Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032251.1 Gossypioides kirkii chromosome KI_09
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: 38743931
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2800 characters in sequence are not A, C, G, or T
File 141 of 144
Found at i:37194821 original size:11 final size:11
Alignment explanation
Indices: 37194801--37194833 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
37194791 TAAAATTTAT
*
37194801 ATTTTTTAAAA
1 ATTTTATAAAA
37194812 ATTTTATAAAA
1 ATTTTATAAAA
37194823 ATTTTA-AAAA
1 ATTTTATAAAA
37194833 A
1 A
37194834 CTAAAGAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
10 5 0.24
11 16 0.76
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (11 bp):
ATTTTATAAAA
Found at i:37199410 original size:45 final size:46
Alignment explanation
Indices: 37199359--37199446 Score: 124
Period size: 45 Copynumber: 1.9 Consensus size: 46
37199349 TTAATATTTG
* * *
37199359 ATTAAATCATATTATATTTATTATAAATTATTTATA-TTGATTTTA
1 ATTAAATCACATAATATTTATTATAAATAATTTATACTTGATTTTA
* *
37199404 ATTAAATTACATAATATTTATTATTAATAATTTATACTTGATT
1 ATTAAATCACATAATATTTATTATAAATAATTTATACTTGATT
37199447 AAATATTAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
45 31 0.84
46 6 0.16
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.53
Consensus pattern (46 bp):
ATTAAATCACATAATATTTATTATAAATAATTTATACTTGATTTTA
Found at i:37199630 original size:30 final size:31
Alignment explanation
Indices: 37199596--37199654 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
37199586 ATGTTTTTAT
* *
37199596 TTTAAGTTTT-TTAAATTAGATTTTTGAACA
1 TTTAAGTTTTATTAAATAAGATATTTGAACA
*
37199626 TTTAATTTTTATTAAATAAGATATTTGAA
1 TTTAAGTTTTATTAAATAAGATATTTGAA
37199655 TTGATGTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 9 0.36
31 16 0.64
ACGTcount: A:0.37, C:0.02, G:0.08, T:0.53
Consensus pattern (31 bp):
TTTAAGTTTTATTAAATAAGATATTTGAACA
Found at i:37207894 original size:3 final size:3
Alignment explanation
Indices: 37207886--37207925 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
37207876 CTTAACACAT
37207886 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
37207926 ATAACTGAGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:37217772 original size:4 final size:4
Alignment explanation
Indices: 37217714--37217754 Score: 64
Period size: 4 Copynumber: 10.2 Consensus size: 4
37217704 TATCTAGTGG
* *
37217714 TGTA TATA TATA TGTA TGTA TGTA TGTA TGTA TGTA TGTA T
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA T
37217755 TCAAGTGTGT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.29, C:0.00, G:0.20, T:0.51
Consensus pattern (4 bp):
TGTA
Found at i:37224143 original size:16 final size:16
Alignment explanation
Indices: 37224118--37224156 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
37224108 CAGATCTCAC
*
37224118 TTATTAATAAAATTAA
1 TTATTTATAAAATTAA
*
37224134 TTATTTATAAAATTTA
1 TTATTTATAAAATTAA
37224150 -TATTTAT
1 TTATTTAT
37224157 CTCAATTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 7 0.33
16 14 0.67
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
TTATTTATAAAATTAA
Found at i:37224297 original size:31 final size:31
Alignment explanation
Indices: 37224238--37224315 Score: 86
Period size: 31 Copynumber: 2.5 Consensus size: 31
37224228 AAAAAAAACT
* *
37224238 TAATAGTTTAGTGACTTACATAAAAATTTTCG
1 TAATAGTTTAATGACTTAAATAAAAATTTT-G
* * *
37224270 -AATATTTTAATGACTTAAATGATAATTTTG
1 TAATAGTTTAATGACTTAAATAAAAATTTTG
*
37224300 TGATAGTTTAATGACT
1 TAATAGTTTAATGACT
37224316 ATTTTGTAAT
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
30 1 0.03
31 37 0.97
ACGTcount: A:0.37, C:0.06, G:0.13, T:0.44
Consensus pattern (31 bp):
TAATAGTTTAATGACTTAAATAAAAATTTTG
Found at i:37232278 original size:13 final size:13
Alignment explanation
Indices: 37232251--37232290 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
37232241 ATTTTCTAAG
37232251 TTTTTA-ATA-TA
1 TTTTTATATATTA
37232262 -TTTTATTATATTA
1 TTTTTA-TATATTA
37232275 TTTTTATATATTA
1 TTTTTATATATTA
37232288 TTT
1 TTT
37232291 AATTTATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
10 5 0.20
12 3 0.12
13 12 0.48
14 5 0.20
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTTTATATATTA
Found at i:37239598 original size:14 final size:13
Alignment explanation
Indices: 37239571--37239596 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
37239561 CCAATTTATA
37239571 ATTTATAATTTTT
1 ATTTATAATTTTT
37239584 ATTTATAATTTTT
1 ATTTATAATTTTT
37239597 TAAAATTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
ATTTATAATTTTT
Found at i:37255701 original size:26 final size:29
Alignment explanation
Indices: 37255658--37255729 Score: 80
Period size: 26 Copynumber: 2.6 Consensus size: 29
37255648 TAACTCAAGC
* *
37255658 AAAATGGATGGGACTTTTTA-AGA-GA-G
1 AAAATGGATGGAATTTTTTATAGATGATG
*
37255684 AAAATGGATGAAATTTTTTATAGATGATG
1 AAAATGGATGGAATTTTTTATAGATGATG
*
37255713 -AAATGGGTGGAATTTTT
1 AAAATGGATGGAATTTTT
37255730 GACAAGAAGG
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
26 17 0.45
27 3 0.08
28 17 0.45
29 1 0.03
ACGTcount: A:0.38, C:0.01, G:0.26, T:0.35
Consensus pattern (29 bp):
AAAATGGATGGAATTTTTTATAGATGATG
Found at i:37262786 original size:237 final size:235
Alignment explanation
Indices: 37262333--37263068 Score: 1019
Period size: 234 Copynumber: 3.1 Consensus size: 235
37262323 GTTTCCTTCG
* * *
37262333 TCGTCACTAGGTGGTTTCTTGCCGGCCAATGGACTTTCTTCCTCGACATCTTCTTGTAGTAACCG
1 TCGTCACTAGGTGGTTTCTCGCCGGCGAATGGACTTTCTTCCTCGACGTC-TCTTGTAGTAACCG
* * * ** * * *
37262398 TTTTTCACGGATGAACTCAATGTCTGCTAATAATCTTTCTGGTGGATTGTTTCCTTCGTCGTCAC
65 TTTTTTACCGATGACCTCAATGTCTTTTAGTAATCTTT-TGGAGGATTGTCTCC--C-TCGTCAC
** * *
37262463 TAGGTGGTTTCTCACCGGCGAATGGACTCTCTTCCTCAACGTCTTGTAGTAATCGT-TCCTCACG
126 TAGGTGGTTTCTCACCGGCGAATGGACTCTCTTCCTCAACGTCTTGTAGTTTTCGTAT-CTTACC
*
37262527 GATGAACTCAATGTCTTTTAGTAATCTTTTTGGGGGATTATCTCCT
190 GATGACCTCAATGTCTTTTAGTAATCTTTTTGGGGGATTATCTCCT
*
37262573 TCATCACTAGGTGGTTTCTCGCCGGCGAATGGACTTTCTTCCTCGACGTCTGCTTGTAGTAACCG
1 TCGTCACTAGGTGGTTTCTCGCCGGCGAATGGACTTTCTTCCTCGACGTCT-CTTGTAGTAACCG
*
37262638 TTTTTTACCGATGACCTCAATATCTTTTAGTAATCTTTTAGGAGGATTGTCTCCCTCGTCACTAG
65 TTTTTTACCGATGACCTCAATGTCTTTTAGTAATCTTTT-GGAGGATTGTCTCCCTCGTCACTAG
*
37262703 GTGGTTTCTCACCGGCGAATGGACTCTCTTCCTCAACGTCTTCTAGTTTTCGTATCTTACCGATG
129 GTGGTTTCTCACCGGCGAATGGACTCTCTTCCTCAACGTCTTGTAGTTTTCGTATCTTACCGATG
* *
37262768 ACCTCAATGTCTTTTAGTAATCTTTTAGGAGGATTATCTCCT
194 ACCTCAATGTCTTTTAGTAATCTTTTTGGGGGATTATCTCCT
* * * ***
37262810 TCGTCACTAGGTGGTTTCTCGCCGGCGAATGGACTCTCTTCCTCAACG--TCTTCTAGTTTGCGT
1 TCGTCACTAGGTGGTTTCTCGCCGGCGAATGGACTTTCTTCCTCGACGTCTCTTGTAGTAACCGT
* * * * * *
37262873 ATCTTACCGATGACCTCAATGTCTTTTAGTAATCTTTTTGGGGGATTGTCACCTTCGTCACTCGG
66 TTTTTACCGATGACCTCAATGTCTTTTAGTAATC-TTTTGGAGGATTGTCTCCCTCGTCACTAGG
* * * *
37262938 TGGTTTCTCGCCGGCAAATGGACTCTCTTCCTCAACATCTTGTAGTTTTCGTATCTTACCGATGG
130 TGGTTTCTCACCGGCGAATGGACTCTCTTCCTCAACGTCTTGTAGTTTTCGTATCTTACCGATGA
*
37263003 CCTCAATGTCTTTTAGTAATCTTTTTGGGGGCTTATCTCCT
195 CCTCAATGTCTTTTAGTAATCTTTTTGGGGGATTATCTCCT
*
37263044 TCGTCACTAGGTGGTTTCTCACCGG
1 TCGTCACTAGGTGGTTTCTCGCCGG
37263069 GAAACGGACT
Statistics
Matches: 448, Mismatches: 44, Indels: 14
0.89 0.09 0.03
Matches are distributed among these distances:
234 185 0.41
235 5 0.01
237 152 0.34
238 2 0.00
239 2 0.00
240 102 0.23
ACGTcount: A:0.17, C:0.25, G:0.20, T:0.38
Consensus pattern (235 bp):
TCGTCACTAGGTGGTTTCTCGCCGGCGAATGGACTTTCTTCCTCGACGTCTCTTGTAGTAACCGT
TTTTTACCGATGACCTCAATGTCTTTTAGTAATCTTTTGGAGGATTGTCTCCCTCGTCACTAGGT
GGTTTCTCACCGGCGAATGGACTCTCTTCCTCAACGTCTTGTAGTTTTCGTATCTTACCGATGAC
CTCAATGTCTTTTAGTAATCTTTTTGGGGGATTATCTCCT
Found at i:37262814 original size:117 final size:117
Alignment explanation
Indices: 37262333--37263091 Score: 905
Period size: 117 Copynumber: 6.4 Consensus size: 117
37262323 GTTTCCTTCG
** * * * ***
37262333 TCGTCACTAGGTGGTTTCTTGCCGGCCAATGGACTTTCTTCCTCGACATCTTCTTGTAGTAACCG
1 TCGTCACTAGGTGGTTTCTCACCGGCGAATGGACTCTCTTCCTC-A-A-CGTCTTGTAGTTTTCG
* * * ** * * * * *
37262398 T-TTTTCACGGATGAACTCAATGTCTGCTAATAATCTTTCTGGTGGATTGTTTCCTT
63 TATCTT-ACCGATGACCTCAATGTCTTTTAGTAATCTTTTTGGGGGATTATCTCC-T
**
37262454 CGTCGTCACTAGGTGGTTTCTCACCGGCGAATGGACTCTCTTCCTCAACGTCTTGTAGTAATCGT
1 --TCGTCACTAGGTGGTTTCTCACCGGCGAATGGACTCTCTTCCTCAACGTCTTGTAGTTTTCGT
* * *
37262519 -TCCTCACGGATGAACTCAATGTCTTTTAGTAATCTTTTTGGGGGATTATCTCCT
64 AT-CTTACCGATGACCTCAATGTCTTTTAGTAATCTTTTTGGGGGATTATCTCCT
* * * * ***
37262573 TCATCACTAGGTGGTTTCTCGCCGGCGAATGGACTTTCTTCCTCGACGTCTGCTTGTAGTAACCG
1 TCGTCACTAGGTGGTTTCTCACCGGCGAATGGACTCTCTTCCTCAACG--T-CTTGTAGTTTTCG
* * * * * * *
37262638 TTTTTTACCGATGACCTCAATATCTTTTAGTAATCTTTTAGGAGGATTGTCTCCC
63 TATCTTACCGATGACCTCAATGTCTTTTAGTAATCTTTTTGGGGGATTATCTCCT
*
37262693 TCGTCACTAGGTGGTTTCTCACCGGCGAATGGACTCTCTTCCTCAACGTCTTCTAGTTTTCGTAT
1 TCGTCACTAGGTGGTTTCTCACCGGCGAATGGACTCTCTTCCTCAACGTCTTGTAGTTTTCGTAT
* *
37262758 CTTACCGATGACCTCAATGTCTTTTAGTAATCTTTTAGGAGGATTATCTCCT
66 CTTACCGATGACCTCAATGTCTTTTAGTAATCTTTTTGGGGGATTATCTCCT
* * *
37262810 TCGTCACTAGGTGGTTTCTCGCCGGCGAATGGACTCTCTTCCTCAACGTCTTCTAGTTTGCGTAT
1 TCGTCACTAGGTGGTTTCTCACCGGCGAATGGACTCTCTTCCTCAACGTCTTGTAGTTTTCGTAT
* *
37262875 CTTACCGATGACCTCAATGTCTTTTAGTAATCTTTTTGGGGGATTGTCACCT
66 CTTACCGATGACCTCAATGTCTTTTAGTAATCTTTTTGGGGGATTATCTCCT
* * * *
37262927 TCGTCACTCGGTGGTTTCTCGCCGGCAAATGGACTCTCTTCCTCAACATCTTGTAGTTTTCGTAT
1 TCGTCACTAGGTGGTTTCTCACCGGCGAATGGACTCTCTTCCTCAACGTCTTGTAGTTTTCGTAT
* *
37262992 CTTACCGATGGCCTCAATGTCTTTTAGTAATCTTTTTGGGGGCTTATCTCCT
66 CTTACCGATGACCTCAATGTCTTTTAGTAATCTTTTTGGGGGATTATCTCCT
*
37263044 TCGTCACTAGGTGGTTTCTCACCGG-GAAACGGACTCT-TATCCTCAACG
1 TCGTCACTAGGTGGTTTCTCACCGGCG-AATGGACTCTCT-TCCTCAACG
37263092 CTCTCTTCTA
Statistics
Matches: 567, Mismatches: 62, Indels: 20
0.87 0.10 0.03
Matches are distributed among these distances:
116 1 0.00
117 362 0.64
118 1 0.00
119 2 0.00
120 157 0.28
121 3 0.01
122 1 0.00
123 40 0.07
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.37
Consensus pattern (117 bp):
TCGTCACTAGGTGGTTTCTCACCGGCGAATGGACTCTCTTCCTCAACGTCTTGTAGTTTTCGTAT
CTTACCGATGACCTCAATGTCTTTTAGTAATCTTTTTGGGGGATTATCTCCT
Found at i:37266719 original size:21 final size:21
Alignment explanation
Indices: 37266670--37266719 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
37266660 TAAAATTTTG
*
37266670 ATTTAAAATATAAAAATATAA
1 ATTTTAAATATAAAAATATAA
*
37266691 ATTATTAAA-ATAAAAATATTAT
1 ATT-TTAAATATAAAAATA-TAA
37266713 ATTTTAA
1 ATTTTAA
37266720 CTTCGTGAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 16 0.64
22 9 0.36
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
ATTTTAAATATAAAAATATAA
Found at i:37272570 original size:27 final size:27
Alignment explanation
Indices: 37272539--37272621 Score: 70
Period size: 27 Copynumber: 3.2 Consensus size: 27
37272529 TGCTGCTGAT
37272539 GATGGCTCCCCTGTTTCAGCCATTGAA
1 GATGGCTCCCCTGTTTCAGCCATTGAA
* *
37272566 GATGGTTCTTTCCCT-TTT-----ATTGAT
1 GATGG--C-TCCCCTGTTTCAGCCATTGAA
*
37272590 GATGACTCCCCTGTTTCAGCCATTGAA
1 GATGGCTCCCCTGTTTCAGCCATTGAA
37272617 GATGG
1 GATGG
37272622 TTGTTTCCCT
Statistics
Matches: 41, Mismatches: 6, Indels: 18
0.63 0.09 0.28
Matches are distributed among these distances:
21 5 0.12
22 4 0.10
24 9 0.22
27 14 0.34
29 4 0.10
30 5 0.12
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
GATGGCTCCCCTGTTTCAGCCATTGAA
Found at i:37272600 original size:51 final size:51
Alignment explanation
Indices: 37272523--37272754 Score: 338
Period size: 51 Copynumber: 4.5 Consensus size: 51
37272513 ACTCCCTTAC
* * *
37272523 TTCCCTTGCTGCTGATGATGGCTCCCCTGTTTCAGCCATTGAAGATGGTTCT
1 TTCCCTT-TTGCTGATGGTGACTCCCCTGTTTCAGCCATTGAAGATGGTTCT
** * *
37272575 TTCCCTTTTATTGATGATGACTCCCCTGTTTCAGCCATTGAAGATGGTTGT
1 TTCCCTTTTGCTGATGGTGACTCCCCTGTTTCAGCCATTGAAGATGGTTCT
* *
37272626 TTCCCTTTTGCTGCTGGTGACTCCCCTGTTTCAGCCATTGAAGATGGTTGT
1 TTCCCTTTTGCTGATGGTGACTCCCCTGTTTCAGCCATTGAAGATGGTTCT
* * *
37272677 TTCCCTTTTGCTGTTGGTGACTCCCCTGTTTCAGCCATCGAAGACGGTTCT
1 TTCCCTTTTGCTGATGGTGACTCCCCTGTTTCAGCCATTGAAGATGGTTCT
*
37272728 TTCCCTTTTGCTGCTGGTGACTCCCCT
1 TTCCCTTTTGCTGATGGTGACTCCCCT
37272755 TTTGCTGCTG
Statistics
Matches: 166, Mismatches: 14, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
51 159 0.96
52 7 0.04
ACGTcount: A:0.12, C:0.27, G:0.22, T:0.39
Consensus pattern (51 bp):
TTCCCTTTTGCTGATGGTGACTCCCCTGTTTCAGCCATTGAAGATGGTTCT
Found at i:37272754 original size:21 final size:21
Alignment explanation
Indices: 37272730--37272775 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
37272720 ACGGTTCTTT
37272730 CCCTTTTGCTGCTGGTGACTC
1 CCCTTTTGCTGCTGGTGACTC
37272751 CCCTTTTGCTGCTGGTGACTC
1 CCCTTTTGCTGCTGGTGACTC
37272772 CCCT
1 CCCT
37272776 GTTTCAGCCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.04, C:0.37, G:0.22, T:0.37
Consensus pattern (21 bp):
CCCTTTTGCTGCTGGTGACTC
Found at i:37272796 original size:72 final size:72
Alignment explanation
Indices: 37272679--37272826 Score: 287
Period size: 72 Copynumber: 2.1 Consensus size: 72
37272669 ATGGTTGTTT
*
37272679 CCCTTTTGCTGTTGGTGACTCCCCTGTTTCAGCCATCGAAGACGGTTCTTTCCCTTTTGCTGCTG
1 CCCTTTTGCTGCTGGTGACTCCCCTGTTTCAGCCATCGAAGACGGTTCTTTCCCTTTTGCTGCTG
37272744 GTGACTC
66 GTGACTC
37272751 CCCTTTTGCTGCTGGTGACTCCCCTGTTTCAGCCATCGAAGACGGTTCTTTCCCTTTTGCTGCTG
1 CCCTTTTGCTGCTGGTGACTCCCCTGTTTCAGCCATCGAAGACGGTTCTTTCCCTTTTGCTGCTG
37272816 GTGACTC
66 GTGACTC
37272823 CCCT
1 CCCT
37272827 GTTTCATCCA
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 75 1.00
ACGTcount: A:0.09, C:0.32, G:0.22, T:0.36
Consensus pattern (72 bp):
CCCTTTTGCTGCTGGTGACTCCCCTGTTTCAGCCATCGAAGACGGTTCTTTCCCTTTTGCTGCTG
GTGACTC
Found at i:37272827 original size:51 final size:51
Alignment explanation
Indices: 37272751--37273047 Score: 450
Period size: 51 Copynumber: 5.8 Consensus size: 51
37272741 CTGGTGACTC
* *
37272751 CCCTTTTGCTGCTGGTGACTCCCCTGTTTCAGCCATCGAAGACGGTTCTTT
1 CCCTTTTGCTGATGGTGACTCCCCTGTTTCAGCCATCGAAGATGGTTCTTT
* *
37272802 CCCTTTTGCTGCTGGTGACTCCCCTGTTTCATCCATCGAAGATGGTTCTTT
1 CCCTTTTGCTGATGGTGACTCCCCTGTTTCAGCCATCGAAGATGGTTCTTT
* *
37272853 CCCTTTTGCTGCTGGTGACTGCCCTGTTTCAGCCATCGAAGATGGTTCTTT
1 CCCTTTTGCTGATGGTGACTCCCCTGTTTCAGCCATCGAAGATGGTTCTTT
* * *
37272904 CCCTTTTGCTGATGATGACTCCCCTGTTTCAGCCATTGAAGATAGTTCTTT
1 CCCTTTTGCTGATGGTGACTCCCCTGTTTCAGCCATCGAAGATGGTTCTTT
* * * *
37272955 CCCTTTTGCTGAAGATGACTCCCCTGTTTCAGCCATTGAAGATAGTTCTTT
1 CCCTTTTGCTGATGGTGACTCCCCTGTTTCAGCCATCGAAGATGGTTCTTT
* * *
37273006 CCCTTTTGCTGAAGGTGACTCCCCTTTTTCAGCCATTGAAGA
1 CCCTTTTGCTGATGGTGACTCCCCTGTTTCAGCCATCGAAGA
37273048 CAGAAAAAGA
Statistics
Matches: 234, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 234 1.00
ACGTcount: A:0.15, C:0.28, G:0.20, T:0.37
Consensus pattern (51 bp):
CCCTTTTGCTGATGGTGACTCCCCTGTTTCAGCCATCGAAGATGGTTCTTT
Found at i:37272849 original size:123 final size:123
Alignment explanation
Indices: 37272628--37272877 Score: 437
Period size: 123 Copynumber: 2.0 Consensus size: 123
37272618 ATGGTTGTTT
* * * *
37272628 CCCTTTTGCTGCTGGTGACTCCCCTGTTTCAGCCATTGAAGATGGTTGTTTCCCTTTTGCTGTTG
1 CCCTTTTGCTGCTGGTGACTCCCCTGTTTCAGCCATCGAAGACGGTTCTTTCCCTTTTGCTGCTG
37272693 GTGACTCCCCTGTTTCAGCCATCGAAGACGGTTCTTTCCCTTTTGCTGCTGGTGACTC
66 GTGACTCCCCTGTTTCAGCCATCGAAGACGGTTCTTTCCCTTTTGCTGCTGGTGACTC
37272751 CCCTTTTGCTGCTGGTGACTCCCCTGTTTCAGCCATCGAAGACGGTTCTTTCCCTTTTGCTGCTG
1 CCCTTTTGCTGCTGGTGACTCCCCTGTTTCAGCCATCGAAGACGGTTCTTTCCCTTTTGCTGCTG
* * *
37272816 GTGACTCCCCTGTTTCATCCATCGAAGATGGTTCTTTCCCTTTTGCTGCTGGTGACTG
66 GTGACTCCCCTGTTTCAGCCATCGAAGACGGTTCTTTCCCTTTTGCTGCTGGTGACTC
37272874 CCCT
1 CCCT
37272878 GTTTCAGCCA
Statistics
Matches: 120, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
123 120 1.00
ACGTcount: A:0.10, C:0.30, G:0.22, T:0.38
Consensus pattern (123 bp):
CCCTTTTGCTGCTGGTGACTCCCCTGTTTCAGCCATCGAAGACGGTTCTTTCCCTTTTGCTGCTG
GTGACTCCCCTGTTTCAGCCATCGAAGACGGTTCTTTCCCTTTTGCTGCTGGTGACTC
Found at i:37272871 original size:174 final size:174
Alignment explanation
Indices: 37272592--37272928 Score: 575
Period size: 174 Copynumber: 1.9 Consensus size: 174
37272582 TTATTGATGA
* * *
37272592 TGACTCCCCTGTTTCAGCCATTGAAGATGGTTGTTTCCCTTTTGCTGCTGGTGACTCCCCTGTTT
1 TGACTCCCCTGTTTCAGCCATCGAAGACGGTTCTTTCCCTTTTGCTGCTGGTGACTCCCCTGTTT
* * *
37272657 CAGCCATTGAAGATGGTTGTTTCCCTTTTGCTGTTGGTGACTCCCCTGTTTCAGCCATCGAAGAC
66 CAGCCATCGAAGATGGTTCTTTCCCTTTTGCTGCTGGTGACTCCCCTGTTTCAGCCATCGAAGAC
* *
37272722 GGTTCTTTCCCTTTTGCTGCTGGTGACTCCCCTTTTGCTGCTGG
131 GGTTCTTTCCCTTTTGCTGATGATGACTCCCCTTTTGCTGCTGG
37272766 TGACTCCCCTGTTTCAGCCATCGAAGACGGTTCTTTCCCTTTTGCTGCTGGTGACTCCCCTGTTT
1 TGACTCCCCTGTTTCAGCCATCGAAGACGGTTCTTTCCCTTTTGCTGCTGGTGACTCCCCTGTTT
* * *
37272831 CATCCATCGAAGATGGTTCTTTCCCTTTTGCTGCTGGTGACTGCCCTGTTTCAGCCATCGAAGAT
66 CAGCCATCGAAGATGGTTCTTTCCCTTTTGCTGCTGGTGACTCCCCTGTTTCAGCCATCGAAGAC
37272896 GGTTCTTTCCCTTTTGCTGATGATGACTCCCCT
131 GGTTCTTTCCCTTTTGCTGATGATGACTCCCCT
37272929 GTTTCAGCCA
Statistics
Matches: 152, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
174 152 1.00
ACGTcount: A:0.12, C:0.29, G:0.22, T:0.38
Consensus pattern (174 bp):
TGACTCCCCTGTTTCAGCCATCGAAGACGGTTCTTTCCCTTTTGCTGCTGGTGACTCCCCTGTTT
CAGCCATCGAAGATGGTTCTTTCCCTTTTGCTGCTGGTGACTCCCCTGTTTCAGCCATCGAAGAC
GGTTCTTTCCCTTTTGCTGATGATGACTCCCCTTTTGCTGCTGG
Found at i:37272935 original size:225 final size:225
Alignment explanation
Indices: 37272544--37272979 Score: 692
Period size: 225 Copynumber: 1.9 Consensus size: 225
37272534 CTGATGATGG
* * *
37272544 CTCCCCTGTTTCAGCCATTGAAGATGGTTCTTTCCCTTTTATTGATGATGACTCCCCTGTTTCAG
1 CTCCCCTGTTTCAGCCATCGAAGACGGTTCTTTCCCTTTTACTGATGATGACTCCCCTGTTTCAG
* * *
37272609 CCATTGAAGATGGTTGTTTCCCTTTTGCTGCTGGTGACTCCCCTGTTTCAGCCATTGAAGATGGT
66 CCATCGAAGATGGTTCTTTCCCTTTTGCTGCTGGTGACTCCCCTGTTTCAGCCATCGAAGATGGT
* * * *
37272674 TGTTTCCCTTTTGCTGTTGGTGACTCCCCTGTTTCAGCCATCGAAGACGGTTCTTTCCCTTTTGC
131 TCTTTCCCTTTTGCTGATGATGACTCCCCTGTTTCAGCCATCGAAGACAGTTCTTTCCCTTTTGC
** *
37272739 TGCTGGTGACTCCCCTTTTGCTGCTGGTGA
196 TGAAGATGACTCCCCTTTTGCTGCTGGTGA
* * * *
37272769 CTCCCCTGTTTCAGCCATCGAAGACGGTTCTTTCCCTTTTGCTGCTGGTGACTCCCCTGTTTCAT
1 CTCCCCTGTTTCAGCCATCGAAGACGGTTCTTTCCCTTTTACTGATGATGACTCCCCTGTTTCAG
*
37272834 CCATCGAAGATGGTTCTTTCCCTTTTGCTGCTGGTGACTGCCCTGTTTCAGCCATCGAAGATGGT
66 CCATCGAAGATGGTTCTTTCCCTTTTGCTGCTGGTGACTCCCCTGTTTCAGCCATCGAAGATGGT
* *
37272899 TCTTTCCCTTTTGCTGATGATGACTCCCCTGTTTCAGCCATTGAAGATAGTTCTTTCCCTTTTGC
131 TCTTTCCCTTTTGCTGATGATGACTCCCCTGTTTCAGCCATCGAAGACAGTTCTTTCCCTTTTGC
37272964 TGAAGATGACTCCCCT
196 TGAAGATGACTCCCCT
37272980 GTTTCAGCCA
Statistics
Matches: 191, Mismatches: 20, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
225 191 1.00
ACGTcount: A:0.13, C:0.28, G:0.21, T:0.38
Consensus pattern (225 bp):
CTCCCCTGTTTCAGCCATCGAAGACGGTTCTTTCCCTTTTACTGATGATGACTCCCCTGTTTCAG
CCATCGAAGATGGTTCTTTCCCTTTTGCTGCTGGTGACTCCCCTGTTTCAGCCATCGAAGATGGT
TCTTTCCCTTTTGCTGATGATGACTCCCCTGTTTCAGCCATCGAAGACAGTTCTTTCCCTTTTGC
TGAAGATGACTCCCCTTTTGCTGCTGGTGA
Found at i:37272967 original size:24 final size:24
Alignment explanation
Indices: 37272940--37273019 Score: 67
Period size: 24 Copynumber: 3.2 Consensus size: 24
37272930 TTTCAGCCAT
37272940 TGAAGATAGTTCTTTCCCTTTTGC
1 TGAAGATAGTTCTTTCCCTTTTGC
* *
37272964 TGAAGAT-G-AC-TCCCCTGTTTCAGCC
1 TGAAGATAGTTCTTTCCCT-TTT--G-C
37272989 ATTGAAGATAGTTCTTTCCCTTTTGC
1 --TGAAGATAGTTCTTTCCCTTTTGC
37273015 TGAAG
1 TGAAG
37273020 GTGACTCCCC
Statistics
Matches: 43, Mismatches: 4, Indels: 18
0.66 0.06 0.28
Matches are distributed among these distances:
21 5 0.12
22 4 0.09
23 1 0.02
24 13 0.30
25 1 0.02
26 1 0.02
27 8 0.19
28 1 0.02
29 4 0.09
30 5 0.12
ACGTcount: A:0.20, C:0.23, G:0.19, T:0.39
Consensus pattern (24 bp):
TGAAGATAGTTCTTTCCCTTTTGC
Found at i:37272994 original size:27 final size:27
Alignment explanation
Indices: 37272917--37272997 Score: 75
Period size: 27 Copynumber: 3.1 Consensus size: 27
37272907 TTTTGCTGAT
37272917 GATGACTCCCCTGTTTCAGCCATTGAA
1 GATGACTCCCCTGTTTCAGCCATTGAA
* *
37272944 GATAGTTCTTTCCCT-TTT--G-C--TGAA
1 GAT-G-AC-TCCCCTGTTTCAGCCATTGAA
37272968 GATGACTCCCCTGTTTCAGCCATTGAA
1 GATGACTCCCCTGTTTCAGCCATTGAA
37272995 GAT
1 GAT
37272998 AGTTCTTTCC
Statistics
Matches: 41, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
21 5 0.12
22 4 0.10
23 1 0.02
24 8 0.20
25 1 0.02
26 1 0.02
27 11 0.27
28 1 0.02
29 4 0.10
30 5 0.12
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.35
Consensus pattern (27 bp):
GATGACTCCCCTGTTTCAGCCATTGAA
Found at i:37276037 original size:29 final size:29
Alignment explanation
Indices: 37276005--37276074 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 29
37275995 CTGCTGGTGA
37276005 CTTCCCTTTTTCAGCCATTGAAGATGGTT
1 CTTCCCTTTTTCAGCCATTGAAGATGGTT
* * *
37276034 CTTCCCCTGTTTCATCCATTGAAGATTGTT
1 CTT-CCCTTTTTCAGCCATTGAAGATGGTT
37276064 CTTTCCCTTTT
1 C-TTCCCTTTT
37276075 GCTGATGATG
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
29 3 0.09
30 30 0.86
31 2 0.06
ACGTcount: A:0.14, C:0.27, G:0.13, T:0.46
Consensus pattern (29 bp):
CTTCCCTTTTTCAGCCATTGAAGATGGTT
Found at i:37276045 original size:81 final size:81
Alignment explanation
Indices: 37275955--37276123 Score: 257
Period size: 81 Copynumber: 2.1 Consensus size: 81
37275945 TGATGATGAA
* * * *
37275955 TCCCCTGTTTCAGCCATTGAAGATTGTTCTTTCCCCTTTGCTGCTGGTGACTTCCCTTTTTCAGC
1 TCCCCTGTTTCAGCCATTGAAGATTGTTCTTTCCCCTTTGCTGATGATGACTCCCCTGTTTCAGC
37276020 CATTGAAGATGGTTCT
66 CATTGAAGATGGTTCT
* * *
37276036 TCCCCTGTTTCATCCATTGAAGATTGTTCTTTCCCTTTTGCTGATGATGACTCCCCTGTTTCAGT
1 TCCCCTGTTTCAGCCATTGAAGATTGTTCTTTCCCCTTTGCTGATGATGACTCCCCTGTTTCAGC
*
37276101 CATTGAATATGGTTCT
66 CATTGAAGATGGTTCT
*
37276117 TTCCCTG
1 TCCCCTG
37276124 CCGCTAATGG
Statistics
Matches: 79, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 79 1.00
ACGTcount: A:0.14, C:0.27, G:0.17, T:0.42
Consensus pattern (81 bp):
TCCCCTGTTTCAGCCATTGAAGATTGTTCTTTCCCCTTTGCTGATGATGACTCCCCTGTTTCAGC
CATTGAAGATGGTTCT
Found at i:37276116 original size:51 final size:51
Alignment explanation
Indices: 37276036--37276517 Score: 606
Period size: 51 Copynumber: 9.5 Consensus size: 51
37276026 AGATGGTTCT
* *
37276036 TCCCCTGTTTCATCCATTGAAGATTGTTCTTTCCCTTTTGCTGATGATGAC
1 TCCCCTGTTTCAGCCATTGAAGATGGTTCTTTCCCTTTTGCTGATGATGAC
* * *** * *
37276087 TCCCCTGTTTCAGTCATTGAATATGGTTCTTTCCCTGCCGCTAATGGTGAC
1 TCCCCTGTTTCAGCCATTGAAGATGGTTCTTTCCCTTTTGCTGATGATGAC
* * * *
37276138 TCCCCTGTTTCAGCCATTGAAGATGGTTCTTTCTCTTTTGCTAATAATGGC
1 TCCCCTGTTTCAGCCATTGAAGATGGTTCTTTCCCTTTTGCTGATGATGAC
* * *
37276189 TCCCCTGTTTCAGCCATTGAAGATGGTTCTTTCTCTTTTGCTAATAATGAC
1 TCCCCTGTTTCAGCCATTGAAGATGGTTCTTTCCCTTTTGCTGATGATGAC
* * * *** * * *
37276240 TCCTCTGTTTCAGTCATTGAAGATGGTTCTTCCCCTGCCGCTGCTGGTAAC
1 TCCCCTGTTTCAGCCATTGAAGATGGTTCTTTCCCTTTTGCTGATGATGAC
*
37276291 TCCCCTGTTTCAGCCATTGAAGATGGTTCTTTCCCTTTTTCTGATGATGAC
1 TCCCCTGTTTCAGCCATTGAAGATGGTTCTTTCCCTTTTGCTGATGATGAC
* * * *** * *
37276342 TCCTCTGTTCCAGTCATTGAAGATGGTTCTTTCCCTGCCGCTGCTGGTGAC
1 TCCCCTGTTTCAGCCATTGAAGATGGTTCTTTCCCTTTTGCTGATGATGAC
* *
37276393 TCCCCTGTTTCAGCCATTGAAGATGGTTCTTTCTCTTTTGCTAAT-ACTGAC
1 TCCCCTGTTTCAGCCATTGAAGATGGTTCTTTCCCTTTTGCTGATGA-TGAC
*
37276444 TCCCCTGTTTCAGCCATTGAAGATGGTTCTTTCGCTTTTGCTGATGATGAC
1 TCCCCTGTTTCAGCCATTGAAGATGGTTCTTTCCCTTTTGCTGATGATGAC
*
37276495 TCCCCTGTTTCGGCCATTGAAGA
1 TCCCCTGTTTCAGCCATTGAAGA
37276518 AAGAAAAATA
Statistics
Matches: 366, Mismatches: 63, Indels: 4
0.85 0.15 0.01
Matches are distributed among these distances:
51 365 1.00
52 1 0.00
ACGTcount: A:0.16, C:0.26, G:0.19, T:0.39
Consensus pattern (51 bp):
TCCCCTGTTTCAGCCATTGAAGATGGTTCTTTCCCTTTTGCTGATGATGAC
Found at i:37276248 original size:153 final size:153
Alignment explanation
Indices: 37276036--37276517 Score: 667
Period size: 153 Copynumber: 3.2 Consensus size: 153
37276026 AGATGGTTCT
* *
37276036 TCCCCTGTTTCATCCATTGAAGATTGTTCTTTCCCTTTTGCTGATGATGACTCCCCTGTTTCAGT
1 TCCCCTGTTTCAGCCATTGAAGATGGTTCTTTCCCTTTTGCTGATGATGACTCCCCTGTTTCAGT
*
37276101 CATTGAATATGGTTCTTTCCCTGCCGCTAATGGTGACTCCCCTGTTTCAGCCATTGAAGATGGTT
66 CATTGAAGATGGTTCTTTCCCTGCCGCTAATGGTGACTCCCCTGTTTCAGCCATTGAAGATGGTT
* * * *
37276166 CTTTCTCTTTTGCTAATAATGGC
131 CTTTCCCTTTTGCTGATGATGAC
* * * *
37276189 TCCCCTGTTTCAGCCATTGAAGATGGTTCTTTCTCTTTTGCTAATAATGACTCCTCTGTTTCAGT
1 TCCCCTGTTTCAGCCATTGAAGATGGTTCTTTCCCTTTTGCTGATGATGACTCCCCTGTTTCAGT
* ** *
37276254 CATTGAAGATGGTTCTTCCCCTGCCGCTGCTGGTAACTCCCCTGTTTCAGCCATTGAAGATGGTT
66 CATTGAAGATGGTTCTTTCCCTGCCGCTAATGGTGACTCCCCTGTTTCAGCCATTGAAGATGGTT
*
37276319 CTTTCCCTTTTTCTGATGATGAC
131 CTTTCCCTTTTGCTGATGATGAC
* * * *** * * *
37276342 TCCTCTGTTCCAGTCATTGAAGATGGTTCTTTCCCTGCCGCTGCTGGTGACTCCCCTGTTTCAGC
1 TCCCCTGTTTCAGCCATTGAAGATGGTTCTTTCCCTTTTGCTGATGATGACTCCCCTGTTTCAGT
* *** **
37276407 CATTGAAGATGGTTCTTTCTCTTTTGCTAATACTGACTCCCCTGTTTCAGCCATTGAAGATGGTT
66 CATTGAAGATGGTTCTTTCCCTGCCGCTAATGGTGACTCCCCTGTTTCAGCCATTGAAGATGGTT
*
37276472 CTTTCGCTTTTGCTGATGATGAC
131 CTTTCCCTTTTGCTGATGATGAC
*
37276495 TCCCCTGTTTCGGCCATTGAAGA
1 TCCCCTGTTTCAGCCATTGAAGA
37276518 AAGAAAAATA
Statistics
Matches: 284, Mismatches: 45, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
153 284 1.00
ACGTcount: A:0.16, C:0.26, G:0.19, T:0.39
Consensus pattern (153 bp):
TCCCCTGTTTCAGCCATTGAAGATGGTTCTTTCCCTTTTGCTGATGATGACTCCCCTGTTTCAGT
CATTGAAGATGGTTCTTTCCCTGCCGCTAATGGTGACTCCCCTGTTTCAGCCATTGAAGATGGTT
CTTTCCCTTTTGCTGATGATGAC
Found at i:37276928 original size:1 final size:1
Alignment explanation
Indices: 37276922--37276949 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
37276912 AGAACTCCCT
37276922 CCCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCC
37276950 AAAAAAAAGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:37278409 original size:50 final size:49
Alignment explanation
Indices: 37278354--37278455 Score: 159
Period size: 50 Copynumber: 2.1 Consensus size: 49
37278344 AATTCATTAT
* *
37278354 AACGTTTGAATACTATATTTTCTTCACCGATTTCATTAAATCCACCAAGA
1 AACGTTTGAAGACGATATTTTCTTCACCGATTTCATTAAATCCACCAA-A
* *
37278404 AACGTTTGAAGACGATATTTTCTTCACCGATTTCATTAATTCCATCAAA
1 AACGTTTGAAGACGATATTTTCTTCACCGATTTCATTAAATCCACCAAA
37278453 AAC
1 AAC
37278456 TCAAGTCCTT
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
49 4 0.08
50 44 0.92
ACGTcount: A:0.34, C:0.22, G:0.09, T:0.35
Consensus pattern (49 bp):
AACGTTTGAAGACGATATTTTCTTCACCGATTTCATTAAATCCACCAAA
Found at i:37288718 original size:3 final size:3
Alignment explanation
Indices: 37288710--37288762 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
37288700 TATATTACTC
37288710 TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT
1 TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT
37288758 TGT TG
1 TGT TG
37288763 ATTTTAACTC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.00, C:0.00, G:0.34, T:0.66
Consensus pattern (3 bp):
TGT
Found at i:37299393 original size:16 final size:17
Alignment explanation
Indices: 37299372--37299403 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
37299362 TATTAAAAAA
37299372 GTATTTTTAT-ATTAAC
1 GTATTTTTATAATTAAC
37299388 GTATTTTTATAATTAA
1 GTATTTTTATAATTAA
37299404 ATTTAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.56
Consensus pattern (17 bp):
GTATTTTTATAATTAAC
Found at i:37300376 original size:2 final size:2
Alignment explanation
Indices: 37300369--37300424 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
37300359 ATTAACCATT
37300369 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
37300411 TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA
37300425 AGTAAAAGAA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:37302702 original size:57 final size:54
Alignment explanation
Indices: 37302600--37302765 Score: 176
Period size: 57 Copynumber: 3.0 Consensus size: 54
37302590 TGACCATTGA
* *
37302600 TGCCATTTTTTCCGGTATCCTCAAATCC--AACAATCGAACTTGATTTTCCCTTTCT
1 TGCCA-TTTTCCCGG-ATCCTCAAATCCTTAACAACCGAACTTGATTTTCCCTTT-T
* *
37302655 TGCCATTTTCCCCGGATCCTCAAATCCATTAACAACCGAGCTTGATTTCCCCTTTT
1 TGCCATTTT-CCCGGATCCTCAAATCC-TTAACAACCGAACTTGATTTTCCCTTTT
* * *
37302711 TGACCCATTTTCCTGGATCCTCCAACCCGTTAACAACCGAACTTGA-TTTCCCTTT
1 TG--CCATTTTCCCGGATCCTCAAATCC-TTAACAACCGAACTTGATTTTCCCTTT
37302766 GTTAGTACTC
Statistics
Matches: 95, Mismatches: 10, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
54 16 0.17
55 9 0.09
56 11 0.12
57 52 0.55
58 7 0.07
ACGTcount: A:0.22, C:0.33, G:0.10, T:0.36
Consensus pattern (54 bp):
TGCCATTTTCCCGGATCCTCAAATCCTTAACAACCGAACTTGATTTTCCCTTTT
Found at i:37304113 original size:161 final size:161
Alignment explanation
Indices: 37303848--37304173 Score: 652
Period size: 161 Copynumber: 2.0 Consensus size: 161
37303838 ACCGTTGTTT
37303848 TCTAACGTTTTGATAGTTAACAAAAAACGTTTTTGTTATTTTTTATTTTTTTCTTGAAACAAAAA
1 TCTAACGTTTTGATAGTTAACAAAAAACGTTTTTGTTATTTTTTATTTTTTTCTTGAAACAAAAA
37303913 TTAATTAGAATTATTATTAATTCAAGGAAATGAGAGTTTTGTATAAGGTTAATTTCTTGTTTTGG
66 TTAATTAGAATTATTATTAATTCAAGGAAATGAGAGTTTTGTATAAGGTTAATTTCTTGTTTTGG
37303978 TCCTTATACTATGTTAAACTTTAAGATTTAA
131 TCCTTATACTATGTTAAACTTTAAGATTTAA
37304009 TCTAACGTTTTGATAGTTAACAAAAAACGTTTTTGTTATTTTTTATTTTTTTCTTGAAACAAAAA
1 TCTAACGTTTTGATAGTTAACAAAAAACGTTTTTGTTATTTTTTATTTTTTTCTTGAAACAAAAA
37304074 TTAATTAGAATTATTATTAATTCAAGGAAATGAGAGTTTTGTATAAGGTTAATTTCTTGTTTTGG
66 TTAATTAGAATTATTATTAATTCAAGGAAATGAGAGTTTTGTATAAGGTTAATTTCTTGTTTTGG
37304139 TCCTTATACTATGTTAAACTTTAAGATTTAA
131 TCCTTATACTATGTTAAACTTTAAGATTTAA
37304170 TCTA
1 TCTA
37304174 GTAAAAGTAC
Statistics
Matches: 165, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
161 165 1.00
ACGTcount: A:0.33, C:0.08, G:0.12, T:0.47
Consensus pattern (161 bp):
TCTAACGTTTTGATAGTTAACAAAAAACGTTTTTGTTATTTTTTATTTTTTTCTTGAAACAAAAA
TTAATTAGAATTATTATTAATTCAAGGAAATGAGAGTTTTGTATAAGGTTAATTTCTTGTTTTGG
TCCTTATACTATGTTAAACTTTAAGATTTAA
Found at i:37304556 original size:16 final size:17
Alignment explanation
Indices: 37304535--37304567 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
37304525 AATTTGGCCG
37304535 ATTAAAA-ATATAAAAA
1 ATTAAAATATATAAAAA
*
37304551 ATTAAAATATCTAAAAA
1 ATTAAAATATATAAAAA
37304568 TTTGGAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (17 bp):
ATTAAAATATATAAAAA
Found at i:37308666 original size:18 final size:21
Alignment explanation
Indices: 37308637--37308680 Score: 67
Period size: 18 Copynumber: 2.2 Consensus size: 21
37308627 CACTTCATCA
37308637 TTTAATTAATTTTTA-A-TTT
1 TTTAATTAATTTTTATACTTT
37308656 TTTAA-TAATTTTTATACTTT
1 TTTAATTAATTTTTATACTTT
37308676 TTTAA
1 TTTAA
37308681 CTCTTTTGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 9 0.39
19 6 0.26
20 8 0.35
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (21 bp):
TTTAATTAATTTTTATACTTT
Found at i:37320726 original size:3 final size:3
Alignment explanation
Indices: 37320720--37320756 Score: 56
Period size: 3 Copynumber: 12.0 Consensus size: 3
37320710 AAACGTGAAT
*
37320720 AGC AGC AGC AAC AGC AGGC AGC AGC AGC AGC AGC AGC
1 AGC AGC AGC AGC AGC A-GC AGC AGC AGC AGC AGC AGC
37320757 TAAAAGAAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.35, C:0.32, G:0.32, T:0.00
Consensus pattern (3 bp):
AGC
Found at i:37322986 original size:3 final size:3
Alignment explanation
Indices: 37322978--37323002 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
37322968 TCATTGGAGA
37322978 TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT T
37323003 TGCTTGTGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:37331063 original size:27 final size:27
Alignment explanation
Indices: 37331028--37331079 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
37331018 GCTATACTAG
*
37331028 TTTTTTC-AAATTGGTACTTAAACTTT
1 TTTTTTCAAAATTGGTACCTAAACTTT
37331054 TTTTTGTCAAAATTGGTACCTAAACT
1 TTTTT-TCAAAATTGGTACCTAAACT
37331080 ATTAAACCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 5 0.22
27 2 0.09
28 16 0.70
ACGTcount: A:0.29, C:0.13, G:0.10, T:0.48
Consensus pattern (27 bp):
TTTTTTCAAAATTGGTACCTAAACTTT
Found at i:37334675 original size:3 final size:3
Alignment explanation
Indices: 37334667--37334694 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
37334657 AGGATAATTA
37334667 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
37334695 CCATTATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:37338282 original size:189 final size:189
Alignment explanation
Indices: 37337961--37338333 Score: 557
Period size: 189 Copynumber: 2.0 Consensus size: 189
37337951 TGTATGTATT
* * **
37337961 TAGTTATGATAAGCACTGAAATTTCAAGGAATTTATTACTATTGCAGTGAATAGATAGCAATGTT
1 TAGTTATAATAACCACTGAAATTTCAAGGAAAGTATTACTATTGCAGTGAATAGATAGCAATGTT
* * * * * * *
37338026 TAGCTCTTATATGCCTTCAATTGAATACATTCCAGCAAAGACTTGTTAAATTGTCTAATTGCACT
66 TAGCTATTACATGCCTTCAATTCAATACATTCAAGCAAAGACTAGTTAAATGGTCCAATTGCACT
* *
37338091 TTTAGCAACTCCTAAACCTTAATAATTCAATTTTATCCCTTTTATCTCCTTTATATATA
131 TTTAGCAACTCCTAAACCTTAATAATTCAATTTAATCCCTTTTAGCTCCTTTATATATA
* ** * *
37338150 TAGTTATAATAACCCCTGAAATTTCTTGGAAAGTATTACTATTGCAGTGAATGGATAGCCATGTT
1 TAGTTATAATAACCACTGAAATTTCAAGGAAAGTATTACTATTGCAGTGAATAGATAGCAATGTT
* *
37338215 TAGCTATTACATGCCTTCAATTCAATACATTCAAGCAAAGACTAGTTAGATGGTCCAATTTCACT
66 TAGCTATTACATGCCTTCAATTCAATACATTCAAGCAAAGACTAGTTAAATGGTCCAATTGCACT
*
37338280 TTTAGCCACTCCTAAACCTTAATAATTCAATTTAATCCCTTTTAGCTCCTTTAT
131 TTTAGCAACTCCTAAACCTTAATAATTCAATTTAATCCCTTTTAGCTCCTTTAT
37338334 TAAATGGAAA
Statistics
Matches: 163, Mismatches: 21, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
189 163 1.00
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.38
Consensus pattern (189 bp):
TAGTTATAATAACCACTGAAATTTCAAGGAAAGTATTACTATTGCAGTGAATAGATAGCAATGTT
TAGCTATTACATGCCTTCAATTCAATACATTCAAGCAAAGACTAGTTAAATGGTCCAATTGCACT
TTTAGCAACTCCTAAACCTTAATAATTCAATTTAATCCCTTTTAGCTCCTTTATATATA
Found at i:37349201 original size:2 final size:2
Alignment explanation
Indices: 37349194--37349223 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
37349184 GGTTTTGTGT
37349194 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
37349224 ATTTTGGGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:37362674 original size:22 final size:22
Alignment explanation
Indices: 37362646--37362693 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
37362636 GTCAAATACT
37362646 CCAATTTTTTCTATGGAAAAGC
1 CCAATTTTTTCTATGGAAAAGC
37362668 CCAATTTTTTCTATGGAAAAGC
1 CCAATTTTTTCTATGGAAAAGC
37362690 CCAA
1 CCAA
37362694 AATATTCAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.33
Consensus pattern (22 bp):
CCAATTTTTTCTATGGAAAAGC
Found at i:37364702 original size:6 final size:6
Alignment explanation
Indices: 37364687--37364739 Score: 52
Period size: 6 Copynumber: 8.8 Consensus size: 6
37364677 CCACCGCCGG
* * * * **
37364687 CTCCAC CTCCAG CTCCAC CTCCAC CTCCAA ATCCAC CACCGG CTCCAC
1 CTCCAC CTCCAC CTCCAC CTCCAC CTCCAC CTCCAC CTCCAC CTCCAC
37364735 CTCCA
1 CTCCA
37364740 GCACCACCGC
Statistics
Matches: 35, Mismatches: 12, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.21, C:0.58, G:0.06, T:0.15
Consensus pattern (6 bp):
CTCCAC
Found at i:37364746 original size:24 final size:24
Alignment explanation
Indices: 37364665--37364747 Score: 72
Period size: 24 Copynumber: 3.7 Consensus size: 24
37364655 TCCGCCAAAA
* *
37364665 CCACCTCCTGCACCACCGCCGGCT
1 CCACCTCCAGCACCACCACCGGCT
*
37364689 CCACCTCCAG---CTCCA-C--CT
1 CCACCTCCAGCACCACCACCGGCT
*
37364707 CCACCTCCA-AATCCACCACCGGCT
1 CCACCTCCAGCA-CCACCACCGGCT
37364731 CCACCTCCAGCACCACC
1 CCACCTCCAGCACCACC
37364748 GCCGAATCCC
Statistics
Matches: 46, Mismatches: 5, Indels: 16
0.69 0.07 0.24
Matches are distributed among these distances:
18 11 0.24
20 1 0.02
21 7 0.15
22 1 0.02
24 25 0.54
25 1 0.02
ACGTcount: A:0.19, C:0.59, G:0.10, T:0.12
Consensus pattern (24 bp):
CCACCTCCAGCACCACCACCGGCT
Found at i:37364765 original size:42 final size:41
Alignment explanation
Indices: 37364665--37364781 Score: 112
Period size: 42 Copynumber: 2.8 Consensus size: 41
37364655 TCCGCCAAAA
* * * *
37364665 CCACCTCCTGCACCACCGCCGGCTCCACCTCCAGCTCCACCT
1 CCACCTCC-ACACCACCACCGGCTCCACCTCCAGCACCACCG
*
37364707 CCACCTCCAAATCCACCACCGGCTCCACCTCCAGCACCACCG
1 CCACCTCCACA-CCACCACCGGCTCCACCTCCAGCACCACCG
* *
37364749 CCGAATCC-CC-CACCACCACCTGCACCACCTCCA
1 CC--A-CCTCCACACCACCACCGGCTCCACCTCCA
37364782 AATCCTCCAC
Statistics
Matches: 63, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
41 1 0.02
42 56 0.89
43 1 0.02
44 3 0.05
45 2 0.03
ACGTcount: A:0.21, C:0.59, G:0.09, T:0.11
Consensus pattern (41 bp):
CCACCTCCACACCACCACCGGCTCCACCTCCAGCACCACCG
Found at i:37364815 original size:24 final size:23
Alignment explanation
Indices: 37364759--37364816 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 23
37364749 CCGAATCCCC
*
37364759 CACCACCACCTGCACCACCTCCA
1 CACCACCACCAGCACCACCTCCA
* *
37364782 AATCCTCCACCAGCACCACCTCCA
1 CA-CCACCACCAGCACCACCTCCA
*
37364806 GCACCGCCACC
1 -CACCACCACC
37364817 GAATCCACCA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
23 1 0.04
24 26 0.93
25 1 0.04
ACGTcount: A:0.26, C:0.59, G:0.07, T:0.09
Consensus pattern (23 bp):
CACCACCACCAGCACCACCTCCA
Found at i:37364824 original size:33 final size:33
Alignment explanation
Indices: 37364722--37364826 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 33
37364712 TCCAAATCCA
* * *
37364722 CCACCGGCTCCACCTCCAGCACCACCGCCGAAT
1 CCACCAGCACCACCTCCAGCACCACCACCGAAT
* * * *
37364755 CC-CC--CACCACCACCTGCACCACCTCCAAATCCT
1 CCACCAGCACCACCTCCAGCACCACCACCGAA---T
*
37364788 CCACCAGCACCACCTCCAGCACCGCCACCGAAT
1 CCACCAGCACCACCTCCAGCACCACCACCGAAT
37364821 CCACCA
1 CCACCA
37364827 CCTTTACCAA
Statistics
Matches: 56, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
30 20 0.36
32 2 0.04
33 12 0.21
34 2 0.04
36 20 0.36
ACGTcount: A:0.25, C:0.57, G:0.10, T:0.09
Consensus pattern (33 bp):
CCACCAGCACCACCTCCAGCACCACCACCGAAT
Found at i:37364890 original size:30 final size:30
Alignment explanation
Indices: 37364851--37364972 Score: 114
Period size: 30 Copynumber: 4.3 Consensus size: 30
37364841 ACCGCCGCCG
*
37364851 CCAATGCCACCACCCTTTCCAATTCCACCT
1 CCAAGGCCACCACCCTTTCCAATTCCACCT
* *
37364881 CCAAGGCCACC-TCCTTTGCCAATACCACCT
1 CCAAGGCCACCACCCTTT-CCAATTCCACCT
* * *
37364911 CCAAGTCCACCACCATGTCC---TCCA---
1 CCAAGGCCACCACCCTTTCCAATTCCACCT
*
37364935 CCAAGTCCACCACCCTTTCCAATTCCACCT
1 CCAAGGCCACCACCCTTTCCAATTCCACCT
*
37364965 CCGAGGCC
1 CCAAGGCC
37364973 TCCTCCTTTG
Statistics
Matches: 72, Mismatches: 12, Indels: 16
0.72 0.12 0.16
Matches are distributed among these distances:
24 18 0.25
27 7 0.10
29 5 0.07
30 39 0.54
31 3 0.04
ACGTcount: A:0.23, C:0.49, G:0.08, T:0.20
Consensus pattern (30 bp):
CCAAGGCCACCACCCTTTCCAATTCCACCT
Found at i:37364920 original size:12 final size:12
Alignment explanation
Indices: 37364905--37364948 Score: 61
Period size: 12 Copynumber: 3.7 Consensus size: 12
37364895 TTTGCCAATA
*
37364905 CCACCTCCAAGT
1 CCACCACCAAGT
*
37364917 CCACCACCATGT
1 CCACCACCAAGT
*
37364929 CCTCCACCAAGT
1 CCACCACCAAGT
37364941 CCACCACC
1 CCACCACC
37364949 CTTTCCAATT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.25, C:0.55, G:0.07, T:0.14
Consensus pattern (12 bp):
CCACCACCAAGT
Found at i:37365038 original size:30 final size:30
Alignment explanation
Indices: 37365007--37365334 Score: 183
Period size: 30 Copynumber: 11.1 Consensus size: 30
37364997 ATGTCCTCCT
*
37365007 CCAAGTCCACCACCCTTTCCAATCCCACCT
1 CCAAGTCCACCACCCTTTCCAATCCCACCA
* * *
37365037 CCAAGTCCACCTCCTTTTCCAATCCCACCT
1 CCAAGTCCACCACCCTTTCCAATCCCACCA
* * * *
37365067 CCAAGTCCACCTCCTTTTCCTATTCCACCA
1 CCAAGTCCACCACCCTTTCCAATCCCACCA
* * * *** *
37365097 CCATGTCCTCCTCCAAGTCC-A--CCACCCTTT
1 CCAAGTCCACCACCCTTTCCAATCCCA-CC--A
* * * * *
37365127 CCTATTCCACCACCATGTCC--T----CCT
1 CCAAGTCCACCACCCTTTCCAATCCCACCA
* *
37365151 CCAAGTCCACCTCCCTTGCCAATCCCACCA
1 CCAAGTCCACCACCCTTTCCAATCCCACCA
* * * *
37365181 CCAAGGCCTCCACCTTTTCCAATCCCACCG
1 CCAAGTCCACCACCCTTTCCAATCCCACCA
* *
37365211 CCAAGGCCTCCACCCTTTCCAATCCCACCA
1 CCAAGTCCACCACCCTTTCCAATCCCACCA
* * * * *
37365241 CCAAGACCCCCACCATTGCCAATGCCACCA
1 CCAAGTCCACCACCCTTTCCAATCCCACCA
* * * *
37365271 CCAAGGCCCCCTCCCTTTCCTATCCCACCA
1 CCAAGTCCACCACCCTTTCCAATCCCACCA
* *
37365301 CCAAGCCCTCCA-CCTTTACCAA-CTCCACCA
1 CCAAGTCCACCACCCTTT-CCAATC-CCACCA
37365331 CCAA
1 CCAA
37365335 ACCCTCCACC
Statistics
Matches: 239, Mismatches: 47, Indels: 24
0.77 0.15 0.08
Matches are distributed among these distances:
24 15 0.06
26 3 0.01
27 3 0.01
28 2 0.01
29 7 0.03
30 209 0.87
ACGTcount: A:0.22, C:0.52, G:0.06, T:0.21
Consensus pattern (30 bp):
CCAAGTCCACCACCCTTTCCAATCCCACCA
Found at i:37365050 original size:72 final size:72
Alignment explanation
Indices: 37364917--37365209 Score: 270
Period size: 72 Copynumber: 4.1 Consensus size: 72
37364907 ACCTCCAAGT
* * * *
37364917 CCACCACCATGTCCTCCACCAAGTCCACCACCCTTTCCAATTCCACCTCCGAGGCCTCCTCCTTT
1 CCACCACCATGTCCTCCTCCAAGTCCACCACCCTTTCCAATCCCACCTCCAAGGCCACCTCCTTT
*
37364982 GCCAATA
66 TCCAATA
* *
37364989 CCGCCACCATGTCCTCCTCCAAGTCCACCACCCTTTCCAATCCCACCTCCAAGTCCACCTCCTTT
1 CCACCACCATGTCCTCCTCCAAGTCCACCACCCTTTCCAATCCCACCTCCAAGGCCACCTCCTTT
*
37365054 TCCAATC
66 TCCAATA
* * * *** * * * * *
37365061 CCACCTCCAAGTCCACCTCCTTTTCCTATTCCA-CC--ACC-ATGTCCTCCTCCAAGTCCACCAC
1 CCACCACCATGTCCTCCTCCAAGTCC-A--CCACCCTTTCCAAT-CCCACCTCCAAGGCCACCTC
* * *
37365122 CCTTTCCTATT
62 CTTTTCCAATA
* * * * *
37365133 CCACCACCATGTCCTCCTCCAAGTCCACCTCCCTTGCCAATCCCACCACCAAGGCCTCCACCTTT
1 CCACCACCATGTCCTCCTCCAAGTCCACCACCCTTTCCAATCCCACCTCCAAGGCCACCTCCTTT
*
37365198 TCCAATC
66 TCCAATA
37365205 CCACC
1 CCACC
37365210 GCCAAGGCCT
Statistics
Matches: 175, Mismatches: 38, Indels: 16
0.76 0.17 0.07
Matches are distributed among these distances:
69 2 0.01
70 2 0.01
71 3 0.02
72 160 0.91
73 3 0.02
74 2 0.01
75 3 0.02
ACGTcount: A:0.20, C:0.51, G:0.06, T:0.24
Consensus pattern (72 bp):
CCACCACCATGTCCTCCTCCAAGTCCACCACCCTTTCCAATCCCACCTCCAAGGCCACCTCCTTT
TCCAATA
Found at i:37365057 original size:18 final size:18
Alignment explanation
Indices: 37365036--37365086 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 18
37365026 CAATCCCACC
37365036 TCCAAGTCCACCTCCTTT
1 TCCAAGTCCACCTCCTTT
*
37365054 TCCAA-T-C-CCACC---
1 TCCAAGTCCACCTCCTTT
37365066 TCCAAGTCCACCTCCTTT
1 TCCAAGTCCACCTCCTTT
37365084 TCC
1 TCC
37365087 TATTCCACCA
Statistics
Matches: 25, Mismatches: 2, Indels: 12
0.64 0.05 0.31
Matches are distributed among these distances:
12 5 0.20
13 1 0.04
14 1 0.04
15 8 0.32
16 1 0.04
17 1 0.04
18 8 0.32
ACGTcount: A:0.18, C:0.49, G:0.04, T:0.29
Consensus pattern (18 bp):
TCCAAGTCCACCTCCTTT
Found at i:37365105 original size:24 final size:24
Alignment explanation
Indices: 37365078--37365147 Score: 62
Period size: 24 Copynumber: 3.2 Consensus size: 24
37365068 CAAGTCCACC
37365078 TCCTTTTCCTATTCCACCACCATG
1 TCCTTTTCCTATTCCACCACCATG
** * *
37365102 TCCTCCTCCAAGTCCACCA-C---
1 TCCTTTTCCTATTCCACCACCATG
37365122 -CC-TTTCCTATTCCACCACCATG
1 TCCTTTTCCTATTCCACCACCATG
37365144 TCCT
1 TCCT
37365148 CCTCCAAGTC
Statistics
Matches: 32, Mismatches: 8, Indels: 12
0.62 0.15 0.23
Matches are distributed among these distances:
18 11 0.34
19 3 0.09
23 3 0.09
24 15 0.47
ACGTcount: A:0.17, C:0.47, G:0.04, T:0.31
Consensus pattern (24 bp):
TCCTTTTCCTATTCCACCACCATG
Found at i:37365179 original size:102 final size:102
Alignment explanation
Indices: 37364932--37365159 Score: 276
Period size: 102 Copynumber: 2.2 Consensus size: 102
37364922 ACCATGTCCT
* *** * * * * *
37364932 CCACCAAGTCCACCACCCTTTCCAATTCCACCTCCGAGGCCTCCTCCTTTGCCAATACCGCCACC
1 CCACCAAGTCCACCTCCAAGTCCAATCCCACCTCCAAGTCCACCTCCTTTGCCAATACCACCACC
37364997 ATGTCCTCCTCCAAGTCCACCACCCTTTCCAATCCCA
66 ATGTCCTCCTCCAAGTCCACCACCCTTTCCAATCCCA
* *** * * *
37365034 CCTCCAAGTCCACCTCCTTTTCCAATCCCACCTCCAAGTCCACCTCCTTTTCCTATTCCACCACC
1 CCACCAAGTCCACCTCCAAGTCCAATCCCACCTCCAAGTCCACCTCCTTTGCCAATACCACCACC
* *
37365099 ATGTCCTCCTCCAAGTCCACCACCCTTTCCTATTCCA
66 ATGTCCTCCTCCAAGTCCACCACCCTTTCCAATCCCA
* *
37365136 CCACCATGTCCTCCTCCAAGTCCA
1 CCACCAAGTCCACCTCCAAGTCCA
37365160 CCTCCCTTGC
Statistics
Matches: 107, Mismatches: 19, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
102 107 1.00
ACGTcount: A:0.20, C:0.50, G:0.06, T:0.25
Consensus pattern (102 bp):
CCACCAAGTCCACCTCCAAGTCCAATCCCACCTCCAAGTCCACCTCCTTTGCCAATACCACCACC
ATGTCCTCCTCCAAGTCCACCACCCTTTCCAATCCCA
Found at i:37365191 original size:42 final size:42
Alignment explanation
Indices: 37365064--37365183 Score: 195
Period size: 42 Copynumber: 2.9 Consensus size: 42
37365054 TCCAATCCCA
*
37365064 CCTCCAAGTCCACCTCCTTTTCCTATTCCACCACCATGTCCT
1 CCTCCAAGTCCACCTCCCTTTCCTATTCCACCACCATGTCCT
*
37365106 CCTCCAAGTCCACCACCCTTTCCTATTCCACCACCATGTCCT
1 CCTCCAAGTCCACCTCCCTTTCCTATTCCACCACCATGTCCT
* * *
37365148 CCTCCAAGTCCACCTCCCTTGCCAATCCCACCACCA
1 CCTCCAAGTCCACCTCCCTTTCCTATTCCACCACCA
37365184 AGGCCTCCAC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 72 1.00
ACGTcount: A:0.19, C:0.51, G:0.05, T:0.25
Consensus pattern (42 bp):
CCTCCAAGTCCACCTCCCTTTCCTATTCCACCACCATGTCCT
Found at i:37365260 original size:90 final size:89
Alignment explanation
Indices: 37365164--37365374 Score: 250
Period size: 90 Copynumber: 2.3 Consensus size: 89
37365154 AGTCCACCTC
* * *
37365164 CCTTGCCAATCCCACCACCAAGGCCTCCACCTTTTCCAATCCCACCGCCAAGGCCTCCACCCTTT
1 CCTTGCCAATCCCACCACCAAGGCCTCCACCCTTTCCAATCCCACCACCAAGCCCTCCA-CCTTT
37365229 -CCAA-TCCCACCACCAAGACCC-CCA
65 ACCAACT-CCACCACCAA-ACCCTCCA
* * * *
37365253 CCATTGCCAATGCCACCACCAAGGCCCCCTCCCTTTCCTATCCCACCACCAAGCCCTCCACCTTT
1 CC-TTGCCAATCCCACCACCAAGGCCTCCACCCTTTCCAATCCCACCACCAAGCCCTCCACCTTT
37365318 ACCAACTCCACCACCAAACCCTCCA
65 ACCAACTCCACCACCAAACCCTCCA
* * *
37365343 CC-TGCTCCACCGCCACCACCAAGCCCTCCACC
1 CCTTGC-CAATC-CCACCACCAAGGCCTCCACC
37365375 AGCTCCACCT
Statistics
Matches: 103, Mismatches: 13, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
88 3 0.03
89 13 0.13
90 86 0.83
91 1 0.01
ACGTcount: A:0.23, C:0.55, G:0.07, T:0.15
Consensus pattern (89 bp):
CCTTGCCAATCCCACCACCAAGGCCTCCACCCTTTCCAATCCCACCACCAAGCCCTCCACCTTTA
CCAACTCCACCACCAAACCCTCCA
Found at i:37365340 original size:30 final size:29
Alignment explanation
Indices: 37365164--37365374 Score: 205
Period size: 30 Copynumber: 7.1 Consensus size: 29
37365154 AGTCCACCTC
* *
37365164 CCTTGCCAATCCCACCACCAAGGCCTCCA
1 CCTTTCCAATCCCACCACCAAGCCCTCCA
* *
37365193 CCTTTTCCAATCCCACCGCCAAGGCCTCCA
1 CC-TTTCCAATCCCACCACCAAGCCCTCCA
37365223 CCCTTTCCAATCCCACCACCAAGACCC-CCA
1 -CCTTTCCAATCCCACCACCAAG-CCCTCCA
* * *
37365253 CCATTGCCAATGCCACCACCAAGGCCC-CCTC
1 CC-TTTCCAATCCCACCACCAA-GCCCTCC-A
*
37365284 CCTTTCCTATCCCACCACCAAGCCCTCCA
1 CCTTTCCAATCCCACCACCAAGCCCTCCA
*
37365313 CCTTTACCAA-CTCCACCACCAAACCCTCCA
1 CCTTT-CCAATC-CCACCACCAAGCCCTCCA
* *
37365343 CCTGCTCC-ACCGCCACCACCAAGCCCTCCA
1 CCT-TTCCAATC-CCACCACCAAGCCCTCCA
37365373 CC
1 CC
37365375 AGCTCCACCT
Statistics
Matches: 155, Mismatches: 16, Indels: 21
0.81 0.08 0.11
Matches are distributed among these distances:
29 15 0.10
30 132 0.85
31 8 0.05
ACGTcount: A:0.23, C:0.55, G:0.07, T:0.15
Consensus pattern (29 bp):
CCTTTCCAATCCCACCACCAAGCCCTCCA
Found at i:37365380 original size:30 final size:29
Alignment explanation
Indices: 37365295--37365389 Score: 118
Period size: 30 Copynumber: 3.2 Consensus size: 29
37365285 CTTTCCTATC
** *
37365295 CCACCACCAAGCCCTCCACCTTTACCAACT
1 CCACCACCAAGCCCTCCACCGCT-CCACCT
* *
37365325 CCACCACCAAACCCTCCACCTGCTCCACCG
1 CCACCACCAAGCCCTCCACC-GCTCCACCT
37365355 CCACCACCAAGCCCTCCACCAGCTCCACCT
1 CCACCACCAAGCCCTCCACC-GCTCCACCT
37365385 CCACC
1 CCACC
37365390 TCCACCTCCA
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
30 55 0.98
31 1 0.02
ACGTcount: A:0.24, C:0.59, G:0.05, T:0.12
Consensus pattern (29 bp):
CCACCACCAAGCCCTCCACCGCTCCACCT
Found at i:37365423 original size:36 final size:36
Alignment explanation
Indices: 37365340--37365425 Score: 91
Period size: 36 Copynumber: 2.4 Consensus size: 36
37365330 ACCAAACCCT
* *
37365340 CCACCTGCTCCACCGCCACCACCAAGCCCTCCACCA
1 CCACCAGCTCCACCGCCACCACCAAGCCCACCACCA
* * * * * *
37365376 GCTCCACCTCCACCTCCACCTCCAAGTCCACCACCA
1 CCACCAGCTCCACCGCCACCACCAAGCCCACCACCA
*
37365412 CCAGCAGCTCCACC
1 CCACCAGCTCCACC
37365426 ACCAAAACCA
Statistics
Matches: 38, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.22, C:0.59, G:0.08, T:0.10
Consensus pattern (36 bp):
CCACCAGCTCCACCGCCACCACCAAGCCCACCACCA
Found at i:37365453 original size:18 final size:18
Alignment explanation
Indices: 37365340--37365453 Score: 79
Period size: 18 Copynumber: 6.3 Consensus size: 18
37365330 ACCAAACCCT
* *
37365340 CCACCTGCTCCACCGCCA
1 CCACCAGCTCCACCACCA
*
37365358 CCACCAAGC-CCTCCACCA
1 CCACC-AGCTCCACCACCA
* * * *
37365376 GCTCCACCTCCACCTCCA
1 CCACCAGCTCCACCACCA
*
37365394 CCTCCAAG-TCCACCACCA
1 CCACC-AGCTCCACCACCA
*
37365412 CCAGCAGCTCCACCACCA
1 CCACCAGCTCCACCACCA
** *
37365430 AAACCAGCTCCACCTCCA
1 CCACCAGCTCCACCACCA
*
37365448 GCACCA
1 CCACCA
37365454 CCACCGAAAC
Statistics
Matches: 73, Mismatches: 19, Indels: 8
0.73 0.19 0.08
Matches are distributed among these distances:
17 4 0.05
18 66 0.90
19 3 0.04
ACGTcount: A:0.25, C:0.57, G:0.08, T:0.10
Consensus pattern (18 bp):
CCACCAGCTCCACCACCA
Found at i:37365515 original size:6 final size:6
Alignment explanation
Indices: 37365377--37365500 Score: 50
Period size: 6 Copynumber: 20.2 Consensus size: 6
37365367 CCTCCACCAG
* * * ** *
37365377 CTCCAC CTCCAC CTCCAC CTCCAA GTCCAC CACCAC CAGCAG CTCCAC
1 CTCCAC CTCCAC CTCCAC CTCCAC CTCCAC CTCCAC CTCCAC CTCCAC
* * ** * * * * * ***
37365425 CACCAA AACCAG CTCCAC CTCCAG CACCAC CACCGAAAC CACCAC CAAGAC
1 CTCCAC CTCCAC CTCCAC CTCCAC CTCCAC CTCC---AC CTCCAC CTCCAC
*
37365476 CTCCAC CTCCAC CTCCAC CCCCAC C
1 CTCCAC CTCCAC CTCCAC CTCCAC C
37365501 AAAACCACCC
Statistics
Matches: 89, Mismatches: 26, Indels: 6
0.74 0.21 0.05
Matches are distributed among these distances:
6 83 0.93
9 6 0.07
ACGTcount: A:0.27, C:0.58, G:0.06, T:0.09
Consensus pattern (6 bp):
CTCCAC
Found at i:37366821 original size:2 final size:2
Alignment explanation
Indices: 37366816--37366873 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
37366806 CATAAAAGTA
37366816 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
37366858 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
37366874 CCTTTTAATT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:37367857 original size:24 final size:24
Alignment explanation
Indices: 37367811--37367858 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
37367801 ATTGACTTAT
*
37367811 AAATTAATTGAACCACGAGTTAAA
1 AAATTAATTGAACCACGAATTAAA
*
37367835 AAATTGATTGAACCGAC-AATTAAA
1 AAATTAATTGAACC-ACGAATTAAA
37367859 TCAAATTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 19 0.90
25 2 0.10
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.25
Consensus pattern (24 bp):
AAATTAATTGAACCACGAATTAAA
Found at i:37374675 original size:13 final size:13
Alignment explanation
Indices: 37374657--37374681 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
37374647 CACCCCCCCA
37374657 AAAAAAATCAAAT
1 AAAAAAATCAAAT
37374670 AAAAAAATCAAA
1 AAAAAAATCAAA
37374682 CAAACACCCA
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:0.80, C:0.08, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAAAAATCAAAT
Found at i:37384989 original size:30 final size:31
Alignment explanation
Indices: 37384953--37385017 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 31
37384943 AAACTTTTTT
37384953 AAAAAAA-TTAACTA-TCCAGTGACTTAAATA
1 AAAAAAATTTAA-TAGTCCAGTGACTTAAATA
* *
37384983 AAAAAAATTTAATAGTTCAGTGACTTAAATG
1 AAAAAAATTTAATAGTCCAGTGACTTAAATA
37385014 AAAA
1 AAAA
37385018 CTTTCGAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
30 9 0.29
31 22 0.71
ACGTcount: A:0.54, C:0.09, G:0.09, T:0.28
Consensus pattern (31 bp):
AAAAAAATTTAATAGTCCAGTGACTTAAATA
Found at i:37385318 original size:11 final size:11
Alignment explanation
Indices: 37385304--37385328 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
37385294 CATTAATTTA
37385304 ATTAAAAAATT
1 ATTAAAAAATT
37385315 ATTAAAAAATT
1 ATTAAAAAATT
37385326 ATT
1 ATT
37385329 TTTACAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
ATTAAAAAATT
Found at i:37387815 original size:30 final size:31
Alignment explanation
Indices: 37387781--37387839 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
37387771 CTTAAACAAC
37387781 TCAGTGACTT-AATAAAAACTTTTGAATAGT
1 TCAGTGACTTAAATAAAAACTTTTGAATAGT
*
37387811 TCAGTGATTTAAATAAAAACTTTTGAATA
1 TCAGTGACTTAAATAAAAACTTTTGAATA
37387840 ATTTAGCGAC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 9 0.33
31 18 0.67
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.37
Consensus pattern (31 bp):
TCAGTGACTTAAATAAAAACTTTTGAATAGT
Found at i:37392885 original size:19 final size:21
Alignment explanation
Indices: 37392861--37392905 Score: 60
Period size: 18 Copynumber: 2.3 Consensus size: 21
37392851 TTTTAGAATG
37392861 TAAAAAATATT-TAAAAT-AA
1 TAAAAAATATTATAAAATAAA
*
37392880 T-AAAAATATTATGAAATAAA
1 TAAAAAATATTATAAAATAAA
37392900 TAAAAA
1 TAAAAA
37392906 GAGAAAGTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 9 0.41
19 6 0.27
20 3 0.14
21 4 0.18
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (21 bp):
TAAAAAATATTATAAAATAAA
Found at i:37393310 original size:85 final size:86
Alignment explanation
Indices: 37393216--37393397 Score: 258
Period size: 97 Copynumber: 2.0 Consensus size: 86
37393206 TAGGCTAATG
37393216 CCAAGGTGGACATTAAATATTAAG-ATGATTTAAATTTTAAATTGTTTTTTAAATTTTAAAATAT
1 CCAAGGTGGACATTAAATATTAAGAATGATTTAAATTTTAAATTGTTTTTTAAATTTTAAAATAT
37393280 TATAATTTAATTTTTAAAGTA
66 TATAATTTAATTTTTAAAGTA
37393301 CCAAGGTGGACATTAAATATTAAGCATCCTTAAACTATGATTTAAATTTTAAATTGTTTTTTAAA
1 CCAAGGTGGACATTAAATATTAAG---------A--ATGATTTAAATTTTAAATTGTTTTTTAAA
37393366 TTTTAAAATATTATAATTTAATTTTTAAAGTA
55 TTTTAAAATATTATAATTTAATTTTTAAAGTA
37393398 TTAGTAGCGC
Statistics
Matches: 85, Mismatches: 0, Indels: 12
0.88 0.00 0.12
Matches are distributed among these distances:
85 24 0.28
97 61 0.72
ACGTcount: A:0.41, C:0.05, G:0.09, T:0.45
Consensus pattern (86 bp):
CCAAGGTGGACATTAAATATTAAGAATGATTTAAATTTTAAATTGTTTTTTAAATTTTAAAATAT
TATAATTTAATTTTTAAAGTA
Found at i:37410766 original size:28 final size:29
Alignment explanation
Indices: 37410727--37410794 Score: 86
Period size: 28 Copynumber: 2.4 Consensus size: 29
37410717 ACATTGATCG
*
37410727 ATTATTTAACTAATGGACGGAGAAC-AAT
1 ATTATTTAACTAATAGACGGAGAACAAAT
* **
37410755 ATTATTTAACTAGTAGACGGAGTGCAAAT
1 ATTATTTAACTAATAGACGGAGAACAAAT
37410784 ATT-TTTAACTA
1 ATTATTTAACTA
37410795 CATAAACAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 29 0.83
29 6 0.17
ACGTcount: A:0.40, C:0.10, G:0.16, T:0.34
Consensus pattern (29 bp):
ATTATTTAACTAATAGACGGAGAACAAAT
Found at i:37411758 original size:29 final size:27
Alignment explanation
Indices: 37411711--37411796 Score: 100
Period size: 28 Copynumber: 3.0 Consensus size: 27
37411701 TATTAGAATC
* *
37411711 AAGACTTATATAATTATTTTAATAATAA
1 AAGACTAATTTAATTA-TTTAATAATAA
37411739 AAGACTAATTTAATCTATTTAATAATAA
1 AAGACTAATTTAAT-TATTTAATAATAA
37411767 ACAGACTAATTTAATTTAATTTATATAATA
1 A-AGACTAATTTAA-TT-ATTTA-ATAATA
37411797 TATAAATCTC
Statistics
Matches: 51, Mismatches: 2, Indels: 7
0.85 0.03 0.12
Matches are distributed among these distances:
28 24 0.47
29 15 0.29
30 6 0.12
31 6 0.12
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.42
Consensus pattern (27 bp):
AAGACTAATTTAATTATTTAATAATAA
Found at i:37436318 original size:16 final size:16
Alignment explanation
Indices: 37436293--37436333 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
37436283 AAAAATCAAG
*
37436293 TATAAATTTATCATTA
1 TATAAATTTATAATTA
* *
37436309 TATTAATTTATAATTG
1 TATAAATTTATAATTA
37436325 TATAAATTT
1 TATAAATTT
37436334 TAAAGGAATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (16 bp):
TATAAATTTATAATTA
Found at i:37437886 original size:30 final size:30
Alignment explanation
Indices: 37437836--37437894 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 30
37437826 ACAAATTATT
37437836 AAAATAATAATTTTATATTTTAATTATTTTA
1 AAAATAATAATTTTATATTTTAATT-TTTTA
*
37437867 AAAATATATAA-TTTA-ATTTTGATTTTTT
1 AAAATA-ATAATTTTATATTTTAATTTTTT
37437895 CAATAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 4 0.15
30 8 0.31
31 10 0.38
32 4 0.15
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (30 bp):
AAAATAATAATTTTATATTTTAATTTTTTA
Found at i:37438689 original size:14 final size:14
Alignment explanation
Indices: 37438672--37438702 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
37438662 AACTTGATGG
37438672 ATATAACTTTTTGA
1 ATATAACTTTTTGA
37438686 ATATAACTTTTTGA
1 ATATAACTTTTTGA
37438700 ATA
1 ATA
37438703 GTCCAAATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.48
Consensus pattern (14 bp):
ATATAACTTTTTGA
Found at i:37447905 original size:2 final size:2
Alignment explanation
Indices: 37447898--37447925 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
37447888 AATATTAAAA
37447898 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
37447926 CAATTTGTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:37448141 original size:22 final size:22
Alignment explanation
Indices: 37448098--37448141 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
37448088 TCCACATTAG
*
37448098 TTAAATCAAAATTAAATTAATT
1 TTAAATCAAAATTAAATGAATT
*
37448120 TTAAAT-AAAATTCATATGAATT
1 TTAAATCAAAATT-AAATGAATT
37448142 ATTCAACGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (22 bp):
TTAAATCAAAATTAAATGAATT
Found at i:37462956 original size:1 final size:1
Alignment explanation
Indices: 37462950--37462976 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
37462940 GATTCCATGT
37462950 GGGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGG
37462977 CGAGTTTGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:37468707 original size:1 final size:1
Alignment explanation
Indices: 37468701--37468725 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
37468691 AGATATAGGG
37468701 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
37468726 ATGAATTCGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:37472461 original size:105 final size:105
Alignment explanation
Indices: 37472273--37472797 Score: 583
Period size: 105 Copynumber: 5.0 Consensus size: 105
37472263 GATATCAAGT
* * * *
37472273 TCAATGCCTTGCTTTCTCATCGTGTCGACAATAATTTCAGCTTTAGAAACCA-ACCCTTTCTTGC
1 TCAATGCCTTGCTTTCTCATCGTGCCAACAATAACTTCAGCTTTAGAAACCATTCCC-TTCTTGC
* *
37472337 AAAGCGCATCGATCAATGTATTATACT-TGACAA-AGTTAGGC
65 AAAGCGCATCAATCAATGTACTATA-TGTGACAACA-TTAGGC
* * * * *
37472378 TCGATCCCTTGCTTTCCCATCGTGTCAACAATAACTTCAGCTTTAGAAACCA-TCCCGTCCTTGC
1 TCAATGCCTTGCTTTCTCATCGTGCCAACAATAACTTCAGCTTTAGAAACCATTCCC-TTCTTGC
* * * *
37472442 AAAGCACATCAATTAATGTATTATACGTGACAACATTAGGC
65 AAAGCGCATCAATCAATGTACTATATGTGACAACATTAGGC
* * **
37472483 TCAATGCCTTGCTTTGTCATTC-TGCCAACAATAGCTTTGGCTTTAGAAACCATTCCCTTCTTGC
1 TCAATGCCTTGCTTTCTCA-TCGTGCCAACAATAACTTCAGCTTTAGAAACCATTCCCTTCTTGC
* * * * * *
37472547 AAAGAGCATCGATGAATATACTATATGTGACAACATCAAGC
65 AAAGCGCATCAATCAATGTACTATATGTGACAACATTAGGC
* * * * * *
37472588 TTAATGCCTTGCTTTGTCATTGTGCCAACGATATCTTCAGCTTTAGAAACCATTCACTTCTTGCA
1 TCAATGCCTTGCTTTCTCATCGTGCCAACAATAACTTCAGCTTTAGAAACCATTCCCTTCTTGCA
* *
37472653 AAACGCGTCAATCAATGTACTATATGTGACAACATTAGGC
66 AAGCGCATCAATCAATGTACTATATGTGACAACATTAGGC
* * * * * * *
37472693 TCAATACCTTGCTTTTTCATTGTACCAACGATATCTTCGGCTTTAGAAACCATTCCCTTCTTGCA
1 TCAATGCCTTGCTTTCTCATCGTGCCAACAATAACTTCAGCTTTAGAAACCATTCCCTTCTTGCA
* * *
37472758 AAGTGCATCAATCAATATACTATATGTGACGACATTAGGC
66 AAGCGCATCAATCAATGTACTATATGTGACAACATTAGGC
37472798 CTTGCTTTCT
Statistics
Matches: 359, Mismatches: 56, Indels: 10
0.84 0.13 0.02
Matches are distributed among these distances:
104 1 0.00
105 351 0.98
106 7 0.02
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.32
Consensus pattern (105 bp):
TCAATGCCTTGCTTTCTCATCGTGCCAACAATAACTTCAGCTTTAGAAACCATTCCCTTCTTGCA
AAGCGCATCAATCAATGTACTATATGTGACAACATTAGGC
Found at i:37513593 original size:24 final size:23
Alignment explanation
Indices: 37513561--37513608 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
37513551 TAAATAAAAT
37513561 TTTAATAAATAAAAAATATATAAA
1 TTTAATAAATAAAAAATAT-TAAA
* **
37513585 TTTATTAAATATTAAATATTAAA
1 TTTAATAAATAAAAAATATTAAA
37513608 T
1 T
37513609 AAAAATAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 5 0.24
24 16 0.76
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
TTTAATAAATAAAAAATATTAAA
Found at i:37513608 original size:38 final size:39
Alignment explanation
Indices: 37513564--37513648 Score: 106
Period size: 38 Copynumber: 2.2 Consensus size: 39
37513554 ATAAAATTTT
37513564 AATAAATAAAAAAT-ATATA-A-ATTTATTAAATATTAA
1 AATAAATAAAAAATAATATACATATTTATTAAATATTAA
* *
37513600 ATATTAAAT-AAAAATAATATACATATTTATTTAATTTTAA
1 A-A-TAAATAAAAAATAATATACATATTTATTAAATATTAA
37513640 AATAAATAA
1 AATAAATAA
37513649 TATGAGTGAC
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
36 1 0.02
37 7 0.17
38 15 0.37
39 3 0.07
40 15 0.37
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (39 bp):
AATAAATAAAAAATAATATACATATTTATTAAATATTAA
Found at i:37516235 original size:30 final size:31
Alignment explanation
Indices: 37516186--37516271 Score: 95
Period size: 31 Copynumber: 2.8 Consensus size: 31
37516176 TAATCATATT
* *
37516186 TAAAAAAATTT-AATAAATTA-GTAATTTAAA
1 TAAAAAAATTTAAAT-AATTACATAACTTAAA
37516216 TAAAAAAATTTAAATAATTACATAACTTAAA
1 TAAAAAAATTTAAATAATTACATAACTTAAA
* ** *
37516247 TGAAAATTTTTAAATAATTAAATAA
1 TAAAAAAATTTAAATAATTACATAA
37516272 TTATATTATA
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
30 16 0.33
31 32 0.67
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.36
Consensus pattern (31 bp):
TAAAAAAATTTAAATAATTACATAACTTAAA
Found at i:37516625 original size:5 final size:6
Alignment explanation
Indices: 37516607--37516634 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
37516597 GGTAAGTGTA
37516607 TTATTT TTATTT TTATTT TTATTT TTAT
1 TTATTT TTATTT TTATTT TTATTT TTAT
37516635 ACTAATATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (6 bp):
TTATTT
Found at i:37518726 original size:21 final size:21
Alignment explanation
Indices: 37518667--37518730 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 21
37518657 TACACCAATA
* *
37518667 TATTAAAAAATATATATATTAT
1 TATTAAAAAATTTAAATATT-T
* *
37518689 TA-TATCAATATTT-AATATTT
1 TATTA-AAAAATTTAAATATTT
37518709 TATTAAAAAATTTAAATATTT
1 TATTAAAAAATTTAAATATTT
37518730 T
1 T
37518731 TAACTGAGTT
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
20 9 0.27
21 17 0.52
22 7 0.21
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (21 bp):
TATTAAAAAATTTAAATATTT
Found at i:37529419 original size:80 final size:81
Alignment explanation
Indices: 37529321--37529482 Score: 263
Period size: 80 Copynumber: 2.0 Consensus size: 81
37529311 AGCAAGCTTC
* * *
37529321 AAATTTCGCAAGTACAAGTTAAATCATCGTTTAAAAGACTTCAATATTCAATTTAATAATTTAAT
1 AAATTTCGCAAGTACAAGTCAAATCACCGTTTAAAAGACTTCAATAGTCAATTTAATAATTTAAT
37529386 ATTTTT-CCAAATTTA
66 ATTTTTCCCAAATTTA
* * *
37529401 AAATTTTGCATGTACAAGTCAAATCACCGTTTAAAAGACTTCAATAGTCAATTTAATAATTTAGT
1 AAATTTCGCAAGTACAAGTCAAATCACCGTTTAAAAGACTTCAATAGTCAATTTAATAATTTAAT
37529466 ATTTTTCCCAAATTTA
66 ATTTTTCCCAAATTTA
37529482 A
1 A
37529483 TACATGAGTT
Statistics
Matches: 75, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
80 65 0.87
81 10 0.13
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.39
Consensus pattern (81 bp):
AAATTTCGCAAGTACAAGTCAAATCACCGTTTAAAAGACTTCAATAGTCAATTTAATAATTTAAT
ATTTTTCCCAAATTTA
Found at i:37550415 original size:2 final size:2
Alignment explanation
Indices: 37550408--37550437 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
37550398 AGTTAAAGGA
37550408 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
37550438 GCAAAACATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:37563561 original size:16 final size:15
Alignment explanation
Indices: 37563537--37563590 Score: 51
Period size: 14 Copynumber: 3.6 Consensus size: 15
37563527 ATTTGATTCG
37563537 AATATTATATTATAAA
1 AATA-TATATTATAAA
37563553 AATAGTATA-T-TAAA
1 AATA-TATATTATAAA
37563567 AATATATATTA-AATA
1 AATATATATTATAA-A
*
37563582 ATTATATAT
1 AATATATAT
37563591 GTTATTAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
13 4 0.12
14 11 0.33
15 10 0.30
16 8 0.24
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.43
Consensus pattern (15 bp):
AATATATATTATAAA
Found at i:37563574 original size:13 final size:13
Alignment explanation
Indices: 37563549--37563590 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 13
37563539 TATTATATTA
37563549 TAAAAATAGTATAT
1 TAAAAATA-TATAT
37563563 TAAAAATATATAT
1 TAAAAATATATAT
37563576 TAAATAATTATATAT
1 TAAA-AA-TATATAT
37563591 GTTATTAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
13 9 0.35
14 10 0.38
15 7 0.27
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (13 bp):
TAAAAATATATAT
Found at i:37567015 original size:195 final size:194
Alignment explanation
Indices: 37566694--37567087 Score: 524
Period size: 195 Copynumber: 2.0 Consensus size: 194
37566684 ACAATCAAAT
* *** *
37566694 TTCCACCTGCAACTTTAAACTCCAAATGGGAAATTTTTAAAAAAATCCCTTTACTTCTACTTAAG
1 TTCCACCCGCAACTTTAAACTCCAAATGGGAAAAAATTAAAAAAATCCCTTTACTTCTACTAAAG
*
37566759 AACTAGGAATTCAAAATTCAACAATCAACATATACAACAAATTAATGAAGAAATGAAGAAAAACC
66 AACTAGGAATTCAAAATT-----ATCAACATATAAAACAAATTAATGAAGAAATGAAGAAAAACC
37566824 CAGAAATTAAATCACAAAAACAGAGCT-AAAAAGCATCAAAATTAAAATAATAATAACTGGATTA
126 CAGAAATTAAATCACAAAAACAGAGCTAAAAAAGCATCAAAATT--AA-AATAATAACTGGATTA
37566888 ATCGAAG
188 ATCGAAG
* * * *
37566895 TTCCACCCGCATCTTTAAACTCCAAATGAGGAAAAAATTATAAAGATCCCTTTATTTCTACTAAA
1 TTCCACCCGCAACTTTAAACTCCAAATG-GGAAAAAATTAAAAAAATCCCTTTACTTCTACTAAA
* * * * * *
37566960 TAACTAGGAATTC-AAATT-TTAACATATAAAATAATTTGATGAAGAAATGAAGAAAAACCTAGA
65 GAACTAGGAATTCAAAATTATCAACATATAAAACAAATTAATGAAGAAATGAAGAAAAACCCAGA
* *
37567023 AATTCAATCACAAAAACAGAGCTAAAAAAGCATCGAAATTAAAATAATAACTGGATTAATCGAAG
130 AATTAAATCACAAAAACAGAGCTAAAAAAGCATCAAAATTAAAATAATAACTGGATTAATCGAAG
37567088 ATTAAAGACA
Statistics
Matches: 173, Mismatches: 18, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
193 23 0.13
194 2 0.01
195 61 0.35
196 15 0.09
201 31 0.18
202 41 0.24
ACGTcount: A:0.49, C:0.16, G:0.10, T:0.25
Consensus pattern (194 bp):
TTCCACCCGCAACTTTAAACTCCAAATGGGAAAAAATTAAAAAAATCCCTTTACTTCTACTAAAG
AACTAGGAATTCAAAATTATCAACATATAAAACAAATTAATGAAGAAATGAAGAAAAACCCAGAA
ATTAAATCACAAAAACAGAGCTAAAAAAGCATCAAAATTAAAATAATAACTGGATTAATCGAAG
Found at i:37568160 original size:5 final size:5
Alignment explanation
Indices: 37568150--37568177 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
37568140 GGATAATCAA
37568150 TTATT TTATT TTATT TTATT TTATT TTA
1 TTATT TTATT TTATT TTATT TTATT TTA
37568178 AATTAAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTATT
Found at i:37568919 original size:32 final size:32
Alignment explanation
Indices: 37568858--37568920 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
37568848 AAATAAATCG
** *
37568858 ATAAAATATAATTTTATTTTTTAATTAAAAAA
1 ATAAAATATAATTTTAACTCTTAATTAAAAAA
37568890 ATAAAATATAA-TTTAACTCTTAATATAAAAA
1 ATAAAATATAATTTTAACTCTTAAT-TAAAAA
37568921 TGAGATCTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 10 0.37
32 17 0.63
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (32 bp):
ATAAAATATAATTTTAACTCTTAATTAAAAAA
Found at i:37568973 original size:21 final size:22
Alignment explanation
Indices: 37568933--37568978 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
37568923 AGATCTTAAT
*
37568933 AATATATTTATCGTTCAATACA
1 AATATATTTATCGTTCAATAAA
37568955 AATATATTTA-C-TGTCAATAAA
1 AATATATTTATCGT-TCAATAAA
37568976 AAT
1 AAT
37568979 TTTTAAACTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 1 0.05
21 11 0.50
22 10 0.45
ACGTcount: A:0.46, C:0.11, G:0.04, T:0.39
Consensus pattern (22 bp):
AATATATTTATCGTTCAATAAA
Found at i:37569214 original size:16 final size:16
Alignment explanation
Indices: 37569193--37569224 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
37569183 AGTTTATTCT
37569193 TTTCACATATCACATA
1 TTTCACATATCACATA
37569209 TTTCACATATCACATA
1 TTTCACATATCACATA
37569225 AAAAAAAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.25, G:0.00, T:0.38
Consensus pattern (16 bp):
TTTCACATATCACATA
Found at i:37573338 original size:23 final size:23
Alignment explanation
Indices: 37573309--37573358 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
37573299 TTTCTAACAA
* * *
37573309 TATTTTTTAATATTTATTGTATAT
1 TATTTTTAAACATATATT-TATAT
37573333 TATTTTTAAACATATATTTATAT
1 TATTTTTAAACATATATTTATAT
37573356 TAT
1 TAT
37573359 AAATACGTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 8 0.35
24 15 0.65
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (23 bp):
TATTTTTAAACATATATTTATAT
Found at i:37578767 original size:58 final size:59
Alignment explanation
Indices: 37578697--37578816 Score: 163
Period size: 58 Copynumber: 2.1 Consensus size: 59
37578687 TTAATTTGGG
* * * * *
37578697 ATTATTTGGAAGTTTGGTGTTGAAATTTATACTATT-AGAACTCAAATTGATGGTT-TTT
1 ATTAATTGGAAGTTTGATATTGAAATCTATACTATTGA-AAATCAAATTGATGGTTCTTT
*
37578755 ATTAATTGGAAGTTTTATATTGAAATCTATACTATTGAAAATCAAATTGATGGTTCTTT
1 ATTAATTGGAAGTTTGATATTGAAATCTATACTATTGAAAATCAAATTGATGGTTCTTT
37578814 ATT
1 ATT
37578817 TTTTGAATTT
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
58 47 0.87
59 7 0.13
ACGTcount: A:0.33, C:0.06, G:0.16, T:0.46
Consensus pattern (59 bp):
ATTAATTGGAAGTTTGATATTGAAATCTATACTATTGAAAATCAAATTGATGGTTCTTT
Found at i:37579410 original size:16 final size:17
Alignment explanation
Indices: 37579389--37579422 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
37579379 TCTTTTTATC
37579389 AGTTAAAAAGAA-AAAA
1 AGTTAAAAAGAAGAAAA
*
37579405 AGTTAAAACGAAGAAAA
1 AGTTAAAAAGAAGAAAA
37579422 A
1 A
37579423 TCAAAAGCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.71, C:0.03, G:0.15, T:0.12
Consensus pattern (17 bp):
AGTTAAAAAGAAGAAAA
Found at i:37590953 original size:28 final size:26
Alignment explanation
Indices: 37590913--37590967 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 26
37590903 ATTTATCAAT
*
37590913 AATAGAAATTATTTTTATTTAATTATGA
1 AATAGAAAATA-TTTTATTT-ATTATGA
* *
37590941 AATATAAAATATTTTATTTTTTATGA
1 AATAGAAAATATTTTATTTATTATGA
37590967 A
1 A
37590968 TAGTGAAAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 7 0.29
27 8 0.33
28 9 0.38
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (26 bp):
AATAGAAAATATTTTATTTATTATGA
Found at i:37592476 original size:2 final size:2
Alignment explanation
Indices: 37592469--37592494 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
37592459 ATTATCTCAA
37592469 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
37592495 GTTTGATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:37601296 original size:2 final size:2
Alignment explanation
Indices: 37601289--37601313 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
37601279 TTTTCTCCGC
37601289 CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT C
37601314 GAAAAGTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:37612836 original size:268 final size:266
Alignment explanation
Indices: 37612135--37613151 Score: 1066
Period size: 268 Copynumber: 3.7 Consensus size: 266
37612125 AAGGTCAATC
* * * *
37612135 CTTTTTTTCACAATCTTCGATCCCTCATT---AACAAATCTCCTAAACCCCAAAACTAATAAATC
1 CTTTTTTTCACATTCTTCGATCCCTCATTCACAACCAATCTCCTACACCCC-AAACTAATAAA-A
* * * *
37612197 CCCATTAAAGAAGTACAAAAAAAAAACAATTAATTTGAACTTAAATCACT-TAAAAAAATCAAAT
64 CCCATTAAACAAGTACAAAAAAAAAACAATTACTTTGAACTTAAAACACTGAAAAAAAATCAAAT
* * * *
37612261 TAGAACCATTAAAAGAACAAACTTTAAAGCAAAATACCTCAAAGGTCTGATTGGAGTAGT--A-G
129 TAGAACCATTAAAAGAACAAACATTAAAGCAAAATACCTCGAGGGTCTGATTGGAGGAGTGGATG
* * * *
37612323 ATGGAG---GA---GTGCATAACAAAATAAATTAACAGTCAGGTT-GACAATTTAAACCCTAACA
194 AAGGAGTATAACTGGTGCATAACAAAATAAACTAGCAGTCAGGTTAG-CAATTTAAA-CC---C-
*
37612381 AAAAAATAAATCGTAAAGGTAAAT
253 -----AT-AA-CATAAA-GT--AT
* **
37612405 CCTTTTTTCACATTCTTCGATCCCTCATTCATGCAACCAATCTCCTACATGCCAAACTAATAAAA
1 CTTTTTTTCACATTCTTCGATCCCTCATTCA--CAACCAATCTCCTACACCCCAAACTAATAAAA
* **
37612470 CCCATTAAACAAGAACCAAACAAAAACCCAATTACTTTGAACTTAAAACACTG-AAAAAAATCAA
64 CCCATTAAACAAGTA-CAAA-AAAAAAACAATTACTTTGAACTTAAAACACTGAAAAAAAATCAA
* *
37612534 ATTAGAACCATTAAAGGAACAAACATTTAAGCAAAATACCTCGAGGGTCTGATTGGAGGAGTGGA
127 ATTAGAACCATTAAAAGAACAAACATTAAAGCAAAATACCTCGAGGGTCTGATTGGAGGAGTGGA
*
37612599 TGAAGGAGTATAACTGGTGCATAACAAAATAAATTAGCAGTCAGGTTAGCAATTTAAACCC-T-A
192 TGAAGGAGTATAACTGGTGCATAACAAAATAAACTAGCAGTCAGGTTAGCAATTTAAACCCATAA
37612662 -AT-AA-T-T
257 CATAAAGTAT
*
37612668 CTTTTTTTCACATTCTTCGATCCCTCATTCA-AATCAATCTCCTACACCCCAAACTAATAAAAAC
1 CTTTTTTTCACATTCTTCGATCCCTCATTCACAACCAATCTCCTACACCCCAAACTAAT-AAAAC
37612732 CCATTAAACAAGTACAAAAAAACAAACAATTACTTTGAACTTAAAAGTTAAAACACTGAAAAAAA
65 CCATTAAACAAGTACAAAAAAA-AAACAATTACTTTGAAC-------TTAAAACACTGAAAAAAA
* *
37612797 ATCAAATTAGAACCATTAAAAGAACAAACATTAAAGCAAAATACCTGGAGGGCCTGATTGGAGGA
122 ATCAAATTAGAACCATTAAAAGAACAAACATTAAAGCAAAATACCTCGAGGGTCTGATTGGAGGA
37612862 GTGGATGAAGGAGTATAACTGGTGCATAACAAAATAAACTAGCAGTCAGGTTAGCAATTTAAACC
187 GTGGATGAAGGAGTATAACTGGTGCATAACAAAATAAACTAGCAGTCAGGTTAGCAATTTAAACC
37612927 CTAATAAAAAAACCATAAAAGTCAAT
252 C--AT-----AA-CAT-AAAGT--AT
* *
37612953 CTTTTTTTCACAATCTTCGATCCCTCATTCAATACAACCAATCTCCTAAACCCCAAACTAATGAA
1 CTTTTTTTCACATTCTTCGATCCCTCATTC---ACAACCAATCTCCTACACCCCAAACTAAT-AA
* *
37613018 AACCCATTAAAGAAGTAC----AAAAAA-AATTACTTCGAACTT-AAACACTGAAAAACAAAATC
62 AACCCATTAAACAAGTACAAAAAAAAAACAATTACTTTGAACTTAAAACACTG-AAAA-AAAATC
* * *
37613077 AAATTAGAACCGTTAAAAGAACAAGCATTAAAGCAAAATACCTCG-GAGGTCTGATTGGAGGAGC
125 AAATTAGAACCATTAAAAGAACAAACATTAAAGCAAAATACCTCGAG-GGTCTGATTGGAGGAGT
37613141 GGATGAAGGAG
189 GGATGAAGGAG
37613152 GAGGAGGGCG
Statistics
Matches: 649, Mismatches: 46, Indels: 97
0.82 0.06 0.12
Matches are distributed among these distances:
259 4 0.01
260 43 0.07
261 18 0.03
263 31 0.05
266 1 0.00
267 11 0.02
268 134 0.21
269 1 0.00
270 27 0.04
271 2 0.00
273 14 0.02
274 15 0.02
275 117 0.18
276 7 0.01
277 76 0.12
278 6 0.01
279 2 0.00
280 1 0.00
281 3 0.00
282 1 0.00
283 14 0.02
284 42 0.06
285 34 0.05
288 1 0.00
289 44 0.07
ACGTcount: A:0.45, C:0.19, G:0.12, T:0.24
Consensus pattern (266 bp):
CTTTTTTTCACATTCTTCGATCCCTCATTCACAACCAATCTCCTACACCCCAAACTAATAAAACC
CATTAAACAAGTACAAAAAAAAAACAATTACTTTGAACTTAAAACACTGAAAAAAAATCAAATTA
GAACCATTAAAAGAACAAACATTAAAGCAAAATACCTCGAGGGTCTGATTGGAGGAGTGGATGAA
GGAGTATAACTGGTGCATAACAAAATAAACTAGCAGTCAGGTTAGCAATTTAAACCCATAACATA
AAGTAT
Found at i:37618014 original size:5 final size:5
Alignment explanation
Indices: 37617987--37618041 Score: 56
Period size: 5 Copynumber: 10.2 Consensus size: 5
37617977 ACGTTTAATG
*
37617987 TAAAA TAAACA TAAACA TAAAAA TAAAA TAAAA TAAAA TCAAAA CAAAA
1 TAAAA TAAA-A TAAA-A T-AAAA TAAAA TAAAA TAAAA T-AAAA TAAAA
*
37618036 CAAAA T
1 TAAAA T
37618042 TCCAAAAAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
5 28 0.62
6 14 0.31
7 3 0.07
ACGTcount: A:0.75, C:0.09, G:0.00, T:0.16
Consensus pattern (5 bp):
TAAAA
Found at i:37618017 original size:11 final size:11
Alignment explanation
Indices: 37617987--37618040 Score: 56
Period size: 11 Copynumber: 4.9 Consensus size: 11
37617977 ACGTTTAATG
*
37617987 TAAAATAAACA
1 TAAAATAAAAA
37617998 TAAACATAAAAA
1 TAAA-ATAAAAA
37618010 TAAAAT-AAAA
1 TAAAATAAAAA
*
37618020 TAAAATCAAAA
1 TAAAATAAAAA
* *
37618031 CAAAACAAAA
1 TAAAATAAAA
37618041 TTCCAAAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
10 10 0.27
11 17 0.46
12 10 0.27
ACGTcount: A:0.76, C:0.09, G:0.00, T:0.15
Consensus pattern (11 bp):
TAAAATAAAAA
Found at i:37625265 original size:17 final size:17
Alignment explanation
Indices: 37625243--37625277 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
37625233 ACTGTGGATC
37625243 AGTACTCATGGATGAGT
1 AGTACTCATGGATGAGT
37625260 AGTACTCATGGATGAGT
1 AGTACTCATGGATGAGT
37625277 A
1 A
37625278 TAAGAACATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.31, C:0.11, G:0.29, T:0.29
Consensus pattern (17 bp):
AGTACTCATGGATGAGT
Found at i:37626224 original size:25 final size:25
Alignment explanation
Indices: 37626174--37626225 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
37626164 AAAGTATAAG
*
37626174 AATTATTTAAAAAATTATTTTTTTA
1 AATTATTTAAAAAATTATTTTGTTA
37626199 AATT-TTTAAAATTAATTA-TTTGTTA
1 AATTATTTAAAA--AATTATTTTGTTA
37626224 AA
1 AA
37626226 AGTTATTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 7 0.29
25 12 0.50
26 5 0.21
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (25 bp):
AATTATTTAAAAAATTATTTTGTTA
Found at i:37630529 original size:8 final size:8
Alignment explanation
Indices: 37630516--37630582 Score: 64
Period size: 8 Copynumber: 8.0 Consensus size: 8
37630506 TTAATTGATT
37630516 TTTTAAAA
1 TTTTAAAA
37630524 TTTTAAAA
1 TTTTAAAA
*
37630532 ATTTAAAA
1 TTTTAAAA
*
37630540 -ATTAAAA
1 TTTTAAAA
*
37630547 TTTAAAAA
1 TTTTAAAA
37630555 TTATTAAAA
1 TT-TTAAAA
37630564 TTATATAAAA
1 TT-T-TAAAA
37630574 TTTATAAAA
1 TTT-TAAAA
37630583 AAATCAATGC
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
7 6 0.12
8 22 0.43
9 16 0.31
10 7 0.14
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (8 bp):
TTTTAAAA
Found at i:37630532 original size:9 final size:9
Alignment explanation
Indices: 37630515--37630583 Score: 51
Period size: 9 Copynumber: 8.0 Consensus size: 9
37630505 ATTAATTGAT
*
37630515 TTTTTAAAA
1 TTTTAAAAA
37630524 TTTTAAAAA
1 TTTTAAAAA
37630533 -TTTAAAAA
1 TTTTAAAAA
37630541 --TT-AAAA
1 TTTTAAAAA
37630547 -TTTAAAAA
1 TTTTAAAAA
37630555 TTATT-AAAA
1 TT-TTAAAAA
*
37630564 TTATATAAAA
1 TTTTA-AAAA
37630574 TTTATAAAAA
1 TTT-TAAAAA
37630584 AATCAATGCT
Statistics
Matches: 50, Mismatches: 3, Indels: 13
0.76 0.05 0.20
Matches are distributed among these distances:
6 4 0.08
7 4 0.08
8 13 0.26
9 15 0.30
10 12 0.24
11 2 0.04
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
TTTTAAAAA
Found at i:37630544 original size:23 final size:23
Alignment explanation
Indices: 37630518--37630566 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
37630508 AATTGATTTT
37630518 TTAAAATTTTAAAAATT-TAAAAA
1 TTAAAA-TTTAAAAATTATAAAAA
*
37630541 TTAAAATTTAAAAATTATTAAAA
1 TTAAAATTTAAAAATTATAAAAA
37630564 TTA
1 TTA
37630567 TATAAAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 10 0.42
23 14 0.58
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (23 bp):
TTAAAATTTAAAAATTATAAAAA
Found at i:37630548 original size:14 final size:14
Alignment explanation
Indices: 37630529--37630557 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
37630519 TAAAATTTTA
37630529 AAAATTTAAAAATT
1 AAAATTTAAAAATT
37630543 AAAATTTAAAAATT
1 AAAATTTAAAAATT
37630557 A
1 A
37630558 TTAAAATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
AAAATTTAAAAATT
Found at i:37630908 original size:7 final size:7
Alignment explanation
Indices: 37630898--37630924 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
37630888 ATTAACAATT
37630898 AAATTTA
1 AAATTTA
37630905 AAATTTA
1 AAATTTA
37630912 AAATTTA
1 AAATTTA
37630919 AAATTT
1 AAATTT
37630925 GCGAAATTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
AAATTTA
Found at i:37630909 original size:12 final size:12
Alignment explanation
Indices: 37630882--37630923 Score: 50
Period size: 14 Copynumber: 3.3 Consensus size: 12
37630872 TAAAAAATTT
37630882 AATTAAA-TTAA
1 AATTAAATTTAA
37630893 CAATTAAATTTAA
1 -AATTAAATTTAA
37630906 AATTTAAAATTTAA
1 AA-TT-AAATTTAA
37630920 AATT
1 AATT
37630924 TGCGAAATTC
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 9 0.33
13 8 0.30
14 10 0.37
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (12 bp):
AATTAAATTTAA
Found at i:37632614 original size:34 final size:34
Alignment explanation
Indices: 37632565--37632630 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
37632555 ACCAGCTGGT
* *
37632565 CCTTGGTGCTCGAGCATCGTTGGGACCAACTGAC
1 CCTTGGTGCTCGAGCATCATTGGCACCAACTGAC
*
37632599 CCTTGGTGC-CTGAGCATCATTGGCATCAACTG
1 CCTTGGTGCTC-GAGCATCATTGGCACCAACTG
37632631 GTGTTGACTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 1 0.04
34 27 0.96
ACGTcount: A:0.18, C:0.29, G:0.27, T:0.26
Consensus pattern (34 bp):
CCTTGGTGCTCGAGCATCATTGGCACCAACTGAC
Found at i:37635341 original size:11 final size:11
Alignment explanation
Indices: 37635325--37635350 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
37635315 ATTTATTTTT
37635325 ATATTAGATTA
1 ATATTAGATTA
37635336 ATATTAGATTA
1 ATATTAGATTA
37635347 ATAT
1 ATAT
37635351 AATCGTTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (11 bp):
ATATTAGATTA
Found at i:37637099 original size:1 final size:1
Alignment explanation
Indices: 37637093--37637129 Score: 74
Period size: 1 Copynumber: 37.0 Consensus size: 1
37637083 GACAAAATTG
37637093 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
37637130 AAAAAATGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 36 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:37646961 original size:30 final size:31
Alignment explanation
Indices: 37646920--37646988 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 31
37646910 TCTTTTTCTT
* **
37646920 AATTAAATTTGATTTTTAATATTTTAA-AAA
1 AATTGAATTTGATCATTAATATTTTAAGAAA
*
37646950 AATTGAATTTGATCATTAATCTTTTAAGAAA
1 AATTGAATTTGATCATTAATATTTTAAGAAA
*
37646981 ACTTGAAT
1 AATTGAAT
37646989 CATTGTTTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
30 23 0.70
31 10 0.30
ACGTcount: A:0.43, C:0.04, G:0.07, T:0.45
Consensus pattern (31 bp):
AATTGAATTTGATCATTAATATTTTAAGAAA
Found at i:37653309 original size:138 final size:136
Alignment explanation
Indices: 37653115--37653494 Score: 407
Period size: 138 Copynumber: 2.8 Consensus size: 136
37653105 ACGACTTGGG
* *
37653115 TTTGTTTTTCTTTCAAAAACG--T-TGTCATAGCCGAACCTCATAGTTTAGGGACTAGGGTGCTA
1 TTTGTTTTTCTTTCAAAAAAGTATATGTCATAGCCGAACCTCATAGTTTTGGGACTAGGGTG-TA
* * * **
37653177 CACTTGTAAACCTACGGAATTGGTGATTGATTACCGGTT-GAGTAATCAATATTTGTGATTGA-T
65 CACTTGTAAACCTACGGAATTGATGATTGATTACCAGTTGGAGTAATCAATATCT-AAATT-ACT
37653240 T-ACTC-GA
128 TGACTCGGA
**
37653247 TTTGGGTTTTTCTTTCAAAAAAGTTATATGTCATAGCCGAACCTCATAGTTTTCCGACTAGGGTG
1 TTT--GTTTTTCTTTCAAAAAAG-TATATGTCATAGCCGAACCTCATAGTTTTGGGACTAGGGTG
* * * * * *
37653312 TTAGACTTGTAAACCTACGGAATTGATGATTGGTTACCAGTTGGGGTGATTAATGTCTAAATTAC
63 -TACACTTGTAAACCTACGGAATTGATGATTGATTACCAGTTGGAGTAATCAATATCTAAATTAC
*
37653377 TTGACTCGGG
127 TTGACTCGGA
** * * * *
37653387 TTTGTTTTTCTTTTGAAAAGGATACATGTCATAGCGGAACCTCGTAGTTTTGGGACTAGGGT-TA
1 TTTGTTTTTCTTTCAAAAAAG-TATATGTCATAGCCGAACCTCATAGTTTTGGGACTAGGGTGTA
* * *
37653451 CACTTGTAAAACTACAGAATTGATGATTGATTACCAATTGGAGT
65 CACTTGTAAACCTACGGAATTGATGATTGATTACCAGTTGGAGT
37653495 GATTAATGTC
Statistics
Matches: 206, Mismatches: 32, Indels: 16
0.81 0.13 0.06
Matches are distributed among these distances:
132 3 0.01
134 17 0.08
136 40 0.19
137 2 0.01
138 126 0.61
139 14 0.07
140 4 0.02
ACGTcount: A:0.27, C:0.15, G:0.22, T:0.36
Consensus pattern (136 bp):
TTTGTTTTTCTTTCAAAAAAGTATATGTCATAGCCGAACCTCATAGTTTTGGGACTAGGGTGTAC
ACTTGTAAACCTACGGAATTGATGATTGATTACCAGTTGGAGTAATCAATATCTAAATTACTTGA
CTCGGA
Found at i:37673218 original size:13 final size:13
Alignment explanation
Indices: 37673200--37673227 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
37673190 AATTTACTAA
37673200 TAATTCGATGATC
1 TAATTCGATGATC
37673213 TAATTCGATGATC
1 TAATTCGATGATC
37673226 TA
1 TA
37673228 TATAATTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.39
Consensus pattern (13 bp):
TAATTCGATGATC
Found at i:37674791 original size:14 final size:15
Alignment explanation
Indices: 37674772--37674804 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
37674762 TATTTTGATG
*
37674772 TTTTGAA-ATTTAAA
1 TTTTGAATATTAAAA
37674786 TTTTGAATATTAAAA
1 TTTTGAATATTAAAA
37674801 TTTT
1 TTTT
37674805 CTGTGATGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (15 bp):
TTTTGAATATTAAAA
Found at i:37682927 original size:16 final size:16
Alignment explanation
Indices: 37682896--37682932 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
37682886 ATGTGAATAA
37682896 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
37682912 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
37682928 TATTA
1 TATTA
37682933 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:37683055 original size:17 final size:18
Alignment explanation
Indices: 37683033--37683070 Score: 69
Period size: 17 Copynumber: 2.2 Consensus size: 18
37683023 TATGTATGTT
37683033 TAATATTATTG-AAAATA
1 TAATATTATTGAAAAATA
37683050 TAATATTATTGAAAAATA
1 TAATATTATTGAAAAATA
37683068 TAA
1 TAA
37683071 CATTTTATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.39
Consensus pattern (18 bp):
TAATATTATTGAAAAATA
Done.