Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008242.1 Hibiscus syriacus cultivar Beakdansim tig00110890_pilon, whole genome shotgun sequence
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: 16962412
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 73
Found at i:1539286 original size:8 final size:8
Alignment explanation
Indices: 1539208--1539286 Score: 55
Period size: 8 Copynumber: 10.5 Consensus size: 8
1539198 TTTTTCTTTG
*
1539208 TTTTTCTT
1 TTTTTCAT
1539216 TTTTTCAT
1 TTTTTCAT
1539224 TTTTTCA-
1 TTTTTCAT
1539231 TTTTTCA-
1 TTTTTCAT
*
1539238 -TTTTCCT
1 TTTTTCAT
*
1539245 TTTTTCTT
1 TTTTTCAT
1539253 TGATTTTC-T
1 T--TTTTCAT
1539262 TTTTTC--
1 TTTTTCAT
*
1539268 CTTTTCA-
1 TTTTTCAT
1539275 TTTTTCAT
1 TTTTTCAT
1539283 TTTT
1 TTTT
1539287 CTTTCTTCAG
Statistics
Matches: 60, Mismatches: 5, Indels: 12
0.78 0.06 0.16
Matches are distributed among these distances:
6 10 0.17
7 18 0.30
8 25 0.42
9 2 0.03
10 5 0.08
ACGTcount: A:0.08, C:0.15, G:0.01, T:0.76
Consensus pattern (8 bp):
TTTTTCAT
Found at i:1541237 original size:17 final size:17
Alignment explanation
Indices: 1541215--1541251 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
1541205 AGAATGTTTA
1541215 AAAATAAAACTT-AAAAT
1 AAAATAAAA-TTGAAAAT
1541232 AAAATAAAATTGAAAAT
1 AAAATAAAATTGAAAAT
1541249 AAA
1 AAA
1541252 GAAAATAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 2 0.11
17 17 0.89
ACGTcount: A:0.73, C:0.03, G:0.03, T:0.22
Consensus pattern (17 bp):
AAAATAAAATTGAAAAT
Found at i:1546464 original size:23 final size:23
Alignment explanation
Indices: 1546419--1546464 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
1546409 TATGTATCAA
**
1546419 GGAAAATATGAGGCCAATGGAAC
1 GGAAAATATGAGGCCAAAAGAAC
**
1546442 GGAAAATATGAGGTTAAAAGAAC
1 GGAAAATATGAGGCCAAAAGAAC
1546465 CCATATTCAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.48, C:0.09, G:0.28, T:0.15
Consensus pattern (23 bp):
GGAAAATATGAGGCCAAAAGAAC
Found at i:1550631 original size:17 final size:18
Alignment explanation
Indices: 1550601--1550636 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
1550591 TGAAAAAAAT
1550601 ATTAAATAACAAAAATAA
1 ATTAAATAACAAAAATAA
*
1550619 ATTAAA-AATAAAAATAA
1 ATTAAATAACAAAAATAA
1550636 A
1 A
1550637 GAAAATAGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (18 bp):
ATTAAATAACAAAAATAA
Found at i:1551550 original size:27 final size:27
Alignment explanation
Indices: 1551508--1551575 Score: 102
Period size: 27 Copynumber: 2.6 Consensus size: 27
1551498 TTGACTATAT
* *
1551508 CTTCTAGAAAACTGCTGCTTACTGAAC
1 CTTCTAGAAAACTGCTACTTACTAAAC
*
1551535 CTTTTAGAAAACTGCTACTTACTAAAC
1 CTTCTAGAAAACTGCTACTTACTAAAC
1551562 CTTCTAG-AAACTGC
1 CTTCTAGAAAACTGC
1551576 CACATCATAC
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
26 7 0.19
27 30 0.81
ACGTcount: A:0.32, C:0.25, G:0.12, T:0.31
Consensus pattern (27 bp):
CTTCTAGAAAACTGCTACTTACTAAAC
Found at i:1552416 original size:99 final size:99
Alignment explanation
Indices: 1552300--1552497 Score: 396
Period size: 99 Copynumber: 2.0 Consensus size: 99
1552290 TTTATACTCA
1552300 ACCATGTTGTTTGTGCAATCAAAATTCAACCGACAGGTGAAAGGATAGTGTTATCCACTAGGTGA
1 ACCATGTTGTTTGTGCAATCAAAATTCAACCGACAGGTGAAAGGATAGTGTTATCCACTAGGTGA
1552365 GACCAAAATTACCCCAATCTCATGCCCCAGGCAT
66 GACCAAAATTACCCCAATCTCATGCCCCAGGCAT
1552399 ACCATGTTGTTTGTGCAATCAAAATTCAACCGACAGGTGAAAGGATAGTGTTATCCACTAGGTGA
1 ACCATGTTGTTTGTGCAATCAAAATTCAACCGACAGGTGAAAGGATAGTGTTATCCACTAGGTGA
1552464 GACCAAAATTACCCCAATCTCATGCCCCAGGCAT
66 GACCAAAATTACCCCAATCTCATGCCCCAGGCAT
1552498 TCGAGGCACC
Statistics
Matches: 99, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
99 99 1.00
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.24
Consensus pattern (99 bp):
ACCATGTTGTTTGTGCAATCAAAATTCAACCGACAGGTGAAAGGATAGTGTTATCCACTAGGTGA
GACCAAAATTACCCCAATCTCATGCCCCAGGCAT
Found at i:1554929 original size:126 final size:126
Alignment explanation
Indices: 1554704--1554955 Score: 504
Period size: 126 Copynumber: 2.0 Consensus size: 126
1554694 CTTCTAAATA
1554704 CCTTTCAACTTCTCTTTTAAGGTCGAGTGATATCCCATGCCAAAGTAGTATCATTTGATGGTGGG
1 CCTTTCAACTTCTCTTTTAAGGTCGAGTGATATCCCATGCCAAAGTAGTATCATTTGATGGTGGG
1554769 AAAACTGGATTAACATATCCCTATAGGCGGCTCCGTAGCCTTTTTCCAATCTTGGCTCCCC
66 AAAACTGGATTAACATATCCCTATAGGCGGCTCCGTAGCCTTTTTCCAATCTTGGCTCCCC
1554830 CCTTTCAACTTCTCTTTTAAGGTCGAGTGATATCCCATGCCAAAGTAGTATCATTTGATGGTGGG
1 CCTTTCAACTTCTCTTTTAAGGTCGAGTGATATCCCATGCCAAAGTAGTATCATTTGATGGTGGG
1554895 AAAACTGGATTAACATATCCCTATAGGCGGCTCCGTAGCCTTTTTCCAATCTTGGCTCCCC
66 AAAACTGGATTAACATATCCCTATAGGCGGCTCCGTAGCCTTTTTCCAATCTTGGCTCCCC
1554956 TTCCAGGGTC
Statistics
Matches: 126, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
126 126 1.00
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (126 bp):
CCTTTCAACTTCTCTTTTAAGGTCGAGTGATATCCCATGCCAAAGTAGTATCATTTGATGGTGGG
AAAACTGGATTAACATATCCCTATAGGCGGCTCCGTAGCCTTTTTCCAATCTTGGCTCCCC
Found at i:1569501 original size:18 final size:19
Alignment explanation
Indices: 1569480--1569521 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
1569470 AAAGCAATGA
* *
1569480 TAAAAATGAATATC-AAAT
1 TAAAAATAAACATCAAAAT
*
1569498 TAAAATTAAACATCAAAAT
1 TAAAAATAAACATCAAAAT
1569517 TAAAA
1 TAAAA
1569522 CTCATGTATC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.64, C:0.07, G:0.02, T:0.26
Consensus pattern (19 bp):
TAAAAATAAACATCAAAAT
Found at i:1569554 original size:17 final size:17
Alignment explanation
Indices: 1569532--1569580 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 17
1569522 CTCATGTATC
*
1569532 AAGATTAATATTAAGTT
1 AAGATTAATATCAAGTT
1569549 AAGATTAATATCAAGTT
1 AAGATTAATATCAAGTT
1569566 AACG-TTAAATATCAA
1 AA-GATT-AATATCAA
1569581 AATTAATATT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 20 0.69
18 9 0.31
ACGTcount: A:0.49, C:0.06, G:0.10, T:0.35
Consensus pattern (17 bp):
AAGATTAATATCAAGTT
Found at i:1569653 original size:17 final size:16
Alignment explanation
Indices: 1569604--1569654 Score: 57
Period size: 17 Copynumber: 3.1 Consensus size: 16
1569594 AAGATATTTT
*
1569604 ATCAGAATTAATGTGA
1 ATCAGAATTAATGTTA
* *
1569620 AGCAAAAATTAATGTTA
1 ATC-AGAATTAATGTTA
1569637 ATCAGAATTAATGGTTA
1 ATCAGAATTAAT-GTTA
1569654 A
1 A
1569655 AGTTAAGTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
16 10 0.36
17 18 0.64
ACGTcount: A:0.47, C:0.06, G:0.16, T:0.31
Consensus pattern (16 bp):
ATCAGAATTAATGTTA
Found at i:1570507 original size:79 final size:80
Alignment explanation
Indices: 1570353--1570513 Score: 177
Period size: 80 Copynumber: 2.0 Consensus size: 80
1570343 GTAAAAAAAT
* * *
1570353 AACATTTTAGATAGCGACCAATGTTAACATTTTCGATAGAAAAAAATAATGTTTTAGGTAAAGCT
1 AACATTTTAGATAACGACCAATATTAACATTTTCGATAGAAAAAAATAATGCTTTAGGTAAAGCT
*
1570418 TTACCGAAAATGTTA
66 TTACCGAAAATATTA
* * * * *
1570433 AACATTTTAGTTAACG-CTCAATATTAATATTTTCGGTA-TAAAAAATAATGCTTTA-G-ATAGC
1 AACATTTTAGATAACGAC-CAATATTAACATTTTCGATAGAAAAAAATAATGCTTTAGGTAAAGC
*
1570494 GTTGTATCGAAAATATTA
65 -TT-TACCGAAAATATTA
1570512 AA
1 AA
1570514 AAATATATTA
Statistics
Matches: 68, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
77 4 0.06
78 3 0.04
79 30 0.44
80 31 0.46
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.35
Consensus pattern (80 bp):
AACATTTTAGATAACGACCAATATTAACATTTTCGATAGAAAAAAATAATGCTTTAGGTAAAGCT
TTACCGAAAATATTA
Found at i:1570969 original size:18 final size:18
Alignment explanation
Indices: 1570948--1571003 Score: 103
Period size: 18 Copynumber: 3.1 Consensus size: 18
1570938 GTCTAAGTTA
*
1570948 GCGTATTTGATAATGTCG
1 GCGTATTTGGTAATGTCG
1570966 GCGTATTTGGTAATGTCG
1 GCGTATTTGGTAATGTCG
1570984 GCGTATTTGGTAATGTCG
1 GCGTATTTGGTAATGTCG
1571002 GC
1 GC
1571004 TAAAAGCATC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.18, C:0.12, G:0.32, T:0.38
Consensus pattern (18 bp):
GCGTATTTGGTAATGTCG
Found at i:1571637 original size:21 final size:21
Alignment explanation
Indices: 1571601--1571765 Score: 135
Period size: 21 Copynumber: 8.0 Consensus size: 21
1571591 GATTTACATA
*
1571601 TTCGCATTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
* * *
1571622 TTTGCGTTGAGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
** *
1571643 TTCGCGTTGCGATTTTCCAAA
1 TTCGCGTTGCGATAGTCCAAG
*
1571664 TT--CGTTGCGATAGTCAAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
1571683 TTCACGTTGCGATTTATTCCAAG
1 TTCGCGTTGCGA--TAGTCCAAG
*
1571706 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
1571725 TTCGCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
1571748 TT--CGTTGCGATAGTCCAA
1 TTCGCGTTGCGATAGTCCAA
1571766 AATCGCAACG
Statistics
Matches: 114, Mismatches: 22, Indels: 18
0.74 0.14 0.12
Matches are distributed among these distances:
19 31 0.27
21 66 0.58
23 17 0.15
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.35
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCCAAG
Found at i:1571662 original size:42 final size:40
Alignment explanation
Indices: 1571601--1571762 Score: 198
Period size: 42 Copynumber: 3.9 Consensus size: 40
1571591 GATTTACATA
* ** *
1571601 TTCGCATTGCGATAGTCCAAGTTTGCGTTGAGATAGTCGAAG
1 TTCGCGTTGCGATTTTCCAAG-TT-CGTTGCGATAGTCGAAG
* *
1571643 TTCGCGTTGCGATTTTCCAAATTCGTTGCGATAGTCAAAG
1 TTCGCGTTGCGATTTTCCAAGTTCGTTGCGATAGTCGAAG
*
1571683 TTCACGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGA-TT-TTCCAAGTTCGTTGCGATAGTCGAAG
*
1571725 TTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTC
1 TTCGCGTTGCGA-TT-TTCCAAGTTCGTTGCGATAGTC
1571763 CAAAATCGCA
Statistics
Matches: 107, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
40 26 0.24
41 4 0.04
42 77 0.72
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.35
Consensus pattern (40 bp):
TTCGCGTTGCGATTTTCCAAGTTCGTTGCGATAGTCGAAG
Found at i:1571873 original size:27 final size:27
Alignment explanation
Indices: 1571843--1571897 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
1571833 GGACGTGTCG
1571843 AAGACACGTATTACCACGACCACGACC
1 AAGACACGTATTACCACGACCACGACC
1571870 AAGACACGTATTACCACGACCACGACC
1 AAGACACGTATTACCACGACCACGACC
1571897 A
1 A
1571898 CGACCCGAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.38, C:0.36, G:0.15, T:0.11
Consensus pattern (27 bp):
AAGACACGTATTACCACGACCACGACC
Found at i:1572546 original size:21 final size:21
Alignment explanation
Indices: 1572520--1572671 Score: 92
Period size: 21 Copynumber: 7.4 Consensus size: 21
1572510 AACTTGGACT
1572520 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAATTTGGAATAA
* * *
1572541 ATCGCAACGCGAACTTCGACT--
1 ATCGCAA--CGAATTTGGAATAA
1572562 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAATTTGGAATAA
* *
1572583 ATCGCAACGCGAACTT-CAACT--
1 ATCGCAA--CGAATTTGGAA-TAA
1572604 ATCGCAACGAATTTGG-A-AA
1 ATCGCAACGAATTTGGAATAA
* * *
1572623 ATCGCAATGCGAACTTCGACT--
1 ATCGCAA--CGAATTTGGAATAA
1572644 ATCGCAACGAATTTGG-A-AA
1 ATCGCAACGAATTTGGAATAA
1572663 ATCGCAACG
1 ATCGCAACG
1572672 CGAACTTCGA
Statistics
Matches: 99, Mismatches: 16, Indels: 34
0.66 0.11 0.23
Matches are distributed among these distances:
19 39 0.39
21 42 0.42
22 2 0.02
23 16 0.16
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.21
Consensus pattern (21 bp):
ATCGCAACGAATTTGGAATAA
Found at i:1572636 original size:40 final size:42
Alignment explanation
Indices: 1572508--1572933 Score: 312
Period size: 40 Copynumber: 10.5 Consensus size: 42
1572498 CCAGTCGTAA
*
1572508 CGAACTTGGACTATCGCAACGAATTTGGAATAAATCGCAACG
1 CGAACTTCGACTATCGCAACGAATTTGGAATAAATCGCAACG
1572550 CGAACTTCGACTATCGCAACGAATTTGGAATAAATCGCAACG
1 CGAACTTCGACTATCGCAACGAATTTGGAATAAATCGCAACG
* *
1572592 CGAACTTCAACTATCGCAACGAATTTGG-A-AAATCGCAATG
1 CGAACTTCGACTATCGCAACGAATTTGGAATAAATCGCAACG
1572632 CGAACTTCGACTATCGCAACGAATTTGG-A-AAATCGCAACG
1 CGAACTTCGACTATCGCAACGAATTTGGAATAAATCGCAACG
* * *
1572672 CGAACTTCGACTATCGCAATGCGAACTTCGACT--ATCGCAA--
1 CGAACTTCGACTATCGCAA--CGAATTTGGAATAAATCGCAACG
* * ** * * *
1572712 CGAATTTGGAAAATCGCAACGCGAACTTCGACT--ATCGCAACG
1 CGAACTTCGACTATCGCAA--CGAATTTGGAATAAATCGCAACG
* * *** *
1572754 CGAACTTGGACTATCGCAATGCGAATATCGTTTTAGA--G-AA--
1 CGAACTTCGACTATCGCAA--CGAAT-TTGGAATAAATCGCAACG
* * * * * *
1572794 --AA-TTC--TTA-AGAAAC-AA-ATGCAATACCACCATTCGTAA--
1 CGAACTTCGACTATCGCAACGAATTTGGAATA--A--A-TCGCAACG
*
1572831 CGAACTTGGACTATCGCAACGAATTTGGAATAAATCGCAACG
1 CGAACTTCGACTATCGCAACGAATTTGGAATAAATCGCAACG
1572873 CGAACTTCGACTATCGCAACGAATTTGG-A-AAATCGCAACG
1 CGAACTTCGACTATCGCAACGAATTTGGAATAAATCGCAACG
*
1572913 CGAACTTCCACTATCGCAACG
1 CGAACTTCGACTATCGCAACG
1572934 CGAACTTCTA
Statistics
Matches: 315, Mismatches: 42, Indels: 56
0.76 0.10 0.14
Matches are distributed among these distances:
29 3 0.01
31 2 0.01
32 1 0.00
33 1 0.00
34 3 0.01
35 2 0.01
36 1 0.00
37 4 0.01
38 2 0.01
39 2 0.01
40 140 0.44
41 3 0.01
42 134 0.43
43 8 0.03
44 2 0.01
45 7 0.02
ACGTcount: A:0.35, C:0.24, G:0.19, T:0.22
Consensus pattern (42 bp):
CGAACTTCGACTATCGCAACGAATTTGGAATAAATCGCAACG
Found at i:1572687 original size:21 final size:21
Alignment explanation
Indices: 1572541--1572778 Score: 222
Period size: 21 Copynumber: 11.6 Consensus size: 21
1572531 TTTGGAATAA
1572541 ATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTCGACT
* * *
1572562 ATCGCAA--CGAATTTGGAAT
1 ATCGCAACGCGAACTTCGACT
*
1572581 AAATCGCAACGCGAACTTCAACT
1 --ATCGCAACGCGAACTTCGACT
* * **
1572604 ATCGCAA--CGAATTTGGAAA
1 ATCGCAACGCGAACTTCGACT
*
1572623 ATCGCAATGCGAACTTCGACT
1 ATCGCAACGCGAACTTCGACT
* * **
1572644 ATCGCAA--CGAATTTGGAAA
1 ATCGCAACGCGAACTTCGACT
1572663 ATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTCGACT
*
1572684 ATCGCAATGCGAACTTCGACT
1 ATCGCAACGCGAACTTCGACT
* * **
1572705 ATCGCAA--CGAATTTGGAAA
1 ATCGCAACGCGAACTTCGACT
1572724 ATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTCGACT
*
1572745 ATCGCAACGCGAACTTGGACT
1 ATCGCAACGCGAACTTCGACT
*
1572766 ATCGCAATGCGAA
1 ATCGCAACGCGAA
1572779 TATCGTTTTA
Statistics
Matches: 172, Mismatches: 35, Indels: 20
0.76 0.15 0.09
Matches are distributed among these distances:
19 53 0.31
21 111 0.65
23 8 0.05
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.21
Consensus pattern (21 bp):
ATCGCAACGCGAACTTCGACT
Found at i:1572688 original size:61 final size:61
Alignment explanation
Indices: 1572508--1572772 Score: 324
Period size: 61 Copynumber: 4.3 Consensus size: 61
1572498 CCAGTCGTAA
1572508 CGAACTTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAA--
1 CGAACTTGGACTATCGCAACGAATTTGG-A-AAATCGCAACGCGAACTTCGACTATCGCAATG
* * * * * * * **
1572569 CGAATTTGGAATAAATCGCAACGCGAACTT-CAACTATCGCAA--CGAATTTGGAAAATCGCAAT
1 CGAACTTGGACT--ATCGCAA--CGAATTTGGAA-AATCGCAACGCGAACTTCGACTATCGCAAT
1572631 G
61 G
*
1572632 CGAACTTCGACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTCGACTATCGCAATG
1 CGAACTTGGACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTCGACTATCGCAATG
* *
1572693 CGAACTTCGACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTCGACTATCGCAACG
1 CGAACTTGGACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTCGACTATCGCAATG
1572754 CGAACTTGGACTATCGCAA
1 CGAACTTGGACTATCGCAA
1572773 TGCGAATATC
Statistics
Matches: 173, Mismatches: 21, Indels: 20
0.81 0.10 0.09
Matches are distributed among these distances:
59 13 0.08
60 2 0.01
61 127 0.73
62 1 0.01
63 24 0.14
65 6 0.03
ACGTcount: A:0.34, C:0.25, G:0.20, T:0.21
Consensus pattern (61 bp):
CGAACTTGGACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTCGACTATCGCAATG
Found at i:1572869 original size:21 final size:21
Alignment explanation
Indices: 1572843--1572912 Score: 67
Period size: 19 Copynumber: 3.4 Consensus size: 21
1572833 AACTTGGACT
1572843 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAATTTGGAATAA
* * *
1572864 ATCGCAACGCGAACTTCGACT--
1 ATCGCAA--CGAATTTGGAATAA
1572885 ATCGCAACGAATTTGG-A-AA
1 ATCGCAACGAATTTGGAATAA
1572904 ATCGCAACG
1 ATCGCAACG
1572913 CGAACTTCCA
Statistics
Matches: 39, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
19 16 0.41
21 14 0.36
23 9 0.23
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.20
Consensus pattern (21 bp):
ATCGCAACGAATTTGGAATAA
Found at i:1572908 original size:61 final size:60
Alignment explanation
Indices: 1572829--1572952 Score: 142
Period size: 61 Copynumber: 2.0 Consensus size: 60
1572819 CACCATTCGT
** * **
1572829 AACGAACTTGGACTATCGCAA-CGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGC
1 AACGAACTTGGAAAATCGCAACCGAACTTCCAAT--ATCGCAACGCGAACTTCGACTATCGC
* * *
1572890 AACGAATTTGGAAAATCGCAACGCGAACTTCCACTATCGCAACGCGAACTTCTACTATCGC
1 AACGAACTTGGAAAATCGCAAC-CGAACTTCCAATATCGCAACGCGAACTTCGACTATCGC
1572951 AA
1 AA
1572953 TGCGAATATG
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
61 45 0.85
63 8 0.15
ACGTcount: A:0.35, C:0.27, G:0.18, T:0.21
Consensus pattern (60 bp):
AACGAACTTGGAAAATCGCAACCGAACTTCCAATATCGCAACGCGAACTTCGACTATCGC
Found at i:1572928 original size:21 final size:21
Alignment explanation
Indices: 1572864--1572958 Score: 113
Period size: 21 Copynumber: 4.6 Consensus size: 21
1572854 TTTGGAATAA
1572864 ATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTCGACT
* * **
1572885 ATCGCAA--CGAATTTGGAAA
1 ATCGCAACGCGAACTTCGACT
*
1572904 ATCGCAACGCGAACTTCCACT
1 ATCGCAACGCGAACTTCGACT
*
1572925 ATCGCAACGCGAACTTCTACT
1 ATCGCAACGCGAACTTCGACT
*
1572946 ATCGCAATGCGAA
1 ATCGCAACGCGAA
1572959 TATGTAAATC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
19 15 0.25
21 46 0.75
ACGTcount: A:0.33, C:0.29, G:0.18, T:0.20
Consensus pattern (21 bp):
ATCGCAACGCGAACTTCGACT
Found at i:1572996 original size:21 final size:21
Alignment explanation
Indices: 1572967--1573016 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
1572957 AATATGTAAA
*
1572967 TCGCATTGCGATAGTCCAAGT
1 TCGCGTTGCGATAGTCCAAGT
*
1572988 TCGCGTTGCGATAGTCGAAGT
1 TCGCGTTGCGATAGTCCAAGT
1573009 TCGCGTTG
1 TCGCGTTG
1573017 TGAATCTGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.18, C:0.22, G:0.30, T:0.30
Consensus pattern (21 bp):
TCGCGTTGCGATAGTCCAAGT
Found at i:1578267 original size:19 final size:20
Alignment explanation
Indices: 1578235--1578272 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
1578225 TCAGAACGCA
1578235 AAAATGGTACCGATACCATG
1 AAAATGGTACCGATACCATG
*
1578255 AAAA-GGTATCGATACCAT
1 AAAATGGTACCGATACCAT
1578273 AATGTAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.42, C:0.18, G:0.18, T:0.21
Consensus pattern (20 bp):
AAAATGGTACCGATACCATG
Found at i:1579122 original size:15 final size:15
Alignment explanation
Indices: 1579098--1579128 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1579088 AGTGCCTATT
*
1579098 ACATTGAAGATTCAC
1 ACATTCAAGATTCAC
1579113 ACATTCAAGATTCAC
1 ACATTCAAGATTCAC
1579128 A
1 A
1579129 ACCGGTCAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.23, G:0.10, T:0.26
Consensus pattern (15 bp):
ACATTCAAGATTCAC
Found at i:1579997 original size:36 final size:36
Alignment explanation
Indices: 1579948--1580025 Score: 120
Period size: 36 Copynumber: 2.2 Consensus size: 36
1579938 TTTATTGTCA
* *
1579948 AAGAACGGGGCATGTCAAGTATGATTATCCCCTTCT
1 AAGAAAGGGGCATGTAAAGTATGATTATCCCCTTCT
* *
1579984 AAGAAAGGTGCATGTAAAGTATGATTATCTCCTTCT
1 AAGAAAGGGGCATGTAAAGTATGATTATCCCCTTCT
1580020 AAGAAA
1 AAGAAA
1580026 AAATGGATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.28
Consensus pattern (36 bp):
AAGAAAGGGGCATGTAAAGTATGATTATCCCCTTCT
Found at i:1581847 original size:19 final size:19
Alignment explanation
Indices: 1581823--1581859 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
1581813 CAGAATACAA
1581823 AAATGGTACCGATACCATG
1 AAATGGTACCGATACCATG
*
1581842 AAATGGTATCGATACCAT
1 AAATGGTACCGATACCAT
1581860 AATGCAACGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24
Consensus pattern (19 bp):
AAATGGTACCGATACCATG
Found at i:1583534 original size:21 final size:21
Alignment explanation
Indices: 1583474--1583549 Score: 62
Period size: 21 Copynumber: 3.6 Consensus size: 21
1583464 TTCGGGATAT
* * *
1583474 ATATGTAATCCTTTGGAACAT
1 ATATGTGATCCTTTGGAATAC
* * * *
1583495 AAATGCGATTCTTCGGAATAC
1 ATATGTGATCCTTTGGAATAC
* * *
1583516 ATATTTGGTCCTTTGGAATAT
1 ATATGTGATCCTTTGGAATAC
1583537 ATATGTGATCCTT
1 ATATGTGATCCTT
1583550 AAAGAGTGGT
Statistics
Matches: 39, Mismatches: 16, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.39
Consensus pattern (21 bp):
ATATGTGATCCTTTGGAATAC
Found at i:1586533 original size:32 final size:32
Alignment explanation
Indices: 1586492--1586572 Score: 99
Period size: 32 Copynumber: 2.5 Consensus size: 32
1586482 CCTTTCAAAC
** *
1586492 AAAATCAGTAGTATATATGTATGTTGAATATA
1 AAAATCAGTAGTATATATGTACATTAAATATA
* * *
1586524 AAAATCAGTAGTGTAAATGTACATTAAATGTA
1 AAAATCAGTAGTATATATGTACATTAAATATA
*
1586556 AAAATCAATAGTATATA
1 AAAATCAGTAGTATATA
1586573 AGCAAAAATT
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.48, C:0.05, G:0.14, T:0.33
Consensus pattern (32 bp):
AAAATCAGTAGTATATATGTACATTAAATATA
Found at i:1590324 original size:21 final size:21
Alignment explanation
Indices: 1590299--1590338 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1590289 AAGACTTTAT
1590299 TTTCAAAATAAAAAAATGATA
1 TTTCAAAATAAAAAAATGATA
**
1590320 TTTCAAAATTGAAAAATGA
1 TTTCAAAATAAAAAAATGA
1590339 AAACAGTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.30
Consensus pattern (21 bp):
TTTCAAAATAAAAAAATGATA
Found at i:1593058 original size:20 final size:20
Alignment explanation
Indices: 1593033--1593087 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
1593023 TTTACACTTA
1593033 GGGAACCGATTCCCCATAGG
1 GGGAACCGATTCCCCATAGG
1593053 GGGAACCGATTCCCCATAGG
1 GGGAACCGATTCCCCATAGG
*
1593073 GGGTACCGATTCCCC
1 GGGAACCGATTCCCC
1593088 CACGCTCCAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.22, C:0.33, G:0.29, T:0.16
Consensus pattern (20 bp):
GGGAACCGATTCCCCATAGG
Found at i:1598787 original size:20 final size:20
Alignment explanation
Indices: 1598762--1598824 Score: 72
Period size: 20 Copynumber: 3.0 Consensus size: 20
1598752 TTTTGGTGCA
*
1598762 GAGGGAATCGATCCCCCCTT
1 GAGGGAACCGATCCCCCCTT
*
1598782 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGA-TCCCCCCTT
*
1598803 GAATGGGAACCGATTCCCCCTT
1 G-A-GGGAACCGATCCCCCCTT
1598825 TGAAGGGGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
20 10 0.28
21 9 0.25
22 8 0.22
23 9 0.25
ACGTcount: A:0.21, C:0.33, G:0.24, T:0.22
Consensus pattern (20 bp):
GAGGGAACCGATCCCCCCTT
Found at i:1598814 original size:23 final size:22
Alignment explanation
Indices: 1598763--1598845 Score: 107
Period size: 23 Copynumber: 3.8 Consensus size: 22
1598753 TTTGGTGCAG
* *
1598763 AGGGAATCGA-TCCCCCCTTG-
1 AGGGAACCGATTCCCCCTTTGA
1598783 AGGGAACCGATTCCCCCTTTGA
1 AGGGAACCGATTCCCCCTTTGA
1598805 ATGGGAACCGATTCCCCCTTTGA
1 A-GGGAACCGATTCCCCCTTTGA
*
1598828 AGGGGAACTGATTCCCCC
1 A-GGGAACCGATTCCCCC
1598846 ACAGGGGAAT
Statistics
Matches: 56, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
20 9 0.16
21 9 0.16
22 1 0.02
23 37 0.66
ACGTcount: A:0.22, C:0.33, G:0.24, T:0.22
Consensus pattern (22 bp):
AGGGAACCGATTCCCCCTTTGA
Found at i:1598864 original size:20 final size:20
Alignment explanation
Indices: 1598828--1598865 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1598818 CCCCCTTTGA
*
1598828 AGGGGAACTGATTCCCCCAC
1 AGGGGAACTGATACCCCCAC
1598848 AGGGGAA-TCGATACCCCC
1 AGGGGAACT-GATACCCCC
1598866 TGGGGTTCTG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 1 0.06
20 15 0.94
ACGTcount: A:0.26, C:0.34, G:0.26, T:0.13
Consensus pattern (20 bp):
AGGGGAACTGATACCCCCAC
Found at i:1602879 original size:16 final size:16
Alignment explanation
Indices: 1602858--1602889 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
1602848 AGTTTTATGG
1602858 ATGAAACAACAACTTT
1 ATGAAACAACAACTTT
1602874 ATGAAACAACAACTTT
1 ATGAAACAACAACTTT
1602890 TTGATTATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.19, G:0.06, T:0.25
Consensus pattern (16 bp):
ATGAAACAACAACTTT
Found at i:1603521 original size:23 final size:23
Alignment explanation
Indices: 1603429--1603573 Score: 135
Period size: 21 Copynumber: 6.5 Consensus size: 23
1603419 TTGTGCATAA
*
1603429 TGCATCGATACACT-A-TGAATG
1 TGCATCGATGCACTCATTGAATG
*
1603450 TGCATCGATGCATCTCTTTGAATG
1 TGCATCGATGCA-CTCATTGAATG
*
1603474 TGCATCGATACA-TCA-TGAA-G
1 TGCATCGATGCACTCATTGAATG
*
1603494 ATGCACCGATGCACTCATTGAATG
1 -TGCATCGATGCACTCATTGAATG
**
1603518 TGCATCGATATA-TCA-TGAA-G
1 TGCATCGATGCACTCATTGAATG
* *
1603538 ATGCACCGATGCACTCCTTGAATG
1 -TGCATCGATGCACTCATTGAATG
1603562 TGCATCGATGCA
1 TGCATCGATGCA
1603574 TCTGTCGGGT
Statistics
Matches: 99, Mismatches: 14, Indels: 20
0.74 0.11 0.15
Matches are distributed among these distances:
20 2 0.02
21 38 0.38
22 12 0.12
23 28 0.28
24 19 0.19
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (23 bp):
TGCATCGATGCACTCATTGAATG
Found at i:1603533 original size:44 final size:44
Alignment explanation
Indices: 1603429--1603575 Score: 208
Period size: 44 Copynumber: 3.3 Consensus size: 44
1603419 TTGTGCATAA
* *
1603429 TGCATCGATACA-CTATGAATG-TGCATCGATGCATCTCTTTGAATG
1 TGCATCGATACATC-ATGAA-GATGCACCGATGCA-CTCATTGAATG
1603474 TGCATCGATACATCATGAAGATGCACCGATGCACTCATTGAATG
1 TGCATCGATACATCATGAAGATGCACCGATGCACTCATTGAATG
* *
1603518 TGCATCGATATATCATGAAGATGCACCGATGCACTCCTTGAATG
1 TGCATCGATACATCATGAAGATGCACCGATGCACTCATTGAATG
*
1603562 TGCATCGATGCATC
1 TGCATCGATACATC
1603576 TGTCGGGTGT
Statistics
Matches: 94, Mismatches: 6, Indels: 5
0.90 0.06 0.05
Matches are distributed among these distances:
44 65 0.69
45 28 0.30
46 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (44 bp):
TGCATCGATACATCATGAAGATGCACCGATGCACTCATTGAATG
Found at i:1606230 original size:64 final size:64
Alignment explanation
Indices: 1606078--1606232 Score: 215
Period size: 64 Copynumber: 2.4 Consensus size: 64
1606068 ACACACAATT
* * * * *
1606078 TCGAATGCATTTTATGCATCAATGCACTGCCATGCATCGATGCATTTAGGTTTTTATGAAAACA
1 TCGAATGCATTTTATGCATCGATGCACTACCATGCATCGATGCACTAAGGTTGTTATGAAAACA
*
1606142 TCGAATGCATTTTATGCATCGATGCACATACTATGCATCGATGCACTAAGGCTTGTT-TG-AAAC
1 TCGAATGCATTTTATGCATCGATGCAC-TACCATGCATCGATGCACTAAGG-TTGTTATGAAAAC
1606205 A
64 A
*
1606206 TCGAATGCATTTTATGCATTGATGCAC
1 TCGAATGCATTTTATGCATCGATGCAC
1606233 CCTTAGTGCA
Statistics
Matches: 82, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
64 57 0.70
65 21 0.26
66 4 0.05
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (64 bp):
TCGAATGCATTTTATGCATCGATGCACTACCATGCATCGATGCACTAAGGTTGTTATGAAAACA
Found at i:1606248 original size:64 final size:64
Alignment explanation
Indices: 1606078--1606255 Score: 204
Period size: 64 Copynumber: 2.8 Consensus size: 64
1606068 ACACACAATT
* * * *
1606078 TCGAATGCATTTTATGCATCAATGCACTGCC--ATGCATCGATGCATTTAGGTTTTTATGAAAAC
1 TCGAATGCATTTTATGCATCGATGCAC--CCTTATGCATCGATGCACTAAGGTTGTTATGAAAAC
1606141 A
64 A
*
1606142 TCGAATGCATTTTATGCATCGATGCA-CATACTATGCATCGATGCACTAAGGCTTGTT-TG-AAA
1 TCGAATGCATTTTATGCATCGATGCACCCT--TATGCATCGATGCACTAAGG-TTGTTATGAAAA
1606204 CA
63 CA
* *
1606206 TCGAATGCATTTTATGCATTGATGCACCCTTAGTGCACCGATGCACTAAG
1 TCGAATGCATTTTATGCATCGATGCACCCTTA-TGCATCGATGCACTAAG
1606256 TGTTCCAACG
Statistics
Matches: 99, Mismatches: 8, Indels: 14
0.82 0.07 0.12
Matches are distributed among these distances:
61 1 0.01
63 2 0.02
64 71 0.72
65 21 0.21
66 4 0.04
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.32
Consensus pattern (64 bp):
TCGAATGCATTTTATGCATCGATGCACCCTTATGCATCGATGCACTAAGGTTGTTATGAAAACA
Found at i:1608143 original size:7 final size:7
Alignment explanation
Indices: 1608131--1608226 Score: 183
Period size: 7 Copynumber: 13.6 Consensus size: 7
1608121 AGTTAGAAAG
1608131 TTAGTAA
1 TTAGTAA
1608138 TTAGTAA
1 TTAGTAA
1608145 TTAGTAA
1 TTAGTAA
1608152 TTAGTAA
1 TTAGTAA
1608159 TTAGTAA
1 TTAGTAA
1608166 TTAGTAA
1 TTAGTAA
1608173 TTAGTAA
1 TTAGTAA
1608180 TTAGTAA
1 TTAGTAA
1608187 TTAGTAA
1 TTAGTAA
1608194 TTAGTAA
1 TTAGTAA
1608201 TTAGTAA
1 TTAGTAA
1608208 TTAGTAA
1 TTAGTAA
1608215 TTAGTAAA
1 TTAGT-AA
1608223 TTAG
1 TTAG
1608227 AAAGAAAGAA
Statistics
Matches: 88, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
7 82 0.93
8 6 0.07
ACGTcount: A:0.43, C:0.00, G:0.15, T:0.43
Consensus pattern (7 bp):
TTAGTAA
Found at i:1608401 original size:20 final size:20
Alignment explanation
Indices: 1608376--1608452 Score: 118
Period size: 20 Copynumber: 3.9 Consensus size: 20
1608366 TTAATTCACG
* *
1608376 GAATAAAAGATTATCAGTGT
1 GAATAAAAGATTACCAGTGA
1608396 GAATAAAAGATTACCAGTGA
1 GAATAAAAGATTACCAGTGA
* *
1608416 CAATAAAAGATTACCAGTGG
1 GAATAAAAGATTACCAGTGA
1608436 GAATAAAAGATTACCAG
1 GAATAAAAGATTACCAG
1608453 AGAATAGGAT
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 52 1.00
ACGTcount: A:0.48, C:0.10, G:0.19, T:0.22
Consensus pattern (20 bp):
GAATAAAAGATTACCAGTGA
Found at i:1608434 original size:40 final size:40
Alignment explanation
Indices: 1608377--1608452 Score: 134
Period size: 40 Copynumber: 1.9 Consensus size: 40
1608367 TAATTCACGG
* *
1608377 AATAAAAGATTATCAGTGTGAATAAAAGATTACCAGTGAC
1 AATAAAAGATTACCAGTGGGAATAAAAGATTACCAGTGAC
1608417 AATAAAAGATTACCAGTGGGAATAAAAGATTACCAG
1 AATAAAAGATTACCAGTGGGAATAAAAGATTACCAG
1608453 AGAATAGGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.49, C:0.11, G:0.18, T:0.22
Consensus pattern (40 bp):
AATAAAAGATTACCAGTGGGAATAAAAGATTACCAGTGAC
Found at i:1609994 original size:36 final size:36
Alignment explanation
Indices: 1609901--1610196 Score: 346
Period size: 36 Copynumber: 8.3 Consensus size: 36
1609891 AAAGATGAAC
*
1609901 ACTTGAATCGGAAGTGCCGATGCTTCCTTCCGTTCG
1 ACTTGAATCGGAAGTGCCGATGCTTCCCTCCGTTCG
* *
1609937 ATTTGAATC-AAAGTGCCGATGCTTCCCTCCGTTCG
1 ACTTGAATCGGAAGTGCCGATGCTTCCCTCCGTTCG
* *
1609972 ACTTGAATCGGAAGTGACGATGCTTCCTTCCGTTC-
1 ACTTGAATCGGAAGTGCCGATGCTTCCCTCCGTTCG
* * ** *
1610007 ACTTGAATCGGAAGTGTCGATGTTTCATTCCGCTCG
1 ACTTGAATCGGAAGTGCCGATGCTTCCCTCCGTTCG
* * * * *
1610043 ATTTGAATCGGAAGTGCCGATGTTTTCTTCTGTTCG
1 ACTTGAATCGGAAGTGCCGATGCTTCCCTCCGTTCG
* * * *
1610079 ATTTGAATCAGAAGTGACGATGCTTCCCTCTGCTT-G
1 ACTTGAATCGGAAGTGCCGATGCTTCCCTCCG-TTCG
* * *
1610115 ACTTGAATTGCAAGTGCCGATGCTTCTCTCCGTTCG
1 ACTTGAATCGGAAGTGCCGATGCTTCCCTCCGTTCG
* *
1610151 ACTTGAATCGGAAGGGTCGATGCTTCCCTCCGTTCG
1 ACTTGAATCGGAAGTGCCGATGCTTCCCTCCGTTCG
1610187 ACTTGAATCG
1 ACTTGAATCG
1610197 ATGCAAACTT
Statistics
Matches: 222, Mismatches: 34, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
35 65 0.29
36 155 0.70
37 2 0.01
ACGTcount: A:0.19, C:0.25, G:0.24, T:0.33
Consensus pattern (36 bp):
ACTTGAATCGGAAGTGCCGATGCTTCCCTCCGTTCG
Found at i:1615254 original size:84 final size:83
Alignment explanation
Indices: 1615150--1616020 Score: 714
Period size: 84 Copynumber: 10.6 Consensus size: 83
1615140 GTTTGCCTCT
* * * * *
1615150 GAGCTGAGTGTAATCGAACTTGAAGGTCTTCGGTAGGCAGATAACCCTTCTCGACTTAAGCTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGT-GGCAGATAACCCTTCTCGACTTAAGTTATG
1615215 CTACAAATGATGTGCCTTG
65 CTACAAATGATGTGCCTTG
* * * * * * * *
1615234 GAGCTGAGCGTAGTAGAACTTGAAGGTCTTTGGTGACAGACAACCCTTCTAGCCTTGAGTTATAC
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGGCAGATAACCCTTCTCGACTTAAGTTATGC
* **
1615299 TATAAATGATGTGCCCTCA
66 TACAAATGATGTG-CCTTG
* * * * * * * * *
1615318 AATCTGAGTGTAATCGAACTCGAGGGTCTTTGAT---AGATAACCCTTCTCAACTTAGGCTATGC
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGGCAGATAACCCTTCTCGACTTAAGTTATGC
*
1615380 TGCAAATGATGTGCCTTG
66 TACAAATGATGTGCCTTG
* * * * * *
1615398 GAGCTGAGCGTAGTTGAACTCGAAGGTCTTTGGTAGGCAGATAACCCTTATGGAATTAAGTTGTT
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGT-GGCAGATAACCCTTCTCGACTTAAGTTATG
* *
1615463 CTACAGATGATATGCCTTG
65 CTACAAATGATGTGCCTTG
* * * * * * *
1615482 GATCTGAGCATAGTTGAACAT-GAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTAT
1 GAGCTGAGCGTAGTCGAAC-TCGAAGGTC-TTTGGTGGCAGATAACCCTTCTCGACTTAAGTTAT
* **
1615546 GATGTAAATGATGTGCCCTTG
64 GCTACAAATGATGTG-CCTTG
* * * * * * * * *
1615567 AAGCTGAGTGTAATCGAACTTG-AGGT-TCTT--TGGAAGATAGCCCTTCTAGACTTAAGCTATA
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCT-TTGGTGGCAGATAACCCTTCTCGACTTAAGTTATG
* *
1615628 CTGA-AAATAATATGCCTTG
65 CT-ACAAATGATGTGCCTTG
* *
1615647 GAGCTGAGCGTAGTCGAACTCGGAGGTCTTTGGTTGGTAGATAACCCTTCTCGACTTAAGTTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG-TGGCAGATAACCCTTCTCGACTTAAGTTATG
* * * * * *
1615712 ATGCAAATAATATGTCTTA
65 CTACAAATGATGTGCCTTG
* ** * * * *
1615731 GAGCTAAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAAATAACCCTTCTAGCCTTGAGTTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTGGCAGATAACCCTTCTCGACTTAAGTTATG
** *
1615796 CTGTAAATGATGTTCCCTTG
65 CTACAAATGATG-TGCCTTG
* * * * * * *
1615816 AAGCTGAGTGTAATCGAACTCGAGGGTC-TT--TGGCAG---AGCCTTATCGACTTAAGCTATGC
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGGCAGATAACCCTTCTCGACTTAAGTTATGC
*
1615875 -GC-AATGATGTGCCTTG
66 TACAAATGATGTGCCTTG
* *
1615891 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAAACCTTCTCGACTTGAGTTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG-TGGCAGATAACCCTTCTCGACTTAAGTTATG
* * *
1615956 CTATAAATGGTATGCCTTG
65 CTACAAATGATGTGCCTTG
* * *
1615975 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGATGACAGACAACCC
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGGCAGATAACCC
1616021 CTGAGTTATG
Statistics
Matches: 614, Mismatches: 145, Indels: 57
0.75 0.18 0.07
Matches are distributed among these distances:
75 30 0.05
76 9 0.01
77 1 0.00
78 17 0.03
79 6 0.01
80 53 0.09
81 73 0.12
82 21 0.03
83 50 0.08
84 296 0.48
85 58 0.09
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (83 bp):
GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGGCAGATAACCCTTCTCGACTTAAGTTATGC
TACAAATGATGTGCCTTG
Found at i:1615613 original size:249 final size:248
Alignment explanation
Indices: 1615150--1616020 Score: 1139
Period size: 249 Copynumber: 3.5 Consensus size: 248
1615140 GTTTGCCTCT
* * * * *
1615150 GAGCTGAGTGTAATCGAACTTGAAGGTCTTCGGTAGGCAGATAACCCTTCTCGACTTAAGCTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTAGGCAGATAACCCTTCTCGACTTAAGTTATG
* * *
1615215 CTACAAATGATGTGCCTTGGAGCTGAGCGTAGTAGAACTTGAAGGTCTTTGGTGACAGACAACCC
66 CTACAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGACAACCC
* ** *
1615280 TTCTAGCCTTGAGTTAT-ACTATAAATGATGTGCCCTCAAATCTGAGTGTAATCGAACTCGAGGG
131 TTCTAGCCTTGAGTTATGA-TGTAAATGATGTGCCCTTGAAGCTGAGTGTAATCGAACTCGAGGG
* *
1615344 TCTTT-GATAGATAACCCTTCTCAACTTAGGCTATGCTGCAAATGATGTGCCTTG
195 TCTTTGGA-AGATAGCCCTTCTCAACTTAAGCTATGCTGCAAATGATGTGCCTTG
* * * * * *
1615398 GAGCTGAGCGTAGTTGAACTCGAAGGTCTTTGGTAGGCAGATAACCCTTATGGAATTAAGTTGTT
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTAGGCAGATAACCCTTCTCGACTTAAGTTATG
* * * * *
1615463 CTACAGATGATATGCCTTGGATCTGAGCATAGTTGAACAT-GAAGGTCTTTTGGTGACAGATAAC
66 CTACAAATGATATGCCTTGGAGCTGAGCGTAGTCGAAC-TCGAAGGTC-TTTGGTGACAGACAAC
*
1615527 CCTTCTAGCCTTGAGTTATGATGTAAATGATGTGCCCTTGAAGCTGAGTGTAATCGAACTTGAGG
129 CCTTCTAGCCTTGAGTTATGATGTAAATGATGTGCCCTTGAAGCTGAGTGTAATCGAACTCGAGG
* * * * *
1615592 TTCTTTGGAAGATAGCCCTTCT-AGACTTAAGCTATACTGAAAATAATATGCCTTG
194 GTCTTTGGAAGATAGCCCTTCTCA-ACTTAAGCTATGCTGCAAATGATGTGCCTTG
* * *
1615647 GAGCTGAGCGTAGTCGAACTCGGAGGTCTTTGGTTGGTAGATAACCCTTCTCGACTTAAGTTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTAGGCAGATAACCCTTCTCGACTTAAGTTATG
* * * * * * * * *
1615712 ATGCAAATAATATGTCTTAGAGCTAAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAAATAACC
66 CTACAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTGACAGACAACC
* *
1615777 CTTCTAGCCTTGAGTTATGCTGTAAATGATGTTCCCTTGAAGCTGAGTGTAATCGAACTCGAGGG
130 CTTCTAGCCTTGAGTTATGATGTAAATGATGTGCCCTTGAAGCTGAGTGTAATCGAACTCGAGGG
* * *
1615842 TCTTTGGCAG--AG-CCTTATCGACTTAAGCTATGC-GC-AATGATGTGCCTTG
195 TCTTTGGAAGATAGCCCTTCTCAACTTAAGCTATGCTGCAAATGATGTGCCTTG
* * *
1615891 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAAACCTTCTCGACTTGAGTTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTAGGCAGATAACCCTTCTCGACTTAAGTTATG
* * *
1615956 CTATAAATGGTATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGATGACAGACAACCC
66 CTACAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGACAACCC
1616021 CTGAGTTATG
Statistics
Matches: 539, Mismatches: 77, Indels: 19
0.85 0.12 0.03
Matches are distributed among these distances:
243 14 0.03
244 112 0.21
245 1 0.00
246 17 0.03
247 2 0.00
248 96 0.18
249 294 0.55
250 3 0.01
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (248 bp):
GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTAGGCAGATAACCCTTCTCGACTTAAGTTATG
CTACAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGACAACCC
TTCTAGCCTTGAGTTATGATGTAAATGATGTGCCCTTGAAGCTGAGTGTAATCGAACTCGAGGGT
CTTTGGAAGATAGCCCTTCTCAACTTAAGCTATGCTGCAAATGATGTGCCTTG
Found at i:1617323 original size:95 final size:95
Alignment explanation
Indices: 1617160--1617337 Score: 286
Period size: 95 Copynumber: 1.9 Consensus size: 95
1617150 CAGCTCTAAG
* * * *
1617160 CACCTTTATCAGGTTAGCTAAATCTTATCCATAAAGCTAGAGTGTTTAACCAATTGCCTTAGAGG
1 CACCTTTATCAGGCTAGCTAAATATTATCCATAAAGATAGAGCGTTTAACCAATTGCCTTAGAGG
1617225 GACAACTCAAGCTTTATTGCAGAGTATAAT
66 GACAACTCAAGCTTTATTGCAGAGTATAAT
* *
1617255 CACCTTTATCAGGCTAGCTGAATATTATCCATAAAGATAGGGCGTTTAACCAATTG-CTCTAGAG
1 CACCTTTATCAGGCTAGCTAAATATTATCCATAAAGATAGAGCGTTTAACCAATTGCCT-TAGAG
1617319 GGACAACTCAAGCTTTATT
65 GGACAACTCAAGCTTTATT
1617338 ATCTTATCCA
Statistics
Matches: 76, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
94 2 0.03
95 74 0.97
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (95 bp):
CACCTTTATCAGGCTAGCTAAATATTATCCATAAAGATAGAGCGTTTAACCAATTGCCTTAGAGG
GACAACTCAAGCTTTATTGCAGAGTATAAT
Found at i:1617364 original size:62 final size:62
Alignment explanation
Indices: 1617279--1617399 Score: 199
Period size: 62 Copynumber: 2.0 Consensus size: 62
1617269 TAGCTGAATA
*
1617279 TTATCCATAAAGATAGGGCGTTTAACCAATTG-CTCTAGAGGGACAACTCAAGCTTTATTATC
1 TTATCCATAAAGATAGAGCGTTTAACCAATTGCCT-TAGAGGGACAACTCAAGCTTTATTATC
* *
1617341 TTATCCATAAAGCTAGAGTGTTTAACCAATTGCCTTAGAGGGACAACTCAAGCTTTATT
1 TTATCCATAAAGATAGAGCGTTTAACCAATTGCCTTAGAGGGACAACTCAAGCTTTATT
1617400 GCAGAGTATA
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
62 53 0.96
63 2 0.04
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.31
Consensus pattern (62 bp):
TTATCCATAAAGATAGAGCGTTTAACCAATTGCCTTAGAGGGACAACTCAAGCTTTATTATC
Found at i:1617467 original size:157 final size:157
Alignment explanation
Indices: 1617181--1617494 Score: 628
Period size: 157 Copynumber: 2.0 Consensus size: 157
1617171 GGTTAGCTAA
1617181 ATCTTATCCATAAAGCTAGAGTGTTTAACCAATTGCCTTAGAGGGACAACTCAAGCTTTATTGCA
1 ATCTTATCCATAAAGCTAGAGTGTTTAACCAATTGCCTTAGAGGGACAACTCAAGCTTTATTGCA
1617246 GAGTATAATCACCTTTATCAGGCTAGCTGAATATTATCCATAAAGATAGGGCGTTTAACCAATTG
66 GAGTATAATCACCTTTATCAGGCTAGCTGAATATTATCCATAAAGATAGGGCGTTTAACCAATTG
1617311 CTCTAGAGGGACAACTCAAGCTTTATT
131 CTCTAGAGGGACAACTCAAGCTTTATT
1617338 ATCTTATCCATAAAGCTAGAGTGTTTAACCAATTGCCTTAGAGGGACAACTCAAGCTTTATTGCA
1 ATCTTATCCATAAAGCTAGAGTGTTTAACCAATTGCCTTAGAGGGACAACTCAAGCTTTATTGCA
1617403 GAGTATAATCACCTTTATCAGGCTAGCTGAATATTATCCATAAAGATAGGGCGTTTAACCAATTG
66 GAGTATAATCACCTTTATCAGGCTAGCTGAATATTATCCATAAAGATAGGGCGTTTAACCAATTG
1617468 CTCTAGAGGGACAACTCAAGCTTTATT
131 CTCTAGAGGGACAACTCAAGCTTTATT
1617495 GTATATATAT
Statistics
Matches: 157, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
157 157 1.00
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (157 bp):
ATCTTATCCATAAAGCTAGAGTGTTTAACCAATTGCCTTAGAGGGACAACTCAAGCTTTATTGCA
GAGTATAATCACCTTTATCAGGCTAGCTGAATATTATCCATAAAGATAGGGCGTTTAACCAATTG
CTCTAGAGGGACAACTCAAGCTTTATT
Found at i:1623482 original size:15 final size:15
Alignment explanation
Indices: 1623462--1623495 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
1623452 TATGTGTGAA
*
1623462 GAAGAAAATGAACTG
1 GAAGAAAATGAACTC
*
1623477 GAAGAAGATGAACTC
1 GAAGAAAATGAACTC
1623492 GAAG
1 GAAG
1623496 TGCGTTTGTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.50, C:0.09, G:0.29, T:0.12
Consensus pattern (15 bp):
GAAGAAAATGAACTC
Found at i:1625342 original size:21 final size:21
Alignment explanation
Indices: 1625316--1625365 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
1625306 TCCAGATTCA
*
1625316 CAACGCGAACTTCGACTATCG
1 CAACGCGAACCTCGACTATCG
*
1625337 CAACGCGAACCTGGACTATCG
1 CAACGCGAACCTCGACTATCG
*
1625358 CAATGCGA
1 CAACGCGA
1625366 TTTACATATT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.30, C:0.32, G:0.22, T:0.16
Consensus pattern (21 bp):
CAACGCGAACCTCGACTATCG
Found at i:1625404 original size:21 final size:21
Alignment explanation
Indices: 1625374--1625613 Score: 181
Period size: 21 Copynumber: 11.6 Consensus size: 21
1625364 GATTTACATA
*
1625374 TTCGCATTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
*
1625395 TTCGCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
** *
1625416 TTCGCGTTGCGATTTTCCAAA
1 TTCGCGTTGCGATAGTCCAAG
*
1625437 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* **
1625456 TTCGCGTTGTGATAGTGGAAG
1 TTCGCGTTGCGATAGTCCAAG
* ** *
1625477 TTCGCGTTACGATTTTCCAAA
1 TTCGCGTTGCGATAGTCCAAG
* *
1625498 TT--CGTTACGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* * *
1625517 TTCGTGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
* *
1625540 TT--TGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
1625559 TTCGCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
*
1625582 TT--CGTTGTGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
1625601 TTCGCGTTGCGAT
1 TTCGCGTTGCGAT
1625614 TTATTCCAAA
Statistics
Matches: 168, Mismatches: 39, Indels: 24
0.73 0.17 0.10
Matches are distributed among these distances:
19 47 0.28
21 105 0.62
23 16 0.10
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.35
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCCAAG
Found at i:1625426 original size:42 final size:40
Alignment explanation
Indices: 1625380--1625629 Score: 216
Period size: 42 Copynumber: 6.0 Consensus size: 40
1625370 CATATTCGCA
* * *
1625380 TTGCGATAGTCCAAGTTCGCGTTGCGATAGTCGAAGTTCGCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATATTCCAAATT--CG
** * * * *
1625422 TTGCGATTTTCCAAATT--CGTTGCGATAGTCGAAGTTCGCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATATTCCAAATT--CG
* ** * *
1625462 TTGTGATAGTGGAAGTTCGCGTTACGATTTTCCAAATTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATATTCCAAATTCG
* * * *
1625502 TTACGATAGTCGAAGTTCGTGTTGCGATTTATTCCAAATTTG
1 TTGCGATAGTCCAAGTTCGCGTTGCGA--TATTCCAAATTCG
*
1625544 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGA--TATTCCAAATTCG
*
1625586 TTGTGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGA--TATTCCAAATTCG
1625628 TT
1 TT
1625630 ACGACTGGTG
Statistics
Matches: 178, Mismatches: 26, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
40 58 0.33
42 120 0.67
ACGTcount: A:0.21, C:0.18, G:0.24, T:0.36
Consensus pattern (40 bp):
TTGCGATAGTCCAAGTTCGCGTTGCGATATTCCAAATTCG
Found at i:1625457 original size:61 final size:61
Alignment explanation
Indices: 1625380--1625529 Score: 246
Period size: 61 Copynumber: 2.5 Consensus size: 61
1625370 CATATTCGCA
* *
1625380 TTGCGATAGTCCAAGTTCGCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATAGTCGAAGTTCGCGTTACGATTTTCCAAATTCG
* *
1625441 TTGCGATAGTCGAAGTTCGCGTTGTGATAGTGGAAGTTCGCGTTACGATTTTCCAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATAGTCGAAGTTCGCGTTACGATTTTCCAAATTCG
* *
1625502 TTACGATAGTCGAAGTTCGTGTTGCGAT
1 TTGCGATAGTCGAAGTTCGCGTTGCGAT
1625530 TTATTCCAAA
Statistics
Matches: 82, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
61 82 1.00
ACGTcount: A:0.21, C:0.18, G:0.27, T:0.34
Consensus pattern (61 bp):
TTGCGATAGTCGAAGTTCGCGTTGCGATAGTCGAAGTTCGCGTTACGATTTTCCAAATTCG
Found at i:1625610 original size:84 final size:82
Alignment explanation
Indices: 1625461--1625625 Score: 249
Period size: 84 Copynumber: 2.0 Consensus size: 82
1625451 CGAAGTTCGC
* * * *
1625461 GTTGTGATAGTGGAAGTTCGCGTTACGATTTTCCAAATTCGTTACGATAGTCGAAGTTCGTGTTG
1 GTTGCGATAGTCGAAGTTCGCGTTACGATTTTCCAAATTCGTTACGATAGTCCAAGTTCGCGTTG
1625526 CGATTTATTCCAAATTT
66 CGATTTATTCCAAATTT
* **
1625543 GTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGTGATAGTCCAAGTTCGCGT
1 GTTGCGATAGTCGAAGTTCGCGTTACGA-TT-TTCCAAATTCGTTACGATAGTCCAAGTTCGCGT
1625608 TGCGATTTATTCCAAATT
64 TGCGATTTATTCCAAATT
1625626 CGTTACGACT
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
82 25 0.34
83 2 0.03
84 47 0.64
ACGTcount: A:0.22, C:0.16, G:0.23, T:0.38
Consensus pattern (82 bp):
GTTGCGATAGTCGAAGTTCGCGTTACGATTTTCCAAATTCGTTACGATAGTCCAAGTTCGCGTTG
CGATTTATTCCAAATTT
Found at i:1625629 original size:21 final size:21
Alignment explanation
Indices: 1625522--1625629 Score: 89
Period size: 21 Copynumber: 5.1 Consensus size: 21
1625512 CGAAGTTCGT
*
1625522 GTTGCGATTTATTCCAAATTT
1 GTTGCGATTTATTCCAAATTC
* * *
1625543 GTTGCGA--TAGTCGAAGTTCGC
1 GTTGCGATTTATTCCAAATT--C
1625564 GTTGCGATTTATTCCAAATTC
1 GTTGCGATTTATTCCAAATTC
* * *
1625585 GTTGTGA--TAGTCCAAGTTCGC
1 GTTGCGATTTATTCCAAATT--C
1625606 GTTGCGATTTATTCCAAATTC
1 GTTGCGATTTATTCCAAATTC
1625627 GTT
1 GTT
1625630 ACGACTGGTG
Statistics
Matches: 66, Mismatches: 13, Indels: 16
0.69 0.14 0.17
Matches are distributed among these distances:
19 17 0.26
21 32 0.48
23 17 0.26
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.40
Consensus pattern (21 bp):
GTTGCGATTTATTCCAAATTC
Found at i:1625722 original size:6 final size:6
Alignment explanation
Indices: 1625711--1625744 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
1625701 AGACACGTAT
*
1625711 GACCAC GACCAC GACCAC GACCAC AACCAC GACC
1 GACCAC GACCAC GACCAC GACCAC GACCAC GACC
1625745 CGAGACGAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.35, C:0.50, G:0.15, T:0.00
Consensus pattern (6 bp):
GACCAC
Found at i:1626374 original size:19 final size:19
Alignment explanation
Indices: 1626350--1626467 Score: 83
Period size: 21 Copynumber: 5.8 Consensus size: 19
1626340 TCGTTGCGAT
*
1626350 TTTGGACTAGCGCAACGAA
1 TTTGGACTATCGCAACGAA
*
1626369 TTTGGAATAAATCGCAAAGCGAA
1 TTTGGACT--ATCGC-AA-CGAA
* *
1626392 CTTCGACTATCGCAACGAA
1 TTTGGACTATCGCAACGAA
**
1626411 TTTGGAAAATCGCAACGCGAA
1 TTTGGACTATCGCAA--CGAA
* *
1626432 CTTCGACTATCGCAATGCGAA
1 TTTGGACTATCGCAA--CGAA
*
1626453 CTTGGACTATCGCAA
1 TTTGGACTATCGCAA
1626468 TGCGAATATG
Statistics
Matches: 78, Mismatches: 15, Indels: 10
0.76 0.15 0.10
Matches are distributed among these distances:
19 22 0.28
20 2 0.03
21 43 0.55
22 2 0.03
23 9 0.12
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.22
Consensus pattern (19 bp):
TTTGGACTATCGCAACGAA
Found at i:1626403 original size:21 final size:21
Alignment explanation
Indices: 1626379--1626473 Score: 104
Period size: 21 Copynumber: 4.6 Consensus size: 21
1626369 TTTGGAATAA
1626379 ATCGCAAAGCGAACTTCGACT
1 ATCGCAAAGCGAACTTCGACT
* * **
1626400 ATCGC-AA-CGAATTTGGAAA
1 ATCGCAAAGCGAACTTCGACT
*
1626419 ATCGCAACGCGAACTTCGACT
1 ATCGCAAAGCGAACTTCGACT
* *
1626440 ATCGCAATGCGAACTTGGACT
1 ATCGCAAAGCGAACTTCGACT
*
1626461 ATCGCAATGCGAA
1 ATCGCAAAGCGAA
1626474 TATGTAAATC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
19 13 0.21
20 3 0.05
21 45 0.74
ACGTcount: A:0.34, C:0.25, G:0.21, T:0.20
Consensus pattern (21 bp):
ATCGCAAAGCGAACTTCGACT
Found at i:1626413 original size:42 final size:40
Alignment explanation
Indices: 1626354--1626473 Score: 150
Period size: 42 Copynumber: 2.9 Consensus size: 40
1626344 TGCGATTTTG
*
1626354 GACTAGCGCAACGAATTTGGAATAAATCGCAAAGCGAACTTC
1 GACTATCGCAACGAATTTGG-A-AAATCGCAAAGCGAACTTC
*
1626396 GACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAATTTGGAAAATCGCAAAGCGAACTTC
* ** *
1626436 GACTATCGCAATGCGAACTTGGACTATCGCAATGCGAA
1 GACTATCGCAA--CGAATTTGGAAAATCGCAAAGCGAA
1626474 TATGTAAATC
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
40 29 0.41
41 1 0.01
42 40 0.57
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.20
Consensus pattern (40 bp):
GACTATCGCAACGAATTTGGAAAATCGCAAAGCGAACTTC
Found at i:1626486 original size:20 final size:20
Alignment explanation
Indices: 1626461--1626552 Score: 175
Period size: 20 Copynumber: 4.6 Consensus size: 20
1626451 AACTTGGACT
1626461 ATCGCAATGCGAATATGTAA
1 ATCGCAATGCGAATATGTAA
1626481 ATCGCAATGCGAATATGTAA
1 ATCGCAATGCGAATATGTAA
1626501 ATCGCAATGCGAATATGTAA
1 ATCGCAATGCGAATATGTAA
1626521 ATCGCAATGCGAATATGTAA
1 ATCGCAATGCGAATATGTAA
*
1626541 ATCTCAATGCGA
1 ATCGCAATGCGA
1626553 TAGTCGAAGT
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
20 71 1.00
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.25
Consensus pattern (20 bp):
ATCGCAATGCGAATATGTAA
Found at i:1627631 original size:19 final size:20
Alignment explanation
Indices: 1627587--1627631 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
1627577 ATTTATTTTT
*
1627587 AATAAATTTTTATCTATGAA
1 AATAAATTTTTATCTATCAA
* *
1627607 ATTAAATTTTTAT-TTTCAA
1 AATAAATTTTTATCTATCAA
1627626 AATAAA
1 AATAAA
1627632 ATATTAAAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (20 bp):
AATAAATTTTTATCTATCAA
Found at i:1631467 original size:21 final size:21
Alignment explanation
Indices: 1631443--1631489 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
1631433 AATTGCATAA
*
1631443 GAAAAGCTGGTTACATCCCAG
1 GAAAAGCTAGTTACATCCCAG
*
1631464 GAAAAGCTAGTTGCATCCCAG
1 GAAAAGCTAGTTACATCCCAG
1631485 GAAAA
1 GAAAA
1631490 ATTCCAAAGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.17
Consensus pattern (21 bp):
GAAAAGCTAGTTACATCCCAG
Found at i:1640997 original size:11 final size:11
Alignment explanation
Indices: 1640983--1641017 Score: 70
Period size: 11 Copynumber: 3.2 Consensus size: 11
1640973 TTTATTATAT
1640983 TTCAATCTGAG
1 TTCAATCTGAG
1640994 TTCAATCTGAG
1 TTCAATCTGAG
1641005 TTCAATCTGAG
1 TTCAATCTGAG
1641016 TT
1 TT
1641018 GGTTGATTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (11 bp):
TTCAATCTGAG
Found at i:1641318 original size:163 final size:163
Alignment explanation
Indices: 1641048--1641374 Score: 654
Period size: 163 Copynumber: 2.0 Consensus size: 163
1641038 AGTAGGGATC
1641048 TCATAAGGAGGTAGCGACAGCGCGAAGCTCCAACTGAAAGTGGCGGTGACACGATTATTGTTTAA
1 TCATAAGGAGGTAGCGACAGCGCGAAGCTCCAACTGAAAGTGGCGGTGACACGATTATTGTTTAA
1641113 TATTGGTGTGACACGAGTGAAAATAGAGGCTAGGGATAGAGTTTAGTGTTAGGGTTAGGTTTGAT
66 TATTGGTGTGACACGAGTGAAAATAGAGGCTAGGGATAGAGTTTAGTGTTAGGGTTAGGTTTGAT
1641178 TAGGGTTTGGGCCAGTTTGTTGGGCTTGGTTTG
131 TAGGGTTTGGGCCAGTTTGTTGGGCTTGGTTTG
1641211 TCATAAGGAGGTAGCGACAGCGCGAAGCTCCAACTGAAAGTGGCGGTGACACGATTATTGTTTAA
1 TCATAAGGAGGTAGCGACAGCGCGAAGCTCCAACTGAAAGTGGCGGTGACACGATTATTGTTTAA
1641276 TATTGGTGTGACACGAGTGAAAATAGAGGCTAGGGATAGAGTTTAGTGTTAGGGTTAGGTTTGAT
66 TATTGGTGTGACACGAGTGAAAATAGAGGCTAGGGATAGAGTTTAGTGTTAGGGTTAGGTTTGAT
1641341 TAGGGTTTGGGCCAGTTTGTTGGGCTTGGTTTG
131 TAGGGTTTGGGCCAGTTTGTTGGGCTTGGTTTG
1641374 T
1 T
1641375 TGTTGGGTCT
Statistics
Matches: 164, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
163 164 1.00
ACGTcount: A:0.24, C:0.11, G:0.34, T:0.30
Consensus pattern (163 bp):
TCATAAGGAGGTAGCGACAGCGCGAAGCTCCAACTGAAAGTGGCGGTGACACGATTATTGTTTAA
TATTGGTGTGACACGAGTGAAAATAGAGGCTAGGGATAGAGTTTAGTGTTAGGGTTAGGTTTGAT
TAGGGTTTGGGCCAGTTTGTTGGGCTTGGTTTG
Found at i:1641500 original size:3 final size:3
Alignment explanation
Indices: 1641494--1641523 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
1641484 TAAGAACAAC
1641494 AAT AAT AAT AAT AAT AAAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AA
1641524 ACACTTAGAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:1641515 original size:13 final size:13
Alignment explanation
Indices: 1641497--1641524 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1641487 GAACAACAAT
1641497 AATAATAATAATA
1 AATAATAATAATA
1641510 AATAATAATAATA
1 AATAATAATAATA
1641523 AA
1 AA
1641525 CACTTAGACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (13 bp):
AATAATAATAATA
Found at i:1642329 original size:40 final size:39
Alignment explanation
Indices: 1642285--1642360 Score: 98
Period size: 40 Copynumber: 1.9 Consensus size: 39
1642275 ATCTGATGAT
* *
1642285 GACATTAATCCTTCGTGTTGAGGATGTCTAGTCTGTAAAC
1 GACATTAATCCTTCGTGTTGAGAACGTCTAGT-TGTAAAC
** *
1642325 GACATTGTTCCTTCGTGTTTAGAACGTCTAGTTGTA
1 GACATTAATCCTTCGTGTTGAGAACGTCTAGTTGTA
1642361 TTTGGATCAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
39 4 0.13
40 27 0.87
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.38
Consensus pattern (39 bp):
GACATTAATCCTTCGTGTTGAGAACGTCTAGTTGTAAAC
Found at i:1642839 original size:30 final size:30
Alignment explanation
Indices: 1642783--1642839 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
1642773 GGTGGCCTTG
*
1642783 GTCCATGTACTATTCAACATTGGTGGCCAA
1 GTCCATGTACTATTCAACATTAGTGGCCAA
* *
1642813 GTCCATGTACTATTTAACCTTAGTGGC
1 GTCCATGTACTATTCAACATTAGTGGC
1642840 TGAGATTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (30 bp):
GTCCATGTACTATTCAACATTAGTGGCCAA
Found at i:1643166 original size:24 final size:24
Alignment explanation
Indices: 1643132--1643191 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
1643122 TTTCAAAAGG
* * *
1643132 TGAAAAAGTTTGATGAAGAAGTTT
1 TGAAAATGTTTGATGAACAAATTT
*
1643156 TGAAAATGTTTTATGAACAAATTT
1 TGAAAATGTTTGATGAACAAATTT
1643180 TGAATAATGTTT
1 TGAA-AATGTTT
1643192 AAATTTTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
24 24 0.77
25 7 0.23
ACGTcount: A:0.40, C:0.02, G:0.18, T:0.40
Consensus pattern (24 bp):
TGAAAATGTTTGATGAACAAATTT
Found at i:1643197 original size:18 final size:18
Alignment explanation
Indices: 1643174--1643209 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1643164 TTTTATGAAC
* *
1643174 AAATTTTGAATAATGTTT
1 AAATTTTAAAAAATGTTT
1643192 AAATTTTAAAAAATGTTT
1 AAATTTTAAAAAATGTTT
1643210 GATGAAAGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.47
Consensus pattern (18 bp):
AAATTTTAAAAAATGTTT
Found at i:1649390 original size:32 final size:33
Alignment explanation
Indices: 1649337--1649416 Score: 94
Period size: 32 Copynumber: 2.5 Consensus size: 33
1649327 ACTTTATTGG
* *
1649337 CTCAAATAGAGGTA-AATGTATGA-TTTGGGTGC
1 CTCAAAGAGAGGTAGTATGTATGACTTT-GGTGC
*
1649369 CTCAAAGAGAGGTAGTA-GTATGACTTTTGTGC
1 CTCAAAGAGAGGTAGTATGTATGACTTTGGTGC
*
1649401 CTCAAAGAGAAGTAGT
1 CTCAAAGAGAGGTAGT
1649417 GTCAAAATTT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
32 38 0.90
33 4 0.10
ACGTcount: A:0.33, C:0.11, G:0.28, T:0.29
Consensus pattern (33 bp):
CTCAAAGAGAGGTAGTATGTATGACTTTGGTGC
Found at i:1652376 original size:19 final size:19
Alignment explanation
Indices: 1652348--1652391 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
1652338 TCGAACACTG
*
1652348 AAGACTTTATAAATTTAAA
1 AAGACATTATAAATTTAAA
1652367 AAGACATTATAAATTTAAA
1 AAGACATTATAAATTTAAA
1652386 AAGACA
1 AAGACA
1652392 ATTTAATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.30
Consensus pattern (19 bp):
AAGACATTATAAATTTAAA
Found at i:1653831 original size:23 final size:22
Alignment explanation
Indices: 1653779--1653870 Score: 87
Period size: 23 Copynumber: 4.0 Consensus size: 22
1653769 GAAAATTAAT
* *
1653779 TAAATTAAAACAAAGAAAGTAAAA
1 TAAAATAAAA-AAATAAA-TAAAA
*
1653803 T-GAATAAAAATAATAAATAAAA
1 TAAAATAAAAA-AATAAATAAAA
**
1653825 TAAAATAAACGCAATAAATAAAA
1 TAAAATAAA-AAAATAAATAAAA
1653848 TAAAATAAAAGAAATAAATAAAA
1 TAAAATAAAA-AAATAAATAAAA
1653871 ATATTGGATC
Statistics
Matches: 56, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
22 7 0.12
23 48 0.86
24 1 0.02
ACGTcount: A:0.73, C:0.03, G:0.05, T:0.18
Consensus pattern (22 bp):
TAAAATAAAAAAATAAATAAAA
Found at i:1653849 original size:9 final size:9
Alignment explanation
Indices: 1653798--1653869 Score: 51
Period size: 9 Copynumber: 8.0 Consensus size: 9
1653788 ACAAAGAAAG
*
1653798 TAAAATGAA
1 TAAAATAAA
1653807 TAAAA-ATAA
1 TAAAATA-AA
1653816 T-AAATAAAA
1 TAAAAT-AAA
1653825 TAAAATAAA
1 TAAAATAAA
***
1653834 CGCAATAAA
1 TAAAATAAA
1653843 TAAAATAAAA
1 TAAAAT-AAA
*
1653853 TAAAAGAAA
1 TAAAATAAA
1653862 T-AAATAAA
1 TAAAATAAA
1653870 AATATTGGAT
Statistics
Matches: 49, Mismatches: 9, Indels: 11
0.71 0.13 0.16
Matches are distributed among these distances:
8 9 0.18
9 27 0.55
10 13 0.27
ACGTcount: A:0.74, C:0.03, G:0.04, T:0.19
Consensus pattern (9 bp):
TAAAATAAA
Found at i:1655092 original size:22 final size:23
Alignment explanation
Indices: 1655051--1655102 Score: 72
Period size: 24 Copynumber: 2.3 Consensus size: 23
1655041 ATATTTCAAA
*
1655051 ATATTTTCAAAAACTATATATTAT
1 ATATTTTCAAAAAC-ATATAATAT
1655075 ATATTTTCAAAAAC-TATAATAT
1 ATATTTTCAAAAACATATAATAT
1655097 A-ATTTT
1 ATATTTT
1655103 AAATATTTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 5 0.19
22 8 0.30
24 14 0.52
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (23 bp):
ATATTTTCAAAAACATATAATAT
Found at i:1655112 original size:54 final size:60
Alignment explanation
Indices: 1655024--1655208 Score: 238
Period size: 66 Copynumber: 3.1 Consensus size: 60
1655014 ATTTTTATTA
1655024 AAAAACTATATATATATATATTTCAAAATATTTTCAAAAACTATATA-T-TATATATTTTC
1 AAAAACTATATATATATATATTT-AAAATATTTTCAAAAACTATATATTATATATATTTTC
1655083 AAAAACTATA-ATATA-AT-TTT-AAATATTTTCAAAAACTATATATTATATATATTTTC
1 AAAAACTATATATATATATATTTAAAATATTTTCAAAAACTATATATTATATATATTTTC
* * *
1655139 AAAAACTATATATTATATATATATTTTTTAAAATGTTTTCTAAAACTATATATTATATGTATTTT
1 AAAAAC--TATA-TATATATATA---TTTAAAATATTTTCAAAAACTATATATTATATATATTTT
1655204 C
60 C
1655205 AAAA
1 AAAA
1655209 TATTTTTAAA
Statistics
Matches: 111, Mismatches: 3, Indels: 17
0.85 0.02 0.13
Matches are distributed among these distances:
54 22 0.20
55 1 0.01
56 20 0.18
57 2 0.02
58 9 0.08
59 10 0.09
60 5 0.05
61 2 0.02
65 3 0.03
66 37 0.33
ACGTcount: A:0.46, C:0.07, G:0.01, T:0.45
Consensus pattern (60 bp):
AAAAACTATATATATATATATTTAAAATATTTTCAAAAACTATATATTATATATATTTTC
Found at i:1655138 original size:26 final size:26
Alignment explanation
Indices: 1655051--1655160 Score: 152
Period size: 26 Copynumber: 4.2 Consensus size: 26
1655041 ATATTTCAAA
1655051 ATATTTTCAAAAACTATATA-T-TAT
1 ATATTTTCAAAAACTATATATTATAT
* *
1655075 ATATTTTCAAAAACTATAATATAATTTTAA
1 ATATTTTCAAAAAC--T-ATAT-ATTATAT
1655105 ATATTTTCAAAAACTATATATTATAT
1 ATATTTTCAAAAACTATATATTATAT
1655131 ATATTTTCAAAAACTATATATTATAT
1 ATATTTTCAAAAACTATATATTATAT
1655157 ATAT
1 ATAT
1655161 ATTTTTTAAA
Statistics
Matches: 77, Mismatches: 3, Indels: 10
0.86 0.03 0.11
Matches are distributed among these distances:
24 14 0.18
26 36 0.47
27 8 0.10
28 2 0.03
29 1 0.01
30 16 0.21
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.45
Consensus pattern (26 bp):
ATATTTTCAAAAACTATATATTATAT
Found at i:1655184 original size:40 final size:40
Alignment explanation
Indices: 1655134--1655285 Score: 134
Period size: 37 Copynumber: 3.7 Consensus size: 40
1655124 ATTATATATA
* *
1655134 TTTTCAAAAACTATATATTATATATATATTTTTTAAAATG
1 TTTTCTAAAACTATATATTATATATATATTTTTCAAAATG
* *
1655174 TTTTCTAAAACTATATA-T-TATATGTA-TTTTCAAAATA
1 TTTTCTAAAACTATATATTATATATATATTTTTCAAAATG
* *
1655211 TTTT-TAAATACTATAT-TATATATATATATGGTTTCAAAACG
1 TTTTCTAAA-ACTATATAT-TATATATATAT-TTTTCAAAATG
*
1655252 TCATTTTTAAAAAACTATATATTATATACTATAT
1 T--TTTCT--AAAACTATATATTATATA-TATAT
1655286 ATATACTAAA
Statistics
Matches: 91, Mismatches: 8, Indels: 20
0.76 0.07 0.17
Matches are distributed among these distances:
36 4 0.04
37 20 0.22
38 8 0.09
39 8 0.09
40 16 0.18
41 9 0.10
43 3 0.03
44 1 0.01
45 13 0.14
46 9 0.10
ACGTcount: A:0.41, C:0.07, G:0.03, T:0.48
Consensus pattern (40 bp):
TTTTCTAAAACTATATATTATATATATATTTTTCAAAATG
Found at i:1655250 original size:66 final size:66
Alignment explanation
Indices: 1655024--1655249 Score: 179
Period size: 66 Copynumber: 3.7 Consensus size: 66
1655014 ATTTTTATTA
*
1655024 AAAAACTATATA-T--ATATATATTTCA-AAATAT--TTTCAAAAACTATATA-T-TATATATTT
1 AAAAACTATATATTAAATATATATTTTATAAA-ATGGTTTCAAAAACTATATATTATATATATTT
1655081 TC
65 TC
*
1655083 AAAAAC----TA-T-AATATA-ATTTTA-AATAT--TTTCAAAAACTATATATTATATATATTTT
1 AAAAACTATATATTAAATATATATTTTATAAAATGGTTTCAAAAACTATATATTATATATATTTT
1655138 C
66 C
* * * * *
1655139 AAAAACTATATATTATATATATATTTTTTAAAATGTTTTCTAAAACTATATATTATATGTATTTT
1 AAAAACTATATATTAAATATATATTTTATAAAATGGTTTCAAAAACTATATATTATATATATTTT
1655204 C
66 C
* *
1655205 -AAAA-TAT-TTTTAAATACTATATTATATATATATATGGTTTCAAAA
1 AAAAACTATATATTAAATA-TATATT-T-TATA-AAATGGTTTCAAAA
1655250 CGTCATTTTT
Statistics
Matches: 137, Mismatches: 13, Indels: 26
0.78 0.07 0.15
Matches are distributed among these distances:
54 18 0.13
55 11 0.08
56 22 0.16
59 6 0.04
60 2 0.01
61 1 0.01
62 5 0.04
63 12 0.09
64 13 0.09
65 5 0.04
66 31 0.23
67 11 0.08
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.46
Consensus pattern (66 bp):
AAAAACTATATATTAAATATATATTTTATAAAATGGTTTCAAAAACTATATATTATATATATTTT
C
Found at i:1663378 original size:6 final size:6
Alignment explanation
Indices: 1663357--1663410 Score: 74
Period size: 6 Copynumber: 8.7 Consensus size: 6
1663347 AAGCAAAATG
1663357 AATAAA AATAATA AATAAA AAT-AA AATAAA AATAAA AATAAATA AATAAA
1 AATAAA AATAA-A AATAAA AATAAA AATAAA AATAAA AAT-AA-A AATAAA
1663407 AATA
1 AATA
1663411 TTGGATCAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
5 5 0.11
6 25 0.57
7 10 0.23
8 4 0.09
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (6 bp):
AATAAA
Found at i:1664427 original size:18 final size:18
Alignment explanation
Indices: 1664404--1664452 Score: 89
Period size: 18 Copynumber: 2.7 Consensus size: 18
1664394 CTATATAAAG
1664404 GGGTATCGATACCCTCTA
1 GGGTATCGATACCCTCTA
1664422 GGGTATCGATACCCTCTA
1 GGGTATCGATACCCTCTA
*
1664440 GGGTATCAATACC
1 GGGTATCGATACC
1664453 TCTTTTGCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (18 bp):
GGGTATCGATACCCTCTA
Found at i:1664656 original size:29 final size:29
Alignment explanation
Indices: 1664623--1664687 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 29
1664613 GGAGTAAAAT
*
1664623 TGATATTTGAAAACTTGGGGTAATATTTG
1 TGATATTTAAAAACTTGGGGTAATATTTG
*
1664652 TGATAATTAAAAACTTGGGGTAATATTTG
1 TGATATTTAAAAACTTGGGGTAATATTTG
1664681 TGATATT
1 TGATATT
1664688 CGATTAATTG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.34, C:0.03, G:0.22, T:0.42
Consensus pattern (29 bp):
TGATATTTAAAAACTTGGGGTAATATTTG
Found at i:1667169 original size:21 final size:21
Alignment explanation
Indices: 1667124--1667175 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
1667114 ATTCAAGGAG
1667124 AGTATCGATA-CTACATGAAC
1 AGTATCGATACCTACATGAAC
*
1667144 AGTATCGATACCTA-TTGAATC
1 AGTATCGATACCTACATGAA-C
1667165 AGTATCGATAC
1 AGTATCGATAC
1667176 TATGCTAGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 14 0.48
21 15 0.52
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.29
Consensus pattern (21 bp):
AGTATCGATACCTACATGAAC
Found at i:1667178 original size:20 final size:19
Alignment explanation
Indices: 1667124--1667178 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 19
1667114 ATTCAAGGAG
*
1667124 AGTATCGATACTACATGAAC
1 AGTATCGATACTA-TTGAAC
1667144 AGTATCGATACCTATTGAATC
1 AGTATCGATA-CTATTGAA-C
1667165 AGTATCGATACTAT
1 AGTATCGATACTAT
1667179 GCTAGTAGTA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 18 0.56
21 14 0.44
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (19 bp):
AGTATCGATACTATTGAAC
Found at i:1674628 original size:24 final size:24
Alignment explanation
Indices: 1674602--1674711 Score: 68
Period size: 26 Copynumber: 4.5 Consensus size: 24
1674592 ATGAAAATGA
1674602 ATAA-AATATAGTA-AATA-ATAT
1 ATAATAATATAGTATAATATATAT
*
1674623 ATAATACTATAGTATAATATATAT
1 ATAATAATATAGTATAATATATAT
* *
1674647 ATATTTAAAAACTA-TATAATATATAT
1 ATA-AT-AATA-TAGTATAATATATAT
* *
1674673 ATATATTTAA-AAACTATAATATATAT
1 ATA-A--TAATATAGTATAATATATAT
1674699 ATATATATATATA
1 ATA-ATA-ATATA
1674712 TTTAAAATAT
Statistics
Matches: 71, Mismatches: 7, Indels: 17
0.75 0.07 0.18
Matches are distributed among these distances:
21 4 0.06
22 8 0.11
23 4 0.06
24 9 0.13
25 3 0.04
26 38 0.54
27 4 0.06
28 1 0.01
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.41
Consensus pattern (24 bp):
ATAATAATATAGTATAATATATAT
Found at i:1674640 original size:13 final size:11
Alignment explanation
Indices: 1674602--1674711 Score: 60
Period size: 10 Copynumber: 10.3 Consensus size: 11
1674592 ATGAAAATGA
*
1674602 ATAAAATATAGT
1 ATAATATATA-T
1674614 A-AATA-ATAT
1 ATAATATATAT
1674623 ATAATACTATAGT
1 ATAATA-TATA-T
1674636 ATAATATATAT
1 ATAATATATAT
1674647 AT-AT-T-TA-
1 ATAATATATAT
*
1674654 AAAACTATATAAT
1 ATAA-TATAT-AT
1674667 ATATATATATAT
1 ATA-ATATATAT
*
1674679 TTAA-A-A-ACT
1 ATAATATATA-T
1674688 ATAATATATAT
1 ATAATATATAT
1674699 AT-ATATATAT
1 ATAATATATAT
1674709 ATA
1 ATA
1674712 TTTAAAATAT
Statistics
Matches: 77, Mismatches: 5, Indels: 33
0.67 0.04 0.29
Matches are distributed among these distances:
7 1 0.01
8 4 0.05
9 9 0.12
10 22 0.29
11 12 0.16
12 14 0.18
13 14 0.18
14 1 0.01
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.41
Consensus pattern (11 bp):
ATAATATATAT
Found at i:1674644 original size:2 final size:2
Alignment explanation
Indices: 1674619--1674712 Score: 70
Period size: 2 Copynumber: 47.0 Consensus size: 2
1674609 ATAGTAAATA
* * *
1674619 AT AT AT A- AT ACT AT AGT AT A- AT AT AT AT AT AT TT AA AA ACT
1 AT AT AT AT AT A-T AT A-T AT AT AT AT AT AT AT AT AT AT AT A-T
* * *
1674660 AT AT A- AT AT AT AT AT AT AT TT AA AA ACT AT A- AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT
1674701 AT AT AT AT AT AT
1 AT AT AT AT AT AT
1674713 TTAAAATATT
Statistics
Matches: 76, Mismatches: 8, Indels: 16
0.76 0.08 0.16
Matches are distributed among these distances:
1 4 0.05
2 66 0.87
3 6 0.08
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.44
Consensus pattern (2 bp):
AT
Found at i:1674671 original size:28 final size:30
Alignment explanation
Indices: 1674628--1674708 Score: 132
Period size: 28 Copynumber: 2.8 Consensus size: 30
1674618 AATATATAAT
*
1674628 ACTATAGTATA-ATATATATATATTTAAAA
1 ACTATAATATATATATATATATATTTAAAA
1674657 ACTAT-ATA-ATATATATATATATTTAAAA
1 ACTATAATATATATATATATATATTTAAAA
1674685 ACTATAATATATATATATATATAT
1 ACTATAATATATATATATATATAT
1674709 ATATTTAAAA
Statistics
Matches: 48, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
27 1 0.02
28 25 0.52
29 8 0.17
30 14 0.29
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (30 bp):
ACTATAATATATATATATATATATTTAAAA
Found at i:1674736 original size:26 final size:26
Alignment explanation
Indices: 1674706--1674755 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
1674696 TATATATATA
1674706 TATATATT-TAAAATATTTTCAAAAAC
1 TATATATTAT-AAATATTTTCAAAAAC
*
1674732 TATATATTATATATATTTTCAAAA
1 TATATATTATAAATATTTTCAAAA
1674756 TGTTTTCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 21 0.95
27 1 0.05
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.46
Consensus pattern (26 bp):
TATATATTATAAATATTTTCAAAAAC
Found at i:1674756 original size:37 final size:37
Alignment explanation
Indices: 1674694--1674862 Score: 223
Period size: 37 Copynumber: 4.4 Consensus size: 37
1674684 AACTATAATA
1674694 TATATATATATATATATATTT-AAAATATTTTCAAAAAC
1 TATATAT-TATATATAT-TTTCAAAATATTTTCAAAAAC
*
1674732 TATATATTATATATATTTTCAAAATGTTTTCAAAAAC
1 TATATATTATATATATTTTCAAAATATTTTCAAAAAC
* * * *
1674769 TATTTATTATATATATTTTTTTAAAATGTTTTCTAAAAC
1 TATATATTATATATA--TTTTCAAAATATTTTCAAAAAC
*
1674808 TATATATTATATATATTTTCAAAATATTTTTAAAAAC
1 TATATATTATATATATTTTCAAAATATTTTCAAAAAC
1674845 TATTATATATATATATAT
1 TA-TATAT-TATATATAT
1674863 ATATGTTTTC
Statistics
Matches: 117, Mismatches: 9, Indels: 9
0.87 0.07 0.07
Matches are distributed among these distances:
36 3 0.03
37 59 0.50
38 12 0.10
39 43 0.37
ACGTcount: A:0.44, C:0.05, G:0.01, T:0.50
Consensus pattern (37 bp):
TATATATTATATATATTTTCAAAATATTTTCAAAAAC
Found at i:1674807 original size:76 final size:78
Alignment explanation
Indices: 1674694--1674866 Score: 278
Period size: 76 Copynumber: 2.2 Consensus size: 78
1674684 AACTATAATA
*
1674694 TATATATATATATATATATTTAAAATATTTTCAAAAACTATATATTATATATATTTTCAAAATGT
1 TATATATATATATATATATTTAAAATATTTTCAAAAACTATATATTATATATATTTTCAAAATAT
1674759 TTTCAAAAACTAT
66 TTTCAAAAACTAT
* * * *
1674772 T-TAT-TATATATATTTTTTTAAAATGTTTTCTAAAACTATATATTATATATATTTTCAAAATAT
1 TATATATATATATATATATTTAAAATATTTTCAAAAACTATATATTATATATATTTTCAAAATAT
*
1674835 TTTTAAAAACTAT
66 TTTCAAAAACTAT
1674848 TATATATATATATATATAT
1 TATATATATATATATATAT
1674867 GTTTTCAAAA
Statistics
Matches: 85, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
76 67 0.79
77 6 0.07
78 12 0.14
ACGTcount: A:0.44, C:0.05, G:0.01, T:0.50
Consensus pattern (78 bp):
TATATATATATATATATATTTAAAATATTTTCAAAAACTATATATTATATATATTTTCAAAATAT
TTTCAAAAACTAT
Found at i:1675460 original size:3 final size:3
Alignment explanation
Indices: 1675452--1675512 Score: 68
Period size: 3 Copynumber: 19.7 Consensus size: 3
1675442 GTAGAAATTA
* * * *
1675452 AAT AAT AAT AGT ACT AAAT AAT AAT AAT AGT ACT AAAT AAT AAT AAT
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT
1675499 AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AA
1675513 AACACTCGGA
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
3 46 0.92
4 4 0.08
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:1675476 original size:19 final size:19
Alignment explanation
Indices: 1675452--1675512 Score: 97
Period size: 19 Copynumber: 3.3 Consensus size: 19
1675442 GTAGAAATTA
1675452 AATAATAATAGTACTAAAT
1 AATAATAATAGTACTAAAT
1675471 AATAATAATAGTACTAAAT
1 AATAATAATAGTACTAAAT
* *
1675490 AATAATAATAATAAT-AAT
1 AATAATAATAGTACTAAAT
1675508 AATAA
1 AATAA
1675513 AACACTCGGA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
18 8 0.20
19 32 0.80
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.31
Consensus pattern (19 bp):
AATAATAATAGTACTAAAT
Found at i:1676293 original size:16 final size:16
Alignment explanation
Indices: 1676272--1676312 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
1676262 AGTTCATATG
1676272 TCTACTTTCACTTTCT
1 TCTACTTTCACTTTCT
1676288 TCTACTTTCACTTTCT
1 TCTACTTTCACTTTCT
1676304 TCTA-TTTCA
1 TCTACTTTCA
1676313 GTTCTACAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 5 0.20
16 20 0.80
ACGTcount: A:0.15, C:0.29, G:0.00, T:0.56
Consensus pattern (16 bp):
TCTACTTTCACTTTCT
Found at i:1682292 original size:48 final size:44
Alignment explanation
Indices: 1682196--1682314 Score: 148
Period size: 48 Copynumber: 2.6 Consensus size: 44
1682186 GTAACCATGC
* *
1682196 AAATAAGCTTATGAGCTTACGGAATAATGGCAAGTATATTGGAA
1 AAATAAGCTTACGAGCTTATGGAATAATGGCAAGTATATTGGAA
* * *
1682240 AAATAAGCTTACGAGCTTATGGAATTTTAAATGGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTATGGAA---T-AATGGCAAGTATATTGGAA
*
1682288 AAATAAGCTTACGAGCTTATGGGATAA
1 AAATAAGCTTACGAGCTTATGGAATAA
1682315 ATGGTAAGAG
Statistics
Matches: 65, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
44 24 0.37
45 1 0.02
47 1 0.02
48 39 0.60
ACGTcount: A:0.39, C:0.08, G:0.22, T:0.31
Consensus pattern (44 bp):
AAATAAGCTTACGAGCTTATGGAATAATGGCAAGTATATTGGAA
Found at i:1689387 original size:44 final size:46
Alignment explanation
Indices: 1689339--1689449 Score: 136
Period size: 48 Copynumber: 2.4 Consensus size: 46
1689329 GTAACCATGC
* *
1689339 AAATAAGCTTATGAGCTTACGGAA-T-AATGGCAAGTATATTGGAA
1 AAATAAGCTTACGAGCTTACGGAATTAAATAGCAAGTATATTGGAA
* * * *
1689383 AAATAAGCTTACGAGCTTATGGAATTTTAAATAGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTACGGAA--TTAAATAGCAAGTATATTGGAA
1689431 AAATAAGCTTACGAGCTTA
1 AAATAAGCTTACGAGCTTA
1689450 TGGGATAAAT
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
44 22 0.39
47 1 0.02
48 34 0.60
ACGTcount: A:0.40, C:0.09, G:0.20, T:0.32
Consensus pattern (46 bp):
AAATAAGCTTACGAGCTTACGGAATTAAATAGCAAGTATATTGGAA
Found at i:1691110 original size:193 final size:199
Alignment explanation
Indices: 1690767--1691158 Score: 742
Period size: 193 Copynumber: 2.0 Consensus size: 199
1690757 AAATGTTTTA
1690767 ACAATAATGCAAATATCCAAGTTCAATCCAAACAAGCAAAACAAAGATCAAAGTTCAAGCATCCA
1 ACAATAATGCAAATATCCAAGTTCAATCCAAACAAGCAAAACAAAGATCAAAGTTCAAGCATCCA
1690832 TAGGAGGATCGGGAGGTGGGAAATGAGCTCGCATAGCTGCCATTTCATGAGTAAGTTCATTAATA
66 TAGGAGGATCGGGAGGTGGGAAATGAGCTCGCATAGCTGCCATTTCATGAGTAAGTTCATTAATA
1690897 CGAGCGTTGGTTGCTTCATTGTTTGCACGCATCTCCCGAAGAATTTCC-A-TG-TGAGCTT-CAT
131 CGAGCGTTGGTTGCTTCATTGTTTGCACGCATCTCCCGAAGAATTTCCAATTGTTGAGCTTCCAT
1690958 AGTC
196 AGTC
1690962 ACAATAATGC-AA-ATCCAAGTTCAATCCAAACAAGCAAAACAAAGATCAAAGTTCAAGCATCCA
1 ACAATAATGCAAATATCCAAGTTCAATCCAAACAAGCAAAACAAAGATCAAAGTTCAAGCATCCA
1691025 TAGGAGGATCGGGAGGTGGGAAATGAGCTCGCATAGCTGCCATTTCATGAGTAAGTTCATTAATA
66 TAGGAGGATCGGGAGGTGGGAAATGAGCTCGCATAGCTGCCATTTCATGAGTAAGTTCATTAATA
1691090 CGAGCGTTGGTTGCTTCATTGTTTGCACGCATCTCCCGAAGAATTTCCAATTGTTGAGCTTCCAT
131 CGAGCGTTGGTTGCTTCATTGTTTGCACGCATCTCCCGAAGAATTTCCAATTGTTGAGCTTCCAT
1691155 AGTC
196 AGTC
1691159 GAGAAGTGAG
Statistics
Matches: 193, Mismatches: 0, Indels: 6
0.97 0.00 0.03
Matches are distributed among these distances:
193 164 0.85
194 3 0.02
195 12 0.06
196 7 0.04
197 7 0.04
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.26
Consensus pattern (199 bp):
ACAATAATGCAAATATCCAAGTTCAATCCAAACAAGCAAAACAAAGATCAAAGTTCAAGCATCCA
TAGGAGGATCGGGAGGTGGGAAATGAGCTCGCATAGCTGCCATTTCATGAGTAAGTTCATTAATA
CGAGCGTTGGTTGCTTCATTGTTTGCACGCATCTCCCGAAGAATTTCCAATTGTTGAGCTTCCAT
AGTC
Found at i:1692551 original size:23 final size:23
Alignment explanation
Indices: 1692521--1692569 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
1692511 CGATTTCCCT
**
1692521 AGGGGGAATCGGTTCTTCTTCAA
1 AGGGGGAATCGGTTCCCCTTCAA
1692544 AGGGGGAATCGGTTCCCCTTCAA
1 AGGGGGAATCGGTTCCCCTTCAA
1692567 AGG
1 AGG
1692570 TAGATAATGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.22, C:0.20, G:0.33, T:0.24
Consensus pattern (23 bp):
AGGGGGAATCGGTTCCCCTTCAA
Found at i:1692752 original size:53 final size:52
Alignment explanation
Indices: 1692673--1692780 Score: 207
Period size: 53 Copynumber: 2.1 Consensus size: 52
1692663 ATTTGCATCT
1692673 CCATAATCCGCACAGAAAAGGCATGCAAGCTAAAGCTAGAGTCTCTAGGATA
1 CCATAATCCGCACAGAAAAGGCATGCAAGCTAAAGCTAGAGTCTCTAGGATA
1692725 CCATAATCCGCATCAGAAAAGGCATGCAAGCTAAAGCTAGAGTCTCTAGGATA
1 CCATAATCCGCA-CAGAAAAGGCATGCAAGCTAAAGCTAGAGTCTCTAGGATA
1692778 CCA
1 CCA
1692781 AAGTCCTAAA
Statistics
Matches: 55, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 12 0.22
53 43 0.78
ACGTcount: A:0.38, C:0.24, G:0.20, T:0.18
Consensus pattern (52 bp):
CCATAATCCGCACAGAAAAGGCATGCAAGCTAAAGCTAGAGTCTCTAGGATA
Found at i:1697127 original size:17 final size:18
Alignment explanation
Indices: 1697088--1697129 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
1697078 AATAAGTGTT
*
1697088 CTTGAAAGAAAAATGAAT
1 CTTGAAAGAAAAATGAAG
* *
1697106 ATTGAATGAAAAAT-AAG
1 CTTGAAAGAAAAATGAAG
1697123 CTTGAAA
1 CTTGAAA
1697130 TGCTCAAACT
Statistics
Matches: 19, Mismatches: 5, Indels: 1
0.76 0.20 0.04
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.55, C:0.05, G:0.17, T:0.24
Consensus pattern (18 bp):
CTTGAAAGAAAAATGAAG
Found at i:1700248 original size:7 final size:7
Alignment explanation
Indices: 1700237--1700294 Score: 75
Period size: 7 Copynumber: 8.6 Consensus size: 7
1700227 TGACCCAACT
*
1700237 CGTTGAT
1 CGTTGAC
1700244 CGTTGAC
1 CGTTGAC
*
1700251 CGCTGA-
1 CGTTGAC
1700257 CGTTGAC
1 CGTTGAC
1700264 CGTTGAC
1 CGTTGAC
1700271 CGTTGAC
1 CGTTGAC
*
1700278 CGGTGA-
1 CGTTGAC
1700284 CGTTGAC
1 CGTTGAC
1700291 CGTT
1 CGTT
1700295 TATCATTTAA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
6 10 0.23
7 34 0.77
ACGTcount: A:0.14, C:0.26, G:0.31, T:0.29
Consensus pattern (7 bp):
CGTTGAC
Found at i:1700260 original size:20 final size:20
Alignment explanation
Indices: 1700237--1700292 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
1700227 TGACCCAACT
1700237 CGTTGATCGTTGACCGCTGA-
1 CGTTGA-CGTTGACCGCTGAC
*
1700257 CGTTGACCGTTGACCGTTGAC
1 CGTTGA-CGTTGACCGCTGAC
*
1700278 CGGTGACGTTGACCG
1 CGTTGACGTTGACCG
1700293 TTTATCATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
20 27 0.84
21 5 0.16
ACGTcount: A:0.14, C:0.27, G:0.32, T:0.27
Consensus pattern (20 bp):
CGTTGACGTTGACCGCTGAC
Found at i:1700267 original size:27 final size:27
Alignment explanation
Indices: 1700237--1700294 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
1700227 TGACCCAACT
*
1700237 CGTTGATCGTTGACCGCTGACGTTGAC
1 CGTTGACCGTTGACCGCTGACGTTGAC
*
1700264 CGTTGACCGTTGACCGGTGACGTTGAC
1 CGTTGACCGTTGACCGCTGACGTTGAC
1700291 CGTT
1 CGTT
1700295 TATCATTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.14, C:0.26, G:0.31, T:0.29
Consensus pattern (27 bp):
CGTTGACCGTTGACCGCTGACGTTGAC
Found at i:1700667 original size:30 final size:31
Alignment explanation
Indices: 1700631--1700799 Score: 125
Period size: 30 Copynumber: 5.6 Consensus size: 31
1700621 TTCATTGATG
** *
1700631 CATTCTGATTCTATATGGGACTATGTT-CCT
1 CATTCTGATTCTGCATGGGACTATGTTCCCC
* * *
1700661 CATTCTGATTTTGCATGGGACTATATTCCCTG
1 CATTCTGATTCTGCATGGGACTATGTTCCC-C
* **
1700693 C-TT-TGATTCTGCATGAGTTTATGTTCCCC
1 CATTCTGATTCTGCATGGGACTATGTTCCCC
* * *
1700722 CGTTCTGATTCTGTATGGGAATATGTT-CCC
1 CATTCTGATTCTGCATGGGACTATGTTCCCC
* * * *
1700752 CGTTCTGATTCTACATGAGACTATGTT-ACC
1 CATTCTGATTCTGCATGGGACTATGTTCCCC
* *
1700782 CATCCTGATT-TGTATGGG
1 CATTCTGATTCTGCATGGG
1700800 GTTATATTCC
Statistics
Matches: 110, Mismatches: 25, Indels: 9
0.76 0.17 0.06
Matches are distributed among these distances:
29 6 0.05
30 81 0.74
31 22 0.20
32 1 0.01
ACGTcount: A:0.18, C:0.21, G:0.20, T:0.41
Consensus pattern (31 bp):
CATTCTGATTCTGCATGGGACTATGTTCCCC
Found at i:1700777 original size:61 final size:60
Alignment explanation
Indices: 1700633--1700810 Score: 180
Period size: 61 Copynumber: 3.0 Consensus size: 60
1700623 CATTGATGCA
* * * * * *
1700633 TTCTGATTCTATATGGGACTATGTTCCTCATTCTGATTTTGCATGGGACTATATTCCCTGC
1 TTCTGATTCTACATGAGACTATGTTCCCCATTCTGA-TTTGTATGGGAATATATTCCCCGC
* ** * *
1700694 TT-TGATTCTGCATGAGTTTATGTTCCCCCGTTCTGATTCTGTATGGGAATATGTTCCCCG-
1 TTCTGATTCTACATGAGACTATGTT-CCCCATTCTGATT-TGTATGGGAATATATTCCCCGC
* * **
1700754 TTCTGATTCTACATGAGACTATGTTACCCATCCTGATTTGTATGGGGTTATATTCCC
1 TTCTGATTCTACATGAGACTATGTTCCCCATTCTGATTTGTATGGGAATATATTCCC
1700811 TTTCTGTTTT
Statistics
Matches: 94, Mismatches: 20, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
59 16 0.17
60 31 0.33
61 47 0.50
ACGTcount: A:0.18, C:0.21, G:0.19, T:0.42
Consensus pattern (60 bp):
TTCTGATTCTACATGAGACTATGTTCCCCATTCTGATTTGTATGGGAATATATTCCCCGC
Found at i:1701961 original size:180 final size:180
Alignment explanation
Indices: 1701659--1702021 Score: 726
Period size: 180 Copynumber: 2.0 Consensus size: 180
1701649 ATTGACCAAC
1701659 GATTCTGTTAATTCCTACTATTATAAATTGAGTAAATTACATCATTCATCACTCATCTATTTTGG
1 GATTCTGTTAATTCCTACTATTATAAATTGAGTAAATTACATCATTCATCACTCATCTATTTTGG
1701724 TCACTAAACTCTAAAAGTTTTTAATTTCGAAAACTTTAGAGACTTCAGGGAGTAAGGTTGTAGTT
66 TCACTAAACTCTAAAAGTTTTTAATTTCGAAAACTTTAGAGACTTCAGGGAGTAAGGTTGTAGTT
1701789 AATCCATTTTATTTTAAAGGTAAACTACACAAATGGTCACTTTGTTTAGG
131 AATCCATTTTATTTTAAAGGTAAACTACACAAATGGTCACTTTGTTTAGG
1701839 GATTCTGTTAATTCCTACTATTATAAATTGAGTAAATTACATCATTCATCACTCATCTATTTTGG
1 GATTCTGTTAATTCCTACTATTATAAATTGAGTAAATTACATCATTCATCACTCATCTATTTTGG
1701904 TCACTAAACTCTAAAAGTTTTTAATTTCGAAAACTTTAGAGACTTCAGGGAGTAAGGTTGTAGTT
66 TCACTAAACTCTAAAAGTTTTTAATTTCGAAAACTTTAGAGACTTCAGGGAGTAAGGTTGTAGTT
1701969 AATCCATTTTATTTTAAAGGTAAACTACACAAATGGTCACTTTGTTTAGG
131 AATCCATTTTATTTTAAAGGTAAACTACACAAATGGTCACTTTGTTTAGG
1702019 GAT
1 GAT
1702022 AAATTACTAA
Statistics
Matches: 183, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
180 183 1.00
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (180 bp):
GATTCTGTTAATTCCTACTATTATAAATTGAGTAAATTACATCATTCATCACTCATCTATTTTGG
TCACTAAACTCTAAAAGTTTTTAATTTCGAAAACTTTAGAGACTTCAGGGAGTAAGGTTGTAGTT
AATCCATTTTATTTTAAAGGTAAACTACACAAATGGTCACTTTGTTTAGG
Found at i:1702311 original size:50 final size:51
Alignment explanation
Indices: 1702218--1702413 Score: 263
Period size: 51 Copynumber: 3.9 Consensus size: 51
1702208 AATTTATACT
* *
1702218 ACAAAAAAGTGTAACACTTAA-AGCATACTTACACTC-ATGTAAGTGAATAAA
1 ACAAAAAAGTGTAGCACTTAACA-CATACTTACAC-CGGTGTAAGTGAATAAA
*
1702269 ACAAAAAAGTGTAGCACTTAACACATAC-TACACCGGTATAAGTGAATAAA
1 ACAAAAAAGTGTAGCACTTAACACATACTTACACCGGTGTAAGTGAATAAA
* * *
1702319 ATAAAAAAGTGTAGCACTTAACACATACTTACAACGGTGTAAGTAAATAAA
1 ACAAAAAAGTGTAGCACTTAACACATACTTACACCGGTGTAAGTGAATAAA
* * * *
1702370 ATAAAAAAGTGTAGCATTTAACAGATACTTACACCGATGTAAGT
1 ACAAAAAAGTGTAGCACTTAACACATACTTACACCGGTGTAAGT
1702414 ATGTACATCT
Statistics
Matches: 131, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
49 1 0.01
50 45 0.34
51 84 0.64
52 1 0.01
ACGTcount: A:0.47, C:0.15, G:0.14, T:0.23
Consensus pattern (51 bp):
ACAAAAAAGTGTAGCACTTAACACATACTTACACCGGTGTAAGTGAATAAA
Found at i:1702398 original size:101 final size:102
Alignment explanation
Indices: 1702220--1702405 Score: 270
Period size: 101 Copynumber: 1.8 Consensus size: 102
1702210 TTTATACTAC
*
1702220 AAAAAAGTGTAACACTTAAAGCATACTTACACTCATGTAAGTGAATAAAACAAAAAAGTGTAGCA
1 AAAAAAGTGTAACACTTAAAGCATACTTACACTCATGTAAGTAAATAAAACAAAAAAGTGTAGCA
1702285 CTTAACACATAC-TACACCGGTATAAGTGAATAAAAT
66 CTTAACACATACTTACACCGGTATAAGTGAATAAAAT
* ** *
1702321 AAAAAAGTGTAGCACTTAACA-CATACTTACAAC-GGTGTAAGTAAATAAAATAAAAAAGTGTAG
1 AAAAAAGTGTAACACTTAA-AGCATACTTAC-ACTCATGTAAGTAAATAAAACAAAAAAGTGTAG
* *
1702384 CATTTAACAGATACTTACACCG
64 CACTTAACACATACTTACACCG
1702406 ATGTAAGTAT
Statistics
Matches: 75, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
101 65 0.87
102 10 0.13
ACGTcount: A:0.48, C:0.16, G:0.13, T:0.23
Consensus pattern (102 bp):
AAAAAAGTGTAACACTTAAAGCATACTTACACTCATGTAAGTAAATAAAACAAAAAAGTGTAGCA
CTTAACACATACTTACACCGGTATAAGTGAATAAAAT
Found at i:1702792 original size:16 final size:14
Alignment explanation
Indices: 1702771--1702808 Score: 51
Period size: 13 Copynumber: 2.6 Consensus size: 14
1702761 CTATTAAATA
1702771 TAACGGTTATACTGGT
1 TAACGGTT-TA-TGGT
1702787 TAACGG-TTATGGT
1 TAACGGTTTATGGT
1702800 TAACGGTTT
1 TAACGGTTT
1702809 CGGGTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 10 0.48
14 4 0.19
15 1 0.05
16 6 0.29
ACGTcount: A:0.24, C:0.11, G:0.26, T:0.39
Consensus pattern (14 bp):
TAACGGTTTATGGT
Found at i:1705084 original size:21 final size:21
Alignment explanation
Indices: 1705044--1705086 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
1705034 AATTTATTCC
**
1705044 TAAAACAAAAATGACCATTTG
1 TAAAACAAAAATGAAAATTTG
1705065 TAAAACAAAAATGAAAATTTG
1 TAAAACAAAAATGAAAATTTG
1705086 T
1 T
1705087 GTAGTTTACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.56, C:0.09, G:0.09, T:0.26
Consensus pattern (21 bp):
TAAAACAAAAATGAAAATTTG
Found at i:1712928 original size:14 final size:16
Alignment explanation
Indices: 1712895--1712932 Score: 53
Period size: 14 Copynumber: 2.4 Consensus size: 16
1712885 AGAAAAAGAA
1712895 GAAGAAAGAATGATGAG
1 GAAG-AAGAATGATGAG
1712912 GAAGAAGAA-GA-GAG
1 GAAGAAGAATGATGAG
1712926 GAAGAAG
1 GAAGAAG
1712933 GAAGGAAACC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 10 0.48
15 2 0.10
16 5 0.24
17 4 0.19
ACGTcount: A:0.55, C:0.00, G:0.39, T:0.05
Consensus pattern (16 bp):
GAAGAAGAATGATGAG
Found at i:1715059 original size:15 final size:15
Alignment explanation
Indices: 1715039--1715075 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
1715029 GCTTCTAGTC
1715039 TTACAATAACACTTT
1 TTACAATAACACTTT
1715054 TTACAATAACACTTT
1 TTACAATAACACTTT
*
1715069 CTACAAT
1 TTACAAT
1715076 TCTATCGTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.41, C:0.22, G:0.00, T:0.38
Consensus pattern (15 bp):
TTACAATAACACTTT
Found at i:1715690 original size:105 final size:107
Alignment explanation
Indices: 1715508--1715716 Score: 395
Period size: 105 Copynumber: 2.0 Consensus size: 107
1715498 TCAAGCATCA
*
1715508 GACGGAGTTACTGAAGTGACCAACCATGTTTTTCTTTTATTGCTGAAAACATACTCATTTTAAAA
1 GACGGAGTAACTGAAGTGACCAACCATGTTTTTCTTTTATTGCTGAAAACATACTCATTTTAAAA
1715573 CATTTTTAT-AAA-ATGTAACAATAAATTATTTACAAAATGG
66 CATTTTTATAAAATATGTAACAATAAATTATTTACAAAATGG
1715613 GACGGAGTAACTGAAGTGACCAACCATGTTTTTCTTTTATTGCTGAAAACATACTCATTTTAAAA
1 GACGGAGTAACTGAAGTGACCAACCATGTTTTTCTTTTATTGCTGAAAACATACTCATTTTAAAA
1715678 CATTTTTATAAAATATGTAACAATAAATTATTTACAAAA
66 CATTTTTATAAAATATGTAACAATAAATTATTTACAAAA
1715717 ATGGAGCCTC
Statistics
Matches: 101, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
105 73 0.72
106 3 0.03
107 25 0.25
ACGTcount: A:0.39, C:0.13, G:0.11, T:0.36
Consensus pattern (107 bp):
GACGGAGTAACTGAAGTGACCAACCATGTTTTTCTTTTATTGCTGAAAACATACTCATTTTAAAA
CATTTTTATAAAATATGTAACAATAAATTATTTACAAAATGG
Found at i:1718316 original size:20 final size:21
Alignment explanation
Indices: 1718282--1718329 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
1718272 TGGAAAAGAG
*
1718282 AAGAAGAA-AGAATGAGGAAA
1 AAGAAGAAGAGAATGAAGAAA
*
1718302 AAGAAGAAGAG-ATGAAGAAG
1 AAGAAGAAGAGAATGAAGAAA
1718322 AA-AAGAAG
1 AAGAAGAAG
1718330 CCTTTTTTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 6 0.24
20 17 0.68
21 2 0.08
ACGTcount: A:0.65, C:0.00, G:0.31, T:0.04
Consensus pattern (21 bp):
AAGAAGAAGAGAATGAAGAAA
Found at i:1718324 original size:23 final size:23
Alignment explanation
Indices: 1718274--1718329 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 23
1718264 CTCTAGAATG
*
1718274 GAAAAGAGAAGAAGAAAGAATGAG
1 GAAAA-AGAAGAAGAAAGAATGAA
*
1718298 GAAAAAGAAGAAGAGATGAA-GAA
1 GAAAAAGAAGAAGA-AAGAATGAA
1718321 G-AAAAGAAG
1 GAAAAAGAAG
1718330 CCTTTTTTCT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 8 0.28
23 12 0.41
24 9 0.31
ACGTcount: A:0.64, C:0.00, G:0.32, T:0.04
Consensus pattern (23 bp):
GAAAAAGAAGAAGAAAGAATGAA
Found at i:1719160 original size:20 final size:20
Alignment explanation
Indices: 1719131--1719169 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1719121 AGAGCTCATA
*
1719131 TAGGATCATATAGATGCATT
1 TAGGAGCATATAGATGCATT
*
1719151 TAGGAGCATATAGTTGCAT
1 TAGGAGCATATAGATGCAT
1719170 GTGGTGAAAT
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:0.33, C:0.10, G:0.23, T:0.33
Consensus pattern (20 bp):
TAGGAGCATATAGATGCATT
Found at i:1725042 original size:70 final size:70
Alignment explanation
Indices: 1724929--1725069 Score: 282
Period size: 70 Copynumber: 2.0 Consensus size: 70
1724919 TGTGTTTTTC
1724929 CTTATGAATTGAACAGCCAGGGCAAGAAGAAGGTTCTTGCATGATGCCAAGTTTTATTTTTAGGA
1 CTTATGAATTGAACAGCCAGGGCAAGAAGAAGGTTCTTGCATGATGCCAAGTTTTATTTTTAGGA
1724994 CGAGA
66 CGAGA
1724999 CTTATGAATTGAACAGCCAGGGCAAGAAGAAGGTTCTTGCATGATGCCAAGTTTTATTTTTAGGA
1 CTTATGAATTGAACAGCCAGGGCAAGAAGAAGGTTCTTGCATGATGCCAAGTTTTATTTTTAGGA
1725064 CGAGA
66 CGAGA
1725069 C
1 C
1725070 ATACTTGTTT
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 71 1.00
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (70 bp):
CTTATGAATTGAACAGCCAGGGCAAGAAGAAGGTTCTTGCATGATGCCAAGTTTTATTTTTAGGA
CGAGA
Found at i:1729675 original size:66 final size:67
Alignment explanation
Indices: 1729569--1729705 Score: 267
Period size: 66 Copynumber: 2.1 Consensus size: 67
1729559 TTTTTTTGAG
1729569 AAATGGGTGAGTTTGAAATGTATGAATAGTTGGATAATCATTTTGTTACTTTTAATCATCGAAGA
1 AAATGGGTGAGTTTGAAATGTATGAATAGTTGGATAATCATTTTGTTACTTTTAATCATCGAAGA
1729634 C-
66 CT
1729635 AAATGGGTGAGTTTGAAATGTATGAATAGTTGGATAATCATTTTGTTACTTTTAATCATCGAAGA
1 AAATGGGTGAGTTTGAAATGTATGAATAGTTGGATAATCATTTTGTTACTTTTAATCATCGAAGA
1729700 CT
66 CT
1729702 AAAT
1 AAAT
1729706 AAAATAACAC
Statistics
Matches: 70, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
66 66 0.94
67 4 0.06
ACGTcount: A:0.34, C:0.07, G:0.20, T:0.38
Consensus pattern (67 bp):
AAATGGGTGAGTTTGAAATGTATGAATAGTTGGATAATCATTTTGTTACTTTTAATCATCGAAGA
CT
Found at i:1729782 original size:60 final size:59
Alignment explanation
Indices: 1729674--1729785 Score: 154
Period size: 60 Copynumber: 1.9 Consensus size: 59
1729664 TTGGATAATC
*
1729674 ATTTTGTTACTTTTAATCATCGAAGACTAAATAAAATAACACCCTATAGTCGAGTGACT
1 ATTTTGTTACTTTTAATCATCGAAGACTAAACAAAATAACACCCTATAGTCGAGTGACT
* * * *
1729733 ATTTT-TTAACTTTTAATTATCGGAAGACTTAACAAAGTAACGCCCTATAGTCG
1 ATTTTGTT-ACTTTTAATCATC-GAAGACTAAACAAAATAACACCCTATAGTCG
1729786 GAGAACCATT
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
58 2 0.04
59 17 0.37
60 27 0.59
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (59 bp):
ATTTTGTTACTTTTAATCATCGAAGACTAAACAAAATAACACCCTATAGTCGAGTGACT
Found at i:1739675 original size:36 final size:36
Alignment explanation
Indices: 1739576--1739862 Score: 350
Period size: 36 Copynumber: 8.1 Consensus size: 36
1739566 TTCGTTCTAG
* * * **
1739576 TTGAATCGGAAGTG-CAATACTTCTTTTAGTTCGAC
1 TTGAATCGGAAGTGCCGATGCTTCCTTCCGTTCGAC
* * *
1739611 TTGAATCGGAAGTG-CGATGCTTCTTTCCATTCGAT
1 TTGAATCGGAAGTGCCGATGCTTCCTTCCGTTCGAC
* *
1739646 TTGAATCGGAAGTGCCGATGCTTCCTTCCATTCGAT
1 TTGAATCGGAAGTGCCGATGCTTCCTTCCGTTCGAC
* * *
1739682 TTAAATCGGAAGTGCTGATGCTTCCTTCCGTTCGAT
1 TTGAATCGGAAGTGCCGATGCTTCCTTCCGTTCGAC
**
1739718 TTGAATCGGAAGTGTTGATGCTTCCTTCCGTTCGAC
1 TTGAATCGGAAGTGCCGATGCTTCCTTCCGTTCGAC
1739754 TTGAATCGGAAGTGCCGATGCCTTCC-TCCGTTCGAC
1 TTGAATCGGAAGTGCCGATG-CTTCCTTCCGTTCGAC
* *
1739790 TTGAATCGGAAATGTCGATGCCTT-CTTCCGTTCGAC
1 TTGAATCGGAAGTGCCGATG-CTTCCTTCCGTTCGAC
* *
1739826 TTGAATCGGAAGTGCCAATCCTTCCTTCCGTTC-AC
1 TTGAATCGGAAGTGCCGATGCTTCCTTCCGTTCGAC
1739861 TT
1 TT
1739863 CCATTATGTC
Statistics
Matches: 227, Mismatches: 21, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
35 51 0.22
36 171 0.75
37 5 0.02
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.34
Consensus pattern (36 bp):
TTGAATCGGAAGTGCCGATGCTTCCTTCCGTTCGAC
Done.