Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 228 of 279
Found at i:74501221 original size:42 final size:42
Alignment explanation
Indices: 74501109--74501222 Score: 122
Period size: 43 Copynumber: 2.7 Consensus size: 42
74501099 TACCATACCA
* *
74501109 ATGCCATATCCTAGATATGGTCTTACATGGGATCTCATATCG
1 ATGCCAAATCCTAGATATGGTCTTACACGGGATCTCATATCG
* * * * * *
74501151 ATGGCAATAGCCCAGCTATGGTCTTACACGAGG-TTTCTTATCG
1 ATGCCAA-ATCCTAGATATGGTCTTACACG-GGATCTCATATCG
*
74501194 ATGCCAAATCATAGATATGGTCTTACACG
1 ATGCCAAATCCTAGATATGGTCTTACACG
74501223 TAATCTTAGT
Statistics
Matches: 57, Mismatches: 13, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
42 23 0.40
43 32 0.56
44 2 0.04
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (42 bp):
ATGCCAAATCCTAGATATGGTCTTACACGGGATCTCATATCG
Found at i:74502852 original size:78 final size:78
Alignment explanation
Indices: 74502730--74502959 Score: 363
Period size: 78 Copynumber: 2.9 Consensus size: 78
74502720 GTCTTATTGT
* *
74502730 AAATGATGGGAGTTTGGTTCGAGATAATGAGGGGCTATTTGATGTTGCAAATGATTATTTTATGG
1 AAATGATGGGAGTTTGGTTTGAGATAATGAGGGGCTATTTGATGTTACAAATGATTATTTTATGG
74502795 ATTTGTTTATT-C
66 ATTTGTTTATTAC
* * * *
74502807 AAAATGATGGGAGTTTGGTTTGAAATAGTGAGGGGCTATTTGATGTTACAAATGATTAATTTATT
1 -AAATGATGGGAGTTTGGTTTGAGATAATGAGGGGCTATTTGATGTTACAAATGATTATTTTATG
* *
74502872 AATTTATTTATTAC
65 GATTTGTTTATTAC
*
74502886 AAATAATGGGAGTTTGGTTTGAGATAATGAGGGGCTATTTGATGTTACAAATGATTATTTTATGG
1 AAATGATGGGAGTTTGGTTTGAGATAATGAGGGGCTATTTGATGTTACAAATGATTATTTTATGG
74502951 ATTTGTTTA
66 ATTTGTTTA
74502960 CTTCCCAAGG
Statistics
Matches: 136, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
78 135 0.99
79 1 0.01
ACGTcount: A:0.30, C:0.04, G:0.25, T:0.42
Consensus pattern (78 bp):
AAATGATGGGAGTTTGGTTTGAGATAATGAGGGGCTATTTGATGTTACAAATGATTATTTTATGG
ATTTGTTTATTAC
Found at i:74505992 original size:32 final size:32
Alignment explanation
Indices: 74505956--74506019 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
74505946 CACATTCTTT
74505956 AATTTAAGCTCGTTACTCATGCTTACCATATA
1 AATTTAAGCTCGTTACTCATGCTTACCATATA
*
74505988 AATTTAAGCTTGTTACTCATGCTTACCATATA
1 AATTTAAGCTCGTTACTCATGCTTACCATATA
74506020 GGTACCTGTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.31, C:0.20, G:0.09, T:0.39
Consensus pattern (32 bp):
AATTTAAGCTCGTTACTCATGCTTACCATATA
Found at i:74506297 original size:47 final size:46
Alignment explanation
Indices: 74506143--74506502 Score: 184
Period size: 47 Copynumber: 7.7 Consensus size: 46
74506133 ATATCTTGCT
* * * * *
74506143 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACTTACGCGTGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTATCTCTT-CGAG-GCC
* * *
74506193 GATGCATGTCTCAGACATGTCTTACACTAGCACAACTCTT--A-GCC
1 GATGCATGTCCCAGACATGTCTTACACTAGC-TATCTCTTCGAGGCC
* *
74506237 GATGCGTGTCCCAGACACGTCTTACACTAGCTATCTCTGTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTATCTCT-TCGAGGCC
* *
74506284 GATGCATGTCCCAGACATGTCTTACACTGGC-A-CTCATTTCTG-TGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTATCTC--TTC-GAGGCC
* * * * * *
74506330 GATGCTATGTCCTAGACATGGTCTTACATTGGCTA--TCATAGCATGGCT
1 GATGC-ATGTCCCAGACAT-GTCTTACACTAGCTATCTCTTCG-A-GGCC
* * * * ** * *
74506378 AACGTATGTCCCAGACATTTCTTACACTAGCCCTC-CTCTAGAAGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTATCTCT-TCGAGGCC
* * * ** *
74506424 GATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCATAAT-GTA-GCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTATC-TCTTCG-AGGCC
*
74506472 GAAGCATGTCCCAGACATGTCTTACACTAGC
1 GATGCATGTCCCAGACATGTCTTACACTAGC
74506503 GCACAAATCA
Statistics
Matches: 240, Mismatches: 48, Indels: 48
0.71 0.14 0.14
Matches are distributed among these distances:
43 5 0.02
44 31 0.13
45 4 0.02
46 38 0.16
47 86 0.36
48 52 0.22
49 20 0.08
50 4 0.02
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTATCTCTTCGAGGCC
Found at i:74506389 original size:94 final size:93
Alignment explanation
Indices: 74506143--74506502 Score: 306
Period size: 94 Copynumber: 3.8 Consensus size: 93
74506133 ATATCTTGCT
* * ** * * *
74506143 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACTTACGCGTGCTGATGCATGTCTCAGA
1 GATGCCATGTCCCAGACATGGTCTTACATTGGCTATCA--TA-ATGAGCTGAAGCATGTCCCAGA
** *
74506208 CATGTCTTACACTAGCACAACTCT--TAGCC
63 CATGTCTTACACTAGCACTCCTCTAGAAGCC
* * * * ** * *
74506237 GATG-CGTGTCCCAGACA-CGTCTTACACTAGCTATC-TCTGTCGAGGCCGATGCATGTCCCAGA
1 GATGCCATGTCCCAGACATGGTCTTACATTGGCTATCAT-AAT-GA-GCTGAAGCATGTCCCAGA
* * *
74506299 CATGTCTTACACTGGCACTCATTTCT-G-TGCC
63 CATGTCTTACACTAGCACTC--CTCTAGAAGCC
* * *
74506330 GATGCTATGTCCTAGACATGGTCTTACATTGGCTATCATAGCATG-GCT-AACGTATGTCCCAGA
1 GATGCCATGTCCCAGACATGGTCTTACATTGGCTATCATA--ATGAGCTGAA-GCATGTCCCAGA
* *
74506393 CATTTCTTACACTAGCCCTCCTCTAGAAGCC
63 CATGTCTTACACTAGCACTCCTCTAGAAGCC
*
74506424 GATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCATAATGTAGCTGAAGCATGTCCCAGACA
1 GATGCCATGTCCCAGACATGGTCTTACATTGGCTATCATAATG-AGCTGAAGCATGTCCCAGACA
74506489 TGTCTTACACTAGC
65 TGTCTTACACTAGC
74506503 GCACAAATCA
Statistics
Matches: 214, Mismatches: 35, Indels: 34
0.76 0.12 0.12
Matches are distributed among these distances:
89 2 0.01
90 1 0.00
91 33 0.15
92 21 0.10
93 24 0.11
94 113 0.53
95 17 0.08
96 2 0.01
97 1 0.00
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (93 bp):
GATGCCATGTCCCAGACATGGTCTTACATTGGCTATCATAATGAGCTGAAGCATGTCCCAGACAT
GTCTTACACTAGCACTCCTCTAGAAGCC
Found at i:74510666 original size:13 final size:13
Alignment explanation
Indices: 74510650--74510682 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
74510640 TTTAATTAAA
*
74510650 TTAGTTAATTAGT
1 TTAGATAATTAGT
74510663 TTAGATAATTAGT
1 TTAGATAATTAGT
74510676 TTA-ATAA
1 TTAGATAA
74510683 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:74515388 original size:47 final size:46
Alignment explanation
Indices: 74515192--74515502 Score: 199
Period size: 47 Copynumber: 6.6 Consensus size: 46
74515182 ATATATTGCT
* * * * * *
74515192 GATGCCATGTCCCATACATGGTCTTACACTGGCTCTCATATACGCGTACT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCATCT-C-TGTGCC
* *
74515242 GATGCATGTCCCAGACATGTCTTACACTAGCA--CAACTCT-TAGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTGT-GCC
* * * * *
74515286 AATGCGTGTCCCAGACACGTCTTATACTGG--CT-ATCTCTGTCGAGGCT
1 GATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTGT----GCC
*
74515333 AATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTGTGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTGTGCC
* ** *
74515379 GATGCCATGTCCCAGACATGGTCTTAAACTGGCTA-TCATAGCATG-GCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGC-ACTCATCTC-TGTGCC
* * * *
74515427 GATGCATGTCCCAGACATGTCTTACACTAGCCCTCGTCT-GGATGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTG-TGCC
* *
74515473 GATGCCATGTCCTAGACATGGTTTTACACT
1 GATG-CATGTCCCAGACAT-GTCTTACACT
74515503 AGCTTGCATA
Statistics
Matches: 207, Mismatches: 35, Indels: 40
0.73 0.12 0.14
Matches are distributed among these distances:
43 6 0.03
44 28 0.14
45 1 0.00
46 28 0.14
47 70 0.34
48 44 0.21
49 18 0.09
50 12 0.06
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTGTGCC
Found at i:74515443 original size:94 final size:94
Alignment explanation
Indices: 74515192--74515494 Score: 318
Period size: 94 Copynumber: 3.2 Consensus size: 94
74515182 ATATATTGCT
* * * * *
74515192 GATGCCATGTCCCATACATGGTCTTACACTGGCTCTCATATACGCGT-ACTGATGCATGTCCCAG
1 GATGCCATGTCCCAGACATGGTCTTAAACTGGCTATC--ATA-GCATGGCTGATGCATGTCCCAG
*
74515256 ACATGTCTTACACTAGCA--CAACTCT-TAGCC
63 ACATGTCTTACACTAGCACTCATCTCTGT-GCC
* * * * * *
74515286 AATG-CGTGTCCCAGACA-CGTCTTATACTGGCTATC-TCTGTCGA-GGCTAATGCATGTCCCAG
1 GATGCCATGTCCCAGACATGGTCTTAAACTGGCTATCAT-AG-C-ATGGCTGATGCATGTCCCAG
*
74515347 ACATGTCTTACACTGGCACTCATCTCTGTGCC
63 ACATGTCTTACACTAGCACTCATCTCTGTGCC
74515379 GATGCCATGTCCCAGACATGGTCTTAAACTGGCTATCATAGCATGGCTGATGCATGTCCCAGACA
1 GATGCCATGTCCCAGACATGGTCTTAAACTGGCTATCATAGCATGGCTGATGCATGTCCCAGACA
* * *
74515444 TGTCTTACACTAGCCCTCGTCT-GGATGCC
66 TGTCTTACACTAGCACTCATCTCTG-TGCC
*
74515473 GATGCCATGTCCTAGACATGGT
1 GATGCCATGTCCCAGACATGGT
74515495 TTTACACTAG
Statistics
Matches: 174, Mismatches: 23, Indels: 24
0.79 0.10 0.11
Matches are distributed among these distances:
89 2 0.01
90 1 0.01
91 32 0.18
92 15 0.09
93 25 0.14
94 81 0.47
95 17 0.10
96 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.28
Consensus pattern (94 bp):
GATGCCATGTCCCAGACATGGTCTTAAACTGGCTATCATAGCATGGCTGATGCATGTCCCAGACA
TGTCTTACACTAGCACTCATCTCTGTGCC
Found at i:74515528 original size:94 final size:94
Alignment explanation
Indices: 74515192--74515551 Score: 254
Period size: 94 Copynumber: 3.8 Consensus size: 94
74515182 ATATATTGCT
* * * * ** * * *
74515192 GATGCCATGTCCCATACATGGTCTTACACTGGCTCTCATATACGCGTACTGATGCATGTCCCAGA
1 GATGCCATGTCCCAGACATGGTCTTAAACTAGCTATCATA-ACATG-GCCGAAGCATGTCCCAGA
* *
74515257 CATGTCTTACACTAGCA--CAACTC-TTAGCC
64 CATGTCTTACACTAGCACTCATCTCGGT-GCC
* * * * * * ** *
74515286 AATG-CGTGTCCCAGACA-CGTCTTATACTGGCTATCTCTGTCGA-GG-CTAATGCATGTCCCAG
1 GATGCCATGTCCCAGACATGGTCTTAAACTAGCTATC-ATAAC-ATGGCCGAA-GCATGTCCCAG
* *
74515347 ACATGTCTTACACTGGCACTCATCTCTGTGCC
63 ACATGTCTTACACTAGCACTCATCTCGGTGCC
* * * *
74515379 GATGCCATGTCCCAGACATGGTCTTAAACTGGCTATCATAGCATGGCTGATGCATGTCCCAGACA
1 GATGCCATGTCCCAGACATGGTCTTAAACTAGCTATCATAACATGGCCGAAGCATGTCCCAGACA
* *
74515444 TGTCTTACACTAGCCCTCGTCT-GGATGCC
66 TGTCTTACACTAGCACTCATCTCGG-TGCC
* * * ** *
74515473 GATGCCATGTCCTAGACATGGTTTTACACTAGCT-TGCATAATGTGGCCGAAGCATGGT-CCAGT
1 GATGCCATGTCCCAGACATGGTCTTAAACTAGCTAT-CATAACATGGCCGAAGCAT-GTCCCAGA
*
74515536 CATGTCTTGCACTAGC
64 CATGTCTTACACTAGC
74515552 GCACAAATCA
Statistics
Matches: 211, Mismatches: 42, Indels: 26
0.76 0.15 0.09
Matches are distributed among these distances:
90 1 0.00
91 28 0.13
92 17 0.08
93 26 0.12
94 120 0.57
95 19 0.09
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.28
Consensus pattern (94 bp):
GATGCCATGTCCCAGACATGGTCTTAAACTAGCTATCATAACATGGCCGAAGCATGTCCCAGACA
TGTCTTACACTAGCACTCATCTCGGTGCC
Found at i:74521871 original size:16 final size:17
Alignment explanation
Indices: 74521850--74521886 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
74521840 TTGAGGAATG
*
74521850 AAATTTTAAAATTAA-A
1 AAATTTTAAAAATAATA
74521866 AAA-TTTAAAAATAATA
1 AAATTTTAAAAATAATA
74521882 AAATT
1 AAATT
74521887 AATTAAATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 10 0.56
16 7 0.39
17 1 0.06
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
AAATTTTAAAAATAATA
Found at i:74522341 original size:27 final size:27
Alignment explanation
Indices: 74522311--74522383 Score: 101
Period size: 27 Copynumber: 2.7 Consensus size: 27
74522301 ACCAGTAACC
* *
74522311 CCTATCTGATAGGTGGCACTGGTGATG
1 CCTATTTGATAGGCGGCACTGGTGATG
* * *
74522338 CCTATTTGATAGGCGTCATTGGTGGTG
1 CCTATTTGATAGGCGGCACTGGTGATG
74522365 CCTATTTGATAGGCGGCAC
1 CCTATTTGATAGGCGGCAC
74522384 ACCTAGCATA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.18, C:0.19, G:0.32, T:0.32
Consensus pattern (27 bp):
CCTATTTGATAGGCGGCACTGGTGATG
Found at i:74525226 original size:46 final size:46
Alignment explanation
Indices: 74525173--74525309 Score: 211
Period size: 46 Copynumber: 3.0 Consensus size: 46
74525163 TATATATACA
* * * * *
74525173 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACTTATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* *
74525219 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
74525265 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
74525310 ATACACTTCC
Statistics
Matches: 82, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 82 1.00
ACGTcount: A:0.25, C:0.31, G:0.09, T:0.35
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
Found at i:74525354 original size:47 final size:47
Alignment explanation
Indices: 74525283--74525661 Score: 589
Period size: 47 Copynumber: 8.1 Consensus size: 47
74525273 ACACATTTCG
* * * * * *
74525283 CATTAGCCATTCGGCTTTACCACATATATACACT-TCCACGTTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCA-TGTTCACATTCATCA
*
74525330 CATTGGCCATTCTGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
74525377 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
74525424 CATTTGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
74525471 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
74525518 CATTTGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
74525565 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * * **
74525612 CATTTGCCATTCGGCCTTATCTCATATATACACATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
74525659 CAT
1 CAT
74525662 AAAATCCTAA
Statistics
Matches: 310, Mismatches: 21, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
46 1 0.00
47 309 1.00
ACGTcount: A:0.25, C:0.28, G:0.11, T:0.36
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
Found at i:74529846 original size:62 final size:62
Alignment explanation
Indices: 74529770--74530246 Score: 839
Period size: 62 Copynumber: 7.7 Consensus size: 62
74529760 CAATGTACCT
*
74529770 AATTTATATTACAAAGTTTGTTCTAATTTTTAATGTTGTAATGTATTTAATTTATATAACAA
1 AATTTATATTACAAAGTTTGTTCCAATTTTTAATGTTGTAATGTATTTAATTTATATAACAA
*
74529832 AATTTATATTACAAATTTTGTTCCAATTTTTAATGTTGTAATGTATTTAATTTATATAACAA
1 AATTTATATTACAAAGTTTGTTCCAATTTTTAATGTTGTAATGTATTTAATTTATATAACAA
*
74529894 AATTTATATTACAAATTTTGTTCCAATTTTTAATGTTGTAATGTATTTAATTTATATAACAA
1 AATTTATATTACAAAGTTTGTTCCAATTTTTAATGTTGTAATGTATTTAATTTATATAACAA
* *
74529956 AATTTATGTTACAAAGTTTGTTCCAATTTTTAATGTTATAATGTATTTAATTTATATAACAA
1 AATTTATATTACAAAGTTTGTTCCAATTTTTAATGTTGTAATGTATTTAATTTATATAACAA
*
74530018 AATTTATATTACAAATTTTGTTCCAATTTTTAATGTTGTAATGTATTTAATTTATATAACAA
1 AATTTATATTACAAAGTTTGTTCCAATTTTTAATGTTGTAATGTATTTAATTTATATAACAA
* *
74530080 AATTTATATTACAAATTTTGTTCCAATTTTTAATGTTGTAATGTATTTAATTTATATAAGAA
1 AATTTATATTACAAAGTTTGTTCCAATTTTTAATGTTGTAATGTATTTAATTTATATAACAA
*
74530142 AATTTATATTACAAAGTTTGTTCCAATTTTT-ATGTTGTAATGTATTTAATTTATATTACAA
1 AATTTATATTACAAAGTTTGTTCCAATTTTTAATGTTGTAATGTATTTAATTTATATAACAA
* * *
74530203 AATTTATATTACAAAGTTTGTTCCAAGTTTTAGTGTTTTAATGT
1 AATTTATATTACAAAGTTTGTTCCAATTTTTAATGTTGTAATGT
74530247 TGTAATGCTA
Statistics
Matches: 399, Mismatches: 15, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
61 58 0.15
62 341 0.85
ACGTcount: A:0.36, C:0.06, G:0.08, T:0.50
Consensus pattern (62 bp):
AATTTATATTACAAAGTTTGTTCCAATTTTTAATGTTGTAATGTATTTAATTTATATAACAA
Found at i:74530208 original size:14 final size:14
Alignment explanation
Indices: 74530189--74530217 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
74530179 TAATGTATTT
74530189 AATTTATATTACAA
1 AATTTATATTACAA
74530203 AATTTATATTACAA
1 AATTTATATTACAA
74530217 A
1 A
74530218 GTTTGTTCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (14 bp):
AATTTATATTACAA
Found at i:74532579 original size:20 final size:21
Alignment explanation
Indices: 74532556--74532594 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
74532546 AATTATATTA
*
74532556 AAATAATAAAA-ATAACATGC
1 AAATAAAAAAATATAACATGC
74532576 AAATAAAAAAATATAACAT
1 AAATAAAAAAATATAACAT
74532595 AACATAACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.69, C:0.08, G:0.03, T:0.21
Consensus pattern (21 bp):
AAATAAAAAAATATAACATGC
Found at i:74532905 original size:27 final size:27
Alignment explanation
Indices: 74532875--74532928 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
74532865 CTAATTTATC
*
74532875 TCATAAATTCCA-ACTTAATGGTCTCAT
1 TCATAAATTCCATA-TCAATGGTCTCAT
74532902 TCATAAATTCCATATCAATGGTCTCAT
1 TCATAAATTCCATATCAATGGTCTCAT
74532929 CTTTTACCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 24 0.96
28 1 0.04
ACGTcount: A:0.33, C:0.22, G:0.07, T:0.37
Consensus pattern (27 bp):
TCATAAATTCCATATCAATGGTCTCAT
Found at i:74533450 original size:6 final size:6
Alignment explanation
Indices: 74533409--74533447 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
74533399 TTCCCTTCCC
*
74533409 TCTCCT TCTCCT TCTCCT TCTCCT TCTCCT TCTTCT TCT
1 TCTCCT TCTCCT TCTCCT TCTCCT TCTCCT TCTCCT TCT
74533448 TCTCTTATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.00, C:0.46, G:0.00, T:0.54
Consensus pattern (6 bp):
TCTCCT
Found at i:74543373 original size:22 final size:22
Alignment explanation
Indices: 74543330--74543375 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
74543320 TTCAATTAAT
* *
74543330 ATCAATATATACAATATTTTAG
1 ATCAATATATACAACATATTAG
74543352 ATCAATATATTA-AACATATTAG
1 ATCAATATA-TACAACATATTAG
74543374 AT
1 AT
74543376 TGGTTCGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 19 0.90
23 2 0.10
ACGTcount: A:0.48, C:0.09, G:0.04, T:0.39
Consensus pattern (22 bp):
ATCAATATATACAACATATTAG
Found at i:74553955 original size:26 final size:26
Alignment explanation
Indices: 74553924--74554027 Score: 172
Period size: 26 Copynumber: 4.0 Consensus size: 26
74553914 TGAAATGCCC
*
74553924 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
74553950 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
74553976 ATCATAGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
74554002 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
74554028 GTCAATTTGT
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 71 1.00
ACGTcount: A:0.37, C:0.24, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:74573442 original size:20 final size:20
Alignment explanation
Indices: 74573414--74573456 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
74573404 TTTAACTCGT
*
74573414 TTTATTTTTATTT-TATTTTA
1 TTTACTTTTATTTCTA-TTTA
74573434 TTTACTTTTATTTCTATTTA
1 TTTACTTTTATTTCTATTTA
74573454 TTT
1 TTT
74573457 TTGAAGACTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 19 0.90
21 2 0.10
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.77
Consensus pattern (20 bp):
TTTACTTTTATTTCTATTTA
Found at i:74576993 original size:21 final size:21
Alignment explanation
Indices: 74576967--74577022 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
74576957 AACAGCGGTG
*
74576967 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
*
74576988 GCGGTGAGATTGGATACTGTA
1 GCGGTGAGATTAGATACTGTA
74577009 GCGGTGAGATTAGA
1 GCGGTGAGATTAGA
74577023 AACAGCGGTG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.25, C:0.09, G:0.38, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:74579049 original size:32 final size:32
Alignment explanation
Indices: 74579010--74579297 Score: 459
Period size: 32 Copynumber: 9.0 Consensus size: 32
74579000 CATAAAAAAT
*
74579010 ATCATACATTAGGTTTACATATAAAAAAGTAG
1 ATCATACATTAGTTTTACATATAAAAAAGTAG
*
74579042 ATCATACATTAGTTTTGCATATAAAAAAGTAG
1 ATCATACATTAGTTTTACATATAAAAAAGTAG
* *
74579074 ATCATACATTAGGTTCACATATAAAAAAGTAG
1 ATCATACATTAGTTTTACATATAAAAAAGTAG
*
74579106 ATCATACATTAGTTTTGCATATAAAAAAGTAG
1 ATCATACATTAGTTTTACATATAAAAAAGTAG
* *
74579138 ATCATACATTAGGTTCACATATAAAAAAGTAG
1 ATCATACATTAGTTTTACATATAAAAAAGTAG
*
74579170 ATCATACATTAGTTTTGCATATAAAAAAGTAG
1 ATCATACATTAGTTTTACATATAAAAAAGTAG
* *
74579202 ATCATACATTAGGTTCACATATAAAAAAGTAG
1 ATCATACATTAGTTTTACATATAAAAAAGTAG
* * *
74579234 ATCATACATTAGTTTTGCATTTGAAAAAGTAG
1 ATCATACATTAGTTTTACATATAAAAAAGTAG
74579266 ATCATACATTAGTTTTACATATAAAAAAGTAG
1 ATCATACATTAGTTTTACATATAAAAAAGTAG
74579298 CATAGTTATA
Statistics
Matches: 231, Mismatches: 25, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 231 1.00
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.32
Consensus pattern (32 bp):
ATCATACATTAGTTTTACATATAAAAAAGTAG
Found at i:74579083 original size:64 final size:64
Alignment explanation
Indices: 74579010--74579297 Score: 531
Period size: 64 Copynumber: 4.5 Consensus size: 64
74579000 CATAAAAAAT
*
74579010 ATCATACATTAGGTTTACATATAAAAAAGTAGATCATACATTAGTTTTGCATATAAAAAAGTAG
1 ATCATACATTAGGTTCACATATAAAAAAGTAGATCATACATTAGTTTTGCATATAAAAAAGTAG
74579074 ATCATACATTAGGTTCACATATAAAAAAGTAGATCATACATTAGTTTTGCATATAAAAAAGTAG
1 ATCATACATTAGGTTCACATATAAAAAAGTAGATCATACATTAGTTTTGCATATAAAAAAGTAG
74579138 ATCATACATTAGGTTCACATATAAAAAAGTAGATCATACATTAGTTTTGCATATAAAAAAGTAG
1 ATCATACATTAGGTTCACATATAAAAAAGTAGATCATACATTAGTTTTGCATATAAAAAAGTAG
* *
74579202 ATCATACATTAGGTTCACATATAAAAAAGTAGATCATACATTAGTTTTGCATTTGAAAAAGTAG
1 ATCATACATTAGGTTCACATATAAAAAAGTAGATCATACATTAGTTTTGCATATAAAAAAGTAG
* *
74579266 ATCATACATTAGTTTTACATATAAAAAAGTAG
1 ATCATACATTAGGTTCACATATAAAAAAGTAG
74579298 CATAGTTATA
Statistics
Matches: 219, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 219 1.00
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.32
Consensus pattern (64 bp):
ATCATACATTAGGTTCACATATAAAAAAGTAGATCATACATTAGTTTTGCATATAAAAAAGTAG
Found at i:74582768 original size:10 final size:10
Alignment explanation
Indices: 74582753--74582780 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
74582743 ATATATTCCT
74582753 ATGAGCTAAA
1 ATGAGCTAAA
74582763 ATGAGCTAAA
1 ATGAGCTAAA
74582773 ATGAGCTA
1 ATGAGCTA
74582781 CAAACAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.46, C:0.11, G:0.21, T:0.21
Consensus pattern (10 bp):
ATGAGCTAAA
Found at i:74583800 original size:19 final size:19
Alignment explanation
Indices: 74583776--74583814 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
74583766 TCATTTACAT
74583776 ACATTTGGGTGCCTACCAA
1 ACATTTGGGTGCCTACCAA
74583795 ACATTTGGGTGCCTACCAA
1 ACATTTGGGTGCCTACCAA
74583814 A
1 A
74583815 GGTTGAACCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.26
Consensus pattern (19 bp):
ACATTTGGGTGCCTACCAA
Found at i:74589472 original size:27 final size:27
Alignment explanation
Indices: 74589427--74589702 Score: 170
Period size: 27 Copynumber: 10.2 Consensus size: 27
74589417 CAAAACAGTC
* * * * *
74589427 ATTTTACCCTACAGGGGTATGTCGGTC
1 ATTTTACACTACAAGGGTATTTCGATA
* *
74589454 ATTTTACACTACAAAGGTATTTTGATA
1 ATTTTACACTACAAGGGTATTTCGATA
74589481 ATTTTACACTACAAGGGTATTTCGATA
1 ATTTTACACTACAAGGGTATTTCGATA
* ** * *
74589508 ATTTTACA-AATCGGGGGTGTTTCGGTA
1 ATTTTACACTA-CAAGGGTATTTCGATA
* *
74589535 ATTTTACA-AATCGAGGGTATTTCGATA
1 ATTTTACACTA-CAAGGGTATTTCGATA
* *
74589562 ATTTTACAAATA-GAGGGTATTTCGATA
1 ATTTTAC-ACTACAAGGGTATTTCGATA
* *
74589589 ATTTTACA-AATCAAGGGTGTTTCGATA
1 ATTTTACACTA-CAAGGGTATTTCGATA
* * * *
74589616 ATTTTATA-AATTAAGGGTATTTCGGTA
1 ATTTTACACTA-CAAGGGTATTTCGATA
* ** **
74589643 ATTTTACAAATA-GGGGGTGCTTCGATA
1 ATTTTAC-ACTACAAGGGTATTTCGATA
* * *
74589670 ATTTTACA-AACTAGGGGTACTTCGATA
1 ATTTTACACTAC-AAGGGTATTTCGATA
74589697 ATTTTA
1 ATTTTA
74589703 TAAATCGGGG
Statistics
Matches: 205, Mismatches: 35, Indels: 18
0.79 0.14 0.07
Matches are distributed among these distances:
25 2 0.01
26 3 0.01
27 196 0.96
28 2 0.01
29 2 0.01
ACGTcount: A:0.31, C:0.12, G:0.20, T:0.38
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATTTCGATA
Found at i:74589554 original size:81 final size:81
Alignment explanation
Indices: 74589469--74589727 Score: 324
Period size: 81 Copynumber: 3.2 Consensus size: 81
74589459 ACACTACAAA
* * * * *
74589469 GGTATTTTGATAATTTTAC-ACTACAAGGGTATTTCGATAATTTTACAAATCGGGGGTGTTTCGG
1 GGTATTTCGATAATTTTACAAATA-GAGGGTATTTCGATAATTTTACAAATCAGGGGTGTTTCGA
*
74589533 TAATTTTACAAATCGAG
65 TAATTTTATAAATCGAG
*
74589550 GGTATTTCGATAATTTTACAAATAGAGGGTATTTCGATAATTTTACAAATCAAGGGTGTTTCGAT
1 GGTATTTCGATAATTTTACAAATAGAGGGTATTTCGATAATTTTACAAATCAGGGGTGTTTCGAT
**
74589615 AATTTTATAAATTAAG
66 AATTTTATAAATCGAG
* * ** **
74589631 GGTATTTCGGTAATTTTACAAATAGGGGGTGCTTCGATAATTTTACAAA-CTAGGGGTACTTCGA
1 GGTATTTCGATAATTTTACAAATAGAGGGTATTTCGATAATTTTACAAATC-AGGGGTGTTTCGA
*
74589695 TAATTTTATAAATCGGG
65 TAATTTTATAAATCGAG
* *
74589712 GGTATTTTGGTAATTT
1 GGTATTTCGATAATTT
74589728 CTCTTTATTA
Statistics
Matches: 156, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
80 1 0.01
81 152 0.97
82 3 0.02
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (81 bp):
GGTATTTCGATAATTTTACAAATAGAGGGTATTTCGATAATTTTACAAATCAGGGGTGTTTCGAT
AATTTTATAAATCGAG
Found at i:74589713 original size:27 final size:27
Alignment explanation
Indices: 74589469--74589727 Score: 279
Period size: 27 Copynumber: 9.6 Consensus size: 27
74589459 ACACTACAAA
* * *
74589469 GGTATTTTGATAATTTTAC-ACTACAAG
1 GGTATTTCGATAATTTTACAAAT-CGAG
*
74589496 GGTATTTCGATAATTTTACAAATCGGG
1 GGTATTTCGATAATTTTACAAATCGAG
* *
74589523 GGTGTTTCGGTAATTTTACAAATCGAG
1 GGTATTTCGATAATTTTACAAATCGAG
*
74589550 GGTATTTCGATAATTTTACAAATAGAG
1 GGTATTTCGATAATTTTACAAATCGAG
*
74589577 GGTATTTCGATAATTTTACAAATCAAG
1 GGTATTTCGATAATTTTACAAATCGAG
* * **
74589604 GGTGTTTCGATAATTTTATAAATTAAG
1 GGTATTTCGATAATTTTACAAATCGAG
* * *
74589631 GGTATTTCGGTAATTTTACAAATAGGG
1 GGTATTTCGATAATTTTACAAATCGAG
** *
74589658 GGTGCTTCGATAATTTTACAAA-CTAGG
1 GGTATTTCGATAATTTTACAAATCGA-G
* * *
74589685 GGTACTTCGATAATTTTATAAATCGGG
1 GGTATTTCGATAATTTTACAAATCGAG
* *
74589712 GGTATTTTGGTAATTT
1 GGTATTTCGATAATTT
74589728 CTCTTTATTA
Statistics
Matches: 195, Mismatches: 34, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
27 192 0.98
28 3 0.02
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (27 bp):
GGTATTTCGATAATTTTACAAATCGAG
Found at i:74590088 original size:28 final size:28
Alignment explanation
Indices: 74590044--74590135 Score: 103
Period size: 28 Copynumber: 3.3 Consensus size: 28
74590034 TGGCCTTTTT
* * * **
74590044 AGGCCCAATCTCGTTCACATGGCTTATC
1 AGGCCCAATCACATTCATATGGCCCATC
* *
74590072 AGGCCCAATCACATTCATATAGCCCAAC
1 AGGCCCAATCACATTCATATGGCCCATC
* *
74590100 CGGCCCAACCACATTCATATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
74590128 AGGCCCAA
1 AGGCCCAA
74590136 CTACTTTCCA
Statistics
Matches: 52, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 52 1.00
ACGTcount: A:0.28, C:0.37, G:0.15, T:0.20
Consensus pattern (28 bp):
AGGCCCAATCACATTCATATGGCCCATC
Found at i:74592312 original size:47 final size:47
Alignment explanation
Indices: 74592255--74592473 Score: 175
Period size: 46 Copynumber: 4.7 Consensus size: 47
74592245 TGTAAGACCC
*
74592255 TGTCCTAGACACGGTCTTACACTGGCTCAT-ATCTC-AAGTCGATGCCA
1 TGTCCCAGACA-GGTCTTACACTGGCTCATCATCTCGAAGTCGATG-CA
* *
74592302 TGTCCCAGACATGGTCTTACACTGACT-ATCATCTCGTAGTCGATGCA
1 TGTCCCAGACA-GGTCTTACACTGGCTCATCATCTCGAAGTCGATGCA
* * * * * *
74592349 TGTCCAAGACATGTCTTACACTGGCTTA-CGTCTCGAGGCCGATGCA
1 TGTCCCAGACAGGTCTTACACTGGCTCATCATCTCGAAGTCGATGCA
** * * *
74592395 TGTCCCAGACATATCTTACACTAGC-CCTCATCTC-AA-TACTGACGCCA
1 TGTCCCAGACAGGTCTTACACTGGCTCATCATCTCGAAGT-C-GATG-CA
* *
74592442 TGTCCCAAACATGGTCTTACACTGACTC-TCAT
1 TGTCCCAGACA-GGTCTTACACTGGCTCATCAT
74592474 AATGTGGCCG
Statistics
Matches: 138, Mismatches: 25, Indels: 17
0.77 0.14 0.09
Matches are distributed among these distances:
45 2 0.01
46 59 0.43
47 54 0.39
48 22 0.16
49 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.17, T:0.28
Consensus pattern (47 bp):
TGTCCCAGACAGGTCTTACACTGGCTCATCATCTCGAAGTCGATGCA
Found at i:74596153 original size:27 final size:28
Alignment explanation
Indices: 74596073--74596182 Score: 106
Period size: 27 Copynumber: 4.1 Consensus size: 28
74596063 AGCATGGCTG
* *
74596073 CCAGAACAGAT-A-ATGTGACAGAGTCA
1 CCAGAACAGATAATATGTGGCAGAGCCA
* *
74596099 CCAGATATAGATAATCA--TGGTAGAGCCA
1 CCAGA-ACAGATAAT-ATGTGGCAGAGCCA
74596127 CCAGAACAGA-AATATGTGGCAGAGCCA
1 CCAGAACAGATAATATGTGGCAGAGCCA
* *
74596154 CCAGATCAGATAAT-TGTGGCATAGCCA
1 CCAGAACAGATAATATGTGGCAGAGCCA
74596181 CC
1 CC
74596183 GGGACGCTTC
Statistics
Matches: 69, Mismatches: 8, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
25 1 0.01
26 8 0.12
27 42 0.61
28 17 0.25
30 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.17
Consensus pattern (28 bp):
CCAGAACAGATAATATGTGGCAGAGCCA
Found at i:74596180 original size:54 final size:54
Alignment explanation
Indices: 74596073--74596182 Score: 132
Period size: 54 Copynumber: 2.0 Consensus size: 54
74596063 AGCATGGCTG
* * * *
74596073 CCAGAACAGATAATGTGACAGAGTCACCAGATATAGATAATCATGGTAGAGCCA
1 CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCATGGCAGAGCCA
* ** *
74596127 CCAGAACAGAAATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGAAA-ATGTGACAGAGCCACCAGATACAGATAATCATGGCAGAGCCA
74596181 CC
1 CC
74596183 GGGACGCTTC
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
54 29 0.62
55 18 0.38
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCATGGCAGAGCCA
Found at i:74597639 original size:24 final size:24
Alignment explanation
Indices: 74597607--74597680 Score: 121
Period size: 24 Copynumber: 3.1 Consensus size: 24
74597597 ACACAGTTCA
74597607 CCCTAATCAGCTCCTAAATCCTCT
1 CCCTAATCAGCTCCTAAATCCTCT
*
74597631 CCCTGATCAGCTCCTAAATCCTCT
1 CCCTAATCAGCTCCTAAATCCTCT
* *
74597655 CCCTTATCAGCTCCTAAATCTTCT
1 CCCTAATCAGCTCCTAAATCCTCT
74597679 CC
1 CC
74597681 AGACAGACTT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.22, C:0.42, G:0.05, T:0.31
Consensus pattern (24 bp):
CCCTAATCAGCTCCTAAATCCTCT
Found at i:74604802 original size:25 final size:25
Alignment explanation
Indices: 74604774--74604824 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
74604764 CTGTATATGT
74604774 ATGCTCACACGAGCTGTGAATCAAA
1 ATGCTCACACGAGCTGTGAATCAAA
* * *
74604799 ATGCTTACATGAGCTGTGAGTCAAA
1 ATGCTCACACGAGCTGTGAATCAAA
74604824 A
1 A
74604825 CGTAGCTACA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.24
Consensus pattern (25 bp):
ATGCTCACACGAGCTGTGAATCAAA
Found at i:74606288 original size:22 final size:22
Alignment explanation
Indices: 74606263--74606306 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
74606253 GGGAGGTAAC
74606263 AATTGGTTAATCGATAGCTAAT
1 AATTGGTTAATCGATAGCTAAT
*
74606285 AATTGGTTAATCGGTAGCTAAT
1 AATTGGTTAATCGATAGCTAAT
74606307 CCTGCTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.34, C:0.09, G:0.20, T:0.36
Consensus pattern (22 bp):
AATTGGTTAATCGATAGCTAAT
Found at i:74616610 original size:26 final size:26
Alignment explanation
Indices: 74616574--74616626 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
74616564 AATTCAGTTC
74616574 AGCAGACTTTCAGATCTTTTTGACTG
1 AGCAGACTTTCAGATCTTTTTGACTG
*
74616600 AGCAGGCTTTCAGATCTTTTTGACTG
1 AGCAGACTTTCAGATCTTTTTGACTG
74616626 A
1 A
74616627 TGTGTTCCTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.38
Consensus pattern (26 bp):
AGCAGACTTTCAGATCTTTTTGACTG
Found at i:74617863 original size:40 final size:40
Alignment explanation
Indices: 74617819--74618007 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
74617809 TCATTTATAT
* *
74617819 ATATGTGCCCCTGTTTGTACTTCGGTACCCTTGAATGCAC
1 ATATGTGCCCCTGTTTGTACTTCGGTACCCCTAAATGCAC
* * *
74617859 ATATGTACCCCTGTTTGTACTTCGATACCCCTAAATGTAC
1 ATATGTGCCCCTGTTTGTACTTCGGTACCCCTAAATGCAC
* * * * * * *
74617899 ACATGTGCCTCTGCTTGTACTTTGGCACCTCTAAACGCAC
1 ATATGTGCCCCTGTTTGTACTTCGGTACCCCTAAATGCAC
** *
74617939 ATACATGCCCCTATTTGTACTTCGGTACCCCTAAATGCAC
1 ATATGTGCCCCTGTTTGTACTTCGGTACCCCTAAATGCAC
** * *
74617979 ATACATGCCCCTATTTGTATTTCGGTACC
1 ATATGTGCCCCTGTTTGTACTTCGGTACC
74618008 TCTGAAAGCA
Statistics
Matches: 123, Mismatches: 26, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 123 1.00
ACGTcount: A:0.22, C:0.30, G:0.15, T:0.33
Consensus pattern (40 bp):
ATATGTGCCCCTGTTTGTACTTCGGTACCCCTAAATGCAC
Found at i:74644381 original size:42 final size:42
Alignment explanation
Indices: 74644266--74644498 Score: 337
Period size: 42 Copynumber: 5.6 Consensus size: 42
74644256 CCTACGGAAC
*
74644266 TTTAAGCCCGGATATATATATTAATAG-ACGAAGCCTGCGGGA
1 TTTAA-CCCGGATATATATATTACTAGCACGAAGCCTGCGGGA
* * *
74644308 TTTAACCCGG--ATATATATTACCAGCACGAAGCCTTCAGGA
1 TTTAACCCGGATATATATATTACTAGCACGAAGCCTGCGGGA
*
74644348 TTTAACCCGGATATATATATTACTAGCATGAAGCCTGCGGGA
1 TTTAACCCGGATATATATATTACTAGCACGAAGCCTGCGGGA
* **
74644390 TTTAACCCGGATATATATATTACTAGCACGAAGCTTGCGAAA
1 TTTAACCCGGATATATATATTACTAGCACGAAGCCTGCGGGA
* *
74644432 TTTAAACCGGATATATATATTACCAGCACGAAGCCTGCGGGA
1 TTTAACCCGGATATATATATTACTAGCACGAAGCCTGCGGGA
*
74644474 TTTAACCCAGATATATATATTACTA
1 TTTAACCCGGATATATATATTACTA
74644499 TATATCGACT
Statistics
Matches: 168, Mismatches: 20, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
39 12 0.07
40 23 0.14
41 5 0.03
42 128 0.76
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (42 bp):
TTTAACCCGGATATATATATTACTAGCACGAAGCCTGCGGGA
Found at i:74654936 original size:41 final size:40
Alignment explanation
Indices: 74654885--74654964 Score: 106
Period size: 41 Copynumber: 2.0 Consensus size: 40
74654875 GAGGCGTGAT
* **
74654885 TTCGTGTAAGACCATGTCTAGGACATTGGCATCGTATATGA
1 TTCGTATAAGACCATGTCTAGGACAGAGGCATCG-ATATGA
* *
74654926 TTCGTATAAGACCCTGTCTGGGACAGAGGCATCGATATG
1 TTCGTATAAGACCATGTCTAGGACAGAGGCATCGATATG
74654965 TGATAGCATG
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
40 5 0.15
41 29 0.85
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (40 bp):
TTCGTATAAGACCATGTCTAGGACAGAGGCATCGATATGA
Found at i:74667361 original size:42 final size:41
Alignment explanation
Indices: 74667232--74667383 Score: 155
Period size: 42 Copynumber: 3.6 Consensus size: 41
74667222 TTCCCAAACG
* *
74667232 TGGTCTTACATGCAATCACATATCGATG-CCACTGTCCTAGACA
1 TGGTCTTACACG-AATCACATATCGATGTCAAC-GTCC-AGACA
* * * **
74667275 GGGTCTTACACGGATCAAATAT-GATGTCAATATCCCAGACA
1 TGGTCTTACACGAATCACATATCGATGTCAACGT-CCAGACA
74667316 TGGTCTTACACGTAATCACATATCGATGTCAACGTCCAGACA
1 TGGTCTTACACG-AATCACATATCGATGTCAACGTCCAGACA
* *
74667358 TGGTCTTACATGAGAACACATATCGA
1 TGGTCTTACACGA-ATCACATATCGA
74667384 AAATCCTATG
Statistics
Matches: 90, Mismatches: 14, Indels: 11
0.78 0.12 0.10
Matches are distributed among these distances:
41 22 0.24
42 49 0.54
43 19 0.21
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (41 bp):
TGGTCTTACACGAATCACATATCGATGTCAACGTCCAGACA
Found at i:74674025 original size:25 final size:25
Alignment explanation
Indices: 74673997--74674046 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
74673987 CATTTTATAA
74673997 CATCTCCTAATATTCATGAACTAGT
1 CATCTCCTAATATTCATGAACTAGT
74674022 CATCTCCTAATATTCATGAACTAGT
1 CATCTCCTAATATTCATGAACTAGT
74674047 TAAATTTCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.32, C:0.24, G:0.08, T:0.36
Consensus pattern (25 bp):
CATCTCCTAATATTCATGAACTAGT
Found at i:74675649 original size:23 final size:21
Alignment explanation
Indices: 74675623--74675665 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
74675613 ATGTTACAAA
*
74675623 ATAATAACATTAATAGTTAAATT
1 ATAATAA-ATTAA-AATTAAATT
74675646 ATAATAAATTAAAATTAAAT
1 ATAATAAATTAAAATTAAAT
74675666 AACCAAAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 5 0.26
23 7 0.37
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.37
Consensus pattern (21 bp):
ATAATAAATTAAAATTAAATT
Found at i:74682831 original size:22 final size:22
Alignment explanation
Indices: 74682803--74682844 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
74682793 GCTGACCTAT
*
74682803 ACGAACGGGCTCATAAGTTCTC
1 ACGAACGGACTCATAAGTTCTC
74682825 ACGAACGGACTCATAAGTTC
1 ACGAACGGACTCATAAGTTC
74682845 GTAGAGGCAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.21
Consensus pattern (22 bp):
ACGAACGGACTCATAAGTTCTC
Found at i:74687675 original size:50 final size:50
Alignment explanation
Indices: 74687600--74687837 Score: 298
Period size: 50 Copynumber: 4.7 Consensus size: 50
74687590 ACCGAAGCTC
* *
74687600 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAA
* * * * *
74687650 TCTGGTATACGTAGTAGCCTGCACTTAGTACTATACACGTGACCTAACCA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAA
* * * * *
74687700 TCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGTGATCGAAGCTA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTAA-CAA
* * *
74687751 T-TGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCAACCTAACAA
1 TCT-GGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAA
* *
74687801 TCTGGTACACGTAGTAGCCTGCACTCAGTAATACACA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACA
74687838 CGTGACTTAA
Statistics
Matches: 159, Mismatches: 26, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
50 118 0.74
51 41 0.26
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (50 bp):
TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAA
Found at i:74687797 original size:101 final size:100
Alignment explanation
Indices: 74687611--74687843 Score: 299
Period size: 101 Copynumber: 2.3 Consensus size: 100
74687601 CTGGTACGCA
* *
74687611 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTATACGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCGAACAATCTGGTATACGTAGTAGCCTGCACTT
* ** *
74687676 AGTACTATACACGTGACCTAACCATCTGATACACG
66 AGTACTACACACGCAACCTAACAATCTGATACACG
* * *
74687711 TAGTAGCCTGCACTTAGTACTACACATGTGATCGAAGCTAT-TGG-GTACGCATAGTAGCCTGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCGAA-CAATCTGGTATACG--TAGTAGCCTGCA
* *
74687774 CTTAGTACTACACATGCAACCTAACAATCTGGTACACG
63 CTTAGTACTACACACGCAACCTAACAATCTGATACACG
* * *
74687812 TAGTAGCCTGCACTCAGTAATACACACGTGAC
1 TAGTAGCCTGCACTTAGTACTACACATGTGAC
74687844 TTAAAACCGT
Statistics
Matches: 115, Mismatches: 15, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
99 4 0.03
100 36 0.31
101 75 0.65
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.25
Consensus pattern (100 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCGAACAATCTGGTATACGTAGTAGCCTGCACTT
AGTACTACACACGCAACCTAACAATCTGATACACG
Found at i:74691684 original size:69 final size:68
Alignment explanation
Indices: 74691565--74692409 Score: 600
Period size: 69 Copynumber: 12.2 Consensus size: 68
74691555 AATTATCATT
* * * *
74691565 TGTAAAATCAAGGTTCGCAGGCAAAGAGCCGTGGCCTCCAACACAGTTAGCGAGAGCAAAGCTCC
1 TGTAAAATCGAGGTTCGCAGGCAAAGAG-CGTGACCTCTAACACAGTTAGCGAGAACAAAGCTCC
*
74691630 CAAC
65 CAGC
* * * * * **
74691634 TATAAAATCAAGGTTCGCAGGCGAAGAGTCGTGACCTCTAACATAATTAGCGAGAGTAAAGCTCC
1 TGTAAAATCGAGGTTCGCAGGCAAAGAG-CGTGACCTCTAACACAGTTAGCGAGAACAAAGCTCC
*
74691699 CAAC
65 CAGC
* * * *
74691703 TGTAAAATCGAGGTTCGCAGGCAAAGAGCTATGATCTCCAACACAGTTAGCGAGAACAAAGCTCT
1 TGTAAAATCGAGGTTCGCAGGCAAAGAGC-GTGACCTCTAACACAGTTAGCGAGAACAAAGCTCC
74691768 CAGC
65 CAGC
* * * * * * * *
74691772 TGTAAAATCGATGTTCGTAGGAAAAGAGCTGCGATCTCCAACACAGTTAGTGAGAACAAAGCTCT
1 TGTAAAATCGAGGTTCGCAGGCAAAGAGC-GTGACCTCTAACACAGTTAGCGAGAACAAAGCTCC
74691837 CAGC
65 CAGC
* * * * * * * *
74691841 TGTAAAATCGATGTTCGTAGGAAAAGAGCTGCGATCTCCAACACAGTTAGTGAGAACAAAGCTCT
1 TGTAAAATCGAGGTTCGCAGGCAAAGAGC-GTGACCTCTAACACAGTTAGCGAGAACAAAGCTCC
74691906 CAGC
65 CAGC
* * * * * * * *
74691910 TGTAAAATCGATGTTCGTAGGAAAAGAGCTGCGATCTCCAACACAGTTAGTGAGAACAAAGCTCT
1 TGTAAAATCGAGGTTCGCAGGCAAAGAGC-GTGACCTCTAACACAGTTAGCGAGAACAAAGCTCC
74691975 CAGC
65 CAGC
* * * * * * *
74691979 TGTAAAATCGATGTTCGTAAGAAAAGAGTTGTGATCTCTAACACAGTTAGCGAGAACAAAGCTCT
1 TGTAAAATCGAGGTTCGCAGGCAAAGAG-CGTGACCTCTAACACAGTTAGCGAGAACAAAGCTCC
*
74692044 CAGT
65 CAGC
* * * * * * *
74692048 TGTAAAATCGAGGATCGTAGGCGAAGAGCCTTGACATCTAACATAGTTAGC-AAAAGCAAAGCTC
1 TGTAAAATCGAGGTTCGCAGGCAAAGAG-CGTGACCTCTAACACAGTTAGCGAGAA-CAAAGCTC
74692112 CCAGC
64 CCAGC
* * * * * * * * *
74692117 TATAAAATTGAGGTTTGCAGGCGAAGAGTTGTGACCTCTAACATATTTAACGAGAGCAAATG-TC
1 TGTAAAATCGAGGTTCGCAGGCAAAGAG-CGTGACCTCTAACACAGTTAGCGAGAACAAA-GCTC
**
74692181 CCAAA
64 CCAGC
* ** * *** * * *
74692186 TATAAAATTAAGGCTT-GCAAGCAAAGAGCCACAACAT-TCAACACAGTTAGCGAGAGCGAAGCT
1 TGTAAAATCGAGG-TTCGCAGGCAAAGAG-CGTGACCTCT-AACACAGTTAGCGAGAACAAAGCT
*
74692249 CCCAAC
63 CCCAGC
* * * * * * * *
74692255 TGTAAAATCAAGGTTCGCAGGCGAAGAGCCATAACCTCAAACATAATTAGCAAGAACAAAGCTCC
1 TGTAAAATCGAGGTTCGCAGGCAAAGAG-CGTGACCTCTAACACAGTTAGCGAGAACAAAGCTCC
* *
74692320 TAGT
65 CAGC
* * * * * * ** * **
74692324 TGTAAAATCAAGGTTTGTAGGCGAAGAGTCGCGACCTCTAACATAACTAGAGAGAGTAAAGCTCC
1 TGTAAAATCGAGGTTCGCAGGCAAAGAG-CGTGACCTCTAACACAGTTAGCGAGAACAAAGCTCC
*
74692389 CAAC
65 CAGC
* *
74692393 TGTAAAACCAAGGTTCG
1 TGTAAAATCGAGGTTCG
74692410 TATATAAAAA
Statistics
Matches: 659, Mismatches: 107, Indels: 20
0.84 0.14 0.03
Matches are distributed among these distances:
68 8 0.01
69 646 0.98
70 5 0.01
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.20
Consensus pattern (68 bp):
TGTAAAATCGAGGTTCGCAGGCAAAGAGCGTGACCTCTAACACAGTTAGCGAGAACAAAGCTCCC
AGC
Found at i:74692110 original size:207 final size:205
Alignment explanation
Indices: 74691600--74692137 Score: 675
Period size: 207 Copynumber: 2.6 Consensus size: 205
74691590 GAGCCGTGGC
* * * * * *
74691600 CTCCAACACAGTTAGCGAGAGCAAAGCTCCCAACTATAAAATCAAGGTTCGCAGGCGAAGAGTCG
1 CTCCAACACAGTTAGCGAGAACAAAGCTCTCAGCTGTAAAATCGAGGTTCGTAGGCGAAGAG-C-
* * * * * * *
74691665 TGACCTCTAACATAATTAGCGAGAGTAAAGCTCCCAACTGTAAAATCGAGGTTCGCAGGCAAAGA
64 TGACATCTAACATAGTTAGCAAAAGCAAAGCTCCCAGCTGTAAAATCGAGGTTCGCAGGAAAAGA
* *
74691730 GCTATGATCTCCAACACAGTTAGCGAGAACAAAGCTCTCAGCTGTAAAATCGATGTTCGTAGGAA
129 GCTACGATCTCCAACACAGTTAGCGAGAACAAAGCTCTCAGCTGTAAAATCGATGTTCGTAAGAA
74691795 AAGAGCTGCGAT
194 AAGAGCTGCGAT
* * **
74691807 CTCCAACACAGTTAGTGAGAACAAAGCTCTCAGCTGTAAAATCGATGTTCGTAGGAAAAGAGCTG
1 CTCCAACACAGTTAGCGAGAACAAAGCTCTCAGCTGTAAAATCGAGGTTCGTAGGCGAAGAGCTG
* * * * * *
74691872 -CGATCTCCAACACAGTTAGTGAGAA-CAAAGCTCTCAGCTGTAAAATCGATGTTCGTAGGAAAA
66 AC-ATCT--AACATAGTTAG-CAAAAGCAAAGCTCCCAGCTGTAAAATCGAGGTTCGCAGGAAAA
* *
74691935 GAGCTGCGATCTCCAACACAGTTAGTGAGAACAAAGCTCTCAGCTGTAAAATCGATGTTCGTAAG
127 GAGCTACGATCTCCAACACAGTTAGCGAGAACAAAGCTCTCAGCTGTAAAATCGATGTTCGTAAG
* *
74692000 AAAAGAGTTGTGAT
192 AAAAGAGCTGCGAT
* * *
74692014 CTCTAACACAGTTAGCGAGAACAAAGCTCTCAGTTGTAAAATCGAGGATCGTAGGCGAAGAGCCT
1 CTCCAACACAGTTAGCGAGAACAAAGCTCTCAGCTGTAAAATCGAGGTTCGTAGGCGAAGAG-C-
* * *
74692079 TGACATCTAACATAGTTAGCAAAAGCAAAGCTCCCAGCTATAAAATTGAGGTTTGCAGG
64 TGACATCTAACATAGTTAGCAAAAGCAAAGCTCCCAGCTGTAAAATCGAGGTTCGCAGG
74692138 CGAAGAGTTG
Statistics
Matches: 278, Mismatches: 45, Indels: 16
0.82 0.13 0.05
Matches are distributed among these distances:
204 1 0.00
205 5 0.02
206 4 0.01
207 259 0.93
208 2 0.01
209 6 0.02
210 1 0.00
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (205 bp):
CTCCAACACAGTTAGCGAGAACAAAGCTCTCAGCTGTAAAATCGAGGTTCGTAGGCGAAGAGCTG
ACATCTAACATAGTTAGCAAAAGCAAAGCTCCCAGCTGTAAAATCGAGGTTCGCAGGAAAAGAGC
TACGATCTCCAACACAGTTAGCGAGAACAAAGCTCTCAGCTGTAAAATCGATGTTCGTAAGAAAA
GAGCTGCGAT
Found at i:74695674 original size:42 final size:42
Alignment explanation
Indices: 74695615--74695699 Score: 143
Period size: 42 Copynumber: 2.0 Consensus size: 42
74695605 TCAATGTATA
* *
74695615 AAGATAGATTATGCAAAATAAAGAAAGTCATAAGAGGGAAAG
1 AAGATAGAATATGCAAAATAAAGAAAATCATAAGAGGGAAAG
*
74695657 AAGATAGAATATTCAAAATAAAGAAAATCATAAGAGGGAAAG
1 AAGATAGAATATGCAAAATAAAGAAAATCATAAGAGGGAAAG
74695699 A
1 A
74695700 GGTGAAACTC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.58, C:0.05, G:0.21, T:0.16
Consensus pattern (42 bp):
AAGATAGAATATGCAAAATAAAGAAAATCATAAGAGGGAAAG
Found at i:74696033 original size:6 final size:6
Alignment explanation
Indices: 74696029--74696062 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
74696019 AATTGAAATG
*
74696029 AAAATA AAAAGA AAAAGA AAAAGA AAAAGA AAAA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAA
74696063 TAGAGATAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.03
Consensus pattern (6 bp):
AAAAGA
Found at i:74696050 original size:18 final size:18
Alignment explanation
Indices: 74696029--74696082 Score: 63
Period size: 18 Copynumber: 3.0 Consensus size: 18
74696019 AATTGAAATG
74696029 AAAATAAAAAGAAAAAGA
1 AAAATAAAAAGAAAAAGA
* *
74696047 AAAAGAAAAAGAAAAATA
1 AAAATAAAAAGAAAAAGA
* * *
74696065 GAGATAAAAATAAAAAGA
1 AAAATAAAAAGAAAAAGA
74696083 TAGGAGAATT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.80, C:0.00, G:0.13, T:0.07
Consensus pattern (18 bp):
AAAATAAAAAGAAAAAGA
Found at i:74696077 original size:6 final size:6
Alignment explanation
Indices: 74696024--74696080 Score: 51
Period size: 6 Copynumber: 9.5 Consensus size: 6
74696014 AATAAAATTG
* * * * * * *
74696024 AAATGA AAATAA AAAGAA AAAGAA AAAGAA AAAGAA AAATAG AGATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
74696072 AAATAA AAA
1 AAATAA AAA
74696081 GATAGGAGAA
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 44 1.00
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.09
Consensus pattern (6 bp):
AAATAA
Found at i:74705305 original size:47 final size:47
Alignment explanation
Indices: 74705251--74705347 Score: 185
Period size: 47 Copynumber: 2.1 Consensus size: 47
74705241 GTTTTAATAT
74705251 CCCAGGATACTGATTCAAGATAAGCTCTTATTCAGAGGAGAAATAGA
1 CCCAGGATACTGATTCAAGATAAGCTCTTATTCAGAGGAGAAATAGA
*
74705298 CCCAGGATACTGATTCAAGATAAGCTCTTATTGAGAGGAGAAATAGA
1 CCCAGGATACTGATTCAAGATAAGCTCTTATTCAGAGGAGAAATAGA
74705345 CCC
1 CCC
74705348 TGTTTAAAAG
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.23
Consensus pattern (47 bp):
CCCAGGATACTGATTCAAGATAAGCTCTTATTCAGAGGAGAAATAGA
Found at i:74712165 original size:28 final size:28
Alignment explanation
Indices: 74712125--74712180 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
74712115 TTCTAGTTAG
74712125 GCAATTTTTCAATTCAATCTCGATTCTA
1 GCAATTTTTCAATTCAATCTCGATTCTA
74712153 GCAATTTTTCAATTCAATCTCGATTCTA
1 GCAATTTTTCAATTCAATCTCGATTCTA
74712181 ACCCTTTCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.29, C:0.21, G:0.07, T:0.43
Consensus pattern (28 bp):
GCAATTTTTCAATTCAATCTCGATTCTA
Found at i:74714732 original size:23 final size:23
Alignment explanation
Indices: 74714706--74714751 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
74714696 AGCATACAAG
74714706 TAAAGCACATCAACATTAATCAC
1 TAAAGCACATCAACATTAATCAC
74714729 TAAAGCACATCAACATTAATCAC
1 TAAAGCACATCAACATTAATCAC
74714752 ATTACATGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.48, C:0.26, G:0.04, T:0.22
Consensus pattern (23 bp):
TAAAGCACATCAACATTAATCAC
Found at i:74715129 original size:20 final size:20
Alignment explanation
Indices: 74715101--74715144 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
74715091 GCCCATGTAC
* *
74715101 TCATAAAATTTTAGAATTTT
1 TCATAAAATTTTACAACTTT
*
74715121 TCATCAAATTTTACAACTTT
1 TCATAAAATTTTACAACTTT
74715141 TCAT
1 TCAT
74715145 TTTAGTCTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.36, C:0.14, G:0.02, T:0.48
Consensus pattern (20 bp):
TCATAAAATTTTACAACTTT
Found at i:74725477 original size:15 final size:16
Alignment explanation
Indices: 74725457--74725488 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
74725447 AAAACAATAA
74725457 TAGCGGTTTCGG-CGG
1 TAGCGGTTTCGGACGG
74725472 TAGCGGTTTCGGACGG
1 TAGCGGTTTCGGACGG
74725488 T
1 T
74725489 GCCGCTACCG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.09, C:0.19, G:0.44, T:0.28
Consensus pattern (16 bp):
TAGCGGTTTCGGACGG
Found at i:74728860 original size:17 final size:18
Alignment explanation
Indices: 74728833--74728866 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
74728823 TATATTTAAA
74728833 TAAATAAATAAATTAGAT
1 TAAATAAATAAATTAGAT
74728851 TAAA-AAATAAATTAGA
1 TAAATAAATAAATTAGA
74728867 CATTTTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (18 bp):
TAAATAAATAAATTAGAT
Found at i:74731655 original size:21 final size:21
Alignment explanation
Indices: 74731631--74731694 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
74731621 ACGAAAACCC
74731631 ATAAGGGTTAAATGGAAGCTT
1 ATAAGGGTTAAATGGAAGCTT
* * * * **
74731652 ATAAGAGCTGAATGGAAACCC
1 ATAAGGGTTAAATGGAAGCTT
74731673 ATAAGGGTTAAAAT-GAAGCTT
1 ATAAGGGTT-AAATGGAAGCTT
74731694 A
1 A
74731695 GAAGAGCTAA
Statistics
Matches: 30, Mismatches: 12, Indels: 2
0.68 0.27 0.05
Matches are distributed among these distances:
21 27 0.90
22 3 0.10
ACGTcount: A:0.42, C:0.09, G:0.25, T:0.23
Consensus pattern (21 bp):
ATAAGGGTTAAATGGAAGCTT
Found at i:74731672 original size:42 final size:41
Alignment explanation
Indices: 74731616--74731726 Score: 145
Period size: 42 Copynumber: 2.7 Consensus size: 41
74731606 GCACATAGGT
*
74731616 GCTAAAC-GAAAACCCATAAGGGTTAAATGGAAGCTTATAAGA
1 GCTAAACTG-AAACCCATAAGGGTTAAAT-GAAGCTTAGAAGA
*
74731658 GCTGAA-TGGAAACCCATAAGGGTTAAAATGAAGCTTAGAAGA
1 GCTAAACT-GAAACCCATAAGGGTT-AAATGAAGCTTAGAAGA
*
74731700 GCTAAACTGAAACCCAGAAGGGTTAAA
1 GCTAAACTGAAACCCATAAGGGTTAAA
74731727 CTAAAACTCA
Statistics
Matches: 61, Mismatches: 4, Indels: 9
0.82 0.05 0.12
Matches are distributed among these distances:
41 3 0.05
42 52 0.85
43 6 0.10
ACGTcount: A:0.44, C:0.14, G:0.23, T:0.18
Consensus pattern (41 bp):
GCTAAACTGAAACCCATAAGGGTTAAATGAAGCTTAGAAGA
Found at i:74731718 original size:21 final size:21
Alignment explanation
Indices: 74731694--74731733 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
74731684 AATGAAGCTT
*
74731694 AGAAGAGCTAAACTGAAACCC
1 AGAAGAGCTAAACTAAAACCC
* *
74731715 AGAAGGGTTAAACTAAAAC
1 AGAAGAGCTAAACTAAAAC
74731734 TCATATAAGT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.50, C:0.17, G:0.20, T:0.12
Consensus pattern (21 bp):
AGAAGAGCTAAACTAAAACCC
Found at i:74735242 original size:26 final size:24
Alignment explanation
Indices: 74735182--74735253 Score: 99
Period size: 24 Copynumber: 2.9 Consensus size: 24
74735172 TTAAGCTAGA
*
74735182 AACAGTAAGCTCTGACGAGCTGAG
1 AACAGTAAGCTCTTACGAGCTGAG
*
74735206 AACAGTAAGCTCTTACGAGCTGAT
1 AACAGTAAGCTCTTACGAGCTGAG
*
74735230 ATATCAGTAAGCTCATACGAGCTG
1 A-A-CAGTAAGCTCTTACGAGCTG
74735254 TGGTGAGTCC
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
24 23 0.53
25 1 0.02
26 19 0.44
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.22
Consensus pattern (24 bp):
AACAGTAAGCTCTTACGAGCTGAG
Found at i:74747088 original size:12 final size:12
Alignment explanation
Indices: 74747069--74747099 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
74747059 GTGTTGTCGT
74747069 ACACGGCCTACC
1 ACACGGCCTACC
*
74747081 AGACGGCCTACC
1 ACACGGCCTACC
74747093 ACACGGC
1 ACACGGC
74747100 TATGTGGCGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.26, C:0.45, G:0.23, T:0.06
Consensus pattern (12 bp):
ACACGGCCTACC
Found at i:74756145 original size:18 final size:17
Alignment explanation
Indices: 74756115--74756148 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
74756105 AAAATTTTTG
*
74756115 AAAAAAAAGAATAAAAT
1 AAAAAAAAAAATAAAAT
74756132 AAAAATAAAAAATAAAA
1 AAAAA-AAAAAATAAAA
74756149 ATGAAATATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.85, C:0.00, G:0.03, T:0.12
Consensus pattern (17 bp):
AAAAAAAAAAATAAAAT
Found at i:74759612 original size:19 final size:20
Alignment explanation
Indices: 74759588--74759626 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
74759578 AAATTTGACG
74759588 AGTAAG-TAGTAAATATTAA
1 AGTAAGCTAGTAAATATTAA
* *
74759607 AGTAAGCTCGTAAATTTTAA
1 AGTAAGCTAGTAAATATTAA
74759627 TATTTACTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.46, C:0.05, G:0.15, T:0.33
Consensus pattern (20 bp):
AGTAAGCTAGTAAATATTAA
Found at i:74760987 original size:21 final size:21
Alignment explanation
Indices: 74760962--74761153 Score: 111
Period size: 21 Copynumber: 9.1 Consensus size: 21
74760952 TTTACTTTCC
* *
74760962 GTTTAGCTCTCATGAGCTTCT
1 GTTTAACTCTTATGAGCTTCT
* *
74760983 GTTTAACTCATATGAGTTTCT
1 GTTTAACTCTTATGAGCTTCT
* *
74761004 GTTCAACT-TTATTGAGCTTTT
1 GTTTAACTCTTA-TGAGCTTCT
* *
74761025 GTTTAAC-CTTTATGGGTTTCT
1 GTTTAACTC-TTATGAGCTTCT
* * *
74761046 GTTCAGCTC-TATTGAGCTTTT
1 GTTTAACTCTTA-TGAGCTTCT
* * * *
74761067 GTTTAACCCTTATGGGTTTCC
1 GTTTAACTCTTATGAGCTTCT
* * *
74761088 GTTCAGCTCTTATGAGCTTCC
1 GTTTAACTCTTATGAGCTTCT
* * * *
74761109 GTTCAACCCTTATGGGTTTCT
1 GTTTAACTCTTATGAGCTTCT
* * *
74761130 ATTTAGCTCTCATGAGCTTCT
1 GTTTAACTCTTATGAGCTTCT
74761151 GTT
1 GTT
74761154 CAGCCTTCGG
Statistics
Matches: 123, Mismatches: 42, Indels: 12
0.69 0.24 0.07
Matches are distributed among these distances:
20 4 0.03
21 113 0.92
22 6 0.05
ACGTcount: A:0.16, C:0.20, G:0.18, T:0.46
Consensus pattern (21 bp):
GTTTAACTCTTATGAGCTTCT
Found at i:74761122 original size:84 final size:84
Alignment explanation
Indices: 74760957--74761153 Score: 245
Period size: 84 Copynumber: 2.3 Consensus size: 84
74760947 TCATGTTTAC
* * *
74760957 TTTCCGTTTAGCTCTCATGAGCTTCTGTTTAACTCATATGAGTTTCTGTTCAACTTTATTGAGCT
1 TTTCTGTTTAGCTCTCATGAGCTTCTGTTTAACCCATATGAGTTTCCGTTCAACTTTATTGAGCT
** * *
74761022 TTTGTTTAACCTTTATGGG
66 TCCGTTCAACCCTTATGGG
* * * * *
74761041 TTTCTGTTCAGCTCT-ATTGAGCTTTTGTTTAACCCTTATGGGTTTCCGTTCAGCTCTTA-TGAG
1 TTTCTGTTTAGCTCTCA-TGAGCTTCTGTTTAACCCATATGAGTTTCCGTTCAACT-TTATTGAG
74761104 CTTCCGTTCAACCCTTATGGG
64 CTTCCGTTCAACCCTTATGGG
*
74761125 TTTCTATTTAGCTCTCATGAGCTTCTGTT
1 TTTCTGTTTAGCTCTCATGAGCTTCTGTT
74761154 CAGCCTTCGG
Statistics
Matches: 95, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
83 1 0.01
84 90 0.95
85 4 0.04
ACGTcount: A:0.16, C:0.21, G:0.17, T:0.46
Consensus pattern (84 bp):
TTTCTGTTTAGCTCTCATGAGCTTCTGTTTAACCCATATGAGTTTCCGTTCAACTTTATTGAGCT
TCCGTTCAACCCTTATGGG
Found at i:74761155 original size:42 final size:42
Alignment explanation
Indices: 74760957--74761153 Score: 218
Period size: 42 Copynumber: 4.7 Consensus size: 42
74760947 TCATGTTTAC
* * * * *
74760957 TTTCCGTTTAGCTCTCATGAGCTTCTGTTTAACTCATATGAG
1 TTTCTGTTCAGCTCTCATGAGCTTCTGTTTAACCCTTATGGG
* * * *
74760999 TTTCTGTTCAACT-TTATTGAGCTTTTGTTTAACCTTTATGGG
1 TTTCTGTTCAGCTCTCA-TGAGCTTCTGTTTAACCCTTATGGG
*
74761041 TTTCTGTTCAGCTCT-ATTGAGCTTTTGTTTAACCCTTATGGG
1 TTTCTGTTCAGCTCTCA-TGAGCTTCTGTTTAACCCTTATGGG
* * * *
74761083 TTTCCGTTCAGCTCTTATGAGCTTCCGTTCAACCCTTATGGG
1 TTTCTGTTCAGCTCTCATGAGCTTCTGTTTAACCCTTATGGG
* *
74761125 TTTCTATTTAGCTCTCATGAGCTTCTGTT
1 TTTCTGTTCAGCTCTCATGAGCTTCTGTT
74761154 CAGCCTTCGG
Statistics
Matches: 132, Mismatches: 20, Indels: 6
0.84 0.13 0.04
Matches are distributed among these distances:
41 2 0.02
42 128 0.97
43 2 0.02
ACGTcount: A:0.16, C:0.21, G:0.17, T:0.46
Consensus pattern (42 bp):
TTTCTGTTCAGCTCTCATGAGCTTCTGTTTAACCCTTATGGG
Found at i:74763131 original size:8 final size:8
Alignment explanation
Indices: 74763118--74763150 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
74763108 ATACAATTAC
74763118 ATAATATA
1 ATAATATA
74763126 ATAATATA
1 ATAATATA
74763134 ATAATATA
1 ATAATATA
74763142 AT-ATATA
1 ATAATATA
74763149 AT
1 AT
74763151 TATGACTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 7 0.28
8 18 0.72
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (8 bp):
ATAATATA
Found at i:74765028 original size:21 final size:21
Alignment explanation
Indices: 74764999--74765043 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
74764989 TACAAATTAA
74764999 ATCTCCAAGATTGCATATCAT
1 ATCTCCAAGATTGCATATCAT
*
74765020 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTGCATATCAT
74765041 ATC
1 ATC
74765044 ATATCATATC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.33, C:0.22, G:0.09, T:0.36
Consensus pattern (21 bp):
ATCTCCAAGATTGCATATCAT
Found at i:74765041 original size:5 final size:5
Alignment explanation
Indices: 74765033--74765082 Score: 59
Period size: 5 Copynumber: 10.2 Consensus size: 5
74765023 TTCAAGATTG
* *
74765033 CATAT CATAT CATAT CATAT C-TAA GAT-T GCATAT CATAT CATAT CATAT
1 CATAT CATAT CATAT CATAT CATAT CATAT -CATAT CATAT CATAT CATAT
74765082 C
1 C
74765083 TAAGATTGCA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
4 2 0.05
5 35 0.92
6 1 0.03
ACGTcount: A:0.38, C:0.20, G:0.04, T:0.38
Consensus pattern (5 bp):
CATAT
Found at i:74765066 original size:29 final size:29
Alignment explanation
Indices: 74765012--74765097 Score: 154
Period size: 29 Copynumber: 2.9 Consensus size: 29
74765002 TCCAAGATTG
74765012 CATATCATATCTTCAAGATTGCATATCATAT
1 CATATCATATC-T-AAGATTGCATATCATAT
74765043 CATATCATATCTAAGATTGCATATCATAT
1 CATATCATATCTAAGATTGCATATCATAT
74765072 CATATCATATCTAAGATTGCATATCA
1 CATATCATATCTAAGATTGCATATCA
74765098 CATCTAAGAT
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
29 43 0.78
30 1 0.02
31 11 0.20
ACGTcount: A:0.37, C:0.19, G:0.07, T:0.37
Consensus pattern (29 bp):
CATATCATATCTAAGATTGCATATCATAT
Found at i:74765067 original size:19 final size:19
Alignment explanation
Indices: 74765043--74765134 Score: 103
Period size: 19 Copynumber: 5.3 Consensus size: 19
74765033 CATATCATAT
74765043 CATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG
74765062 CATATCATATC----A-T-
1 CATATCATATCTAAGATTG
74765075 ---ATCATATCTAAGATTG
1 CATATCATATCTAAGATTG
*
74765091 CATATCACATCTAAGATTG
1 CATATCATATCTAAGATTG
*
74765110 CATATTATATCTAAGATTG
1 CATATCATATCTAAGATTG
74765129 CATATC
1 CATATC
74765135 CTTAAAGATT
Statistics
Matches: 60, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
10 8 0.13
14 2 0.03
15 2 0.03
19 48 0.80
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.37
Consensus pattern (19 bp):
CATATCATATCTAAGATTG
Found at i:74768130 original size:24 final size:24
Alignment explanation
Indices: 74768065--74768119 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
74768055 GATAGAGACA
* * * *
74768065 AAGACGAAGACAAAGGTAGAGATG
1 AAGATGAAGATAAGGGTCGAGATG
74768089 AAGATGAAGATAAGGGTCGAGATG
1 AAGATGAAGATAAGGGTCGAGATG
74768113 AAGATGA
1 AAGATGA
74768120 GTACGAGGGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.47, C:0.05, G:0.35, T:0.13
Consensus pattern (24 bp):
AAGATGAAGATAAGGGTCGAGATG
Found at i:74768769 original size:35 final size:35
Alignment explanation
Indices: 74768730--74769025 Score: 264
Period size: 35 Copynumber: 8.5 Consensus size: 35
74768720 AAATGCGACT
74768730 TTAAAAAGGTTGGGATAGACACGTCTAAGGCAACG
1 TTAAAAAGGTTGGGATAGACACGTCTAAGGCAACG
* * *
74768765 TTAAAATGGTTGGGATAGACATGTCTAAGACAACG
1 TTAAAAAGGTTGGGATAGACACGTCTAAGGCAACG
* * *
74768800 TTAAAAGGGTTGGGATAGACCCGTCTAAAGG-AACCT
1 TTAAAAAGGTTGGGATAGACACGTCT-AAGGCAA-CG
* * *
74768836 TTAAAAA-GTT-AGATAGACATGTCTAAGGCAACCT
1 TTAAAAAGGTTGGGATAGACACGTCTAAGGCAA-CG
* *
74768870 TTAAAAA-TTTGGGATAGAC-CTGTCTAAGACAA-G
1 TTAAAAAGGTTGGGATAGACAC-GTCTAAGGCAACG
* ** * *
74768903 CTTTAAAAGGTTAAGATAGACCCGTCTAAAGG-AACC
1 -TTAAAAAGGTTGGGATAGACACGTCT-AAGGCAACG
* * ** * *
74768939 TTTAAAAGGTTGGAATAGACTTGTCTAAAGCAACC
1 TTAAAAAGGTTGGGATAGACACGTCTAAGGCAACG
* *
74768974 TTTAAAAGGTTGGGATAGACACGTCTAAGGCAACT
1 TTAAAAAGGTTGGGATAGACACGTCTAAGGCAACG
*
74769009 TTAAAAAGGTTGCGATA
1 TTAAAAAGGTTGGGATA
74769026 AACATTGTCT
Statistics
Matches: 214, Mismatches: 36, Indels: 22
0.79 0.13 0.08
Matches are distributed among these distances:
33 4 0.02
34 34 0.16
35 162 0.76
36 14 0.07
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.25
Consensus pattern (35 bp):
TTAAAAAGGTTGGGATAGACACGTCTAAGGCAACG
Found at i:74768921 original size:104 final size:103
Alignment explanation
Indices: 74768728--74769019 Score: 365
Period size: 104 Copynumber: 2.8 Consensus size: 103
74768718 TCAAATGCGA
* * *
74768728 CTTTAAAAAGGTTGGGATAGACACGTCTAAGGCAA-CGTT-AAAATGGTTGGGATAGACATGTCT
1 CTTTAAAAA-GTT-GGATAGACATGTCTAAGGCAACCTTTAAAAAT--TTGGGATAGACCTGTCT
* **
74768791 AAGACAACGTTAAAAGGGTTGGGATAGACCCGTCTAAAGGAAC
62 AAGACAACTTTAAAA-GGTTAAGATAGACCCGTCTAAAGGAAC
*
74768834 CTTTAAAAAGTTAGATAGACATGTCTAAGGCAACCTTTAAAAATTTGGGATAGACCTGTCTAAGA
1 CTTTAAAAAGTTGGATAGACATGTCTAAGGCAACCTTTAAAAATTTGGGATAGACCTGTCTAAGA
74768899 CAAGCTTTAAAAGGTTAAGATAGACCCGTCTAAAGGAAC
66 CAA-CTTTAAAAGGTTAAGATAGACCCGTCTAAAGGAAC
* * * **
74768938 CTTTAAAAGGTTGGAATAGACTTGTCTAAAGCAACCTTTAAAAGGTTGGGATAGACAC-GTCTAA
1 CTTTAAAAAGTTGG-ATAGACATGTCTAAGGCAACCTTTAAAAATTTGGGATAGAC-CTGTCTAA
*
74769002 GGCAACTTTAAAAAGGTT
64 GACAACTTT-AAAAGGTT
74769020 GCGATAAACA
Statistics
Matches: 166, Mismatches: 14, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
104 83 0.50
105 68 0.41
106 15 0.09
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.25
Consensus pattern (103 bp):
CTTTAAAAAGTTGGATAGACATGTCTAAGGCAACCTTTAAAAATTTGGGATAGACCTGTCTAAGA
CAACTTTAAAAGGTTAAGATAGACCCGTCTAAAGGAAC
Found at i:74786775 original size:23 final size:23
Alignment explanation
Indices: 74786749--74786793 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
74786739 TGGGTATGTG
*
74786749 ATGACGTTATCTT-ATAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
74786772 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
74786794 TTGAATTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:74790145 original size:20 final size:20
Alignment explanation
Indices: 74790122--74790192 Score: 65
Period size: 20 Copynumber: 3.5 Consensus size: 20
74790112 TCATATAGCC
*
74790122 AGTAGTTCATCTGTATAAAT
1 AGTAATTCATCTGTATAAAT
* *
74790142 AGTAGTTCAT-TAGTA-ATAAC
1 AGTAATTCATCT-GTATA-AAT
* *
74790162 AGTAATTCATCGGTATCAAT
1 AGTAATTCATCTGTATAAAT
74790182 AGTAATTCATC
1 AGTAATTCATC
74790193 CATATAAACA
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
19 2 0.05
20 40 0.95
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.37
Consensus pattern (20 bp):
AGTAATTCATCTGTATAAAT
Found at i:74790151 original size:40 final size:39
Alignment explanation
Indices: 74790094--74790199 Score: 115
Period size: 40 Copynumber: 2.7 Consensus size: 39
74790084 ATTTCTATTC
* * * *
74790094 GTATAAATTGTAATTCATTCATATAGCCAGTAGTTCATCT
1 GTATAAATAGTAATTCATTCATATA-ACAGTAATTCATCG
*
74790134 GTATAAATAGTAGTTCATT-AGTAATAACAGTAATTCATCG
1 GTATAAATAGTAATTCATTCA-T-ATAACAGTAATTCATCG
* *
74790174 GTATCAATAGTAATTCATCCATATAA
1 GTATAAATAGTAATTCATTCATATAA
74790200 ACACATATCT
Statistics
Matches: 55, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
39 5 0.09
40 46 0.84
41 4 0.07
ACGTcount: A:0.38, C:0.13, G:0.12, T:0.37
Consensus pattern (39 bp):
GTATAAATAGTAATTCATTCATATAACAGTAATTCATCG
Found at i:74790396 original size:22 final size:23
Alignment explanation
Indices: 74790368--74790461 Score: 97
Period size: 24 Copynumber: 4.1 Consensus size: 23
74790358 CTTGAGCTGA
74790368 TGAACAGTAAGCTCTAT-TGAGC
1 TGAACAGTAAGCTCTATATGAGC
* *
74790390 TGAACAGTAAGCTC-ATACGAGT
1 TGAACAGTAAGCTCTATATGAGC
* *
74790412 TGAAACGGTAAGCTCCA-ATGAGC
1 TG-AACAGTAAGCTCTATATGAGC
74790435 TGAAAACAGTAAGCTCT-TATGAGC
1 TG--AACAGTAAGCTCTATATGAGC
74790459 TGA
1 TGA
74790462 TATATCAGTA
Statistics
Matches: 60, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
21 2 0.03
22 20 0.33
23 17 0.28
24 21 0.35
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.23
Consensus pattern (23 bp):
TGAACAGTAAGCTCTATATGAGC
Found at i:74790475 original size:26 final size:24
Alignment explanation
Indices: 74790360--74790476 Score: 89
Period size: 24 Copynumber: 4.9 Consensus size: 24
74790350 TAGCTCCTCT
* * *
74790360 TGAGCTGATGAACAGTAAGCTCTAT
1 TGAGCTGA-AAACAGTAAGCTCCAA
74790385 TGAGCTG--AACAGTAAGCT-CATA
1 TGAGCTGAAAACAGTAAGCTCCA-A
* * *
74790407 CGAGTTG-AAACGGTAAGCTCCAA
1 TGAGCTGAAAACAGTAAGCTCCAA
**
74790430 TGAGCTGAAAACAGTAAGCTCTTA
1 TGAGCTGAAAACAGTAAGCTCCAA
*
74790454 TGAGCTGATATATCAGTAAGCTC
1 TGAGCTGA-A-AACAGTAAGCTC
74790477 ATAAGAGACG
Statistics
Matches: 75, Mismatches: 11, Indels: 11
0.77 0.11 0.11
Matches are distributed among these distances:
21 1 0.01
22 16 0.21
23 16 0.21
24 23 0.31
25 8 0.11
26 11 0.15
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (24 bp):
TGAGCTGAAAACAGTAAGCTCCAA
Found at i:74793497 original size:93 final size:93
Alignment explanation
Indices: 74793338--74793508 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
74793328 GGATGGTTGA
* * *
74793338 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
74793403 TGAGCCCGAGTTCGTGAGATGTAACTAG
66 TGAGCCCGAGTTCGTGAGATGTAACTAG
* *
74793431 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
*
74793496 TGAGTCCGAGTTC
66 TGAGCCCGAGTTC
74793509 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGCCCGAGTTCGTGAGATGTAACTAG
Found at i:74793511 original size:46 final size:46
Alignment explanation
Indices: 74793344--74793513 Score: 195
Period size: 46 Copynumber: 3.7 Consensus size: 46
74793334 TTGAGCATCT
* * *
74793344 GAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCC
* * * *
74793390 GAACTCGTTGAGTTGAGCCCGAGTTC-GTGA--GATG-TAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC--CC
74793437 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCC
*
74793483 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
74793514 GGGGCGGGTT
Statistics
Matches: 103, Mismatches: 12, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 2 0.02
46 57 0.55
47 27 0.26
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCC
Found at i:74805752 original size:42 final size:42
Alignment explanation
Indices: 74805693--74805856 Score: 195
Period size: 42 Copynumber: 3.9 Consensus size: 42
74805683 TTAGGGTTAC
* *
74805693 TGAGACTATGTGTAAGACCATATCTGGGATATGGCATCAATA
1 TGAGACTACGTGTAAGACCATATCTGGGATATGGCATCGATA
*
74805735 TGAGACTACGTGTAAGACCATATCTGGGAAATGGCA-CTGATA
1 TGAGACTACGTGTAAGACCATATCTGGGATATGGCATC-GATA
* * * *
74805777 TGAGACTTCGTGTAAGATCATAGCTGGGCTATTGGCATCGATA
1 TGAGACTACGTGTAAGACCATATCTGGGATA-TGGCATCGATA
* * * * *
74805820 CGAGATTACATGTAAAACCATATCTAGGATATGGCAT
1 TGAGACTACGTGTAAGACCATATCTGGGATATGGCAT
74805857 TGGTATGGTA
Statistics
Matches: 102, Mismatches: 17, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
41 1 0.01
42 69 0.68
43 31 0.30
44 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.27
Consensus pattern (42 bp):
TGAGACTACGTGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:74805843 original size:85 final size:84
Alignment explanation
Indices: 74805693--74805855 Score: 211
Period size: 85 Copynumber: 1.9 Consensus size: 84
74805683 TTAGGGTTAC
* * * *
74805693 TGAGACTATGTGTAAGACCATATCTGGGATATGGCATCAATATGAGACTACGTGTAAGACCATAT
1 TGAGACTATGTGTAAGACCATAGCTGGGATATGGCATCAATACGAGACTACATGTAAAACCATAT
*
74805758 CTGGGAAATGGCACTGATA
66 CTAGGAAATGGCACTGATA
* * * *
74805777 TGAGACT-TCGTGTAAGATCATAGCTGGGCTATTGGCATCGATACGAGATTACATGTAAAACCAT
1 TGAGACTAT-GTGTAAGACCATAGCTGGGATA-TGGCATCAATACGAGACTACATGTAAAACCAT
*
74805841 ATCTAGGATATGGCA
64 ATCTAGGAAATGGCA
74805856 TTGGTATGGT
Statistics
Matches: 67, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
83 1 0.01
84 26 0.39
85 40 0.60
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.27
Consensus pattern (84 bp):
TGAGACTATGTGTAAGACCATAGCTGGGATATGGCATCAATACGAGACTACATGTAAAACCATAT
CTAGGAAATGGCACTGATA
Found at i:74810283 original size:29 final size:29
Alignment explanation
Indices: 74810240--74810299 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
74810230 TATGCAGTTG
74810240 TTCAAATTTAAATCGCATGATTCTATGCA
1 TTCAAATTTAAATCGCATGATTCTATGCA
*
74810269 TTCAAATTTAGATCGCATGATTCTATGCA
1 TTCAAATTTAAATCGCATGATTCTATGCA
74810298 TT
1 TT
74810300 TCTTTAATCA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.32, C:0.17, G:0.12, T:0.40
Consensus pattern (29 bp):
TTCAAATTTAAATCGCATGATTCTATGCA
Found at i:74816250 original size:178 final size:175
Alignment explanation
Indices: 74815780--74816935 Score: 1166
Period size: 178 Copynumber: 6.7 Consensus size: 175
74815770 TAAACAGCGG
* * * * * *
74815780 GAATAAATCCCGAAACAAATTTTA-TTTAATTTAATTCT-A-ATTTAGAATTAAAAT-AAAA-TC
1 GAATAAATCCCGAAACAGATTTTATTTTAATTTAATACTCATTTTTGGAAATAAAATCAAAATTG
* * *
74815840 AAATAAAATCTTGTT-AGATGGCGAGAATAAATCCCAAAACAGATTTTA-TTTAATTTAATTCT-
66 GAATAAAATC-TGTTGA-ACGGCGAGAATAAATCCCAAAACAGATTTTATTTTAATTTAATACTC
* * ** * * *
74815902 A-ATTTGGAAACAAAATAAAA--TCAAATAAAATCTTGTTGATCAGCAA
129 ATTTTTGGAAATAAAA-AAAATTTGGAATAAAATC-CGTTGAACGGCAA
* * * * * * * *
74815948 GGATCAATCCCGAAATAAATTTTA-TTTAACTTAATTTCTCATTTTTGGCAACAAAATCAAAA-T
1 GAATAAATCCCGAAACAGATTTTATTTTAATTTAA-TACTCATTTTTGGAAATAAAATCAAAATT
* * * * * * * * *
74816011 GTAA-GATACCCGCTGAACAGCGAGAATAAATCCCAAAATAAATTTTATTTTAATTTTAATACTC
65 GGAATAAAATCTGTTGAACGGCGAGAATAAATCCCAAAACAGATTTTATTTTAA-TTTAATACTC
*
74816075 ATTTTTGAAAATAAAACAAAATTTTGGAATAAAATCCGTTGAACGGCAA
129 ATTTTTGGAAATAAAA-AAAA-TTTGGAATAAAATCCGTTGAACGGCAA
*
74816124 GAATAAATCCCGAAACAGATTTTATTTTAATTTAATACTCGTTTTTGGAAATAAAATCAAAATTG
1 GAATAAATCCCGAAACAGATTTTATTTTAATTTAATACTCATTTTTGGAAATAAAATCAAAATTG
* * *
74816189 GAATAAAATCTGTTGAACAGCGAGAATAATTCCCAAAATAGATTTTATTTTAATTTTAATACTCA
66 GAATAAAATCTGTTGAACGGCGAGAATAAATCCCAAAACAGATTTTATTTTAA-TTTAATACTCA
* *
74816254 TTTTTGGAAATAAAATAAAAATTTGGAATAAGATCCGTTGATCGGCAA
130 TTTTTGGAAAT-AAA-AAAAATTTGGAATAAAATCCGTTGAACGGCAA
74816302 GAATAAATCCCGAAACAGATTTTATTTTAATTTAATACTCATTTTTGGAAATAAAAT-AAATATT
1 GAATAAATCCCGAAACAGATTTTATTTTAATTTAATACTCATTTTTGGAAATAAAATCAAA-A-T
* * * * *
74816366 TGGAATAAGATCCGTTGATCGGCAAGAATAAATCCCGAAACAGATTTTATTTTAATTTAATACTC
64 TGGAATAAAATCTGTTGAACGGCGAGAATAAATCCCAAAACAGATTTTATTTTAATTTAATACTC
* *
74816431 ATTTTTGGAAATAAAATAAATATTTGGAATAAGATCCGTTGATCGGCAA
129 ATTTTTGGAAATAAAA-AAA-ATTTGGAATAAAATCCGTTGAACGGCAA
74816480 GAATAAATCCCGAAACAGATTTTATTTTAATTTAATACTCATTTTTGGAAATAAAATCAAAATTG
1 GAATAAATCCCGAAACAGATTTTATTTTAATTTAATACTCATTTTTGGAAATAAAATCAAAATTG
* ** * * *
74816545 GAAT-AAATCTATTGAACAACGGGAATAAATTCCGAAACA-ATTTTTATTTTAATTTAATACTC-
66 GAATAAAATCTGTTGAACGGCGAGAATAAATCCCAAAACAGA-TTTTATTTTAATTTAATACTCA
* * * *
74816607 GTTTTGGAAATAAAACCAAAA-TTGGAATAAAATCCATTAAACGGTGAA
130 TTTTTGGAAATAAAA--AAAATTTGGAATAAAATCCGTTGAACGG-CAA
*
74816655 -AATAAATCCCGAAACAGATTTTATTTTAATTTTAATACTC-GTTTTGGAAATAAAATCAAAATT
1 GAATAAATCCCGAAACAGATTTTATTTTAA-TTTAATACTCATTTTTGGAAATAAAATCAAAATT
* * * *
74816718 GGAATAAAATCTGTTGAACGGTGGGAATAAATCCCAAAACGGATTTTA-TTTACTTT--TA---A
65 GGAATAAAATCTGTTGAACGGCGAGAATAAATCCCAAAACAGATTTTATTTTAATTTAATACTCA
* * * **
74816777 --TTT-G----AAAAAAAATTT-GAATAAAATCTGTTAAACGACGG
130 TTTTTGGAAATAAAAAAAATTTGGAATAAAATCCGTTGAACGGCAA
* * *
74816815 GAATAAATCCCGAAACAGATTTTA-TTTAATTTTAATATTC--GTTTGGAAATAAAATCAAAATA
1 GAATAAATCCCGAAACAGATTTTATTTTAA-TTTAATACTCATTTTTGGAAATAAAATCAAAATT
* * * * *
74816877 GAGAATAAAATCTGTTGAACGGTGGGAAAAAATCCCGAAATAGATTTTA-TTTAATTTAA
65 G-GAATAAAATCTGTTGAACGGCGAGAATAAATCCCAAAACAGATTTTATTTTAATTTAA
74816936 AATTTTATTT
Statistics
Matches: 856, Mismatches: 98, Indels: 74
0.83 0.10 0.07
Matches are distributed among these distances:
159 21 0.02
160 65 0.08
161 44 0.05
162 2 0.00
163 4 0.00
167 1 0.00
168 33 0.04
169 4 0.00
170 30 0.04
171 19 0.02
172 17 0.02
173 1 0.00
174 97 0.11
175 61 0.07
176 105 0.12
177 39 0.05
178 254 0.30
179 58 0.07
180 1 0.00
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.34
Consensus pattern (175 bp):
GAATAAATCCCGAAACAGATTTTATTTTAATTTAATACTCATTTTTGGAAATAAAATCAAAATTG
GAATAAAATCTGTTGAACGGCGAGAATAAATCCCAAAACAGATTTTATTTTAATTTAATACTCAT
TTTTGGAAATAAAAAAAATTTGGAATAAAATCCGTTGAACGGCAA
Found at i:74816251 original size:89 final size:88
Alignment explanation
Indices: 74815780--74816768 Score: 1048
Period size: 89 Copynumber: 11.3 Consensus size: 88
74815770 TAAACAGCGG
* * * * * *
74815780 GAATAAATCCCGAAACAAATTTTA-TTTAATTTAATTCT-A-ATTTAGAATTAAAAT-AAAA-TC
1 GAATAAATCCCGAAACAGATTTTATTTTAATTTAATACTCATTTTTGGAAATAAAATCAAAATTG
* * *
74815840 AAATAAAATCTTGTT-AGATGGCGA
66 GAATAAAATC-CGTTGA-ACGGCGA
* * * * *
74815864 GAATAAATCCCAAAACAGATTTTA-TTTAATTTAATTCT-A-ATTTGGAAACAAAAT-AAAA-TC
1 GAATAAATCCCGAAACAGATTTTATTTTAATTTAATACTCATTTTTGGAAATAAAATCAAAATTG
* * * * *
74815924 AAATAAAATCTTGTTGATCAGCAA
66 GAATAAAATC-CGTTGAACGGCGA
* * * * * * * *
74815948 GGATCAATCCCGAAATAAATTTTA-TTTAACTTAATTTCTCATTTTTGGCAACAAAATCAAAA-T
1 GAATAAATCCCGAAACAGATTTTATTTTAATTTAA-TACTCATTTTTGGAAATAAAATCAAAATT
* * * * * *
74816011 GTAA-GATACCCGCTGAACAGCGA
65 GGAATAAAATCCGTTGAACGGCGA
* * * *
74816034 GAATAAATCCCAAAATAAATTTTATTTTAATTTTAATACTCATTTTTGAAAATAAAA-CAAAATT
1 GAATAAATCCCGAAACAGATTTTATTTTAA-TTTAATACTCATTTTTGGAAATAAAATCAAAA--
*
74816098 TTGGAATAAAATCCGTTGAACGGCAA
63 TTGGAATAAAATCCGTTGAACGGCGA
*
74816124 GAATAAATCCCGAAACAGATTTTATTTTAATTTAATACTCGTTTTTGGAAATAAAATCAAAATTG
1 GAATAAATCCCGAAACAGATTTTATTTTAATTTAATACTCATTTTTGGAAATAAAATCAAAATTG
* *
74816189 GAATAAAATCTGTTGAACAGCGA
66 GAATAAAATCCGTTGAACGGCGA
* * * *
74816212 GAATAATTCCCAAAATAGATTTTATTTTAATTTTAATACTCATTTTTGGAAATAAAATAAAAATT
1 GAATAAATCCCGAAACAGATTTTATTTTAA-TTTAATACTCATTTTTGGAAATAAAATCAAAA-T
* * *
74816277 TGGAATAAGATCCGTTGATCGGCAA
64 TGGAATAAAATCCGTTGAACGGCGA
74816302 GAATAAATCCCGAAACAGATTTTATTTTAATTTAATACTCATTTTTGGAAATAAAAT-AAATATT
1 GAATAAATCCCGAAACAGATTTTATTTTAATTTAATACTCATTTTTGGAAATAAAATCAAA-A-T
* * *
74816366 TGGAATAAGATCCGTTGATCGGCAA
64 TGGAATAAAATCCGTTGAACGGCGA
74816391 GAATAAATCCCGAAACAGATTTTATTTTAATTTAATACTCATTTTTGGAAATAAAAT-AAATATT
1 GAATAAATCCCGAAACAGATTTTATTTTAATTTAATACTCATTTTTGGAAATAAAATCAAA-A-T
* * *
74816455 TGGAATAAGATCCGTTGATCGGCAA
64 TGGAATAAAATCCGTTGAACGGCGA
74816480 GAATAAATCCCGAAACAGATTTTATTTTAATTTAATACTCATTTTTGGAAATAAAATCAAAATTG
1 GAATAAATCCCGAAACAGATTTTATTTTAATTTAATACTCATTTTTGGAAATAAAATCAAAATTG
** ** *
74816545 GAAT-AAATCTATTGAACAACGG
66 GAATAAAATCCGTTGAACGGCGA
* * *
74816567 GAATAAATTCCGAAACA-ATTTTTATTTTAATTTAATACTC-GTTTTGGAAATAAAACCAAAATT
1 GAATAAATCCCGAAACAGA-TTTTATTTTAATTTAATACTCATTTTTGGAAATAAAATCAAAATT
* * *
74816630 GGAATAAAATCCATTAAACGGTGA
65 GGAATAAAATCCGTTGAACGGCGA
* *
74816654 AAATAAATCCCGAAACAGATTTTATTTTAATTTTAATACTC-GTTTTGGAAATAAAATCAAAATT
1 GAATAAATCCCGAAACAGATTTTATTTTAA-TTTAATACTCATTTTTGGAAATAAAATCAAAATT
* * *
74816718 GGAATAAAATCTGTTGAACGGTGG
65 GGAATAAAATCCGTTGAACGGCGA
* *
74816742 GAATAAATCCCAAAACGGATTTTATTT
1 GAATAAATCCCGAAACAGATTTTATTT
74816769 ACTTTTAATT
Statistics
Matches: 796, Mismatches: 89, Indels: 36
0.86 0.10 0.04
Matches are distributed among these distances:
84 101 0.13
85 5 0.01
86 63 0.08
87 123 0.15
88 148 0.19
89 260 0.33
90 96 0.12
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.34
Consensus pattern (88 bp):
GAATAAATCCCGAAACAGATTTTATTTTAATTTAATACTCATTTTTGGAAATAAAATCAAAATTG
GAATAAAATCCGTTGAACGGCGA
Found at i:74816836 original size:73 final size:73
Alignment explanation
Indices: 74816712--74816850 Score: 215
Period size: 73 Copynumber: 1.9 Consensus size: 73
74816702 AAATAAAATC
* ** * *
74816712 AAAATTGGAATAAAATCTGTTGAACGGTGGGAATAAATCCCAAAACGGATTTTATTTACTTTTAA
1 AAAATTGGAATAAAATCTGTTAAACGACGGGAATAAATCCCAAAACAGATTTTATTTAATTTTAA
74816777 TTTGAAAA
66 TTTGAAAA
* *
74816785 AAAATTTGAATAAAATCTGTTAAACGACGGGAATAAATCCCGAAACAGATTTTATTTAATTTTAA
1 AAAATTGGAATAAAATCTGTTAAACGACGGGAATAAATCCCAAAACAGATTTTATTTAATTTTAA
74816850 T
66 T
74816851 ATTCGTTTGG
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
73 59 1.00
ACGTcount: A:0.42, C:0.10, G:0.14, T:0.33
Consensus pattern (73 bp):
AAAATTGGAATAAAATCTGTTAAACGACGGGAATAAATCCCAAAACAGATTTTATTTAATTTTAA
TTTGAAAA
Found at i:74821251 original size:23 final size:23
Alignment explanation
Indices: 74821221--74821267 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
74821211 AAAGTTGGGA
74821221 TAGGTTATATTTTCACAATTCTT
1 TAGGTTATATTTTCACAATTCTT
74821244 TAGGTTATATTTTCACAATTCTT
1 TAGGTTATATTTTCACAATTCTT
74821267 T
1 T
74821268 CTAAAAAGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.26, C:0.13, G:0.09, T:0.53
Consensus pattern (23 bp):
TAGGTTATATTTTCACAATTCTT
Found at i:74822052 original size:18 final size:18
Alignment explanation
Indices: 74822014--74822052 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
74822004 AGTGTTATTG
*
74822014 AATAAAATTTAAAATTGA
1 AATAAAATTTAAAAATGA
74822032 AATAAAATTTATAAAAT-A
1 AATAAAATTTA-AAAATGA
74822050 AAT
1 AAT
74822053 TTTCATATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (18 bp):
AATAAAATTTAAAAATGA
Found at i:74830174 original size:12 final size:12
Alignment explanation
Indices: 74830157--74830182 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
74830147 GTAAAAATGA
74830157 ATGTCAATTTTT
1 ATGTCAATTTTT
74830169 ATGTCAATTTTT
1 ATGTCAATTTTT
74830181 AT
1 AT
74830183 TTTGGCCTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.08, G:0.08, T:0.58
Consensus pattern (12 bp):
ATGTCAATTTTT
Found at i:74830330 original size:23 final size:25
Alignment explanation
Indices: 74830287--74830332 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
74830277 AAGCTTTATT
74830287 TGAAAATATATTTTGATATAAAAAA
1 TGAAAATATATTTTGATATAAAAAA
*
74830312 TGAAAATAT-TTTTTA-ATAAAA
1 TGAAAATATATTTTGATATAAAA
74830333 TTTAAAATTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 5 0.25
25 9 0.45
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (25 bp):
TGAAAATATATTTTGATATAAAAAA
Found at i:74834347 original size:21 final size:21
Alignment explanation
Indices: 74834322--74834364 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
74834312 GACGGCGAAA
*
74834322 AGGATCTAGCCTGGACGGGTG
1 AGGATATAGCCTGGACGGGTG
74834343 AGGATATAGCCTGGACGGGTG
1 AGGATATAGCCTGGACGGGTG
74834364 A
1 A
74834365 TCCTATAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.23, C:0.16, G:0.42, T:0.19
Consensus pattern (21 bp):
AGGATATAGCCTGGACGGGTG
Found at i:74837977 original size:50 final size:50
Alignment explanation
Indices: 74837922--74838022 Score: 175
Period size: 50 Copynumber: 2.0 Consensus size: 50
74837912 AGAGGTAGAG
*
74837922 TTTGGTATTAAGTTAGCACTGGGAACAATGCCTATTTCTATTGCCCCGTA
1 TTTGGTATTAAGTTAGCACCGGGAACAATGCCTATTTCTATTGCCCCGTA
* *
74837972 TTTGGTATTGAGTTAGCACCGGGAATAATGCCTATTTCTATTGCCCCGTA
1 TTTGGTATTAAGTTAGCACCGGGAACAATGCCTATTTCTATTGCCCCGTA
74838022 T
1 T
74838023 AGAATGGCAC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.37
Consensus pattern (50 bp):
TTTGGTATTAAGTTAGCACCGGGAACAATGCCTATTTCTATTGCCCCGTA
Found at i:74840175 original size:12 final size:12
Alignment explanation
Indices: 74840158--74840182 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
74840148 ATCTAAGTGA
74840158 TCTTGATGATTT
1 TCTTGATGATTT
74840170 TCTTGATGATTT
1 TCTTGATGATTT
74840182 T
1 T
74840183 TACATTTTTG
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:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TCTTGATGATTT
Found at i:74857135 original size:12 final size:12
Alignment explanation
Indices: 74857118--74857142 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
74857108 ATGTAAGTGA
74857118 TCTTGATGATTT
1 TCTTGATGATTT
74857130 TCTTGATGATTT
1 TCTTGATGATTT
74857142 T
1 T
74857143 TACATTTTTG
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:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TCTTGATGATTT
Found at i:74857955 original size:46 final size:48
Alignment explanation
Indices: 74857852--74858121 Score: 243
Period size: 46 Copynumber: 5.7 Consensus size: 48
74857842 TAATTTGTGT
* * ** * *
74857852 GCCAGCGTAAGACCATGTCTGGGACATGGCATCGGAATTGAGACGAGT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCGTCGAGACGAGA
*
74857900 GCCAATGTAAGA-CATGTCTGGGACAT-GCATCAGCGTCGAGACGTA-A
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCGTCGAGACG-AGA
* * * *
74857946 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCTGC-TACAAGGC-A-T
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCGT-CGAGACGAGA
* *
74857990 GTCAGTGTAAGACCATGTCTGGGACATGGCATCAGCACGT-AAGTACGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCAG--CGTCGAG-ACGAGA
* * * * * * *
74858040 GCTAGTGTAAGACCATGTCTGGGAAATGGCATCGGCCTCGATTAGGACA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCGTCGA-GACGAGA
74858089 GCCAGTGTAAGACCATGTCTGGGACATGGCATC
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATC
74858122 GATAACTTAA
Statistics
Matches: 183, Mismatches: 27, Indels: 23
0.79 0.12 0.10
Matches are distributed among these distances:
44 12 0.07
45 15 0.08
46 55 0.30
47 18 0.10
48 14 0.08
49 38 0.21
50 31 0.17
ACGTcount: A:0.28, C:0.21, G:0.30, T:0.21
Consensus pattern (48 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCGTCGAGACGAGA
Found at i:74858096 original size:99 final size:94
Alignment explanation
Indices: 74857852--74858121 Score: 277
Period size: 99 Copynumber: 2.8 Consensus size: 94
74857842 TAATTTGTGT
* * * * ** *
74857852 GCCAGCGTAAGACCATGTCTGGGACATGGCATCGGAATTGAGACGAGTGCCAATGTAAGA-CATG
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CTCGA-AGGACAGCCAGTGTAAGACCATG
*
74857916 TCTGGGACAT-GCATCAGCGTCGAGACGTAA
64 TCTGGGACATGGCATCAGCGTCAAGACGTAA
* *
74857946 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCTGCTAC-AAGG-CATGTCAGTGTAAGACCATG
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCT-CGAAGGACA-GCCAGTGTAAGACCATG
74858007 TCTGGGACATGGCATCAGCACGT-AAGTACG-AGA
64 TCTGGGACATGGCATCAG--CGTCAAG-ACGTA-A
* *
74858040 GCTAGTGTAAGACCATGTCTGGGAAATGGCATCGGCCTCGATTAGGACAGCCAGTGTAAGACCAT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CTCGA--AGGACAGCCAGTGTAAGACCAT
74858105 GTCTGGGACATGGCATC
63 GTCTGGGACATGGCATC
74858122 GATAACTTAA
Statistics
Matches: 147, Mismatches: 14, Indels: 25
0.79 0.08 0.13
Matches are distributed among these distances:
90 12 0.08
91 16 0.11
92 13 0.09
93 17 0.12
94 29 0.20
95 13 0.09
96 7 0.05
97 3 0.02
99 35 0.24
100 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.30, T:0.21
Consensus pattern (94 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTCGAAGGACAGCCAGTGTAAGACCATGTC
TGGGACATGGCATCAGCGTCAAGACGTAA
Found at i:74870981 original size:31 final size:32
Alignment explanation
Indices: 74870916--74870985 Score: 90
Period size: 32 Copynumber: 2.2 Consensus size: 32
74870906 ATTTTTGTAA
*
74870916 TTTATAATTTCTTTTAGAAAATTTATATAATT
1 TTTATAATTTCTTTTAGAAAATTTAAATAATT
* *
74870948 TTTATATATTTCTTTTA-AAATTTTAAAT-TTT
1 TTTATA-ATTTCTTTTAGAAAATTTAAATAATT
74870979 TTTATAA
1 TTTATAA
74870986 AAAAAAGATT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
30 1 0.03
31 8 0.24
32 15 0.44
33 10 0.29
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.60
Consensus pattern (32 bp):
TTTATAATTTCTTTTAGAAAATTTAAATAATT
Found at i:74872190 original size:240 final size:239
Alignment explanation
Indices: 74871740--74872218 Score: 895
Period size: 239 Copynumber: 2.0 Consensus size: 239
74871730 AAACTTGCAT
*
74871740 TATTTGTCAAATCACACCAAAATTGATAAAAAAAGTTAATGTCTATTAACTTTACTGATGTGGCA
1 TATTTGTCAAATCACACCAAAATTGATAAAAAAAATTAATGTCTATTAACTTTACTGATGTGGCA
*
74871805 TCCATGTGGACACCCACATGTATACCACATAAGCAATTAATTATTTTTAAAAAAATCTGAAGAAA
66 TCCATGTGGACACCCACATGTATACCACATAAGCAATTAATTATTTTTAAAAAAATCTAAAGAAA
*
74871870 TATATAATTTTTTTTACTTCTTTAATACTTATTAAGTTTTTTAAATAATTTTTTTAATTTTTTTA
131 TATATAATTTTTTTTACTTCTTTAATACTTATTAAGTTTTTTAAATAATTTTTTAAATTTTTTTA
74871935 AAATTAAAAATTAATTAATTTGCTAACATGGCATCCATCATCAA
196 AAATTAAAAATTAATTAATTTGCTAACATGGCATCCATCATCAA
74871979 TATTTGTCAAATCACACCAAAATTGATAAAAAAAATTAATGTCTATTAACTTTACTGATGTGGCA
1 TATTTGTCAAATCACACCAAAATTGATAAAAAAAATTAATGTCTATTAACTTTACTGATGTGGCA
* *
74872044 TCCATGTGGACACCTACATGTATACCACATAAGCAATTAATTATTTTTTAAAAAATCTAAAGAAA
66 TCCATGTGGACACCCACATGTATACCACATAAGCAATTAATTATTTTTAAAAAAATCTAAAGAAA
74872109 TATATAATTTTTTTTTACTTCTTTAATACTTATTAAGTTTTTTAAATAATTTTTTAAATTTTTTT
131 TATATAA-TTTTTTTTACTTCTTTAATACTTATTAAGTTTTTTAAATAATTTTTTAAATTTTTTT
*
74872174 AAAATTAAAAATTAATTAATTTGCTAACGTGGCATCCATCATCAA
195 AAAATTAAAAATTAATTAATTTGCTAACATGGCATCCATCATCAA
74872219 AGGTAATAAA
Statistics
Matches: 233, Mismatches: 6, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
239 133 0.57
240 100 0.43
ACGTcount: A:0.39, C:0.13, G:0.08, T:0.41
Consensus pattern (239 bp):
TATTTGTCAAATCACACCAAAATTGATAAAAAAAATTAATGTCTATTAACTTTACTGATGTGGCA
TCCATGTGGACACCCACATGTATACCACATAAGCAATTAATTATTTTTAAAAAAATCTAAAGAAA
TATATAATTTTTTTTACTTCTTTAATACTTATTAAGTTTTTTAAATAATTTTTTAAATTTTTTTA
AAATTAAAAATTAATTAATTTGCTAACATGGCATCCATCATCAA
Found at i:74880208 original size:23 final size:23
Alignment explanation
Indices: 74880175--74880218 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
74880165 CTCGGGTAAG
*
74880175 TTGTGTCAGGGTTACCCCTCAAT
1 TTGTGTCAGGGTTAACCCTCAAT
*
74880198 TTGTGTTAGGGTTAACCCTCA
1 TTGTGTCAGGGTTAACCCTCA
74880219 TCCCTTCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (23 bp):
TTGTGTCAGGGTTAACCCTCAAT
Found at i:74884471 original size:31 final size:31
Alignment explanation
Indices: 74884433--74884494 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
74884423 ATTAAATTGA
*
74884433 TGACTCCTCTTGCAATTTGTTTTCTCTTTCC
1 TGACTCCTCTTGCAATTTGTTTTCTCGTTCC
74884464 TGACTCCTCTTGCAATTTGTTTTCTCGTTCC
1 TGACTCCTCTTGCAATTTGTTTTCTCGTTCC
74884495 CTAATCAGCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.10, C:0.29, G:0.11, T:0.50
Consensus pattern (31 bp):
TGACTCCTCTTGCAATTTGTTTTCTCGTTCC
Found at i:74885489 original size:18 final size:18
Alignment explanation
Indices: 74885466--74885500 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
74885456 TACGGTATAC
74885466 TGTGCCTTAACAGTACAT
1 TGTGCCTTAACAGTACAT
*
74885484 TGTGCCTTAACGGTACA
1 TGTGCCTTAACAGTACA
74885501 CAGTACCTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (18 bp):
TGTGCCTTAACAGTACAT
Found at i:74885540 original size:18 final size:19
Alignment explanation
Indices: 74885513--74885553 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
74885503 GTACCTAAAC
* *
74885513 AGTAATCAGTAACGGTAGT
1 AGTAATCAGTAACAGTAAT
74885532 AGTAA-CAGTAACAGTAAT
1 AGTAATCAGTAACAGTAAT
74885550 AGTA
1 AGTA
74885554 TTCAACACAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.44, C:0.10, G:0.22, T:0.24
Consensus pattern (19 bp):
AGTAATCAGTAACAGTAAT
Found at i:74885583 original size:45 final size:45
Alignment explanation
Indices: 74885532--74885637 Score: 151
Period size: 45 Copynumber: 2.4 Consensus size: 45
74885522 TAACGGTAGT
* *
74885532 AGTAACAGTAACAGTAATAGTATTCAACACACGAAGT-TCTGAATC
1 AGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGTC-GAATC
* *
74885577 TGTAACAGTAACAGTAACAGTATTCAACATACAAAGTGTCGAATC
1 AGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGTCGAATC
*
74885622 AGTAACAGTAATAGTA
1 AGTAACAGTAACAGTA
74885638 GTCGGCACAT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
45 52 0.96
46 2 0.04
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.25
Consensus pattern (45 bp):
AGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGTCGAATC
Found at i:74885883 original size:40 final size:39
Alignment explanation
Indices: 74885837--74885923 Score: 104
Period size: 40 Copynumber: 2.2 Consensus size: 39
74885827 AATTCATTAC
* * *
74885837 TTCAGTAATTTCATAGTTCAATGCAGTA-CACATAACAATA
1 TTCAGTAACTTCACAATTCAATGCAGTATC-CA-AACAATA
*
74885877 TTCAGTAACTTCACAATTCAATTCAGTATTCCAAACAATA
1 TTCAGTAACTTCACAATTCAATGCAGTA-TCCAAACAATA
74885917 TTCAGTA
1 TTCAGTA
74885924 TTCCATAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
40 38 0.93
41 2 0.05
42 1 0.02
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (39 bp):
TTCAGTAACTTCACAATTCAATGCAGTATCCAAACAATA
Found at i:74897342 original size:29 final size:26
Alignment explanation
Indices: 74897283--74897344 Score: 72
Period size: 29 Copynumber: 2.3 Consensus size: 26
74897273 TAGCAATTAA
74897283 TTAA-TTTTTTAAAAATTAAAAAAAT
1 TTAATTTTTTTAAAAATTAAAAAAAT
*
74897308 TATAATTTTTTTAAATAATGTAAATAAACT
1 T-TAATTTTTTTAAA-AAT-TAAA-AAAAT
74897338 TTAATTT
1 TTAATTT
74897345 ATTAAAACGA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
25 1 0.03
26 3 0.10
27 9 0.29
28 3 0.10
29 10 0.32
30 5 0.16
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (26 bp):
TTAATTTTTTTAAAAATTAAAAAAAT
Found at i:74898340 original size:15 final size:15
Alignment explanation
Indices: 74898320--74898348 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
74898310 TATAATAAAT
74898320 TATTAAAAAAATTAA
1 TATTAAAAAAATTAA
74898335 TATTAAAAAAATTA
1 TATTAAAAAAATTA
74898349 GTCAAAATTT
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:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
TATTAAAAAAATTAA
Found at i:74899327 original size:22 final size:22
Alignment explanation
Indices: 74899299--74899351 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
74899289 AATTAGAGTT
74899299 TTAGGGTTTTAAATAAATAAAA
1 TTAGGGTTTTAAATAAATAAAA
*
74899321 TTAGGGTTTTAAATAAATTAAA
1 TTAGGGTTTTAAATAAATAAAA
*
74899343 CTAGGGTTT
1 TTAGGGTTT
74899352 ATGGGTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.42, C:0.02, G:0.17, T:0.40
Consensus pattern (22 bp):
TTAGGGTTTTAAATAAATAAAA
Found at i:74899398 original size:30 final size:28
Alignment explanation
Indices: 74899364--74899438 Score: 71
Period size: 30 Copynumber: 2.6 Consensus size: 28
74899354 GGGTTTTAGG
* *
74899364 TAAATTAACTAAATTAAGGTTCTAGGATTT
1 TAAATTAAATAAATTAAGGTT-TAGG-GTT
*
74899394 TAAA-TAAATAAAATTAGGGTTTAGGGTT
1 TAAATTAAAT-AAATTAAGGTTTAGGGTT
* *
74899422 AAAATTAATTAAATTAA
1 TAAATTAAATAAATTAA
74899439 AACAACATTG
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
28 11 0.30
29 12 0.32
30 14 0.38
ACGTcount: A:0.47, C:0.03, G:0.13, T:0.37
Consensus pattern (28 bp):
TAAATTAAATAAATTAAGGTTTAGGGTT
Found at i:74899721 original size:125 final size:125
Alignment explanation
Indices: 74899487--74899733 Score: 415
Period size: 125 Copynumber: 2.0 Consensus size: 125
74899477 TTTGACCTTA
* * *
74899487 AAGAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGTAT
1 AAGAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAC
* *
74899552 TGTTAGCAAAATTTCTGAAAAAAGCTCCCACGTAGACGCTTTTTTCTACAGTAGTTCCTG
66 TATCAGCAAAATTTCTGAAAAAAGCTCCCACGTAGACGCTTTTTTCTACAGTAGTTCCTG
*
74899612 AAGAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGTTTCAAGCAGGATGCAC
1 AAGAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAC
*
74899677 TATCAGCAAAATTTCT-AAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTC
66 TATCAGCAAAATTTCTGAAAAAAGCTCCCACGTAGACGCT-TTTTTCTACAGTAGTTC
74899734 ATGCTTGGCC
Statistics
Matches: 114, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
124 22 0.19
125 92 0.81
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.29
Consensus pattern (125 bp):
AAGAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAC
TATCAGCAAAATTTCTGAAAAAAGCTCCCACGTAGACGCTTTTTTCTACAGTAGTTCCTG
Found at i:74900341 original size:12 final size:12
Alignment explanation
Indices: 74900324--74900348 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
74900314 TACACGACAC
74900324 TCGGTTAGTGGA
1 TCGGTTAGTGGA
74900336 TCGGTTAGTGGA
1 TCGGTTAGTGGA
74900348 T
1 T
74900349 GGGACATGTA
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:0.16, C:0.08, G:0.40, T:0.36
Consensus pattern (12 bp):
TCGGTTAGTGGA
Found at i:74903367 original size:30 final size:30
Alignment explanation
Indices: 74903333--74903427 Score: 109
Period size: 30 Copynumber: 3.2 Consensus size: 30
74903323 ATTGAGGCAT
74903333 TGGGCTCGGTGATTGTGTGGGTACTGTTGA
1 TGGGCTCGGTGATTGTGTGGGTACTGTTGA
** * *
74903363 TGGGCTCGGTGATTGTGTAAGTGCTATTGA
1 TGGGCTCGGTGATTGTGTGGGTACTGTTGA
* * ** *
74903393 TGGGCCCGATGATTGTGTGGACACGGTTGA
1 TGGGCTCGGTGATTGTGTGGGTACTGTTGA
74903423 TGGGC
1 TGGGC
74903428 CTGTCCCATC
Statistics
Matches: 52, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
30 52 1.00
ACGTcount: A:0.14, C:0.13, G:0.41, T:0.33
Consensus pattern (30 bp):
TGGGCTCGGTGATTGTGTGGGTACTGTTGA
Found at i:74903937 original size:7 final size:7
Alignment explanation
Indices: 74903927--74903958 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
74903917 TTATATACAT
74903927 AATACTA
1 AATACTA
74903934 AATACTA
1 AATACTA
74903941 AATACTA
1 AATACTA
*
74903948 AGTACTA
1 AATACTA
74903955 AATA
1 AATA
74903959 TGAAATAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.56, C:0.12, G:0.03, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:74903998 original size:29 final size:29
Alignment explanation
Indices: 74903946--74904005 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
74903936 TACTAAATAC
* *
74903946 TAAGTACTAAATATGAAATAACTATTTTA
1 TAAGTACTAAATATGAAACAACTATTATA
*
74903975 TAAGTACTAAATATGAAACGACTATTATA
1 TAAGTACTAAATATGAAACAACTATTATA
74904004 TA
1 TA
74904006 TATATATATT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.35
Consensus pattern (29 bp):
TAAGTACTAAATATGAAACAACTATTATA
Found at i:74904946 original size:52 final size:53
Alignment explanation
Indices: 74904878--74904985 Score: 191
Period size: 53 Copynumber: 2.1 Consensus size: 53
74904868 AAATACAAAT
74904878 TAATTAAAATTACATAAATG-AAAAAATATTAAATAATATTCAAAAATTAAAA
1 TAATTAAAATTACATAAATGAAAAAAATATTAAATAATATTCAAAAATTAAAA
* *
74904930 TAATTAAAATTACATAAATGAAAAAAATATTAAATAATATTCAACATTTAAAA
1 TAATTAAAATTACATAAATGAAAAAAATATTAAATAATATTCAAAAATTAAAA
74904983 TAA
1 TAA
74904986 ACCGTTACCA
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
52 20 0.38
53 33 0.62
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.31
Consensus pattern (53 bp):
TAATTAAAATTACATAAATGAAAAAAATATTAAATAATATTCAAAAATTAAAA
Found at i:74904955 original size:26 final size:26
Alignment explanation
Indices: 74904878--74904963 Score: 81
Period size: 26 Copynumber: 3.3 Consensus size: 26
74904868 AAATACAAAT
74904878 TAATTAAAATTACATAAATGAAAAAA
1 TAATTAAAATTACATAAATGAAAAAA
* * *
74904904 T-ATTAAATAATATTCAAAAAT--TAAAA
1 TAATT-AA-AAT-TACATAAATGAAAAAA
74904930 TAATTAAAATTACATAAATGAAAAAA
1 TAATTAAAATTACATAAATGAAAAAA
74904956 -ATATTAAA
1 TA-ATTAAA
74904964 TAATATTCAA
Statistics
Matches: 47, Mismatches: 6, Indels: 14
0.70 0.09 0.21
Matches are distributed among these distances:
24 7 0.15
25 7 0.15
26 20 0.43
27 6 0.13
28 7 0.15
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.30
Consensus pattern (26 bp):
TAATTAAAATTACATAAATGAAAAAA
Found at i:74906422 original size:57 final size:57
Alignment explanation
Indices: 74906339--74906457 Score: 220
Period size: 57 Copynumber: 2.1 Consensus size: 57
74906329 TCATTGAGAA
*
74906339 TGTAGAGTTCGTTAGAAGAATATGTGAAACAACATAATTTCAAGAAGGCGAGAATGT
1 TGTAGAGTTCGTTAGAAGAATATGTGAAACAACATAATTTCAAGAAGGCGAGAATAT
*
74906396 TGTAGAGTTCGTTAGAAGAATCTGTGAAACAACATAATTTCAAGAAGGCGAGAATAT
1 TGTAGAGTTCGTTAGAAGAATATGTGAAACAACATAATTTCAAGAAGGCGAGAATAT
74906453 TGTAG
1 TGTAG
74906458 GTAAGATAGA
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 60 1.00
ACGTcount: A:0.39, C:0.09, G:0.24, T:0.27
Consensus pattern (57 bp):
TGTAGAGTTCGTTAGAAGAATATGTGAAACAACATAATTTCAAGAAGGCGAGAATAT
Found at i:74916388 original size:43 final size:43
Alignment explanation
Indices: 74916283--74916390 Score: 135
Period size: 43 Copynumber: 2.5 Consensus size: 43
74916273 TAGCCTAGCT
* * *
74916283 ATGGTCTTACACAAAATCAAATAACGATGCTAACGTCCCAAAC
1 ATGGTCTTACACATAATCACATAACGATGCCAACGTCCCAAAC
** * ** *
74916326 ATGGTCTTACATGTAATCACATAATGATGCCAATTTCCCAGAC
1 ATGGTCTTACACATAATCACATAACGATGCCAACGTCCCAAAC
74916369 ATGGTCTTACACATAATCACAT
1 ATGGTCTTACACATAATCACAT
74916391 CTCATTAATC
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 54 1.00
ACGTcount: A:0.37, C:0.24, G:0.12, T:0.27
Consensus pattern (43 bp):
ATGGTCTTACACATAATCACATAACGATGCCAACGTCCCAAAC
Done.