Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 120 of 259
Found at i:38806996 original size:16 final size:16
Alignment explanation
Indices: 38806975--38807005 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
38806965 TGAGCCTTCC
38806975 ATCAGCTTCAATGTTA
1 ATCAGCTTCAATGTTA
38806991 ATCAGCTTCAATGTT
1 ATCAGCTTCAATGTT
38807006 GCATTAAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.39
Consensus pattern (16 bp):
ATCAGCTTCAATGTTA
Found at i:38807193 original size:20 final size:20
Alignment explanation
Indices: 38807156--38807193 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
38807146 TCTGTAATAA
**
38807156 TTTGTGTAATTAGGCAATGT
1 TTTGTGTAATTACACAATGT
38807176 TTTGTGTAATTACACAAT
1 TTTGTGTAATTACACAAT
38807194 ACATTACGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.08, G:0.18, T:0.45
Consensus pattern (20 bp):
TTTGTGTAATTACACAATGT
Found at i:38807227 original size:60 final size:59
Alignment explanation
Indices: 38807069--38807285 Score: 249
Period size: 60 Copynumber: 3.7 Consensus size: 59
38807059 GCAATTTGTG
* ** * *
38807069 TTACACAAAACTTTATTAGATTTGTAACAATTTGTGTAATAAGGCAATG--TTGTGTAA
1 TTACACAAAACATTACGATATTTGTAACAATTTGTGTAATTAGGCAATGTTTTGTGTAA
* * * * *
38807126 TTACACAAAACTTTATGAGATCTGTAATAATTTGTGTAATTAGGCAATGTTTTGTGTAA
1 TTACACAAAACATTACGATATTTGTAACAATTTGTGTAATTAGGCAATGTTTTGTGTAA
* * *
38807185 TTACACAATACATTACGAATATTTGTAACAATTTGTGCAATTAGGTAATGTTTTGTGTAA
1 TTACACAAAACATTACG-ATATTTGTAACAATTTGTGTAATTAGGCAATGTTTTGTGTAA
* * * * *
38807245 TTATACAAAACATTACCATAGTTGTAATAATTTGTATAATT
1 TTACACAAAACATTACGATATTTGTAACAATTTGTGTAATT
38807286 GAGTATGTTT
Statistics
Matches: 138, Mismatches: 19, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
57 45 0.33
59 42 0.30
60 51 0.37
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.40
Consensus pattern (59 bp):
TTACACAAAACATTACGATATTTGTAACAATTTGTGTAATTAGGCAATGTTTTGTGTAA
Found at i:38808084 original size:74 final size:74
Alignment explanation
Indices: 38807993--38808135 Score: 207
Period size: 74 Copynumber: 1.9 Consensus size: 74
38807983 ATGCAACATA
* * **
38807993 TTTACTTCACATCAAATGATGTTTTTAAAAGGAACCTTGACATTTCAAATTCCATTAACAATGTC
1 TTTACTTCACATAAAATGATGTTTTTAAAAGGAAACTTGACATTTCAAATTCCAGAAACAATGTC
38808058 TATATGGCC
66 TATATGGCC
* *
38808067 TTTACTTCGA-ATAAAATGATGTTTTTAACAGGAAACTTGACATTTCAAATTTCAGAAACAATGT
1 TTTACTTC-ACATAAAATGATGTTTTTAAAAGGAAACTTGACATTTCAAATTCCAGAAACAATGT
*
38808131 TTATA
65 CTATA
38808136 CAGCCAACTG
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
74 60 0.98
75 1 0.02
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.37
Consensus pattern (74 bp):
TTTACTTCACATAAAATGATGTTTTTAAAAGGAAACTTGACATTTCAAATTCCAGAAACAATGTC
TATATGGCC
Found at i:38811946 original size:91 final size:91
Alignment explanation
Indices: 38811842--38812024 Score: 357
Period size: 91 Copynumber: 2.0 Consensus size: 91
38811832 CCATAAAGAT
38811842 TGTTGTTTGATGTAACCCAAGTGAAATTGCTTCTATGCATTTCAAAGCTAGAATTAGATACACTA
1 TGTTGTTTGATGTAACCCAAGTGAAATTGCTTCTATGCATTTCAAAGCTAGAATTAGATACACTA
*
38811907 GCGTAAGATTTTGCATAAAAAAGTTA
66 GCGTAAAATTTTGCATAAAAAAGTTA
38811933 TGTTGTTTGATGTAACCCAAGTGAAATTGCTTCTATGCATTTCAAAGCTAGAATTAGATACACTA
1 TGTTGTTTGATGTAACCCAAGTGAAATTGCTTCTATGCATTTCAAAGCTAGAATTAGATACACTA
38811998 GCGTAAAATTTTGCATAAAAAAGTTA
66 GCGTAAAATTTTGCATAAAAAAGTTA
38812024 T
1 T
38812025 TATAGAAATT
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
91 91 1.00
ACGTcount: A:0.36, C:0.13, G:0.17, T:0.34
Consensus pattern (91 bp):
TGTTGTTTGATGTAACCCAAGTGAAATTGCTTCTATGCATTTCAAAGCTAGAATTAGATACACTA
GCGTAAAATTTTGCATAAAAAAGTTA
Found at i:38812791 original size:3 final size:3
Alignment explanation
Indices: 38812783--38812821 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
38812773 TGATTTGAAG
38812783 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
38812822 GATCATGATC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:38817700 original size:40 final size:40
Alignment explanation
Indices: 38817636--38817711 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 40
38817626 TATACATATA
*
38817636 TAGCCGAAGCTATCTCCAATCGCACACCAAGTGCCACATT
1 TAGCCGAAGCTATCTCCAACCGCACACCAAGTGCCACATT
* ** *
38817676 TAGCCGAAGCTATTTTGAACCGCACACTAAGTGCCA
1 TAGCCGAAGCTATCTCCAACCGCACACCAAGTGCCA
38817712 TTTTTTTAGC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.30, C:0.32, G:0.17, T:0.21
Consensus pattern (40 bp):
TAGCCGAAGCTATCTCCAACCGCACACCAAGTGCCACATT
Found at i:38820204 original size:14 final size:14
Alignment explanation
Indices: 38820185--38820213 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
38820175 TACTCGTGAT
38820185 TACACAAAAATTCA
1 TACACAAAAATTCA
38820199 TACACAAAAATTCA
1 TACACAAAAATTCA
38820213 T
1 T
38820214 TACCATACCA
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:0.55, C:0.21, G:0.00, T:0.24
Consensus pattern (14 bp):
TACACAAAAATTCA
Found at i:38821495 original size:48 final size:48
Alignment explanation
Indices: 38821357--38821502 Score: 195
Period size: 48 Copynumber: 3.0 Consensus size: 48
38821347 AAATCTCATA
* * * *
38821357 CCGAAGCCTTATCCCAGATATGGTCTTACATATA-ATCTCATACCGATG
1 CCGATGCCATATCCCAGATATGGTCTTACACA-AGATCTCATATCGATG
*
38821405 CCGATGCCGTATCCCAGATATGGTCTTACACAAGATCTCATATCGATG
1 CCGATGCCATATCCCAGATATGGTCTTACACAAGATCTCATATCGATG
* * * *
38821453 CTGATGCCATATCCCAAATATGGTCTTACACAGGATCTCATATCAATG
1 CCGATGCCATATCCCAGATATGGTCTTACACAAGATCTCATATCGATG
38821501 CC
1 CC
38821503 ATGTCCCAGG
Statistics
Matches: 87, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
47 1 0.01
48 86 0.99
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (48 bp):
CCGATGCCATATCCCAGATATGGTCTTACACAAGATCTCATATCGATG
Found at i:38821538 original size:36 final size:37
Alignment explanation
Indices: 38821496--38821731 Score: 302
Period size: 36 Copynumber: 6.5 Consensus size: 37
38821486 GATCTCATAT
38821496 CAATGCCAT-GTCCCAGGC-ATGGTCTTACATGT-ATCA
1 CAATGCCATAG-CCCA-GCTATGGTCTTACATGTCATCA
38821532 CAATGCCATAGCCCAGCTATGGTCTTACATGTCATCA
1 CAATGCCATAGCCCAGCTATGGTCTTACATGTCATCA
** * *
38821569 TGATGCCATAGCCCAGCTATGGTTTTACACGT-ATCA
1 CAATGCCATAGCCCAGCTATGGTCTTACATGTCATCA
38821605 CAATGCCATAGCCCAGCTATGGTCTTACATGTCATCA
1 CAATGCCATAGCCCAGCTATGGTCTTACATGTCATCA
* * * * *
38821642 CGATGCCATAGTCCAACTATGGTATTACACGT-ATCA
1 CAATGCCATAGCCCAGCTATGGTCTTACATGTCATCA
*
38821678 CAATGCCATAGCCCAGCTATGGTTTTACATGTCATCA
1 CAATGCCATAGCCCAGCTATGGTCTTACATGTCATCA
* * *
38821715 CGATACCAAAGCCCAGC
1 CAATGCCATAGCCCAGC
38821732 ATCACGATAC
Statistics
Matches: 174, Mismatches: 21, Indels: 9
0.85 0.10 0.04
Matches are distributed among these distances:
35 2 0.01
36 90 0.52
37 82 0.47
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (37 bp):
CAATGCCATAGCCCAGCTATGGTCTTACATGTCATCA
Found at i:38821597 original size:73 final size:73
Alignment explanation
Indices: 38821498--38821731 Score: 355
Period size: 73 Copynumber: 3.2 Consensus size: 73
38821488 TCTCATATCA
* *
38821498 ATGCCAT-GTCCCAGGC-ATGGTCTTACATGTATCACAATGCCATAGCCCAGCTATGGTCTTACA
1 ATGCCATAG-CCCA-GCTATGGTATTACACGTATCACAATGCCATAGCCCAGCTATGGTCTTACA
*
38821561 TGTCATCATG
64 TGTCATCACG
*
38821571 ATGCCATAGCCCAGCTATGGTTTTACACGTATCACAATGCCATAGCCCAGCTATGGTCTTACATG
1 ATGCCATAGCCCAGCTATGGTATTACACGTATCACAATGCCATAGCCCAGCTATGGTCTTACATG
38821636 TCATCACG
66 TCATCACG
* * *
38821644 ATGCCATAGTCCAACTATGGTATTACACGTATCACAATGCCATAGCCCAGCTATGGTTTTACATG
1 ATGCCATAGCCCAGCTATGGTATTACACGTATCACAATGCCATAGCCCAGCTATGGTCTTACATG
38821709 TCATCACG
66 TCATCACG
* *
38821717 ATACCAAAGCCCAGC
1 ATGCCATAGCCCAGC
38821732 ATCACGATAC
Statistics
Matches: 148, Mismatches: 11, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
72 2 0.01
73 145 0.98
74 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.27
Consensus pattern (73 bp):
ATGCCATAGCCCAGCTATGGTATTACACGTATCACAATGCCATAGCCCAGCTATGGTCTTACATG
TCATCACG
Found at i:38821736 original size:21 final size:21
Alignment explanation
Indices: 38821710--38821752 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
38821700 TTTTACATGT
38821710 CATCACGATACCAAAGCCCAG
1 CATCACGATACCAAAGCCCAG
38821731 CATCACGATACCAAAGCCCAG
1 CATCACGATACCAAAGCCCAG
38821752 C
1 C
38821753 TATGGTCTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.40, G:0.14, T:0.09
Consensus pattern (21 bp):
CATCACGATACCAAAGCCCAG
Found at i:38824819 original size:17 final size:17
Alignment explanation
Indices: 38824799--38824834 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
38824789 TATCTCAATC
38824799 TATATAATATCAAAATT
1 TATATAATATCAAAATT
38824816 TATATAATATCAAAATT
1 TATATAATATCAAAATT
38824833 TA
1 TA
38824835 CTTATTTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.42
Consensus pattern (17 bp):
TATATAATATCAAAATT
Found at i:38828439 original size:38 final size:38
Alignment explanation
Indices: 38828347--38828422 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
38828337 TTGGCATAAG
38828347 TTAGACTATAAATTGAACATATGCATTTGCATGAATTT
1 TTAGACTATAAATTGAACATATGCATTTGCATGAATTT
38828385 TTAGACTATAAATTGAACATATGCATTTGCATGAATTT
1 TTAGACTATAAATTGAACATATGCATTTGCATGAATTT
38828423 GTTTATATTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (38 bp):
TTAGACTATAAATTGAACATATGCATTTGCATGAATTT
Found at i:38831516 original size:21 final size:21
Alignment explanation
Indices: 38831454--38831517 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 21
38831444 GAGTTACACG
*
38831454 GCCTG-TTCACATGGCCGTGT
1 GCCTGCTTCACACGGCCGTGT
*
38831474 CCCTGCTTCACACGAG-CGTGT
1 GCCTGCTTCACACG-GCCGTGT
38831495 GCCT-CTGTCACACGGCCGTGT
1 GCCTGCT-TCACACGGCCGTGT
38831516 GC
1 GC
38831518 TACCATTCAC
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
20 7 0.19
21 29 0.78
22 1 0.03
ACGTcount: A:0.11, C:0.36, G:0.28, T:0.25
Consensus pattern (21 bp):
GCCTGCTTCACACGGCCGTGT
Found at i:38832189 original size:92 final size:93
Alignment explanation
Indices: 38832025--38832199 Score: 248
Period size: 92 Copynumber: 1.9 Consensus size: 93
38832015 TACTGATAAC
* * * * *
38832025 AGTATAGCAGATTACCGCATTGCACTGTACCACATGTATGTTAGCTACGCTACGTACCATTGACT
1 AGTATAGCAGATTACCACATTGCACTGTACCACATGTACGTTAGCCACACTACGTACCACTGACT
38832090 GGACTGGCAATTT-TACTGCAACCTATT
66 GGACTGGCAATTTATACTGCAACCTATT
*
38832117 AGTATAGCAGATTACCACATTGCACTGTACCGCATGTACGTTAGCCACACTACGTACCACT-ATC
1 AGTATAGCAGATTACCACATTGCACTGTACCACATGTACGTTAGCCACACTACGTACCACTGA-C
*
38832181 T-GATCTGGCAGTTTATACT
65 TGGA-CTGGCAATTTATACT
38832200 ACATGTCTGT
Statistics
Matches: 73, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
91 3 0.04
92 66 0.90
93 4 0.05
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (93 bp):
AGTATAGCAGATTACCACATTGCACTGTACCACATGTACGTTAGCCACACTACGTACCACTGACT
GGACTGGCAATTTATACTGCAACCTATT
Found at i:38833943 original size:28 final size:27
Alignment explanation
Indices: 38833880--38834031 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
38833870 ATATTAAGTC
* *
38833880 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
38833907 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
*
38833935 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
38833962 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* *
38833990 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
38834017 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
38834032 GCACAATTTA
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:38833964 original size:55 final size:55
Alignment explanation
Indices: 38833880--38834056 Score: 264
Period size: 55 Copynumber: 3.2 Consensus size: 55
38833870 ATATTAAGTC
* * *
38833880 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
38833935 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
* * * * *
38833990 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCTGCACAATTTAAACC
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAA-TCAAACT
38834046 CGCACACTTAG
1 CGCACACTTAG
38834057 CGCCAATCTC
Statistics
Matches: 111, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
55 95 0.86
56 16 0.14
ACGTcount: A:0.32, C:0.29, G:0.14, T:0.25
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:38837635 original size:40 final size:40
Alignment explanation
Indices: 38837587--38837814 Score: 402
Period size: 40 Copynumber: 5.7 Consensus size: 40
38837577 GCAAACACAT
* * *
38837587 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
38837627 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
38837667 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
38837707 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
38837747 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
38837787 TTGCCTTCGGGTCTTAGCCTGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
38837815 TCCAATGCTC
Statistics
Matches: 180, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 180 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:38857051 original size:26 final size:26
Alignment explanation
Indices: 38857015--38857125 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
38857005 AGCATTGCTT
* *
38857015 CCAGAATAGATAATGTGACAGAGTCA
1 CCAGAATAGATAATGTGGCAGAGCCA
38857041 CCAGAATAGATAATTGTGGCAGAGCCA
1 CCAGAATAGATAA-TGTGGCAGAGCCA
* *
38857068 CCAGAACAGATATATGTGGCAAAGCCA
1 CCAGAATAGATA-ATGTGGCAGAGCCA
*
38857095 CCAG-ATCAGATAAATGTGGCATAGCCA
1 CCAGAAT-AGAT-AATGTGGCAGAGCCA
38857122 CCAG
1 CCAG
38857126 GATGGTACCT
Statistics
Matches: 75, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 14 0.19
27 59 0.79
28 2 0.03
ACGTcount: A:0.39, C:0.21, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAATAGATAATGTGGCAGAGCCA
Found at i:38858567 original size:24 final size:24
Alignment explanation
Indices: 38858532--38858632 Score: 148
Period size: 24 Copynumber: 4.2 Consensus size: 24
38858522 CCAACACTGT
* *
38858532 TCTCCCTAATCAGCTCCTAAATCC
1 TCTCCCTTATCAACTCCTAAATCC
* *
38858556 TCTCCCTTATCAGCTTCTAAATCC
1 TCTCCCTTATCAACTCCTAAATCC
*
38858580 TATCCCTTATCAACTCCTAAATCC
1 TCTCCCTTATCAACTCCTAAATCC
*
38858604 TATCCCTTATCAACTCCTAAATCC
1 TCTCCCTTATCAACTCCTAAATCC
38858628 TCTCC
1 TCTCC
38858633 TGACAGACTT
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 71 1.00
ACGTcount: A:0.25, C:0.40, G:0.02, T:0.34
Consensus pattern (24 bp):
TCTCCCTTATCAACTCCTAAATCC
Found at i:38860144 original size:19 final size:20
Alignment explanation
Indices: 38860120--38860157 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
38860110 GGTACCACCA
38860120 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
38860139 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
38860158 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:38860505 original size:93 final size:93
Alignment explanation
Indices: 38860387--38860557 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
38860377 GCCCCTAAGT
* * *
38860387 GAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCATAAATGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGTTCGGACATTCGCATCCATAAATGAACTCAGACTCAACTCAA
38860452 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
38860480 GAACTCGGACTCAACTCAACAAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGTTCGGACATTCGCATCCATAAATGAACTCAGACTCAACTCAA
38860545 CGAGTTCGGATGC
66 CGAGTTCGGATGC
38860558 TCAACCATCC
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:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACAAGTTCGGACATTCGCATCCATAAATGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:38860554 original size:46 final size:46
Alignment explanation
Indices: 38860382--38860554 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
38860372 AACCCGCCCC
* * *
38860382 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * * *
38860428 TAAATGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* * *
38860476 TCA-CGAACTCGGACTCAACTCAACAAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
38860521 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
38860555 TGCTCAACCA
Statistics
Matches: 104, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 59 0.57
47 27 0.26
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:38861011 original size:30 final size:30
Alignment explanation
Indices: 38860977--38861036 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
38860967 ATTTAATACG
38860977 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** *
38861007 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
38861037 GGCTCGAGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:38873840 original size:34 final size:33
Alignment explanation
Indices: 38873792--38873855 Score: 101
Period size: 34 Copynumber: 1.9 Consensus size: 33
38873782 CTGATTGCAT
*
38873792 ACTGTACTGATACTGAAATGGGCTCAGGCCTAG
1 ACTGTACTGATACTGAAATGGGCTAAGGCCTAG
*
38873825 ACTGCTACTGTTACTGAAATGGGCTAAGGCC
1 ACTG-TACTGATACTGAAATGGGCTAAGGCC
38873856 CTAACTGAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
33 4 0.14
34 24 0.86
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.25
Consensus pattern (33 bp):
ACTGTACTGATACTGAAATGGGCTAAGGCCTAG
Found at i:38874725 original size:41 final size:41
Alignment explanation
Indices: 38874680--38874860 Score: 229
Period size: 41 Copynumber: 4.4 Consensus size: 41
38874670 CGTTTTATCA
* *
38874680 AAAACGCCACTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAACCGGAGCATTAGCGGCGCTTTTGGT
* ** *
38874721 AAAACGCTGCTAAAAAATGGAACATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAACCGGAGCATTAGCGGCGCTTTTGGT
* * *
38874762 AAAATGCTGCTAATAAA-CGGAGCATTAGCGGCACTTTTGGT
1 AAAACGCCGCTAA-AAACCGGAGCATTAGCGGCGCTTTTGGT
* **
38874803 AAAACACCGCTAAAAAATGGAGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAACCGGAGCATTAGCGGCGCTTTTGGT
*
38874844 AAAGCGCCGCTAAAAAC
1 AAAACGCCGCTAAAAAC
38874861 AGGATCAATA
Statistics
Matches: 120, Mismatches: 18, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
40 3 0.03
41 114 0.95
42 3 0.03
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (41 bp):
AAAACGCCGCTAAAAACCGGAGCATTAGCGGCGCTTTTGGT
Found at i:38874856 original size:82 final size:81
Alignment explanation
Indices: 38874680--38874860 Score: 263
Period size: 82 Copynumber: 2.2 Consensus size: 81
38874670 CGTTTTATCA
* * * * *
38874680 AAAACGCCACTAAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCTGCTAAAAAATGGAACA
1 AAAACGCCGCTAAAAA-CGGAGCATTAGCGGCACTTTTGGTAAAACACCGCTAAAAAATGGAACA
38874745 TTAGCGGCGCTTTTGGT
65 TTAGCGGCGCTTTTGGT
* * *
38874762 AAAATGCTGCTAATAAACGGAGCATTAGCGGCACTTTTGGTAAAACACCGCTAAAAAATGGAGCA
1 AAAACGCCGCTAA-AAACGGAGCATTAGCGGCACTTTTGGTAAAACACCGCTAAAAAATGGAACA
38874827 TTAGCGGCGCTTTTGGT
65 TTAGCGGCGCTTTTGGT
*
38874844 AAAGCGCCGCTAAAAAC
1 AAAACGCCGCTAAAAAC
38874861 AGGATCAATA
Statistics
Matches: 87, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
81 4 0.05
82 80 0.92
83 3 0.03
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (81 bp):
AAAACGCCGCTAAAAACGGAGCATTAGCGGCACTTTTGGTAAAACACCGCTAAAAAATGGAACAT
TAGCGGCGCTTTTGGT
Found at i:38874985 original size:37 final size:37
Alignment explanation
Indices: 38874943--38875013 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 37
38874933 AAAAAATCAG
* * *
38874943 AAACACTAATCTATAACTCCTAAAACAGTAAACCCAT
1 AAACACTAAACTATAACCCCTAAAACACTAAACCCAT
*
38874980 AAACACTAAACTATTACCCCTAAAACACTAAACC
1 AAACACTAAACTATAACCCCTAAAACACTAAACC
38875014 AGTTTATGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.49, C:0.30, G:0.01, T:0.20
Consensus pattern (37 bp):
AAACACTAAACTATAACCCCTAAAACACTAAACCCAT
Found at i:38875512 original size:14 final size:15
Alignment explanation
Indices: 38875478--38875519 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 15
38875468 AGAGTTATGA
38875478 ATTTATGGGTTATAAG
1 ATTTA-GGGTTATAAG
*
38875494 GTTTAGGGTT-TAAG
1 ATTTAGGGTTATAAG
38875508 ATTTAGGTGTTA
1 ATTTAGG-GTTA
38875520 GGGGTTTTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 10 0.45
15 8 0.36
16 4 0.18
ACGTcount: A:0.26, C:0.00, G:0.29, T:0.45
Consensus pattern (15 bp):
ATTTAGGGTTATAAG
Found at i:38875870 original size:18 final size:17
Alignment explanation
Indices: 38875833--38875867 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
38875823 TATATAAGTG
38875833 ATTGTTTTTTAATTTAT
1 ATTGTTTTTTAATTTAT
38875850 ATTG-TTTTTAATTTAT
1 ATTGTTTTTTAATTTAT
38875866 AT
1 AT
38875868 ATTTTAAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.69
Consensus pattern (17 bp):
ATTGTTTTTTAATTTAT
Found at i:38876117 original size:115 final size:115
Alignment explanation
Indices: 38875980--38876297 Score: 471
Period size: 115 Copynumber: 2.8 Consensus size: 115
38875970 ACAAAACGGA
* * *
38875980 GCCGTTTTATTGGAT-TTGTTAGTGGCGTTTTGCGCAAAACGCCGCAATAGGTGCGTTTTTAGCG
1 GCCGTTTTATT--ATATTATTAGTGGCGTTTTGGGCTAAACGCCGCAATAGGTGCGTTTTTAGCG
38876044 GCGCTAGGATATAAACGCCGCTAAAGGTGATTTCAGTTAAAACAAAAACAGC
64 GCGCTAGGATATAAACGCCGCTAAAGGTGATTTCAGTTAAAACAAAAACAGC
* *
38876096 GCCGTTTTGTTATATTATTAGTGGCGTTTTGGGGCTAAACGCCGCAATAGGTGCG-TTTTAGCGA
1 GCCGTTTTATTATATTATTAGTGGCGTTTT-GGGCTAAACGCCGCAATAGGTGCGTTTTTAGCGG
* **
38876160 CGCTAGGGTATAAACGCCGCTAAAGGTGATTTCAGTTAAAACAAAAATGGC
65 CGCTAGGATATAAACGCCGCTAAAGGTGATTTCAGTTAAAACAAAAACAGC
* *
38876211 GTCGTTTTATTATATTATTAGTGGCGTTTTGAGGCTAAACGCCGCAATAGATG-GTTTTTAGCGG
1 GCCGTTTTATTATATTATTAGTGGCGTTTTG-GGCTAAACGCCGCAATAGGTGCGTTTTTAGCGG
* *
38876275 CGCTAGGTTATAAACACCGCTAA
65 CGCTAGGATATAAACGCCGCTAA
38876298 TGTTAAATTA
Statistics
Matches: 184, Mismatches: 14, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
114 4 0.02
115 148 0.80
116 32 0.17
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.31
Consensus pattern (115 bp):
GCCGTTTTATTATATTATTAGTGGCGTTTTGGGCTAAACGCCGCAATAGGTGCGTTTTTAGCGGC
GCTAGGATATAAACGCCGCTAAAGGTGATTTCAGTTAAAACAAAAACAGC
Found at i:38879711 original size:28 final size:27
Alignment explanation
Indices: 38879654--38879805 Score: 241
Period size: 27 Copynumber: 5.6 Consensus size: 27
38879644 TAAATTGTGC
*
38879654 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
38879681 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
38879709 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
38879736 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
* *
38879764 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
38879791 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
38879806 GACTTAATAT
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:38879719 original size:55 final size:55
Alignment explanation
Indices: 38879654--38879805 Score: 259
Period size: 55 Copynumber: 2.8 Consensus size: 55
38879644 TAAATTGTGC
*
38879654 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
*
38879709 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * *
38879764 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
38879806 GACTTAATAT
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 92 1.00
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:38887374 original size:12 final size:12
Alignment explanation
Indices: 38887357--38887382 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
38887347 CATTCCGAAG
38887357 TATATATATACA
1 TATATATATACA
38887369 TATATATATACA
1 TATATATATACA
38887381 TA
1 TA
38887383 AGTATGCCAT
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:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
TATATATATACA
Found at i:38887915 original size:28 final size:27
Alignment explanation
Indices: 38887858--38888009 Score: 241
Period size: 27 Copynumber: 5.6 Consensus size: 27
38887848 TAAATTGTGC
*
38887858 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
38887885 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
38887913 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
38887940 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
* *
38887968 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
38887995 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
38888010 GACTTAATAT
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:38887921 original size:55 final size:55
Alignment explanation
Indices: 38887858--38888009 Score: 259
Period size: 55 Copynumber: 2.8 Consensus size: 55
38887848 TAAATTGTGC
*
38887858 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
*
38887913 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * *
38887968 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
38888010 GACTTAATAT
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 92 1.00
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:38892181 original size:28 final size:27
Alignment explanation
Indices: 38892124--38892275 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
38892114 TAAATTGTGC
* *
38892124 AGCACTAAGTGTGCGAATTGAATATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
38892151 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
38892179 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
38892206 AGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGT-TGACTATGT
* *
38892234 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
38892261 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
38892276 GACTTAATAA
Statistics
Matches: 118, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 66 0.56
28 52 0.44
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:38892189 original size:55 final size:55
Alignment explanation
Indices: 38892124--38892275 Score: 241
Period size: 55 Copynumber: 2.8 Consensus size: 55
38892114 TAAATTGTGC
* *
38892124 AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* *
38892179 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* * *
38892234 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCG
38892276 GACTTAATAA
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 90 1.00
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
Found at i:38894118 original size:9 final size:9
Alignment explanation
Indices: 38894096--38894139 Score: 63
Period size: 9 Copynumber: 4.9 Consensus size: 9
38894086 AATAAATATT
38894096 AATTAATT-
1 AATTAATTA
38894104 AATTAATTA
1 AATTAATTA
38894113 AATTAATTA
1 AATTAATTA
*
38894122 AATTAACTA
1 AATTAATTA
38894131 AATTTAATT
1 AA-TTAATT
38894140 CTCAATTCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
8 8 0.25
9 19 0.59
10 5 0.16
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (9 bp):
AATTAATTA
Found at i:38894139 original size:5 final size:4
Alignment explanation
Indices: 38894093--38894127 Score: 52
Period size: 4 Copynumber: 8.2 Consensus size: 4
38894083 TAAAATAAAT
38894093 ATTA ATTA ATTA ATTA ATTAA ATTA ATTAA ATTA A
1 ATTA ATTA ATTA ATTA ATT-A ATTA ATT-A ATTA A
38894128 CTAAATTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 21 0.72
5 8 0.28
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (4 bp):
ATTA
Found at i:38894153 original size:14 final size:14
Alignment explanation
Indices: 38894136--38894177 Score: 84
Period size: 14 Copynumber: 3.0 Consensus size: 14
38894126 AACTAAATTT
38894136 AATTCTCAATTCAA
1 AATTCTCAATTCAA
38894150 AATTCTCAATTCAA
1 AATTCTCAATTCAA
38894164 AATTCTCAATTCAA
1 AATTCTCAATTCAA
38894178 TTCTAATTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.43, C:0.21, G:0.00, T:0.36
Consensus pattern (14 bp):
AATTCTCAATTCAA
Found at i:38894188 original size:12 final size:12
Alignment explanation
Indices: 38894131--38894185 Score: 58
Period size: 14 Copynumber: 4.3 Consensus size: 12
38894121 AAATTAACTA
*
38894131 AATTTAATTCTC
1 AATTCAATTCTC
38894143 AATTCAAAATTCTC
1 AATTC--AATTCTC
38894157 AATTCAAAATTCTC
1 AATTC--AATTCTC
38894171 AATTCAATTCT-
1 AATTCAATTCTC
38894182 AATT
1 AATT
38894186 TCATTAAAGT
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
11 4 0.10
12 10 0.25
14 26 0.65
ACGTcount: A:0.40, C:0.18, G:0.00, T:0.42
Consensus pattern (12 bp):
AATTCAATTCTC
Found at i:38897687 original size:12 final size:12
Alignment explanation
Indices: 38897670--38897700 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
38897660 CACATATATG
38897670 ATATAATACCTC
1 ATATAATACCTC
*
38897682 ATATAATACTTC
1 ATATAATACCTC
38897694 ATATAAT
1 ATATAAT
38897701 CAAGTACACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.39
Consensus pattern (12 bp):
ATATAATACCTC
Found at i:38898703 original size:23 final size:23
Alignment explanation
Indices: 38898655--38898705 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
38898645 AAGTTCCATG
*
38898655 TTCATATATCACCGTCTCATACT
1 TTCATATATCACCGTATCATACT
* *
38898678 TTCATATATCA-TGTATCATCATT
1 TTCATATATCACCGTATCAT-ACT
38898701 TTCAT
1 TTCAT
38898706 GTATTTTAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 6 0.25
23 18 0.75
ACGTcount: A:0.27, C:0.24, G:0.04, T:0.45
Consensus pattern (23 bp):
TTCATATATCACCGTATCATACT
Found at i:38898961 original size:23 final size:24
Alignment explanation
Indices: 38898906--38898961 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
38898896 AGCCTTGTAA
* *
38898906 CGGGAAGCTCACACAGAGCCATTT
1 CGGGAAGCTCACAAAGAGCCATAT
* *
38898930 TGGGAAGCTCATAAAGAGCC-TAT
1 CGGGAAGCTCACAAAGAGCCATAT
38898953 CGGGAAGCT
1 CGGGAAGCT
38898962 TATCTGGGCT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 10 0.37
24 17 0.63
ACGTcount: A:0.30, C:0.23, G:0.29, T:0.18
Consensus pattern (24 bp):
CGGGAAGCTCACAAAGAGCCATAT
Found at i:38900153 original size:13 final size:13
Alignment explanation
Indices: 38900137--38900164 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
38900127 CTTTATTTTA
38900137 TTATTTTTCATCT
1 TTATTTTTCATCT
38900150 TTATTTTTCATCT
1 TTATTTTTCATCT
38900163 TT
1 TT
38900165 CCAATTTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (13 bp):
TTATTTTTCATCT
Found at i:38906130 original size:14 final size:16
Alignment explanation
Indices: 38906111--38906142 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
38906101 CTAGCTTTCC
38906111 TGTTAGAA-A-AATTT
1 TGTTAGAACATAATTT
38906125 TGTTAGAACATAATTT
1 TGTTAGAACATAATTT
38906141 TG
1 TG
38906143 GTGCACCACA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 1 0.06
16 7 0.44
ACGTcount: A:0.38, C:0.03, G:0.16, T:0.44
Consensus pattern (16 bp):
TGTTAGAACATAATTT
Found at i:38906912 original size:21 final size:21
Alignment explanation
Indices: 38906882--38906921 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
38906872 TACCTACTGT
*
38906882 GGTATCACAATATCCACTTTG
1 GGTATCACAATACCCACTTTG
*
38906903 GGTATTACAATACCCACTT
1 GGTATCACAATACCCACTT
38906922 GCCCAAGGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (21 bp):
GGTATCACAATACCCACTTTG
Found at i:38908482 original size:93 final size:93
Alignment explanation
Indices: 38908375--38908544 Score: 304
Period size: 93 Copynumber: 1.8 Consensus size: 93
38908365 CCCATAAGTG
* *
38908375 AACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAAC
38908440 GAGCTCGGATGCCTAGTTACATCTCTCA
66 GAGCTCGGATGCCTAGTTACATCTCTCA
*
38908468 AACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAAC
*
38908533 GAGTTCGGATGC
66 GAGCTCGGATGC
38908545 TCAACCATCC
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGCTCGGATGCCTAGTTACATCTCTCA
Found at i:38908541 original size:46 final size:46
Alignment explanation
Indices: 38908366--38908541 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
38908356 TGTAACCCGC
* *
38908366 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
* *
38908412 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-ATTTGCAT
* *
38908462 CTC-TCA---AACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
*
38908505 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
38908542 TGCTCAACCA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 1 0.01
43 9 0.08
44 1 0.01
46 64 0.57
47 27 0.24
49 1 0.01
50 8 0.07
51 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
Found at i:38913340 original size:24 final size:24
Alignment explanation
Indices: 38913276--38913421 Score: 197
Period size: 25 Copynumber: 6.0 Consensus size: 24
38913266 GCTTTATCAT
*
38913276 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
38913301 ATAACTGGGGCA-AAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
38913324 ATAACTGGGGCATAAGCCCTTTTC
1 ATAACTGGGGCATAAGCCCTTTTA
*
38913348 ATAACTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TA
*
38913373 ATAACTGGGGCATAAGCCCTTTATT
1 ATAACTGGGGCATAAGCCCTTT-TA
*
38913398 ATAACTAGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
38913422 CACTTCCTCC
Statistics
Matches: 113, Mismatches: 5, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
23 18 0.16
24 40 0.35
25 55 0.49
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:38913389 original size:49 final size:49
Alignment explanation
Indices: 38913267--38913419 Score: 195
Period size: 49 Copynumber: 3.1 Consensus size: 49
38913257 AGCATAGCTG
*
38913267 CTTTATCATATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCA-AAGCC
1 CTTTATC--ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCC
* *
38913318 CTTT-TAATAACTGGGGCATAAGCCCTTTTCATAACTGGGGCATAAGCC
1 CTTTATCATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCC
* *
38913366 CTTTATCATAACTGGGGCATAAGCCCTTTATTATAACTAGGGCATAAGCC
1 CTTTATCATAACTGGGGCATAAGCCCTTT-TAATAACTGGGGCATAAGCC
38913416 CTTT
1 CTTT
38913420 TACACTTCCT
Statistics
Matches: 92, Mismatches: 6, Indels: 9
0.86 0.06 0.08
Matches are distributed among these distances:
47 21 0.23
48 21 0.23
49 23 0.25
50 23 0.25
51 4 0.04
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (49 bp):
CTTTATCATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCC
Found at i:38913496 original size:20 final size:20
Alignment explanation
Indices: 38913471--38913509 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
38913461 TATGAATACA
38913471 TCATGTGCATATCATACATG
1 TCATGTGCATATCATACATG
*
38913491 TCATGTGGATATCATACAT
1 TCATGTGCATATCATACAT
38913510 ACCACATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (20 bp):
TCATGTGCATATCATACATG
Found at i:38915318 original size:18 final size:18
Alignment explanation
Indices: 38915291--38915331 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
38915281 ATTGCTTAAT
38915291 AGTAAATAGTGCAGTAAC
1 AGTAAATAGTGCAGTAAC
* *
38915309 AGTAATTAGTGCAGTTAC
1 AGTAAATAGTGCAGTAAC
38915327 AGTAA
1 AGTAA
38915332 GCAGTATGCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.27
Consensus pattern (18 bp):
AGTAAATAGTGCAGTAAC
Found at i:38915712 original size:27 final size:27
Alignment explanation
Indices: 38915688--38915799 Score: 163
Period size: 27 Copynumber: 4.1 Consensus size: 27
38915678 ACAATCATCC
38915688 TACCACATAAGGGCAAAATAGTCATTT
1 TACCACATAAGGGCAAAATAGTCATTT
* * *
38915715 TACCTCATAAGGGTAAAATCGTCATTT
1 TACCACATAAGGGCAAAATAGTCATTT
38915742 TACCACATAAGGGCAAAATCA-TCATTT
1 TACCACATAAGGGCAAAAT-AGTCATTT
* *
38915769 TAACACATAAGGGAAAAATAGTCATTT
1 TACCACATAAGGGCAAAATAGTCATTT
38915796 TACC
1 TACC
38915800 TTACAGGGGT
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
26 1 0.01
27 73 0.99
ACGTcount: A:0.40, C:0.19, G:0.13, T:0.28
Consensus pattern (27 bp):
TACCACATAAGGGCAAAATAGTCATTT
Found at i:38915875 original size:81 final size:80
Alignment explanation
Indices: 38915790--38915960 Score: 191
Period size: 81 Copynumber: 2.1 Consensus size: 80
38915780 GGAAAAATAG
*
38915790 TCATTTTACCTTACAGGGGTATTATAGCCATTTTACCCAACAG-GGGTATTACAGTCATTTTACC
1 TCATTTTACC-TACAGGGGTATTATAGCCATTTTACCCAA-AGCGGATATTACAGTCATTTTACC
38915854 CTACAAGGGTATTTCAA
64 CTACAAGGGTATTTCAA
* * * * * * * *
38915871 TCATTTTATCCTATAGGGGTATTTTGGTCATTTTACCCAATGCGGATATTTCGGTTATTTTACCC
1 TCATTTTA-CCTACAGGGGTATTATAGCCATTTTACCCAAAGCGGATATTACAGTCATTTTACCC
* * *
38915936 TATAGGGGTATTTCGA
65 TACAAGGGTATTTCAA
*
38915952 TTATTTTAC
1 TCATTTTAC
38915961 AAGTAAATAA
Statistics
Matches: 75, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
80 2 0.03
81 71 0.95
82 2 0.03
ACGTcount: A:0.25, C:0.18, G:0.17, T:0.40
Consensus pattern (80 bp):
TCATTTTACCTACAGGGGTATTATAGCCATTTTACCCAAAGCGGATATTACAGTCATTTTACCCT
ACAAGGGTATTTCAA
Found at i:38915947 original size:27 final size:27
Alignment explanation
Indices: 38915789--38915960 Score: 141
Period size: 27 Copynumber: 6.4 Consensus size: 27
38915779 GGGAAAAATA
* * *
38915789 GTCATTTTACCTTACAGGGGTATTAT-A
1 GTCATTTTACCCTATAGGGGTATT-TCG
* * * * *
38915816 GCCATTTTACCCAACAGGGGTATTACA
1 GTCATTTTACCCTATAGGGGTATTTCG
* * *
38915843 GTCATTTTACCCTACAAGGGTATTTCA
1 GTCATTTTACCCTATAGGGGTATTTCG
* * *
38915870 ATCATTTTATCCTATAGGGGTATTTTG
1 GTCATTTTACCCTATAGGGGTATTTCG
* *
38915897 GTCATTTTACCCAAT-GCGGATATTTCG
1 GTCATTTTACCCTATAG-GGGTATTTCG
*
38915924 GTTATTTTACCCTATAGGGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTTCG
* *
38915951 ATTATTTTAC
1 GTCATTTTAC
38915961 AAGTAAATAA
Statistics
Matches: 119, Mismatches: 23, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
26 1 0.01
27 117 0.98
28 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.17, T:0.40
Consensus pattern (27 bp):
GTCATTTTACCCTATAGGGGTATTTCG
Found at i:38946224 original size:17 final size:17
Alignment explanation
Indices: 38946198--38946247 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
38946188 TTTTGAATTA
*
38946198 GTAATAAAGTTAAATAG
1 GTAATTAAGTTAAATAG
38946215 GTAATTAAG-TAAATAAG
1 GTAATTAAGTTAAAT-AG
*
38946232 GTTAA-TAAATTAAATA
1 G-TAATTAAGTTAAATA
38946248 AAACACAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
16 5 0.18
17 15 0.54
18 8 0.29
ACGTcount: A:0.54, C:0.00, G:0.14, T:0.32
Consensus pattern (17 bp):
GTAATTAAGTTAAATAG
Found at i:38946658 original size:29 final size:28
Alignment explanation
Indices: 38946616--38946671 Score: 94
Period size: 29 Copynumber: 2.0 Consensus size: 28
38946606 GGGGATACAT
38946616 TGATTCGGCTTCGGGCCATGAATATCAGC
1 TGATTCGGCTTCGGGCCATG-ATATCAGC
*
38946645 TGATTTGGCTTCGGGCCATGATATCAG
1 TGATTCGGCTTCGGGCCATGATATCAG
38946672 TATGTTGGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 7 0.27
29 19 0.73
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.30
Consensus pattern (28 bp):
TGATTCGGCTTCGGGCCATGATATCAGC
Found at i:38946718 original size:48 final size:48
Alignment explanation
Indices: 38946647--38946749 Score: 179
Period size: 48 Copynumber: 2.1 Consensus size: 48
38946637 ATATCAGCTG
*
38946647 ATTTGGCTTCGGGCCATGATATCAGTATGTTGGATATAAGTTACCTTA
1 ATTTGGCCTCGGGCCATGATATCAGTATGTTGGATATAAGTTACCTTA
* *
38946695 ATTTGGCCTCGGGCCATGATATCAGTATTTTGGATATAAGTTACCTTG
1 ATTTGGCCTCGGGCCATGATATCAGTATGTTGGATATAAGTTACCTTA
38946743 ATTTGGC
1 ATTTGGC
38946750 TTCAGGCTGG
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 52 1.00
ACGTcount: A:0.23, C:0.16, G:0.23, T:0.38
Consensus pattern (48 bp):
ATTTGGCCTCGGGCCATGATATCAGTATGTTGGATATAAGTTACCTTA
Found at i:38950225 original size:28 final size:27
Alignment explanation
Indices: 38950181--38950235 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
38950171 AAAATAATTA
*
38950181 AATTTTACTTAAATTATTAA-AATTTTT
1 AATTTTAATTAAATTA-TAATAATTTTT
*
38950208 AATTTTAATTAATTTTATAATAATTTTT
1 AATTTTAATTAA-ATTATAATAATTTTT
38950236 TATTAATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 14 0.58
28 10 0.42
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (27 bp):
AATTTTAATTAAATTATAATAATTTTT
Found at i:38950233 original size:11 final size:11
Alignment explanation
Indices: 38950206--38950245 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
38950196 ATTAAAATTT
38950206 TTAATTTTA-A
1 TTAATTTTATA
38950216 TTAATTTTATA
1 TTAATTTTATA
* *
38950227 ATAATTTTTTA
1 TTAATTTTATA
38950238 TTAATTTT
1 TTAATTTT
38950246 GATCATTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
10 9 0.35
11 17 0.65
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TTAATTTTATA
Found at i:38957178 original size:13 final size:13
Alignment explanation
Indices: 38957160--38957184 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38957150 GTAAGTGATT
38957160 TTGATGATTTTTC
1 TTGATGATTTTTC
38957173 TTGATGATTTTT
1 TTGATGATTTTT
38957185 TTACTTTTAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.04, G:0.16, T:0.64
Consensus pattern (13 bp):
TTGATGATTTTTC
Found at i:38958003 original size:46 final size:46
Alignment explanation
Indices: 38957905--38958029 Score: 153
Period size: 46 Copynumber: 2.7 Consensus size: 46
38957895 TATGATAACA
* * * *
38957905 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACA-AGCATCGGCATCGACACGAGAGCC
* *
38957953 AGTGTAAGACATATCTGGGACAAGCATCGGCCTCGACACGTA-AGCC
1 AGTGTAAGACATGTCTGGGACAAGCATCGGCATCGACACG-AGAGCC
*
38957999 AGTGTAAGACATGTCTGGGACATGCATCGGC
1 AGTGTAAGACATGTCTGGGACAAGCATCGGC
38958030 TACGAGATGT
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
46 46 0.68
47 13 0.19
48 9 0.13
ACGTcount: A:0.28, C:0.22, G:0.30, T:0.20
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACAAGCATCGGCATCGACACGAGAGCC
Found at i:38959302 original size:22 final size:21
Alignment explanation
Indices: 38959277--38959317 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
38959267 TCGAATTGGT
38959277 CACAAGGGCATGTTGCCCCTTC
1 CACAAGGGCATG-TGCCCCTTC
* *
38959299 CACACGGGCGTGTGCCCCT
1 CACAAGGGCATGTGCCCCT
38959318 ATGTCTAGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.15, C:0.39, G:0.27, T:0.20
Consensus pattern (21 bp):
CACAAGGGCATGTGCCCCTTC
Found at i:38965091 original size:27 final size:27
Alignment explanation
Indices: 38965061--38965238 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
38965051 ATATTGAGCC
* *
38965061 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
38965088 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
38965115 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
38965143 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
38965170 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
38965197 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
38965224 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
38965239 GTACAATTTA
Statistics
Matches: 129, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 104 0.81
28 25 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:38965200 original size:82 final size:81
Alignment explanation
Indices: 38965082--38965237 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
38965072 TGCTATATAA
* * *
38965082 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTC-GAATCGCA
38965147 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
38965164 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCA
38965228 CACTTAGTGC
65 CACTTAGTGC
38965238 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 18 0.27
82 48 0.73
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:38968777 original size:46 final size:45
Alignment explanation
Indices: 38968724--38968932 Score: 208
Period size: 46 Copynumber: 4.5 Consensus size: 45
38968714 ATTGTGAGCT
** * *
38968724 AGTGTAAGACATGTCTAAGACATGCATCGGCCAC-ATTATGATAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACGA-GACG-TAGCC
* * * *
38968770 AGTGTAAGACCATGTCTGGGACATGGCATCAG-CATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCA-CGAGACG-TAGCC
*
38968818 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGACGT-AGCC
* * *
38968864 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGT-GTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGACGTAGCC
*
38968908 AGTGTAAGACCATGTCTAGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
38968933 GTGTCGGCCT
Statistics
Matches: 138, Mismatches: 18, Indels: 15
0.81 0.11 0.09
Matches are distributed among these distances:
44 11 0.08
45 14 0.10
46 62 0.45
47 29 0.21
48 21 0.15
49 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGACGTAGCC
Found at i:38968976 original size:140 final size:140
Alignment explanation
Indices: 38968724--38969036 Score: 346
Period size: 140 Copynumber: 2.2 Consensus size: 140
38968714 ATTGTGAGCT
* * *
38968724 AGTGTAAGACATGTCTAAGACATGCATCGGCCACATTATGATAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTAGGACATGCATCGGCCACATGATGATAGCCAGTGTAAGACCATGTCTAG
* *
38968789 GACATGGCATCAGCATTGAGACGAGAGCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCG
66 GACATGGCATCAGCATCGAGACGAGAGCTAGTGTAAGACATGTCTGGGACATGGCATC-GACTCG
*
38968853 AGACGTAAGCC
130 AGACATAAGCC
* * *
38968864 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGA-GATG-T-GTCAGTGTAAGACCATGTCTA
1 AGTGTAAGACATGTCTAGGACATGCATCGGCCAC-ATGATGATAGCCAGTGTAAGACCATGTCTA
** * * ** * * *
38968926 GGACATGGTGTCGGCCTCGATGTTGATAGTTAGTGTAAGACTATGTCTGGGACATGGCGTCGACT
65 GGACATGGCATCAGCATCGA-GACGAGAGCTAGTGTAAGAC-ATGTCTGGGACATGGCATCGACT
* * *
38968991 TGAGATATGAGCC
128 CGAGACATAAGCC
*
38969004 ATTGTAAGACCATGTCTAGGACATGGCATCGGC
1 AGTGTAAGA-CATGTCTAGGACAT-GCATCGGC
38969037 ATTCTACCCC
Statistics
Matches: 144, Mismatches: 23, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
138 34 0.24
139 17 0.12
140 67 0.47
141 18 0.12
142 8 0.06
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.24
Consensus pattern (140 bp):
AGTGTAAGACATGTCTAGGACATGCATCGGCCACATGATGATAGCCAGTGTAAGACCATGTCTAG
GACATGGCATCAGCATCGAGACGAGAGCTAGTGTAAGACATGTCTGGGACATGGCATCGACTCGA
GACATAAGCC
Found at i:38968996 original size:94 final size:91
Alignment explanation
Indices: 38968718--38969036 Score: 299
Period size: 94 Copynumber: 3.4 Consensus size: 91
38968708 TGGGTTATTG
* * *
38968718 TGAGCTAGTGTAAGACATGTCTAAGACATGCATCGGCCAC-AT-TATGATAGCCAGTGTAAGACC
1 TGAGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGATGT-TGATAGCCAGTGTAAGA-C
38968781 ATGTCTGGGACATGGCATC-AGCATTGAGA
64 ATGTCTGGGACATGGCATCGA-C-TTGAGA
* * * **
38968810 CGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GACG-TAAGCCAGTGTAAGA
1 --TGAGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGATGTTGAT-AGCCAGTGTAAGA
* *
38968873 CATGTCTGGGACAT-GCATCGGCTACGAGA
63 CATGTCTGGGACATGGCATCGACT-TGAGA
* * ** **
38968902 TGTGTCAGTGTAAGACCATGTCTAGGACATGGTGTCGGCCTCGATGTTGATAGTTAGTGTAAGAC
1 TGAGCCAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCTCGATGTTGATAGCCAGTGTAAGAC
*
38968967 TATGTCTGGGACATGGCGTCGACTTGAGATA
64 -ATGTCTGGGACATGGCATCGACTTGAG--A
*
38968998 TGAGCCATTGTAAGACCATGTCTAGGACATGGCATCGGC
1 TGAGCCAGTGTAAGA-CATGTCTAGGACAT-GCATCGGC
38969037 ATTCTACCCC
Statistics
Matches: 185, Mismatches: 27, Indels: 24
0.78 0.11 0.10
Matches are distributed among these distances:
90 11 0.06
91 14 0.08
92 21 0.11
93 29 0.16
94 67 0.36
95 8 0.04
96 35 0.19
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.24
Consensus pattern (91 bp):
TGAGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGATGTTGATAGCCAGTGTAAGACAT
GTCTGGGACATGGCATCGACTTGAGA
Found at i:38974123 original size:50 final size:50
Alignment explanation
Indices: 38973954--38974313 Score: 254
Period size: 50 Copynumber: 7.5 Consensus size: 50
38973944 TGACATGTGT
* * * *
38973954 GCTAGTGTAAGA-CATGTTTGGGACAT-GCATCG--G-CCACATTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACGTCGAGA-TATGAAA
* * * * * *
38974000 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGACATTGAG--ACGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACGTCGAGATATGAAA
* * *
38974048 GCTAGTGTAA-ACTATGTCTAGGACATGGCATCTG-CGTCGAGATATGACA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATC-GACGTCGAGATATGAAA
** *
38974097 GCTAGTGTAAGACCATGTCTGGGACATGGCATCG--G-CTTGATATG--T
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACGTCGAGATATGAAA
* * * * *
38974142 G-TCAGTGTAAGACAATGTCTGAGACATGGCATCGACGCCGACAGATGAAA
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATCGACGTCGAGATATGAAA
* * * * *
38974192 GCCAGTGTAAGACCATATCTGGGACATGGCATCGACCTCAATATATGAAA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACGTCGAGATATGAAA
* * * * *
38974242 G-TCAGTGTAAGACCATGTCTGGAACATGGCATCAACTTTGATG-TGTG--A
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATCGACGTCGA-GATATGAAA
*
38974290 GCCAGTGTAAGACCATGTCTGGGA
1 GCTAGTGTAAGACCATGTCTGGGA
38974314 TGGTATCTTA
Statistics
Matches: 249, Mismatches: 46, Indels: 36
0.75 0.14 0.11
Matches are distributed among these distances:
44 1 0.00
45 30 0.12
46 11 0.04
47 46 0.18
48 49 0.20
49 15 0.06
50 96 0.39
51 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (50 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACGTCGAGATATGAAA
Found at i:38974207 original size:95 final size:95
Alignment explanation
Indices: 38973948--38974227 Score: 304
Period size: 95 Copynumber: 2.9 Consensus size: 95
38973938 TTTGGGTGAC
* * *
38973948 ATGTGTGCTAGTGTAAGACATGTTTGGGACAT-GCATCG-GCC-ACATTATGAGAGCCAGTGTAA
1 ATGTGT-CTAGTGTAAGACATGTCTGAGACATGGCATCGCGCCGACA-TATGAAAGCCAGTGTAA
*
38974010 GACCATGTTTGGGACATGGCATCGACATTGAG
64 GACCATGTCTGGGACATGGCATCGACATTGAG
* * * * * * *
38974042 ACGAGAGCTAGTGTAA-ACTATGTCT-AGGACATGGCATCTGCGTCGAGATATGACAGCTAGTGT
1 ATGTG-TCTAGTGTAAGAC-ATGTCTGA-GACATGGCATC-GCGCCGACATATGAAAGCCAGTGT
* *
38974105 AAGACCATGTCTGGGACATGGCATCGGC-TTGAT
62 AAGACCATGTCTGGGACATGGCATCGACATTGAG
*
38974138 ATGTGTC-AGTGTAAGACAATGTCTGAGACATGGCATCGACGCCGACAGATGAAAGCCAGTGTAA
1 ATGTGTCTAGTGTAAGAC-ATGTCTGAGACATGGCATCG-CGCCGACATATGAAAGCCAGTGTAA
*
38974202 GACCATATCTGGGACATGGCATCGAC
64 GACCATGTCTGGGACATGGCATCGAC
38974228 CTCAATATAT
Statistics
Matches: 153, Mismatches: 23, Indels: 19
0.78 0.12 0.10
Matches are distributed among these distances:
93 2 0.01
94 30 0.20
95 69 0.45
96 9 0.06
97 41 0.27
98 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (95 bp):
ATGTGTCTAGTGTAAGACATGTCTGAGACATGGCATCGCGCCGACATATGAAAGCCAGTGTAAGA
CCATGTCTGGGACATGGCATCGACATTGAG
Found at i:38974238 original size:145 final size:142
Alignment explanation
Indices: 38973954--38974310 Score: 353
Period size: 145 Copynumber: 2.5 Consensus size: 142
38973944 TGACATGTGT
* *** *
38973954 GCTAGTGTAAGA-CATGTTTGGGACAT-GCATCGGCCACATTATGAGAGCCAGTGTAAGACCATG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGA-TAT--GTGCCAGTGTAAGACCATG
* * ** * * * *
38974017 TTTGGGACATGGCATCGACATTGAGACGAGAGCTAGTGTAAACTATGTCTAGGACATGGCATCTG
63 TCTGAGACATGGCATCGACACCGAGACGAAAGCCAGTGTAAACCATATCTAGGACATGGCATCTG
* * *
38974082 CGTCGAGATATGACA
128 CCTCAAGATATGAAA
* *
38974097 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGATATGTGTCAGTGTAAGACAATGTCT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGATATGTGCCAGTGTAAGACCATGTCT
* * *
38974162 GAGACATGGCATCGACGCCGACAGATGAAAGCCAGTGTAAGACCATATCTGGGACATGGCATC-G
66 GAGACATGGCATCGACACCG--AGACGAAAGCCAGTGTAA-ACCATATCTAGGACATGGCATCTG
*
38974226 ACCTCAATATATGAAA
128 -CCTCAAGATATGAAA
* ** *
38974242 G-TCAGTGTAAGACCATGTCTGGAACATGGCATCAACTTTGATGTGTGAGCCAGTGTAAGACCAT
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGC-TTGATATGT--GCCAGTGTAAGACCAT
38974306 GTCTG
62 GTCTG
38974311 GGATGGTATC
Statistics
Matches: 176, Mismatches: 28, Indels: 15
0.80 0.13 0.07
Matches are distributed among these distances:
142 34 0.19
143 12 0.07
144 33 0.19
145 70 0.40
146 8 0.05
148 19 0.11
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (142 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGATATGTGCCAGTGTAAGACCATGTCT
GAGACATGGCATCGACACCGAGACGAAAGCCAGTGTAAACCATATCTAGGACATGGCATCTGCCT
CAAGATATGAAA
Found at i:38979527 original size:30 final size:30
Alignment explanation
Indices: 38979493--38979553 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
38979483 TCCTTAACTC
38979493 AAACTTTAGAAAAATTACAATTTTGCCCCT
1 AAACTTTAGAAAAATTACAATTTTGCCCCT
* * * * *
38979523 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTAGAAAAATTACAATTTTGCCCCT
38979553 A
1 A
38979554 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.23, G:0.07, T:0.38
Consensus pattern (30 bp):
AAACTTTAGAAAAATTACAATTTTGCCCCT
Found at i:38983202 original size:39 final size:40
Alignment explanation
Indices: 38983159--38983327 Score: 225
Period size: 39 Copynumber: 4.3 Consensus size: 40
38983149 TCCTCGTTCA
* * *
38983159 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCACG
**
38983198 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCACG
* *
38983238 AATGCCTTCGGGACTTAACCCGGATTTA-AAACTCGCACG
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCACG
* * *
38983277 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCACG
*
38983317 AAGGCCTTCGG
1 AATGCCTTCGG
38983328 ATCTTAATCC
Statistics
Matches: 117, Mismatches: 11, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
39 72 0.62
40 45 0.38
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCACG
Found at i:38983257 original size:40 final size:39
Alignment explanation
Indices: 38983159--38983380 Score: 216
Period size: 39 Copynumber: 5.6 Consensus size: 39
38983149 TCCTCGTTCA
* * * ** *
38983159 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAC
*
38983198 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAC
38983237 GAATGCCTTCGGGACTTAACCCGGATTTAA-AACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAC
** *
38983276 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAC
* * * * *
38983316 AAAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCAC
* *
38983357 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
38983381 CAGCATTCAA
Statistics
Matches: 158, Mismatches: 19, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
39 75 0.47
40 75 0.47
41 8 0.05
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAC
Found at i:38983260 original size:79 final size:78
Alignment explanation
Indices: 38983157--38983380 Score: 243
Period size: 79 Copynumber: 2.8 Consensus size: 78
38983147 GCTCCTCGTT
* * * *
38983157 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGATTTA-TAACTCACACAATGCCTTCGGGACTTAACCCGGA
38983222 TTTAACAACTCGCA
65 TTTAACAACTCGCA
* * *
38983236 CGAATGCCTTCGGGACTTAACCCGGATTTAAAACTCGCACGAATGCCTTCGGGACTTAACCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGATTTATAACTCACAC-AATGCCTTCGGGACTTAACCCGGA
** *
38983301 TTTAGTATCTCGCA
65 TTTAACAACTCGCA
* * * * * * *
38983315 CAAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTA-TAACTCA-CACAATGCCTTCGGGACTTAACCCG
38983379 GA
63 GA
38983381 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 20, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
78 11 0.09
79 82 0.68
80 25 0.21
81 3 0.02
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (78 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTATAACTCACACAATGCCTTCGGGACTTAACCCGGAT
TTAACAACTCGCA
Found at i:38991159 original size:40 final size:39
Alignment explanation
Indices: 38991061--38991283 Score: 207
Period size: 40 Copynumber: 5.6 Consensus size: 39
38991051 TCCTCGTTCA
* * ** * *
38991061 AATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAACAATTCGCAC
* *
38991100 AATGCCTTCGCGACATAACCCGGATTTAACAATTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAACAATTCGCAC
*
38991139 GAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAACAATTCGCAC
**
38991179 GAATGCCTTCGGGACTTAACCCGGATTT-AGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAACAAT-TCGCAC
* * * * * *
38991219 AAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAATTCGCAC
* *
38991260 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
38991284 CAGCATTCAA
Statistics
Matches: 154, Mismatches: 24, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
39 38 0.25
40 107 0.69
41 8 0.05
42 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAATTCGCAC
Found at i:38991162 original size:79 final size:80
Alignment explanation
Indices: 38991061--38991207 Score: 224
Period size: 79 Copynumber: 1.9 Consensus size: 80
38991051 TCCTCGTTCA
* **
38991061 AATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACAC-AATGCCTTCGCGACATAACCCGGAT
1 AATGCCTTCGGGACATAACCCGGATTTAACAACTCACACGAATGCCTTCGCGACATAACCCGGAT
38991125 TTAACAATTCGCACG
66 TTAACAATTCGCACG
* * * *
38991140 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAACCCGGATTTAACAACTCACACGAATGCCTTCGCGACATAACCCGGAT
38991205 TTA
66 TTA
38991208 GTATCTCGCA
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
79 34 0.57
80 26 0.43
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.24
Consensus pattern (80 bp):
AATGCCTTCGGGACATAACCCGGATTTAACAACTCACACGAATGCCTTCGCGACATAACCCGGAT
TTAACAATTCGCACG
Found at i:38991218 original size:80 final size:79
Alignment explanation
Indices: 38991059--38991283 Score: 231
Period size: 80 Copynumber: 2.8 Consensus size: 79
38991049 GCTCCTCGTT
* * ** * * *
38991059 CAAATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACACAATGCCTTCGCGACATAACCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAATGCCTTCGGGACTTAACCCGGA
38991124 TTTAACAATTCGCA
66 TTTAACAATTCGCA
*
38991138 CGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAC-AATGCCTTCGGGACTTAACCCGG
**
38991203 ATTT-AGTATCTCGCA
65 ATTTAACAAT-TCGCA
* * * * * * *
38991218 CAAAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCACAAAGCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACAATGCCTTCGGGACTTAACCC
38991281 GGA
63 GGA
38991284 CAGCATTCAA
Statistics
Matches: 123, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
79 41 0.33
80 76 0.62
81 6 0.05
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAATGCCTTCGGGACTTAACCCGGA
TTTAACAATTCGCA
Found at i:38991283 original size:120 final size:119
Alignment explanation
Indices: 38991061--38991283 Score: 288
Period size: 120 Copynumber: 1.9 Consensus size: 119
38991051 TCCTCGTTCA
* * *
38991061 AATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACACAATGCCTTCGCGACATAACCCGGATT
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGCGACATAACCCGGATA
* *
38991126 TAACAATTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
66 TAACAATTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
38991180 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCG-GATCTTAATCCGGA
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACAC-AAGGCCTTCGCGA-CATAACCCGGA
* * *
38991244 TATATTCACTTAGCAC-AAAGCCTTCGGGACTTAGCCCGGA
64 TATA-ACAATTAGCACGAAAGCCTTCGGGACTTAACCCGGA
38991284 CAGCATTCAA
Statistics
Matches: 88, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
119 37 0.42
120 43 0.49
121 8 0.09
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (119 bp):
AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGCGACATAACCCGGATA
TAACAATTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:38996250 original size:16 final size:16
Alignment explanation
Indices: 38996225--38996258 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
38996215 TTGGATATAA
38996225 ATTAAAATTAATT-AT
1 ATTAAAATTAATTCAT
38996240 ATTACAAATTAATTCAT
1 ATTA-AAATTAATTCAT
38996257 AT
1 AT
38996259 AATTTTGGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 9 0.53
17 4 0.24
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (16 bp):
ATTAAAATTAATTCAT
Found at i:38998076 original size:27 final size:27
Alignment explanation
Indices: 38998046--38998223 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
38998036 ATATCGAGTC
* * * *
38998046 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
38998073 CGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
38998100 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
38998128 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
38998155 CGCACACTTAGTGC-ATCATACTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
38998182 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
38998209 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
38998224 GTACAATTTA
Statistics
Matches: 132, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
27 108 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:38998185 original size:82 final size:81
Alignment explanation
Indices: 38998067--38998222 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
38998057 TGCTATATAA
*
38998067 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
38998132 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
38998149 TCAATTCGCACACTTAGTGC-ATCATACTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
38998213 CACTTAGTGC
65 CACTTAGTGC
38998223 TGTACAATTT
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 16 0.24
82 52 0.76
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:39006133 original size:27 final size:27
Alignment explanation
Indices: 39006103--39006280 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
39006093 ATATCGAGTC
* * * *
39006103 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
39006130 CGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
39006157 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
39006185 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
39006212 CGCACACTTAGTGC-ATCATACTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
39006239 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
39006266 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
39006281 GTACAATTTA
Statistics
Matches: 132, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
27 108 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:39006242 original size:82 final size:81
Alignment explanation
Indices: 39006124--39006279 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
39006114 TGCTATATAA
*
39006124 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
39006189 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
39006206 TCAATTCGCACACTTAGTGC-ATCATACTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
39006270 CACTTAGTGC
65 CACTTAGTGC
39006280 TGTACAATTT
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 16 0.24
82 52 0.76
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:39009487 original size:31 final size:31
Alignment explanation
Indices: 39009447--39009532 Score: 120
Period size: 31 Copynumber: 2.8 Consensus size: 31
39009437 TCAATCTCAG
*
39009447 CATAT-ACTGGTCCGAAGCCTTTACATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
* **
39009477 CATATCACTGGGCCGAAGCTTTTTTATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
*
39009508 CATATCACTGGGCTGAAGCCTTTAC
1 CATATCACTGGGCCGAAGCCTTTAC
39009533 TGTAACAATA
Statistics
Matches: 47, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
30 5 0.11
31 42 0.89
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTACATTATT
Found at i:39009765 original size:25 final size:25
Alignment explanation
Indices: 39009737--39009794 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 25
39009727 CTAGAGGCCT
39009737 AGCCTCTTTT-AATAACTGGGGCAAA
1 AGCC-CTTTTCAATAACTGGGGCAAA
** *
39009762 AGCCCTTTTCTGTAACTGGGGC-AT
1 AGCCCTTTTCAATAACTGGGGCAAA
39009786 AGCCCTTTT
1 AGCCCTTTT
39009795 GCACTTCCTC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
24 15 0.52
25 14 0.48
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.33
Consensus pattern (25 bp):
AGCCCTTTTCAATAACTGGGGCAAA
Found at i:39009960 original size:25 final size:25
Alignment explanation
Indices: 39009932--39009979 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
39009922 TAATTAAACT
**
39009932 CTAGGGGTAAAATGGTCATTTTTAC
1 CTAGGGGTAAAACAGTCATTTTTAC
*
39009957 CTAGGGGTGAAACAGTCATTTTT
1 CTAGGGGTAAAACAGTCATTTTT
39009980 CGTATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.27, C:0.12, G:0.25, T:0.35
Consensus pattern (25 bp):
CTAGGGGTAAAACAGTCATTTTTAC
Found at i:39012469 original size:17 final size:17
Alignment explanation
Indices: 39012425--39012524 Score: 137
Period size: 17 Copynumber: 5.6 Consensus size: 17
39012415 CAATGATATG
39012425 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
39012442 TGCAATCTTAGATATGATA
1 --CAATCTTAGATATGATA
*
39012461 CACTCTTAGATATGATA
1 CAATCTTAGATATGATA
*
39012478 CAATCTTAGATATGATTG
1 CAATCTTAGATATGA-TA
39012496 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
39012513 TGCAATCTTAGA
1 --CAATCTTAGA
39012525 AGATATGATT
Statistics
Matches: 74, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
17 31 0.42
18 16 0.22
19 27 0.36
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.36
Consensus pattern (17 bp):
CAATCTTAGATATGATA
Found at i:39012531 original size:17 final size:19
Alignment explanation
Indices: 39012417--39012524 Score: 172
Period size: 19 Copynumber: 5.9 Consensus size: 19
39012407 ATCATCTTCA
39012417 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
39012436 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
39012455 ATGATA--CACTCTTAGAT
1 ATGATATGCAATCTTAGAT
39012472 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
39012489 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
39012507 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
39012525 AGATATGATT
Statistics
Matches: 84, Mismatches: 2, Indels: 6
0.91 0.02 0.07
Matches are distributed among these distances:
17 31 0.37
18 16 0.19
19 37 0.44
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:39012550 original size:22 final size:22
Alignment explanation
Indices: 39012417--39012547 Score: 86
Period size: 19 Copynumber: 6.8 Consensus size: 22
39012407 ATCATCTTCA
39012417 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
39012436 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
*
39012455 ATGATA--CACTCTTAG---AT
1 ATGATATGCAATCTTAGAAGAT
39012472 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
39012489 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
39012507 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
39012529 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
39012548 GATTTAATTT
Statistics
Matches: 97, Mismatches: 4, Indels: 18
0.82 0.03 0.15
Matches are distributed among these distances:
17 27 0.28
18 16 0.16
19 34 0.35
22 8 0.08
23 12 0.12
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:39018253 original size:19 final size:20
Alignment explanation
Indices: 39018226--39018271 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
39018216 CTTCTATTTC
39018226 AAAAAAAAAAG-GAAAAAAG
1 AAAAAAAAAAGAGAAAAAAG
* *
39018245 AAAAGAAAAAGATAAAAAAG
1 AAAAAAAAAAGAGAAAAAAG
39018265 AAAAAAA
1 AAAAAAA
39018272 GAAACAAGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.85, C:0.00, G:0.13, T:0.02
Consensus pattern (20 bp):
AAAAAAAAAAGAGAAAAAAG
Found at i:39018283 original size:27 final size:28
Alignment explanation
Indices: 39018230--39018283 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
39018220 TATTTCAAAA
* *
39018230 AAAAAAGGAAAAAAGAAAAGAAAAAGAT
1 AAAAAAGAAAAAAAGAAAACAAAAAGAT
*
39018258 AAAAAAGAAAAAAAG-AAACAAGAAGA
1 AAAAAAGAAAAAAAGAAAACAAAAAGA
39018284 AATGGAGAGG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 9 0.39
28 14 0.61
ACGTcount: A:0.80, C:0.02, G:0.17, T:0.02
Consensus pattern (28 bp):
AAAAAAGAAAAAAAGAAAACAAAAAGAT
Found at i:39018771 original size:16 final size:16
Alignment explanation
Indices: 39018750--39018783 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
39018740 TTACTCTGGA
39018750 AATGATATTTCGAGAG
1 AATGATATTTCGAGAG
*
39018766 AATGATATTTTGAGAG
1 AATGATATTTCGAGAG
39018782 AA
1 AA
39018784 ATAAGGATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.32
Consensus pattern (16 bp):
AATGATATTTCGAGAG
Found at i:39019251 original size:44 final size:44
Alignment explanation
Indices: 39019081--39019357 Score: 253
Period size: 44 Copynumber: 6.3 Consensus size: 44
39019071 TCTGTATCAT
39019081 AGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTGGC
1 AGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTGGC
* * * * * * *
39019125 AGGGAGAAGATCGAAGACATAACTGATTTGGCTTTCACGTGT-TTACGT
1 AGAGAGCAGATCGAAG--ATAACAGATTTGGC-ATCTC-TGTATT-GGC
* * * * * *
39019173 TGA-AGCAAATCCAAGAT----GATTTGGCGTCTTTGTATTGTC
1 AGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTGGC
* * *
39019212 AGAGAGCAGATCAAAGATAGCAGATTTGGCATCTCTGTATTGAC
1 AGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTGGC
*
39019256 AGAGAGAAGATCGAAGATAACAGATTTGGCATCTCTGTATTGGC
1 AGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTGGC
* * * *
39019300 AGAGAGCAGATCGAAGACAGCAAATTTGG-AGTCTCTATATTGGC
1 AGAGAGCAGATCGAAGATAACAGATTTGGCA-TCTCTGTATTGGC
*
39019344 AGCGAGCAGATCGA
1 AGAGAGCAGATCGA
39019358 GGACATAGCT
Statistics
Matches: 187, Mismatches: 34, Indels: 24
0.76 0.14 0.10
Matches are distributed among these distances:
39 5 0.03
40 16 0.09
41 8 0.04
43 1 0.01
44 123 0.66
45 2 0.01
46 13 0.07
47 14 0.07
48 5 0.03
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.26
Consensus pattern (44 bp):
AGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTGGC
Found at i:39019269 original size:131 final size:128
Alignment explanation
Indices: 39019045--39019285 Score: 374
Period size: 131 Copynumber: 1.9 Consensus size: 128
39019035 ATTTACACTA
* *
39019045 AAGCAGATCCAAGATGATTTGGCGTCTCTGTATCATAGAGAGCAGATCGAAGATAACAGATTTGG
1 AAGCAAATCCAAGATGATTTGGCGTCTCTGTATCATAGAGAGCAGATCAAAGATAACAGATTTGG
* * *
39019110 CATCTCTGTATTGGCAGGGAGAAGATCGAAGACATAACTGATTTGGCTTTCACGTGTTTACGTTG
66 CATCTCTGTATTGACAGAGAGAAGATCGAAG--ATAACAGATTTGGCTTTCACGTGTTTACGTTG
* ** *
39019175 AAGCAAATCCAAGATGATTTGGCGTCTTTGTATTGTCAGAGAGCAGATCAAAGATAGCAGATTTG
1 AAGCAAATCCAAGATGATTTGGCGTCTCTGTATCAT-AGAGAGCAGATCAAAGATAACAGATTTG
39019240 GCATCTCTGTATTGACAGAGAGAAGATCGAAGATAACAGATTTGGC
65 GCATCTCTGTATTGACAGAGAGAAGATCGAAGATAACAGATTTGGC
39019286 ATCTCTGTAT
Statistics
Matches: 101, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
129 13 0.13
130 32 0.32
131 56 0.55
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (128 bp):
AAGCAAATCCAAGATGATTTGGCGTCTCTGTATCATAGAGAGCAGATCAAAGATAACAGATTTGG
CATCTCTGTATTGACAGAGAGAAGATCGAAGATAACAGATTTGGCTTTCACGTGTTTACGTTG
Found at i:39019438 original size:87 final size:87
Alignment explanation
Indices: 39019323--39019708 Score: 585
Period size: 87 Copynumber: 4.4 Consensus size: 87
39019313 AAGACAGCAA
* * * *
39019323 ATTTGGAGTCTCTATATTGGCAGCGAGCAGATCGAGGACATAGCTAATTTGGCTTTCACGTGTTT
1 ATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGACATAGCTAATTTGGCTTTCACGTGTTT
39019388 ACGTTGAAGCAAATCTAAGATG
66 ACGTTGAAGCAAATCTAAGATG
* **
39019410 ATTTTGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGACATAGCTGAA-TTGGCTTTCAATTGTT
1 ATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGACATAGCT-AATTTGGCTTTCACGTGTT
39019474 TACGTTGAAGCAAATCTAAGATG
65 TACGTTGAAGCAAATCTAAGATG
* * * * *
39019497 ATTTGGCGTCTCTATATTGGCAGGGAGCAAATCGAGGACATAGCTGATTTGGTTTTCACGTGTTT
1 ATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGACATAGCTAATTTGGCTTTCACGTGTTT
39019562 ACGTTGAAGCAAATCTAAGATG
66 ACGTTGAAGCAAATCTAAGATG
* * *
39019584 ATTTGACGTCTCTGTATTGGCAGGGAGCAGATCGAAGACATAGCTGATTTGGATTTCACGTGTTT
1 ATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGACATAGCTAATTTGGCTTTCACGTGTTT
39019649 ACGTTGAAGCAAATCTAAGATG
66 ACGTTGAAGCAAATCTAAGATG
* * * *
39019671 ATTTGGTGTCTCTGTATTGTCAGAGAGCATATCGAAGA
1 ATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGA
39019709 TAACAGATTT
Statistics
Matches: 272, Mismatches: 25, Indels: 4
0.90 0.08 0.01
Matches are distributed among these distances:
86 1 0.00
87 269 0.99
88 2 0.01
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.32
Consensus pattern (87 bp):
ATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGACATAGCTAATTTGGCTTTCACGTGTTT
ACGTTGAAGCAAATCTAAGATG
Found at i:39019972 original size:44 final size:43
Alignment explanation
Indices: 39019892--39019975 Score: 114
Period size: 44 Copynumber: 1.9 Consensus size: 43
39019882 ATCTAAGATG
* *
39019892 ATTTGGCATCTCTGTACTGTCAGAGAACAAATCGAAGAAACAA
1 ATTTGGCATCTCTATACTGACAGAGAACAAATCGAAGAAACAA
* * *
39019935 ATTTGGCATCTCTATATTCGACAGAGAGCAGATCGAAGAAA
1 ATTTGGCATCTCTATACT-GACAGAGAACAAATCGAAGAAA
39019976 TAGCAGATCT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
43 16 0.46
44 19 0.54
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.24
Consensus pattern (43 bp):
ATTTGGCATCTCTATACTGACAGAGAACAAATCGAAGAAACAA
Found at i:39020044 original size:78 final size:78
Alignment explanation
Indices: 39019935--39020150 Score: 326
Period size: 78 Copynumber: 2.8 Consensus size: 78
39019925 GAAGAAACAA
* * * * *
39019935 ATTTGGCATCTCTATATTCGACAGAGAGCAGATCGAAGAAATAGCAGATCTGACCTTCATTGAAG
1 ATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAAG
39020000 CAGATCCAAGATG
66 CAGATCCAAGATG
* *
39020013 ATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGACATAACAGAT-TGGACCTTCATTGAA
1 ATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCT-GACCTTCATTGAA
39020077 GCAGATCCAAGATG
65 GCAGATCCAAGATG
* * *
39020091 ATTTGGCATCCCTGTATTAGACGGGGAGTAGATCGAAGACATAGCAGATCTAACCTTCAT
1 ATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCAT
39020151 GTGTTTACAT
Statistics
Matches: 124, Mismatches: 12, Indels: 4
0.89 0.09 0.03
Matches are distributed among these distances:
77 1 0.01
78 122 0.98
79 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (78 bp):
ATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAAG
CAGATCCAAGATG
Found at i:39020243 original size:45 final size:46
Alignment explanation
Indices: 39020164--39020363 Score: 268
Period size: 45 Copynumber: 4.5 Consensus size: 46
39020154 TTTACATCGA
* *
39020164 AGCAGATC-CAAGATGACAGATTTGGCATCTCTGTATTAGACGGGG
1 AGCAGATCAGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
* *
39020209 AGCAAATCAG-AGATAACAGATTTGGCATCTCTGTATTAGACAGGG
1 AGCAGATCAGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
* * * *
39020254 AGCAGAT-TGAAGA-AGCAGATTTGGCGTCTCTGTATTAGATGGGG
1 AGCAGATCAGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
*
39020298 AGCAGATC-GAAGATAACAGATTTGGCGTCTCTGTATTAGACGGGG
1 AGCAGATCAGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
*
39020343 AGCAGATCA-AAGATAGCAGAT
1 AGCAGATCAGAAGATAACAGAT
39020364 ATCGCCTTCC
Statistics
Matches: 137, Mismatches: 13, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
44 40 0.29
45 97 0.71
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.24
Consensus pattern (46 bp):
AGCAGATCAGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
Found at i:39020286 original size:89 final size:90
Alignment explanation
Indices: 39020164--39020363 Score: 289
Period size: 89 Copynumber: 2.2 Consensus size: 90
39020154 TTTACATCGA
*
39020164 AGCAGATCCAAGAT-GACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATC-AGAGATAACA
1 AGCAGATCAAAGATAG-CAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGA-AGATAACA
39020227 GATTTGGCATCTCTGTATTAGACAGGG
64 GATTTGGCATCTCTGTATTAGACAGGG
** * * *
39020254 AGCAGATTGAAGA-AGCAGATTTGGCGTCTCTGTATTAGATGGGGAGCAGATCGAAGATAACAGA
1 AGCAGATCAAAGATAGCAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACAGA
* *
39020318 TTTGGCGTCTCTGTATTAGACGGGG
66 TTTGGCATCTCTGTATTAGACAGGG
39020343 AGCAGATCAAAGATAGCAGAT
1 AGCAGATCAAAGATAGCAGAT
39020364 ATCGCCTTCC
Statistics
Matches: 98, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
89 78 0.80
90 20 0.20
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.24
Consensus pattern (90 bp):
AGCAGATCAAAGATAGCAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACAGA
TTTGGCATCTCTGTATTAGACAGGG
Found at i:39020729 original size:17 final size:19
Alignment explanation
Indices: 39020707--39020820 Score: 125
Period size: 17 Copynumber: 6.4 Consensus size: 19
39020697 ATGGAAATAT
39020707 AATCTT-CA-ATGATATGC
1 AATCTTACATATGATATGC
*
39020724 AATCTTAGATATGATATGC
1 AATCTTACATATGATATGC
*
39020743 AATCTTAGATATGATA--C
1 AATCTTACATATGATATGC
* *
39020760 ACTCTTAGATATGATA--C
1 AATCTTACATATGATATGC
*
39020777 AATCTTAGATATGAT-TGC
1 AATCTTACATATGATATGC
*
39020795 AATCTTAGATATGATATGC
1 AATCTTACATATGATATGC
39020814 AATCTTA
1 AATCTTA
39020821 GAAGATATGA
Statistics
Matches: 89, Mismatches: 3, Indels: 8
0.89 0.03 0.08
Matches are distributed among these distances:
17 37 0.42
18 17 0.19
19 35 0.39
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (19 bp):
AATCTTACATATGATATGC
Found at i:39020829 original size:17 final size:19
Alignment explanation
Indices: 39020715--39020822 Score: 172
Period size: 19 Copynumber: 5.9 Consensus size: 19
39020705 ATAATCTTCA
39020715 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
39020734 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
39020753 ATGATA--CACTCTTAGAT
1 ATGATATGCAATCTTAGAT
39020770 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
39020787 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
39020805 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
39020823 AGATATGATT
Statistics
Matches: 84, Mismatches: 2, Indels: 6
0.91 0.02 0.07
Matches are distributed among these distances:
17 31 0.37
18 16 0.19
19 37 0.44
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:39020848 original size:22 final size:22
Alignment explanation
Indices: 39020715--39020845 Score: 86
Period size: 19 Copynumber: 6.8 Consensus size: 22
39020705 ATAATCTTCA
39020715 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
39020734 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
*
39020753 ATGATA--CACTCTTAG---AT
1 ATGATATGCAATCTTAGAAGAT
39020770 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
39020787 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
39020805 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
39020827 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
39020846 GATTTAATTT
Statistics
Matches: 97, Mismatches: 4, Indels: 18
0.82 0.03 0.15
Matches are distributed among these distances:
17 27 0.28
18 16 0.16
19 34 0.35
22 8 0.08
23 12 0.12
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:39023296 original size:25 final size:25
Alignment explanation
Indices: 39023267--39023326 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 25
39023257 TTAATTAATA
39023267 TAAAATATTAATAATTCAAT-AAAT
1 TAAAATATTAATAATTCAATAAAAT
*
39023291 TGAAAA-ATTAGATAATTGAATAAAAT
1 T-AAAATATTA-ATAATTCAATAAAAT
39023317 TAAAAT-TTAA
1 TAAAATATTAA
39023327 GAGAAAAGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
24 6 0.19
25 20 0.65
26 5 0.16
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (25 bp):
TAAAATATTAATAATTCAATAAAAT
Found at i:39031649 original size:12 final size:12
Alignment explanation
Indices: 39031627--39031681 Score: 58
Period size: 12 Copynumber: 4.2 Consensus size: 12
39031617 TAACCAAAAT
39031627 TTATCAAAATTAA
1 TTAT-AAAATTAA
39031640 TTATAAAATTAA
1 TTATAAAATTAA
39031652 TTA-AAATTCAGTTAA
1 TTATAAA---A-TTAA
39031667 TTATAAAATTAA
1 TTATAAAATTAA
39031679 TTA
1 TTA
39031682 AAATTCAACA
Statistics
Matches: 37, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
11 3 0.08
12 18 0.49
13 5 0.14
14 1 0.03
15 7 0.19
16 3 0.08
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.42
Consensus pattern (12 bp):
TTATAAAATTAA
Found at i:39031670 original size:27 final size:27
Alignment explanation
Indices: 39031636--39031688 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
39031626 TTTATCAAAA
39031636 TTAATTATAAAATTAATTAAAATTCAG
1 TTAATTATAAAATTAATTAAAATTCAG
39031663 TTAATTATAAAATTAATTAAAATTCA
1 TTAATTATAAAATTAATTAAAATTCA
39031689 ACATGTTCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.42
Consensus pattern (27 bp):
TTAATTATAAAATTAATTAAAATTCAG
Found at i:39035703 original size:47 final size:48
Alignment explanation
Indices: 39035613--39035724 Score: 120
Period size: 47 Copynumber: 2.3 Consensus size: 48
39035603 ATGGTACGAT
* *
39035613 GCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATAT-AA
1 GCCGATGCCATG-TCCAAACATGGTCCTACACTGACTCACATATATCAA
* * ** *
39035661 GTCGATGCCATGTCCTAGACA-GGTCCTACACTGACTTTCATATATCGAG
1 GCCGATGCCATGTCC-AAACATGGTCCTACACTGACTCACATATATC-AA
39035710 GCCGATGCCATGTCC
1 GCCGATGCCATGTCC
39035725 CAAATAGGTC
Statistics
Matches: 53, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
47 23 0.43
48 15 0.28
49 15 0.28
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.27
Consensus pattern (48 bp):
GCCGATGCCATGTCCAAACATGGTCCTACACTGACTCACATATATCAA
Found at i:39035734 original size:49 final size:49
Alignment explanation
Indices: 39035613--39035882 Score: 211
Period size: 49 Copynumber: 5.7 Consensus size: 49
39035603 ATGGTACGAT
* * * * *
39035613 GCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATAT--AA
1 GCCGATGCCATGTCCCAGACA-GGTCTTACACTGACTCTCATATATCGAG
* * * *
39035661 GTCGATGCCATGTCCTAGACAGGTCCTACACTGACTTTCATATATCGAG
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAG
* * * * *
39035710 GCCGATGCCATGTCCCAAATAGGTCTTACAATGGCTCTCATCTATCG-G
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAG
* * * * * * *
39035758 TGTCGATGCCACGTCCCAGGCAGGTCTTACATTGA----CACATGTC-AA
1 -GCCGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAG
*
39035803 GCCGATGCCATGTCCCAGACAGGTCTTACACT-AGCT-TGCATATCTCGAG
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTGA-CTCT-CATATATCGAG
* *
39035852 GCTGATG-CATGTCCCAGACATGTCTTACACT
1 GCCGATGCCATGTCCCAGACAGGTCTTACACT
39035883 AGCATACATA
Statistics
Matches: 174, Mismatches: 38, Indels: 20
0.75 0.16 0.09
Matches are distributed among these distances:
43 1 0.01
44 28 0.16
45 5 0.03
47 20 0.11
48 47 0.27
49 73 0.42
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (49 bp):
GCCGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAG
Found at i:39035859 original size:93 final size:92
Alignment explanation
Indices: 39035613--39035880 Score: 204
Period size: 93 Copynumber: 2.8 Consensus size: 92
39035603 ATGGTACGAT
* * * * ** *
39035613 GCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATAT--AAGTCGATGCCATGTCC
1 GCCGATGCCATGTCCCAAACA-GGTCTTACAATAGCTCTCATATATCGGTGTCGATG-CACGTCC
* * * * * *
39035676 TAGACAGGTCCTACACTGACTTTCATATATCGAG
64 CAGACAGGTCTTACATTGA----CACATGTC-AA
* * *
39035710 GCCGATGCCATGTCCCAAATAGGTCTTACAATGGCTCTCATCTATCGGTGTCGATGCCACGTCCC
1 GCCGATGCCATGTCCCAAACAGGTCTTACAATAGCTCTCATATATCGGTGTCGATG-CACGTCCC
*
39035775 AGGCAGGTCTTACATTGACACATGTCAA
65 AGACAGGTCTTACATTGACACATGTCAA
* * * *
39035803 GCCGATGCCATGTCCCAGACAGGTCTTACACTAGCT-TGCATATCTCGAG-G-CTGATGCATGTC
1 GCCGATGCCATGTCCCAAACAGGTCTTACAATAGCTCT-CATATATCG-GTGTC-GATGCACGTC
*
39035865 CCAGACATGTCTTACA
63 CCAGACAGGTCTTACA
39035881 CTAGCATACA
Statistics
Matches: 142, Mismatches: 24, Indels: 15
0.78 0.13 0.08
Matches are distributed among these distances:
92 21 0.15
93 45 0.32
94 7 0.05
96 21 0.15
97 19 0.13
98 29 0.20
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (92 bp):
GCCGATGCCATGTCCCAAACAGGTCTTACAATAGCTCTCATATATCGGTGTCGATGCACGTCCCA
GACAGGTCTTACATTGACACATGTCAA
Found at i:39042984 original size:44 final size:44
Alignment explanation
Indices: 39042921--39043052 Score: 201
Period size: 44 Copynumber: 3.0 Consensus size: 44
39042911 ATATTGATAT
* *
39042921 ATTAGCTCTTCTGGAGCTTTCAACTAATTTTGCACTATCAAATA
1 ATTAGCTCTTTTGGAGCTTTCAACTAATTTTGTACTATCAAATA
* * * *
39042965 ATTAGCTCTTTTAGAGCTTTCAACTAATTTTGTACCAGCAAATT
1 ATTAGCTCTTTTGGAGCTTTCAACTAATTTTGTACTATCAAATA
*
39043009 ATTAGCTCTTTTGGAGCTTTCAACTAATTTTGTACTATCGAATA
1 ATTAGCTCTTTTGGAGCTTTCAACTAATTTTGTACTATCAAATA
39043053 CTGCATTAAT
Statistics
Matches: 77, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 77 1.00
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (44 bp):
ATTAGCTCTTTTGGAGCTTTCAACTAATTTTGTACTATCAAATA
Found at i:39054628 original size:9 final size:9
Alignment explanation
Indices: 39054616--39054660 Score: 54
Period size: 9 Copynumber: 4.8 Consensus size: 9
39054606 ATATTAAAAA
39054616 TGAGAGAGT
1 TGAGAGAGT
*
39054625 TGAGAGACT
1 TGAGAGAGT
*
39054634 TGAGAGGGTT
1 TGAGAGAG-T
39054644 TGAGAGAGT
1 TGAGAGAGT
39054653 TCGAGAGA
1 T-GAGAGA
39054661 ATCGAGAGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
9 16 0.53
10 14 0.47
ACGTcount: A:0.31, C:0.04, G:0.42, T:0.22
Consensus pattern (9 bp):
TGAGAGAGT
Found at i:39060581 original size:16 final size:16
Alignment explanation
Indices: 39060560--39060594 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
39060550 TTTATAATAT
39060560 ATATAA-ATATAATTCA
1 ATATAATAT-TAATTCA
39060576 ATATAATATTAATTCA
1 ATATAATATTAATTCA
39060592 ATA
1 ATA
39060595 AATTCAAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 16 0.89
17 2 0.11
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (16 bp):
ATATAATATTAATTCA
Found at i:39061549 original size:20 final size:21
Alignment explanation
Indices: 39061524--39061571 Score: 80
Period size: 20 Copynumber: 2.3 Consensus size: 21
39061514 TATAATTATT
*
39061524 TAATTAATAAATATCT-TTTA
1 TAATTAATAAATATCTATTAA
39061544 TAATTAATAAATATCTATTAA
1 TAATTAATAAATATCTATTAA
39061565 TAATTAA
1 TAATTAA
39061572 ATACATATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 16 0.62
21 10 0.38
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (21 bp):
TAATTAATAAATATCTATTAA
Found at i:39066881 original size:40 final size:40
Alignment explanation
Indices: 39066826--39066968 Score: 241
Period size: 40 Copynumber: 3.6 Consensus size: 40
39066816 TGGATGATAA
* *
39066826 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
39066866 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
39066906 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
39066946 CCGGGCTATGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
39066969 GAGCAAGTAG
Statistics
Matches: 97, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 97 1.00
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:39071178 original size:79 final size:80
Alignment explanation
Indices: 39071080--39071262 Score: 221
Period size: 79 Copynumber: 2.3 Consensus size: 80
39071070 TCCTCATTCA
* *
39071080 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
39071143 ATTTAGTAAC-TCGCACC
64 ATATAGTAACTTAGCA-C
* **
39071160 AATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
* *
39071224 ATGGTCACTTAGCAC
66 ATAGTAACTTAGCAC
*
39071239 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
39071263 CATCATTCAA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 58 0.65
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:39071262 original size:40 final size:40
Alignment explanation
Indices: 39071078--39071262 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
39071068 GCTCCTCATT
* *
39071078 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
39071118 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
39071158 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
39071197 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
39071238 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
39071263 CATCATTCAA
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
38 2 0.02
39 31 0.25
40 79 0.64
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:39073816 original size:16 final size:16
Alignment explanation
Indices: 39073795--39073829 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
39073785 TTTATAATAT
39073795 ATATAA-ATATAATTCA
1 ATATAATAT-TAATTCA
39073811 ATATAATATTAATTCA
1 ATATAATATTAATTCA
39073827 ATA
1 ATA
39073830 AATTCAAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 16 0.89
17 2 0.11
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (16 bp):
ATATAATATTAATTCA
Done.