGAAGCAAGG
57471389 AATTACTAGAAGAAAGCCA
1 AATTACTAGAAGAAAGCCA
57471408 AATTACTAGAAGAAAGCC
1 AATTACTAGAAGAAAGCC
57471426 GATTGATCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.51, C:0.16, G:0.16, T:0.16
Consensus pattern (19 bp):
AATTACTAGAAGAAAGCCA
Found at i:57479888 original size:4 final size:4
Alignment explanation
Indices: 57479879--57479904 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
57479869 TTTCTTCTAC
57479879 ATAA ATAA ATAA ATAA ATAA ATAA AT
1 ATAA ATAA ATAA ATAA ATAA ATAA AT
57479905 TTTTAGGCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (4 bp):
ATAA
Found at i:57480074 original size:17 final size:16
Alignment explanation
Indices: 57480052--57480089 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
57480042 CAAGCCTTCA
*
57480052 AAAAAAATAATATTAAT
1 AAAAAAATAA-ATAAAT
57480069 AAAAAAATAAATAAAT
1 AAAAAAATAAATAAAT
57480085 AAAAA
1 AAAAA
57480090 CTGTTTGAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (16 bp):
AAAAAAATAAATAAAT
Found at i:57480700 original size:15 final size:15
Alignment explanation
Indices: 57480680--57480714 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
57480670 TAGGAAGATA
*
57480680 TTATTTTATTTTTAT
1 TTATTTTATTTTAAT
57480695 TTATTTTATTTTAAT
1 TTATTTTATTTTAAT
57480710 TTATT
1 TTATT
57480715 AGATTAGTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (15 bp):
TTATTTTATTTTAAT
Found at i:57483315 original size:22 final size:22
Alignment explanation
Indices: 57483267--57483325 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
57483257 CACACATCCA
* * *
57483267 GTGTTGAGTCGTAACAGCCCTT
1 GTGTTGAGCCGTAGCAGCCCCT
* *
57483289 ATGTTTAGCCGTAGCAGCCCCT
1 GTGTTGAGCCGTAGCAGCCCCT
*
57483311 GTGTTGAGCCATAGC
1 GTGTTGAGCCGTAGC
57483326 CTGAACGTGG
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.19, C:0.25, G:0.27, T:0.29
Consensus pattern (22 bp):
GTGTTGAGCCGTAGCAGCCCCT
Found at i:57486064 original size:43 final size:43
Alignment explanation
Indices: 57486010--57486156 Score: 154
Period size: 43 Copynumber: 3.4 Consensus size: 43
57486000 GATTACCGAG
* *
57486010 ATGTGGTTACATATAAGACCATGTCTGGGACATTGGCATTG-T
1 ATGTGATTACATATAAGACCATGTCTGGGACATTGGCATCGTT
* *
57486052 ATTGTGATTACATGTAAGACCATGTCTGGGATATTGGCATCGTT
1 A-TGTGATTACATATAAGACCATGTCTGGGACATTGGCATCGTT
* * * * * *
57486096 ATATAATTTCATATAAGACC-TCGTCTGGGACAGTGGCTTCGAT
1 ATGTGATTACATATAAGACCAT-GTCTGGGACATTGGCATCGTT
* *
57486139 ATGTGATAACATGTAAGA
1 ATGTGATTACATATAAGA
57486157 ACATATCCAG
Statistics
Matches: 85, Mismatches: 17, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
42 2 0.02
43 81 0.95
44 2 0.02
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (43 bp):
ATGTGATTACATATAAGACCATGTCTGGGACATTGGCATCGTT
Found at i:57486170 original size:86 final size:85
Alignment explanation
Indices: 57486019--57486176 Score: 205
Period size: 86 Copynumber: 1.8 Consensus size: 85
57486009 GATGTGGTTA
* * * * **
57486019 CATATAAGACCATGTCTGGGACATTGGCATTGTATTGTGATTACATGTAAGACCATGTCTGGGAT
1 CATATAAGACCATGTCTGGGACAGTGGCATTGTATTGTGATAACATGTAAGAACATATCCAGGAT
57486084 ATTGGCATCGTTATATAATTT
66 A-TGGCATCGTTATATAATTT
57486105 CATATAAGACC-TCGTCTGGGACAGTGGC-TTCG-ATATGTGATAACATGTAAGAACATATCCAG
1 CATATAAGACCAT-GTCTGGGACAGTGGCATT-GTAT-TGTGATAACATGTAAGAACATATCCAG
57486167 GATATGGCAT
63 GATATGGCAT
57486177 TGTATGAGCT
Statistics
Matches: 63, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
85 11 0.17
86 52 0.83
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.32
Consensus pattern (85 bp):
CATATAAGACCATGTCTGGGACAGTGGCATTGTATTGTGATAACATGTAAGAACATATCCAGGAT
ATGGCATCGTTATATAATTT
Found at i:57490517 original size:23 final size:23
Alignment explanation
Indices: 57490491--57490603 Score: 145
Period size: 23 Copynumber: 4.9 Consensus size: 23
57490481 TAGAATGCAT
*
57490491 CACAAAGGCTTAACAGAATATGC
1 CACAAAGGCTTAATAGAATATGC
* * *
57490514 CACAAAGGCTTTATAAAATAGGC
1 CACAAAGGCTTAATAGAATATGC
* * *
57490537 CGCAAAGGCTTAATAAAATAGGC
1 CACAAAGGCTTAATAGAATATGC
* *
57490560 CGCAAAGGCTTAATAGAATGTGC
1 CACAAAGGCTTAATAGAATATGC
57490583 CACAAAGGCTTAATAGAATAT
1 CACAAAGGCTTAATAGAATAT
57490604 TACATGTTTA
Statistics
Matches: 79, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 79 1.00
ACGTcount: A:0.42, C:0.18, G:0.19, T:0.20
Consensus pattern (23 bp):
CACAAAGGCTTAATAGAATATGC
Found at i:57490527 original size:46 final size:44
Alignment explanation
Indices: 57490458--57490603 Score: 132
Period size: 46 Copynumber: 3.2 Consensus size: 44
57490448 AAGAGCATTG
* *
57490458 CAGAATATGCTACAGA-GCTTTTATAGAATGCATCACAAAGGCTTAA
1 CAGAATATGCCACAAAGGC-TTTATAGAATGC--CACAAAGGCTTAA
* *
57490504 CAGAATATGCCACAAAGGCTTTATAAAATAGGCCGCAAAGGCTTAA
1 CAGAATATGCCACAAAGGCTTTATAGAAT--GCCACAAAGGCTTAA
* * * * *
57490550 TAAAATAGGCCGCAAAGGCTTAATAGAATGTGCCACAAAGGCTTAA
1 CAGAATATGCCACAAAGGCTTTATAGAA--TGCCACAAAGGCTTAA
*
57490596 TAGAATAT
1 CAGAATAT
57490604 TACATGTTTA
Statistics
Matches: 82, Mismatches: 13, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
46 77 0.94
47 2 0.02
48 3 0.04
ACGTcount: A:0.41, C:0.17, G:0.19, T:0.23
Consensus pattern (44 bp):
CAGAATATGCCACAAAGGCTTTATAGAATGCCACAAAGGCTTAA
Done.