Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 85 of 320
Found at i:27001195 original size:22 final size:20
Alignment explanation
Indices: 27001156--27001195 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
27001146 GTGATAGTAT
*
27001156 GTTTTATATATTATTATAAG
1 GTTTTATATATTAATATAAG
27001176 GTTTTATCATGATTAATATA
1 GTTTTAT-AT-ATTAATATA
27001196 TGTAACACCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 2 0.12
22 8 0.47
ACGTcount: A:0.35, C:0.03, G:0.10, T:0.53
Consensus pattern (20 bp):
GTTTTATATATTAATATAAG
Found at i:27003924 original size:30 final size:30
Alignment explanation
Indices: 27003890--27003950 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
27003880 TCCTTAACTC
27003890 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
27003920 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
27003950 A
1 A
27003951 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:27007019 original size:43 final size:45
Alignment explanation
Indices: 27006967--27007094 Score: 143
Period size: 51 Copynumber: 2.8 Consensus size: 45
27006957 TGTAGCATTT
*
27006967 GAGCTCGTTGAGTGGTTCGAGTTCATTATGGATGC-GAG-CATCC
1 GAGCTCGTTGAGTGGTCCGAGTTCATTATGGATGCAGAGACATCC
* *
27007010 GAGCTCGTTGAGTGGTCCGAGTTCATAATGTATGTGATACATGTGACATCC
1 GAGCTCGTTGAGTGGTCCGAGTTC---AT-TATG-GATGCA-GAGACATCC
* *
27007061 GAGCTCGTTGAGAGGTCCAAGTTCATTATGGATG
1 GAGCTCGTTGAGTGGTCCGAGTTCATTATGGATG
27007095 TATTATATCT
Statistics
Matches: 71, Mismatches: 6, Indels: 13
0.79 0.07 0.14
Matches are distributed among these distances:
43 23 0.32
46 5 0.07
47 8 0.11
48 6 0.08
50 2 0.03
51 27 0.38
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.30
Consensus pattern (45 bp):
GAGCTCGTTGAGTGGTCCGAGTTCATTATGGATGCAGAGACATCC
Found at i:27009827 original size:27 final size:26
Alignment explanation
Indices: 27009783--27009833 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
27009773 CTCGCTGTAA
*
27009783 TCTGGTGGCCTCGCCACATATATCTAT
1 TCTGGTGACCTCGCCACA-ATATCTAT
* *
27009810 TCTGGTGACTTCGTCACAATATCT
1 TCTGGTGACCTCGCCACAATATCT
27009834 GGCAGCCTCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTAT
Found at i:27009888 original size:31 final size:32
Alignment explanation
Indices: 27009850--27009911 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
27009840 CTCGCTGCAA
* *
27009850 TCTGGTGGCTTCGCCAC-ATATATATATCTGT
1 TCTGGTGGCCTAGCCACAATATATATATCTGT
*
27009881 TCTGGTGGCCTAGCCACAATATCTATATCTG
1 TCTGGTGGCCTAGCCACAATATATATATCTG
27009912 GTGACTTCGT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 15 0.56
32 12 0.44
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.35
Consensus pattern (32 bp):
TCTGGTGGCCTAGCCACAATATATATATCTGT
Found at i:27018821 original size:35 final size:34
Alignment explanation
Indices: 27018762--27018888 Score: 128
Period size: 35 Copynumber: 3.6 Consensus size: 34
27018752 TACTCTCTGT
* * *
27018762 TTGGTGTGTTTCGGTTGGACTAGCTCTTGTGAGCA
1 TTGGTGTGTTT-GGATGGATTAGCTCTTATGAGCA
*
27018797 TTGGTGTGTTTAGGAGGGATTAGCTCTTATGAGCA
1 TTGGTGTGTTT-GGATGGATTAGCTCTTATGAGCA
* * * *
27018832 TTGGTGTATTTCGATTGGATTGGCTCTTATGAGAA
1 TTGGTGTGTTTGGA-TGGATTAGCTCTTATGAGCA
*
27018867 TTTGGTGTGTTTTGGTTGGATT
1 -TTGGTGTG-TTTGGATGGATT
27018889 GACGATGCAC
Statistics
Matches: 76, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
34 2 0.03
35 57 0.75
36 13 0.17
37 4 0.05
ACGTcount: A:0.15, C:0.09, G:0.33, T:0.43
Consensus pattern (34 bp):
TTGGTGTGTTTGGATGGATTAGCTCTTATGAGCA
Found at i:27022485 original size:16 final size:17
Alignment explanation
Indices: 27022464--27022496 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
27022454 CTAAAATAGT
27022464 AACAAAATTA-ACAATA
1 AACAAAATTATACAATA
*
27022480 AACAAAGTTATACAATA
1 AACAAAATTATACAATA
27022497 TCCAAACAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.64, C:0.12, G:0.03, T:0.21
Consensus pattern (17 bp):
AACAAAATTATACAATA
Found at i:27023133 original size:19 final size:19
Alignment explanation
Indices: 27023101--27023151 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 19
27023091 ACGCTTTTAT
**
27023101 ATTTTTAATTTTTTAATT-A
1 ATTTTTAAAATTTT-ATTAA
* *
27023120 ATTTTTATAATTTTTTTAA
1 ATTTTTAAAATTTTATTAA
27023139 ATTTTTAAAATTT
1 ATTTTTAAAATTT
27023152 AAAAAATTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
18 2 0.08
19 24 0.92
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
ATTTTTAAAATTTTATTAA
Found at i:27023622 original size:14 final size:14
Alignment explanation
Indices: 27023603--27023633 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
27023593 ATCCAAACAA
27023603 TAACAACAAAATAG
1 TAACAACAAAATAG
*
27023617 TAACAACATAATAG
1 TAACAACAAAATAG
27023631 TAA
1 TAA
27023634 AATAGTAGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.61, C:0.13, G:0.06, T:0.19
Consensus pattern (14 bp):
TAACAACAAAATAG
Found at i:27024286 original size:30 final size:29
Alignment explanation
Indices: 27024252--27024310 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
27024242 ATAATTTGTG
* *
27024252 AAAATTGAATCAAATTAAAATTTCATATAT
1 AAAATTGAA-CAAACTAAAAGTTCATATAT
* *
27024282 AAAATTGTACAAACTCAAAGTTCATATAT
1 AAAATTGAACAAACTAAAAGTTCATATAT
27024311 GACATTGCAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 17 0.68
30 8 0.32
ACGTcount: A:0.51, C:0.10, G:0.05, T:0.34
Consensus pattern (29 bp):
AAAATTGAACAAACTAAAAGTTCATATAT
Found at i:27028456 original size:28 final size:28
Alignment explanation
Indices: 27028390--27028482 Score: 98
Period size: 28 Copynumber: 3.3 Consensus size: 28
27028380 GATGTCTCAA
* * * **
27028390 ACACTATGTACCATACTCGATACCTTGC
1 ACACTAAGTGCCATCCTCGATAGTTTGC
* * *
27028418 ACGCTAAGTGCTATCCTGGAT-GTTTCGC
1 ACACTAAGTGCCATCCTCGATAGTTT-GC
27028446 ACACTAAGTGCCATCCTCGATAGTTTGC
1 ACACTAAGTGCCATCCTCGATAGTTTGC
27028474 ACACTAAGT
1 ACACTAAGT
27028483 TAGCTGAAGC
Statistics
Matches: 52, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
27 2 0.04
28 46 0.88
29 4 0.08
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.29
Consensus pattern (28 bp):
ACACTAAGTGCCATCCTCGATAGTTTGC
Found at i:27028541 original size:40 final size:39
Alignment explanation
Indices: 27028489--27028566 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
27028479 AAGTTAGCTG
**
27028489 AAGCTATCTCAAATTGCACACCAAGTGCCACTTTTAGCCA
1 AAGCTATCTCAAACCGCACACCAAGTGCCA-TTTTAGCCA
* *
27028529 AAGCTATTTCAAACCGCACACTAAGTGCCATTTTAGCC
1 AAGCTATCTCAAACCGCACACCAAGTGCCATTTTAGCC
27028567 GATAAGTCGT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 8 0.24
40 26 0.76
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.26
Consensus pattern (39 bp):
AAGCTATCTCAAACCGCACACCAAGTGCCATTTTAGCCA
Found at i:27040993 original size:13 final size:13
Alignment explanation
Indices: 27040975--27041000 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
27040965 ATATTTAAAA
27040975 TTTATTTTATGTG
1 TTTATTTTATGTG
27040988 TTTATTTTATGTG
1 TTTATTTTATGTG
27041001 AATTTATATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.15, T:0.69
Consensus pattern (13 bp):
TTTATTTTATGTG
Found at i:27045465 original size:40 final size:40
Alignment explanation
Indices: 27045416--27045638 Score: 281
Period size: 40 Copynumber: 5.6 Consensus size: 40
27045406 ACTACTTGCT
* *
27045416 CAAATGCCTTCGGGACATAGCCCGG-TTAGAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
27045456 CAATTGCCTTCGGGACTTAGCCCGGATTTAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
27045496 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAATTTGTA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
27045536 CAAATGCCTT-GGGACTTAGCCCGGGTTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * **
27045575 CAGATACCTTCGGGACTTAGCCCGGA-TTAGTCACTAGTG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
27045614 CAGATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
27045639 TTTTCTTCCA
Statistics
Matches: 162, Mismatches: 19, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
39 66 0.41
40 94 0.58
41 2 0.01
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:27045586 original size:79 final size:80
Alignment explanation
Indices: 27045416--27045638 Score: 281
Period size: 79 Copynumber: 2.8 Consensus size: 80
27045406 ACTACTTGCT
* * * * * *
27045416 CAAATGCCTTCGGGACATAGCCCGG-TTAGAGTAACTCGCACAATTGCCTTCGGGACTTAGCCCG
1 CAAATACCTTCGGGACTTAGCCCGGATT-TAGTAACTAGTACAAATGCCTTCGGGACTTAGCCCG
*
27045480 GATTTAGTAACTTGCA
65 GATTTAGTAACTCGCA
* * *
27045496 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAATTTGTACAAATGCCTT-GGGACTTAGCCCGG
1 CAAATACCTTCGGGACTTAGCCCGGATTTAGTAACTAGTACAAATGCCTTCGGGACTTAGCCCGG
*
27045560 GTTTAGTAACTCGCA
66 ATTTAGTAACTCGCA
* * * *
27045575 CAGATACCTTCGGGACTTAGCCCGGA-TTAGTCACTAGTGCAGATGCCTTCGGGACTTAGCCCGG
1 CAAATACCTTCGGGACTTAGCCCGGATTTAGTAACTAGTACAAATGCCTTCGGGACTTAGCCCGG
27045639 TTTTCTTCCA
Statistics
Matches: 126, Mismatches: 15, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
78 18 0.14
79 65 0.52
80 41 0.33
81 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (80 bp):
CAAATACCTTCGGGACTTAGCCCGGATTTAGTAACTAGTACAAATGCCTTCGGGACTTAGCCCGG
ATTTAGTAACTCGCA
Found at i:27053138 original size:37 final size:37
Alignment explanation
Indices: 27053088--27053166 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
27053078 TTATTACGAA
* * *
27053088 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
27053125 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
27053162 GTCTT
1 GTCTT
27053167 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:27053363 original size:47 final size:47
Alignment explanation
Indices: 27053285--27053648 Score: 586
Period size: 47 Copynumber: 7.7 Consensus size: 47
27053275 CCCTTCGGGA
* * * * * *
27053285 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
27053332 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27053379 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27053426 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
27053473 CTTATAACATATGTACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27053520 CTTATCACATATGTACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27053567 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
27053614 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
27053649 AGAATCCTAA
Statistics
Matches: 299, Mismatches: 17, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
46 1 0.00
47 298 1.00
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:27053526 original size:22 final size:22
Alignment explanation
Indices: 27053501--27053576 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
27053491 TTTCACATTC
27053501 ATCACATCGGCCATTAGGCCTT
1 ATCACATCGGCCATTAGGCCTT
* ** *** *
27053523 ATCACATATGTACACTTTCACATT
1 ATCACAT-CGGCCA-TTAGGCCTT
27053547 CATCACATCGGCCATTAGGCCTT
1 -ATCACATCGGCCATTAGGCCTT
27053570 ATCACAT
1 ATCACAT
27053577 ATATACACTT
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 14 0.38
23 8 0.22
24 8 0.22
25 7 0.19
ACGTcount: A:0.28, C:0.30, G:0.12, T:0.30
Consensus pattern (22 bp):
ATCACATCGGCCATTAGGCCTT
Found at i:27057863 original size:39 final size:40
Alignment explanation
Indices: 27057653--27057880 Score: 273
Period size: 40 Copynumber: 5.7 Consensus size: 40
27057643 GGATATAACT
* * * * *
27057653 ACTCGCTCAAATGCCTTCAGAACATAGCCCGG-TTAGAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTA
* *
27057693 ACTCGCACAATTGCCTTCGGGACTTAGCCCAGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
27057733 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* *
27057773 ATTCGCACAAATGCCTTTGGGACTTAGCCC-GAGTTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGA-TTTAGTA
* *
27057813 ACTCGCACAGATGCCTTCGGGACTTAGCCCGGA-TTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* ** * *
27057852 ACTAGTGCAGATGCTTTCGGGACTTAGCC
1 ACTCGCACAAATGCCTTCGGGACTTAGCC
27057881 TGGTTTTCAT
Statistics
Matches: 166, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 32 0.19
40 130 0.78
41 4 0.02
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:27071002 original size:50 final size:50
Alignment explanation
Indices: 27070874--27071163 Score: 287
Period size: 50 Copynumber: 5.8 Consensus size: 50
27070864 AACCAAAGTT
* * *
27070874 ATCTGGTACGCATAGTAGCCTACACTTAGTACTACACATGTGACC-AACAC
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC-C
* * ** *
27070924 TTC-AGTACATGTAGTAGCCTGCACTTAGTATTACACACGTGACCTAACC
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
* * * * **
27070973 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACATGATCGAAGTT
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-CC
* * * * * *
27071024 GTCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACT
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
* * *
27071074 ATCTGGTACACATAGTAACCTACACTTAGTACTACACACATGACCTAAAACC
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCT--AACC
*** *
27071126 ATCTTAAACACATAGTAGCCTGCACATAGTACTACACA
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
27071164 TGTGTTCTCA
Statistics
Matches: 191, Mismatches: 44, Indels: 8
0.79 0.18 0.03
Matches are distributed among these distances:
49 37 0.19
50 80 0.42
51 39 0.20
52 35 0.18
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (50 bp):
ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
Found at i:27071061 original size:101 final size:101
Alignment explanation
Indices: 27070935--27071116 Score: 301
Period size: 101 Copynumber: 1.8 Consensus size: 101
27070925 TCAGTACATG
* * * *
27070935 TAGTAGCCTGCACTTAGTATTACACACGTGACCTAACCATCTGATACACATAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACCATCTGATACACATAGTAACCTACACTT
27071000 AGTACTACACACATGATCGAAGTTGTCAGGTACGCA
66 AGTACTACACACATGATCGAAGTTGTCAGGTACGCA
* * *
27071036 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGGTACACATAGTAACCTACACTT
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACCATCTGATACACATAGTAACCTACACTT
27071101 AGTACTACACACATGA
66 AGTACTACACACATGA
27071117 CCTAAAACCA
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
101 74 1.00
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (101 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACCATCTGATACACATAGTAACCTACACTT
AGTACTACACACATGATCGAAGTTGTCAGGTACGCA
Found at i:27071160 original size:153 final size:150
Alignment explanation
Indices: 27070869--27071163 Score: 412
Period size: 150 Copynumber: 1.9 Consensus size: 150
27070859 CTTGTAACCA
* * *
27070869 AAGTTATCTGGTACGCATAGTAGCCTACACTTAGTACTACACATGTGACCAACACTTCAGTACAT
1 AAGTTATCAGGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAACACTTCAGTACAC
* * * * * * *
27070934 GTAGTAGCCTGCACTTAGTATTACACACGTGACCTAACCATCTGATACACATAGTAGCCTGCACT
66 ATAGTAACCTACACTTAGTACTACACACATGACCTAACCATCTGAAACACATAGTAGCCTGCACA
27070999 TAGTACTACACACATGATCG
131 TAGTACTACACACATGATCG
* * * *
27071019 AAGTTGTCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTA-ACTATCTGGTAC
1 AAGTTATCAGGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAACACT-TC-AGTAC
*
27071083 ACATAGTAACCTACACTTAGTACTACACACATGACCTAAAACCATCTTAAACACATAGTAGCCTG
64 ACATAGTAACCTACACTTAGTACTACACACATGACCT--AACCATCTGAAACACATAGTAGCCTG
27071148 CACATAGTACTACACA
127 CACATAGTACTACACA
27071164 TGTGTTCTCA
Statistics
Matches: 126, Mismatches: 15, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
149 3 0.02
150 49 0.39
151 35 0.28
153 39 0.31
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.25
Consensus pattern (150 bp):
AAGTTATCAGGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAACACTTCAGTACAC
ATAGTAACCTACACTTAGTACTACACACATGACCTAACCATCTGAAACACATAGTAGCCTGCACA
TAGTACTACACACATGATCG
Found at i:27071796 original size:30 final size:30
Alignment explanation
Indices: 27071755--27071811 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
27071745 AAAATCATAT
***
27071755 TTTGGCAAAATTATGTTTTTGCCCCTAAAC
1 TTTGGCAAAATTACACTTTTGCCCCTAAAC
*
27071785 TTTGTCAAAATTACACTTTTGCCCCTA
1 TTTGGCAAAATTACACTTTTGCCCCTA
27071812 GGCTCGTAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.26, C:0.23, G:0.11, T:0.40
Consensus pattern (30 bp):
TTTGGCAAAATTACACTTTTGCCCCTAAAC
Found at i:27078498 original size:145 final size:145
Alignment explanation
Indices: 27078235--27078524 Score: 535
Period size: 145 Copynumber: 2.0 Consensus size: 145
27078225 AAGCCATTTC
*
27078235 CTAGCTTCATTTCTCACCCAAATTTACCGAAAAACATGTACATAAAACACTCAACCAATTCCAGC
1 CTAGCTTCATTTCTCACCCAAATTTACCGAAAAACATATACATAAAACACTCAACCAATTCCAGC
*
27078300 CATTTCAGGTATTTAAAGTAGGCAAATTCATCATTTAACAAGGCATACCACTACATGCATAAATG
66 CATTTCAAGTATTTAAAGTAGGCAAATTCATCATTTAACAAGGCATACCACTACATGCATAAATG
27078365 ATTACAAATTTACCT
131 ATTACAAATTTACCT
* *
27078380 CTAGCTTTATTTCTCACCCAAATTTACCGAAAAACCTATACATAAAACACTCAACCAATTCCAGC
1 CTAGCTTCATTTCTCACCCAAATTTACCGAAAAACATATACATAAAACACTCAACCAATTCCAGC
27078445 CATTTCAAGTATTTAAAGTAGGCAAATTCATCATTTAACAAGGCATACCACTACATGCATAAATG
66 CATTTCAAGTATTTAAAGTAGGCAAATTCATCATTTAACAAGGCATACCACTACATGCATAAATG
*
27078510 ATTATAAATTTACCT
131 ATTACAAATTTACCT
27078525 TAGATTAACT
Statistics
Matches: 140, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
145 140 1.00
ACGTcount: A:0.39, C:0.24, G:0.08, T:0.29
Consensus pattern (145 bp):
CTAGCTTCATTTCTCACCCAAATTTACCGAAAAACATATACATAAAACACTCAACCAATTCCAGC
CATTTCAAGTATTTAAAGTAGGCAAATTCATCATTTAACAAGGCATACCACTACATGCATAAATG
ATTACAAATTTACCT
Found at i:27079945 original size:20 final size:20
Alignment explanation
Indices: 27079902--27079948 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
27079892 CCAGCACATG
*
27079902 TTTTCATAAAATTTCAAAAT
1 TTTTCATAAAATTTCAAAAC
* * *
27079922 TTTTCATCAAATTTTACAAC
1 TTTTCATAAAATTTCAAAAC
27079942 TTTTCAT
1 TTTTCAT
27079949 TTTAGTCCTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.49
Consensus pattern (20 bp):
TTTTCATAAAATTTCAAAAC
Found at i:27082524 original size:15 final size:16
Alignment explanation
Indices: 27082495--27082524 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
27082485 CAAACATGTT
27082495 TTAACACATTATCAAA
1 TTAACACATTATCAAA
27082511 TTAACACA-TATCAA
1 TTAACACATTATCAA
27082525 CTAGGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:27086693 original size:40 final size:40
Alignment explanation
Indices: 27086649--27086797 Score: 237
Period size: 40 Copynumber: 3.7 Consensus size: 40
27086639 GCTACTTGCT
27086649 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
27086689 CAAATGCCTTCGGGACTTAGCCCGGATATAGAAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
27086729 CAAATGCCTTCAGGACTTAGCCCGGATT-TAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
27086769 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
27086798 CATCCGAATA
Statistics
Matches: 99, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
39 2 0.02
40 96 0.97
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:27086748 original size:80 final size:80
Alignment explanation
Indices: 27086616--27086793 Score: 252
Period size: 80 Copynumber: 2.2 Consensus size: 80
27086606 AAACCAAGTA
* * ** * * *
27086616 CCTTCGGAATTTAG-CCGGATATAGCTACTTGCTCAAATGCCTTCGGGACTTAGCCCGG-TTATA
1 CCTTCGGGACTTAGCCCGGATATAGAAACTCGCACAAATGCCTTCAGGACTTAGCCCGGATT-TA
*
27086679 GTAACTCGCACAAATG
65 GTAACTAGCACAAATG
27086695 CCTTCGGGACTTAGCCCGGATATAGAAACTCGCACAAATGCCTTCAGGACTTAGCCCGGATTTAG
1 CCTTCGGGACTTAGCCCGGATATAGAAACTCGCACAAATGCCTTCAGGACTTAGCCCGGATTTAG
*
27086760 TCACTAGCACAAATG
66 TAACTAGCACAAATG
27086775 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
27086794 TTATCATCCG
Statistics
Matches: 88, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
79 12 0.14
80 74 0.84
81 2 0.02
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGAAACTCGCACAAATGCCTTCAGGACTTAGCCCGGATTTAG
TAACTAGCACAAATG
Found at i:27094400 original size:40 final size:41
Alignment explanation
Indices: 27094345--27094634 Score: 308
Period size: 41 Copynumber: 7.1 Consensus size: 41
27094335 AAAAATTGTA
* * * * * *
27094345 AAAACACATAGCAATAGTGGCG-TTTTACCAAAAACGCCACG
1 AAAA-ACAGAGCATTAGCGGCGCTTTTAGCAAAAACGCCGCT
* * *
27094386 AAAAACAGAGCAATAGCGGCG-TTTTAGTAAAAAACGCCGCA
1 AAAAACAGAGCATTAGCGGCGCTTTTAG-CAAAAACGCCGCT
*
27094427 AAAAACAGAGCATTAGCGGCGCTTTTTGC-AAAACGCCGCT
1 AAAAACAGAGCATTAGCGGCGCTTTTAGCAAAAACGCCGCT
*
27094467 AAAAACTAGAGCATTAGCGGCGCTTTT-GGAAAAACGCCGCT
1 AAAAAC-AGAGCATTAGCGGCGCTTTTAGCAAAAACGCCGCT
**
27094508 AAAAACCAGAGCATTAGCGGCGCTTTT-GGTAAAACGCCGCT
1 AAAAA-CAGAGCATTAGCGGCGCTTTTAGCAAAAACGCCGCT
27094549 AAAAACCAGAGCATTAGCGGCGCTTTT-G-ATAAAACGCCGCT
1 AAAAA-CAGAGCATTAGCGGCGCTTTTAGCA-AAAACGCCGCT
* * **
27094590 AAAAACCAGAACATTAGCGGCACTTTT-GGTAAAACGCCGCT
1 AAAAA-CAGAGCATTAGCGGCGCTTTTAGCAAAAACGCCGCT
27094631 AAAA
1 AAAA
27094635 GTCATATAAC
Statistics
Matches: 226, Mismatches: 16, Indels: 14
0.88 0.06 0.05
Matches are distributed among these distances:
40 37 0.16
41 183 0.81
42 6 0.03
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.18
Consensus pattern (41 bp):
AAAAACAGAGCATTAGCGGCGCTTTTAGCAAAAACGCCGCT
Found at i:27094478 original size:82 final size:81
Alignment explanation
Indices: 27094375--27094634 Score: 380
Period size: 82 Copynumber: 3.2 Consensus size: 81
27094365 CGTTTTACCA
* * * *
27094375 AAAACGCCACGAAAAACAGAGCAATAGCGGCG-TTTTAGTAAAAAACGCCGC-AAAAAACAGAGC
1 AAAACGCCGCTAAAAACAGAGCATTAGCGGCGCTTTT-G-AAAAAACGCCGCTAAAAACCAGAGC
* *
27094438 ATTAGCGGCGCTTTTTGC
64 ATTAGCGGCGCTTTTGGT
*
27094456 AAAACGCCGCTAAAAACTAGAGCATTAGCGGCGCTTTTGGAAAAACGCCGCTAAAAACCAGAGCA
1 AAAACGCCGCTAAAAAC-AGAGCATTAGCGGCGCTTTTGAAAAAACGCCGCTAAAAACCAGAGCA
27094521 TTAGCGGCGCTTTTGGT
65 TTAGCGGCGCTTTTGGT
* *
27094538 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGATAAAACGCCGCTAAAAACCAGAACA
1 AAAACGCCGCTAAAAA-CAGAGCATTAGCGGCGCTTTTGAAAAAACGCCGCTAAAAACCAGAGCA
*
27094603 TTAGCGGCACTTTTGGT
65 TTAGCGGCGCTTTTGGT
27094620 AAAACGCCGCTAAAA
1 AAAACGCCGCTAAAA
27094635 GTCATATAAC
Statistics
Matches: 164, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
81 26 0.16
82 133 0.81
83 5 0.03
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.18
Consensus pattern (81 bp):
AAAACGCCGCTAAAAACAGAGCATTAGCGGCGCTTTTGAAAAAACGCCGCTAAAAACCAGAGCAT
TAGCGGCGCTTTTGGT
Found at i:27094562 original size:123 final size:121
Alignment explanation
Indices: 27094374--27094634 Score: 373
Period size: 123 Copynumber: 2.1 Consensus size: 121
27094364 GCGTTTTACC
* *
27094374 AAAAACGCCACGAAAAACAGAGCAATAGCGGCGTTTTAGTAAAAAACGCCGCAAAAAACAGAGCA
1 AAAAACGCCGCTAAAAACAGAGCAATAGCGGCGTTTTAGT-AAAAACGCCGCAAAAAACAGAGCA
* * *
27094439 TTAGCGGCGCTTTTTG-CAAAACGCCGCTAAAAACTAGAGCATTAGCGGCGCTTTTGG
65 TTAGCGGCGC-TTTTGACAAAACGCCGCTAAAAACCAGAACATTAGCGGCACTTTTGG
* * *
27094496 AAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT-AAAACGCCGCTAAAAACCAGAG
1 AAAAACGCCGCTAAAAA-CAGAGCAATAGCGGCG-TTTTAGTAAAAACGCCGC-AAAAAACAGAG
*
27094560 CATTAGCGGCGCTTTTGATAAAACGCCGCTAAAAACCAGAACATTAGCGGCACTTTTGG
63 CATTAGCGGCGCTTTTGACAAAACGCCGCTAAAAACCAGAACATTAGCGGCACTTTTGG
*
27094619 TAAAACGCCGCTAAAA
1 AAAAACGCCGCTAAAA
27094635 GTCATATAAC
Statistics
Matches: 125, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
122 30 0.24
123 89 0.71
124 6 0.05
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.18
Consensus pattern (121 bp):
AAAAACGCCGCTAAAAACAGAGCAATAGCGGCGTTTTAGTAAAAACGCCGCAAAAAACAGAGCAT
TAGCGGCGCTTTTGACAAAACGCCGCTAAAAACCAGAACATTAGCGGCACTTTTGG
Found at i:27094843 original size:21 final size:21
Alignment explanation
Indices: 27094795--27094843 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
27094785 TATCATTATA
*
27094795 GTTTATGGTTTATGGTTCAAG
1 GTTTATGGTTTAGGGTTCAAG
* * * *
27094816 ATATATGGTTTCGGGTTTAAG
1 GTTTATGGTTTAGGGTTCAAG
27094837 GTTTATG
1 GTTTATG
27094844 AGTTAACTAT
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.20, C:0.04, G:0.29, T:0.47
Consensus pattern (21 bp):
GTTTATGGTTTAGGGTTCAAG
Found at i:27094892 original size:21 final size:21
Alignment explanation
Indices: 27094868--27095060 Score: 63
Period size: 21 Copynumber: 8.7 Consensus size: 21
27094858 TAAGATATAT
27094868 GGTTTAGGGTTTAGGGTTTAA
1 GGTTTAGGGTTTAGGGTTTAA
**
27094889 GGTTTAGGAGTTAACTAGTATTTGAA
1 GGTTTAGG-GTT---TAGGGTTT-AA
** *
27094915 GGTTTATGATGAATTATGGGTTTAG
1 GGTTTA-G--GGTTTA-GGGTTTAA
* * * *
27094940 GGATTATGATTTAGGGTTTAG
1 GGTTTAGGGTTTAGGGTTTAA
*
27094961 GGGTTAGGG-TT-GGAGTTTAA
1 GGTTTAGGGTTTAGG-GTTTAA
* *
27094981 GGTGTAAGGGTTT-GGGGTTAA
1 GGT-TTAGGGTTTAGGGTTTAA
* *
27095002 GGGTTAAGGGTTTAGAGTTT-A
1 -GGTTTAGGGTTTAGGGTTTAA
* *
27095023 GTGTTTATGGG-ATAGGGGTTAAGA
1 G-GTTTA-GGGTTTA-GGGTTTA-A
27095047 GGTTTAGGGTTTAG
1 GGTTTAGGGTTTAG
27095061 ATTAATTAGT
Statistics
Matches: 128, Mismatches: 24, Indels: 39
0.67 0.13 0.20
Matches are distributed among these distances:
19 2 0.02
20 10 0.08
21 48 0.38
22 30 0.23
23 7 0.05
24 2 0.02
25 14 0.11
26 12 0.09
27 1 0.01
28 1 0.01
29 1 0.01
ACGTcount: A:0.23, C:0.01, G:0.38, T:0.39
Consensus pattern (21 bp):
GGTTTAGGGTTTAGGGTTTAA
Found at i:27094961 original size:7 final size:7
Alignment explanation
Indices: 27094932--27095060 Score: 75
Period size: 7 Copynumber: 18.1 Consensus size: 7
27094922 GATGAATTAT
27094932 GGGTTTA
1 GGGTTTA
*
27094939 GGGATTA
1 GGGTTTA
* *
27094946 TGATTTA
1 GGGTTTA
27094953 GGGTTTA
1 GGGTTTA
*
27094960 GGGGTTA
1 GGGTTTA
27094967 GGG-TT-
1 GGGTTTA
27094972 GGAGTTTA
1 GG-GTTTA
* *
27094980 AGGTGTAA
1 GGGT-TTA
*
27094988 GGGTTTG
1 GGGTTTA
*
27094995 GGGTTAA
1 GGGTTTA
*
27095002 GGGTTAA
1 GGGTTTA
27095009 GGGTTTA
1 GGGTTTA
*
27095016 GAGTTTA
1 GGGTTTA
*
27095023 GTGTTTA
1 GGGTTTA
*
27095030 TGGG-ATA
1 -GGGTTTA
*
27095037 GGGGTTAA
1 -GGGTTTA
27095045 GAGGTTTA
1 G-GGTTTA
27095053 GGGTTTA
1 GGGTTTA
27095060 G
1 G
27095061 ATTAATTAGT
Statistics
Matches: 92, Mismatches: 23, Indels: 14
0.71 0.18 0.11
Matches are distributed among these distances:
5 2 0.02
6 3 0.03
7 72 0.78
8 15 0.16
ACGTcount: A:0.21, C:0.00, G:0.42, T:0.37
Consensus pattern (7 bp):
GGGTTTA
Found at i:27096354 original size:15 final size:15
Alignment explanation
Indices: 27096334--27096364 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
27096324 TTGAAGGTAA
27096334 CCTACTGGTTTTCTT
1 CCTACTGGTTTTCTT
27096349 CCTACTGGTTTTCTT
1 CCTACTGGTTTTCTT
27096364 C
1 C
27096365 TAATTCAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.06, C:0.29, G:0.13, T:0.52
Consensus pattern (15 bp):
CCTACTGGTTTTCTT
Found at i:27107846 original size:48 final size:47
Alignment explanation
Indices: 27107699--27107875 Score: 195
Period size: 48 Copynumber: 3.7 Consensus size: 47
27107689 TGGTTGAGCA
* *
27107699 TCCGAACTCGTTGAGTTGAGT-CGAGTTTCACCTATGGATGCGAATG-
1 TCCGAACTCGTTGAGTTGAGTCCGAG-TTCACTTATGGATGCGAACGC
* *
27107745 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-C--GTGAGATG-TAACTAGGC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCGAAC---GC
27107792 ATCCGAACTCGTTGAGTTGAGGTCCGAGTTCACTTATGGATGCGAACGC
1 -TCCGAACTCGTTGAGTTGA-GTCCGAGTTCACTTATGGATGCGAACGC
*
27107841 CCCGAAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTA
27107876 GGGGCGGGTT
Statistics
Matches: 112, Mismatches: 6, Indels: 24
0.79 0.04 0.17
Matches are distributed among these distances:
43 4 0.04
44 4 0.04
45 1 0.01
46 25 0.22
47 4 0.04
48 39 0.35
49 25 0.22
50 1 0.01
51 4 0.04
52 5 0.04
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.28
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:27112349 original size:40 final size:40
Alignment explanation
Indices: 27112305--27112453 Score: 237
Period size: 40 Copynumber: 3.7 Consensus size: 40
27112295 GCTACTTGCT
27112305 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
27112345 CAAATGCCTTCGGGACTTAGCCCGGATATAGAAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
27112385 CAAATGCCTTCAGGACTTAGCCCGGATT-TAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
27112425 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
27112454 CATCCGAATA
Statistics
Matches: 99, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
39 2 0.02
40 96 0.97
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:27112404 original size:80 final size:80
Alignment explanation
Indices: 27112272--27112449 Score: 252
Period size: 80 Copynumber: 2.2 Consensus size: 80
27112262 AAACCAAGTA
* * ** * * *
27112272 CCTTCGGAATTTAG-CCGGATATAGCTACTTGCTCAAATGCCTTCGGGACTTAGCCCGG-TTATA
1 CCTTCGGGACTTAGCCCGGATATAGAAACTCGCACAAATGCCTTCAGGACTTAGCCCGGATT-TA
*
27112335 GTAACTCGCACAAATG
65 GTAACTAGCACAAATG
27112351 CCTTCGGGACTTAGCCCGGATATAGAAACTCGCACAAATGCCTTCAGGACTTAGCCCGGATTTAG
1 CCTTCGGGACTTAGCCCGGATATAGAAACTCGCACAAATGCCTTCAGGACTTAGCCCGGATTTAG
*
27112416 TCACTAGCACAAATG
66 TAACTAGCACAAATG
27112431 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
27112450 TTATCATCCG
Statistics
Matches: 88, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
79 12 0.14
80 74 0.84
81 2 0.02
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGAAACTCGCACAAATGCCTTCAGGACTTAGCCCGGATTTAG
TAACTAGCACAAATG
Found at i:27120376 original size:40 final size:40
Alignment explanation
Indices: 27120332--27120477 Score: 219
Period size: 40 Copynumber: 3.7 Consensus size: 40
27120322 GCTACTTGCT
*
27120332 CAAATGCCTTCGGGACTTAGCCCAGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
27120372 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
27120412 CAAATG-C--CGGGACTTAGCCCGGATT-TAGTTACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
27120449 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
27120478 CATCCGAATA
Statistics
Matches: 96, Mismatches: 5, Indels: 10
0.86 0.05 0.09
Matches are distributed among these distances:
37 31 0.32
38 2 0.02
39 3 0.03
40 60 0.62
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:27120432 original size:37 final size:39
Alignment explanation
Indices: 27120309--27120473 Score: 203
Period size: 40 Copynumber: 4.2 Consensus size: 39
27120299 CCTTCGGAAT
* *
27120309 TTAG-CCGGATATAGCT-ACTTGCTCAAATGCCTTCGGGAC
1 TTAGCCCGGATATAG-TAACTCGCACAAATGCC-TCGGGAC
* *
27120348 TTAGCCCAGTTATAGTAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCC-TCGGGAC
27120388 TTAGCCCGGATATAGTAACTCGCACAAATG-C-CGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTCGGGAC
* * *
27120425 TTAGCCCGGATTTAGTTACTAGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCC-TCGGGAC
27120465 TTAGCCCGG
1 TTAGCCCGG
27120474 TTATCATCCG
Statistics
Matches: 112, Mismatches: 9, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
37 33 0.29
38 1 0.01
39 6 0.05
40 72 0.64
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (39 bp):
TTAGCCCGGATATAGTAACTCGCACAAATGCCTCGGGAC
Found at i:27120450 original size:77 final size:79
Alignment explanation
Indices: 27120299--27120473 Score: 225
Period size: 77 Copynumber: 2.2 Consensus size: 79
27120289 AAACCAAGTA
* * * *
27120299 CCTTCGGAATTTAG-CCGGATATAGCTACTTGCTCAAATGCCTTCGGGACTTAGCCCAGTTATAG
1 CCTTCGGGACTTAGCCCGGATATAGCTACTCGCACAAATGCC-TCGGGACTTAGCCCAGTTATAG
*
27120363 TAACTCGCACAAATG
65 TAACTAGCACAAATG
*
27120378 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG-C-CGGGACTTAGCCCGGATT-TA
1 CCTTCGGGACTTAGCCCGGATATAGCT-ACTCGCACAAATGCCTCGGGACTTAGCCCAG-TTATA
*
27120439 GTTACTAGCACAAATG
64 GTAACTAGCACAAATG
27120455 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
27120474 TTATCATCCG
Statistics
Matches: 86, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
77 49 0.57
78 2 0.02
79 14 0.16
80 21 0.24
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (79 bp):
CCTTCGGGACTTAGCCCGGATATAGCTACTCGCACAAATGCCTCGGGACTTAGCCCAGTTATAGT
AACTAGCACAAATG
Found at i:27128294 original size:436 final size:437
Alignment explanation
Indices: 27127481--27128352 Score: 1620
Period size: 436 Copynumber: 2.0 Consensus size: 437
27127471 ACGACAAAGG
* * *
27127481 CAAGCGCACCTTATCGAATAGTAGTATGACTTATGGCAAGACCGGGATGTCGAACCTAAAGGAAC
1 CAAGCGCACCTTATCGAACAATAGTATGACTTATGGCAAGACCGGGATGTCGAACCCAAAGGAAC
27127546 TAAAAGTACTACTATTAACTTTCTTTTTATTATCTAGCCTAAAAATAAAGGGGTTTACTTTATAT
66 TAAAAGTACTACTATTAACTTTCTTTTTATTATCTAGCCTAAAAATAAAGGGGTTTACTTTATAT
*
27127611 AAAACTAATTACTAAACTAAGAATGCACAAAAAGTGAATTGGGGAAATAACTTTTGGGAAAACTG
131 AAAACTAATTACTAAACTAAGAATGCACAAAAAGTAAATTGGGGAAATAACTTTTGGGAAAACTG
27127676 AATGATTTGGACAATACCTAAGGGAAAAATCCACCTAGACTTCACTTGTTATTTGACTCTGAATC
196 AATGATTTGGACAATACCTAAGGGAAAAATCCACCTAGACTTCACTTGTTATTTGACTCTGAATC
27127741 AGACGATTTATTCACTTGACTTGATCCGTAGAAATCCCTAAGTTATATTATTATCTCTCTCGAGA
261 AGACGATTTATTCACTTGACTTGATCCGTAGAAATCCCTAAGTTATATTATTATCTCTCTCGAGA
* *
27127806 CTAACAACATCTAACCCTAGGTTGATTAATTGAAATCTCTTTCTAATTAAAACCCTTAGTGTTGC
326 CTAACAACATCTAACCCTAAGTTGATTAATTGAAATCTCTTTCTAATTAAAACCCCTAGTGTTGC
27127871 ATTAACTCAATCTATGGATTCCCTTATTAGGTTTCACCCTAATCCGA
391 ATTAACTCAATCTATGGATTCCCTTATTAGGTTTCACCCTAATCCGA
*
27127918 CAAGCGCACCTTATTGAACAATAGTATGACTTATGGCAAGACCGGGATGTCGAACCCAAAGGAAC
1 CAAGCGCACCTTATCGAACAATAGTATGACTTATGGCAAGACCGGGATGTCGAACCCAAAGGAAC
* *
27127983 TAAAAGTACTACTATTAACTTTCTTTTTATTATCTAGCCTAAAAATAAAGGGTTTTTCTTTATAT
66 TAAAAGTACTACTATTAACTTTCTTTTTATTATCTAGCCTAAAAATAAAGGGGTTTACTTTATAT
* *
27128048 -AAACTAATTACTAAACTAAGAATGCACAGAAAGTAAATTGGGGAAATAACTTTTGGGAAAATTG
131 AAAACTAATTACTAAACTAAGAATGCACAAAAAGTAAATTGGGGAAATAACTTTTGGGAAAACTG
27128112 AATGATTTGGACAATACCTAAGGGAAAAATCCACCTAGACTTCACTTGTTATTTGACTCTGAATC
196 AATGATTTGGACAATACCTAAGGGAAAAATCCACCTAGACTTCACTTGTTATTTGACTCTGAATC
*
27128177 AGACGATTTATTCACTTGACTTGATCCGTAGAAATCCCTAAGTTATATTATTATCTCTTTCGAGA
261 AGACGATTTATTCACTTGACTTGATCCGTAGAAATCCCTAAGTTATATTATTATCTCTCTCGAGA
27128242 CTAACAACATCTAACCCTAAGTTGATTAATTGAAATCTCTTTCTAATTAAAACCCCTAGTGTTGC
326 CTAACAACATCTAACCCTAAGTTGATTAATTGAAATCTCTTTCTAATTAAAACCCCTAGTGTTGC
*
27128307 ATTAACTCGATCTATGGATTCCCTTATTAGGTTTCACCCTAATCCG
391 ATTAACTCAATCTATGGATTCCCTTATTAGGTTTCACCCTAATCCG
27128353 GCAAAATTAT
Statistics
Matches: 422, Mismatches: 13, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
436 298 0.71
437 124 0.29
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.32
Consensus pattern (437 bp):
CAAGCGCACCTTATCGAACAATAGTATGACTTATGGCAAGACCGGGATGTCGAACCCAAAGGAAC
TAAAAGTACTACTATTAACTTTCTTTTTATTATCTAGCCTAAAAATAAAGGGGTTTACTTTATAT
AAAACTAATTACTAAACTAAGAATGCACAAAAAGTAAATTGGGGAAATAACTTTTGGGAAAACTG
AATGATTTGGACAATACCTAAGGGAAAAATCCACCTAGACTTCACTTGTTATTTGACTCTGAATC
AGACGATTTATTCACTTGACTTGATCCGTAGAAATCCCTAAGTTATATTATTATCTCTCTCGAGA
CTAACAACATCTAACCCTAAGTTGATTAATTGAAATCTCTTTCTAATTAAAACCCCTAGTGTTGC
ATTAACTCAATCTATGGATTCCCTTATTAGGTTTCACCCTAATCCGA
Found at i:27132542 original size:79 final size:81
Alignment explanation
Indices: 27132396--27132580 Score: 209
Period size: 79 Copynumber: 2.3 Consensus size: 81
27132386 TTGAATGATG
* *
27132396 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCAGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCAGACTAAGATCCGAAGGCAAT
*
27132460 TGTGCGGGATACTA-A
66 TGTGCGAGATACTATA
* * * * **
27132475 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCT-AGTTACTAAATTCGGGTTAAG-TCTCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCAGACTAAGATC-CGAAGGCA
*
27132537 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
27132555 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
27132581 AACGAGTAGC
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.02
79 53 0.60
80 34 0.38
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCAGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:27132587 original size:40 final size:40
Alignment explanation
Indices: 27132396--27132580 Score: 180
Period size: 40 Copynumber: 4.7 Consensus size: 40
27132386 TTGAATGATG
* * * *
27132396 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * * *
27132436 TCCAGACTAAGAT-CCGAAGGCATTTGTGCGGGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
27132476 TCCGGGCTAAG-CCCGAAGGCATTTGTGCTAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * *
27132515 TTCGGGTTAAGTCTCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
27132556 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
27132581 AACGAGTAGC
Statistics
Matches: 115, Mismatches: 25, Indels: 10
0.77 0.17 0.07
Matches are distributed among these distances:
39 32 0.28
40 73 0.63
41 10 0.09
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:27140486 original size:79 final size:82
Alignment explanation
Indices: 27140350--27140534 Score: 211
Period size: 79 Copynumber: 2.3 Consensus size: 82
27140340 TTGAATGATG
* *
27140350 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
* * *
27140414 TGTGCTAGATACTA-AT
66 TGTACGAGATACTATAA
* * * **
27140430 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAA
*
27140492 TTGTACGAGTTACTATAA
65 TTGTACGAGATACTATAA
*
27140510 T-CGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
27140535 AACGAGTAGC
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
78 1 0.01
79 54 0.61
80 34 0.38
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTACGAGATACTATAA
Found at i:27140540 original size:40 final size:40
Alignment explanation
Indices: 27140350--27140541 Score: 194
Period size: 40 Copynumber: 4.8 Consensus size: 40
27140340 TTGAATGATG
* * * * *
27140350 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTAC-GAGTTACTAAA
* * * * *
27140390 TCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTACGAGTTACTAAA
*
27140430 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAAA
* *
27140469 TCCGGGTTAAGTCCCGAAGGCAATTGTACGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTA-AA
* *
27140510 T-CGGGCTATGTCCCGAAGGCATTTGAACGAGT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGT
27140542 AGCTATATCC
Statistics
Matches: 129, Mismatches: 18, Indels: 10
0.82 0.11 0.06
Matches are distributed among these distances:
39 34 0.26
40 84 0.65
41 11 0.09
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAAA
Found at i:27142024 original size:13 final size:15
Alignment explanation
Indices: 27142006--27142038 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
27141996 GATTAAAAGC
27142006 TAATTA-GTTTTA-T
1 TAATTAGGTTTTAGT
27142019 TAATTAGGTTTTAGT
1 TAATTAGGTTTTAGT
27142034 TAATT
1 TAATT
27142039 TAAACCTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.33
14 6 0.33
15 6 0.33
ACGTcount: A:0.30, C:0.00, G:0.12, T:0.58
Consensus pattern (15 bp):
TAATTAGGTTTTAGT
Found at i:27145287 original size:31 final size:31
Alignment explanation
Indices: 27145252--27145310 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
27145242 GTTCAAACTC
* *
27145252 TAATATGAAAATAATTACCTAATTTAAACCT
1 TAATATAAAAATAATTACCAAATTTAAACCT
27145283 TAATATAAAAATAATTACCAAATTTAAA
1 TAATATAAAAATAATTACCAAATTTAAA
27145311 GCATAAATCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.54, C:0.10, G:0.02, T:0.34
Consensus pattern (31 bp):
TAATATAAAAATAATTACCAAATTTAAACCT
Found at i:27146112 original size:15 final size:16
Alignment explanation
Indices: 27146068--27146114 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 16
27146058 ATTAATATTC
27146068 TAATAATAAATATTAAT
1 TAATAATAAATA-TAAT
*
27146085 TACAATTATAAATAT-AT
1 T--AATAATAAATATAAT
27146102 TAATAATAAATAT
1 TAATAATAAATAT
27146115 TTTGTAGTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
15 11 0.42
17 4 0.15
18 1 0.04
19 10 0.38
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (16 bp):
TAATAATAAATATAAT
Found at i:27146984 original size:13 final size:14
Alignment explanation
Indices: 27146952--27146983 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
27146942 AATTAATCAC
27146952 TTTTTAAAAATTAT
1 TTTTTAAAAATTAT
*
27146966 TTTTTAAAATTTAT
1 TTTTTAAAAATTAT
27146980 TTTT
1 TTTT
27146984 AGTAAACAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TTTTTAAAAATTAT
Found at i:27147637 original size:13 final size:13
Alignment explanation
Indices: 27147619--27147643 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27147609 TTAAATCATT
27147619 AAATTATTTAAAA
1 AAATTATTTAAAA
27147632 AAATTATTTAAA
1 AAATTATTTAAA
27147644 TTATCAGGCT
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AAATTATTTAAAA
Found at i:27149225 original size:22 final size:22
Alignment explanation
Indices: 27149185--27149227 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
27149175 AAGTCACATT
*
27149185 AAAACATTATATATATTTTTAA
1 AAAACATTAGATATATTTTTAA
* *
27149207 AAAACATTAGATTTTTTTTTA
1 AAAACATTAGATATATTTTTA
27149228 CATTTTTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (22 bp):
AAAACATTAGATATATTTTTAA
Found at i:27153213 original size:40 final size:41
Alignment explanation
Indices: 27153164--27153284 Score: 174
Period size: 40 Copynumber: 3.0 Consensus size: 41
27153154 AAATGTGTTC
* * *
27153164 AGGGCTACCGAAGTAAAAACAGGGGCACATATGTGCAATCA
1 AGGGATACCGAAGTACAAACAGGGGCACGTATGTGCAATCA
* *
27153205 AGGG-TACCGAAGTACGAACAGGGGCACGTATGTACAATC-
1 AGGGATACCGAAGTACAAACAGGGGCACGTATGTGCAATCA
*
27153244 AGGGATATCGAAGTACAAACAGGGGCACGTATGTGCAATCA
1 AGGGATACCGAAGTACAAACAGGGGCACGTATGTGCAATCA
27153285 TTCAATAATT
Statistics
Matches: 71, Mismatches: 7, Indels: 4
0.87 0.09 0.05
Matches are distributed among these distances:
39 4 0.06
40 63 0.89
41 4 0.06
ACGTcount: A:0.36, C:0.19, G:0.29, T:0.16
Consensus pattern (41 bp):
AGGGATACCGAAGTACAAACAGGGGCACGTATGTGCAATCA
Found at i:27153246 original size:20 final size:20
Alignment explanation
Indices: 27153183--27153284 Score: 66
Period size: 20 Copynumber: 5.1 Consensus size: 20
27153173 GAAGTAAAAA
* *
27153183 CAGGGGCACATATGTGCAAT
1 CAGGGGCACGTATGTACAAT
* * *
27153203 CAAGGGTACCG-AAGTACGAA-
1 CAGGGGCA-CGTATGTAC-AAT
27153223 CAGGGGCACGTATGTACAAT
1 CAGGGGCACGTATGTACAAT
** * *
27153243 CAGGGATATCG-AAGTACAAA
1 CAGGGGCA-CGTATGTACAAT
*
27153263 CAGGGGCACGTATGTGCAAT
1 CAGGGGCACGTATGTACAAT
27153283 CA
1 CA
27153285 TTCAATAATT
Statistics
Matches: 59, Mismatches: 17, Indels: 12
0.67 0.19 0.14
Matches are distributed among these distances:
19 6 0.10
20 48 0.81
21 5 0.08
ACGTcount: A:0.34, C:0.20, G:0.29, T:0.17
Consensus pattern (20 bp):
CAGGGGCACGTATGTACAAT
Found at i:27156013 original size:17 final size:17
Alignment explanation
Indices: 27155991--27156026 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
27155981 TTAATTTAAT
27155991 TTCACTTGATTTAGATA
1 TTCACTTGATTTAGATA
27156008 TTCACTTGATTTAGATA
1 TTCACTTGATTTAGATA
27156025 TT
1 TT
27156027 TCACCAGCTC
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:0.28, C:0.11, G:0.11, T:0.50
Consensus pattern (17 bp):
TTCACTTGATTTAGATA
Found at i:27157719 original size:94 final size:94
Alignment explanation
Indices: 27157607--27157795 Score: 342
Period size: 94 Copynumber: 2.0 Consensus size: 94
27157597 GGATAAATTT
*
27157607 ATAGGAAGATAATGACACAAGTTATTATAGTCTAAATGAAACTTTAGATGAAACCATAAAATTGA
1 ATAGGAAGATAATGACACAAGTTATTACAGTCTAAATGAAACTTTAGATGAAACCATAAAATTGA
*
27157672 GATTAATTTATAGGAAGATTAATTTATAG
66 GATTAATTTATAGAAAGATTAATTTATAG
*
27157701 ATAGGAAGATAATGACACAAGTTATTACAGTCTAACTGAAACTTTAGATGAAACCATAAAATTGA
1 ATAGGAAGATAATGACACAAGTTATTACAGTCTAAATGAAACTTTAGATGAAACCATAAAATTGA
*
27157766 GATTAATTTATCGAAAGATTAATTTATAG
66 GATTAATTTATAGAAAGATTAATTTATAG
27157795 A
1 A
27157796 AGATAATTAA
Statistics
Matches: 91, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
94 91 1.00
ACGTcount: A:0.46, C:0.08, G:0.15, T:0.31
Consensus pattern (94 bp):
ATAGGAAGATAATGACACAAGTTATTACAGTCTAAATGAAACTTTAGATGAAACCATAAAATTGA
GATTAATTTATAGAAAGATTAATTTATAG
Found at i:27165745 original size:15 final size:15
Alignment explanation
Indices: 27165713--27165741 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
27165703 ATTTTTTGTG
27165713 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
27165728 TTTATT-TGTGTGAA
1 TTTATTATGTGTGAA
27165742 ATTTTCGTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.24, C:0.00, G:0.21, T:0.55
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:27180531 original size:56 final size:56
Alignment explanation
Indices: 27180437--27180543 Score: 146
Period size: 56 Copynumber: 1.9 Consensus size: 56
27180427 CATGGCATCG
* * *
27180437 ATATCTGTGTGCGAGTAAGACCACGTTTTATACGGTGGCATCGATATGTGACTCTA
1 ATATATGTGTGCGAGTAAGACCACGTTTTAGACAGTGGCATCGATATGTGACTCTA
*
27180493 ATATATGTGTGCGAGTAAGACC-C-TTTCTGGGACAGTGGCATCGATATGTGA
1 ATATATGTGTGCGAGTAAGACCACGTTT-T-AGACAGTGGCATCGATATGTGA
27180544 TTACATGTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
54 3 0.07
55 2 0.04
56 40 0.89
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (56 bp):
ATATATGTGTGCGAGTAAGACCACGTTTTAGACAGTGGCATCGATATGTGACTCTA
Found at i:27182321 original size:84 final size:84
Alignment explanation
Indices: 27182180--27182348 Score: 338
Period size: 84 Copynumber: 2.0 Consensus size: 84
27182170 TGTTTTGATA
27182180 CTCAGATAATAAGTGAGTTGGTTGATATATTGTAACATCATGAAATGGGGCCTAGTCGGAATGGT
1 CTCAGATAATAAGTGAGTTGGTTGATATATTGTAACATCATGAAATGGGGCCTAGTCGGAATGGT
27182245 GGTTTCGGGACCACAAATC
66 GGTTTCGGGACCACAAATC
27182264 CTCAGATAATAAGTGAGTTGGTTGATATATTGTAACATCATGAAATGGGGCCTAGTCGGAATGGT
1 CTCAGATAATAAGTGAGTTGGTTGATATATTGTAACATCATGAAATGGGGCCTAGTCGGAATGGT
27182329 GGTTTCGGGACCACAAATC
66 GGTTTCGGGACCACAAATC
27182348 C
1 C
27182349 GATGTTAAAA
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 85 1.00
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (84 bp):
CTCAGATAATAAGTGAGTTGGTTGATATATTGTAACATCATGAAATGGGGCCTAGTCGGAATGGT
GGTTTCGGGACCACAAATC
Found at i:27183770 original size:54 final size:54
Alignment explanation
Indices: 27183712--27183895 Score: 269
Period size: 54 Copynumber: 3.4 Consensus size: 54
27183702 TCATTGTAAA
* * *
27183712 GGATTTAGCCTGGAATGGTAATCCCGATAATACTCCTTGAATTTATGCTATGAG
1 GGATTTAGCCTGGAATGGTAATCCCGACAATACTCCTTAAATTTATGTTATGAG
* *
27183766 GGATTTAGCCTGGAATGGTAATCTCGACAATACTCCTTAAATTTATGTTATGAA
1 GGATTTAGCCTGGAATGGTAATCCCGACAATACTCCTTAAATTTATGTTATGAG
** *
27183820 GGATTTAGTATGGAATGGTAATCCCGACAATACTCATTAAATTTATGTTATGAG
1 GGATTTAGCCTGGAATGGTAATCCCGACAATACTCCTTAAATTTATGTTATGAG
* * *
27183874 GGATTTAACCTAGATTGGTAAT
1 GGATTTAGCCTGGAATGGTAAT
27183896 TCTGCTGTAA
Statistics
Matches: 115, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 115 1.00
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.35
Consensus pattern (54 bp):
GGATTTAGCCTGGAATGGTAATCCCGACAATACTCCTTAAATTTATGTTATGAG
Found at i:27185942 original size:48 final size:49
Alignment explanation
Indices: 27185841--27186062 Score: 210
Period size: 48 Copynumber: 4.7 Consensus size: 49
27185831 TTATTTGTGT
* * *
27185841 GCCAGTGTAAGA-CATGTTTGGGACAT-GCATCGGCCAT-ATTATGA-GA
1 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGG-CTTGATGACGATGA
27185887 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCTATGA-GACGA-GA
1 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCT-TGATGACGATGA
* * * * * ** *
27185935 GCTAGTGTAAGATCATGTCTGGGACATGGCGTCGGCCTCGATTTCCATG-
1 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGG-CTTGATGACGATGA
* * *
27185984 GTCAGTGTAAGACCATGTTTGGGACATGGCATTGACTTGATG--GATGA
1 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCTTGATGACGATGA
* *
27186031 GCCAGTGTAAGACCATATCTGGGACATGGCAT
1 GCCAGTGTAAGACCATGTTTGGGACATGGCAT
27186063 TGGCATTATT
Statistics
Matches: 144, Mismatches: 24, Indels: 15
0.79 0.13 0.08
Matches are distributed among these distances:
46 15 0.10
47 44 0.31
48 51 0.35
49 33 0.23
50 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.26
Consensus pattern (49 bp):
GCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCTTGATGACGATGA
Found at i:27195158 original size:17 final size:16
Alignment explanation
Indices: 27195136--27195176 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
27195126 ATTATATTTG
*
27195136 AATTTAATGTAATTTAT
1 AATTTAATGTAATAT-T
*
27195153 AATTTAATTTAATATT
1 AATTTAATGTAATATT
27195169 AATTTAAT
1 AATTTAAT
27195177 TTTTTTATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (16 bp):
AATTTAATGTAATATT
Found at i:27195160 original size:5 final size:5
Alignment explanation
Indices: 27195131--27195178 Score: 51
Period size: 5 Copynumber: 8.8 Consensus size: 5
27195121 ATATTATTAT
*
27195131 ATTTGA ATTTA ATGTA ATTTATA ATTTA ATTTA ATATTA ATTTA ATTT
1 ATTT-A ATTTA ATTTA A-TT-TA ATTTA ATTTA AT-TTA ATTTA ATTT
27195179 TTTTATAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
5 22 0.59
6 12 0.32
7 3 0.08
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (5 bp):
ATTTA
Found at i:27195161 original size:22 final size:23
Alignment explanation
Indices: 27195127--27195178 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 23
27195117 TAAAATATTA
27195127 TTATATTTGAATTTAAT-GTAAT
1 TTATATTTGAATTTAATAGTAAT
*
27195149 TTATAATTT-AATTTAATATTAAT
1 TTAT-ATTTGAATTTAATAGTAAT
27195172 TTA-ATTT
1 TTATATTT
27195179 TTTTATAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 4 0.15
22 12 0.44
23 11 0.41
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (23 bp):
TTATATTTGAATTTAATAGTAAT
Found at i:27195164 original size:90 final size:90
Alignment explanation
Indices: 27194970--27195149 Score: 242
Period size: 90 Copynumber: 2.0 Consensus size: 90
27194960 TAGATTTATT
* * **
27194970 TTAGTCTAAATTTAAATATATTATGGTTATTAGTCTGGATCATACTTTACAATGATTAATTCTAG
1 TTAGTCTAAATTTAAATATATTATGGTTATTAGTCTGGATCATACCTTACAATAATTAATAATAG
*
27195035 TTATGATTATTCGAATTTATGGTTA
66 TTATGATTATTCGAATTTATGGTAA
*
27195060 TTAGTCTAAATTTAAATATATTATGGTTATTAGTCTGGATCATACCTTACATTAATTTAA-AATA
1 TTAGTCTAAATTTAAATATATTATGGTTATTAGTCTGGATCATACCTTACAATAA-TTAATAATA
* *
27195124 -TTATTA-TATTTGAATTTAAT-GTAA
65 GTTATGATTATTCGAATTT-ATGGTAA
27195148 TT
1 TT
27195150 TATAATTTAA
Statistics
Matches: 80, Mismatches: 8, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
88 15 0.19
89 7 0.09
90 54 0.68
91 4 0.05
ACGTcount: A:0.34, C:0.07, G:0.11, T:0.47
Consensus pattern (90 bp):
TTAGTCTAAATTTAAATATATTATGGTTATTAGTCTGGATCATACCTTACAATAATTAATAATAG
TTATGATTATTCGAATTTATGGTAA
Found at i:27195172 original size:11 final size:10
Alignment explanation
Indices: 27195131--27195178 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 10
27195121 ATATTATTAT
27195131 ATTTGAATTTA
1 ATTT-AATTTA
*
27195142 ATGTAATTTATA
1 ATTTAA-TT-TA
27195154 ATTTAATTTA
1 ATTTAATTTA
27195164 ATATTAATTTA
1 AT-TTAATTTA
27195175 ATTT
1 ATTT
27195179 TTTTATAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
10 8 0.25
11 17 0.53
12 7 0.22
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (10 bp):
ATTTAATTTA
Found at i:27195189 original size:20 final size:21
Alignment explanation
Indices: 27195166--27195205 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
27195156 TTAATTTAAT
27195166 ATTAATTTA-ATTTTT-TTATA
1 ATTAA-TTAGATTTTTATTATA
27195186 ATTAATTAGATTTTTATTAT
1 ATTAATTAGATTTTTATTAT
27195206 TTTCAATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 3 0.17
20 11 0.61
21 4 0.22
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (21 bp):
ATTAATTAGATTTTTATTATA
Found at i:27195864 original size:9 final size:9
Alignment explanation
Indices: 27195826--27195964 Score: 83
Period size: 9 Copynumber: 15.4 Consensus size: 9
27195816 AAACTTTTAG
27195826 AAAAATTATT
1 AAAAATTA-T
* *
27195836 AAAAACATAA
1 AAAAA-TTAT
*
27195846 AAAAACTAT
1 AAAAATTAT
27195855 AAAAATTAT
1 AAAAATTAT
* *
27195864 --AATTTTT
1 AAAAATTAT
*
27195871 AAAAATGAT
1 AAAAATTAT
*
27195880 TAAAATTAT
1 AAAAATTAT
*
27195889 AATAAA-TAA
1 AA-AAATTAT
27195898 AAAAATTA-
1 AAAAATTAT
27195906 AAAAATTA-
1 AAAAATTAT
*
27195914 AAAAATAAT
1 AAAAATTAT
*
27195923 TAAAATTAATT
1 AAAAATT-A-T
27195934 AAAAA-TATT
1 AAAAATTA-T
*
27195943 AAATATTAT
1 AAAAATTAT
27195952 AAAAATTAT
1 AAAAATTAT
27195961 AAAA
1 AAAA
27195965 GGGAAATTTT
Statistics
Matches: 100, Mismatches: 20, Indels: 19
0.72 0.14 0.14
Matches are distributed among these distances:
7 5 0.05
8 18 0.18
9 53 0.53
10 17 0.17
11 7 0.07
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.32
Consensus pattern (9 bp):
AAAAATTAT
Found at i:27195908 original size:7 final size:8
Alignment explanation
Indices: 27195881--27195964 Score: 53
Period size: 8 Copynumber: 9.5 Consensus size: 8
27195871 AAAAATGATT
27195881 AAAATTATA
1 AAAATTA-A
*
27195890 ATAAATAAA
1 A-AAATTAA
27195899 AAAATTAA
1 AAAATTAA
27195907 AAAATTAAAA
1 AAAATT--AA
27195917 AATAATTAA
1 AA-AATTAA
27195926 AATTAATTAA
1 AA--AATTAA
27195936 AAATATT-A
1 AAA-ATTAA
*
27195944 AATATTATA
1 AAAATTA-A
*
27195953 AAAATTAT
1 AAAATTAA
27195961 AAAA
1 AAAA
27195965 GGGAAATTTT
Statistics
Matches: 62, Mismatches: 5, Indels: 17
0.74 0.06 0.20
Matches are distributed among these distances:
7 3 0.05
8 20 0.32
9 17 0.27
10 18 0.29
11 4 0.06
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (8 bp):
AAAATTAA
Found at i:27195909 original size:25 final size:25
Alignment explanation
Indices: 27195826--27195931 Score: 74
Period size: 25 Copynumber: 4.1 Consensus size: 25
27195816 AAACTTTTAG
*
27195826 AAAAATTATTAAAAACATAAAAAAACTAT
1 AAAAATTA-TAATAA-ATAAAAAAA-T-T
*** *
27195855 AAAAATTATAATTTTTAAAAATGATT
1 AAAAATTATAATAAATAAAAA-AATT
27195881 -AAAATTATAATAAATAAAAAAATT
1 AAAAATTATAATAAATAAAAAAATT
*
27195905 AAAAAATTA-AA-AAATAATTAAAATT
1 -AAAAATTATAATAAATAA-AAAAATT
27195930 AA
1 AA
27195932 TTAAAAATAT
Statistics
Matches: 63, Mismatches: 10, Indels: 13
0.73 0.12 0.15
Matches are distributed among these distances:
24 11 0.17
25 25 0.40
26 8 0.13
27 7 0.11
28 4 0.06
29 8 0.13
ACGTcount: A:0.67, C:0.02, G:0.01, T:0.30
Consensus pattern (25 bp):
AAAAATTATAATAAATAAAAAAATT
Found at i:27195943 original size:19 final size:19
Alignment explanation
Indices: 27195895--27195950 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
27195885 TTATAATAAA
*
27195895 TAAAAAAATTAAAA--AAT
1 TAAAAATATTAAAATTAAT
27195912 TAAAAAATAATTAAAATTAAT
1 T-AAAAAT-ATTAAAATTAAT
27195933 TAAAAATATTAAATATTA
1 TAAAAATATTAAA-ATTA
27195951 TAAAAATTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
17 1 0.03
18 5 0.15
19 13 0.39
20 10 0.30
21 4 0.12
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (19 bp):
TAAAAATATTAAAATTAAT
Found at i:27195956 original size:19 final size:18
Alignment explanation
Indices: 27195894--27195956 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 18
27195884 ATTATAATAA
*
27195894 ATAAAAAA-ATTAAAA-A
1 ATAAAAAATATTAAAATT
27195910 ATTAAAAAATAATTAAAATT
1 A-TAAAAAAT-ATTAAAATT
*
27195930 AATTAAAAATATTAAATATT
1 -ATAAAAAATATTAAA-ATT
27195950 ATAAAAA
1 ATAAAAA
27195957 TTATAAAAGG
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
16 1 0.03
17 7 0.18
19 19 0.50
20 10 0.26
21 1 0.03
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (18 bp):
ATAAAAAATATTAAAATT
Found at i:27196509 original size:9 final size:9
Alignment explanation
Indices: 27196473--27196549 Score: 75
Period size: 9 Copynumber: 8.3 Consensus size: 9
27196463 AAAAAGTTTT
27196473 AAATT-TAA
1 AAATTATAA
27196481 AAATTATTAA
1 AAATTA-TAA
27196491 AATATTATAA
1 AA-ATTATAA
*
27196501 AAATGATAA
1 AAATTATAA
* *
27196510 AAAATAGAA
1 AAATTATAA
*
27196519 AAATTATAT
1 AAATTATAA
27196528 AAATTATTAA
1 AAATTA-TAA
*
27196538 ATATTATAA
1 AAATTATAA
27196547 AAA
1 AAA
27196550 ATTAAAAGTA
Statistics
Matches: 55, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
8 5 0.09
9 29 0.53
10 17 0.31
11 4 0.07
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.34
Consensus pattern (9 bp):
AAATTATAA
Found at i:27196553 original size:10 final size:10
Alignment explanation
Indices: 27196479--27196553 Score: 59
Period size: 10 Copynumber: 7.8 Consensus size: 10
27196469 TTTTAAATTT
27196479 AAAAATTATTA
1 AAAAATTA-TA
*
27196490 AAATATTAT-
1 AAAAATTATA
*
27196499 AAAAATGATA
1 AAAAATTATA
*
27196509 AAAAA-TA-G
1 AAAAATTATA
27196517 AAAAATTAT-
1 AAAAATTATA
* *
27196526 ATAAATTATT
1 AAAAATTATA
*
27196536 AAATATTATA
1 AAAAATTATA
27196546 AAAAATTA
1 AAAAATTA
27196554 AAAGTACTAC
Statistics
Matches: 50, Mismatches: 10, Indels: 9
0.72 0.14 0.13
Matches are distributed among these distances:
8 5 0.10
9 18 0.36
10 20 0.40
11 7 0.14
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (10 bp):
AAAAATTATA
Found at i:27201770 original size:59 final size:59
Alignment explanation
Indices: 27201695--27201826 Score: 162
Period size: 59 Copynumber: 2.2 Consensus size: 59
27201685 CTAAATATAA
* * * *
27201695 AAAAAATTTAAAAA-TTTAGCCCTCAATGTTTACAAAA-TATCATTTTAGTTCTAATTCT
1 AAAAAATTTAAAAATTTTA-CCCTCAATATTTACAAAACTATCAATTTAGTCCTAACTCT
*
27201753 AAAAAATTTAATAAATTTTACCCTCAATATTTATAAAATCTATCAATTTAGTCCTAACTCT
1 AAAAAATTTAA-AAATTTTACCCTCAATATTTACAAAA-CTATCAATTTAGTCCTAACTCT
*
27201814 -AAAAATTAAAAAA
1 AAAAAATTTAAAAA
27201827 AAATTATTTT
Statistics
Matches: 64, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
58 11 0.17
59 22 0.34
60 13 0.20
61 18 0.28
ACGTcount: A:0.46, C:0.14, G:0.03, T:0.37
Consensus pattern (59 bp):
AAAAAATTTAAAAATTTTACCCTCAATATTTACAAAACTATCAATTTAGTCCTAACTCT
Found at i:27209146 original size:20 final size:22
Alignment explanation
Indices: 27209121--27209166 Score: 60
Period size: 24 Copynumber: 2.1 Consensus size: 22
27209111 TGAATGGTTT
27209121 AATAATT-TT-AAAATAATTAA
1 AATAATTATTAAAAATAATTAA
27209141 AATAATTATTAAGAAAATAATTAA
1 AATAATTATT-A-AAAATAATTAA
27209165 AA
1 AA
27209167 ATATCAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 7 0.32
21 2 0.09
24 13 0.59
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (22 bp):
AATAATTATTAAAAATAATTAA
Found at i:27221442 original size:27 final size:27
Alignment explanation
Indices: 27221403--27221580 Score: 160
Period size: 27 Copynumber: 6.6 Consensus size: 27
27221393 ACATTGAGCC
* * * *
27221403 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* * *
27221430 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
**
27221457 CGCACACTTAGTGCTACATAGTCAGGCT
1 CGCACACTTAGTGCTACATAGTCA-AAT
** * *
27221485 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
27221512 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
* *
27221539 CGCACACTGAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
27221566 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
27221581 GTACAATTTA
Statistics
Matches: 122, Mismatches: 26, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
27 99 0.81
28 23 0.19
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:27221542 original size:82 final size:81
Alignment explanation
Indices: 27221424--27221579 Score: 197
Period size: 82 Copynumber: 1.9 Consensus size: 81
27221414 TGCTATATAA
* * * **
27221424 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGGCTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTGAGTGCAACATAGTCA-AATCGCA
27221489 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
27221506 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTGAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTGAGTGCAACATAGTCAAATCGCA
*
27221570 CCCTTAGTGC
65 CACTTAGTGC
27221580 TGTACAATTT
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
81 16 0.25
82 47 0.75
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTGAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:27225726 original size:28 final size:27
Alignment explanation
Indices: 27225669--27225820 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
27225659 TAAATTGTGC
* *
27225669 AGCACTAAGTGTGCGAATTGAATATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
27225696 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
27225724 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
27225751 AGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGT-TGACTATGT
* *
27225779 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
27225806 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
27225821 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:27225734 original size:55 final size:55
Alignment explanation
Indices: 27225669--27225820 Score: 241
Period size: 55 Copynumber: 2.8 Consensus size: 55
27225659 TAAATTGTGC
* *
27225669 AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* *
27225724 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* * *
27225779 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCG
27225821 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:27245482 original size:22 final size:22
Alignment explanation
Indices: 27245454--27245498 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
27245444 AATAAGCAAG
27245454 TTGTTAATGTTATTGTTGTTTA
1 TTGTTAATGTTATTGTTGTTTA
27245476 TTGTTAATGTTATTGTTGTTTA
1 TTGTTAATGTTATTGTTGTTTA
27245498 T
1 T
27245499 GGCTATAATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.18, T:0.64
Consensus pattern (22 bp):
TTGTTAATGTTATTGTTGTTTA
Found at i:27245488 original size:12 final size:12
Alignment explanation
Indices: 27245454--27245492 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
27245444 AATAAGCAAG
27245454 TTGTTAATGTTA
1 TTGTTAATGTTA
*
27245466 TTGTT-GT-TTA
1 TTGTTAATGTTA
27245476 TTGTTAATGTTA
1 TTGTTAATGTTA
27245488 TTGTT
1 TTGTT
27245493 GTTTATGGCT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
10 8 0.35
11 2 0.09
12 13 0.57
ACGTcount: A:0.18, C:0.00, G:0.18, T:0.64
Consensus pattern (12 bp):
TTGTTAATGTTA
Found at i:27245904 original size:43 final size:42
Alignment explanation
Indices: 27245839--27245948 Score: 148
Period size: 43 Copynumber: 2.6 Consensus size: 42
27245829 GGAATTAAGA
* *
27245839 AATCCGAGCTTGTTGAGCGGTCCGAGTTCGTGATATGTATGAG
1 AATCCGAGCTTGTTGAGTGGTCCGAGTTCGTGATATATATG-G
* * *
27245882 AATCCGAACTTGTTGAGTGGTCCAAGTTCGTGATATATGTGG
1 AATCCGAGCTTGTTGAGTGGTCCGAGTTCGTGATATATATGG
* *
27245924 CATCCGAGCTTGCTGAGTGGTCCGA
1 AATCCGAGCTTGTTGAGTGGTCCGA
27245949 ATTCATTATG
Statistics
Matches: 58, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
42 22 0.38
43 36 0.62
ACGTcount: A:0.21, C:0.18, G:0.31, T:0.30
Consensus pattern (42 bp):
AATCCGAGCTTGTTGAGTGGTCCGAGTTCGTGATATATATGG
Found at i:27249650 original size:22 final size:23
Alignment explanation
Indices: 27249607--27249652 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
27249597 TTTTAGGTCT
*
27249607 TTAGGAATTTATTTCTTTCATAA
1 TTAGGAATTTATTTCTTGCATAA
27249630 TTAGG-ATTTAATTTC-TGCATAA
1 TTAGGAATTT-ATTTCTTGCATAA
27249652 T
1 T
27249653 AAAACATAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.30, C:0.09, G:0.11, T:0.50
Consensus pattern (23 bp):
TTAGGAATTTATTTCTTGCATAA
Found at i:27253203 original size:101 final size:102
Alignment explanation
Indices: 27253043--27253281 Score: 259
Period size: 101 Copynumber: 2.4 Consensus size: 102
27253033 AGACAAGGTT
* * * * * * * *
27253043 TTACTCGCACA-CATATATCCG-AATAACATTTCGATTCCAATGTATAAAACATGGACTTACTTG
1 TTACTCACACATCACATATCAGAAATCACATATCGATGCCAACGTATAAAACATGGACTTACTCG
* * * * *
27253106 TACATATATATCGAAATCACATATCGATGCCATGGTC
66 CACACATATATAGAAATCACACATCAATGCCATGGTC
* * * *
27253143 TTACTCACATATCACATATCA-AAATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCG
1 TTACTCACACATCACATATCAGAAATCACATATCGATGCCAACGTATAAAACATGGACTTACTCG
* *
27253207 CGCACATATATAGGAATCACACATCAATGCCATGGTC
66 CACACATATATAGAAATCACACATCAATGCCATGGTC
* * *
27253244 TTACTCGCACATCACATATCAGAATTCACATGTCGATG
1 TTACTCACACATCACATATCAGAAATCACATATCGATG
27253282 TCTCATATAC
Statistics
Matches: 113, Mismatches: 23, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
100 9 0.08
101 90 0.80
102 14 0.12
ACGTcount: A:0.34, C:0.24, G:0.13, T:0.29
Consensus pattern (102 bp):
TTACTCACACATCACATATCAGAAATCACATATCGATGCCAACGTATAAAACATGGACTTACTCG
CACACATATATAGAAATCACACATCAATGCCATGGTC
Found at i:27255210 original size:7 final size:7
Alignment explanation
Indices: 27255198--27255230 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
27255188 ACATTTCTAT
27255198 TCATCCC
1 TCATCCC
27255205 TCATCCC
1 TCATCCC
*
27255212 TCATCAC
1 TCATCCC
27255219 TCATCCC
1 TCATCCC
27255226 TCATC
1 TCATC
27255231 ATTCATCATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.18, C:0.52, G:0.00, T:0.30
Consensus pattern (7 bp):
TCATCCC
Found at i:27255215 original size:14 final size:14
Alignment explanation
Indices: 27255198--27255237 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
27255188 ACATTTCTAT
*
27255198 TCATCCCTCATCCC
1 TCATCACTCATCCC
27255212 TCATCACTCATCCC
1 TCATCACTCATCCC
*
27255226 TCATCATTCATC
1 TCATCACTCATC
27255238 ATTCTCTCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.20, C:0.47, G:0.00, T:0.33
Consensus pattern (14 bp):
TCATCACTCATCCC
Found at i:27255236 original size:21 final size:21
Alignment explanation
Indices: 27255198--27255238 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
27255188 ACATTTCTAT
*
27255198 TCATCCCTCATCCCTCATCAC
1 TCATCCCTCATCACTCATCAC
*
27255219 TCATCCCTCATCATTCATCA
1 TCATCCCTCATCACTCATCA
27255239 TTCTCTCCTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.22, C:0.46, G:0.00, T:0.32
Consensus pattern (21 bp):
TCATCCCTCATCACTCATCAC
Found at i:27256987 original size:48 final size:46
Alignment explanation
Indices: 27256838--27257059 Score: 182
Period size: 48 Copynumber: 4.8 Consensus size: 46
27256828 GTGTGGTCCT
* * * * * * *
27256838 ATGTAAGACCATGTCTGTGACAAGGCATTGACATCGTTATGAGATCCC
1 ATGTAAGACCATATCTGGGATATGGCATTGGCATCG--ATGTGAACCC
* * ** *
27256886 ATGTAAGACCATGTCTGGGACATGGCATTGGCATCGACACCTGATCCC
1 ATGTAAGACCATATCTGGGATATGGCATTGGCATCG--ATGTGAACCC
*
27256934 ATGTAAGACCATATCTGGGATATGGCATTGGCATCGATGTGAGACATC
1 ATGTAAGACCATATCTGGGATATGGCATTGGCATCGATGTGA-AC-CC
* * * * * *
27256982 GTGTAAGACCATAGCTGGGCTATTAGC-TTTG-AT--TTGTGAACCC
1 ATGTAAGACCATATCTGGGATA-TGGCATTGGCATCGATGTGAACCC
27257025 ATGTAAGACCATATCTGGGATATGGCATTGGCATC
1 ATGTAAGACCATATCTGGGATATGGCATTGGCATC
27257060 TTACTATGTT
Statistics
Matches: 142, Mismatches: 26, Indels: 15
0.78 0.14 0.08
Matches are distributed among these distances:
42 3 0.02
43 23 0.16
44 4 0.03
45 5 0.04
46 4 0.03
47 3 0.02
48 97 0.68
49 3 0.02
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.27
Consensus pattern (46 bp):
ATGTAAGACCATATCTGGGATATGGCATTGGCATCGATGTGAACCC
Found at i:27258904 original size:40 final size:40
Alignment explanation
Indices: 27258859--27259003 Score: 209
Period size: 40 Copynumber: 3.6 Consensus size: 40
27258849 CTTGCACAAG
* ** * *
27258859 GCCTTCGGGTCTTAGCCCGGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAATCGCTAGCACAAAT
* *
27258899 GCCTTCGGGACTTAGCCCGAATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAATCGCTAGCACAAAT
* *
27258939 GCCTTCGAGTTTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAATCGCTAGCACAAAT
27258979 GCCTTCGGGTCTTAGCCCGGATATA
1 GCCTTCGGGTCTTAGCCCGGATATA
27259004 GCAACTCCAG
Statistics
Matches: 92, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 92 1.00
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAATCGCTAGCACAAAT
Found at i:27262466 original size:43 final size:42
Alignment explanation
Indices: 27262399--27262510 Score: 129
Period size: 42 Copynumber: 2.6 Consensus size: 42
27262389 TTCCGATATG
** * *
27262399 TGATTTCGTGTAAGACCACATCTGGGAC-TTGGCATTG-ATT
1 TGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCGTATA
*
27262439 TGAGATTTACGTGTAAGACAATGTCTGGGACATTGGCATCGTATA
1 T--GATTT-CGTGTAAGACCATGTCTGGGACATTGGCATCGTATA
*
27262484 TGATTTCGTGTAAGACCCTGTCTGGGA
1 TGATTTCGTGTAAGACCATGTCTGGGA
27262511 TAGTGACATC
Statistics
Matches: 60, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
40 1 0.02
42 24 0.40
43 24 0.40
44 8 0.13
45 3 0.05
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (42 bp):
TGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCGTATA
Found at i:27262521 original size:42 final size:42
Alignment explanation
Indices: 27262442--27262525 Score: 107
Period size: 42 Copynumber: 2.0 Consensus size: 42
27262432 ATTGATTTGA
* *
27262442 GATTTACGTGTAAGACAATGTCTGGGACATTGGCATCGTATAT
1 GATTTACGTGTAAGACAATGTCTGGGACAGTGACATCG-ATAT
** *
27262485 GATTT-CGTGTAAGACCCTGTCTGGGATAGTGACATCGATAT
1 GATTTACGTGTAAGACAATGTCTGGGACAGTGACATCGATAT
27262526 TTGAAACATG
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
41 4 0.11
42 27 0.75
43 5 0.14
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.32
Consensus pattern (42 bp):
GATTTACGTGTAAGACAATGTCTGGGACAGTGACATCGATAT
Found at i:27270027 original size:43 final size:43
Alignment explanation
Indices: 27269875--27270028 Score: 140
Period size: 43 Copynumber: 3.6 Consensus size: 43
27269865 GATTTTGTGG
*
27269875 AAGACCACGTCTGGGACGTTGGCATCGAT-TTGAGATTTAAGTGT
1 AAGACCACGTCTGGGACGTTGGCATCGATATT-TGA-TTAAGTGT
* * * **
27269919 AAGACCATGTCTGGGACATTGGCATCG-TATATGATTTCGTGT
1 AAGACCACGTCTGGGACGTTGGCATCGATATTTGATTAAGTGT
*
27269961 ATGACC-C-TGCTTGGGACAG-TGGCATCGATATTTGA-TAAGATGT
1 AAGACCACGT-C-TGGGAC-GTTGGCATCGATATTTGATTAAG-TGT
*
27270004 AAGACCACATCTGGGACGTTGGCAT
1 AAGACCACGTCTGGGACGTTGGCAT
27270029 TGTACGAGTT
Statistics
Matches: 88, Mismatches: 13, Indels: 19
0.73 0.11 0.16
Matches are distributed among these distances:
40 1 0.01
41 1 0.01
42 28 0.32
43 29 0.33
44 28 0.32
45 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (43 bp):
AAGACCACGTCTGGGACGTTGGCATCGATATTTGATTAAGTGT
Found at i:27272410 original size:50 final size:48
Alignment explanation
Indices: 27272303--27272533 Score: 264
Period size: 50 Copynumber: 4.7 Consensus size: 48
27272293 CTGGTACGCA
* * * *
27272303 TAGTAGCTTGTACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTAT-CGGTACACG
** *
27272352 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATC-GGTACACG
* * *
27272402 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATC-GGTACACG
* * * *
27272453 TAGTAGCCTGCTCTTAGTACTACACATGCGACCAATAATCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCGGTACACG
* *
27272501 TAGTAGCCTGAACTTAGTACTACACAGGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
27272534 TCACAAGAGA
Statistics
Matches: 153, Mismatches: 25, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
48 35 0.23
49 34 0.22
50 47 0.31
51 37 0.24
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (48 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCGGTACACG
Found at i:27272516 original size:99 final size:99
Alignment explanation
Indices: 27272303--27272533 Score: 286
Period size: 99 Copynumber: 2.3 Consensus size: 99
27272293 CTGGTACGCA
* * * * *
27272303 TAGTAGCTTGTACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGAACTTAGTACTACACACGTGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
* *
27272368 GTACTACACACGTGACCTAACCATCTGATACACG
66 GTACTACACACGCGACCTAACAATCTGATACACG
* * * * *
27272402 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCCTGCTCT
1 TAGTAGCCTGAACTTAGTACTACACACGTGA-CCAA-TTATCCGGTACACATAGTAGCCTGCACT
* * *
27272467 TAGTACTACACATGCGACC-AATAATC-GGTACACG
64 TAGTACTACACACGCGACCTAACAATCTGATACACG
*
27272501 TAGTAGCCTGAACTTAGTACTACACAGGTGACC
1 TAGTAGCCTGAACTTAGTACTACACACGTGACC
27272534 TCACAAGAGA
Statistics
Matches: 113, Mismatches: 17, Indels: 5
0.84 0.13 0.04
Matches are distributed among these distances:
98 1 0.01
99 63 0.56
100 8 0.07
101 41 0.36
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (99 bp):
TAGTAGCCTGAACTTAGTACTACACACGTGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCTAACAATCTGATACACG
Found at i:27277974 original size:49 final size:49
Alignment explanation
Indices: 27277801--27277991 Score: 172
Period size: 49 Copynumber: 3.8 Consensus size: 49
27277791 AAAGTTATCT
*
27277801 GGTACGCATAGTAGCCT-ACACTTAGTACTACACACGTGACC--TAACCATC
1 GGTACACATAGTAGCCTGA-ACTTAGTACTACACACGTGACCAATAACC--C
* ** * * * * * *
27277850 TGATACATGTAGTAACCTGCACTTAGTACTACACACGTGATCGAAGTTATCG
1 -GGTACACATAGTAGCCTGAACTTAGTACTACACACGTGA-CCAA-TAACCC
* * * *
27277902 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAACCC
1 GGTACACATAGTAGCCTGAACTTAGTACTACACACGTGACCAATAACCC
*
27277951 GGTACACATAGTAGCCTGAACTTAGTACTACACATGTGACC
1 GGTACACATAGTAGCCTGAACTTAGTACTACACACGTGACC
27277992 TCACAATAGA
Statistics
Matches: 112, Mismatches: 24, Indels: 11
0.76 0.16 0.07
Matches are distributed among these distances:
49 41 0.37
50 35 0.31
51 33 0.29
54 3 0.03
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (49 bp):
GGTACACATAGTAGCCTGAACTTAGTACTACACACGTGACCAATAACCC
Found at i:27288976 original size:47 final size:47
Alignment explanation
Indices: 27288915--27289044 Score: 181
Period size: 47 Copynumber: 2.8 Consensus size: 47
27288905 GTACGAATAA
* * *
27288915 TACCTTGATTTGGCTACGGGCCATGGTATAGGTATTCA-GAGAGGAGT
1 TACCTTGATTTGGCTATGGGCCATGGTATAGGTACT-ATGAGAGAAGT
* * *
27288962 TACCTTGATTTGGCTATGGGCCATGGTATAAGTACTATGGGATAAGT
1 TACCTTGATTTGGCTATGGGCCATGGTATAGGTACTATGAGAGAAGT
*
27289009 TACCTTGATTTAGCTATGGGCCATGGTATAGGTACT
1 TACCTTGATTTGGCTATGGGCCATGGTATAGGTACT
27289045 TATCAATTGA
Statistics
Matches: 74, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
46 1 0.01
47 73 0.99
ACGTcount: A:0.24, C:0.15, G:0.28, T:0.33
Consensus pattern (47 bp):
TACCTTGATTTGGCTATGGGCCATGGTATAGGTACTATGAGAGAAGT
Found at i:27296035 original size:29 final size:29
Alignment explanation
Indices: 27295993--27296082 Score: 162
Period size: 29 Copynumber: 3.1 Consensus size: 29
27295983 GTGAAGAAGT
*
27295993 TAGCTTCGGTGAATTGATCTATTCAGAGA
1 TAGCTTCGGTGAATCGATCTATTCAGAGA
27296022 TAGCTTCGGTGAATCGATCTATTCAGAGA
1 TAGCTTCGGTGAATCGATCTATTCAGAGA
*
27296051 TAGCTTCAGTGAATCGATCTATTCAGAGA
1 TAGCTTCGGTGAATCGATCTATTCAGAGA
27296080 TAG
1 TAG
27296083 TTAAAGGAAT
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 59 1.00
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (29 bp):
TAGCTTCGGTGAATCGATCTATTCAGAGA
Found at i:27303050 original size:41 final size:42
Alignment explanation
Indices: 27302959--27303070 Score: 111
Period size: 44 Copynumber: 2.7 Consensus size: 42
27302949 TATTCAGCCA
**
27302959 AAGCTATATCGATATCGCACACTTAGTGCTATCACATTGAACCG
1 AAGCTATATCGATATCGCACACTTAGTGC--TCACATAAAACCG
* * *
27303003 AAGCTATCTCGGTATCGCACACTTAGTGC-CACATAAAATCG
1 AAGCTATATCGATATCGCACACTTAGTGCTCACATAAAACCG
* * * *
27303044 ACGCTATTTCAAT-TCGCACACTAAGTG
1 AAGCTATATCGATATCGCACACTTAGTG
27303071 TTGTATATAG
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
40 13 0.22
41 18 0.31
44 27 0.47
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (42 bp):
AAGCTATATCGATATCGCACACTTAGTGCTCACATAAAACCG
Found at i:27303881 original size:15 final size:15
Alignment explanation
Indices: 27303861--27303891 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
27303851 GCCATTAAGA
27303861 TGAATGAATCAAATT
1 TGAATGAATCAAATT
27303876 TGAATGAATCAAATT
1 TGAATGAATCAAATT
27303891 T
1 T
27303892 TGTCTTTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.06, G:0.13, T:0.35
Consensus pattern (15 bp):
TGAATGAATCAAATT
Found at i:27312857 original size:22 final size:23
Alignment explanation
Indices: 27312810--27312861 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 23
27312800 TTTAATTGAT
* * *
27312810 TAAAATATTAAAATATATTATAA
1 TAAAATAATAAAATAGATAATAA
27312833 TAAAATAATAAAA-AGATAATAA
1 TAAAATAATAAAATAGATAATAA
27312855 TAAAATA
1 TAAAATA
27312862 TTTCACCAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 14 0.54
23 12 0.46
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (23 bp):
TAAAATAATAAAATAGATAATAA
Found at i:27315095 original size:39 final size:40
Alignment explanation
Indices: 27314973--27315133 Score: 263
Period size: 40 Copynumber: 4.1 Consensus size: 40
27314963 CTAAGATCCA
* * *
27314973 AAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCG
1 AAGGCATTTGTGCGAGTTACTATATCCAGGCTAAGTCCCG
27315013 AAGGCATTTGTGCGAGTTACTATATCCAGGCTAAGTCCCG
1 AAGGCATTTGTGCGAGTTACTATATCCAGGCTAAGTCCCG
27315053 AAGGCATTTGTGCGAGTTACTATATCC-GGCTAAGTCCCG
1 AAGGCATTTGTGCGAGTTACTATATCCAGGCTAAGTCCCG
* *
27315092 AAGGCATTTGTGCGAGTTGCTATATCC-GGCTAAATCCCG
1 AAGGCATTTGTGCGAGTTACTATATCCAGGCTAAGTCCCG
27315131 AAG
1 AAG
27315134 ATACTTGGGT
Statistics
Matches: 116, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
39 52 0.45
40 64 0.55
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.27
Consensus pattern (40 bp):
AAGGCATTTGTGCGAGTTACTATATCCAGGCTAAGTCCCG
Found at i:27315108 original size:79 final size:79
Alignment explanation
Indices: 27314973--27315133 Score: 270
Period size: 79 Copynumber: 2.0 Consensus size: 79
27314963 CTAAGATCCA
*
27314973 AAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 AAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
27315038 CCAGGCTAAGTCCCG
66 CC-GGCTAAATCCCG
* *
27315053 AAGGCATTTGTGCGAGTTACTATATCC-GGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATAT
1 AAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
27315117 CCGGCTAAATCCCG
66 CCGGCTAAATCCCG
27315131 AAG
1 AAG
27315134 ATACTTGGGT
Statistics
Matches: 77, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
78 14 0.18
79 38 0.49
80 25 0.32
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.27
Consensus pattern (79 bp):
AAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
CCGGCTAAATCCCG
Found at i:27317330 original size:15 final size:15
Alignment explanation
Indices: 27317310--27317339 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
27317300 CACCTTGAGT
27317310 ACATTTCATCATATA
1 ACATTTCATCATATA
27317325 ACATTTCATCATATA
1 ACATTTCATCATATA
27317340 CATATAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (15 bp):
ACATTTCATCATATA
Found at i:27318824 original size:7 final size:7
Alignment explanation
Indices: 27318812--27318844 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
27318802 TATACGTGCG
27318812 TAATTAA
1 TAATTAA
27318819 TAATTAA
1 TAATTAA
27318826 TAATTAA
1 TAATTAA
*
27318833 TAA-AAA
1 TAATTAA
27318839 TAATTA
1 TAATTA
27318845 TGTTATTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
6 5 0.22
7 18 0.78
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (7 bp):
TAATTAA
Found at i:27320079 original size:55 final size:53
Alignment explanation
Indices: 27320000--27320201 Score: 185
Period size: 55 Copynumber: 3.7 Consensus size: 53
27319990 TTAAGGATAC
* * * *
27320000 CATGTAAGACCATGCCAAGGCATGGAAACTGATAAGGTTTCTAAGGCAAGAAAAT
1 CATGTAAGACCATGTCAAGACATGG-CATTGATAA-GTTTCTAAGGCAAGAAAAT
* **
27320055 CATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC-A-AAGGT
1 CATGTAAGACCATGTCAAGACATGGCATTGATAAGTT--TCTAAGGCAAGAAAAT
* * * * * *
27320108 CCCATGTAAGACCATGTCAAGGCATGGCATTGGTGAG-TTCATAAGGCAAGGATAC
1 --CATGTAAGACCATGTCAAGACATGGCATTGATAAGTTTC-TAAGGCAAGAAAAT
* *
27320163 CATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTTC
1 CATGTAAGACCATGTCAAGACATGGCATTGATAAGTTTC
27320202 AAAAGGATAC
Statistics
Matches: 121, Mismatches: 18, Indels: 17
0.78 0.12 0.11
Matches are distributed among these distances:
52 1 0.01
53 44 0.36
54 13 0.11
55 63 0.52
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.23
Consensus pattern (53 bp):
CATGTAAGACCATGTCAAGACATGGCATTGATAAGTTTCTAAGGCAAGAAAAT
Found at i:27320198 original size:108 final size:110
Alignment explanation
Indices: 27319999--27320199 Score: 282
Period size: 108 Copynumber: 1.8 Consensus size: 110
27319989 TTTAAGGATA
*
27319999 CCATGTAAGACCATGCCAAGGCATGGAAACTGATAAGGTTTCTAAGGCAAGAAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGAAACTGATAAGGTTTCTAAGGCAAGAAAACCATGTAAGA
*
27320064 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* * * * * * *
27320109 CCATGTAAGACCATGTCAAGGCATGG-CATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGAAACTGATAAGGTTTC-TAAGGCAAGAAAACCATGTAAG
*
27320171 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
27320200 TCAAAAGGAT
Statistics
Matches: 80, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
107 3 0.04
108 47 0.59
109 5 0.06
110 25 0.31
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.22
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGAAACTGATAAGGTTTCTAAGGCAAGAAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:27320464 original size:16 final size:16
Alignment explanation
Indices: 27320443--27320473 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
27320433 ATAAATTTGA
27320443 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
27320459 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
27320474 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:27326170 original size:46 final size:46
Alignment explanation
Indices: 27326118--27326293 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
27326108 TGGTTGAGCA
27326118 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
27326164 TTCGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
27326209 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
27326257 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
27326294 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.58
47 26 0.24
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:27326274 original size:93 final size:93
Alignment explanation
Indices: 27326115--27326285 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
27326105 GGATGGTTGA
* **
27326115 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
27326180 TGAGTCTGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
27326208 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
27326273 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
27326286 ACTTATGGGC
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:0.20, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:27328921 original size:46 final size:45
Alignment explanation
Indices: 27328817--27329034 Score: 181
Period size: 46 Copynumber: 4.8 Consensus size: 45
27328807 AGATTTGTGT
* * * * *
27328817 GCCAGTGTAAGACCATGTATGGGACATGGCATC-GGCATTGAGACGAGG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCA--CAGATGAGA
*
27328865 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACAGTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACAG-ATGAGA
* * **
27328911 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTTA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCAC-AGATGAGA
* * * * ** *
27328957 GCCAATGTCAGACATGTCTGGGACATGCGTCGGTTAC-GA-GATGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACAGATGA-GA
* *
27329001 GCTAGTGTAAGACATGTCTGGGACATGCGTCAGC
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGC
27329035 ACGGTTACAT
Statistics
Matches: 141, Mismatches: 25, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
43 1 0.01
44 31 0.22
45 2 0.01
46 78 0.55
47 18 0.13
48 11 0.08
ACGTcount: A:0.26, C:0.20, G:0.32, T:0.22
Consensus pattern (45 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACAGATGAGA
Found at i:27328971 original size:92 final size:90
Alignment explanation
Indices: 27328817--27329028 Score: 228
Period size: 92 Copynumber: 2.3 Consensus size: 90
27328807 AGATTTGTGT
* * * * *
27328817 GCCAGTGTAAGACCATGTATGGGACATGGCATCGGCATTGAGACGAGGGCTAGTGTAAGACATGT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATCGAGACGAGAGCCAATGTAAGACATGT
27328882 CTGGGACATGCATCAGCCAC-AGTATGAGA
64 CTGGGACATGCATCAGCCACGAG-AT--GA
* * ** *
27328911 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTTAGCCAATGTCAGACATGTCT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGACGAGAGCCAATGTAAGACATGTCT
* * ** *
27328976 GGGACATGCGTCGGTTACGAGATGT
66 GGGACATGCATCAGCCACGAGATGA
*
27329001 GCTAGTGTAAGACATGTCTGGGACATGC
1 GCCAGTGTAAGACATGTCTGGGACATGC
27329029 GTCAGCACGG
Statistics
Matches: 101, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
90 28 0.28
92 46 0.46
93 15 0.15
94 12 0.12
ACGTcount: A:0.26, C:0.20, G:0.32, T:0.23
Consensus pattern (90 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGACGAGAGCCAATGTAAGACATGTCT
GGGACATGCATCAGCCACGAGATGA
Found at i:27331875 original size:19 final size:19
Alignment explanation
Indices: 27331839--27331880 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
27331829 GGTAAATTGC
27331839 TAAATTGTAAAATGAGTTG
1 TAAATTGTAAAATGAGTTG
27331858 TAAATGTGTAAAAT-AGTTG
1 TAAAT-TGTAAAATGAGTTG
27331877 -AAAT
1 TAAAT
27331881 AATGAGTTGC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 4 0.18
19 10 0.45
20 8 0.36
ACGTcount: A:0.45, C:0.00, G:0.19, T:0.36
Consensus pattern (19 bp):
TAAATTGTAAAATGAGTTG
Found at i:27332488 original size:46 final size:46
Alignment explanation
Indices: 27332438--27332610 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
27332428 TTGAGCATCT
* *
27332438 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGTTGCGAATGTTC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
* * * *
27332484 GAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATG-TAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCC
* * *
27332531 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
*
27332577 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
27332611 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 61 0.58
47 26 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.19, G:0.30, T:0.31
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
Found at i:27332591 original size:93 final size:93
Alignment explanation
Indices: 27332432--27332602 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
27332422 GGATGGTTGA
* * * **
27332432 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGTTGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
27332497 TGAGTCTGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
27332525 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
27332590 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
27332603 ACTTATGGGC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:27337168 original size:28 final size:29
Alignment explanation
Indices: 27337091--27337169 Score: 83
Period size: 28 Copynumber: 2.7 Consensus size: 29
27337081 TATTAATTAT
27337091 TAATAATTTATATAAATTTTTTATAATTTTA
1 TAATAATTT-T-TAAATTTTTTATAATTTTA
* * *
27337122 TAA-AA-ATTAAAATAATTTTATAA-TTTA
1 TAATAATTTTTAAAT-TTTTTATAATTTTA
27337149 TAATAATTTTTAAATTTTTTA
1 TAATAATTTTTAAATTTTTTA
27337170 GTAAGAAATT
Statistics
Matches: 39, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
27 11 0.28
28 16 0.41
29 7 0.18
30 2 0.05
31 3 0.08
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (29 bp):
TAATAATTTTTAAATTTTTTATAATTTTA
Found at i:27337169 original size:48 final size:52
Alignment explanation
Indices: 27337084--27337180 Score: 118
Period size: 48 Copynumber: 1.9 Consensus size: 52
27337074 TATTAATTAT
27337084 TAATTATTAATAATTTATATAAATTTTTTATAATTTTA-TAA-AAATTAAAA
1 TAATTATTAATAATTTATATAAATTTTTTATAATTTTAGTAAGAAATTAAAA
27337134 TAATT-TT-ATAATTTATA-ATAA-TTTTTA-AATTTTTTAGTAAGAAATTA
1 TAATTATTAATAATTTATATA-AATTTTTTATAA--TTTTAGTAAGAAATTA
27337181 CTCTTCCTTT
Statistics
Matches: 42, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
46 2 0.05
47 7 0.17
48 17 0.40
49 5 0.12
50 11 0.26
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (52 bp):
TAATTATTAATAATTTATATAAATTTTTTATAATTTTAGTAAGAAATTAAAA
Found at i:27350498 original size:49 final size:48
Alignment explanation
Indices: 27350345--27350664 Score: 176
Period size: 49 Copynumber: 6.7 Consensus size: 48
27350335 AAGGTACGAT
* * * *
27350345 GCCGACGCCATGTTCCAAACATGGTCTTACACTAGCTCTCAC-ATCTAA
1 GCCGATGCCATGTCCCAAACA-GGTCTTACACTGGCTCTCACTATCTGA
* * * *
27350393 GCCGATGCCATGTCCTAGACAAGTCTTACACTGACT-TC-C-ATACATCGA
1 GCCGATGCCATGTCCCAAACAGGTCTTACACTGGCTCTCACTAT-C-T-GA
* * *
27350441 GGCTGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCACTTATCTGT
1 -GCCGATGCCATGTCCCAAACAGGTCTTACACTGGCTCTCAC-TATCTGA
* * ** * * *
27350491 GTCGATGCCATGTCCCAAATAGGTCTTACACT--AACACAC-CTC-AA
1 GCCGATGCCATGTCCCAAACAGGTCTTACACTGGCTCTCACTATCTGA
** * * * *
27350535 GCCGATGCCAAATCCTAGACAGGTCTTCCACTAGCT-TGCA-TATCTTGA
1 GCCGATGCCATGTCCCAAACAGGTCTTACACTGGCTCT-CACTATC-TGA
* * *
27350583 GGCCGATGCCATGTCCTAGACAAGTCTTACACTGGCTCTCATCTATC-GA
1 -GCCGATGCCATGTCCCAAACAGGTCTTACACTGGCTCTCA-CTATCTGA
* * ** *
27350632 TGCCGATTCTATGTCCCAGGCAGGTCCTACACT
1 -GCCGATGCCATGTCCCAAACAGGTCTTACACT
27350665 AGCACTCATA
Statistics
Matches: 207, Mismatches: 47, Indels: 35
0.72 0.16 0.12
Matches are distributed among these distances:
44 25 0.12
45 5 0.02
46 7 0.03
47 17 0.08
48 19 0.09
49 121 0.58
50 4 0.02
51 6 0.03
52 1 0.00
53 2 0.01
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.26
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAAACAGGTCTTACACTGGCTCTCACTATCTGA
Found at i:27350647 original size:142 final size:142
Alignment explanation
Indices: 27350344--27350649 Score: 350
Period size: 142 Copynumber: 2.1 Consensus size: 142
27350334 TAAGGTACGA
* * * * * * **
27350344 TGCCGACGCCATGTTCCAAACATGGTCTTACACTAGCTCTCACATCTAAGCCGATGCCATGTCCT
1 TGCCGATGCCATGTCCCAAATA-GGTCTTACACTA--ACACACCTC-AAGCCGATGCCAAATCCT
* *
27350409 AGACAAGTCTTACACTGACTTCCATACATCGAGGCTGATGCCATGTCCCAGACAGGTCTTACACT
62 AGACAAGTCTTACACTGACTTCCATACATCGAGGCCGATGCCATGTCCCAGACAAGTCTTACACT
27350474 GGCTCTCACTTATCTG
127 GGCTCTCACTTATCTG
*
27350490 TGTCGATGCCATGTCCCAAATAGGTCTTACACTAACACACCTCAAGCCGATGCCAAATCCTAGAC
1 TGCCGATGCCATGTCCCAAATAGGTCTTACACTAACACACCTCAAGCCGATGCCAAATCCTAGAC
* * * * *
27350555 AGGTCTTCCACT-AGCTTGCATATC-TTGAGGCCGATGCCATGTCCTAGACAAGTCTTACACTGG
66 AAGTCTTACACTGA-CTTCCATA-CATCGAGGCCGATGCCATGTCCCAGACAAGTCTTACACTGG
27350618 CTCTCA-TCTATC-G
129 CTCTCACT-TATCTG
* *
27350631 ATGCCGATTCTATGTCCCA
1 -TGCCGATGCCATGTCCCA
27350650 GGCAGGTCCT
Statistics
Matches: 137, Mismatches: 19, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
141 3 0.02
142 97 0.71
143 7 0.05
145 12 0.09
146 18 0.13
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.27
Consensus pattern (142 bp):
TGCCGATGCCATGTCCCAAATAGGTCTTACACTAACACACCTCAAGCCGATGCCAAATCCTAGAC
AAGTCTTACACTGACTTCCATACATCGAGGCCGATGCCATGTCCCAGACAAGTCTTACACTGGCT
CTCACTTATCTG
Found at i:27353511 original size:15 final size:15
Alignment explanation
Indices: 27353491--27353519 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
27353481 GCCTCTGTCG
27353491 AGTGATCTGGAGATA
1 AGTGATCTGGAGATA
27353506 AGTGATCTGGAGAT
1 AGTGATCTGGAGAT
27353520 GACTTCTCTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.07, G:0.34, T:0.28
Consensus pattern (15 bp):
AGTGATCTGGAGATA
Done.