Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold84
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: 4163231
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 246351 characters in sequence are not A, C, G, or T
File 3 of 11
Found at i:1081671 original size:20 final size:20
Alignment explanation
Indices: 1081600--1081664 Score: 114
Period size: 20 Copynumber: 3.3 Consensus size: 20
1081590 AGCTAATAAC
*
1081600 GAGCTC-AATGAGCTGAATT
1 GAGCTCGAATGAGCTGACTT
1081619 GAGCTCGAATGAGCTGACTT
1 GAGCTCGAATGAGCTGACTT
1081639 GAGCTCGAATGAGCTGACTT
1 GAGCTCGAATGAGCTGACTT
1081659 GAGCTC
1 GAGCTC
1081665 AAGTGAGATG
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
19 6 0.14
20 38 0.86
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (20 bp):
GAGCTCGAATGAGCTGACTT
Found at i:1088193 original size:50 final size:50
Alignment explanation
Indices: 1088103--1088392 Score: 391
Period size: 50 Copynumber: 5.8 Consensus size: 50
1088093 ATTTGGGTAA
* * * *
1088103 AGAGATCCCATGTAAAACCATGACTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * *
1088153 AGAGGTCCCATGTAAGACCATGTCTAGGACTTGGTATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* *
1088203 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGTATTGGCACTGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * *
1088253 AGAGGTCCCATGTAAGACGATGTCTGGGAGATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * *
1088303 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * *
1088353 AGAACATGCCATGTAAGACCATGTCTGGAACATGGCATTG
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTG
1088393 ACATGTTATT
Statistics
Matches: 210, Mismatches: 29, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
50 180 0.86
51 30 0.14
ACGTcount: A:0.27, C:0.21, G:0.31, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:1093995 original size:46 final size:46
Alignment explanation
Indices: 1093925--1094017 Score: 132
Period size: 46 Copynumber: 2.0 Consensus size: 46
1093915 CAAAGAAAAG
* *
1093925 ACCTCGACCTACTATCAAGAATGATAGGAACCCTCGTATATGATGA
1 ACCTCGACCCACTATAAAGAATGATAGGAACCCTCGTATATGATGA
* * * *
1093971 ACCTTGACCCACTATAAAGGATGATAGGAACCTTGGTATATGATGA
1 ACCTCGACCCACTATAAAGAATGATAGGAACCCTCGTATATGATGA
1094017 A
1 A
1094018 TGCCACACTA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.25
Consensus pattern (46 bp):
ACCTCGACCCACTATAAAGAATGATAGGAACCCTCGTATATGATGA
Found at i:1097927 original size:39 final size:40
Alignment explanation
Indices: 1097873--1097954 Score: 132
Period size: 39 Copynumber: 2.1 Consensus size: 40
1097863 TTATTGTCTA
1097873 AATGCACATACGTGCCCCT-TTTGTAC-TTCGGTAACCCTG
1 AATGCACATACGTGCCCCTGTTTGTACTTTC-GTAACCCTG
*
1097912 AATGCACATACGTGCCCCTGTTTGTACTTTCGTACCCCTG
1 AATGCACATACGTGCCCCTGTTTGTACTTTCGTAACCCTG
1097952 AAT
1 AAT
1097955 TACTTTGGTA
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
39 19 0.47
40 18 0.45
41 3 0.08
ACGTcount: A:0.21, C:0.30, G:0.17, T:0.32
Consensus pattern (40 bp):
AATGCACATACGTGCCCCTGTTTGTACTTTCGTAACCCTG
Found at i:1097979 original size:59 final size:59
Alignment explanation
Indices: 1097896--1098012 Score: 164
Period size: 59 Copynumber: 2.0 Consensus size: 59
1097886 GCCCCTTTTG
* * *
1097896 TACTTCGGTAACCCTGAATGCACATACGTGCCCCTGTTTGTACTTTC-GTACCCCTGAAT
1 TACTTCGGTAACCCTAAATGCACATAAGTGCCCCTGTTAGTA-TTTCGGTACCCCTGAAT
* * *
1097955 TACTTTGGTACCCCTAAATGCACATAAGTGCCCCTGTTAGTATTTCGGTACTCCTGAA
1 TACTTCGGTAACCCTAAATGCACATAAGTGCCCCTGTTAGTATTTCGGTACCCCTGAA
1098013 GGCATATTCA
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
58 4 0.08
59 47 0.92
ACGTcount: A:0.22, C:0.28, G:0.17, T:0.32
Consensus pattern (59 bp):
TACTTCGGTAACCCTAAATGCACATAAGTGCCCCTGTTAGTATTTCGGTACCCCTGAAT
Found at i:1100972 original size:102 final size:102
Alignment explanation
Indices: 1100796--1101030 Score: 375
Period size: 102 Copynumber: 2.3 Consensus size: 102
1100786 TATCGATGAA
*
1100796 CACGTGTGTAGTACTGTGT-AAAGGCTACTACGTGAATAGATAAATGATGGTCACATGTGTAGTA
1 CACGTGTGTAGTACTGTGTGAAA-GCTACTACGTGAATAGATAAATAATGGTCACATGTGTAGTA
1100860 CTAAGTGAAGGCTACAATGTGTA-CGAAGAAGCTTTGGT
65 CTAAGTGAAGGCTACAATGTGTACCGAA-AAGCTTTGGT
*
1100898 CACGTGTGTAGTACTGTGTGAAAGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAAGCTACTACGTGAATAGATAAATAATGGTCACATGTGTAGTAC
* *
1100963 TGAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGT
66 TAAGTGAAGGCTACAATGTGTACCGAAAAGCTTTGGT
* * *
1101000 CAGGTGTGTAGTACTATGTGAAGGCTACTAC
1 CACGTGTGTAGTACTGTGTGAAAGCTACTAC
1101031 ACGAACCGTA
Statistics
Matches: 124, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
102 117 0.94
103 7 0.06
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (102 bp):
CACGTGTGTAGTACTGTGTGAAAGCTACTACGTGAATAGATAAATAATGGTCACATGTGTAGTAC
TAAGTGAAGGCTACAATGTGTACCGAAAAGCTTTGGT
Found at i:1101000 original size:51 final size:49
Alignment explanation
Indices: 1100796--1101090 Score: 231
Period size: 51 Copynumber: 5.8 Consensus size: 49
1100786 TATCGATGAA
* ** *
1100796 CACGTGTGTAGTACT-GTGTAAAGGCTACTACGTGAATAGATAAA-TGATGGT
1 CACGTGTGTAGTACTAGTG--AAGGCTACTACGTGTACCGA-AAACT-TTGGT
* * *
1100847 CACATGTGTAGTACTAAGTGAAGGCTACAATGTGTA-CGAAGAAGCTTTGGT
1 CACGTGTGTAGTACT-AGTGAAGGCTACTACGTGTACCGAA-AA-CTTTGGT
* * * * *
1100898 CACGTGTGTAGTACTGTGTGAAAGCTACTACGTGAATCGATAAA-TAATGGT
1 CACGTGTGTAGTACT-AGTGAAGGCTACTACGTGTACCGA-AAACT-TTGGT
* *
1100949 CACATGTGTAGTACTGAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGT
1 CACGTGTGTAGTACT-AGTGAAGGCTACTACGTGTACCGAAAA-CTTTGGT
* ** * *
1101000 CAGGTGTGTAGTACTATGTGAAGGCTACTACACGAACCGTAAAAC-TTGAT
1 CACGTGTGTAGTACTA-GTGAAGGCTACTACGTGTACCG-AAAACTTTGGT
* *
1101050 TACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAA
1 CACGTGTGTAGTACTA-GTGAAGGCTACTACGTGTACCGAA
1101091 TGATAAAAGT
Statistics
Matches: 198, Mismatches: 34, Indels: 26
0.77 0.13 0.10
Matches are distributed among these distances:
49 3 0.02
50 46 0.23
51 134 0.68
52 11 0.06
53 4 0.02
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (49 bp):
CACGTGTGTAGTACTAGTGAAGGCTACTACGTGTACCGAAAACTTTGGT
Found at i:1101350 original size:37 final size:38
Alignment explanation
Indices: 1101281--1101353 Score: 103
Period size: 37 Copynumber: 1.9 Consensus size: 38
1101271 ATGTGTGGAA
**
1101281 TTGAATTCAATATTGACTTGAAAATGGCAAAGTGAATT
1 TTGAATTCAATATTGACTTGAAAATGAAAAAGTGAATT
* *
1101319 TTGAATTGAATATTGA-TTGAAAGTGAAAAAGTGAA
1 TTGAATTCAATATTGACTTGAAAATGAAAAAGTGAA
1101354 ATTATGAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 16 0.52
38 15 0.48
ACGTcount: A:0.42, C:0.04, G:0.21, T:0.33
Consensus pattern (38 bp):
TTGAATTCAATATTGACTTGAAAATGAAAAAGTGAATT
Found at i:1104586 original size:20 final size:20
Alignment explanation
Indices: 1104548--1104586 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1104538 CAAATGAATT
*
1104548 AAGTAAATAAAATTTTATTA
1 AAGTAAATAAAATTATATTA
*
1104568 AAGTAAATAACATTATATT
1 AAGTAAATAAAATTATATT
1104587 TCACTTAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.54, C:0.03, G:0.05, T:0.38
Consensus pattern (20 bp):
AAGTAAATAAAATTATATTA
Found at i:1106384 original size:40 final size:39
Alignment explanation
Indices: 1106331--1106584 Score: 249
Period size: 40 Copynumber: 6.4 Consensus size: 39
1106321 TTATTGTCTG
* *
1106331 AATGGACATACGTGCCCCTGTTTGTACTTCGGTACCTCTA
1 AATGCACATACGTGCCCCTGTTTGTACTTCAGTACC-CTA
* * ** * **
1106371 AATGCATATACGTGCCCCTCTTTACATTTTGGTACCCTA
1 AATGCACATACGTGCCCCTGTTTGTACTTCAGTACCCTA
* * * *
1106410 AATTCACATACGTGCCCTTGCTTGTACTTC-GATACTGCTA
1 AATGCACATACGTGCCCCTGTTTGTACTTCAG-TAC-CCTA
* *
1106450 AATGTACATACGTGCCCCTGTTTGTATTTCAGTACCCCTA
1 AATGCACATACGTGCCCCTGTTTGTACTTCAGTA-CCCTA
* * *
1106490 AATGCACATACATGCCCCTGTTTGTACTTTAATACCCTA
1 AATGCACATACGTGCCCCTGTTTGTACTTCAGTACCCTA
* ** *
1106529 AATGCACATACATGCCTTTGTTTGTACTTCAGTACCCTG
1 AATGCACATACGTGCCCCTGTTTGTACTTCAGTACCCTA
* *
1106568 AATGCATATATGTGCCC
1 AATGCACATACGTGCCC
1106585 TTATTTATAC
Statistics
Matches: 173, Mismatches: 37, Indels: 9
0.79 0.17 0.04
Matches are distributed among these distances:
38 1 0.01
39 79 0.46
40 91 0.53
41 2 0.01
ACGTcount: A:0.24, C:0.27, G:0.15, T:0.34
Consensus pattern (39 bp):
AATGCACATACGTGCCCCTGTTTGTACTTCAGTACCCTA
Found at i:1106425 original size:79 final size:80
Alignment explanation
Indices: 1106331--1106544 Score: 254
Period size: 79 Copynumber: 2.7 Consensus size: 80
1106321 TTATTGTCTG
* * *
1106331 AATGGACATACGTGCCCCTGTTTGTACTTCGGTACCTCTAAATGCATATACGTGCCCCTCTTTAC
1 AATGCACATACGTGCCCCTGTTTGTACTTCGATACCTCTAAATGCACATACGTGCCCCTCTTTAC
**
1106396 ATTTTGGTA-CCCTA
66 ATTTCAGTACCCCTA
* * * * * *
1106410 AATTCACATACGTGCCCTTGCTTGTACTTCGATA-CTGCTAAATGTACATACGTGCCCCTGTTTG
1 AATGCACATACGTGCCCCTGTTTGTACTTCGATACCT-CTAAATGCACATACGTGCCCCTCTTTA
*
1106474 TATTTCAGTACCCCTA
65 CATTTCAGTACCCCTA
* ** *
1106490 AATGCACATACATGCCCCTGTTTGTACTTTAATACC-CTAAATGCACATACATGCC
1 AATGCACATACGTGCCCCTGTTTGTACTTCGATACCTCTAAATGCACATACGTGCC
1106545 TTTGTTTGTA
Statistics
Matches: 112, Mismatches: 20, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
78 2 0.02
79 76 0.68
80 33 0.29
81 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.14, T:0.33
Consensus pattern (80 bp):
AATGCACATACGTGCCCCTGTTTGTACTTCGATACCTCTAAATGCACATACGTGCCCCTCTTTAC
ATTTCAGTACCCCTA
Found at i:1106554 original size:119 final size:119
Alignment explanation
Indices: 1106331--1106558 Score: 312
Period size: 119 Copynumber: 1.9 Consensus size: 119
1106321 TTATTGTCTG
* * * *
1106331 AATGGACATACGTGCCCCTGTTTGTACTTCGGTACCTCTAAATGCATATACGTGCCCCTCTTTAC
1 AATGGACATACGTGCCCCTGTTTGTACTTCAGTACCCCTAAATGCACATACATGCCCCTCTTTAC
* ** * *
1106396 ATTTTGGTACCCTAAATTCACATACGTGCCCTTGCTTGTACTTCGATACTGCTA
66 ACTTTAATACCCTAAATGCACATACATGCCCTTGCTTGTACTTCGATACTGCTA
* * * **
1106450 AATGTACATACGTGCCCCTGTTTGTATTTCAGTACCCCTAAATGCACATACATGCCCCTGTTTGT
1 AATGGACATACGTGCCCCTGTTTGTACTTCAGTACCCCTAAATGCACATACATGCCCCTCTTTAC
* *
1106515 ACTTTAATACCCTAAATGCACATACATGCCTTTGTTTGTACTTC
66 ACTTTAATACCCTAAATGCACATACATGCCCTTGCTTGTACTTC
1106559 AGTACCCTGA
Statistics
Matches: 93, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
119 93 1.00
ACGTcount: A:0.23, C:0.27, G:0.14, T:0.35
Consensus pattern (119 bp):
AATGGACATACGTGCCCCTGTTTGTACTTCAGTACCCCTAAATGCACATACATGCCCCTCTTTAC
ACTTTAATACCCTAAATGCACATACATGCCCTTGCTTGTACTTCGATACTGCTA
Found at i:1106560 original size:79 final size:79
Alignment explanation
Indices: 1106331--1106573 Score: 220
Period size: 79 Copynumber: 3.1 Consensus size: 79
1106321 TTATTGTCTG
* * * ** * * * *
1106331 AATGGACATACGTGCCCCTGTTTGTACTTCGGTAC-CTCTAAATGCATATACGTGCCCCTCTTTA
1 AATGCACATACATGCCCCTGCTTGTACTTCAATACTC-CTAAATGCACATACATGCCCCTGTTTG
* * **
1106395 CATTTTGGTACCCTA
65 TACTTCAGTACCCTA
* * * * * * *
1106410 AATTCACATACGTGCCCTTGCTTGTACTTCGATACTGCTAAATGTACATACGTGCCCCTGTTTGT
1 AATGCACATACATGCCCCTGCTTGTACTTCAATACTCCTAAATGCACATACATGCCCCTGTTTGT
*
1106475 ATTTCAGTACCCCTA
66 ACTTCAGTA-CCCTA
* * **
1106490 AATGCACATACATGCCCCTGTTTGTACTTTAATAC-CCTAAATGCACATACATGCCTTTGTTTGT
1 AATGCACATACATGCCCCTGCTTGTACTTCAATACTCCTAAATGCACATACATGCCCCTGTTTGT
*
1106554 ACTTCAGTACCCTG
66 ACTTCAGTACCCTA
1106568 AATGCA
1 AATGCA
1106574 TATATGTGCC
Statistics
Matches: 136, Mismatches: 26, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
78 10 0.07
79 92 0.68
80 34 0.25
ACGTcount: A:0.24, C:0.27, G:0.15, T:0.34
Consensus pattern (79 bp):
AATGCACATACATGCCCCTGCTTGTACTTCAATACTCCTAAATGCACATACATGCCCCTGTTTGT
ACTTCAGTACCCTA
Found at i:1110174 original size:41 final size:41
Alignment explanation
Indices: 1110100--1110237 Score: 145
Period size: 41 Copynumber: 3.3 Consensus size: 41
1110090 AGCAAGCCTA
*
1110100 GGACGTTGGCATCAACT-TGTGTTACATGTAAGACCATGTCTG
1 GGAC-TTGGCATCGA-TATGTGTTACATGTAAGACCATGTCTG
* * *
1110142 GGACATTGGCATCG-TATTTGTTTCATGTAAGACCCTGTCTG
1 GGAC-TTGGCATCGATATGTGTTACATGTAAGACCATGTCTG
* *
1110183 GGACTGTGGCATCGATATGTGATTACATGTAAGACCACGTTTG
1 GGACT-TGGCATCGATATGTG-TTACATGTAAGACCATGTCTG
*
1110226 GGATGTTGGCAT
1 GGA-CTTGGCAT
1110238 TGTACGAGCT
Statistics
Matches: 80, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
40 2 0.03
41 34 0.43
42 17 0.21
43 26 0.32
44 1 0.01
ACGTcount: A:0.22, C:0.17, G:0.28, T:0.33
Consensus pattern (41 bp):
GGACTTGGCATCGATATGTGTTACATGTAAGACCATGTCTG
Found at i:1116804 original size:40 final size:40
Alignment explanation
Indices: 1116757--1116999 Score: 351
Period size: 40 Copynumber: 6.1 Consensus size: 40
1116747 TTATTGTCTA
*
1116757 AATGCACATGCGTGCCCCTGTTTGTACTTCGGTACCCCTG
1 AATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTG
* * *
1116797 AATGCACATGCGTGCCCCTGTTTGTACTTTGGTACCCCTA
1 AATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTG
*
1116837 AATGCACATACGTGCCCCTGTTTGTATTTCGGTACCCCTG
1 AATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTG
*
1116877 AATGCACATACGTGCCCCTTTTTGTACTTCGGTACCCCTG
1 AATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTG
* *
1116917 AATGCACATACCTGCCCCTGTTTGTACTTCGGTACCCCTA
1 AATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTG
* * * * * * *
1116957 AATACACCTACGTGCCCTTGTTTATACTTTGGTAACCTTG
1 AATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTG
1116997 AAT
1 AAT
1117000 CAAATAGTAT
Statistics
Matches: 183, Mismatches: 20, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 183 1.00
ACGTcount: A:0.19, C:0.30, G:0.18, T:0.33
Consensus pattern (40 bp):
AATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTG
Found at i:1121816 original size:51 final size:51
Alignment explanation
Indices: 1121761--1121912 Score: 173
Period size: 51 Copynumber: 3.0 Consensus size: 51
1121751 GATGAACACG
*
1121761 TGTGTAGTACTGTGTGAAGGCTACTACGTGTATCAATAAATGATGGTCACA
1 TGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATGATGGTCACA
** * * * * * * * *
1121812 TGTGTAGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCT-TTCGTCACG
1 TGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAA-ATGATGGTCACA
*
1121863 TGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAA-GATGGTCACA
1 TGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATGATGGTCACA
1121913 NNNNNNNNNN
Statistics
Matches: 77, Mismatches: 22, Indels: 5
0.74 0.21 0.05
Matches are distributed among these distances:
50 6 0.08
51 70 0.91
52 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (51 bp):
TGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATGATGGTCACA
Found at i:1126877 original size:100 final size:100
Alignment explanation
Indices: 1126698--1126884 Score: 320
Period size: 100 Copynumber: 1.9 Consensus size: 100
1126688 AACAAGATAC
* * *
1126698 GTTTTGATTCACAAAATCCTTCTTTTCTTTCCGTCCCAAATCCCTAGATCTAATTCCAATTGATT
1 GTTTTGATTCACAAAATCCCTCTTTTCTTGCCGTCCCAAATCCCTAAATCTAATTCCAATTGATT
* *
1126763 TGGCAATATGATTGTTAATTTGATTCACAAAAAAT
66 TCGCAATATAATTGTTAATTTGATTCACAAAAAAT
1126798 GTTTTGATTCACAAAATCCCTCTTTTCTTGCCGTCCCAAATCCCTAAATCTAATTCCAATTGATT
1 GTTTTGATTCACAAAATCCCTCTTTTCTTGCCGTCCCAAATCCCTAAATCTAATTCCAATTGATT
*
1126863 TCGCAATCTAATTGTTAATTTG
66 TCGCAATATAATTGTTAATTTG
1126885 TTTGCTGTTT
Statistics
Matches: 81, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
100 81 1.00
ACGTcount: A:0.28, C:0.22, G:0.10, T:0.40
Consensus pattern (100 bp):
GTTTTGATTCACAAAATCCCTCTTTTCTTGCCGTCCCAAATCCCTAAATCTAATTCCAATTGATT
TCGCAATATAATTGTTAATTTGATTCACAAAAAAT
Found at i:1128722 original size:21 final size:22
Alignment explanation
Indices: 1128677--1128722 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
1128667 AGAGAAAAAT
*
1128677 AAAAGTGAAAAAGAAGAAAATG
1 AAAAGTGAAAAAGAAGAAAAGG
**
1128699 AAAA-TGAAAAAGGCGAAAAGG
1 AAAAGTGAAAAAGAAGAAAAGG
1128720 AAA
1 AAA
1128723 GCGAGAGAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.67, C:0.02, G:0.24, T:0.07
Consensus pattern (22 bp):
AAAAGTGAAAAAGAAGAAAAGG
Found at i:1128821 original size:36 final size:33
Alignment explanation
Indices: 1128756--1128822 Score: 80
Period size: 33 Copynumber: 1.9 Consensus size: 33
1128746 GTGAATGAAG
*
1128756 TGAGTGAAAAAGAGAGAGAGCTTAAACAAGGAA
1 TGAGTGAAAAAGAGAGAGAGCTAAAACAAGGAA
* *
1128789 TGAGTGAAGAAGAAGAGAGTGCTCAAACACAAGG
1 TGAGTGAAAAAG-AGAGAGAGCT-AAA-ACAAGG
1128823 GAGGAATATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
33 11 0.39
34 9 0.32
35 2 0.07
36 6 0.21
ACGTcount: A:0.48, C:0.09, G:0.31, T:0.12
Consensus pattern (33 bp):
TGAGTGAAAAAGAGAGAGAGCTAAAACAAGGAA
Found at i:1132720 original size:24 final size:24
Alignment explanation
Indices: 1132679--1132725 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
1132669 GAAAATGACG
* *
1132679 CCTTCTTCTCCCCTTTCCTCTTGC
1 CCTTCCTCTCCCCTTTCCCCTTGC
1132703 CCTTCCTCTTCCCC-TTCCCCTTG
1 CCTTCCTC-TCCCCTTTCCCCTTG
1132726 GGTTGCAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.00, C:0.53, G:0.04, T:0.43
Consensus pattern (24 bp):
CCTTCCTCTCCCCTTTCCCCTTGC
Found at i:1135485 original size:15 final size:16
Alignment explanation
Indices: 1135465--1135500 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
1135455 TTGGAGCGAA
*
1135465 CTTGG-TCATGCTTTT
1 CTTGGTTCATGCCTTT
1135480 CTTGGTTCATGCCTTT
1 CTTGGTTCATGCCTTT
1135496 CTTGG
1 CTTGG
1135501 AGGTGCAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.06, C:0.22, G:0.22, T:0.50
Consensus pattern (16 bp):
CTTGGTTCATGCCTTT
Found at i:1139664 original size:11 final size:11
Alignment explanation
Indices: 1139630--1139678 Score: 57
Period size: 11 Copynumber: 4.6 Consensus size: 11
1139620 TCCTTCATTC
*
1139630 ATCATCCCTCA
1 ATCATTCCTCA
* *
1139641 AGCATCCCTCA
1 ATCATTCCTCA
1139652 ATCATTCCTCA
1 ATCATTCCTCA
1139663 ATCATT-CTC-
1 ATCATTCCTCA
1139672 ATCATTC
1 ATCATTC
1139679 ATCATTCTCT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
9 6 0.18
10 3 0.09
11 25 0.74
ACGTcount: A:0.27, C:0.39, G:0.02, T:0.33
Consensus pattern (11 bp):
ATCATTCCTCA
Found at i:1142155 original size:15 final size:16
Alignment explanation
Indices: 1142135--1142164 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1142125 TGGTGCGTTG
1142135 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
1142150 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
1142165 AGCATGTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:1147720 original size:449 final size:448
Alignment explanation
Indices: 1146882--1148231 Score: 2353
Period size: 449 Copynumber: 3.0 Consensus size: 448
1146872 TTTTTTTAAG
* *
1146882 TGAATTAAATCCTTGGATCTAGATAGTAGGTTCTTAAATTATTGTGGTTCAATTATGACACAAAA
1 TGAATTAAATCCTTGGATCTAGATAGTAGGTTCTTAAATTATTGTGGTTAAAATATGACACAAAA
* * * *
1146947 ATAGTTTCTAGGTCTAATGGCAAGGTGGCGTGTT-TGTAACTGAAGGTTCAAGTCCTCGGTTGCG
66 ATAGCTTGT-GGTCTAGTGGCAAGGTGGCGTGTTGTGTAACTGGAGGTTCAAGTCCTCGGTTGCG
* * *
1147011 CAATAGAGTATTTATTTTGCTGCTTGAGCTATGTGGATGGTAGATTTGGATTGAAATACTGCTAA
130 CAATGGAGTATTTATTTTGCTGCTTGAGCTATGTGGGTGGTAGAGTTGGATTGAAATACTGCTAA
1147076 ATGGAGTTTGAATGGGTCATAGAGAGAATTGATGAGGGATATTTGGAGAGATTTGAGGAGAGAAT
195 ATGGAGTTTGAATGGGTCATAGAGAGAATTGATGAGGGATATTTGGAGAGATTTGAGGAGAGAAT
*
1147141 ATTGGGATTTGGGGAGGTTGTTGTTGTGGAGAGCTATATATCATCTCATTTGTTCCTTGTTCTCG
260 ATTGGGATTTGAGGAGGTTGTTGTTGTGGAGAGCTATATATCATCTCATTT-TTCCTTGTTCTCG
*
1147206 ATGGGAGATCGGTGAGGTTTTTAAGGTTTTCGTCGCTTTCTCCAACCTGCATTGCATCCATTCCT
324 ATGGGAGATCGGTGAGGTTTTTAAGGTTTTCGTCGCTTTCTCCAACCTGCATTGCTTCCATTCCT
*
1147271 AACTGGTGGTGGTCGAGGTTGATTGGCACATTGCCTGGGAACCAAGGGTACGATGATAAT
389 AACTGGTGGTGGTCGAGGTTGATTGGCACATTGCCTGGGAACCAAGGGTGCGATGATAAT
1147331 TGAATTAAATCCTTGGATCTAGATAGTAGGTTCTTAAATTATTGTGGTTAAAATATGACACAAAA
1 TGAATTAAATCCTTGGATCTAGATAGTAGGTTCTTAAATTATTGTGGTTAAAATATGACACAAAA
1147396 ATAGCTTGTGGTCTAGTGGCAAGGTGGCGTGTTGTGTAACTGGAGGTTCAAGTCCTCGGTTGCGC
66 ATAGCTTGTGGTCTAGTGGCAAGGTGGCGTGTTGTGTAACTGGAGGTTCAAGTCCTCGGTTGCGC
1147461 AATGGAGTATTTATTTTGCTGCTTGAGCTATGTGGGTGGTAGAGTTGGATTGAAATACTGCTAAA
131 AATGGAGTATTTATTTTGCTGCTTGAGCTATGTGGGTGGTAGAGTTGGATTGAAATACTGCTAAA
* *
1147526 TGGAGTTTTAATGGGTCGTAGAGAGAATTGATGAGGGATATTTGGAGAGATTTGAGGAGAGAATA
196 TGGAGTTTGAATGGGTCATAGAGAGAATTGATGAGGGATATTTGGAGAGATTTGAGGAGAGAATA
* *
1147591 TTGGGATTTGAGGAGGTTATTGTTGTGGAGAGCTGTATATCATCTCATTCTTTCCTTGTTCTCGA
261 TTGGGATTTGAGGAGGTTGTTGTTGTGGAGAGCTATATATCATCTCATT-TTTCCTTGTTCTCGA
1147656 TGGGAGATCGGTGAGGTTTTTAAGGTTTTCGTCGCTTTCTCCAACCTGCATTGCTTCCATTCCTA
325 TGGGAGATCGGTGAGGTTTTTAAGGTTTTCGTCGCTTTCTCCAACCTGCATTGCTTCCATTCCTA
* *
1147721 ACTGGTTGTGGTCGAGGTTGATTGGCACATTGCATGGGAACCAAGGGTGCGATGATAAT
390 ACTGGTGGTGGTCGAGGTTGATTGGCACATTGCCTGGGAACCAAGGGTGCGATGATAAT
*
1147780 TGAATTAAATCCTTGGATCTAGATAATAGGTTCTTAAATTATTGTGGTTAAAATATGACACAAAA
1 TGAATTAAATCCTTGGATCTAGATAGTAGGTTCTTAAATTATTGTGGTTAAAATATGACACAAAA
*
1147845 ATAGCTTGTGGTCTAGTGGCAAGGTGGCGTGTTGTGTAACTGGAGGTTCAAGTCCTCGGTTGTGC
66 ATAGCTTGTGGTCTAGTGGCAAGGTGGCGTGTTGTGTAACTGGAGGTTCAAGTCCTCGGTTGCGC
*
1147910 AATGGAGTATTTATTTTGCTGCTTGAGCTGTGTGGGTGGTAGAGTTGGATTGAAATACTGCTAAA
131 AATGGAGTATTTATTTTGCTGCTTGAGCTATGTGGGTGGTAGAGTTGGATTGAAATACTGCTAAA
* *
1147975 TGGAGTTTGAATGGGTCATGGAGAGAATTGAGGAGGGATATTTGGAGAGATTTGAGGAGAGAATA
196 TGGAGTTTGAATGGGTCATAGAGAGAATTGATGAGGGATATTTGGAGAGATTTGAGGAGAGAATA
* *
1148040 TTGGGATTT-AGGGAGGTTGTTGTTGTGGAGAGCTATATATCATCTCATTTTTTCATTGTTCTCA
261 TTGGGATTTGA-GGAGGTTGTTGTTGTGGAGAGCTATATATCATCTCA-TTTTTCCTTGTTCTCG
* * * *
1148104 ATGGAACATCGGCGAGGTTTTCAAGGTTTTCGTCGCTTTCTCCAACCTGCATTGCTTCCATTCCT
324 ATGGGAGATCGGTGAGGTTTTTAAGGTTTTCGTCGCTTTCTCCAACCTGCATTGCTTCCATTCCT
* * *
1148169 AACTGGTGGTGGTCGAGGTTGATTGGCACATTGCCTGGGAACCAAAGATGTGATGATAAT
389 AACTGGTGGTGGTCGAGGTTGATTGGCACATTGCCTGGGAACCAAGGGTGCGATGATAAT
1148229 TGA
1 TGA
1148232 TTTTCGGAAT
Statistics
Matches: 859, Mismatches: 38, Indels: 8
0.95 0.04 0.01
Matches are distributed among these distances:
448 24 0.03
449 832 0.97
450 3 0.00
ACGTcount: A:0.25, C:0.12, G:0.29, T:0.34
Consensus pattern (448 bp):
TGAATTAAATCCTTGGATCTAGATAGTAGGTTCTTAAATTATTGTGGTTAAAATATGACACAAAA
ATAGCTTGTGGTCTAGTGGCAAGGTGGCGTGTTGTGTAACTGGAGGTTCAAGTCCTCGGTTGCGC
AATGGAGTATTTATTTTGCTGCTTGAGCTATGTGGGTGGTAGAGTTGGATTGAAATACTGCTAAA
TGGAGTTTGAATGGGTCATAGAGAGAATTGATGAGGGATATTTGGAGAGATTTGAGGAGAGAATA
TTGGGATTTGAGGAGGTTGTTGTTGTGGAGAGCTATATATCATCTCATTTTTCCTTGTTCTCGAT
GGGAGATCGGTGAGGTTTTTAAGGTTTTCGTCGCTTTCTCCAACCTGCATTGCTTCCATTCCTAA
CTGGTGGTGGTCGAGGTTGATTGGCACATTGCCTGGGAACCAAGGGTGCGATGATAAT
Found at i:1148043 original size:24 final size:24
Alignment explanation
Indices: 1147993--1148041 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
1147983 GAATGGGTCA
*
1147993 TGGAGAGAATTGAGGAGGGATATT
1 TGGAGAGAATTGAGGAGGAATATT
*
1148017 TGGAGAGATTTGAGGAGAGAATATT
1 TGGAGAGAATTGAGGAG-GAATATT
1148042 GGGATTTAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 16 0.73
25 6 0.27
ACGTcount: A:0.35, C:0.00, G:0.39, T:0.27
Consensus pattern (24 bp):
TGGAGAGAATTGAGGAGGAATATT
Found at i:1148476 original size:20 final size:20
Alignment explanation
Indices: 1148448--1148489 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
1148438 GGCTTAGGCA
1148448 GTAAGGGGCCATGTTGGGCC
1 GTAAGGGGCCATGTTGGGCC
*
1148468 GTAATGGGCCATGTTGGGCC
1 GTAAGGGGCCATGTTGGGCC
1148488 GT
1 GT
1148490 GTGGGCTCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.14, C:0.19, G:0.43, T:0.24
Consensus pattern (20 bp):
GTAAGGGGCCATGTTGGGCC
Found at i:1148699 original size:27 final size:27
Alignment explanation
Indices: 1148661--1148989 Score: 396
Period size: 27 Copynumber: 12.2 Consensus size: 27
1148651 TTACAGTTTT
*
1148661 ATGACCAAAATACCCCTATAGGGTAAA
1 ATGACCGAAATACCCCTATAGGGTAAA
** *
1148688 ATGATTGAAATA-CCCTGGTAGGGTAAA
1 ATGACCGAAATACCCCT-ATAGGGTAAA
* *
1148715 ATGATCGAAATACCCCTATAAGGTAAA
1 ATGACCGAAATACCCCTATAGGGTAAA
1148742 ATGACCGAAATACCACC-ATAGGGTAAA
1 ATGACCGAAATACC-CCTATAGGGTAAA
** *
1148769 ATGATTGAAATACCCCCATAGGGTAAA
1 ATGACCGAAATACCCCTATAGGGTAAA
* *
1148796 ATGACCAAAATACCCCCATAGGGTAAA
1 ATGACCGAAATACCCCTATAGGGTAAA
* * *
1148823 ATAACCAAAATACCCCTATAGAGTAAA
1 ATGACCGAAATACCCCTATAGGGTAAA
*
1148850 ATGACCGAAATA-CCCTCATAAGGTAAA
1 ATGACCGAAATACCCCT-ATAGGGTAAA
* *
1148877 ATGACTGAAATACCCCCATAGGGTAAA
1 ATGACCGAAATACCCCTATAGGGTAAA
* *
1148904 ATGACCAAAATACCCCCATAGGGTAAA
1 ATGACCGAAATACCCCTATAGGGTAAA
* * *
1148931 ATAACCAAAATACCCCTATAGAGTAAA
1 ATGACCGAAATACCCCTATAGGGTAAA
1148958 ATGACCGAAATACCCGC-ATAGGGTAAA
1 ATGACCGAAATACCC-CTATAGGGTAAA
1148985 ATGAC
1 ATGAC
1148990 TGTTATACCC
Statistics
Matches: 263, Mismatches: 32, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
26 10 0.04
27 243 0.92
28 10 0.04
ACGTcount: A:0.44, C:0.21, G:0.16, T:0.19
Consensus pattern (27 bp):
ATGACCGAAATACCCCTATAGGGTAAA
Found at i:1148857 original size:108 final size:108
Alignment explanation
Indices: 1148668--1149016 Score: 499
Period size: 108 Copynumber: 3.2 Consensus size: 108
1148658 TTTATGACCA
* *** *** * * *
1148668 AAATACCCCTATAGGGTAAAATGATTGAAATACCCTGGTAGGGTAAAATGATCGAAATACCCCTA
1 AAATACCCCCATAGGGTAAAATGACCAAAATACCCCCATAGGGTAAAATAACCAAAATACCCCTA
*
1148733 TA-AGGTAAAATGACCGAAATACCAC-CATAGGGTAAAATGATTG
66 TAGA-GTAAAATGACCGAAATACC-CGCATAGGGTAAAATGACTG
1148776 AAATACCCCCATAGGGTAAAATGACCAAAATACCCCCATAGGGTAAAATAACCAAAATACCCCTA
1 AAATACCCCCATAGGGTAAAATGACCAAAATACCCCCATAGGGTAAAATAACCAAAATACCCCTA
* *
1148841 TAGAGTAAAATGACCGAAATACCCTCATAAGGTAAAATGACTG
66 TAGAGTAAAATGACCGAAATACCCGCATAGGGTAAAATGACTG
1148884 AAATACCCCCATAGGGTAAAATGACCAAAATACCCCCATAGGGTAAAATAACCAAAATACCCCTA
1 AAATACCCCCATAGGGTAAAATGACCAAAATACCCCCATAGGGTAAAATAACCAAAATACCCCTA
1148949 TAGAGTAAAATGACCGAAATACCCGCATAGGGTAAAATGACTG
66 TAGAGTAAAATGACCGAAATACCCGCATAGGGTAAAATGACTG
**
1148992 TTATA-CCCC-TAGGAGATAAAATGAC
1 AAATACCCCCATAGG-G-TAAAATGAC
1149017 TGTTATGGCC
Statistics
Matches: 221, Mismatches: 16, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
106 4 0.02
107 6 0.03
108 210 0.95
109 1 0.00
ACGTcount: A:0.44, C:0.21, G:0.16, T:0.19
Consensus pattern (108 bp):
AAATACCCCCATAGGGTAAAATGACCAAAATACCCCCATAGGGTAAAATAACCAAAATACCCCTA
TAGAGTAAAATGACCGAAATACCCGCATAGGGTAAAATGACTG
Found at i:1149259 original size:26 final size:26
Alignment explanation
Indices: 1149223--1149303 Score: 94
Period size: 26 Copynumber: 3.1 Consensus size: 26
1149213 TTTGCCACAT
*
1149223 ATACTGTTACTGGCAGCTTTGCTGCG
1 ATACTGATACTGGCAGCTTTGCTGCG
* *
1149249 ATACTGATACTGGCAGCTCTGCTGTG
1 ATACTGATACTGGCAGCTTTGCTGCG
*
1149275 ATGCT-ATTAAC-GGCAGCTTTGCTGCG
1 ATACTGA-T-ACTGGCAGCTTTGCTGCG
1149301 ATA
1 ATA
1149304 TTGGTGTGTT
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
25 1 0.02
26 43 0.93
27 2 0.04
ACGTcount: A:0.20, C:0.22, G:0.26, T:0.32
Consensus pattern (26 bp):
ATACTGATACTGGCAGCTTTGCTGCG
Found at i:1149447 original size:28 final size:28
Alignment explanation
Indices: 1149404--1149520 Score: 191
Period size: 28 Copynumber: 4.2 Consensus size: 28
1149394 TTATTGCACT
*
1149404 ACACTGTTACTTTATTGGGCTAAGGCCC
1 ACACTGTTACTGTATTGGGCTAAGGCCC
1149432 ACACTGATT-CTGTATTGGGCTAAGGCCC
1 ACACTG-TTACTGTATTGGGCTAAGGCCC
*
1149460 ACACTGTTACTATATTGGGCTAAGGCCC
1 ACACTGTTACTGTATTGGGCTAAGGCCC
*
1149488 ACACTGTTATTGTATTGGGCTAAGGCCC
1 ACACTGTTACTGTATTGGGCTAAGGCCC
1149516 ACACT
1 ACACT
1149521 ATACTGTCAC
Statistics
Matches: 83, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
27 2 0.02
28 79 0.95
29 2 0.02
ACGTcount: A:0.23, C:0.25, G:0.22, T:0.30
Consensus pattern (28 bp):
ACACTGTTACTGTATTGGGCTAAGGCCC
Found at i:1162702 original size:50 final size:49
Alignment explanation
Indices: 1162577--1162704 Score: 143
Period size: 49 Copynumber: 2.6 Consensus size: 49
1162567 GATAATAACA
* * *
1162577 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGAGATGTTTCTTCTAC
1 TGCCAATGCCATGTCCTAGACATGGTCTTACATGAGATGTTTCTTCGAC
* * * *
1162626 TGCCAATTCCATATCCTAGATATGGTCTTACATGGGA-GTTTTCATATCGA-
1 TGCCAATGCCATGTCCTAGACATGGTCTTACATGAGATG-TTTC-T-TCGAC
*
1162676 TGCCCATGCCATGTCCTAGACATGGTCTT
1 TGCCAATGCCATGTCCTAGACATGGTCTT
1162705 TCGGGGGACC
Statistics
Matches: 65, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
48 1 0.02
49 35 0.54
50 26 0.40
51 3 0.05
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (49 bp):
TGCCAATGCCATGTCCTAGACATGGTCTTACATGAGATGTTTCTTCGAC
Found at i:1163773 original size:50 final size:49
Alignment explanation
Indices: 1163648--1163775 Score: 143
Period size: 49 Copynumber: 2.6 Consensus size: 49
1163638 GATAATAACA
* * *
1163648 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGAGATGTTTCTTCTAC
1 TGCCAATGCCATGTCCTAGACATGGTCTTACATGAGATGTTTCTTCGAC
* * * *
1163697 TGCCAATTCCATATCCTAGATATGGTCTTACATGGGA-GTTTTCATATCGA-
1 TGCCAATGCCATGTCCTAGACATGGTCTTACATGAGATG-TTTC-T-TCGAC
*
1163747 TGCCCATGCCATGTCCTAGACATGGTCTT
1 TGCCAATGCCATGTCCTAGACATGGTCTT
1163776 TCGGGGGACC
Statistics
Matches: 65, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
48 1 0.02
49 35 0.54
50 26 0.40
51 3 0.05
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (49 bp):
TGCCAATGCCATGTCCTAGACATGGTCTTACATGAGATGTTTCTTCGAC
Found at i:1171405 original size:50 final size:50
Alignment explanation
Indices: 1171217--1171411 Score: 162
Period size: 50 Copynumber: 3.9 Consensus size: 50
1171207 GATAATAACA
* ** * * * *
1171217 TGCCAA-AGCCATGACCCAGACATGGTCTTACATGGGATGTTTCTTGT-AC
1 TGCCAATA-CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAG
* * * * ** *
1171266 TGCCAATTCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATCGG
1 TGCCAATACCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAG
* * * * * *
1171316 TGCCCATGCCATGTCTCAGACATGGTCTTAC-GGGAGACCTGTCATCTCAG
1 TGCCAATACCATGTCCCAGACATGGTCTTACATGG-GACCTCTCATATCAG
*
1171366 TGCCAACACCATGTCCCAGACATGGTCTTACATGGGACCTCTCATA
1 TGCCAATACCATGTCCCAGACATGGTCTTACATGGGACCTCTCATA
1171412 ATATTAATGA
Statistics
Matches: 111, Mismatches: 31, Indels: 7
0.74 0.21 0.05
Matches are distributed among these distances:
49 37 0.33
50 72 0.65
51 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAATACCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAG
Found at i:1177793 original size:27 final size:27
Alignment explanation
Indices: 1177763--1177900 Score: 152
Period size: 27 Copynumber: 5.1 Consensus size: 27
1177753 AAAGATTGTT
*
1177763 AAATGACCGAAATACCCCCAAAGGGTA
1 AAATTACCGAAATACCCCCAAAGGGTA
** ***
1177790 AAATTACTAAAATACCCTTGAAGGGTA
1 AAATTACCGAAATACCCCCAAAGGGTA
* **
1177817 AAATTACCGAAATACGCATAAAGGGTA
1 AAATTACCGAAATACCCCCAAAGGGTA
*
1177844 AAATTACCGAAATA-TCCCAAAGGGTA
1 AAATTACCGAAATACCCCCAAAGGGTA
* * *
1177870 AAATTATCGAAATACCCTCGAAGGGTA
1 AAATTACCGAAATACCCCCAAAGGGTA
1177897 AAAT
1 AAAT
1177901 GATTGTTTGT
Statistics
Matches: 92, Mismatches: 18, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
26 22 0.24
27 70 0.76
ACGTcount: A:0.46, C:0.18, G:0.17, T:0.20
Consensus pattern (27 bp):
AAATTACCGAAATACCCCCAAAGGGTA
Found at i:1178997 original size:43 final size:43
Alignment explanation
Indices: 1178950--1179111 Score: 200
Period size: 43 Copynumber: 3.8 Consensus size: 43
1178940 GGCCATATTT
* * *
1178950 TTTAGCGGCGCATTTATCACAAACGTCGCTAAAGAACATGACC
1 TTTAGCGGCGCTTTTATCACAAACGCCACTAAAGAACATGACC
* *
1178993 TTTAGCGGCGCTTTTATAACAAACGCCGCTAAAGAACATGACC
1 TTTAGCGGCGCTTTTATCACAAACGCCACTAAAGAACATGACC
* * *
1179036 TTTAACGGCGCCTTTT-TCACAAACACCACTAAATAACATGACC
1 TTTAGCGGCG-CTTTTATCACAAACGCCACTAAAGAACATGACC
* * * *
1179079 TTTAGCGACACTTTTTTCACAAACGTCACTAAA
1 TTTAGCGGCGCTTTTATCACAAACGCCACTAAA
1179112 AGTATCGTTC
Statistics
Matches: 104, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
42 5 0.05
43 94 0.90
44 5 0.05
ACGTcount: A:0.33, C:0.27, G:0.14, T:0.26
Consensus pattern (43 bp):
TTTAGCGGCGCTTTTATCACAAACGCCACTAAAGAACATGACC
Found at i:1184937 original size:9 final size:9
Alignment explanation
Indices: 1184923--1185028 Score: 85
Period size: 9 Copynumber: 11.8 Consensus size: 9
1184913 CAAGTATAAT
1184923 TAAGTTATG
1 TAAGTTATG
1184932 TAAGTTATG
1 TAAGTTATG
* * *
1184941 ATATGATATA
1 -TAAGTTATG
*
1184951 T-ATTTATG
1 TAAGTTATG
1184959 T-A-TTATG
1 TAAGTTATG
1184966 TAAGTTATG
1 TAAGTTATG
1184975 TAAGTTATG
1 TAAGTTATG
*
1184984 TGAGTTATG
1 TAAGTTATG
1184993 TAAGTTATG
1 TAAGTTATG
* *
1185002 ATATGATATATA
1 -TAAG-T-TATG
1185014 TAAGTTAT-
1 TAAGTTATG
1185022 TAAGTTA
1 TAAGTTA
1185029 AGATTAAAGG
Statistics
Matches: 79, Mismatches: 12, Indels: 13
0.76 0.12 0.12
Matches are distributed among these distances:
7 6 0.08
8 13 0.16
9 43 0.54
10 10 0.13
11 4 0.05
12 3 0.04
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:1190303 original size:117 final size:118
Alignment explanation
Indices: 1190162--1190488 Score: 388
Period size: 125 Copynumber: 2.7 Consensus size: 118
1190152 ACAGTATTGC
* * *
1190162 AACGGCGCCGTTTTGAGAAATTTTAATACATAATTACGACATTTTTTGGTCCAAACGCTGCTATT
1 AACGGCACCGTTTTGAGAAATTTTAATACATAGTTACGACATTTTTTGGTCCAAACGCCGCTATT
* *
1190227 GCTTACGTTTTGTGGCGTTT-AACGCCACTAAAAAATTAAATTCCTATAGTGA
66 GCTTACCTTTTGCGGCGTTTAAACGCCACTAAAAAATTAAATTCCTATAGTGA
* * * * *
1190279 AACGGCACCGTTTTGAGAATTTTTAATACATAGTTGCGGCGTTTTTTGGTCCAAACACCGCTATT
1 AACGGCACCGTTTTGAGAAATTTTAATACATAGTTACGACATTTTTTGGTCCAAACGCCGCTATT
* * * *
1190344 GCTTACCTTTTGCGGCATTTTCAGCAAAAACGCCACTAAAACATTAAATTCTTGTAGTGA
66 GCTTACCTTTTGCGGC-GTTT------AAACGCCACTAAAAAATTAAATTCCTATAGTGA
* * ** *
1190404 AATGGCACCGTTTTAAGAAATTTTAATACATAGTTGTGGA-ATTTTTTGGTCCAAATGCCGCTAT
1 AACGGCACCGTTTTGAGAAATTTTAATACATAGTT-ACGACATTTTTTGGTCCAAACGCCGCTAT
*
1190468 TGCTTTCCTTTTGCGGCGTTT
65 TGCTTACCTTTTGCGGCGTTT
1190489 TTCTCATAAA
Statistics
Matches: 176, Mismatches: 25, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
117 71 0.40
118 3 0.02
124 3 0.02
125 98 0.56
126 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (118 bp):
AACGGCACCGTTTTGAGAAATTTTAATACATAGTTACGACATTTTTTGGTCCAAACGCCGCTATT
GCTTACCTTTTGCGGCGTTTAAACGCCACTAAAAAATTAAATTCCTATAGTGA
Found at i:1190961 original size:7 final size:7
Alignment explanation
Indices: 1190949--1191297 Score: 107
Period size: 7 Copynumber: 48.7 Consensus size: 7
1190939 ACTAATTAAT
1190949 CTAAACC
1 CTAAACC
1190956 CTAAACCC
1 CTAAA-CC
1190964 CTAAACC
1 CTAAACC
*
1190971 CTTAACCC
1 C-TAAACC
1190979 CTAAACC
1 CTAAACC
*
1190986 TTAAACC
1 CTAAACC
1190993 CTAAACCC
1 CTAAA-CC
1191001 CT-AACC
1 CTAAACC
1191007 CTTAAACC
1 C-TAAACC
*
1191015 TTAAACC
1 CTAAACC
*
1191022 C-CAACC
1 CTAAACC
*
1191028 CTTAAATC
1 C-TAAACC
**
1191036 AAAAACC
1 CTAAACC
* *
1191043 ATAATCC
1 CTAAACC
* **
1191050 ATATTCC
1 CTAAACC
1191057 CTAAACC
1 CTAAACC
*
1191064 CATAATCC
1 C-TAAACC
* *
1191072 ATAAACT
1 CTAAACC
**
1191079 CTAAAATA
1 CT-AAACC
* *
1191087 GTAACTCCC
1 CTAA--ACC
*
1191096 CTAAACT
1 CTAAACC
1191103 CTAAACC
1 CTAAACC
* **
1191110 ATAAATA
1 CTAAACC
* *
1191117 ATAACCC
1 CTAAACC
*
1191124 CTAATCC
1 CTAAACC
1191131 CTAAACCC
1 CTAAA-CC
1191139 CT-AACC
1 CTAAACC
*
1191145 TTTAAACC
1 -CTAAACC
*
1191153 ATAAACC
1 CTAAACC
* *
1191160 TTAATCC
1 CTAAACC
1191167 CTAAACC
1 CTAAACC
* *
1191174 CAAAACA
1 CTAAACC
*
1191181 CTAAACA
1 CTAAACC
1191188 CTAAACC
1 CTAAACC
*
1191195 ATAAA-C
1 CTAAACC
*
1191201 CTACACC
1 CTAAACC
* *
1191208 GTAAACA
1 CTAAACC
**
1191215 CTAAATGTT
1 CTAAA--CC
* *
1191224 CTTAACA
1 CTAAACC
*
1191231 CTAAATC
1 CTAAACC
*
1191238 ATAAACC
1 CTAAACC
*
1191245 CTAAATC
1 CTAAACC
1191252 CTAAACC
1 CTAAACC
*
1191259 TTAAATCC
1 CTAAA-CC
1191267 C-AAACC
1 CTAAACC
*
1191273 ATAAA-C
1 CTAAACC
*
1191279 CTACACC
1 CTAAACC
1191286 CTAAACC
1 CTAAACC
1191293 CTAAA
1 CTAAA
1191298 TATATATTAC
Statistics
Matches: 244, Mismatches: 78, Indels: 40
0.67 0.22 0.11
Matches are distributed among these distances:
6 20 0.08
7 174 0.71
8 43 0.18
9 7 0.03
ACGTcount: A:0.44, C:0.35, G:0.01, T:0.21
Consensus pattern (7 bp):
CTAAACC
Found at i:1190969 original size:15 final size:15
Alignment explanation
Indices: 1190949--1191023 Score: 91
Period size: 15 Copynumber: 5.1 Consensus size: 15
1190939 ACTAATTAAT
1190949 CTAAACCCTAAACCC
1 CTAAACCCTAAACCC
*
1190964 CTAAACCCTTAACCC
1 CTAAACCCTAAACCC
*
1190979 CTAAACCTTAAA-CC
1 CTAAACCCTAAACCC
1190993 CTAAACCCCT-AACCC
1 CTAAA-CCCTAAACCC
* *
1191008 TTAAACCTTAAACCC
1 CTAAACCCTAAACCC
1191023 C
1 C
1191024 AACCCTTAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
14 12 0.24
15 38 0.76
ACGTcount: A:0.37, C:0.44, G:0.00, T:0.19
Consensus pattern (15 bp):
CTAAACCCTAAACCC
Found at i:1190977 original size:22 final size:23
Alignment explanation
Indices: 1190954--1191033 Score: 98
Period size: 22 Copynumber: 3.7 Consensus size: 23
1190944 TTAATCTAAA
*
1190954 CCCTAAACCCCTAAACCCTTAAC
1 CCCTAAACCCTTAAACCCTTAAC
*
1190977 CCCTAAA-CCTTAAACCCTAAAC
1 CCCTAAACCCTTAAACCCTTAAC
1190999 CCCT-AACCCTTAAA-CCTTAAAC
1 CCCTAAACCCTTAAACCCTT-AAC
1191021 CCC--AACCCTTAAA
1 CCCTAAACCCTTAAA
1191034 TCAAAAACCA
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.29
22 30 0.58
23 7 0.13
ACGTcount: A:0.38, C:0.44, G:0.00, T:0.19
Consensus pattern (23 bp):
CCCTAAACCCTTAAACCCTTAAC
Found at i:1191041 original size:21 final size:22
Alignment explanation
Indices: 1190974--1191042 Score: 77
Period size: 22 Copynumber: 3.2 Consensus size: 22
1190964 CTAAACCCTT
* **
1190974 AACCCCTAAACCTTAAACCCTA
1 AACCCCTAACCCTTAAACCAAA
**
1190996 AACCCCTAACCCTTAAACCTTA
1 AACCCCTAACCCTTAAACCAAA
*
1191018 AACCCC-AACCCTTAAATCAAA
1 AACCCCTAACCCTTAAACCAAA
1191039 AACC
1 AACC
1191043 ATAATCCATA
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 16 0.38
22 26 0.62
ACGTcount: A:0.42, C:0.41, G:0.00, T:0.17
Consensus pattern (22 bp):
AACCCCTAACCCTTAAACCAAA
Found at i:1191082 original size:22 final size:22
Alignment explanation
Indices: 1190965--1191083 Score: 71
Period size: 22 Copynumber: 5.5 Consensus size: 22
1190955 CCTAAACCCC
* * * *
1190965 TAAACCCTTAACCCCTAAACCT
1 TAAACCCTAAACCCATAATCCA
* * *
1190987 TAAACCCTAAACCCCTAACCCT
1 TAAACCCTAAACCCATAATCCA
* * * *
1191009 TAAACCTTAAACCC-CAACCCT
1 TAAACCCTAAACCCATAATCCA
* * *
1191030 TAAA-TCAAAAACCATAATCCA
1 TAAACCCTAAACCCATAATCCA
**
1191051 TATTCCCTAAACCCATAATCCA
1 TAAACCCTAAACCCATAATCCA
*
1191073 TAAACTCTAAA
1 TAAACCCTAAA
1191084 ATAGTAACTC
Statistics
Matches: 76, Mismatches: 19, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
20 5 0.07
21 16 0.21
22 55 0.72
ACGTcount: A:0.42, C:0.36, G:0.00, T:0.22
Consensus pattern (22 bp):
TAAACCCTAAACCCATAATCCA
Found at i:1212364 original size:23 final size:23
Alignment explanation
Indices: 1212333--1212380 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
1212323 ATCTCTATGC
* *
1212333 AATATCCCGAAAATTACTACTGT
1 AATACCCCGAAAATTACTACAGT
1212356 AATACCCCGAAAATTACTACAGT
1 AATACCCCGAAAATTACTACAGT
1212379 AA
1 AA
1212381 GAAAGTAGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.44, C:0.23, G:0.08, T:0.25
Consensus pattern (23 bp):
AATACCCCGAAAATTACTACAGT
Found at i:1227357 original size:50 final size:50
Alignment explanation
Indices: 1227174--1227801 Score: 666
Period size: 50 Copynumber: 12.6 Consensus size: 50
1227164 CGATCTCGTA
* * * * **
1227174 TAAGACCATGTCTGGGACATGGCATCGACATCGATATGTGA-G--CCAGTG
1 TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAAAGGTCCCA-TG
* * *
1227222 TAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAA-CTCCCATG
1 TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGA-AAGGTCCCATG
1227272 TAAGACCATAGTCTGGGACATGGCATTGGCACCGAGATGAAAGGTCCCATG
1 TAAGACCAT-GTCTGGGACATGGCATTGGCACCGAGATGAAAGGTCCCATG
* *
1227323 TAAGACCATGTCCGGGACATGGCATTGGCACCGAGATGAGAGGTCCCATG
1 TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAAAGGTCCCATG
* *
1227373 TAAGACAATGTCTGGGACATGGCATTGGCACCGAGATGAGAA-GTCCAATG
1 TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGA-AAGGTCCCATG
* ** * * *
1227423 TAAGACCAAGTCTGGGACATGGTGTTGGAACTGAGATGAGAGGTCCCATG
1 TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAAAGGTCCCATG
* * *
1227473 TAAGACCATGTCTGGGACATGGCGTTGACACCGAGAT-AAGAGGTCCTATG
1 TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAA-AGGTCCCATG
*
1227523 TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAA-GTCCAATG
1 TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGA-AAGGTCCCATG
* ** * * *
1227573 TAAGACCAAGTCTGGGACATGGTGTTGGAACTGAGATGAGAGGTCCCATG
1 TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAAAGGTCCCATG
* * * *
1227623 TAAGACCATGTCTGGGACATGGCGTTGGCATCGAGATGAGAGGTCACC-CG
1 TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAAAGGTC-CCATG
* * ** * * *
1227673 TAAGACCATGTTTGGGACATGGCATGGGCATTGATATGAGAA-CTCCTATG
1 TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGA-AAGGTCCCATG
* * * * ** *
1227723 TAAGACCATATCTGGGATATGGCATTGGCA--GTATAGGAAACATCTCATG
1 TAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATGAAAGGTCCCATG
*
1227772 TAAGACCATGTCTGGGACATGGCTTTGGCA
1 TAAGACCATGTCTGGGACATGGCATTGGCA
1227802 TGTTATTATT
Statistics
Matches: 498, Mismatches: 66, Indels: 31
0.84 0.11 0.05
Matches are distributed among these distances:
48 38 0.08
49 42 0.08
50 364 0.73
51 53 0.11
52 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (50 bp):
TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAAAGGTCCCATG
Found at i:1227494 original size:150 final size:151
Alignment explanation
Indices: 1227174--1227801 Score: 804
Period size: 150 Copynumber: 4.2 Consensus size: 151
1227164 CGATCTCGTA
* * * * *
1227174 TAAGACCATGTCTGGGACATGGCATCGACATCGATATGTGA-G--CCAGTGTAAGACCATGTCTG
1 TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCA-TGTAAGACCATGTCTG
* *
1227236 GGACATGGCATGGGCACCGATATGAGAACTCCCATGTAAGACCATAGTCTGGGACATGGCATTGG
65 GGACATGGCATGGGCACCGAGATGAGAACTCCAATGTAAGACCATAGTCTGGGACATGGCATTGG
* *
1227301 CACCGAGATGAAAGGTCCCATG
130 AACTGAGATGAAAGGTCCCATG
* *
1227323 TAAGACCATGTCCGGGACATGGCATTGGCACCGAGATGAGAGGTCCCATGTAAGACAATGTCTGG
1 TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTCTGG
* * **
1227388 GACATGGCATTGGCACCGAGATGAGAAGTCCAATGTAAGACCA-AGTCTGGGACATGGTGTTGGA
66 GACATGGCATGGGCACCGAGATGAGAACTCCAATGTAAGACCATAGTCTGGGACATGGCATTGGA
*
1227452 ACTGAGATGAGAGGTCCCATG
131 ACTGAGATGAAAGGTCCCATG
* * * *
1227473 TAAGACCATGTCTGGGACATGGCGTTGACACCGAGATAAGAGGTCCTATGTAAGACCATGTCTGG
1 TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTCTGG
* * **
1227538 GACATGGCATTGGCACCGAGATGAGAAGTCCAATGTAAGACCA-AGTCTGGGACATGGTGTTGGA
66 GACATGGCATGGGCACCGAGATGAGAACTCCAATGTAAGACCATAGTCTGGGACATGGCATTGGA
*
1227602 ACTGAGATGAGAGGTCCCATG
131 ACTGAGATGAAAGGTCCCATG
* * * *
1227623 TAAGACCATGTCTGGGACATGGCGTTGGCATCGAGATGAGAGGTCACC-CGTAAGACCATGTTTG
1 TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTC-CCATGTAAGACCATGTCTG
** * * *
1227687 GGACATGGCATGGGCATTGATATGAGAACTCCTATGTAAGACCATA-TCTGGGATATGGCATTGG
65 GGACATGGCATGGGCACCGAGATGAGAACTCCAATGTAAGACCATAGTCTGGGACATGGCATTGG
* * * * ** *
1227751 CAGT-ATAGGAAACATCTCATG
130 AACTGAGATGAAAGGTCCCATG
*
1227772 TAAGACCATGTCTGGGACATGGCTTTGGCA
1 TAAGACCATGTCTGGGACATGGCATTGGCA
1227802 TGTTATTATT
Statistics
Matches: 428, Mismatches: 46, Indels: 10
0.88 0.10 0.02
Matches are distributed among these distances:
149 75 0.18
150 293 0.68
151 57 0.13
152 3 0.01
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (151 bp):
TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTCTGG
GACATGGCATGGGCACCGAGATGAGAACTCCAATGTAAGACCATAGTCTGGGACATGGCATTGGA
ACTGAGATGAAAGGTCCCATG
Found at i:1237256 original size:15 final size:16
Alignment explanation
Indices: 1237227--1237256 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1237217 CAAACCTGCT
1237227 TTAACACATTATCAAA
1 TTAACACATTATCAAA
1237243 TTAACACA-TATCAA
1 TTAACACATTATCAA
1237257 CAAGGCACCA
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:1244374 original size:11 final size:11
Alignment explanation
Indices: 1244343--1244375 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
1244333 AGTATTAGTT
1244343 GTTATTTTTAA
1 GTTATTTTTAA
1244354 G-TATTTTTTAA
1 GTTA-TTTTTAA
1244365 GTTATTTTTAA
1 GTTATTTTTAA
1244376 TGAATTTACC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
10 2 0.10
11 16 0.80
12 2 0.10
ACGTcount: A:0.27, C:0.00, G:0.09, T:0.64
Consensus pattern (11 bp):
GTTATTTTTAA
Found at i:1260198 original size:25 final size:25
Alignment explanation
Indices: 1260170--1260227 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
1260160 AGATGTAAAC
*
1260170 GGTAAGCTCCTCTGAGCCAAATAAT
1 GGTAAGCTCCTCCGAGCCAAATAAT
**
1260195 GGTAAGCTCCTCCGAGCTGAATAAT
1 GGTAAGCTCCTCCGAGCCAAATAAT
*
1260220 AGTAAGCT
1 GGTAAGCT
1260228 TATAAGAGCT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.24
Consensus pattern (25 bp):
GGTAAGCTCCTCCGAGCCAAATAAT
Found at i:1262718 original size:25 final size:25
Alignment explanation
Indices: 1262690--1262739 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
1262680 GTAGCTACGA
1262690 TCTGATCCACAGCTCGTATGAGCAT
1 TCTGATCCACAGCTCGTATGAGCAT
* * *
1262715 TCTGATTCACAGCTTGTTTGAGCAT
1 TCTGATCCACAGCTCGTATGAGCAT
1262740 ACATGTACGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.34
Consensus pattern (25 bp):
TCTGATCCACAGCTCGTATGAGCAT
Found at i:1271796 original size:17 final size:17
Alignment explanation
Indices: 1271752--1271800 Score: 52
Period size: 17 Copynumber: 3.0 Consensus size: 17
1271742 TTGCTCGCAC
1271752 TCTTTTTC-TTTCTCTTT
1 TCTTTTTCATTTCT-TTT
1271769 TC--TTTCAATTTCTTTT
1 TCTTTTTC-ATTTCTTTT
1271785 TCTTTTTCATTT-TTTT
1 TCTTTTTCATTTCTTTT
1271801 CTTCTCGTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
15 4 0.14
16 9 0.32
17 11 0.39
18 4 0.14
ACGTcount: A:0.06, C:0.18, G:0.00, T:0.76
Consensus pattern (17 bp):
TCTTTTTCATTTCTTTT
Found at i:1272395 original size:18 final size:19
Alignment explanation
Indices: 1272362--1272397 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
1272352 AAGCTGTAGA
1272362 AAACTAAAGATAGTTAAAT
1 AAACTAAAGATAGTTAAAT
*
1272381 AAACTAATG-TAGTTAAA
1 AAACTAAAGATAGTTAAA
1272398 AATGTCCAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.56, C:0.06, G:0.11, T:0.28
Consensus pattern (19 bp):
AAACTAAAGATAGTTAAAT
Found at i:1285347 original size:11 final size:11
Alignment explanation
Indices: 1285331--1285376 Score: 65
Period size: 11 Copynumber: 4.1 Consensus size: 11
1285321 ATGACTCCTG
1285331 AGTGTTCTCAA
1 AGTGTTCTCAA
1285342 AGTGTTCTCAA
1 AGTGTTCTCAA
**
1285353 AGTGTTCTCCTG
1 AGTGTTCT-CAA
1285365 AGTGTTCTCAA
1 AGTGTTCTCAA
1285376 A
1 A
1285377 CATACAGCAG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
11 21 0.70
12 9 0.30
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.37
Consensus pattern (11 bp):
AGTGTTCTCAA
Found at i:1287310 original size:12 final size:13
Alignment explanation
Indices: 1287283--1287316 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
1287273 GGGTGTGAAA
1287283 GAGAGAAAATTTT
1 GAGAGAAAATTTT
*
1287296 GAGAGAGAA-TTT
1 GAGAGAAAATTTT
1287308 GAGAGAAAA
1 GAGAGAAAA
1287317 ATTAGGAGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.50, C:0.00, G:0.29, T:0.21
Consensus pattern (13 bp):
GAGAGAAAATTTT
Found at i:1297510 original size:30 final size:30
Alignment explanation
Indices: 1297455--1297516 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
1297445 CACTAAGCAA
1297455 GTTTCATATACATGTATCATCCATTT-CAT
1 GTTTCATATACATGTATCATCCATTTCCAT
1297484 GTTTCAATATATCATGTAAT-AT-CATTTCCAT
1 GTTTC-ATATA-CATGT-ATCATCCATTTCCAT
1297515 GT
1 GT
1297517 ATTTCATGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
29 5 0.17
30 10 0.34
31 12 0.41
32 2 0.07
ACGTcount: A:0.29, C:0.18, G:0.08, T:0.45
Consensus pattern (30 bp):
GTTTCATATACATGTATCATCCATTTCCAT
Found at i:1297713 original size:25 final size:24
Alignment explanation
Indices: 1297684--1297757 Score: 69
Period size: 25 Copynumber: 3.0 Consensus size: 24
1297674 TACGAACTAT
*
1297684 GAATCGGTATGCTCTCACGAGCTGTA
1 GAATCGGTAAGCTCT-ACGAGCTG-A
** *
1297710 -AATCAATAAGCTCATACGAGTTGA
1 GAATCGGTAAGCTC-TACGAGCTGA
1297734 GAATCGGTAAGCTCTTACGAGCTG
1 GAATCGGTAAGCTC-TACGAGCTG
1297758 CAATCAGTAA
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
24 1 0.03
25 36 0.95
26 1 0.03
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (24 bp):
GAATCGGTAAGCTCTACGAGCTGA
Found at i:1299865 original size:22 final size:22
Alignment explanation
Indices: 1299828--1299871 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
1299818 CTATGACTCT
1299828 AATTTTAAATTAAATTCTTTAAA
1 AATTTTAAATTAAATT-TTTAAA
*
1299851 AATTTT-AATTGAATTTTTAAA
1 AATTTTAAATTAAATTTTTAAA
1299872 TATTATTATC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 6 0.30
22 8 0.40
23 6 0.30
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (22 bp):
AATTTTAAATTAAATTTTTAAA
Found at i:1302237 original size:17 final size:18
Alignment explanation
Indices: 1302210--1302244 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
1302200 TATTTATTAG
*
1302210 TTTATATTTTTTTAATTT
1 TTTATATTTTTTAAATTT
1302228 TTTA-ATTTTTTAAATTT
1 TTTATATTTTTTAAATTT
1302245 ATATTAATCG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTATATTTTTTAAATTT
Found at i:1311233 original size:6 final size:6
Alignment explanation
Indices: 1311222--1311279 Score: 53
Period size: 6 Copynumber: 9.7 Consensus size: 6
1311212 ACTAAAGCGA
* ** * * *
1311222 TCTCTT TCTCTT TCTCTA TCTCGC TCTCTA TCTCGT TCTCTT TCCCTT
1 TCTCTT TCTCTT TCTCTT TCTCTT TCTCTT TCTCTT TCTCTT TCTCTT
*
1311270 TCCCTT TCTC
1 TCTCTT TCTC
1311280 GATCTCGATC
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.03, C:0.40, G:0.03, T:0.53
Consensus pattern (6 bp):
TCTCTT
Found at i:1311285 original size:30 final size:30
Alignment explanation
Indices: 1311219--1311286 Score: 73
Period size: 30 Copynumber: 2.3 Consensus size: 30
1311209 TCTACTAAAG
* * *
1311219 CGATCTCTTTCTCTTTCTCTATCTCGCTCT
1 CGATCTCGTTCTCTTTCCCTATCCCGCTCT
* * **
1311249 CTATCTCGTTCTCTTTCCCTTTCCCTTTCT
1 CGATCTCGTTCTCTTTCCCTATCCCGCTCT
1311279 CGATCTCG
1 CGATCTCG
1311287 ATCCTTCTTT
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.06, C:0.38, G:0.07, T:0.49
Consensus pattern (30 bp):
CGATCTCGTTCTCTTTCCCTATCCCGCTCT
Found at i:1315782 original size:50 final size:50
Alignment explanation
Indices: 1315721--1315868 Score: 242
Period size: 50 Copynumber: 3.0 Consensus size: 50
1315711 CATGGGATGT
*
1315721 TCTCATATCGGTGCCCATGCCATGTCCCAGACATGGTCTTATATGGGACC
1 TCTCATCTCGGTGCCCATGCCATGTCCCAGACATGGTCTTATATGGGACC
* *
1315771 TCTCATCTCGGTGCCCATTCCATGTCCCAGACATGGTCTTATAGGGGACC
1 TCTCATCTCGGTGCCCATGCCATGTCCCAGACATGGTCTTATATGGGACC
* * *
1315821 TATCATCTCGGTGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
1 TCTCATCTCGGTGCCCATGCCATGTCCCAGACATGGTCTTATATGGGA
1315869 NNNNNNNNNN
Statistics
Matches: 90, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 90 1.00
ACGTcount: A:0.20, C:0.30, G:0.22, T:0.28
Consensus pattern (50 bp):
TCTCATCTCGGTGCCCATGCCATGTCCCAGACATGGTCTTATATGGGACC
Found at i:1322409 original size:28 final size:28
Alignment explanation
Indices: 1322373--1322521 Score: 165
Period size: 28 Copynumber: 5.3 Consensus size: 28
1322363 CATGACATCT
* *
1322373 ACAGAGATAGTTCACTGGGACAGTAAAC
1 ACAGAGATAGTTCGCTGGGACAATAAAC
* ** ** *
1322401 ACAAAGATAGCCCGCAAGGATAATAAAC
1 ACAGAGATAGTTCGCTGGGACAATAAAC
* *
1322429 ATAGAGATAG-TCTGCTGGGACAGTAAAC
1 ACAGAGATAGTTC-GCTGGGACAATAAAC
*
1322457 ACAGAGATAGTCCGCTGGGACAATAAAC
1 ACAGAGATAGTTCGCTGGGACAATAAAC
*
1322485 ACAGAGATAGTTCGCTGGGAAAATAAAC
1 ACAGAGATAGTTCGCTGGGACAATAAAC
*
1322513 ACATAGATA
1 ACAGAGATA
1322522 ATTCACTAGA
Statistics
Matches: 98, Mismatches: 21, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
27 1 0.01
28 96 0.98
29 1 0.01
ACGTcount: A:0.42, C:0.17, G:0.23, T:0.17
Consensus pattern (28 bp):
ACAGAGATAGTTCGCTGGGACAATAAAC
Found at i:1322447 original size:56 final size:56
Alignment explanation
Indices: 1322373--1322521 Score: 192
Period size: 56 Copynumber: 2.7 Consensus size: 56
1322363 CATGACATCT
* *
1322373 ACAGAGATAGTTCACTGGGACAGTAAACACAAAGATAGCCCGCAAGGATAATAAAC
1 ACAGAGATAGTTCGCTGGGACAGTAAACACAAAGATAGCCCGCAAGGACAATAAAC
* * * **
1322429 ATAGAGATAG-TCTGCTGGGACAGTAAACACAGAGATAGTCCGCTGGGACAATAAAC
1 ACAGAGATAGTTC-GCTGGGACAGTAAACACAAAGATAGCCCGCAAGGACAATAAAC
* * *
1322485 ACAGAGATAGTTCGCTGGGAAAATAAACACATAGATA
1 ACAGAGATAGTTCGCTGGGACAGTAAACACAAAGATA
1322522 ATTCACTAGA
Statistics
Matches: 80, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
55 2 0.03
56 76 0.95
57 2 0.03
ACGTcount: A:0.42, C:0.17, G:0.23, T:0.17
Consensus pattern (56 bp):
ACAGAGATAGTTCGCTGGGACAGTAAACACAAAGATAGCCCGCAAGGACAATAAAC
Found at i:1324042 original size:45 final size:45
Alignment explanation
Indices: 1323991--1324079 Score: 178
Period size: 45 Copynumber: 2.0 Consensus size: 45
1323981 GATAGTTTAC
1323991 TTTTAGATTGTTTACTAGAAGCTAAGTTAGCCAAATTAAGTTAGA
1 TTTTAGATTGTTTACTAGAAGCTAAGTTAGCCAAATTAAGTTAGA
1324036 TTTTAGATTGTTTACTAGAAGCTAAGTTAGCCAAATTAAGTTAG
1 TTTTAGATTGTTTACTAGAAGCTAAGTTAGCCAAATTAAGTTAG
1324080 GTCTATTGTG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.38
Consensus pattern (45 bp):
TTTTAGATTGTTTACTAGAAGCTAAGTTAGCCAAATTAAGTTAGA
Found at i:1335239 original size:27 final size:27
Alignment explanation
Indices: 1335189--1335250 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
1335179 TTAAAATCCT
* * *
1335189 GACCATTTGGATTATTATCGAGACTAG
1 GACCATTTGGATTAATATCAAGACCAG
* *
1335216 GACCATTTGGATTAATGTTAAGACCAG
1 GACCATTTGGATTAATATCAAGACCAG
*
1335243 GATCATTT
1 GACCATTT
1335251 CCGTTCCTAG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.34
Consensus pattern (27 bp):
GACCATTTGGATTAATATCAAGACCAG
Found at i:1335905 original size:27 final size:27
Alignment explanation
Indices: 1335867--1335925 Score: 109
Period size: 27 Copynumber: 2.2 Consensus size: 27
1335857 ATCGCCAATA
*
1335867 ATGGCTCAGCAAAATTATACTCAGCTT
1 ATGGCACAGCAAAATTATACTCAGCTT
1335894 ATGGCACAGCAAAATTATACTCAGCTT
1 ATGGCACAGCAAAATTATACTCAGCTT
1335921 ATGGC
1 ATGGC
1335926 TCAAGAGAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (27 bp):
ATGGCACAGCAAAATTATACTCAGCTT
Found at i:1346283 original size:43 final size:42
Alignment explanation
Indices: 1346236--1346321 Score: 111
Period size: 43 Copynumber: 2.0 Consensus size: 42
1346226 AGGGTAAATC
* * *
1346236 CAACAACCCATGTTTATGTTCTCCT-TTTTTAGAATTCTCTTTT
1 CAACAACCCAAGATTATCTTCTCCTCTTTTTA-AATTCT-TTTT
*
1346279 CAACAACCTAAGATTATCTTCTCCTCTTTTTAAATTCTTTTT
1 CAACAACCCAAGATTATCTTCTCCTCTTTTTAAATTCTTTTT
1346321 C
1 C
1346322 CCTAGGATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
42 5 0.13
43 27 0.71
44 6 0.16
ACGTcount: A:0.23, C:0.24, G:0.05, T:0.48
Consensus pattern (42 bp):
CAACAACCCAAGATTATCTTCTCCTCTTTTTAAATTCTTTTT
Found at i:1348879 original size:12 final size:12
Alignment explanation
Indices: 1348862--1348887 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1348852 TTACCTTGTC
1348862 AGACCATGATTA
1 AGACCATGATTA
1348874 AGACCATGATTA
1 AGACCATGATTA
1348886 AG
1 AG
1348888 GCCACTCTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.15, G:0.19, T:0.23
Consensus pattern (12 bp):
AGACCATGATTA
Found at i:1357936 original size:21 final size:20
Alignment explanation
Indices: 1357910--1357951 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
1357900 GCCGCTGCCG
1357910 CCTTG-CTACTCGCACCAACAC
1 CCTTGCCTA-TCGCACC-ACAC
1357931 CCTTGCCTATCGCACCACAC
1 CCTTGCCTATCGCACCACAC
1357951 C
1 C
1357952 ATCAAGACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 5 0.25
21 12 0.60
22 3 0.15
ACGTcount: A:0.21, C:0.50, G:0.10, T:0.19
Consensus pattern (20 bp):
CCTTGCCTATCGCACCACAC
Found at i:1358102 original size:25 final size:26
Alignment explanation
Indices: 1358060--1358113 Score: 76
Period size: 25 Copynumber: 2.1 Consensus size: 26
1358050 TTCTCCTAAA
*
1358060 TTTCAATTTTATTTAATTATTTAAT-T
1 TTTCAATTTTATTGAATTA-TTAATAT
1358086 TTTCAA-TTTATTGAATTATTAATAT
1 TTTCAATTTTATTGAATTATTAATAT
1358111 TTT
1 TTT
1358114 ATACTAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 5 0.19
25 15 0.58
26 6 0.23
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (26 bp):
TTTCAATTTTATTGAATTATTAATAT
Found at i:1359005 original size:3 final size:3
Alignment explanation
Indices: 1358997--1359065 Score: 111
Period size: 3 Copynumber: 23.0 Consensus size: 3
1358987 TTGAAGCAAG
* *
1358997 AGA AGA AGA AGA AGG AGA AGA AGA AGA AAA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
*
1359045 AGA AGA AGA AGA AAA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA
1359066 TCCCACAGAG
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:1366807 original size:41 final size:41
Alignment explanation
Indices: 1366748--1366829 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 41
1366738 CGAAACTGAT
* *
1366748 AGGGGCTAAGGCCGTTTGCCACTGTTACCGTAATGGGCTAA
1 AGGGGCTAAGGCCATTTGCCACCGTTACCGTAATGGGCTAA
1366789 AGGGGCTAAGGCCATTTGCCACCGTTACCGTAATGGGCTAA
1 AGGGGCTAAGGCCATTTGCCACCGTTACCGTAATGGGCTAA
1366830 GGCCCATGCT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.23, C:0.23, G:0.30, T:0.23
Consensus pattern (41 bp):
AGGGGCTAAGGCCATTTGCCACCGTTACCGTAATGGGCTAA
Found at i:1379450 original size:20 final size:20
Alignment explanation
Indices: 1379425--1379463 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
1379415 TGAGGTATTT
1379425 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
1379445 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
1379464 GAAAGAAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:1386648 original size:50 final size:50
Alignment explanation
Indices: 1386543--1386649 Score: 121
Period size: 50 Copynumber: 2.1 Consensus size: 50
1386533 TTATTGAGGT
* * * *
1386543 TATGAGAGGTCCCACGTTAGACCATGTTTGGGACATGGCGTTGGTACCGA
1 TATGAGAGGTCCCACGTTAGACCATGTCTGAGACATGGCATGGGTACCGA
*
1386593 GATGAGAGGTCCC-C-TATAAGACCATGTCTGAGACATGGCATGGGCT-CCGA
1 TATGAGAGGTCCCACGT-T-AGACCATGTCTGAGACATGGCATGGG-TACCGA
1386643 TATGAGA
1 TATGAGA
1386650 ACTCTCATGT
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
48 1 0.02
49 2 0.04
50 44 0.92
51 1 0.02
ACGTcount: A:0.25, C:0.21, G:0.31, T:0.23
Consensus pattern (50 bp):
TATGAGAGGTCCCACGTTAGACCATGTCTGAGACATGGCATGGGTACCGA
Found at i:1388415 original size:24 final size:24
Alignment explanation
Indices: 1388388--1388436 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
1388378 TTTTTCTGGC
1388388 CTATGGAGTTTAAAGATGCATATG
1 CTATGGAGTTTAAAGATGCATATG
* *
1388412 CTATGGTGTTTACAGATGCATATG
1 CTATGGAGTTTAAAGATGCATATG
1388436 C
1 C
1388437 ATAAGTGAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.29, C:0.12, G:0.24, T:0.35
Consensus pattern (24 bp):
CTATGGAGTTTAAAGATGCATATG
Found at i:1389609 original size:11 final size:11
Alignment explanation
Indices: 1389582--1389624 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
1389572 TAAAAGGAAC
*
1389582 TTTTATTCTAA
1 TTTTATTTTAA
1389593 -TTTATTTTAA
1 TTTTATTTTAA
*
1389603 TTTTATTTCAA
1 TTTTATTTTAA
*
1389614 TTTTATGTTAA
1 TTTTATTTTAA
1389625 ATAAAAGGGT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
10 9 0.33
11 18 0.67
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.65
Consensus pattern (11 bp):
TTTTATTTTAA
Found at i:1392313 original size:50 final size:50
Alignment explanation
Indices: 1392238--1392377 Score: 192
Period size: 50 Copynumber: 2.8 Consensus size: 50
1392228 NNNNNNNNNN
*
1392238 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGG-AGTTGGCACCGA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCA-TGGGCACCGA
* *
1392288 GATGAGAGGTCCCCTGTAAGCCCATGTCTGGGACATGGCATGGGCACCGA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA
* ** *
1392338 TATGAGAACATCCCATGTAAGACCATGTCTGCGACATGGC
1 GATGAG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
1392378 TTTGGCATGT
Statistics
Matches: 79, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
50 50 0.63
51 29 0.37
ACGTcount: A:0.26, C:0.24, G:0.31, T:0.20
Consensus pattern (50 bp):
GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA
Found at i:1399292 original size:50 final size:49
Alignment explanation
Indices: 1399181--1399364 Score: 206
Period size: 50 Copynumber: 3.7 Consensus size: 49
1399171 TGGGTAAAGG
* * *
1399181 GGTCCCATGTAAGACCATGTCTGGGACATTGCTTGGCACCGAGATGAGA
1 GGTCCCACGTAAGACCATGTCTGGGACATGGCTTAGCACCGAGATGAGA
* *
1399230 GGTCTCATGTAAGACCATGTCTGGGACATGGCGTTAGCACCGAGATGAGA
1 GGTCCCACGTAAGACCATGTCTGGGACATGGC-TTAGCACCGAGATGAGA
* * ** * *
1399280 GGTCCCCCGTAAGACCATGTCTGGGACATGACATGGGCATCGATATGAGAA
1 GGTCCCACGTAAGACCATGTCTGGGACATGGC-TTAGCACCGAGATGAG-A
** * *
1399331 CATCCCATGTAAGACCATGTTTGGGACATGGCTT
1 GGTCCCACGTAAGACCATGTCTGGGACATGGCTT
1399365 TGGCATGTTA
Statistics
Matches: 114, Mismatches: 19, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
49 30 0.26
50 57 0.50
51 27 0.24
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.23
Consensus pattern (49 bp):
GGTCCCACGTAAGACCATGTCTGGGACATGGCTTAGCACCGAGATGAGA
Found at i:1401665 original size:41 final size:41
Alignment explanation
Indices: 1401620--1401704 Score: 118
Period size: 41 Copynumber: 2.1 Consensus size: 41
1401610 GGTTCATTGA
** *
1401620 GTGAAAAATGAATAAACGGGATGGTTATATGAATCTA-TTAT
1 GTGAAAAATGAATAAACGAAATGGTTACATGAATC-AGTTAT
*
1401661 GTGAAAAATGAATAAATGAAATGGTTACATGAATCAGTTAT
1 GTGAAAAATGAATAAACGAAATGGTTACATGAATCAGTTAT
1401702 GTG
1 GTG
1401705 GAAATAGACA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
40 1 0.03
41 38 0.97
ACGTcount: A:0.42, C:0.05, G:0.22, T:0.31
Consensus pattern (41 bp):
GTGAAAAATGAATAAACGAAATGGTTACATGAATCAGTTAT
Found at i:1401849 original size:40 final size:40
Alignment explanation
Indices: 1401676--1401849 Score: 217
Period size: 40 Copynumber: 4.3 Consensus size: 40
1401666 AAATGAATAA
* * * *
1401676 ATGAAATGGTTACATGAATCAGTTATGTGGAAATAGACAT
1 ATGAAATGATTATATGAATCAGTTATATGGAAATAGATAT
*
1401716 ATGAAATGGA-TATATGAATCAGTTATATGGAACTAGATAT
1 ATGAAAT-GATTATATGAATCAGTTATATGGAAATAGATAT
* * *
1401756 ACGAAATGATTATAAGAATCAGTTGTATGGAAATAGATAT
1 ATGAAATGATTATATGAATCAGTTATATGGAAATAGATAT
* *
1401796 ACGGAATGATTATATGAATCAGTTATATGGAAATAG-TAAT
1 ATGAAATGATTATATGAATCAGTTATATGGAAATAGAT-AT
*
1401836 ATGAAATGTTTATA
1 ATGAAATGATTATA
1401850 CGAAATGTTT
Statistics
Matches: 116, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
39 3 0.03
40 112 0.97
41 1 0.01
ACGTcount: A:0.43, C:0.05, G:0.20, T:0.32
Consensus pattern (40 bp):
ATGAAATGATTATATGAATCAGTTATATGGAAATAGATAT
Found at i:1401865 original size:80 final size:79
Alignment explanation
Indices: 1401703--1401875 Score: 199
Period size: 80 Copynumber: 2.2 Consensus size: 79
1401693 ATCAGTTATG
* * *
1401703 TGGAAATAGACATATGAAATGGATATATGAATCAGTTATATGGAACTAGATATACGAAATGATTA
1 TGGAAATAGATATACGAAATGGATATATGAATCAGTTATATGGAAATAGATATACGAAATGATTA
1401768 TAAGAATCAGTTGTA
66 TAAGAAT-AGTTGTA
* * *
1401783 TGGAAATAGATATACGGAAT-GATTATATGAATCAGTTATATGGAAATAG-TAATATGAAATGTT
1 TGGAAATAGATATACGAAATGGA-TATATGAATCAGTTATATGGAAATAGAT-ATACGAAATGAT
* *
1401846 TATACGAA-ATGTTTTTA
64 TATAAGAATA-G-TTGTA
*
1401863 TGGATATAGATAT
1 TGGAAATAGATAT
1401876 GTAAAAAGTT
Statistics
Matches: 80, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
78 1 0.01
79 4 0.05
80 75 0.94
ACGTcount: A:0.42, C:0.05, G:0.20, T:0.34
Consensus pattern (79 bp):
TGGAAATAGATATACGAAATGGATATATGAATCAGTTATATGGAAATAGATATACGAAATGATTA
TAAGAATAGTTGTA
Found at i:1409940 original size:40 final size:40
Alignment explanation
Indices: 1409891--1410080 Score: 245
Period size: 40 Copynumber: 4.8 Consensus size: 40
1409881 GGGCTTCCAG
* * * * * *
1409891 AGTATAAACAGGGGCACGTAAGTTCATTCAGGGGTACTGA
1 AGTACAAACAGGGGCACATATGTGCAATCAGGGGTACCGA
**
1409931 AGTACAAACAGGGGCACATATGTGCAATCAGGGGTACTAA
1 AGTACAAACAGGGGCACATATGTGCAATCAGGGGTACCGA
* *
1409971 AGTACAAATAGGGCCACATATGTGCAATCAGGGGTACCGA
1 AGTACAAACAGGGGCACATATGTGCAATCAGGGGTACCGA
* * *
1410011 AGTACAAACAAGGCCACATATGTGCAATCAGGTGTACCGA
1 AGTACAAACAGGGGCACATATGTGCAATCAGGGGTACCGA
* *
1410051 AGTACAAATAGGGGCACGTATGTGCAATCA
1 AGTACAAACAGGGGCACATATGTGCAATCA
1410081 ACAATAATTA
Statistics
Matches: 133, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 133 1.00
ACGTcount: A:0.36, C:0.18, G:0.27, T:0.19
Consensus pattern (40 bp):
AGTACAAACAGGGGCACATATGTGCAATCAGGGGTACCGA
Found at i:1409942 original size:20 final size:19
Alignment explanation
Indices: 1409891--1410020 Score: 62
Period size: 20 Copynumber: 6.5 Consensus size: 19
1409881 GGGCTTCCAG
* *
1409891 AGTATAAACAGGGGCACGTA
1 AGTACAAACAGGGGTAC-TA
* **
1409911 AGTTCATTCAGGGGTACTGA
1 AGTACAAACAGGGGTACT-A
*
1409931 AGTACAAACAGGGGCACATA
1 AGTACAAACAGGGGTAC-TA
* * *
1409951 TGTGCAATCAGGGGTACTAA
1 AGTACAAACAGGGGTACT-A
* **
1409971 AGTACAAATAGGGCCACATA
1 AGTACAAACAGGGGTAC-TA
* * * *
1409991 TGTGCAATCAGGGGTACCGA
1 AGTACAAACAGGGGTA-CTA
1410011 AGTACAAACA
1 AGTACAAACA
1410021 AGGCCACATA
Statistics
Matches: 76, Mismatches: 29, Indels: 10
0.66 0.25 0.09
Matches are distributed among these distances:
19 2 0.03
20 71 0.93
21 3 0.04
ACGTcount: A:0.37, C:0.18, G:0.27, T:0.18
Consensus pattern (19 bp):
AGTACAAACAGGGGTACTA
Found at i:1416746 original size:35 final size:36
Alignment explanation
Indices: 1416707--1416799 Score: 154
Period size: 35 Copynumber: 2.6 Consensus size: 36
1416697 ACTGATACTT
1416707 TGATTCGCATGTTAAGCATGCTATTATTCTGATT-A
1 TGATTCGCATGTTAAGCATGCTATTATTCTGATTCA
*
1416742 TGATTCGCATGTTGAGCATGCTATTATTCTGATTCA
1 TGATTCGCATGTTAAGCATGCTATTATTCTGATTCA
*
1416778 -GAATCGCATGTTAAGCATGCTA
1 TGATTCGCATGTTAAGCATGCTA
1416800 CAATGTTAAA
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
35 53 0.98
36 1 0.02
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.39
Consensus pattern (36 bp):
TGATTCGCATGTTAAGCATGCTATTATTCTGATTCA
Found at i:1417420 original size:15 final size:15
Alignment explanation
Indices: 1417400--1417429 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1417390 AAAAACTATT
*
1417400 ATATTTTGGTATTTG
1 ATATTTTGGAATTTG
1417415 ATATTTTGGAATTTG
1 ATATTTTGGAATTTG
1417430 TTTTATTTCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.20, T:0.57
Consensus pattern (15 bp):
ATATTTTGGAATTTG
Found at i:1417600 original size:21 final size:21
Alignment explanation
Indices: 1417576--1417626 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
1417566 TGTCAAATTT
*
1417576 AACTCAACAATTGTATTTTC-A
1 AACTCAACAATT-CATTTTCGA
* *
1417597 AACTCAATACTTCATTTTCGA
1 AACTCAACAATTCATTTTCGA
1417618 AACTCAACA
1 AACTCAACA
1417627 CTACCTACTC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 6 0.24
21 19 0.76
ACGTcount: A:0.39, C:0.24, G:0.04, T:0.33
Consensus pattern (21 bp):
AACTCAACAATTCATTTTCGA
Found at i:1420119 original size:25 final size:25
Alignment explanation
Indices: 1420071--1420159 Score: 106
Period size: 25 Copynumber: 3.6 Consensus size: 25
1420061 GAATTCTTTG
* * *
1420071 GAAAGCCTATGTGGCGACTTCTCTA
1 GAAAGCCTTTGTGGCGAATCCTCTA
* *
1420096 GAAAGCCTTTGTGGTGAATCCTCTG
1 GAAAGCCTTTGTGGCGAATCCTCTA
* *
1420121 GAAATCCTTTGTGGCAAATCCTCTA
1 GAAAGCCTTTGTGGCGAATCCTCTA
*
1420146 GAAAGCATTTGTGG
1 GAAAGCCTTTGTGG
1420160 TGGGTTTTCG
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 53 1.00
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (25 bp):
GAAAGCCTTTGTGGCGAATCCTCTA
Found at i:1422980 original size:22 final size:22
Alignment explanation
Indices: 1422935--1422992 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
1422925 ATCCAGTGTT
* *
1422935 ATGTCTCGAGACATAAGGGTCA
1 ATGTCTTGAAACATAAGGGTCA
*
1422957 ATTTCTTGAAACATATAGGG-CA
1 ATGTCTTGAAACATA-AGGGTCA
*
1422979 ATGTCTTGAGACAT
1 ATGTCTTGAAACAT
1422993 GCAAGCCTAC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
22 26 0.87
23 4 0.13
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (22 bp):
ATGTCTTGAAACATAAGGGTCA
Found at i:1433407 original size:62 final size:58
Alignment explanation
Indices: 1433304--1433438 Score: 146
Period size: 62 Copynumber: 2.2 Consensus size: 58
1433294 CAATTTAGTC
* * ** * *
1433304 CTTTTCTATTGTTATTTTTATTATTATTAAACTAATTAGTTTAT-TATTATTACTATTATTT
1 CTTTT-TATTTTTATTTTTATCATTATTAAACTAAAAAGTTT-TGCATTATTA-TATT-TCT
*
1433365 CTCTTTTATTTATTATTTTTATCATTATTAAATTAAAAAGTTTTGCATTATTATATTTCT
1 CT-TTTTATTT-TTATTTTTATCATTATTAAACTAAAAAGTTTTGCATTATTATATTTCT
1433425 CTTTTTATTTTTAT
1 CTTTTTATTTTTAT
1433439 ATTCATCAAA
Statistics
Matches: 64, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
58 4 0.06
59 8 0.12
60 4 0.06
61 11 0.17
62 37 0.58
ACGTcount: A:0.27, C:0.07, G:0.03, T:0.62
Consensus pattern (58 bp):
CTTTTTATTTTTATTTTTATCATTATTAAACTAAAAAGTTTTGCATTATTATATTTCT
Found at i:1434215 original size:3 final size:3
Alignment explanation
Indices: 1434209--1434249 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
1434199 ACTAATTGGT
* *
1434209 TTA TTA TTA TTA TTA TTA GTA TTA TTA TTA TTA GTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1434250 TCTCTTTTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:1434233 original size:15 final size:15
Alignment explanation
Indices: 1434213--1434249 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
1434203 ATTGGTTTAT
1434213 TATTATTATTATTAG
1 TATTATTATTATTAG
1434228 TATTATTATTATTAG
1 TATTATTATTATTAG
1434243 TATTATT
1 TATTATT
1434250 TCTCTTTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.62
Consensus pattern (15 bp):
TATTATTATTATTAG
Found at i:1441458 original size:13 final size:13
Alignment explanation
Indices: 1441440--1441465 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1441430 AAAGGCCCAA
1441440 GAAGGAAAGTATT
1 GAAGGAAAGTATT
1441453 GAAGGAAAGTATT
1 GAAGGAAAGTATT
1441466 AGACTGCGGA
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:0.46, C:0.00, G:0.31, T:0.23
Consensus pattern (13 bp):
GAAGGAAAGTATT
Found at i:1442177 original size:14 final size:14
Alignment explanation
Indices: 1442158--1442197 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
1442148 TTGATTGGCT
1442158 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
1442172 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
1442186 GGAAAATGTTTT
1 GTAAAATGTTTT
1442198 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:1442210 original size:34 final size:35
Alignment explanation
Indices: 1442166--1442232 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
1442156 CTGTAAAATG
* *
1442166 TTTTCCGTAAAATGA-TTTCTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGACTTACTGGAAAATATTTTAC
*
1442200 TTTTCTGTAAAATGACTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGACTTACTGGAAAATATTTT
1442233 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 14 0.48
35 15 0.52
ACGTcount: A:0.31, C:0.10, G:0.13, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGACTTACTGGAAAATATTTTAC
Found at i:1442219 original size:20 final size:20
Alignment explanation
Indices: 1442181--1442220 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
1442171 CGTAAAATGA
**
1442181 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGACTTACT
*
1442201 TTTCTGTAAAATGACTTACT
1 TTTCTGGAAAATGACTTACT
1442221 GGAAAATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.47
Consensus pattern (20 bp):
TTTCTGGAAAATGACTTACT
Found at i:1455791 original size:16 final size:16
Alignment explanation
Indices: 1455770--1455800 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1455760 CTTAGAACTT
*
1455770 TTCTTTATTTTTCTTG
1 TTCTTTATTTCTCTTG
1455786 TTCTTTATTTCTCTT
1 TTCTTTATTTCTCTT
1455801 TAAATTTTTC
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:0.06, C:0.16, G:0.03, T:0.74
Consensus pattern (16 bp):
TTCTTTATTTCTCTTG
Found at i:1459878 original size:45 final size:45
Alignment explanation
Indices: 1459758--1459870 Score: 163
Period size: 45 Copynumber: 2.5 Consensus size: 45
1459748 GAGGAGGGAT
* ** *
1459758 CAAGGTGAAAACCCACAAAGGGCGCTTTGAGTCTTAAAAAGAGAC
1 CAAGGTGAAAACCCGCAAAGGGCGCTTTGAGTCAAAAAAAAAGAC
* * *
1459803 TAAGGTGAAAACCCGCAAAGGGTGCTTTGAGTCAAAAAAAAAGGC
1 CAAGGTGAAAACCCGCAAAGGGCGCTTTGAGTCAAAAAAAAAGAC
1459848 CAAGGTGAAAACCCGCAAAGGGC
1 CAAGGTGAAAACCCGCAAAGGGC
1459871 ACCTTGAGAC
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 59 1.00
ACGTcount: A:0.41, C:0.19, G:0.27, T:0.13
Consensus pattern (45 bp):
CAAGGTGAAAACCCGCAAAGGGCGCTTTGAGTCAAAAAAAAAGAC
Found at i:1461069 original size:44 final size:42
Alignment explanation
Indices: 1461005--1461512 Score: 354
Period size: 44 Copynumber: 11.8 Consensus size: 42
1460995 GTAAAACCAC
*
1461005 AAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-CA
* * *
1461048 ATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAGTGA
1 A-AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-CA
* * * * *** *
1461092 CAAATCTTATCTCTCTGAAATTGCAG-AGAGTAGATCGCATC-
1 -AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCA
* * * * *
1461133 TAGTCTTATCTCCCTGATGTTTCAGCGGAGCAGACTGTATAAGC-
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-T-TA-AAGCA
1461177 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-CA
* * *
1461220 ATAACCCTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGCAA
1 A-AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGC-A
* *
1461263 GCAAATCTTATCCCCCTGAAGTTGCAGTGGGGCAGATTGAATATG-A
1 --AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AA-A-GCA
* * *
1461309 CGAATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTAAAGCCA
1 -AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-CA
* * * *
1461353 ACAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTGAAGTC-
1 A-AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-CA
* * * * * *
1461396 AAGTCTTATCCCCCTGAAGTTGTAGTGGGGCAGACTGAAG--
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCA
* * * *
1461436 -AGTCTTATCTCCTTGAAGTTGCAGCGGAGCAGACTGAGCAAGC-
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTA--AAGCA
** *
1461479 AGGTCTTATAC-CCCTAAAGTTGCAGTGGAGCAGA
1 AAATCTTAT-CTCCCTGAAGTTGCAGTGGAGCAGA
1461513 CAGAAGAAAG
Statistics
Matches: 372, Mismatches: 68, Indels: 49
0.76 0.14 0.10
Matches are distributed among these distances:
39 28 0.08
40 19 0.05
41 9 0.02
42 42 0.11
43 16 0.04
44 219 0.59
45 35 0.09
46 2 0.01
47 1 0.00
48 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (42 bp):
AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCA
Found at i:1461337 original size:133 final size:131
Alignment explanation
Indices: 1461050--1461434 Score: 402
Period size: 133 Copynumber: 2.9 Consensus size: 131
1461040 TAAAGCCAAT
* * * ** * * * *
1461050 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAG-TGACAAATCTTATCTCTCTGAAATT
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCAAC-AACCCTATCTCCCTGAAGTT
* * * * * * * * * * * * *
1461114 GCAG-AGAGTAGATCGCA-TCTAGTCTTATCTCCCTGATGTTTCAGCGGAGCAGACTGTATAAG-
65 GCAGTGGAGCAGATAGAAGTCAAATCTTATCCCCCTGAAGTTGCAGTGGGGCAGACTGAATATGA
*
1461176 CA
130 CG
* *
1461178 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAACCCTATCTCCCTGAAGTTG
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCAACAACCCTATCTCCCTGAAGTTG
*
1461243 CAGTGGAGCAGACTAAGCAAG-CAAATCTTATCCCCCTGAAGTTGCAGTGGGGCAGATTGAATAT
66 CAGTGGAGCAGA-T-AG-AAGTCAAATCTTATCCCCCTGAAGTTGCAGTGGGGCAGACTGAATAT
1461307 GACG
128 GACG
* *
1461311 AATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTAAAGCCAACAATCCTATCTCCCTGAAGTTG
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCAACAACCCTATCTCCCTGAAGTTG
* * * * *
1461376 TAGTGGAGCGGATTGAAGTCAAGTCTTATCCCCCTGAAGTTGTAGTGGGGCAGACTGAA
66 CAGTGGAGCAGATAGAAGTCAAATCTTATCCCCCTGAAGTTGCAGTGGGGCAGACTGAA
1461435 GAGTCTTATC
Statistics
Matches: 215, Mismatches: 34, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
128 57 0.27
129 7 0.03
130 4 0.02
131 39 0.18
132 36 0.17
133 72 0.33
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (131 bp):
AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCAACAACCCTATCTCCCTGAAGTTG
CAGTGGAGCAGATAGAAGTCAAATCTTATCCCCCTGAAGTTGCAGTGGGGCAGACTGAATATGAC
G
Found at i:1461500 original size:125 final size:130
Alignment explanation
Indices: 1461134--1461509 Score: 349
Period size: 133 Copynumber: 2.9 Consensus size: 130
1461124 GATCGCATCT
* * * * * * * * *
1461134 AGTCTTATCTCCCTGATGTTTCAGCGGAGCAGACTGTATAAG-CAAATCTTATCTCCCTGAAGTT
1 AGTCTTATCCCCCTGAAGTTGCAGTGGGGCAGACTGAATATGAC-GATCTTATCTCCCTAAAGTT
* * * * * * *
1461198 GCAGTGGAGCAGATTAAAGCCAATAACCCTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAA
65 GCAGCGGAGCAGACTAAAGCCAACAATCCTATCTCCCTAAAGTTGCAGTGGAGCGGA-T-TG-AA
1461263 G-CA
127 GTCA
* *
1461266 AATCTTATCCCCCTGAAGTTGCAGTGGGGCAGATTGAATATGACGAATCTTATCTCCCTAAAGTT
1 AGTCTTATCCCCCTGAAGTTGCAGTGGGGCAGACTGAATATGACG-ATCTTATCTCCCTAAAGTT
* * * * *
1461331 GTAGTGGAGCAGATTAAAGCCAACAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTGAAGTC
65 GCAGCGGAGCAGACTAAAGCCAACAATCCTATCTCCCTAAAGTTGCAGTGGAGCGGATTGAAGTC
1461396 A
130 A
* * *
1461397 AGTCTTATCCCCCTGAAGTTGTAGTGGGGCAGACTG-A-A-GA-G-TCTTATCTCCTTGAAGTTG
1 AGTCTTATCCCCCTGAAGTTGCAGTGGGGCAGACTGAATATGACGATCTTATCTCCCTAAAGTTG
* * *
1461457 CAGCGGAGCAGACT-GAG-CAAGCAGGTCTTATAC-CCCTAAAGTTGCAGTGGAGC
66 CAGCGGAGCAGACTAAAGCCAA-CA-ATCCTAT-CTCCCTAAAGTTGCAGTGGAGC
1461510 AGACAGAAGA
Statistics
Matches: 208, Mismatches: 30, Indels: 19
0.81 0.12 0.07
Matches are distributed among these distances:
123 3 0.01
124 4 0.02
125 51 0.25
126 1 0.00
127 1 0.00
128 2 0.01
129 1 0.00
130 4 0.02
131 36 0.17
132 34 0.16
133 71 0.34
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (130 bp):
AGTCTTATCCCCCTGAAGTTGCAGTGGGGCAGACTGAATATGACGATCTTATCTCCCTAAAGTTG
CAGCGGAGCAGACTAAAGCCAACAATCCTATCTCCCTAAAGTTGCAGTGGAGCGGATTGAAGTCA
Found at i:1462980 original size:22 final size:21
Alignment explanation
Indices: 1462934--1462980 Score: 51
Period size: 22 Copynumber: 2.1 Consensus size: 21
1462924 TATTAAACTA
1462934 ATTAGTTTTTTTTATTATTACT
1 ATTAGTTTTTTTTATTATTA-T
*
1462956 ATTATTTTTCTTTTATTTATT-T
1 ATTAGTTTT-TTTTA-TTATTAT
1462978 ATT
1 ATT
1462981 TATTATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
22 12 0.55
23 5 0.23
24 5 0.23
ACGTcount: A:0.21, C:0.04, G:0.02, T:0.72
Consensus pattern (21 bp):
ATTAGTTTTTTTTATTATTAT
Found at i:1467544 original size:43 final size:43
Alignment explanation
Indices: 1467428--1467635 Score: 287
Period size: 43 Copynumber: 4.9 Consensus size: 43
1467418 AGTTCGTACA
* * *
1467428 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAC-AGATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAAACACAAG-TCG
***
1467471 ATGCCGTTGTCCC-GACAG-GGTCTTACACGAAAACACAAGTCG
1 ATGCCAACGTCCCAGAC-GTGGTCTTACACGAAAACACAAGTCG
*
1467513 ATGCCAACGTCCCAGGCGTGGTCTTACACGAAAACACAAGTCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAAACACAAGTCG
*
1467556 ATGCCAACGTCCCAGGCGTGGTCTTACACGAAAACACAAGTCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAAACACAAGTCG
* *
1467599 ATGCCAATGTCCCAGACGTGGTCTTTCACGAAAACAC
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAAACAC
1467636 TTATCAAAAA
Statistics
Matches: 148, Mismatches: 13, Indels: 8
0.88 0.08 0.05
Matches are distributed among these distances:
42 32 0.22
43 116 0.78
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.19
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGAAAACACAAGTCG
Found at i:1468640 original size:87 final size:87
Alignment explanation
Indices: 1468494--1468667 Score: 339
Period size: 87 Copynumber: 2.0 Consensus size: 87
1468484 TATGTTTTAA
1468494 CATAACATATATTATTTATTTGTTATTTTACTTATTTAACCTTTATTAATTAATTTAATAAACAT
1 CATAACATATATTATTTATTTGTTATTTTACTTATTTAACCTTTATTAATTAATTTAATAAACAT
1468559 ATAATATAAGGGTAATGTTGAC
66 ATAATATAAGGGTAATGTTGAC
*
1468581 CATAACATATTTTATTTATTTGTTATTTTACTTATTTAACCTTTATTAATTAATTTAATAAACAT
1 CATAACATATATTATTTATTTGTTATTTTACTTATTTAACCTTTATTAATTAATTTAATAAACAT
1468646 ATAATATAAGGGTAATGTTGAC
66 ATAATATAAGGGTAATGTTGAC
1468668 TATTGCCACC
Statistics
Matches: 86, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
87 86 1.00
ACGTcount: A:0.37, C:0.08, G:0.07, T:0.48
Consensus pattern (87 bp):
CATAACATATATTATTTATTTGTTATTTTACTTATTTAACCTTTATTAATTAATTTAATAAACAT
ATAATATAAGGGTAATGTTGAC
Found at i:1469491 original size:40 final size:40
Alignment explanation
Indices: 1469436--1469648 Score: 363
Period size: 40 Copynumber: 5.3 Consensus size: 40
1469426 TCAGAACACT
*
1469436 GGCATTAAGCCTGCTAGACATTAAGTCTGTAAAGTTCATC
1 GGCATTAAGCCTGCTAGACATTAAGTCTGTAAAGTTCACC
*
1469476 GGCATTAAGCCTGCTAGACATTAAGTCTGTAAAGTTCATC
1 GGCATTAAGCCTGCTAGACATTAAGTCTGTAAAGTTCACC
* *
1469516 GGCATTAAGCCTGCTAGACATTAAGTCTGTAACGCTCACC
1 GGCATTAAGCCTGCTAGACATTAAGTCTGTAAAGTTCACC
* *
1469556 GGTATTAAGCCTGCTAGACATTAAATCTGTAAAGTTCACC
1 GGCATTAAGCCTGCTAGACATTAAGTCTGTAAAGTTCACC
*
1469596 GGCATTAAGCCTGGTAGACATTAAGTCTGTAAAGTTCACC
1 GGCATTAAGCCTGCTAGACATTAAGTCTGTAAAGTTCACC
1469636 GGCATTAAGCCTG
1 GGCATTAAGCCTG
1469649 NNNNNNNNNN
Statistics
Matches: 163, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 163 1.00
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.28
Consensus pattern (40 bp):
GGCATTAAGCCTGCTAGACATTAAGTCTGTAAAGTTCACC
Found at i:1470641 original size:43 final size:43
Alignment explanation
Indices: 1470576--1470667 Score: 148
Period size: 43 Copynumber: 2.1 Consensus size: 43
1470566 CAAAATTTGC
*
1470576 CCACACTATACTAGGGCCGAATGTTTATATACTTCATACAAAT
1 CCACACTATACTAGGGCCGAATGTTCATATACTTCATACAAAT
** *
1470619 CCACACTATGTTAGGGCTGAATGTTCATATACTTCATACAAAT
1 CCACACTATACTAGGGCCGAATGTTCATATACTTCATACAAAT
1470662 CCACAC
1 CCACAC
1470668 ATTTCTTTTA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.34, C:0.25, G:0.12, T:0.29
Consensus pattern (43 bp):
CCACACTATACTAGGGCCGAATGTTCATATACTTCATACAAAT
Found at i:1476664 original size:40 final size:40
Alignment explanation
Indices: 1476604--1476820 Score: 326
Period size: 40 Copynumber: 5.4 Consensus size: 40
1476594 TCAGGACATT
* * *
1476604 GGCATTAAGCCTGCTAGACATTAAATTTGTAAAGTTCGCC
1 GGCATTAAGCCTGCTAGACATTAAGTCTGTAAAGTTCACC
* * *
1476644 GGCAATAAGCTTGCTAGACATTAAGTCTGTAAAGTTCATC
1 GGCATTAAGCCTGCTAGACATTAAGTCTGTAAAGTTCACC
* *
1476684 GGCATTAAGCCTGCTAGACATTAAGTCTGTAATGCTCACC
1 GGCATTAAGCCTGCTAGACATTAAGTCTGTAAAGTTCACC
* *
1476724 GGTATTAAGCCTGCTAGACATTAAATCTGTAAAGTTCACC
1 GGCATTAAGCCTGCTAGACATTAAGTCTGTAAAGTTCACC
* *
1476764 GGCATTAAGCCTGGTAGACATTAAGTCTATAAAGTTCACC
1 GGCATTAAGCCTGCTAGACATTAAGTCTGTAAAGTTCACC
1476804 GGCATTAAGCCTGCTAG
1 GGCATTAAGCCTGCTAG
1476821 GCACAGGACC
Statistics
Matches: 157, Mismatches: 20, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 157 1.00
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (40 bp):
GGCATTAAGCCTGCTAGACATTAAGTCTGTAAAGTTCACC
Found at i:1479751 original size:11 final size:11
Alignment explanation
Indices: 1479735--1479762 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
1479725 TAGAACTTTT
1479735 ACTTGACCTTA
1 ACTTGACCTTA
1479746 ACTTGACCTTA
1 ACTTGACCTTA
1479757 ACTTGA
1 ACTTGA
1479763 TAATTTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.29, C:0.25, G:0.11, T:0.36
Consensus pattern (11 bp):
ACTTGACCTTA
Found at i:1481085 original size:37 final size:37
Alignment explanation
Indices: 1481044--1481126 Score: 130
Period size: 37 Copynumber: 2.2 Consensus size: 37
1481034 ATGTAGATCT
* * *
1481044 TTGGTGTTTGTGGCTGGGGCACCTCGAGTGCATTATC
1 TTGGTGTGTGTGACTGGGGCACCTCGAGTGCAATATC
*
1481081 TTGGTGTGTGTGACTGGGGCACCTCTAGTGCAATATC
1 TTGGTGTGTGTGACTGGGGCACCTCGAGTGCAATATC
1481118 TTGGTGTGT
1 TTGGTGTGT
1481127 TTGGATGGAG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.12, C:0.17, G:0.35, T:0.36
Consensus pattern (37 bp):
TTGGTGTGTGTGACTGGGGCACCTCGAGTGCAATATC
Found at i:1484191 original size:16 final size:17
Alignment explanation
Indices: 1484160--1484198 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
1484150 GAAACTAAGA
*
1484160 TAAAAAAAAATCATTTT
1 TAAAATAAAATCATTTT
1484177 TAAAATAAAAT-ATTTT
1 TAAAATAAAATCATTTT
*
1484193 AAAAAT
1 TAAAAT
1484199 GCTGACATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (17 bp):
TAAAATAAAATCATTTT
Found at i:1489735 original size:25 final size:25
Alignment explanation
Indices: 1489707--1489773 Score: 125
Period size: 25 Copynumber: 2.7 Consensus size: 25
1489697 TACATGTATT
1489707 CTCACACGAGCTGTGAATCAGAATG
1 CTCACACGAGCTGTGAATCAGAATG
1489732 CTCACACGAGCTGTGAATCAGAATG
1 CTCACACGAGCTGTGAATCAGAATG
*
1489757 CTCACACGAGCTATGAA
1 CTCACACGAGCTGTGAA
1489774 AATGGGCCTG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.33, C:0.25, G:0.22, T:0.19
Consensus pattern (25 bp):
CTCACACGAGCTGTGAATCAGAATG
Found at i:1492114 original size:10 final size:10
Alignment explanation
Indices: 1492087--1492120 Score: 59
Period size: 10 Copynumber: 3.3 Consensus size: 10
1492077 ATTTGGAGAC
1492087 TTTAAAATCA
1 TTTAAAATCA
1492097 TATTAAAATCA
1 T-TTAAAATCA
1492108 TTTAAAATCA
1 TTTAAAATCA
1492118 TTT
1 TTT
1492121 TTCAGGTGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 13 0.57
11 10 0.43
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (10 bp):
TTTAAAATCA
Found at i:1492701 original size:593 final size:593
Alignment explanation
Indices: 1491068--1494437 Score: 3818
Period size: 591 Copynumber: 5.7 Consensus size: 593
1491058 GGCTATTAAT
* * * *
1491068 GCGACGGAGCACCGTAAGCTGTCACATGAGAT-AAAATTTATCTAATATTCTAAGGTAGGTTAAA
1 GCGACGAAGCACCATAAGCTGCCACATGAGATAAAAATTT-TCTAATATTCTAAGATAGGTTAAA
* * * * * * *
1491132 AAAAGCAGCCCAATAGAGATATAGCAGCAACGAACTAGCGATAGTGGCATCTTGAAATTATAAAA
65 AAAGGCAGTCCAATAGAGGTATAGCGGCAACGAACTAGCGATACTGACATCTTGAAATTGTAAAA
* * * *
1491197 CACCTTACTCTTTTTTACTTACAGTATCATTACAAGGTATTACCGGAGCACTTTTAAACTTAAGA
130 CACCTCACTCTTTTTTACCTACAGTATCATTACAAGGTGTTATCGGAGCACTTTTAAACTTAAGA
1491262 CAAAA-ATTATCTTTTATAAAAATATTTATTTCGCAATATTTTATGGACATATTATCAAATCATA
195 CAAAATATT-TCTTTTATAAAAATATTTATTTCGCAATATTTTATGGAC--ATTATCAAATCATA
* * * * * * * *
1491326 AAATGAATATTTAAAACTCTTTAGCTTAACTTAAAGTTATACGAAGTATTTATATCTCCTTTGTT
257 AAACGAATATTTAAAACTCTTTATCTTAACTCAAAGTTATACGGAGTATTTAAAGCTCATTTGCT
* * * *
1491391 TAACCCAGGATTATACAGGTAGAGAAAGATAAAAGTTCTGGTAAGAATTAAAACTTAAATAACCA
322 TAACTCAGGATTATACAGGTAGAGAAAGATAAAAGTTTTGCTAAGAATTAAAACTTAAATAACCT
1491456 AAATAAAATTATAGAAATAAGAT-GCAATCAATTTGGAGACTTTAAAATCATATTAAAACCATTT
387 AAATAAAATTATAGAAATAAGATAG-AATCAATTTGGAGACTTTAAAATCATATTAAAACCATTT
* * ** * * * * *
1491520 AAAATAATTTTTAAGGTGATTATAGGTGTTTGAGGTTGAGTATGAACTTCGGCAAGCTTAAAACA
451 AAAATCATTTTTCAGGTGATTGGAAGTGTCTAAGGTTGAGTATGAACTTCGGCGAGCTCAAAACA
** * * * *
1491585 AATATAA-TAGTGCAGGAGCTTTGTCTAGG-GATAGGTATTGATATTTATTTATTTTTGTTC-TT
516 ACCAAAACAACT-CAGGAGCTTTGTCTAGGAGATATGTATTG--A--TATTTATTTTTGTTCTTT
1491647 TTTGGAAGATTTTGAGCC
576 TTTGGAAGATTTTGAGCC
* * * *
1491665 GCGAGGAAGCACCCTAAGCTGCCACGTGAGATAAAAATTTTCTAATATTCTAAGATACGTTAAAA
1 GCGACGAAGCACCATAAGCTGCCACATGAGATAAAAATTTTCTAATATTCTAAGATAGGTT-AAA
* * * * * * * * *
1491730 AAAGG--GTCTAGTATAGGCATA-CTGGTAACGAAATAGC-ATTCATGGCATCTTGCAATTGTAA
65 AAAGGCAGTCCAATAGAGGTATAGC-GGCAACGAACTAGCGATAC-TGACATCTTGAAATTGTAA
* * * *
1491791 AACACCTCACACTTTTTTACCTACA-AATCATTACAAGGTGTTATCGGAACACTTTTAATCTTAA
128 AACACCTCACTCTTTTTTACCTACAGTATCATTACAAGGTGTTATCGGAGCACTTTTAAACTTAA
* * * *
1491855 GATAAAATTTTTCTTTTATAAAAATATTAATTTCGCAATATGTTATGGACATTATCAAATCATAA
193 GACAAAATATTTCTTTTATAAAAATATTTATTTCGCAATATTTTATGGACATTATCAAATCATAA
* * * * *
1491920 AAC--ATATTTAAAAATCTTTAGCTTAACTCAAAGTTATACTGAGTATTTGAAGTTCATTTGCTT
258 AACGAATATTTAAAACTCTTTATCTTAACTCAAAGTTATACGGAGTATTTAAAGCTCATTTGCTT
* * * *
1491983 AACTAAGGGTTATATAGGTAGAGAAAGATAAATGTTTTGCTAAGAATTAAAACTTAAATAACCTA
323 AACTCAGGATTATACAGGTAGAGAAAGATAAAAGTTTTGCTAAGAATTAAAACTTAAATAACCTA
* * * *
1492048 AATAAAATTATAAAAATAAGATAGAGTAAATTTGGAGACTTTAAAATCATATTAAAATCATTTAA
388 AATAAAATTATAGAAATAAGATAGAATCAATTTGGAGACTTTAAAATCATATTAAAACCATTTAA
* *
1492113 AATCATTTTTCAGGTGATTGGAAGTATCTAAGGTTGAGTATGAACTTCGGCGAGCTCAAAACGAC
453 AATCATTTTTCAGGTGATTGGAAGTGTCTAAGGTTGAGTATGAACTTCGGCGAGCTCAAAACAAC
* * *
1492178 CAAAACAACTCATGAGCTTTGTCTAGGAGATATGTATTGATATTTATTTTTGTTAATTTTTTAGA
518 CAAAACAACTCAGGAGCTTTGTCTAGGAGATATGTATTGATATTTATTTTTGTT-CTTTTTTGGA
* *
1492243 AGATTTTCAGCT
582 AGATTTTGAGCC
* * *** *
1492255 GCGATGAAGCACCATAATCTGCCACATGAGATAATTTTTTTCAAATATTCTAAGATAGGTT-AAA
1 GCGACGAAGCACCATAAGCTGCCACATGAGATAAAAATTTTCTAATATTCTAAGATAGGTTAAAA
* *
1492319 AAGGCAGTCCAATAGAGGTATAGCGGCAGCGAACTAGCGATACTAACATCTTGAAATTGTAAAAC
66 AAGGCAGTCCAATAGAGGTATAGCGGCAACGAACTAGCGATACTGACATCTTGAAATTGTAAAAC
* * * * * *
1492384 ACCTTACTATTTTTTAACTACAGTATCATTATAAGGTGTTATCGGAGCAATTTTAAATTTAAGAC
131 ACCTCACTCTTTTTTACCTACAGTATCATTACAAGGTGTTATCGGAGCACTTTTAAACTTAAGAC
* *
1492449 AAAATATTTCTATTATAAAAATATTTATTTTGCAATATTTTATGGACATTATCAAATCATAAAAC
196 AAAATATTTCTTTTATAAAAATATTTATTTCGCAATATTTTATGGACATTATCAAATCATAAAAC
* * * **
1492514 AAATATTTAGAACTCTTTATCTTAACTCAAAGTTATACGGAGCATTTAAAGCTCATTTATTTAAC
261 GAATATTTAAAACTCTTTATCTTAACTCAAAGTTATACGGAGTATTTAAAGCTCATTTGCTTAAC
* * *
1492579 TCAGTATTATACAGGTAGAGAAAAATAAAAGTTCTGCTAAGAATTAAAACTTAAATAACCTAAAT
326 TCAGGATTATACAGGTAGAGAAAGATAAAAGTTTTGCTAAGAATTAAAACTTAAATAACCTAAAT
* *
1492644 AAAATTATAGAAATAAGATAGATTCAATTTGGAGACTTTAAAATCATATTAAAATCATTTAAAAA
391 AAAATTATAGAAATAAGATAGAATCAATTTGGAGACTTTAAAATCATATTAAAACCATTT-AAAA
* * * *
1492709 T-ATTTTTCAAGTGATCGG-AGATGTCTGAGGTTGAGTATGAACTTCGGCGAGCTCAAAACGACC
455 TCATTTTTCAGGTGATTGGAAG-TGTCTAAGGTTGAGTATGAACTTCGGCGAGCTCAAAACAACC
* * * *
1492772 AAAACAACGCAGGAGCTTTGTCCAGGGGATATGTATTGATATTTATTTTTGTTCTTTTTTTGAAG
519 AAAACAACTCAGGAGCTTTGTCTAGGAGATATGTATTGATATTTATTTTTGTTCTTTTTTGGAAG
1492837 ATTTTGAGCC
584 ATTTTGAGCC
* * * * * * * *
1492847 GTGACAAAGCACCCTAAGGTGCAACGTGAGATAAAAAATTTCCAATATTCTAAGATAGGTTAAAA
1 GCGACGAAGCACCATAAGCTGCCACATGAGATAAAAATTTTCTAATATTCTAAGATAGGTTAAAA
* * * * ** * * * *
1492912 AATTG--GTCCAGTAGAGGCATAGCGACAGTGGAA-TAGTGGTAGTGGA-ATCTTGAAATTTTAA
66 AA-GGCAGTCCAATAGAGGTATAGCGGCA-ACGAACTAGCGATACT-GACATCTTGAAATTGTAA
* * ** *
1492973 AACACCTCACTCCTTTTTACCTATAGTATCATTACAAGGTGTTATCAAAGTACTTTTAAACTTAA
128 AACACCTCACTCTTTTTTACCTACAGTATCATTACAAGGTGTTATCGGAGCACTTTTAAACTTAA
* *
1493038 GACAAAAT-TTTCTTTTATAAAGATATTTATTTCGGAATATTTTATGGACATTATCAAATCATAA
193 GACAAAATATTTCTTTTATAAAAATATTTATTTCGCAATATTTTATGGACATTATCAAATCATAA
* * ** *
1493102 AACGAATATTTAAACCTCTTTAAC-T-ACTCAAAGTTATACTAAGTATTTAAAGCTCCTTTGCTT
258 AACGAATATTTAAAACTCTTTATCTTAACTCAAAGTTATACGGAGTATTTAAAGCTCATTTGCTT
* * * *
1493165 AACTCAGGGTTATATGAGTTCAGA-AAA-ATAAAATTTTTGCTAAGAATTAAAACTTAAATAACC
323 AACTCAGGATTATA-CAGGT-AGAGAAAGATAAAAGTTTTGCTAAGAATTAAAACTTAAATAACC
* ** * *
1493228 TCAATAAAATTATAGATCTAAGAAAGAATGAATTTGGAGACTTTAAAATCATATTAAAACCATTT
386 TAAATAAAATTATAGAAATAAGATAGAATCAATTTGGAGACTTTAAAATCATATTAAAACCATTT
* * * * * * * * *
1493293 AAAATCATTTTTAAGGTGATCGTAGGTGTCTAAGGTTGAGCATGAATTTCAGCTAGCTTAAAACA
451 AAAATCATTTTTCAGGTGATTGGAAGTGTCTAAGGTTGAGTATGAACTTCGGCGAGCTCAAAACA
* * * *
1493358 ACC-AAACGA-TGTAGGAGCTTTGT-TCAGGAGATAGGTATTGGTACTTATTTATTTTTATTCTT
516 ACCAAAACAACT-CAGGAGCTTTGTCT-AGGAGATATGTATT-G-A--TATTTATTTTTGTTCTT
*
1493420 TTTTGGAAGATTTTGAGAC
575 TTTTGGAAGATTTTGAGCC
* * * * *
1493439 GTGGA-GAAGTACTC-T-A-TTGCCACATGAGATAAAAAAAATTTCTAATATTCTAAAATAGGTA
1 G-CGACGAAGCAC-CATAAGCTGCCACATGAGAT--AAAAATTTTCTAATATTCTAAGATAGGT-
* * * * * * *
1493500 AAAAAAGAAGAAGTAGTGGTCCAGTAGAGGTATACCGACAACGGAA-TAACTG-TAGTGACATCT
61 -TAAAA-AAG--GCA---GTCCAATAGAGGTATAGCGGCAAC-GAACTAGC-GATACTGACATCT
* *
1493563 TGAAATTGTAAAACACCTCACTC-TTTTTACCTACAGTATCATTACAAGGTGTTATTGGAGCACA
117 TGAAATTGTAAAACACCTCACTCTTTTTTACCTACAGTATCATTACAAGGTGTTATCGGAGCACT
* * *
1493627 TTTAAACATAAAAC-AAAT-TTTCTTTTATAAAAATATTTATTTCACAATATTTTATGGACATTA
182 TTTAAACTTAAGACAAAATATTTCTTTTATAAAAATATTTATTTCGCAATATTTTATGGACATTA
* * * *
1493690 TCAAATCATAAAACGAATATTTAAAACTCTTCATCTTAAATCAAAGTTATATGGAGTATTTGAAG
247 TCAAATCATAAAACGAATATTTAAAACTCTTTATCTTAACTCAAAGTTATACGGAGTATTTAAAG
* * *
1493755 CTCATTTGCTTAACTCAAGG-TTATATAGGTAGAGAAAGATAAATGTTTTGCTAAGAATGAAAAC
312 CTCATTTGCTTAACTC-AGGATTATACAGGTAGAGAAAGATAAAAGTTTTGCTAAGAATTAAAAC
* * * * * *
1493819 TTAAATAACCAAAATCAAATTCTAGATATAAGATGGAATTAATTT-GAGGACTTTAAAATCATAT
376 TTAAATAACCTAAATAAAATTATAGAAATAAGATAGAATCAATTTGGA-GACTTTAAAATCATAT
* * * *
1493883 TAAAACCATTTAAAATTAGTTTTCAAGTGATTGGAAGTATCTAAGGTTGAGTATGAACTTCGGCG
440 TAAAACCATTTAAAATCATTTTTCAGGTGATTGGAAGTGTCTAAGGTTGAGTATGAACTTCGGCG
* * * * *
1493948 ATCTCAAAACAACCAAACCAACACATGAGCTTTGTCTAGGGGATATGTATTGATATTTATTTTTG
505 AGCTCAAAACAACCAAAACAACTCAGGAGCTTTGTCTAGGAGATATGTATTGATATTTATTTTTG
* *
1494013 TTCTTTCTTGGAAGATATTT-AACC
570 TTCTTTTTTGGAAGAT-TTTGAGCC
** * * *** * *
1494037 GTTACAAAGCACCATAAGCTGCCACGTGAGATAATTTTGTTTTTCAAATATTCTAAGATAGGTTG
1 GCGACGAAGCACCATAAGCTGCCACATGAGATAA---AAATTTTCTAATATTCTAAGATAGGTTA
* * * * *
1494102 AAAAA-GCATTCCAATAGAGGTATAGTGGCAGCGAACTAGCGGTACTGGCATCTTGAAATTGTAA
63 AAAAAGGCAGTCCAATAGAGGTATAGCGGCAACGAACTAGCGATACTGACATCTTGAAATTGTAA
* * * * *
1494166 AAAAACTTACTCTTTTTTACCTACAATATCATTACAAGGGGTTATCGGAGCACTTTTAAACTTAA
128 AACACCTCACTCTTTTTTACCTACAGTATCATTACAAGGTGTTATCGGAGCACTTTTAAACTTAA
* * * *
1494231 GA-AAAAAATTTTCTTTTATAAAAGTATTTATTTTGAAATATTTTATGGACATTATCAAATCATA
193 GACAAAATA-TTTCTTTTATAAAAATATTTATTTCGCAATATTTTATGGACATTATCAAATCATA
** * * * * **
1494295 AAATAAATATTGAAAACTTTTTATTTTAACTCAAAGTTATACGTAGTATTTAAAGCTCATTTATT
257 AAACGAATATTTAAAACTCTTTATCTTAACTCAAAGTTATACGGAGTATTTAAAGCTCATTTGCT
* *
1494360 TAACTCAAGATTATACAGGTAGAGAAAGATAAAAGTTTTGCTAAGAATTGAAACTTAAATAACCT
322 TAACTCAGGATTATACAGGTAGAGAAAGATAAAAGTTTTGCTAAGAATTAAAACTTAAATAACCT
1494425 AAATAAAATTATA
387 AAATAAAATTATA
1494438 TGTAATACCC
Statistics
Matches: 2339, Mismatches: 360, Indels: 150
0.82 0.13 0.05
Matches are distributed among these distances:
588 54 0.02
589 186 0.08
590 150 0.06
591 417 0.18
592 299 0.13
593 353 0.15
594 12 0.01
595 255 0.11
596 63 0.03
597 48 0.02
598 53 0.02
599 88 0.04
600 71 0.03
601 259 0.11
602 30 0.01
603 1 0.00
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.34
Consensus pattern (593 bp):
GCGACGAAGCACCATAAGCTGCCACATGAGATAAAAATTTTCTAATATTCTAAGATAGGTTAAAA
AAGGCAGTCCAATAGAGGTATAGCGGCAACGAACTAGCGATACTGACATCTTGAAATTGTAAAAC
ACCTCACTCTTTTTTACCTACAGTATCATTACAAGGTGTTATCGGAGCACTTTTAAACTTAAGAC
AAAATATTTCTTTTATAAAAATATTTATTTCGCAATATTTTATGGACATTATCAAATCATAAAAC
GAATATTTAAAACTCTTTATCTTAACTCAAAGTTATACGGAGTATTTAAAGCTCATTTGCTTAAC
TCAGGATTATACAGGTAGAGAAAGATAAAAGTTTTGCTAAGAATTAAAACTTAAATAACCTAAAT
AAAATTATAGAAATAAGATAGAATCAATTTGGAGACTTTAAAATCATATTAAAACCATTTAAAAT
CATTTTTCAGGTGATTGGAAGTGTCTAAGGTTGAGTATGAACTTCGGCGAGCTCAAAACAACCAA
AACAACTCAGGAGCTTTGTCTAGGAGATATGTATTGATATTTATTTTTGTTCTTTTTTGGAAGAT
TTTGAGCC
Found at i:1493296 original size:10 final size:10
Alignment explanation
Indices: 1493269--1493302 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
1493259 ATTTGGAGAC
1493269 TTTAAAATCA
1 TTTAAAATCA
*
1493279 TATTAAAACCA
1 T-TTAAAATCA
1493290 TTTAAAATCA
1 TTTAAAATCA
1493300 TTT
1 TTT
1493303 TTAAGGTGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (10 bp):
TTTAAAATCA
Found at i:1502603 original size:44 final size:44
Alignment explanation
Indices: 1502407--1502870 Score: 258
Period size: 44 Copynumber: 10.7 Consensus size: 44
1502397 TTCTAATCCA
* * * ** *
1502407 CTCCACTACAACTTTAGGGAGATAGGATTTGTTTATTTAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTGGATTTAATCTG
* * * *** * *
1502451 CCCCACTGCAATTTCAAGGG-GATAAGACTTGCTTTCTTGAGTCTG
1 CTCCACTGCAACTTC-AGGGAGATAAGATTTG-TGGATTTAATCTG
* *** * * *
1502496 CTCCTCTGCAACTTCAGGGAGATAAGA---CCCGATGTGATCTA
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTGGATTTAATCTG
* * *
1502537 CTCTA-TAGCAACTTCAGAGAGATAAGATTTGTGGATTTAATCCG
1 CTCCACT-GCAACTTCAGGGAGATAAGATTTGTGGATTTAATCTG
* * *
1502581 CTCCACTGCAACTTTAGGGAGATAGGATTAT-TGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATT-TGTGGATTTAATCTG
* * ** * *
1502625 CTCCACTGCAACTTCAAGGAGATAAGATTCG-CCACCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTGGA--TTTAATCTG
* * * *
1502670 C-CTCACTGCAACTTCA-GGAGGATAAGACTTGCT-TACTTAGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGATTTG-TGGATTTAATCTG
* * * ***
1502714 CTCCACTACAACTTCAGGGAGATAAGA---CTAGATGCGATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTGGATTTAATCTG
* * * * *
1502755 CT-CTCTGTAGCTTCAGAGAGATAAGATTTGT-GATTTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTGGA-TTTAATCTG
* * *
1502798 CTCCACTGCAACTTTAGGGAGATAGGATTAT-TGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATT-TGTGGATTTAATCTG
1502842 CTCCACTGCAACTTCAGGGAGATAAGATT
1 CTCCACTGCAACTTCAGGGAGATAAGATT
1502871 CGCCATCTCA
Statistics
Matches: 315, Mismatches: 79, Indels: 52
0.71 0.18 0.12
Matches are distributed among these distances:
40 21 0.07
41 33 0.10
42 2 0.01
43 8 0.03
44 178 0.57
45 72 0.23
46 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTTGTGGATTTAATCTG
Found at i:1502682 original size:45 final size:44
Alignment explanation
Indices: 1502621--1502742 Score: 144
Period size: 45 Copynumber: 2.8 Consensus size: 44
1502611 TTGGCTTTAA
1502621 TCTGCTCCACTGCAACTTCAAGGAGATAAGA-TTCGC-CACCTTCAG
1 TCTGCTCCACTGCAACTTCAAGGAGATAAGACTT-GCTCA-CTT-AG
*
1502666 TCTGC-CTCACTGCAACTTC-AGGAGGATAAGACTTGCTTACTTAG
1 TCTGCTC-CACTGCAACTTCAAGGA-GATAAGACTTGCTCACTTAG
* *
1502710 TCTGCTCCACTACAACTTCAGGGAGATAAGACT
1 TCTGCTCCACTGCAACTTCAAGGAGATAAGACT
1502743 AGATGCGATC
Statistics
Matches: 68, Mismatches: 3, Indels: 13
0.81 0.04 0.15
Matches are distributed among these distances:
44 32 0.47
45 33 0.49
46 3 0.04
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.26
Consensus pattern (44 bp):
TCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGCTCACTTAG
Found at i:1502810 original size:217 final size:218
Alignment explanation
Indices: 1502445--1502884 Score: 699
Period size: 217 Copynumber: 2.0 Consensus size: 218
1502435 TTGTTTATTT
* * * *
1502445 AGTCTGCCCCACTGCAATTTCAAGGGGATAAGACTTGCTTTCTTGAGTCTGCTCCTCTGCAACTT
1 AGTCTGCCCCACTGCAACTTCAAGGGGATAAGACTTGCTTACTTGAGTCTGCTCCACTACAACTT
* *
1502510 CAGGGAGATAAGACCCGATGTGATCTACTCTATAGCAACTTCAGAGAGATAAGATTTGTGGATTT
66 CAGGGAGATAAGACCAGATGCGATCTACTCTATAGCAACTTCAGAGAGATAAGATTTGTGGATTT
1502575 AATCCGCTCCACTGCAACTTTAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTC
131 AATCCGCTCCACTGCAACTTTAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTC
1502640 AAGGAGATAAGATTCGCCACCTTC
196 AAGGAGATAAGATTCGCCACC-TC
*
1502664 AGTCTGCCTCACTGCAACTTC-AGGAGGATAAGACTTGCTTACTT-AGTCTGCTCCACTACAACT
1 AGTCTGCCCCACTGCAACTTCAAGG-GGATAAGACTTGCTTACTTGAGTCTGCTCCACTACAACT
* * * * *
1502727 TCAGGGAGATAAGACTAGATGCGATCTGCTCTCT-GTAGCTTCAGAGAGATAAGATTTGT-GATT
65 TCAGGGAGATAAGACCAGATGCGATCTACTCTATAGCAACTTCAGAGAGATAAGATTTGTGGA-T
1502790 TTAATCCGCTCCACTGCAACTTTAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACT
129 TTAATCCGCTCCACTGCAACTTTAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACT
* *
1502855 TCAGGGAGATAAGATTCGCCATCTC
194 TCAAGGAGATAAGATTCGCCACCTC
1502880 AGTCT
1 AGTCT
1502885 TTTTAATTGC
Statistics
Matches: 205, Mismatches: 14, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
216 9 0.04
217 110 0.54
218 49 0.24
219 37 0.18
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (218 bp):
AGTCTGCCCCACTGCAACTTCAAGGGGATAAGACTTGCTTACTTGAGTCTGCTCCACTACAACTT
CAGGGAGATAAGACCAGATGCGATCTACTCTATAGCAACTTCAGAGAGATAAGATTTGTGGATTT
AATCCGCTCCACTGCAACTTTAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTC
AAGGAGATAAGATTCGCCACCTC
Found at i:1503353 original size:260 final size:260
Alignment explanation
Indices: 1502829--1503412 Score: 814
Period size: 260 Copynumber: 2.2 Consensus size: 260
1502819 ATAGGATTAT
* * ** * * * * *
1502829 TGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTCAGTCTTTTTAA--T
1 TGGCTTAAATCTGCTCCACTACAACGCCAGGGAAATAAGATTCGCCGT-TCTGGC--TTCAATCT
* *
1502892 TGCAATGTTGGGGAAACAAGATTCGCCATCGTAGCTTCAATCTGTTCCACTACACCGCCAAGGAA
63 TGCAATGTTGAGGAAACAAGATTCGCCATCGTAGCTTCAATCTATTCCACTACACCGCCAAGGAA
* *
1502957 TTAAGATTCACCGTTGTGGCTTAAATCTTTTTCACTGTAATGACAAAGAGATAGGATTCGCTGCC
128 GTAAGATTCACCGTTGCGGCTTAAATCTTTTTCACTGTAATGACAAAGAGATAGGATTCGCTGCC
*
1503022 CACAGCTTCAATCCGCTCCACTTCAGCTAATCCAAGCCTTAACGCCAGGGAGATAAGATTCGCCA
193 CACAGCTTCAATCCGCTCCACTTCAGCTAATCCAAGCCTTAACGCCAGGGAGATAAGATTCACCA
1503087 TCG
258 TCG
* *
1503090 TGGCTTAAATCTGCTCCACTACAACGCCAGGGAAGTAAGATTTGCCGTTGC-GGCTTCAATCTTG
1 TGGCTTAAATCTGCTCCACTACAACGCCAGGGAAATAAGATTCGCCGTT-CTGGCTTCAATCTTG
* * * * *
1503154 CAATGTTGAGGAAACAATATTCGCCGTCGTTGCTTCAATCTATTCCACTACACCGTCAGGGAAGT
65 CAATGTTGAGGAAACAAGATTCGCCATCGTAGCTTCAATCTATTCCACTACACCGCCAAGGAAGT
* * * * *
1503219 ACGATTCACCGTTGCGGCTTCAATCTTTTTCACTGTAATGCCAAAGAGGTAGGATTTGCTGCCCA
130 AAGATTCACCGTTGCGGCTTAAATCTTTTTCACTGTAATGACAAAGAGATAGGATTCGCTGCCCA
** * *
1503284 CAGCTTCAATCTTCTCTACTTCAGCTAATCCAAGCCTTAACGCCAGGGAGATAAGATTCACCGTC
195 CAGCTTCAATCCGCTCCACTTCAGCTAATCCAAGCCTTAACGCCAGGGAGATAAGATTCACCATC
1503349 G
260 G
* * *
1503350 TGGCTTCAATCTGCTCCGCTACAACGCCAGGGAAATAAGATTCGCCGTTCTGGCTTTAATCTT
1 TGGCTTAAATCTGCTCCACTACAACGCCAGGGAAATAAGATTCGCCGTTCTGGCTTCAATCTT
1503413 TTCCATTGCT
Statistics
Matches: 285, Mismatches: 34, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
258 4 0.01
259 1 0.00
260 239 0.84
261 41 0.14
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (260 bp):
TGGCTTAAATCTGCTCCACTACAACGCCAGGGAAATAAGATTCGCCGTTCTGGCTTCAATCTTGC
AATGTTGAGGAAACAAGATTCGCCATCGTAGCTTCAATCTATTCCACTACACCGCCAAGGAAGTA
AGATTCACCGTTGCGGCTTAAATCTTTTTCACTGTAATGACAAAGAGATAGGATTCGCTGCCCAC
AGCTTCAATCCGCTCCACTTCAGCTAATCCAAGCCTTAACGCCAGGGAGATAAGATTCACCATCG
Found at i:1504878 original size:18 final size:18
Alignment explanation
Indices: 1504857--1504903 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
1504847 TTGGCCTCTC
1504857 CTTTTCCTCTTTTTC-TTT
1 CTTTTCCT-TTTTTCTTTT
*
1504875 CTTTTTCTTTTTTCTTTT
1 CTTTTCCTTTTTTCTTTT
*
1504893 CTTTTTCTTTT
1 CTTTTCCTTTT
1504904 CCTTTTTTCC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 6 0.22
18 21 0.78
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (18 bp):
CTTTTCCTTTTTTCTTTT
Found at i:1504888 original size:17 final size:18
Alignment explanation
Indices: 1504866--1504903 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
1504856 CCTTTTCCTC
1504866 TTTTTC-TTTCTTTTTCT
1 TTTTTCTTTTCTTTTTCT
1504883 TTTTTCTTTTCTTTTTCT
1 TTTTTCTTTTCTTTTTCT
1504901 TTT
1 TTT
1504904 CCTTTTTTCC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (18 bp):
TTTTTCTTTTCTTTTTCT
Found at i:1504899 original size:24 final size:23
Alignment explanation
Indices: 1504855--1504912 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 23
1504845 CCTTGGCCTC
*
1504855 TCCTTTTCCTCTTTTTCTTTCTTT
1 TCCTTTT-TTCTTTTTCTTTCTTT
* *
1504879 TTCTTTTTTCTTTTCTTTTTCTTT
1 TCCTTTTTTCTTTT-TCTTTCTTT
1504903 TCCTTTTTTC
1 TCCTTTTTTC
1504913 CATCATCATT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 6 0.21
24 23 0.79
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (23 bp):
TCCTTTTTTCTTTTTCTTTCTTT
Found at i:1504910 original size:18 final size:17
Alignment explanation
Indices: 1504864--1504909 Score: 67
Period size: 17 Copynumber: 2.7 Consensus size: 17
1504854 CTCCTTTTCC
1504864 TCTTTTTC-TTTCTTTT
1 TCTTTTTCTTTTCTTTT
1504880 TCTTTTTTCTTTTCTTTT
1 TC-TTTTTCTTTTCTTTT
*
1504898 TCTTTTCCTTTT
1 TCTTTTTCTTTT
1504910 TTCCATCATC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 2 0.07
17 15 0.56
18 10 0.37
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (17 bp):
TCTTTTTCTTTTCTTTT
Done.