Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008167.1 Hibiscus syriacus cultivar Beakdansim tig00110748_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: 1661898
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
File 5 of 5
Found at i:1470872 original size:36 final size:36
Alignment explanation
Indices: 1470821--1470925 Score: 167
Period size: 36 Copynumber: 2.9 Consensus size: 36
1470811 GATACAATCT
1470821 GTCCATCACCATTATCACGCCTATATCATCACCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
*
1470857 GTCTATCACCATTATCACGCCTATATCATCACCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
* * *
1470893 TTCCATCACTA-TATCACGCCTATATTATCACCA
1 GTCCATCACCATTATCACGCCTATATCATCACCA
1470926 ACTTATAAAT
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
35 21 0.33
36 43 0.67
ACGTcount: A:0.30, C:0.34, G:0.05, T:0.30
Consensus pattern (36 bp):
GTCCATCACCATTATCACGCCTATATCATCACCATA
Found at i:1471946 original size:30 final size:31
Alignment explanation
Indices: 1471910--1471969 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
1471900 GTTAGCTTTA
**
1471910 TATTATGTTTACATATGTTTTAGAT-TCATT
1 TATTATGTTTACATATCATTTAGATATCATT
*
1471940 TATTATGTTTGCATATCATTTAGATATCAT
1 TATTATGTTTACATATCATTTAGATATCAT
1471970 GGAAACATGT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.28, C:0.08, G:0.10, T:0.53
Consensus pattern (31 bp):
TATTATGTTTACATATCATTTAGATATCATT
Found at i:1476985 original size:17 final size:17
Alignment explanation
Indices: 1476960--1477022 Score: 72
Period size: 17 Copynumber: 3.6 Consensus size: 17
1476950 ATGAAAACAT
*
1476960 TTAAAGAACTAGTTTAA
1 TTAATGAACTAGTTTAA
* *
1476977 TTAATGAACCAGATTAAA
1 TTAATGAACTAG-TTTAA
*
1476995 TGAATGAACTAGTTTAA
1 TTAATGAACTAGTTTAA
*
1477012 TTAGTGAACTA
1 TTAATGAACTA
1477023 TCTTTATTGA
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
17 23 0.62
18 14 0.38
ACGTcount: A:0.44, C:0.08, G:0.14, T:0.33
Consensus pattern (17 bp):
TTAATGAACTAGTTTAA
Found at i:1477011 original size:18 final size:18
Alignment explanation
Indices: 1476965--1477011 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
1476955 AACATTTAAA
*
1476965 GAACTAGTTT-AATTAAT
1 GAACTAGTTTAAATGAAT
* *
1476982 GAACCAGATTAAATGAAT
1 GAACTAGTTTAAATGAAT
1477000 GAACTAGTTTAA
1 GAACTAGTTTAA
1477012 TTAGTGAACT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
17 8 0.33
18 16 0.67
ACGTcount: A:0.45, C:0.09, G:0.15, T:0.32
Consensus pattern (18 bp):
GAACTAGTTTAAATGAAT
Found at i:1478078 original size:21 final size:21
Alignment explanation
Indices: 1478054--1478097 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
1478044 TTTTTCTTTT
1478054 CACTTCCAAGT-TTTTCAACTA
1 CACTTCCAA-TATTTTCAACTA
* *
1478075 CACTTTCAATATTTTTAACTA
1 CACTTCCAATATTTTCAACTA
1478096 CA
1 CA
1478098 ATTTCTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 19 0.95
ACGTcount: A:0.32, C:0.25, G:0.02, T:0.41
Consensus pattern (21 bp):
CACTTCCAATATTTTCAACTA
Found at i:1480052 original size:19 final size:21
Alignment explanation
Indices: 1480009--1480060 Score: 81
Period size: 19 Copynumber: 2.6 Consensus size: 21
1479999 GAAACCCCTT
1480009 TGAAAATACATGATTTTTAAA
1 TGAAAATACATGATTTTTAAA
1480030 TGAAAATACATGA-TTTT-AA
1 TGAAAATACATGATTTTTAAA
*
1480049 TGAAGATACATG
1 TGAAAATACATG
1480061 CTCTTGGCCG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 13 0.43
20 4 0.13
21 13 0.43
ACGTcount: A:0.46, C:0.06, G:0.13, T:0.35
Consensus pattern (21 bp):
TGAAAATACATGATTTTTAAA
Found at i:1483445 original size:11 final size:11
Alignment explanation
Indices: 1483431--1483491 Score: 52
Period size: 13 Copynumber: 5.1 Consensus size: 11
1483421 TCTTTTTGAA
1483431 TTCTTTTTCTT
1 TTCTTTTTCTT
1483442 TTCTTTTCTTCTT
1 TTC-TTT-TTCTT
*
1483455 TTCTTCTTCTTTT
1 TTCTT-TT-TCTT
1483468 TGTCTTTTTC-T
1 T-TCTTTTTCTT
1483479 TTCTTTTTGCTT
1 TTCTTTTT-CTT
1483491 T
1 T
1483492 GTACGCCAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 13
0.73 0.04 0.23
Matches are distributed among these distances:
10 7 0.17
11 6 0.15
12 9 0.22
13 15 0.37
14 4 0.10
ACGTcount: A:0.00, C:0.20, G:0.03, T:0.77
Consensus pattern (11 bp):
TTCTTTTTCTT
Found at i:1483455 original size:19 final size:18
Alignment explanation
Indices: 1483431--1483491 Score: 72
Period size: 18 Copynumber: 3.3 Consensus size: 18
1483421 TCTTTTTGAA
1483431 TTCTTTTTCTTTTCTTTT
1 TTCTTTTTCTTTTCTTTT
1483449 CTTC-TTTTCTTCTTCTTTT
1 -TTCTTTTTCTT-TTCTTTT
1483468 TGTCTTTTTC-TTTCTTTT
1 T-TCTTTTTCTTTTCTTTT
*
1483486 TGCTTT
1 TTCTTT
1483492 GTACGCCAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
17 4 0.11
18 16 0.42
19 13 0.34
20 5 0.13
ACGTcount: A:0.00, C:0.20, G:0.03, T:0.77
Consensus pattern (18 bp):
TTCTTTTTCTTTTCTTTT
Found at i:1484203 original size:19 final size:21
Alignment explanation
Indices: 1484160--1484211 Score: 81
Period size: 19 Copynumber: 2.6 Consensus size: 21
1484150 GAAACCCCTT
1484160 TGAAAATACATGATTTTTAAA
1 TGAAAATACATGATTTTTAAA
1484181 TGAAAATACATGA-TTTT-AA
1 TGAAAATACATGATTTTTAAA
*
1484200 TGAAGATACATG
1 TGAAAATACATG
1484212 CTCTTGGCCG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 13 0.43
20 4 0.13
21 13 0.43
ACGTcount: A:0.46, C:0.06, G:0.13, T:0.35
Consensus pattern (21 bp):
TGAAAATACATGATTTTTAAA
Found at i:1489889 original size:15 final size:15
Alignment explanation
Indices: 1489859--1489900 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
1489849 CTTTATTATC
*
1489859 TTATTTCATCTTTCAT
1 TTATTT-ATATTTCAT
1489875 TTATTTATATTTCAT
1 TTATTTATATTTCAT
*
1489890 TTATTTTTATT
1 TTATTTATATT
1489901 CTAATCGTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 18 0.75
16 6 0.25
ACGTcount: A:0.21, C:0.10, G:0.00, T:0.69
Consensus pattern (15 bp):
TTATTTATATTTCAT
Found at i:1490710 original size:8 final size:8
Alignment explanation
Indices: 1490669--1490713 Score: 54
Period size: 8 Copynumber: 5.4 Consensus size: 8
1490659 CTCTTTAAAC
1490669 TTATTTTCT
1 TTATTTT-T
*
1490678 TTTTTTCTT
1 TTATTT-TT
*
1490687 TTATTTTA
1 TTATTTTT
1490695 TTATTTTT
1 TTATTTTT
1490703 TTATTTTT
1 TTATTTTT
1490711 TTA
1 TTA
1490714 CTAACTCGGA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
8 19 0.61
9 11 0.35
10 1 0.03
ACGTcount: A:0.13, C:0.04, G:0.00, T:0.82
Consensus pattern (8 bp):
TTATTTTT
Found at i:1492232 original size:17 final size:17
Alignment explanation
Indices: 1492207--1492269 Score: 81
Period size: 17 Copynumber: 3.6 Consensus size: 17
1492197 ATGAAAACAT
*
1492207 TTAAAGAACTAGTTTAA
1 TTAATGAACTAGTTTAA
*
1492224 TTAATGAACCAGTTTAAA
1 TTAATGAACTAGTTT-AA
*
1492242 TGAATGAACTAGTTTAA
1 TTAATGAACTAGTTTAA
*
1492259 TTAGTGAACTA
1 TTAATGAACTA
1492270 TCTTTATTGA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
17 24 0.62
18 15 0.38
ACGTcount: A:0.43, C:0.08, G:0.14, T:0.35
Consensus pattern (17 bp):
TTAATGAACTAGTTTAA
Found at i:1492249 original size:18 final size:18
Alignment explanation
Indices: 1492212--1492258 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
1492202 AACATTTAAA
*
1492212 GAACTAGTTT-AATTAAT
1 GAACTAGTTTAAATGAAT
*
1492229 GAACCAGTTTAAATGAAT
1 GAACTAGTTTAAATGAAT
1492247 GAACTAGTTTAA
1 GAACTAGTTTAA
1492259 TTAGTGAACT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 9 0.35
18 17 0.65
ACGTcount: A:0.43, C:0.09, G:0.15, T:0.34
Consensus pattern (18 bp):
GAACTAGTTTAAATGAAT
Found at i:1493787 original size:31 final size:31
Alignment explanation
Indices: 1493749--1493825 Score: 154
Period size: 31 Copynumber: 2.5 Consensus size: 31
1493739 TGTTGGAGTG
1493749 TTTCACGCACATGGGATGTCTAGTGCCTCCT
1 TTTCACGCACATGGGATGTCTAGTGCCTCCT
1493780 TTTCACGCACATGGGATGTCTAGTGCCTCCT
1 TTTCACGCACATGGGATGTCTAGTGCCTCCT
1493811 TTTCACGCACATGGG
1 TTTCACGCACATGGG
1493826 CTGTTCCCTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.17, C:0.29, G:0.23, T:0.31
Consensus pattern (31 bp):
TTTCACGCACATGGGATGTCTAGTGCCTCCT
Found at i:1497766 original size:31 final size:31
Alignment explanation
Indices: 1497728--1497804 Score: 154
Period size: 31 Copynumber: 2.5 Consensus size: 31
1497718 TGTTGGAGTG
1497728 TTTCACGCACATGGGATGTCTAGTGCCTCCT
1 TTTCACGCACATGGGATGTCTAGTGCCTCCT
1497759 TTTCACGCACATGGGATGTCTAGTGCCTCCT
1 TTTCACGCACATGGGATGTCTAGTGCCTCCT
1497790 TTTCACGCACATGGG
1 TTTCACGCACATGGG
1497805 CTGTTCCCTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.17, C:0.29, G:0.23, T:0.31
Consensus pattern (31 bp):
TTTCACGCACATGGGATGTCTAGTGCCTCCT
Found at i:1502868 original size:36 final size:36
Alignment explanation
Indices: 1502818--1502922 Score: 167
Period size: 36 Copynumber: 2.9 Consensus size: 36
1502808 GATACAATCT
1502818 GTCCATCACCATTATCACGCCTATATCATCACCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
* *
1502854 GTCCATCACTATTATCATGCCTATATCATCACCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
* *
1502890 TTCCATCACCA-TATCACGCCTATATTATCACCA
1 GTCCATCACCATTATCACGCCTATATCATCACCA
1502923 ACTTATAAAT
Statistics
Matches: 63, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
35 20 0.32
36 43 0.68
ACGTcount: A:0.30, C:0.34, G:0.05, T:0.30
Consensus pattern (36 bp):
GTCCATCACCATTATCACGCCTATATCATCACCATA
Found at i:1503276 original size:33 final size:33
Alignment explanation
Indices: 1503234--1503302 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
1503224 GTTGATGAAT
1503234 GAAGGATGAT-TTAATGGAGATGAAATGGTAATG
1 GAAGGATGATGTTAATGGAG-TGAAATGGTAATG
* * * *
1503267 GAAGGATGATGTTATTGGCGTGATATGGTGATG
1 GAAGGATGATGTTAATGGAGTGAAATGGTAATG
1503300 GAA
1 GAA
1503303 TATGGTGATG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 24 0.77
34 7 0.23
ACGTcount: A:0.33, C:0.01, G:0.36, T:0.29
Consensus pattern (33 bp):
GAAGGATGATGTTAATGGAGTGAAATGGTAATG
Found at i:1503307 original size:13 final size:12
Alignment explanation
Indices: 1503288--1503373 Score: 58
Period size: 13 Copynumber: 7.2 Consensus size: 12
1503278 TTATTGGCGT
1503288 GATATGGTGATG
1 GATATGGTGATG
1503300 GAATATGGTGAT-
1 G-ATATGGTGATG
*
1503312 GATATAGGCG-T-
1 GATAT-GGTGATG
1503323 GATAATGGTGATG
1 GAT-ATGGTGATG
1503336 GACTATGGTGAT-
1 GA-TATGGTGATG
*
1503348 GATATAGGCG-T-
1 GATAT-GGTGATG
1503359 GATAATGGTGATG
1 GAT-ATGGTGATG
1503372 GA
1 GA
1503374 CAGATTGTAT
Statistics
Matches: 60, Mismatches: 4, Indels: 19
0.72 0.05 0.23
Matches are distributed among these distances:
11 21 0.35
12 16 0.27
13 22 0.37
14 1 0.02
ACGTcount: A:0.29, C:0.03, G:0.37, T:0.30
Consensus pattern (12 bp):
GATATGGTGATG
Found at i:1503343 original size:36 final size:36
Alignment explanation
Indices: 1503273--1503374 Score: 170
Period size: 36 Copynumber: 2.9 Consensus size: 36
1503263 AATGGAAGGA
* * *
1503273 TGATGTTATTGGCGTGAT-ATGGTGATGGAATATGG
1 TGATGATATAGGCGTGATAATGGTGATGGACTATGG
1503308 TGATGATATAGGCGTGATAATGGTGATGGACTATGG
1 TGATGATATAGGCGTGATAATGGTGATGGACTATGG
1503344 TGATGATATAGGCGTGATAATGGTGATGGAC
1 TGATGATATAGGCGTGATAATGGTGATGGAC
1503375 AGATTGTATC
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
35 16 0.25
36 47 0.75
ACGTcount: A:0.26, C:0.05, G:0.36, T:0.32
Consensus pattern (36 bp):
TGATGATATAGGCGTGATAATGGTGATGGACTATGG
Found at i:1509212 original size:33 final size:33
Alignment explanation
Indices: 1509151--1509218 Score: 84
Period size: 33 Copynumber: 2.1 Consensus size: 33
1509141 GTTGATGAAT
*
1509151 GAAGGATGATTTAATGGTGATGAAATGGTAATG
1 GAAGGATGATTTAATGGCGATGAAATGGTAATG
* * *
1509184 GAAGGATGATGTTATTGGCG-TGATATGGTGATG
1 GAAGGATGAT-TTAATGGCGATGAAATGGTAATG
1509217 GA
1 GA
1509219 CAGATTGTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 23 0.77
34 7 0.23
ACGTcount: A:0.31, C:0.01, G:0.37, T:0.31
Consensus pattern (33 bp):
GAAGGATGATTTAATGGCGATGAAATGGTAATG
Found at i:1513002 original size:30 final size:31
Alignment explanation
Indices: 1512966--1513025 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
1512956 CTTAGCTTTA
**
1512966 TATTATGTTTACATATGTTTTAGAT-TCATT
1 TATTATGTTTACATATCATTTAGATATCATT
*
1512996 TATTATGTTTGCATATCATTTAGATATCAT
1 TATTATGTTTACATATCATTTAGATATCAT
1513026 GGCAACATGT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.28, C:0.08, G:0.10, T:0.53
Consensus pattern (31 bp):
TATTATGTTTACATATCATTTAGATATCATT
Found at i:1513938 original size:19 final size:20
Alignment explanation
Indices: 1513914--1513964 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
1513904 CGGCCAAGAG
* *
1513914 CATGTATCTTCAT-TAAAAT
1 CATGTATTTTCATCAAAAAT
1513933 CATGTATTTTCATCAAAAAT
1 CATGTATTTTCATCAAAAAT
1513953 CATGTATTTTCA
1 CATGTATTTTCA
1513965 AAGGGGTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 12 0.41
20 17 0.59
ACGTcount: A:0.35, C:0.16, G:0.06, T:0.43
Consensus pattern (20 bp):
CATGTATTTTCATCAAAAAT
Found at i:1517791 original size:24 final size:22
Alignment explanation
Indices: 1517764--1517808 Score: 54
Period size: 24 Copynumber: 2.0 Consensus size: 22
1517754 TTGGCTCATT
* *
1517764 CTTTTAAATTTCAAGAGGTACATC
1 CTTTGAAATGTCAA-AGG-ACATC
1517788 CTTTGAAATGTCAAAGGACAT
1 CTTTGAAATGTCAAAGGACAT
1517809 ATCTTGTGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 4 0.21
23 3 0.16
24 12 0.63
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.33
Consensus pattern (22 bp):
CTTTGAAATGTCAAAGGACATC
Found at i:1519070 original size:23 final size:24
Alignment explanation
Indices: 1519040--1519092 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 24
1519030 TTTCTTTGTT
* *
1519040 TTTC-TTCTTTTTGAATGC-TGAA
1 TTTCTTTCTTTTGGAATGCTTCAA
*
1519062 TTTCTTTCTTTTGGAGTGCTTCAA
1 TTTCTTTCTTTTGGAATGCTTCAA
1519086 TTTCTTT
1 TTTCTTT
1519093 TCTGATTTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 4 0.15
23 12 0.46
24 10 0.38
ACGTcount: A:0.13, C:0.15, G:0.13, T:0.58
Consensus pattern (24 bp):
TTTCTTTCTTTTGGAATGCTTCAA
Found at i:1519073 original size:22 final size:25
Alignment explanation
Indices: 1519040--1519092 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 25
1519030 TTTCTTTGTT
*
1519040 TTTC-TTCTTTTT-GAATGC-TGAA
1 TTTCTTTCTTTTTGGAATGCTTCAA
*
1519062 TTTCTTTC-TTTTGGAGTGCTTCAA
1 TTTCTTTCTTTTTGGAATGCTTCAA
1519086 TTTCTTT
1 TTTCTTT
1519093 TCTGATTTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
22 8 0.31
23 8 0.31
24 10 0.38
ACGTcount: A:0.13, C:0.15, G:0.13, T:0.58
Consensus pattern (25 bp):
TTTCTTTCTTTTTGGAATGCTTCAA
Found at i:1521295 original size:33 final size:33
Alignment explanation
Indices: 1521252--1521319 Score: 84
Period size: 33 Copynumber: 2.1 Consensus size: 33
1521242 ATACAATCTG
*
1521252 TCCATCACCATATCA-CGCCAATAACATCATCCT
1 TCCATCACCATATCATCACCAATAA-ATCATCCT
* * *
1521285 TCCATTACCATTTCATCACCATTAAATCATCCT
1 TCCATCACCATATCATCACCAATAAATCATCCT
1521318 TC
1 TC
1521320 ATTCATCAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 23 0.77
34 7 0.23
ACGTcount: A:0.31, C:0.37, G:0.01, T:0.31
Consensus pattern (33 bp):
TCCATCACCATATCATCACCAATAAATCATCCT
Found at i:1525577 original size:33 final size:33
Alignment explanation
Indices: 1525534--1525601 Score: 84
Period size: 33 Copynumber: 2.1 Consensus size: 33
1525524 ATACAATCTG
*
1525534 TCCATCACCATATCA-CGCCAATAACATCATCCT
1 TCCATCACCATATCATCACCAATAA-ATCATCCT
* * *
1525567 TCCATTACCATTTCATCACCATTAAATCATCCT
1 TCCATCACCATATCATCACCAATAAATCATCCT
1525600 TC
1 TC
1525602 ATTCATCAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 23 0.77
34 7 0.23
ACGTcount: A:0.31, C:0.37, G:0.01, T:0.31
Consensus pattern (33 bp):
TCCATCACCATATCATCACCAATAAATCATCCT
Found at i:1527717 original size:24 final size:21
Alignment explanation
Indices: 1527682--1527724 Score: 50
Period size: 23 Copynumber: 1.9 Consensus size: 21
1527672 GGCTCATTCT
*
1527682 TTTGAATTTCAAGAGGTACATCC
1 TTTGAATGTCAA-AGG-ACATCC
1527705 TTTGAAATGTCAAAGGACAT
1 TTTG-AATGTCAAAGGACAT
1527725 ATCTTGTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 4 0.22
23 7 0.39
24 7 0.39
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.33
Consensus pattern (21 bp):
TTTGAATGTCAAAGGACATCC
Found at i:1529264 original size:13 final size:11
Alignment explanation
Indices: 1529223--1529307 Score: 66
Period size: 11 Copynumber: 7.2 Consensus size: 11
1529213 ATAATCTGTC
1529223 CATCACCATTAT
1 CATCACCA-TAT
*
1529235 CA-CGCCTATAT
1 CATCACC-ATAT
1529246 CATCACCATAGT
1 CATCACCATA-T
1529258 CCATCACCATTAT
1 -CATCACCA-TAT
*
1529271 CA-CGCCTATAT
1 CATCACC-ATAT
1529282 CATCACCATATT
1 CATCACCATA-T
1529294 CCATCACCATAT
1 -CATCACCATAT
1529306 CA
1 CA
1529308 CGCCAATAAC
Statistics
Matches: 60, Mismatches: 4, Indels: 19
0.72 0.05 0.23
Matches are distributed among these distances:
11 24 0.40
12 15 0.25
13 19 0.32
14 2 0.03
ACGTcount: A:0.32, C:0.36, G:0.04, T:0.28
Consensus pattern (11 bp):
CATCACCATAT
Found at i:1529267 original size:36 final size:36
Alignment explanation
Indices: 1529220--1529321 Score: 170
Period size: 36 Copynumber: 2.9 Consensus size: 36
1529210 TATATAATCT
1529220 GTCCATCACCATTATCACGCCTATATCATCACCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
1529256 GTCCATCACCATTATCACGCCTATATCATCACCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
* * *
1529292 TTCCATCACCA-TATCACGCCAATAACATCA
1 GTCCATCACCATTATCACGCCTATATCATCA
1529322 TCCTTCCATT
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
35 17 0.27
36 46 0.73
ACGTcount: A:0.32, C:0.36, G:0.05, T:0.26
Consensus pattern (36 bp):
GTCCATCACCATTATCACGCCTATATCATCACCATA
Found at i:1529336 original size:33 final size:34
Alignment explanation
Indices: 1529221--1529337 Score: 130
Period size: 36 Copynumber: 3.4 Consensus size: 34
1529211 ATATAATCTG
* *
1529221 TCCATCACCATTATCACGCCTATATCATCACCAT
1 TCCATCACCATTATCACGCCAATAACATCACCAT
* *
1529255 AGTCCATCACCATTATCACGCCTATATCATCACCATAT
1 --TCCATCACCATTATCACGCCAATAACATCACC--AT
1529293 TCCATCACCA-TATCACGCCAATAACATCATCC-T
1 TCCATCACCATTATCACGCCAATAACATCA-CCAT
*
1529326 TCCATTACCATT
1 TCCATCACCATT
1529338 TCATCACCAT
Statistics
Matches: 74, Mismatches: 3, Indels: 10
0.85 0.03 0.11
Matches are distributed among these distances:
33 10 0.14
34 1 0.01
35 17 0.23
36 44 0.59
38 2 0.03
ACGTcount: A:0.31, C:0.37, G:0.03, T:0.29
Consensus pattern (34 bp):
TCCATCACCATTATCACGCCAATAACATCACCAT
Found at i:1529355 original size:33 final size:33
Alignment explanation
Indices: 1529221--1529360 Score: 88
Period size: 36 Copynumber: 4.1 Consensus size: 33
1529211 ATATAATCTG
* * *
1529221 TCCATCACCATTATCACGCCTATATCATCA-CCAT
1 TCCATCACCA-TATCACACCAATAACATCATCC-T
* * *
1529255 AGTCCATCACCATTATCACGCCTATATCATCA-CCATAT
1 --TCCATCACCA-TATCACACCAATAACATCATCC---T
*
1529293 TCCATCACCATATCACGCCAATAACATCATCCT
1 TCCATCACCATATCACACCAATAACATCATCCT
* * *
1529326 TCCATTACCATTTCATCACCATTAA-ATCATCCT
1 TCCATCACCATATCA-CACCAATAACATCATCCT
1529359 TC
1 TC
1529361 ATTCATCAAC
Statistics
Matches: 94, Mismatches: 6, Indels: 11
0.85 0.05 0.10
Matches are distributed among these distances:
33 24 0.26
34 7 0.07
35 17 0.18
36 44 0.47
38 2 0.02
ACGTcount: A:0.31, C:0.36, G:0.03, T:0.30
Consensus pattern (33 bp):
TCCATCACCATATCACACCAATAACATCATCCT
Found at i:1531330 original size:21 final size:22
Alignment explanation
Indices: 1531306--1531348 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
1531296 TGAAGTGCAC
*
1531306 ATGCTTAAATG-ATGCACATGG
1 ATGCCTAAATGAATGCACATGG
*
1531327 ATGCCTACATGAATGCACATGG
1 ATGCCTAAATGAATGCACATGG
1531349 GTCTTCTTGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.26
Consensus pattern (22 bp):
ATGCCTAAATGAATGCACATGG
Found at i:1533261 original size:13 final size:13
Alignment explanation
Indices: 1533243--1533291 Score: 66
Period size: 13 Copynumber: 3.8 Consensus size: 13
1533233 TATAGGCGTG
1533243 ATATGGTGATGGA
1 ATATGGTGATGGA
1533256 ATATGGTGAT-G-
1 ATATGGTGATGGA
1533267 ATAATGGTGATGGA
1 AT-ATGGTGATGGA
*
1533281 CTATGGTGATG
1 ATATGGTGATG
1533292 ATATAGGCGT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
11 2 0.06
12 9 0.28
13 20 0.62
14 1 0.03
ACGTcount: A:0.29, C:0.02, G:0.37, T:0.33
Consensus pattern (13 bp):
ATATGGTGATGGA
Found at i:1533279 original size:25 final size:25
Alignment explanation
Indices: 1533241--1533294 Score: 92
Period size: 25 Copynumber: 2.2 Consensus size: 25
1533231 AATATAGGCG
1533241 TGAT-ATGGTGATGGAATATGGTGA
1 TGATAATGGTGATGGAATATGGTGA
*
1533265 TGATAATGGTGATGGACTATGGTGA
1 TGATAATGGTGATGGAATATGGTGA
1533290 TGATA
1 TGATA
1533295 TAGGCGTGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
24 4 0.14
25 24 0.86
ACGTcount: A:0.30, C:0.02, G:0.35, T:0.33
Consensus pattern (25 bp):
TGATAATGGTGATGGAATATGGTGA
Found at i:1533738 original size:33 final size:33
Alignment explanation
Indices: 1533696--1533764 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
1533686 GTTGATGAAT
*
1533696 GAAGGATGAT-TTAATGGTGATGAAATGGTAATG
1 GAAGGATGATGTTAATGGCG-TGAAATGGTAATG
* * *
1533729 GAAGGATGATGTTATTGGCGTGATATGGTGATG
1 GAAGGATGATGTTAATGGCGTGAAATGGTAATG
1533762 GAA
1 GAA
1533765 TATGGTGATG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 24 0.77
34 7 0.23
ACGTcount: A:0.32, C:0.01, G:0.36, T:0.30
Consensus pattern (33 bp):
GAAGGATGATGTTAATGGCGTGAAATGGTAATG
Found at i:1533769 original size:13 final size:12
Alignment explanation
Indices: 1533750--1533835 Score: 58
Period size: 13 Copynumber: 7.2 Consensus size: 12
1533740 TTATTGGCGT
1533750 GATATGGTGATG
1 GATATGGTGATG
1533762 GAATATGGTGAT-
1 G-ATATGGTGATG
*
1533774 GATATAGGCG-T-
1 GATAT-GGTGATG
1533785 GATAATGGTGATG
1 GAT-ATGGTGATG
1533798 GACTATGGTGAT-
1 GA-TATGGTGATG
*
1533810 GATATAGGCG-T-
1 GATAT-GGTGATG
1533821 GATAATGGTGATG
1 GAT-ATGGTGATG
1533834 GA
1 GA
1533836 CAGATTGTAT
Statistics
Matches: 60, Mismatches: 4, Indels: 19
0.72 0.05 0.23
Matches are distributed among these distances:
11 21 0.35
12 16 0.27
13 22 0.37
14 1 0.02
ACGTcount: A:0.29, C:0.03, G:0.37, T:0.30
Consensus pattern (12 bp):
GATATGGTGATG
Found at i:1533805 original size:36 final size:36
Alignment explanation
Indices: 1533735--1533836 Score: 170
Period size: 36 Copynumber: 2.9 Consensus size: 36
1533725 AATGGAAGGA
* * *
1533735 TGATGTTATTGGCGTGAT-ATGGTGATGGAATATGG
1 TGATGATATAGGCGTGATAATGGTGATGGACTATGG
1533770 TGATGATATAGGCGTGATAATGGTGATGGACTATGG
1 TGATGATATAGGCGTGATAATGGTGATGGACTATGG
1533806 TGATGATATAGGCGTGATAATGGTGATGGAC
1 TGATGATATAGGCGTGATAATGGTGATGGAC
1533837 AGATTGTATC
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
35 16 0.25
36 47 0.75
ACGTcount: A:0.26, C:0.05, G:0.36, T:0.32
Consensus pattern (36 bp):
TGATGATATAGGCGTGATAATGGTGATGGACTATGG
Found at i:1536750 original size:34 final size:34
Alignment explanation
Indices: 1536696--1536798 Score: 104
Period size: 34 Copynumber: 3.0 Consensus size: 34
1536686 ATAAAATCTG
*
1536696 TCCATCACCATTATCACGCC-ATATCATCA-CCATAT
1 TCCATCACCA-TATCACGCCAATAACATCATCC-T-T
1536731 TCCATCACCATATCACGCCAATAACATCATCCTT
1 TCCATCACCATATCACGCCAATAACATCATCCTT
* * * *
1536765 TCCATTACCATTTCATCACCATTAA-ATCATCCTT
1 TCCATCACCATATCA-CGCCAATAACATCATCCTT
1536799 CATTCATCAA
Statistics
Matches: 60, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
34 32 0.53
35 26 0.43
36 2 0.03
ACGTcount: A:0.31, C:0.36, G:0.02, T:0.31
Consensus pattern (34 bp):
TCCATCACCATATCACGCCAATAACATCATCCTT
Found at i:1542430 original size:34 final size:34
Alignment explanation
Indices: 1542376--1542478 Score: 104
Period size: 34 Copynumber: 3.0 Consensus size: 34
1542366 ATACAATCTG
*
1542376 TCCATCACCATTATCACGCC-ATATCATCA-CCATAT
1 TCCATCACCA-TATCACGCCAATAACATCATCC-T-T
1542411 TCCATCACCATATCACGCCAATAACATCATCCTT
1 TCCATCACCATATCACGCCAATAACATCATCCTT
* * * *
1542445 TCCATTACCATTTCATCACCATTAA-ATCATCCTT
1 TCCATCACCATATCA-CGCCAATAACATCATCCTT
1542479 CATTCATCAA
Statistics
Matches: 60, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
34 32 0.53
35 26 0.43
36 2 0.03
ACGTcount: A:0.31, C:0.36, G:0.02, T:0.31
Consensus pattern (34 bp):
TCCATCACCATATCACGCCAATAACATCATCCTT
Found at i:1546218 original size:23 final size:24
Alignment explanation
Indices: 1546175--1546223 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 24
1546165 AAAGGTTAAG
*
1546175 AAAGATGATAAGGTAATGAAAAGA
1 AAAGATGATAAGATAATGAAAAGA
*
1546199 AAAGATGA-AAGAATAA-GAAATGA
1 AAAGATGATAAG-ATAATGAAAAGA
1546222 AA
1 AA
1546224 TAGTAAGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 11 0.50
24 11 0.50
ACGTcount: A:0.63, C:0.00, G:0.22, T:0.14
Consensus pattern (24 bp):
AAAGATGATAAGATAATGAAAAGA
Found at i:1546541 original size:33 final size:33
Alignment explanation
Indices: 1546499--1546567 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
1546489 GTTGATGAAT
*
1546499 GAAGGATGAT-TTAATGGTGATGAAATGGTAATG
1 GAAGGATGATGTTAATGGCG-TGAAATGGTAATG
* * *
1546532 GAAGGATGATGTTATTGGCGTGATATGGTGATG
1 GAAGGATGATGTTAATGGCGTGAAATGGTAATG
1546565 GAA
1 GAA
1546568 TATGGTGATG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 24 0.77
34 7 0.23
ACGTcount: A:0.32, C:0.01, G:0.36, T:0.30
Consensus pattern (33 bp):
GAAGGATGATGTTAATGGCGTGAAATGGTAATG
Found at i:1546572 original size:13 final size:12
Alignment explanation
Indices: 1546553--1546638 Score: 58
Period size: 13 Copynumber: 7.2 Consensus size: 12
1546543 TTATTGGCGT
1546553 GATATGGTGATG
1 GATATGGTGATG
1546565 GAATATGGTGAT-
1 G-ATATGGTGATG
*
1546577 GATATAGGCG-T-
1 GATAT-GGTGATG
1546588 GATAATGGTGATG
1 GAT-ATGGTGATG
1546601 GACTATGGTGAT-
1 GA-TATGGTGATG
*
1546613 GATATAGG-CAT-
1 GATAT-GGTGATG
1546624 GATAATGGTGATG
1 GAT-ATGGTGATG
1546637 GA
1 GA
1546639 AAGATTGTAT
Statistics
Matches: 60, Mismatches: 4, Indels: 19
0.72 0.05 0.23
Matches are distributed among these distances:
11 21 0.35
12 16 0.27
13 22 0.37
14 1 0.02
ACGTcount: A:0.30, C:0.03, G:0.36, T:0.30
Consensus pattern (12 bp):
GATATGGTGATG
Found at i:1546608 original size:36 final size:36
Alignment explanation
Indices: 1546538--1546639 Score: 161
Period size: 36 Copynumber: 2.9 Consensus size: 36
1546528 AATGGAAGGA
* *
1546538 TGATGTTATTGGCGTGAT-ATGGTGATGGAATATGG
1 TGATGATATAGGCGTGATAATGGTGATGGAATATGG
*
1546573 TGATGATATAGGCGTGATAATGGTGATGGACTATGG
1 TGATGATATAGGCGTGATAATGGTGATGGAATATGG
*
1546609 TGATGATATAGGCATGATAATGGTGATGGAA
1 TGATGATATAGGCGTGATAATGGTGATGGAA
1546640 AGATTGTATC
Statistics
Matches: 61, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
35 16 0.26
36 45 0.74
ACGTcount: A:0.28, C:0.04, G:0.35, T:0.32
Consensus pattern (36 bp):
TGATGATATAGGCGTGATAATGGTGATGGAATATGG
Found at i:1550661 original size:19 final size:20
Alignment explanation
Indices: 1550631--1550681 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
1550621 TCGGCCAAGG
* *
1550631 CATGTATCTTCAT-TAAAAT
1 CATGTATTTTCATCAAAAAT
*
1550650 CATGTTTTTTCATCAAAAAT
1 CATGTATTTTCATCAAAAAT
1550670 CATGTATTTTCA
1 CATGTATTTTCA
1550682 AAGGGGTTTC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
19 11 0.41
20 16 0.59
ACGTcount: A:0.33, C:0.16, G:0.06, T:0.45
Consensus pattern (20 bp):
CATGTATTTTCATCAAAAAT
Found at i:1555034 original size:68 final size:69
Alignment explanation
Indices: 1554924--1555060 Score: 258
Period size: 68 Copynumber: 2.0 Consensus size: 69
1554914 GGGTAGCCTT
*
1554924 CTTGTCAAACTGCCAAGGACGTCCTCATATAATGTGGCTTGCACTCATGGGCACCACGTCCCAAA
1 CTTGTCAAACTGCCAAGGACGTCCTCATATAATGTGGCTTGCACTCATGGGCACCACGTCACAAA
1554989 GGAC
66 GGAC
1554993 CTTGTCAAACTGCCAA-GACGTCCTCATATAATGTGGCTTGCACTCATGGGCACCACGTCACAAA
1 CTTGTCAAACTGCCAAGGACGTCCTCATATAATGTGGCTTGCACTCATGGGCACCACGTCACAAA
1555057 GGAC
66 GGAC
1555061 TTCATCATTG
Statistics
Matches: 67, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
68 51 0.76
69 16 0.24
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (69 bp):
CTTGTCAAACTGCCAAGGACGTCCTCATATAATGTGGCTTGCACTCATGGGCACCACGTCACAAA
GGAC
Found at i:1555868 original size:27 final size:27
Alignment explanation
Indices: 1555823--1555879 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
1555813 TTTCTTTGTT
* *
1555823 TTTCTTCTTTTTGAATGC-TGAATTTC
1 TTTCTTCTTTTAGAATGCTTCAATTTC
*
1555849 TTTCTTTCTTTTAGAGTGCTTCAATTTC
1 TTTC-TTCTTTTAGAATGCTTCAATTTC
1555877 TTT
1 TTT
1555880 TCTGATTTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 4 0.15
27 12 0.46
28 10 0.38
ACGTcount: A:0.14, C:0.16, G:0.11, T:0.60
Consensus pattern (27 bp):
TTTCTTCTTTTAGAATGCTTCAATTTC
Found at i:1558075 original size:24 final size:21
Alignment explanation
Indices: 1558040--1558082 Score: 50
Period size: 23 Copynumber: 1.9 Consensus size: 21
1558030 GGCTCATTCT
*
1558040 TTTGAATTTCAAGAGGTACATCC
1 TTTGAATATCAA-AGG-ACATCC
1558063 TTTGAAATATCAAAGGACAT
1 TTTG-AATATCAAAGGACAT
1558083 ATCTTGTGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 4 0.22
23 7 0.39
24 7 0.39
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (21 bp):
TTTGAATATCAAAGGACATCC
Found at i:1559348 original size:27 final size:27
Alignment explanation
Indices: 1559314--1559370 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
1559304 TTTCTTTGTT
* *
1559314 TTTCTTCTTTTTGAATGC-TGAATTTC
1 TTTCTTCTTTTGGAATGCTTCAATTTC
*
1559340 TTTCTTTCTTTTGGAGTGCTTCAATTTC
1 TTTC-TTCTTTTGGAATGCTTCAATTTC
1559368 TTT
1 TTT
1559371 TCTGATTTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 4 0.15
27 12 0.46
28 10 0.38
ACGTcount: A:0.12, C:0.16, G:0.12, T:0.60
Consensus pattern (27 bp):
TTTCTTCTTTTGGAATGCTTCAATTTC
Found at i:1562091 original size:24 final size:21
Alignment explanation
Indices: 1562056--1562098 Score: 50
Period size: 23 Copynumber: 1.9 Consensus size: 21
1562046 GGCTCATTCT
*
1562056 TTTGAATTTCAAGAGGTACATCC
1 TTTGAATGTCAA-AGG-ACATCC
1562079 TTTGAAATGTCAAAGGACAT
1 TTTG-AATGTCAAAGGACAT
1562099 ATCTTGTGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 4 0.22
23 7 0.39
24 7 0.39
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.33
Consensus pattern (21 bp):
TTTGAATGTCAAAGGACATCC
Found at i:1563365 original size:27 final size:27
Alignment explanation
Indices: 1563331--1563387 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
1563321 TTTCTTTGTT
* *
1563331 TTTCTTCTTTTTGAATGC-TGAATTTC
1 TTTCTTCTTTTGGAATGCTTCAATTTC
*
1563357 TTTCTTTCTTTTGGAGTGCTTCAATTTC
1 TTTC-TTCTTTTGGAATGCTTCAATTTC
1563385 TTT
1 TTT
1563388 TCTGATTTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 4 0.15
27 12 0.46
28 10 0.38
ACGTcount: A:0.12, C:0.16, G:0.12, T:0.60
Consensus pattern (27 bp):
TTTCTTCTTTTGGAATGCTTCAATTTC
Found at i:1566197 original size:13 final size:12
Alignment explanation
Indices: 1566178--1566263 Score: 67
Period size: 11 Copynumber: 7.2 Consensus size: 12
1566168 ATATAGGCGT
1566178 GATATGGTGATG
1 GATATGGTGATG
1566190 GAATATGGTGAT-
1 G-ATATGGTGATG
1566202 GATATAGGTG-T-
1 GATAT-GGTGATG
1566213 GATAATGGTGATG
1 GAT-ATGGTGATG
1566226 GACTATGGTGAT-
1 GA-TATGGTGATG
*
1566238 GATATAGGCG-T-
1 GATAT-GGTGATG
1566249 GATAATGGTGATG
1 GAT-ATGGTGATG
1566262 GA
1 GA
1566264 CAGATTGTAT
Statistics
Matches: 62, Mismatches: 2, Indels: 19
0.75 0.02 0.23
Matches are distributed among these distances:
11 22 0.35
12 17 0.27
13 22 0.35
14 1 0.02
ACGTcount: A:0.29, C:0.02, G:0.37, T:0.31
Consensus pattern (12 bp):
GATATGGTGATG
Found at i:1566215 original size:11 final size:12
Alignment explanation
Indices: 1566161--1566245 Score: 65
Period size: 11 Copynumber: 7.2 Consensus size: 12
1566151 TTTATAAGTT
*
1566161 GGTGATAATATA
1 GGTGATGATATA
*
1566173 GGCG-TGATAT-
1 GGTGATGATATA
1566183 GGTGATGGA-ATA
1 GGTGAT-GATATA
1566195 TGGTGATGATATA
1 -GGTGATGATATA
1566208 GGTG-TGATA-A
1 GGTGATGATATA
1566218 TGGTGATGGACTAT-
1 -GGTGAT-GA-TATA
1566232 GGTGATGATATA
1 GGTGATGATATA
1566244 GG
1 GG
1566246 CGTGATAATG
Statistics
Matches: 59, Mismatches: 3, Indels: 22
0.70 0.04 0.26
Matches are distributed among these distances:
10 4 0.07
11 20 0.34
12 16 0.27
13 17 0.29
14 2 0.03
ACGTcount: A:0.29, C:0.02, G:0.36, T:0.32
Consensus pattern (12 bp):
GGTGATGATATA
Found at i:1566233 original size:36 final size:36
Alignment explanation
Indices: 1566160--1566264 Score: 176
Period size: 36 Copynumber: 2.9 Consensus size: 36
1566150 ATTTATAAGT
* *
1566160 TGGTGATAATATAGGCGTGAT-ATGGTGATGGAATA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
*
1566195 TGGTGATGATATAGGTGTGATAATGGTGATGGACTA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
1566231 TGGTGATGATATAGGCGTGATAATGGTGATGGAC
1 TGGTGATGATATAGGCGTGATAATGGTGATGGAC
1566265 AGATTGTATC
Statistics
Matches: 65, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
35 19 0.29
36 46 0.71
ACGTcount: A:0.29, C:0.04, G:0.36, T:0.31
Consensus pattern (36 bp):
TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
Found at i:1566685 original size:33 final size:33
Alignment explanation
Indices: 1566643--1566711 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
1566633 GTTGATGAAT
1566643 GAAGGATGAT-TTAATGGTGATGAAATGGTAATG
1 GAAGGATGATGTTAATGGTG-TGAAATGGTAATG
* * *
1566676 GAAGGATGATGTTATTGGTGTGATATGGTGATG
1 GAAGGATGATGTTAATGGTGTGAAATGGTAATG
1566709 GAA
1 GAA
1566712 TATGGTGATG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
33 24 0.75
34 8 0.25
ACGTcount: A:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (33 bp):
GAAGGATGATGTTAATGGTGTGAAATGGTAATG
Found at i:1566716 original size:13 final size:12
Alignment explanation
Indices: 1566697--1566782 Score: 58
Period size: 13 Copynumber: 7.2 Consensus size: 12
1566687 TTATTGGTGT
1566697 GATATGGTGATG
1 GATATGGTGATG
1566709 GAATATGGTGAT-
1 G-ATATGGTGATG
*
1566721 GATATAGGCG-T-
1 GATAT-GGTGATG
1566732 GATAATGGTGATG
1 GAT-ATGGTGATG
1566745 GACTATGGTGAT-
1 GA-TATGGTGATG
*
1566757 GATATAGGCG-T-
1 GATAT-GGTGATG
1566768 GATAATGGTGATG
1 GAT-ATGGTGATG
1566781 GA
1 GA
1566783 CAGATTGTAT
Statistics
Matches: 60, Mismatches: 4, Indels: 19
0.72 0.05 0.23
Matches are distributed among these distances:
11 21 0.35
12 16 0.27
13 22 0.37
14 1 0.02
ACGTcount: A:0.29, C:0.03, G:0.37, T:0.30
Consensus pattern (12 bp):
GATATGGTGATG
Found at i:1566783 original size:36 final size:36
Alignment explanation
Indices: 1566695--1566783 Score: 162
Period size: 36 Copynumber: 2.5 Consensus size: 36
1566685 TGTTATTGGT
*
1566695 GTGAT-ATGGTGATGGAATATGGTGATGATATAGGC
1 GTGATAATGGTGATGGACTATGGTGATGATATAGGC
1566730 GTGATAATGGTGATGGACTATGGTGATGATATAGGC
1 GTGATAATGGTGATGGACTATGGTGATGATATAGGC
1566766 GTGATAATGGTGATGGAC
1 GTGATAATGGTGATGGAC
1566784 AGATTGTATC
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
35 5 0.10
36 47 0.90
ACGTcount: A:0.28, C:0.04, G:0.37, T:0.30
Consensus pattern (36 bp):
GTGATAATGGTGATGGACTATGGTGATGATATAGGC
Found at i:1572469 original size:32 final size:32
Alignment explanation
Indices: 1572428--1572490 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
1572418 GTGATGGAAT
1572428 ATGGTGATGATATAGGCGTGATAATGGTGATA
1 ATGGTGATGATATAGGCGTGATAATGGTGATA
1572460 ATGGTGATGATATAGGCGTGATAATGGTGAT
1 ATGGTGATGATATAGGCGTGATAATGGTGAT
1572491 GGACAGATTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.30, C:0.03, G:0.35, T:0.32
Consensus pattern (32 bp):
ATGGTGATGATATAGGCGTGATAATGGTGATA
Found at i:1577666 original size:14 final size:15
Alignment explanation
Indices: 1577637--1577681 Score: 65
Period size: 14 Copynumber: 2.9 Consensus size: 15
1577627 CTTGCTTCAC
1577637 TTTTCTTTTGCTTTTGA
1 TTTTC-TTT-CTTTTGA
1577654 TTTTC-TTCTTTTGA
1 TTTTCTTTCTTTTGA
1577668 TTTTCTTTCTTTTG
1 TTTTCTTTCTTTTG
1577682 CACTCCAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
14 12 0.44
15 10 0.37
17 5 0.19
ACGTcount: A:0.04, C:0.13, G:0.09, T:0.73
Consensus pattern (15 bp):
TTTTCTTTCTTTTGA
Found at i:1578141 original size:13 final size:12
Alignment explanation
Indices: 1578122--1578207 Score: 58
Period size: 13 Copynumber: 7.2 Consensus size: 12
1578112 ATATAGGCGT
1578122 GATATGGTGATG
1 GATATGGTGATG
1578134 GAATATGGTGAT-
1 G-ATATGGTGATG
*
1578146 GATATAGGCG-T-
1 GATAT-GGTGATG
1578157 GATAATGGTGATG
1 GAT-ATGGTGATG
1578170 GACTATGGTGAT-
1 GA-TATGGTGATG
*
1578182 GATATAGGCG-T-
1 GATAT-GGTGATG
1578193 GATAATGGTGATG
1 GAT-ATGGTGATG
1578206 GA
1 GA
1578208 CAGATTGTAT
Statistics
Matches: 60, Mismatches: 4, Indels: 19
0.72 0.05 0.23
Matches are distributed among these distances:
11 21 0.35
12 16 0.27
13 22 0.37
14 1 0.02
ACGTcount: A:0.29, C:0.03, G:0.37, T:0.30
Consensus pattern (12 bp):
GATATGGTGATG
Found at i:1578177 original size:36 final size:36
Alignment explanation
Indices: 1578104--1578208 Score: 185
Period size: 36 Copynumber: 2.9 Consensus size: 36
1578094 ATTTATAAGT
* *
1578104 TGGTGATAATATAGGCGTGAT-ATGGTGATGGAATA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
1578139 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
1578175 TGGTGATGATATAGGCGTGATAATGGTGATGGAC
1 TGGTGATGATATAGGCGTGATAATGGTGATGGAC
1578209 AGATTGTATC
Statistics
Matches: 67, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
35 20 0.30
36 47 0.70
ACGTcount: A:0.29, C:0.05, G:0.36, T:0.30
Consensus pattern (36 bp):
TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
Found at i:1579757 original size:24 final size:21
Alignment explanation
Indices: 1579722--1579764 Score: 50
Period size: 23 Copynumber: 1.9 Consensus size: 21
1579712 GGCTCATTCT
*
1579722 TTTGAATTTCAAGAGGTACATCC
1 TTTGAATGTCAA-AGG-ACATCC
1579745 TTTGAAATGTCAAAGGACAT
1 TTTG-AATGTCAAAGGACAT
1579765 ATCTTGTGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 4 0.22
23 7 0.39
24 7 0.39
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.33
Consensus pattern (21 bp):
TTTGAATGTCAAAGGACATCC
Found at i:1581039 original size:27 final size:27
Alignment explanation
Indices: 1580994--1581050 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
1580984 TTTCTTTGTT
* *
1580994 TTTCTTCTTTTTGAATGC-TGAATTTC
1 TTTCTTCTTTTAGAATGCTTCAATTTC
*
1581020 TTTCTTTCTTTTAGAGTGCTTCAATTTC
1 TTTC-TTCTTTTAGAATGCTTCAATTTC
1581048 TTT
1 TTT
1581051 TCTAATTTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 4 0.15
27 12 0.46
28 10 0.38
ACGTcount: A:0.14, C:0.16, G:0.11, T:0.60
Consensus pattern (27 bp):
TTTCTTCTTTTAGAATGCTTCAATTTC
Found at i:1582753 original size:19 final size:20
Alignment explanation
Indices: 1582729--1582772 Score: 72
Period size: 19 Copynumber: 2.2 Consensus size: 20
1582719 AGCATTTATC
1582729 TTCATTAAAATT-ATGTATT
1 TTCATTAAAATTCATGTATT
*
1582748 TTCATTAAAATTCATGTGTT
1 TTCATTAAAATTCATGTATT
1582768 TTCAT
1 TTCAT
1582773 AGGGGTTTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 12 0.52
20 11 0.48
ACGTcount: A:0.32, C:0.09, G:0.07, T:0.52
Consensus pattern (20 bp):
TTCATTAAAATTCATGTATT
Found at i:1583592 original size:13 final size:13
Alignment explanation
Indices: 1583570--1583606 Score: 53
Period size: 11 Copynumber: 3.1 Consensus size: 13
1583560 AAAGCAACAA
1583570 AAAG-AGAAAAAG
1 AAAGAAGAAAAAG
1583582 AAAGAAGAAAAAG
1 AAAGAAGAAAAAG
1583595 -AA-AAGAAAAAG
1 AAAGAAGAAAAAG
1583606 A
1 A
1583607 CTCCTACATC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 9 0.39
12 6 0.26
13 8 0.35
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (13 bp):
AAAGAAGAAAAAG
Found at i:1583595 original size:6 final size:6
Alignment explanation
Indices: 1583569--1583606 Score: 51
Period size: 6 Copynumber: 6.2 Consensus size: 6
1583559 AAAAGCAACA
1583569 AAAAGAG AAAAAG AAAGAAG AAAAAG -AAAAG AAAAAG A
1 AAAA-AG AAAAAG AAA-AAG AAAAAG AAAAAG AAAAAG A
1583607 CTCCTACATC
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
5 5 0.17
6 14 0.48
7 10 0.34
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:1583845 original size:16 final size:16
Alignment explanation
Indices: 1583826--1583856 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1583816 TTTCTTACTA
1583826 TTTCATTTCTTTATTC
1 TTTCATTTCTTTATTC
*
1583842 TTTCATTTTTTTATT
1 TTTCATTTCTTTATT
1583857 TCATTACCAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTCATTTCTTTATTC
Found at i:1585887 original size:19 final size:20
Alignment explanation
Indices: 1585863--1585906 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
1585853 AGCATTTATC
*
1585863 TTCATT-AAAATTATGTATT
1 TTCATTAAAAATCATGTATT
*
1585882 TTCATTAAAAATCATGTGTT
1 TTCATTAAAAATCATGTATT
1585902 TTCAT
1 TTCAT
1585907 AGGGGTTTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.34, C:0.09, G:0.07, T:0.50
Consensus pattern (20 bp):
TTCATTAAAAATCATGTATT
Found at i:1586728 original size:13 final size:13
Alignment explanation
Indices: 1586706--1586742 Score: 53
Period size: 11 Copynumber: 3.1 Consensus size: 13
1586696 AAAGCAACAA
1586706 AAAG-AGAAAAAG
1 AAAGAAGAAAAAG
1586718 AAAGAAGAAAAAG
1 AAAGAAGAAAAAG
1586731 -AA-AAGAAAAAG
1 AAAGAAGAAAAAG
1586742 A
1 A
1586743 CTCCTACATC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 9 0.39
12 6 0.26
13 8 0.35
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (13 bp):
AAAGAAGAAAAAG
Found at i:1586731 original size:6 final size:6
Alignment explanation
Indices: 1586705--1586742 Score: 51
Period size: 6 Copynumber: 6.2 Consensus size: 6
1586695 AAAAGCAACA
1586705 AAAAGAG AAAAAG AAAGAAG AAAAAG -AAAAG AAAAAG A
1 AAAA-AG AAAAAG AAA-AAG AAAAAG AAAAAG AAAAAG A
1586743 CTCCTACATC
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
5 5 0.17
6 14 0.48
7 10 0.34
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:1586993 original size:17 final size:16
Alignment explanation
Indices: 1586962--1586998 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
1586952 TTTCTAACTA
1586962 TTTCATTTCTTTATTC
1 TTTCATTTCTTTATTC
*
1586978 TTTCATTT-TTT-TTA
1 TTTCATTTCTTTATTC
1586992 TTTCATT
1 TTTCATT
1586999 ACCATATCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 9 0.45
15 3 0.15
16 8 0.40
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTCATTTCTTTATTC
Found at i:1591470 original size:21 final size:21
Alignment explanation
Indices: 1591444--1591497 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
1591434 GGGATGAAAC
1591444 ATTATGTCATTTAGCATTAAA
1 ATTATGTCATTTAGCATTAAA
1591465 ATTATGTCATTTAGCATTAAA
1 ATTATGTCATTTAGCATTAAA
*
1591486 ATTATGTTATTT
1 ATTATGTCATTT
1591498 TATAGAGACA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.35, C:0.07, G:0.09, T:0.48
Consensus pattern (21 bp):
ATTATGTCATTTAGCATTAAA
Found at i:1595384 original size:19 final size:20
Alignment explanation
Indices: 1595360--1595408 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
1595350 TATCCTTTCT
1595360 TTATTTTATTTCATT-CTTA
1 TTATTTTATTTCATTACTTA
1595379 TTA-TTTATTTTCATTACTTA
1 TTATTTTA-TTTCATTACTTA
1595399 -TATTATTATT
1 TTATT-TTATT
1595409 CACTTTATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
18 4 0.15
19 12 0.46
20 7 0.27
21 3 0.12
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.67
Consensus pattern (20 bp):
TTATTTTATTTCATTACTTA
Found at i:1598928 original size:30 final size:31
Alignment explanation
Indices: 1598876--1598935 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
1598866 CTTAGCTTTA
**
1598876 TATTATGTTTACATATGTTTTAGAT-TCATT
1 TATTATGTTTACATATCATTTAGATATCATT
* *
1598906 TATTATGTTTGCATTTCATTTAGATATCAT
1 TATTATGTTTACATATCATTTAGATATCAT
1598936 GGCAGCATGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.27, C:0.08, G:0.10, T:0.55
Consensus pattern (31 bp):
TATTATGTTTACATATCATTTAGATATCATT
Found at i:1599869 original size:19 final size:19
Alignment explanation
Indices: 1599845--1599895 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 19
1599835 CGGCCAAGAG
*
1599845 CATGTATCTTCATTC-AAAT
1 CATGTATTTTCA-TCAAAAT
1599864 CATGTATTTTCATCAAAAAT
1 CATGTATTTTCATC-AAAAT
1599884 CATGTATTTTCA
1 CATGTATTTTCA
1599896 AAGGGGTTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 2 0.07
19 11 0.38
20 16 0.55
ACGTcount: A:0.33, C:0.18, G:0.06, T:0.43
Consensus pattern (19 bp):
CATGTATTTTCATCAAAAT
Found at i:1601078 original size:6 final size:6
Alignment explanation
Indices: 1601052--1601095 Score: 63
Period size: 6 Copynumber: 7.2 Consensus size: 6
1601042 AAAAGCAACA
1601052 AAAAGAG AAAAAG AAAGAAG AAAAAG AAAAAG -AAAAG AAAAAG A
1 AAAA-AG AAAAAG AAA-AAG AAAAAG AAAAAG AAAAAG AAAAAG A
1601096 CTCCTACATC
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
5 5 0.14
6 20 0.57
7 10 0.29
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:1601081 original size:19 final size:17
Alignment explanation
Indices: 1601052--1601095 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 17
1601042 AAAAGCAACA
1601052 AAAAGAGAAAAAGAAAGAAG
1 AAAA-AGAAAAAG-AA-AAG
1601072 AAAAAGAAAAAGAAAAG
1 AAAAAGAAAAAGAAAAG
1601089 AAAAAGA
1 AAAAAGA
1601096 CTCCTACATC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.42
18 2 0.08
19 8 0.33
20 4 0.17
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (17 bp):
AAAAAGAAAAAGAAAAG
Found at i:1601089 original size:11 final size:11
Alignment explanation
Indices: 1601060--1601095 Score: 54
Period size: 11 Copynumber: 3.1 Consensus size: 11
1601050 CAAAAAGAGA
1601060 AAAAGAAAGAAG
1 AAAAGAAA-AAG
1601072 AAAAAGAAAAAG
1 -AAAAGAAAAAG
1601084 AAAAGAAAAAG
1 AAAAGAAAAAG
1601095 A
1 A
1601096 CTCCTACATC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 12 0.52
12 3 0.13
13 8 0.35
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (11 bp):
AAAAGAAAAAG
Found at i:1604398 original size:16 final size:16
Alignment explanation
Indices: 1604377--1604409 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
1604367 TTGTTAGCTC
1604377 ATTTGCATTCTAACAT
1 ATTTGCATTCTAACAT
1604393 ATTTGCATTCTAACAT
1 ATTTGCATTCTAACAT
1604409 A
1 A
1604410 GGTGGCAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.33, C:0.18, G:0.06, T:0.42
Consensus pattern (16 bp):
ATTTGCATTCTAACAT
Found at i:1609498 original size:19 final size:20
Alignment explanation
Indices: 1609476--1609518 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
1609466 ACCATTTATC
*
1609476 TTCATT-AAAATTATGTATT
1 TTCATTAAAAATCATGTATT
*
1609495 TTCATTAAAAATCATGTGTT
1 TTCATTAAAAATCATGTATT
1609515 TTCA
1 TTCA
1609519 AAGGGGTTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.35, C:0.09, G:0.07, T:0.49
Consensus pattern (20 bp):
TTCATTAAAAATCATGTATT
Found at i:1609882 original size:13 final size:13
Alignment explanation
Indices: 1609864--1609889 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1609854 ACTATCTGTT
1609864 CATCACCATTTTC
1 CATCACCATTTTC
1609877 CATCACCATTTTC
1 CATCACCATTTTC
1609890 ACGCCTATAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.38, G:0.00, T:0.38
Consensus pattern (13 bp):
CATCACCATTTTC
Found at i:1611964 original size:14 final size:13
Alignment explanation
Indices: 1611945--1611994 Score: 52
Period size: 14 Copynumber: 3.9 Consensus size: 13
1611935 AAGCAAAAAG
1611945 AAAGAAAAAGACAA
1 AAAGAAAAAGA-AA
*
1611959 AAAGAAGAAGAAA
1 AAAGAAAAAGAAA
1611972 AGAAG-AAAAG--A
1 A-AAGAAAAAGAAA
1611983 AAAGAAAAAGAA
1 AAAGAAAAAGAA
1611995 TTCAAAAAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
10 3 0.10
11 7 0.23
13 7 0.23
14 13 0.43
ACGTcount: A:0.78, C:0.02, G:0.20, T:0.00
Consensus pattern (13 bp):
AAAGAAAAAGAAA
Found at i:1611991 original size:19 final size:18
Alignment explanation
Indices: 1611934--1611994 Score: 72
Period size: 19 Copynumber: 3.3 Consensus size: 18
1611924 ATTGGCGTAC
*
1611934 AAAGCAAAAAG-AAAGAA
1 AAAGAAAAAAGAAAAGAA
1611951 AAAGACAAAAAGAAGAAG-A
1 AAAGA-AAAAAGAA-AAGAA
1611970 AAAGAAGAAAAGAAAAGAA
1 AAAGAA-AAAAGAAAAGAA
1611989 AAAGAA
1 AAAGAA
1611995 TTCAAAAAGA
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
17 4 0.11
18 10 0.26
19 21 0.55
20 3 0.08
ACGTcount: A:0.77, C:0.03, G:0.20, T:0.00
Consensus pattern (18 bp):
AAAGAAAAAAGAAAAGAA
Found at i:1616512 original size:6 final size:6
Alignment explanation
Indices: 1616501--1616532 Score: 55
Period size: 6 Copynumber: 5.2 Consensus size: 6
1616491 AAAGCAACAA
1616501 AAAAAG AAAAAG AAAGAAG AAAAAG AAAAAG A
1 AAAAAG AAAAAG AAA-AAG AAAAAG AAAAAG A
1616533 CTCCTACATC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 19 0.76
7 6 0.24
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:1616522 original size:13 final size:12
Alignment explanation
Indices: 1616501--1616532 Score: 55
Period size: 13 Copynumber: 2.6 Consensus size: 12
1616491 AAAGCAACAA
1616501 AAAAAGAAAAAG
1 AAAAAGAAAAAG
1616513 AAAGAAGAAAAAG
1 AAA-AAGAAAAAG
1616526 AAAAAGA
1 AAAAAGA
1616533 CTCCTACATC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (12 bp):
AAAAAGAAAAAG
Found at i:1616822 original size:19 final size:21
Alignment explanation
Indices: 1616798--1616837 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
1616788 CATATCTTTT
1616798 TCATAAAC-TTTCTA-CCCTA
1 TCATAAACATTTCTATCCCTA
*
1616817 TCATAACCATTTCTATCCCTA
1 TCATAAACATTTCTATCCCTA
1616838 ACCATTTCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 6 0.33
21 5 0.28
ACGTcount: A:0.30, C:0.33, G:0.00, T:0.38
Consensus pattern (21 bp):
TCATAAACATTTCTATCCCTA
Found at i:1618762 original size:36 final size:36
Alignment explanation
Indices: 1618715--1618819 Score: 176
Period size: 36 Copynumber: 2.9 Consensus size: 36
1618705 GATACAATCT
1618715 GTCCATCACCATTATCACGCCTATATCATCACCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
1618751 GTCCATCACCATTATCACGCCTATATCATCACCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
* * *
1618787 TTCGATCACCA-TATCACGCCTATATTATCACCA
1 GTCCATCACCATTATCACGCCTATATCATCACCA
1618820 ACTTATAAAT
Statistics
Matches: 66, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
35 21 0.32
36 45 0.68
ACGTcount: A:0.30, C:0.35, G:0.06, T:0.29
Consensus pattern (36 bp):
GTCCATCACCATTATCACGCCTATATCATCACCATA
Found at i:1619222 original size:17 final size:15
Alignment explanation
Indices: 1619191--1619232 Score: 50
Period size: 17 Copynumber: 2.7 Consensus size: 15
1619181 TGCTATAACA
1619191 AAAAAAG-AAACAAG
1 AAAAAAGAAAACAAG
1619205 AAAAAAGAAAACAAAAG
1 AAAAAAGAAAAC--AAG
*
1619222 AGAAAAGAAAA
1 AAAAAAGAAAA
1619233 AGACTCCTAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 7 0.29
15 4 0.17
17 13 0.54
ACGTcount: A:0.81, C:0.05, G:0.14, T:0.00
Consensus pattern (15 bp):
AAAAAAGAAAACAAG
Found at i:1623132 original size:13 final size:13
Alignment explanation
Indices: 1623114--1623138 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1623104 GATACAATCT
1623114 GTCCATCACCATA
1 GTCCATCACCATA
1623127 GTCCATCACCAT
1 GTCCATCACCAT
1623139 TATCACGCCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.40, G:0.08, T:0.24
Consensus pattern (13 bp):
GTCCATCACCATA
Found at i:1623185 original size:35 final size:36
Alignment explanation
Indices: 1623117--1623195 Score: 124
Period size: 35 Copynumber: 2.2 Consensus size: 36
1623107 ACAATCTGTC
1623117 CATCACCATAGTCCATCACCATTATCACGCCTATAT
1 CATCACCATAGTCCATCACCATTATCACGCCTATAT
* *
1623153 CATCACCATATTCGATCACCA-TATCACGCCTATAT
1 CATCACCATAGTCCATCACCATTATCACGCCTATAT
*
1623188 TATCACCA
1 CATCACCA
1623196 ACTTATAAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
35 21 0.52
36 19 0.47
ACGTcount: A:0.32, C:0.35, G:0.05, T:0.28
Consensus pattern (36 bp):
CATCACCATAGTCCATCACCATTATCACGCCTATAT
Found at i:1623593 original size:18 final size:17
Alignment explanation
Indices: 1623566--1623610 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 17
1623556 GTGCTATAAC
1623566 AAAAAA-AAAACAACAAG
1 AAAAAAGAAAACAA-AAG
1623583 AAAAAAGAAAACAAAAG
1 AAAAAAGAAAACAAAAG
*
1623600 AGAAAAGAAAA
1 AAAAAAGAAAA
1623611 AGACTCCTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 19 0.73
18 7 0.27
ACGTcount: A:0.82, C:0.07, G:0.11, T:0.00
Consensus pattern (17 bp):
AAAAAAGAAAACAAAAG
Found at i:1623593 original size:24 final size:24
Alignment explanation
Indices: 1623566--1623611 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
1623556 GTGCTATAAC
1623566 AAAA-AAAAAACAACAAGAAAAAAG
1 AAAACAAAAAACAA-AAGAAAAAAG
* *
1623590 AAAACAAAAGAGAAAAGAAAAA
1 AAAACAAAAAACAAAAGAAAAA
1623612 GACTCCTACA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 12 0.63
25 7 0.37
ACGTcount: A:0.83, C:0.07, G:0.11, T:0.00
Consensus pattern (24 bp):
AAAACAAAAAACAAAAGAAAAAAG
Found at i:1623611 original size:18 final size:19
Alignment explanation
Indices: 1623566--1623611 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 19
1623556 GTGCTATAAC
1623566 AAAAA-AAAAACAACAAGA
1 AAAAAGAAAAACAACAAGA
1623584 AAAAAG-AAAACAA-AAGA
1 AAAAAGAAAAACAACAAGA
*
1623601 GAAAAGAAAAA
1 AAAAAGAAAAA
1623612 GACTCCTACA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 9 0.36
18 16 0.64
ACGTcount: A:0.83, C:0.07, G:0.11, T:0.00
Consensus pattern (19 bp):
AAAAAGAAAAACAACAAGA
Found at i:1623669 original size:14 final size:15
Alignment explanation
Indices: 1623635--1623681 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
1623625 AATTTGGAGT
1623635 GCAAAAGAAAGAAAA
1 GCAAAAGAAAGAAAA
*
1623650 GAAAAAG-AAGAAAA
1 GCAAAAGAAAGAAAA
*
1623664 TCAAAAGCAAAAGAAAA
1 GCAAAAG--AAAGAAAA
1623681 G
1 G
1623682 TGAAACAAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
14 12 0.48
15 6 0.24
17 7 0.28
ACGTcount: A:0.72, C:0.06, G:0.19, T:0.02
Consensus pattern (15 bp):
GCAAAAGAAAGAAAA
Found at i:1633430 original size:23 final size:23
Alignment explanation
Indices: 1633402--1633456 Score: 110
Period size: 23 Copynumber: 2.4 Consensus size: 23
1633392 ACAATCTGTC
1633402 CATCACCATTATCACGCCTATAT
1 CATCACCATTATCACGCCTATAT
1633425 CATCACCATTATCACGCCTATAT
1 CATCACCATTATCACGCCTATAT
1633448 CATCACCAT
1 CATCACCAT
1633457 ATTCCATCAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.31, C:0.36, G:0.04, T:0.29
Consensus pattern (23 bp):
CATCACCATTATCACGCCTATAT
Found at i:1633458 original size:11 final size:11
Alignment explanation
Indices: 1633402--1633473 Score: 58
Period size: 11 Copynumber: 6.2 Consensus size: 11
1633392 ACAATCTGTC
1633402 CATCACCATTAT
1 CATCACCA-TAT
*
1633414 CA-CGCCTATAT
1 CATCACC-ATAT
1633425 CATCACCATTAT
1 CATCACCA-TAT
*
1633437 CA-CGCCTATAT
1 CATCACC-ATAT
1633448 CATCACCATATT
1 CATCACCATA-T
1633460 CCATCACCATAT
1 -CATCACCATAT
1633472 CA
1 CA
1633474 CGCCTATATT
Statistics
Matches: 49, Mismatches: 4, Indels: 15
0.72 0.06 0.22
Matches are distributed among these distances:
11 22 0.45
12 17 0.35
13 10 0.20
ACGTcount: A:0.32, C:0.36, G:0.03, T:0.29
Consensus pattern (11 bp):
CATCACCATAT
Found at i:1638002 original size:33 final size:33
Alignment explanation
Indices: 1637960--1638028 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
1637950 GTTGATGAAT
*
1637960 GAAGGATGAT-TTAATGGTGATGAAATGGTAATG
1 GAAGGATGATGTTAATGGCG-TGAAATGGTAATG
* * *
1637993 GAAGGATGATGTTATTGGCGTGATATGGTGATG
1 GAAGGATGATGTTAATGGCGTGAAATGGTAATG
1638026 GAA
1 GAA
1638029 TATGGTGATG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 24 0.77
34 7 0.23
ACGTcount: A:0.32, C:0.01, G:0.36, T:0.30
Consensus pattern (33 bp):
GAAGGATGATGTTAATGGCGTGAAATGGTAATG
Found at i:1638033 original size:13 final size:12
Alignment explanation
Indices: 1638014--1638099 Score: 58
Period size: 13 Copynumber: 7.2 Consensus size: 12
1638004 TTATTGGCGT
1638014 GATATGGTGATG
1 GATATGGTGATG
1638026 GAATATGGTGAT-
1 G-ATATGGTGATG
*
1638038 GATATAGGCG-T-
1 GATAT-GGTGATG
1638049 GATAATGGTGATG
1 GAT-ATGGTGATG
1638062 GACTATGGTGAT-
1 GA-TATGGTGATG
*
1638074 GATATAGGCG-T-
1 GATAT-GGTGATG
1638085 GATAATGGTGATG
1 GAT-ATGGTGATG
1638098 GA
1 GA
1638100 CATATTGTAT
Statistics
Matches: 60, Mismatches: 4, Indels: 19
0.72 0.05 0.23
Matches are distributed among these distances:
11 21 0.35
12 16 0.27
13 22 0.37
14 1 0.02
ACGTcount: A:0.29, C:0.03, G:0.37, T:0.30
Consensus pattern (12 bp):
GATATGGTGATG
Found at i:1638069 original size:36 final size:36
Alignment explanation
Indices: 1637999--1638100 Score: 170
Period size: 36 Copynumber: 2.9 Consensus size: 36
1637989 AATGGAAGGA
* * *
1637999 TGATGTTATTGGCGTGAT-ATGGTGATGGAATATGG
1 TGATGATATAGGCGTGATAATGGTGATGGACTATGG
1638034 TGATGATATAGGCGTGATAATGGTGATGGACTATGG
1 TGATGATATAGGCGTGATAATGGTGATGGACTATGG
1638070 TGATGATATAGGCGTGATAATGGTGATGGAC
1 TGATGATATAGGCGTGATAATGGTGATGGAC
1638101 ATATTGTATC
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
35 16 0.25
36 47 0.75
ACGTcount: A:0.26, C:0.05, G:0.36, T:0.32
Consensus pattern (36 bp):
TGATGATATAGGCGTGATAATGGTGATGGACTATGG
Found at i:1642423 original size:33 final size:33
Alignment explanation
Indices: 1642381--1642449 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
1642371 GTTGATGAAT
*
1642381 GAAGGATGAT-TTAATGGTGATGAAATGGTAATG
1 GAAGGATGATGTTAATGGCG-TGAAATGGTAATG
* * *
1642414 GAAGGATGATGTTATTGGCGTGATATGGTGATG
1 GAAGGATGATGTTAATGGCGTGAAATGGTAATG
1642447 GAA
1 GAA
1642450 TATGGTGATG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 24 0.77
34 7 0.23
ACGTcount: A:0.32, C:0.01, G:0.36, T:0.30
Consensus pattern (33 bp):
GAAGGATGATGTTAATGGCGTGAAATGGTAATG
Found at i:1642454 original size:13 final size:12
Alignment explanation
Indices: 1642435--1642520 Score: 58
Period size: 13 Copynumber: 7.2 Consensus size: 12
1642425 TTATTGGCGT
1642435 GATATGGTGATG
1 GATATGGTGATG
1642447 GAATATGGTGAT-
1 G-ATATGGTGATG
*
1642459 GATATAGGCG-T-
1 GATAT-GGTGATG
1642470 GATAATGGTGATG
1 GAT-ATGGTGATG
1642483 GACTATGGTGAT-
1 GA-TATGGTGATG
*
1642495 GATATAGGCG-T-
1 GATAT-GGTGATG
1642506 GATAATGGTGATG
1 GAT-ATGGTGATG
1642519 GA
1 GA
1642521 CATATTGTAT
Statistics
Matches: 60, Mismatches: 4, Indels: 19
0.72 0.05 0.23
Matches are distributed among these distances:
11 21 0.35
12 16 0.27
13 22 0.37
14 1 0.02
ACGTcount: A:0.29, C:0.03, G:0.37, T:0.30
Consensus pattern (12 bp):
GATATGGTGATG
Found at i:1642490 original size:36 final size:36
Alignment explanation
Indices: 1642420--1642521 Score: 170
Period size: 36 Copynumber: 2.9 Consensus size: 36
1642410 AATGGAAGGA
* * *
1642420 TGATGTTATTGGCGTGAT-ATGGTGATGGAATATGG
1 TGATGATATAGGCGTGATAATGGTGATGGACTATGG
1642455 TGATGATATAGGCGTGATAATGGTGATGGACTATGG
1 TGATGATATAGGCGTGATAATGGTGATGGACTATGG
1642491 TGATGATATAGGCGTGATAATGGTGATGGAC
1 TGATGATATAGGCGTGATAATGGTGATGGAC
1642522 ATATTGTATC
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
35 16 0.25
36 47 0.75
ACGTcount: A:0.26, C:0.05, G:0.36, T:0.32
Consensus pattern (36 bp):
TGATGATATAGGCGTGATAATGGTGATGGACTATGG
Found at i:1646837 original size:33 final size:33
Alignment explanation
Indices: 1646795--1646863 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
1646785 GTTGATGAAT
*
1646795 GAAGGATGAT-TTAATGGTGATGAAATGGTAATG
1 GAAGGATGATGTTAATGGCG-TGAAATGGTAATG
* * *
1646828 GAAGGATGATGTTATTGGCGTGATATGGTGATG
1 GAAGGATGATGTTAATGGCGTGAAATGGTAATG
1646861 GAA
1 GAA
1646864 TATGGTGATG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 24 0.77
34 7 0.23
ACGTcount: A:0.32, C:0.01, G:0.36, T:0.30
Consensus pattern (33 bp):
GAAGGATGATGTTAATGGCGTGAAATGGTAATG
Found at i:1646868 original size:13 final size:12
Alignment explanation
Indices: 1646849--1646934 Score: 58
Period size: 13 Copynumber: 7.2 Consensus size: 12
1646839 TTATTGGCGT
1646849 GATATGGTGATG
1 GATATGGTGATG
1646861 GAATATGGTGAT-
1 G-ATATGGTGATG
*
1646873 GATATAGGCG-T-
1 GATAT-GGTGATG
1646884 GATAATGGTGATG
1 GAT-ATGGTGATG
1646897 GACTATGGTGAT-
1 GA-TATGGTGATG
*
1646909 GATATAGGCG-T-
1 GATAT-GGTGATG
1646920 GATAATGGTGATG
1 GAT-ATGGTGATG
1646933 GA
1 GA
1646935 CAGATTGTAT
Statistics
Matches: 60, Mismatches: 4, Indels: 19
0.72 0.05 0.23
Matches are distributed among these distances:
11 21 0.35
12 16 0.27
13 22 0.37
14 1 0.02
ACGTcount: A:0.29, C:0.03, G:0.37, T:0.30
Consensus pattern (12 bp):
GATATGGTGATG
Found at i:1646904 original size:36 final size:36
Alignment explanation
Indices: 1646834--1646935 Score: 170
Period size: 36 Copynumber: 2.9 Consensus size: 36
1646824 AATGGAAGGA
* * *
1646834 TGATGTTATTGGCGTGAT-ATGGTGATGGAATATGG
1 TGATGATATAGGCGTGATAATGGTGATGGACTATGG
1646869 TGATGATATAGGCGTGATAATGGTGATGGACTATGG
1 TGATGATATAGGCGTGATAATGGTGATGGACTATGG
1646905 TGATGATATAGGCGTGATAATGGTGATGGAC
1 TGATGATATAGGCGTGATAATGGTGATGGAC
1646936 AGATTGTATC
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
35 16 0.25
36 47 0.75
ACGTcount: A:0.26, C:0.05, G:0.36, T:0.32
Consensus pattern (36 bp):
TGATGATATAGGCGTGATAATGGTGATGGACTATGG
Found at i:1648831 original size:24 final size:21
Alignment explanation
Indices: 1648796--1648838 Score: 50
Period size: 23 Copynumber: 1.9 Consensus size: 21
1648786 GGTTCATTCT
*
1648796 TTTGAATTTCAAGAGGTACATCC
1 TTTGAATGTCAA-AGG-ACATCC
1648819 TTTGAAATGTCAAAGGACAT
1 TTTG-AATGTCAAAGGACAT
1648839 ATCTTGTGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 4 0.22
23 7 0.39
24 7 0.39
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.33
Consensus pattern (21 bp):
TTTGAATGTCAAAGGACATCC
Found at i:1650083 original size:24 final size:23
Alignment explanation
Indices: 1650055--1650114 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
1650045 ACTTTTATTT
*
1650055 CTTTCCTTTTCTTCTTTTCGAGTG
1 CTTTCATTTTCTTCTTTT-GAGTG
*
1650079 CTTTCAATTTCTTCTTTTGAGTG
1 CTTTCATTTTCTTCTTTTGAGTG
*
1650102 CTTTTATTTTCTT
1 CTTTCATTTTCTT
1650115 TGCTGATTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
23 16 0.50
24 16 0.50
ACGTcount: A:0.08, C:0.20, G:0.10, T:0.62
Consensus pattern (23 bp):
CTTTCATTTTCTTCTTTTGAGTG
Found at i:1652673 original size:19 final size:20
Alignment explanation
Indices: 1652649--1652691 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
1652639 AGCATTTATC
*
1652649 TTCATTAAAA-TTATGTATT
1 TTCATTAAAAGTCATGTATT
*
1652668 TTCATTAAAAGTCATGTGTT
1 TTCATTAAAAGTCATGTATT
1652688 TTCA
1 TTCA
1652692 AAGGGGTTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.33, C:0.09, G:0.09, T:0.49
Consensus pattern (20 bp):
TTCATTAAAAGTCATGTATT
Found at i:1653524 original size:18 final size:18
Alignment explanation
Indices: 1653501--1653535 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1653491 CAAAGCAACA
1653501 AAAAGAAAAAAAAAGAAG
1 AAAAGAAAAAAAAAGAAG
*
1653519 AAAAGAAAAGAAAAGAA
1 AAAAGAAAAAAAAAGAA
1653536 AAAGACTCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (18 bp):
AAAAGAAAAAAAAAGAAG
Done.