Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007923.1 Hibiscus syriacus cultivar Beakdansim tig00110328_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: 8415618
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 40
Found at i:1673321 original size:29 final size:29
Alignment explanation
Indices: 1673286--1673408 Score: 97
Period size: 29 Copynumber: 4.2 Consensus size: 29
1673276 CACTGAACTT
* *
1673286 TTTTAAAGCTTTC-ATTTAGGTCCCCCAAC
1 TTTTAAAACTTGCAATTTA-GTCCCCCAAC
*
1673315 TTTTAAAACTTGCAATTTAGTCTCCCAAC
1 TTTTAAAACTTGCAATTTAGTCCCCCAAC
* *** * *
1673344 ATTTAGTTCGTTTGTAATAT-GATCCCCCAAC
1 TTTTAAAAC--TTGCAATTTAG-TCCCCCAAC
*
1673375 TTTTAAAACTTGCAATTTAGTCTCCCAAC
1 TTTTAAAACTTGCAATTTAGTCCCCCAAC
*
1673404 ATTTA
1 TTTTA
1673409 GTTCGTTTGT
Statistics
Matches: 71, Mismatches: 18, Indels: 10
0.72 0.18 0.10
Matches are distributed among these distances:
29 44 0.62
30 7 0.10
31 20 0.28
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.39
Consensus pattern (29 bp):
TTTTAAAACTTGCAATTTAGTCCCCCAAC
Found at i:1673374 original size:60 final size:60
Alignment explanation
Indices: 1673306--1673434 Score: 249
Period size: 60 Copynumber: 2.1 Consensus size: 60
1673296 TTCATTTAGG
1673306 TCCCCCAACTTTTAAAACTTGCAATTTAGTCTCCCAACATTTAGTTCGTTTGTAATATGA
1 TCCCCCAACTTTTAAAACTTGCAATTTAGTCTCCCAACATTTAGTTCGTTTGTAATATGA
*
1673366 TCCCCCAACTTTTAAAACTTGCAATTTAGTCTCCCAACATTTAGTTCGTTTGTAATATGG
1 TCCCCCAACTTTTAAAACTTGCAATTTAGTCTCCCAACATTTAGTTCGTTTGTAATATGA
1673426 TCCCCCAAC
1 TCCCCCAAC
1673435 AGTTACGTCG
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
60 68 1.00
ACGTcount: A:0.27, C:0.26, G:0.10, T:0.36
Consensus pattern (60 bp):
TCCCCCAACTTTTAAAACTTGCAATTTAGTCTCCCAACATTTAGTTCGTTTGTAATATGA
Found at i:1673486 original size:31 final size:30
Alignment explanation
Indices: 1673444--1673521 Score: 102
Period size: 31 Copynumber: 2.5 Consensus size: 30
1673434 CAGTTACGTC
* **
1673444 GGGGACCATATTGCAAACTGACTAAATGTT
1 GGGGACTATATTGCAAACAAACTAAATGTT
1673474 GAGGGACTATATTGCAAACAAACTAAATGTT
1 G-GGGACTATATTGCAAACAAACTAAATGTT
*
1673505 GGGTGATTATATTGCAA
1 GGG-GACTATATTGCAA
1673522 GTTTTAAAAG
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
30 3 0.07
31 39 0.93
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.28
Consensus pattern (30 bp):
GGGGACTATATTGCAAACAAACTAAATGTT
Found at i:1676251 original size:19 final size:19
Alignment explanation
Indices: 1676234--1676282 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
1676224 TGAAAAGATT
1676234 TAATAAAATAAAATAGATAA
1 TAAT-AAATAAAATAGATAA
** *
1676254 TAATAAATAAAAGGGAAAA
1 TAATAAATAAAATAGATAA
1676273 TAATAAATAA
1 TAATAAATAA
1676283 TAGTAGTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 22 0.85
20 4 0.15
ACGTcount: A:0.69, C:0.00, G:0.08, T:0.22
Consensus pattern (19 bp):
TAATAAATAAAATAGATAA
Found at i:1676347 original size:17 final size:18
Alignment explanation
Indices: 1676311--1676352 Score: 68
Period size: 17 Copynumber: 2.4 Consensus size: 18
1676301 GTTATTTTTA
1676311 AAATAAAAGATAAGAATT
1 AAATAAAAGATAAGAATT
*
1676329 AAATAAAAGA-AATAATT
1 AAATAAAAGATAAGAATT
1676346 AAATAAA
1 AAATAAA
1676353 TAATTGAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 13 0.57
18 10 0.43
ACGTcount: A:0.71, C:0.00, G:0.07, T:0.21
Consensus pattern (18 bp):
AAATAAAAGATAAGAATT
Found at i:1677019 original size:70 final size:74
Alignment explanation
Indices: 1676944--1677130 Score: 231
Period size: 76 Copynumber: 2.6 Consensus size: 74
1676934 TAAAACATCT
* * *
1676944 TAAATCCTAATTAAAACACTTAAAACTATTTAAACTAAAATACCTAAAA-ATAG-T-AT-TTAAA
1 TAAATCCTAATTAAAATACTTAAAACTATTTAAACTAAAATACCTAAAACAAAGATAATATAAAA
*
1677005 ATAATATTC
66 ATAATATCC
* *
1677014 TAAATCCTATTTAAAATAC-TAAAACCTATTTAAACAAAAATACCTAAAACAAAGATAAAATATA
1 TAAATCCTAATTAAAATACTTAAAA-CTATTTAAACTAAAATACCTAAAACAAAGAT--AATATA
1677078 AAAATAATATCC
63 AAAATAATATCC
* * *
1677090 TAAAACTTAATTAAAATACTAAAAACTATTTAAACTAAAAT
1 TAAATCCTAATTAAAATACTTAAAACTATTTAAACTAAAAT
1677131 TAAAAGATAA
Statistics
Matches: 98, Mismatches: 11, Indels: 10
0.82 0.09 0.08
Matches are distributed among these distances:
69 5 0.05
70 40 0.41
71 3 0.03
72 1 0.01
75 2 0.02
76 43 0.44
77 4 0.04
ACGTcount: A:0.56, C:0.13, G:0.01, T:0.30
Consensus pattern (74 bp):
TAAATCCTAATTAAAATACTTAAAACTATTTAAACTAAAATACCTAAAACAAAGATAATATAAAA
ATAATATCC
Found at i:1677156 original size:76 final size:75
Alignment explanation
Indices: 1676944--1677168 Score: 221
Period size: 76 Copynumber: 3.1 Consensus size: 75
1676934 TAAAACATCT
* * * * *
1676944 TAAATCCTAATTAAAACACTTAAAACTATTTAAACTAAAA-T---ACCTAAAA-ATAGTATTTAA
1 TAAAACCTAATTAAAATACTAAAAACTATTTAAACTAAAATTAAAACATAAAATATAATATTTAA
*
1677004 AATAATATTC
66 AATAATATCC
* * * * * *
1677014 TAAATCCTATTTAAAATACTAAAACCTATTTAAACAAAAATACCTAAAACA-AAGATAAAATA-T
1 TAAAACCTAATTAAAATACTAAAAACTATTTAAACTAAAAT---TAAAACATAAAATATAATATT
*
1677077 AAAAATAATATCC
63 TAAAATAATATCC
* * *
1677090 TAAAACTTAATTAAAATACTAAAAACTATTTAAACTAAAATTAAAAGATAAAATATAATGTTTAA
1 TAAAACCTAATTAAAATACTAAAAACTATTTAAACTAAAATTAAAACATAAAATATAATATTTAA
*
1677155 AATATTATCC
66 AATAATATCC
1677165 TAAA
1 TAAA
1677169 CTTGAGTTTA
Statistics
Matches: 123, Mismatches: 22, Indels: 15
0.77 0.14 0.09
Matches are distributed among these distances:
70 35 0.28
73 6 0.05
74 9 0.07
75 16 0.13
76 51 0.41
77 6 0.05
ACGTcount: A:0.56, C:0.12, G:0.02, T:0.31
Consensus pattern (75 bp):
TAAAACCTAATTAAAATACTAAAAACTATTTAAACTAAAATTAAAACATAAAATATAATATTTAA
AATAATATCC
Found at i:1678510 original size:23 final size:23
Alignment explanation
Indices: 1678483--1678555 Score: 128
Period size: 23 Copynumber: 3.2 Consensus size: 23
1678473 TCTACCAGAC
*
1678483 AGTTGGAATGCAACTGTTACAGT
1 AGTTGGAATGCTACTGTTACAGT
1678506 AGTTGGAATGCTACTGTTACAGT
1 AGTTGGAATGCTACTGTTACAGT
*
1678529 AGTTGGAATGCTACTATTACAGT
1 AGTTGGAATGCTACTGTTACAGT
1678552 AGTT
1 AGTT
1678556 AGCAGCTCGT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 48 1.00
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.34
Consensus pattern (23 bp):
AGTTGGAATGCTACTGTTACAGT
Found at i:1694231 original size:9 final size:8
Alignment explanation
Indices: 1694211--1694243 Score: 57
Period size: 8 Copynumber: 4.0 Consensus size: 8
1694201 AAACAAGCAT
1694211 TTTTATTA
1 TTTTATTA
1694219 TTTTATTA
1 TTTTATTA
1694227 TTTTTATTA
1 -TTTTATTA
1694236 TTTTATTA
1 TTTTATTA
1694244 CTTGTGGATA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 16 0.67
9 8 0.33
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTTATTA
Found at i:1694231 original size:17 final size:17
Alignment explanation
Indices: 1694209--1694243 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
1694199 TAAAACAAGC
1694209 ATTTTTATTATTTTATT
1 ATTTTTATTATTTTATT
1694226 ATTTTTATTATTTTATT
1 ATTTTTATTATTTTATT
1694243 A
1 A
1694244 CTTGTGGATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (17 bp):
ATTTTTATTATTTTATT
Found at i:1695611 original size:17 final size:16
Alignment explanation
Indices: 1695580--1695613 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
1695570 CACGTGAGGA
1695580 TTATTTTCTTCTTATT
1 TTATTTTCTTCTTATT
*
1695596 TTATTTATCTTTTTATT
1 TTATTT-TCTTCTTATT
1695613 T
1 T
1695614 ACTGTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (16 bp):
TTATTTTCTTCTTATT
Found at i:1701986 original size:19 final size:21
Alignment explanation
Indices: 1701949--1701991 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
1701939 TAACTTTTTC
1701949 TTTTATCTTTCATTATTAA-T
1 TTTTATCTTTCATTATTAACT
*
1701969 TTTTCTCTTTCATT-TTAACT
1 TTTTATCTTTCATTATTAACT
1701989 TTT
1 TTT
1701992 ACCTTTTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.19, C:0.14, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTTATCTTTCATTATTAACT
Found at i:1701997 original size:19 final size:20
Alignment explanation
Indices: 1701948--1701997 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
1701938 TTAACTTTTT
*
1701948 CTTTTATCTTTCATTATTAA
1 CTTTTACCTTTCATTATTAA
*
1701968 -TTTTTCTCTTTCATT-TTAA
1 CTTTTAC-CTTTCATTATTAA
1701987 CTTTTACCTTT
1 CTTTTACCTTT
1701998 TTTCTTTCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
19 12 0.48
20 13 0.52
ACGTcount: A:0.18, C:0.18, G:0.00, T:0.64
Consensus pattern (20 bp):
CTTTTACCTTTCATTATTAA
Found at i:1705606 original size:17 final size:16
Alignment explanation
Indices: 1705575--1705608 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
1705565 CACGTGAGGA
1705575 TTATTTTCTTCTTATT
1 TTATTTTCTTCTTATT
*
1705591 TTATTTATCTTTTTATT
1 TTATTT-TCTTCTTATT
1705608 T
1 T
1705609 ACTGTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (16 bp):
TTATTTTCTTCTTATT
Found at i:1706046 original size:16 final size:15
Alignment explanation
Indices: 1706016--1706054 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 15
1706006 GGAGAGAATA
*
1706016 TTTCTTTTTATTTAT
1 TTTCTTTTTAATTAT
1706031 TTTCTTATTTAATTAT
1 TTTCTT-TTTAATTAT
1706047 TTTCTTTT
1 TTTCTTTT
1706055 ACTTTGCATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTCTTTTTAATTAT
Found at i:1715664 original size:20 final size:20
Alignment explanation
Indices: 1715639--1715677 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
1715629 AATCTTAGAT
1715639 GGGGTATCGGTACCCTCTAA
1 GGGGTATCGGTACCCTCTAA
1715659 GGGGTATCGGTACCCTCTA
1 GGGGTATCGGTACCCTCTA
1715678 GGCAATCTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.18, C:0.26, G:0.31, T:0.26
Consensus pattern (20 bp):
GGGGTATCGGTACCCTCTAA
Found at i:1718426 original size:22 final size:22
Alignment explanation
Indices: 1718366--1718420 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
1718356 TGCCCACTCA
1718366 AAGGGGGTATCAGTACCCGTGC
1 AAGGGGGTATCAGTACCCGTGC
1718388 AAGGGGGTATCAGTACCCGTGC
1 AAGGGGGTATCAGTACCCGTGC
1718410 AAGGGGGTATC
1 AAGGGGGTATC
1718421 GATACCTAGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.24, C:0.20, G:0.38, T:0.18
Consensus pattern (22 bp):
AAGGGGGTATCAGTACCCGTGC
Found at i:1721743 original size:22 final size:21
Alignment explanation
Indices: 1721701--1721740 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
1721691 AAGACTATTT
1721701 TCATTTTTCAATTTTGAAATA
1 TCATTTTTCAATTTTGAAATA
1721722 TCATTTTT-ATATTTTGAAA
1 TCATTTTTCA-ATTTTGAAA
1721741 ATAAAGTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (21 bp):
TCATTTTTCAATTTTGAAATA
Found at i:1723834 original size:24 final size:23
Alignment explanation
Indices: 1723807--1723851 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
1723797 AAGATATAGG
1723807 ATATG-ATATACATGATTATATGCA
1 ATATGTAT-TACATG-TTATATGCA
1723831 ATATGTATTACATGTTATATG
1 ATATGTATTACATGTTATATG
1723852 AAAATGACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 7 0.35
24 11 0.55
25 2 0.10
ACGTcount: A:0.38, C:0.07, G:0.13, T:0.42
Consensus pattern (23 bp):
ATATGTATTACATGTTATATGCA
Found at i:1732101 original size:8 final size:7
Alignment explanation
Indices: 1732084--1732123 Score: 55
Period size: 7 Copynumber: 5.7 Consensus size: 7
1732074 TTTATTTCTA
1732084 TTTTT-T
1 TTTTTGT
*
1732090 TTTTGGT
1 TTTTTGT
1732097 TTTTTGT
1 TTTTTGT
1732104 TTTTTGTT
1 TTTTTG-T
1732112 TTTTTGT
1 TTTTTGT
1732119 TTTTT
1 TTTTT
1732124 TATTCTTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
6 4 0.13
7 19 0.63
8 7 0.23
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (7 bp):
TTTTTGT
Found at i:1732106 original size:15 final size:15
Alignment explanation
Indices: 1732084--1732123 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
1732074 TTTATTTCTA
1732084 TTTT-TTTTTTGGTT
1 TTTTGTTTTTTGGTT
*
1732098 TTTTGTTTTTTGTTT
1 TTTTGTTTTTTGGTT
1732113 TTTTGTTTTTT
1 TTTTGTTTTTT
1732124 TATTCTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 4 0.17
15 20 0.83
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (15 bp):
TTTTGTTTTTTGGTT
Found at i:1732124 original size:8 final size:8
Alignment explanation
Indices: 1732087--1732124 Score: 60
Period size: 8 Copynumber: 4.9 Consensus size: 8
1732077 ATTTCTATTT
1732087 TTTTTTTG
1 TTTTTTTG
*
1732095 GTTTTTTG
1 TTTTTTTG
1732103 -TTTTTTG
1 TTTTTTTG
1732110 TTTTTTTG
1 TTTTTTTG
1732118 TTTTTTT
1 TTTTTTT
1732125 ATTCTTTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
7 7 0.25
8 21 0.75
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (8 bp):
TTTTTTTG
Found at i:1732236 original size:18 final size:19
Alignment explanation
Indices: 1732185--1732236 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 19
1732175 TTTTTTTAAT
*
1732185 TTTATATTAATATTTTTATA
1 TTTAT-TTAATATTTTCATA
* *
1732205 TTTATTT-TTGTTTTCATA
1 TTTATTTAATATTTTCATA
1732223 TTTATTTAAT-TTTT
1 TTTATTTAATATTTT
1732237 TTCTTTTGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
18 19 0.70
19 3 0.11
20 5 0.19
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (19 bp):
TTTATTTAATATTTTCATA
Found at i:1732243 original size:25 final size:25
Alignment explanation
Indices: 1732194--1732278 Score: 73
Period size: 25 Copynumber: 3.3 Consensus size: 25
1732184 TTTTATATTA
*
1732194 ATATTTTTATATTTATTTTTGTTTTCAT
1 ATATTTTTA-A-TT-TTTTTCTTTTCAT
*
1732222 AT-TTATTTAATTTTTTTCTTTTGAT
1 ATATT-TTTAATTTTTTTCTTTTCAT
** *
1732247 ATATTTTTGTTTTTTTTCTTTTGAT
1 ATATTTTTAATTTTTTTCTTTTCAT
*
1732272 TTATTTT
1 ATATTTT
1732279 ATTATTATTA
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
25 37 0.74
26 4 0.08
27 3 0.06
28 6 0.12
ACGTcount: A:0.18, C:0.04, G:0.05, T:0.74
Consensus pattern (25 bp):
ATATTTTTAATTTTTTTCTTTTCAT
Found at i:1732285 original size:3 final size:3
Alignment explanation
Indices: 1732272--1732311 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
1732262 TTCTTTTGAT
1732272 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1732312 TCCCTTTTCC
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:1733941 original size:18 final size:18
Alignment explanation
Indices: 1733918--1734046 Score: 159
Period size: 18 Copynumber: 6.9 Consensus size: 18
1733908 ACTGAATATT
*
1733918 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGAACCACTA
1733936 TGTCCCGAAGAACCACTGA
1 TGTCCCGAAGAACCACT-A
**
1733955 TTGTTACGAAGAACCACTA
1 -TGTCCCGAAGAACCACTA
*
1733974 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGAACCACTA
1733992 TGTCCCGAAGAACCACTGA
1 TGTCCCGAAGAACCACT-A
**
1734011 TTGTTACGAAGAACCACTA
1 -TGTCCCGAAGAACCACTA
*
1734030 TGTCCCGAAGGACCACT
1 TGTCCCGAAGAACCACT
1734047 GATAATCCCT
Statistics
Matches: 95, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
18 61 0.64
19 4 0.04
20 30 0.32
ACGTcount: A:0.31, C:0.29, G:0.20, T:0.19
Consensus pattern (18 bp):
TGTCCCGAAGAACCACTA
Found at i:1734004 original size:56 final size:56
Alignment explanation
Indices: 1733918--1734046 Score: 258
Period size: 56 Copynumber: 2.3 Consensus size: 56
1733908 ACTGAATATT
1733918 TGTCCCGAAGGACCACTATGTCCCGAAGAACCACTGATTGTTACGAAGAACCACTA
1 TGTCCCGAAGGACCACTATGTCCCGAAGAACCACTGATTGTTACGAAGAACCACTA
1733974 TGTCCCGAAGGACCACTATGTCCCGAAGAACCACTGATTGTTACGAAGAACCACTA
1 TGTCCCGAAGGACCACTATGTCCCGAAGAACCACTGATTGTTACGAAGAACCACTA
1734030 TGTCCCGAAGGACCACT
1 TGTCCCGAAGGACCACT
1734047 GATAATCCCT
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 73 1.00
ACGTcount: A:0.31, C:0.29, G:0.20, T:0.19
Consensus pattern (56 bp):
TGTCCCGAAGGACCACTATGTCCCGAAGAACCACTGATTGTTACGAAGAACCACTA
Found at i:1734049 original size:38 final size:36
Alignment explanation
Indices: 1733918--1734046 Score: 159
Period size: 38 Copynumber: 3.5 Consensus size: 36
1733908 ACTGAATATT
*
1733918 TGTCCCGAAGGACCACTATGTCCCGAAGAACCACTGA
1 TGTCCCGAAGAACCACTATGTCCCGAAGAACCACT-A
** *
1733955 TTGTTACGAAGAACCACTATGTCCCGAAGGACCACTA
1 -TGTCCCGAAGAACCACTATGTCCCGAAGAACCACTA
**
1733992 TGTCCCGAAGAACCACTGATTGTTACGAAGAACCACTA
1 TGTCCCGAAGAACCACT-A-TGTCCCGAAGAACCACTA
*
1734030 TGTCCCGAAGGACCACT
1 TGTCCCGAAGAACCACT
1734047 GATAATCCCT
Statistics
Matches: 79, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
36 15 0.19
37 2 0.03
38 62 0.78
ACGTcount: A:0.31, C:0.29, G:0.20, T:0.19
Consensus pattern (36 bp):
TGTCCCGAAGAACCACTATGTCCCGAAGAACCACTA
Found at i:1740844 original size:20 final size:20
Alignment explanation
Indices: 1740821--1740873 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 20
1740811 ATATTTGTCC
* *
1740821 CGAAGGACCACTGATTGTTA
1 CGAAGGACCACTGATTATCA
* *
1740841 CGAAGAACCACT-A-TATCC
1 CGAAGGACCACTGATTATCA
1740859 CGAAGGACCACTGAT
1 CGAAGGACCACTGAT
1740874 AATCCCTCGA
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
18 13 0.50
19 2 0.08
20 11 0.42
ACGTcount: A:0.34, C:0.26, G:0.21, T:0.19
Consensus pattern (20 bp):
CGAAGGACCACTGATTATCA
Found at i:1740868 original size:18 final size:20
Alignment explanation
Indices: 1740818--1740879 Score: 65
Period size: 20 Copynumber: 3.2 Consensus size: 20
1740808 TGAATATTTG
*
1740818 TCCCGAAGGACCACTGATTG
1 TCCCGAAGGACCACTGATTA
** *
1740838 TTACGAAGAACCACT-A-TA
1 TCCCGAAGGACCACTGATTA
*
1740856 TCCCGAAGGACCACTGATAA
1 TCCCGAAGGACCACTGATTA
1740876 TCCC
1 TCCC
1740880 TCGACTCTTG
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
18 13 0.41
19 2 0.06
20 17 0.53
ACGTcount: A:0.32, C:0.31, G:0.18, T:0.19
Consensus pattern (20 bp):
TCCCGAAGGACCACTGATTA
Found at i:1745328 original size:99 final size:99
Alignment explanation
Indices: 1745207--1745409 Score: 293
Period size: 99 Copynumber: 2.1 Consensus size: 99
1745197 CTATACCCAT
* * * *
1745207 ATTATTATATATATACAATAAAGCTTGAAATGTCCTTCT-AGAACAATTGGTTAAACGCCCCGGC
1 ATTATAATATATATACAATAAAGCTTGAAATGTCCCTCTAAG-ACAATTGGTTAAACACCACGGC
*
1745271 TTTATAGATAAGATTCAGCTAGCCTGATAAAGGTG
65 TTTATAGATAAGATTCAGCTAACCTGATAAAGGTG
* ** *
1745306 ATTATAATATCTATACAATAAAGCTTGAGTTGTCCCTCTAAGGCAATTGGTTAAACACCACGGCT
1 ATTATAATATATATACAATAAAGCTTGAAATGTCCCTCTAAGACAATTGGTTAAACACCACGGCT
*
1745371 TTATGGATAAGATTCAGCTAACCTGATAAAGGTG
66 TTATAGATAAGATTCAGCTAACCTGATAAAGGTG
1745405 -TTATA
1 ATTATA
1745410 TATTGAGATG
Statistics
Matches: 93, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
98 5 0.05
99 86 0.92
100 2 0.02
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.32
Consensus pattern (99 bp):
ATTATAATATATATACAATAAAGCTTGAAATGTCCCTCTAAGACAATTGGTTAAACACCACGGCT
TTATAGATAAGATTCAGCTAACCTGATAAAGGTG
Found at i:1747084 original size:155 final size:154
Alignment explanation
Indices: 1746759--1747064 Score: 461
Period size: 155 Copynumber: 2.0 Consensus size: 154
1746749 AAAAGCTATT
* * * *
1746759 TGTCAACAAATAACTTT-TCAATTTCATTCAGAGTCAATTTCAACTTCACAACGAAGGATATTGG
1 TGTCAACAAACAACTTTCT-AGTTTCATTCAGAGTCAATTTCAACTTCACAACAAAAGATATTGG
* * * *
1746823 ACTCGATACAACACAACTTCATAAGATTAGATTTCAACTTCACAACGAATGATATCTAATTCAAA
65 ACTCGAAACAACACAACTTCACAAGATTAGATTTCAACTTCACAACGAAGGATATCCAATTCAAA
*
1746888 GCTCAACTTTACAGCGAATGAGCGTC
130 GCTCAACTTCACAGCGAATGA-CGTC
*
1746914 TGTCAACAAACAACTTTCTAGTTTCATTCAGAGTCAATTTCAACTTCACAGCAAAAGATATTGGA
1 TGTCAACAAACAACTTTCTAGTTTCATTCAGAGTCAATTTCAACTTCACAACAAAAGATATTGGA
* * *
1746979 CTTGAAACAACGCAACTTACACAAGATTGGATTTCAACTTCACAACGAAGGATATCCAATTCAAA
66 CTCGAAACAACACAACTT-CACAAGATTAGATTTCAACTTCACAACGAAGGATATCCAATTCAAA
1747044 GCTCAACTTCACAGCGAATGA
130 GCTCAACTTCACAGCGAATGA
1747065 TTCATTCACG
Statistics
Matches: 136, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
155 73 0.54
156 63 0.46
ACGTcount: A:0.38, C:0.22, G:0.13, T:0.27
Consensus pattern (154 bp):
TGTCAACAAACAACTTTCTAGTTTCATTCAGAGTCAATTTCAACTTCACAACAAAAGATATTGGA
CTCGAAACAACACAACTTCACAAGATTAGATTTCAACTTCACAACGAAGGATATCCAATTCAAAG
CTCAACTTCACAGCGAATGACGTC
Found at i:1747339 original size:86 final size:85
Alignment explanation
Indices: 1747180--1747493 Score: 414
Period size: 86 Copynumber: 3.8 Consensus size: 85
1747170 CCTATCACAG
*
1747180 CATAACTCAAGGCAAGAAGGGTTATCTGTCAA-TAAAGACCATT-GAGTTCGATTACATTCAGCT
1 CATAACTCAAGGCAAGAAGGGTTATCTGTCAACAAAAGA-C-TTCGAGTTCGATTACATTCAGCT
1747243 CAAGGACATATCAAATTTACAA
64 CAAGGACATATCAAATTTACAA
* *
1747265 CATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTC
1 CATAACTCAAGGCAAGAAGGGTTATCTGTCAACAAAAGA-CTTCGAGTTCGATTACATTCAGCTC
* *
1747330 AAAGG-CATATCAAATCTACAT
65 -AAGGACATATCAAATTTACAA
*
1747351 CATAACTCAAGGCGAGAAGGGTTATCTGTCAAC-AAAGAC--C---TTCGATTACATTCAGCTCA
1 CATAACTCAAGGCAAGAAGGGTTATCTGTCAACAAAAGACTTCGAGTTCGATTACATTCAGCTCA
* *
1747410 AGGACATATCAAACTTACAG
66 AGGACATATCAAATTTACAA
* * *
1747430 TATAACTCAAGGCAAGAAGGGTTATCTGTCAATAAAA-ACTGTCGAGTTCGATTCCATTCAGCTC
1 CATAACTCAAGGCAAGAAGGGTTATCTGTCAACAAAAGACT-TCGAGTTCGATTACATTCAGCTC
1747494 GATGACGTAT
Statistics
Matches: 205, Mismatches: 13, Indels: 22
0.85 0.05 0.09
Matches are distributed among these distances:
78 4 0.02
79 62 0.30
80 3 0.01
82 2 0.01
84 1 0.00
85 55 0.27
86 74 0.36
87 4 0.02
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.25
Consensus pattern (85 bp):
CATAACTCAAGGCAAGAAGGGTTATCTGTCAACAAAAGACTTCGAGTTCGATTACATTCAGCTCA
AGGACATATCAAATTTACAA
Found at i:1747458 original size:165 final size:165
Alignment explanation
Indices: 1747180--1747493 Score: 470
Period size: 165 Copynumber: 1.9 Consensus size: 165
1747170 CCTATCACAG
*
1747180 CATAACTCAAGGCAAGAAGGGTTATCTGTCAATAAAGACCATTGAGTTCGATTACATTCAGCTCA
1 CATAACTCAAGGCAAGAAGGGTTATCTGTCAACAAAGACC----A-TTCGATTACATTCAGCTCA
* *
1747245 AGGACATATCAAATTTACAACATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAAGACCT-TC
61 AGGACATATCAAACTTACAACATAACTCAAGGCAAGAAGGGTTATCTGTCAACAAAA-A-CTGTC
1747309 GAGTTCGATTACACTCAGCTCAAAGGCATATCAAATCTACAT
124 GAGTTCGATTACACTCAGCTCAAAGGCATATCAAATCTACAT
*
1747351 CATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACC-TTCGATTACATTCAGCTCAAGGAC
1 CATAACTCAAGGCAAGAAGGGTTATCTGTCAACAAAGACCATTCGATTACATTCAGCTCAAGGAC
** *
1747415 ATATCAAACTTACAGTATAACTCAAGGCAAGAAGGGTTATCTGTCAATAAAAACTGTCGAGTTCG
66 ATATCAAACTTACAACATAACTCAAGGCAAGAAGGGTTATCTGTCAACAAAAACTGTCGAGTTCG
* *
1747480 ATTCCATTCAGCTC
131 ATTACACTCAGCTC
1747494 GATGACGTAT
Statistics
Matches: 133, Mismatches: 9, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
163 2 0.02
164 22 0.17
165 71 0.53
171 38 0.29
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.25
Consensus pattern (165 bp):
CATAACTCAAGGCAAGAAGGGTTATCTGTCAACAAAGACCATTCGATTACATTCAGCTCAAGGAC
ATATCAAACTTACAACATAACTCAAGGCAAGAAGGGTTATCTGTCAACAAAAACTGTCGAGTTCG
ATTACACTCAGCTCAAAGGCATATCAAATCTACAT
Found at i:1748102 original size:2 final size:2
Alignment explanation
Indices: 1748095--1748144 Score: 84
Period size: 2 Copynumber: 25.0 Consensus size: 2
1748085 TATAGCATAA
1748095 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT CA-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT
1748137 AT AT AT AT
1 AT AT AT AT
1748145 TATTACATAT
Statistics
Matches: 46, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
1 1 0.02
2 44 0.96
3 1 0.02
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1750257 original size:32 final size:32
Alignment explanation
Indices: 1750228--1750341 Score: 162
Period size: 32 Copynumber: 3.6 Consensus size: 32
1750218 TACGTCTTTT
* *
1750228 GGGACATATGGATAGGATTACCTATG-TCTTTC
1 GGGACATATGGACAGTATTACCTATGTTC-TTC
*
1750260 GGGACATATGAACAGTATTACCTATGTTCTTC
1 GGGACATATGGACAGTATTACCTATGTTCTTC
1750292 GGGACATATGGACA-TATTACCTATGTTCTTC
1 GGGACATATGGACAGTATTACCTATGTTCTTC
*
1750323 GGGATATATGGACAG-ATTA
1 GGGACATATGGACAGTATTA
1750342 TTATACGAGC
Statistics
Matches: 75, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
31 34 0.45
32 39 0.52
33 2 0.03
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (32 bp):
GGGACATATGGACAGTATTACCTATGTTCTTC
Found at i:1751707 original size:11 final size:11
Alignment explanation
Indices: 1751687--1751721 Score: 61
Period size: 11 Copynumber: 3.1 Consensus size: 11
1751677 TTTATTATTA
1751687 TTTTATTTTGTT
1 TTTTA-TTTGTT
1751699 TTTTATTTGTT
1 TTTTATTTGTT
1751710 TTTTATTTGTT
1 TTTTATTTGTT
1751721 T
1 T
1751722 ATGTTTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 18 0.78
12 5 0.22
ACGTcount: A:0.09, C:0.00, G:0.09, T:0.83
Consensus pattern (11 bp):
TTTTATTTGTT
Found at i:1751839 original size:27 final size:25
Alignment explanation
Indices: 1751789--1751858 Score: 86
Period size: 27 Copynumber: 2.7 Consensus size: 25
1751779 TGTTAAATTA
* *
1751789 ATATTTTTTATTTATTTTTGTTTTC
1 ATATTTTTTATTTTTTTTTCTTTTC
*
1751814 ATATTTATTTAATTTTTTTTTCTTTTG
1 ATATTT-TTT-ATTTTTTTTTCTTTTC
1751841 ATATATTTTTATTTTTTT
1 ATAT-TTTTTATTTTTTT
1751859 CTTTTGATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
25 6 0.15
26 11 0.28
27 20 0.51
28 2 0.05
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.76
Consensus pattern (25 bp):
ATATTTTTTATTTTTTTTTCTTTTC
Found at i:1751888 original size:38 final size:35
Alignment explanation
Indices: 1751844--1751928 Score: 89
Period size: 38 Copynumber: 2.3 Consensus size: 35
1751834 TCTTTTGATA
* *
1751844 TATTTTTATTTTTTTCTTTTGATTTATTTGATATATT
1 TATTTTTATTTTTTCCCTTTGATTTATTT-A-ATATT
***
1751881 TGATTTTTCCATTTTCCCTTTGATTTATTTAATATT
1 T-ATTTTTATTTTTTCCCTTTGATTTATTTAATATT
1751917 TATTTGTTATTT
1 TATTT-TTATTT
1751929 GTTATCTAAC
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
35 4 0.11
36 9 0.24
37 2 0.05
38 23 0.61
ACGTcount: A:0.19, C:0.07, G:0.06, T:0.68
Consensus pattern (35 bp):
TATTTTTATTTTTTCCCTTTGATTTATTTAATATT
Found at i:1757156 original size:24 final size:23
Alignment explanation
Indices: 1757113--1757157 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
1757103 TCCCCAATAA
* *
1757113 CTTCTCCCATAACACTAGCCATC
1 CTTCTCCCAAAACACGAGCCATC
1757136 CTTCTCGCCAAAACACGAGCCA
1 CTTCTC-CCAAAACACGAGCCA
1757158 CAATCTTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.29, C:0.42, G:0.09, T:0.20
Consensus pattern (23 bp):
CTTCTCCCAAAACACGAGCCATC
Found at i:1764081 original size:26 final size:26
Alignment explanation
Indices: 1764050--1764111 Score: 115
Period size: 26 Copynumber: 2.4 Consensus size: 26
1764040 TCAATGTTTT
1764050 TCCATTCATTTCAAAGCTTGAGGATA
1 TCCATTCATTTCAAAGCTTGAGGATA
*
1764076 TCCATTCAGTTCAAAGCTTGAGGATA
1 TCCATTCATTTCAAAGCTTGAGGATA
1764102 TCCATTCATT
1 TCCATTCATT
1764112 CCTGGCTTGG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (26 bp):
TCCATTCATTTCAAAGCTTGAGGATA
Found at i:1768346 original size:31 final size:32
Alignment explanation
Indices: 1768285--1768361 Score: 102
Period size: 31 Copynumber: 2.4 Consensus size: 32
1768275 TGGGGCTATG
*
1768285 GGGCCTACCTAAGAACACATCTTAGGGCCGCA
1 GGGCCTACCTAAGAACACATCTCAGGGCCGCA
* **
1768317 GGGCCTACCTGAGAA-TGATCTCAGGGCCGCA
1 GGGCCTACCTAAGAACACATCTCAGGGCCGCA
*
1768348 GAGCCTACCTAAGA
1 GGGCCTACCTAAGA
1768362 GTCACATTAG
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
31 25 0.64
32 14 0.36
ACGTcount: A:0.27, C:0.30, G:0.27, T:0.16
Consensus pattern (32 bp):
GGGCCTACCTAAGAACACATCTCAGGGCCGCA
Found at i:1769744 original size:25 final size:26
Alignment explanation
Indices: 1769667--1769726 Score: 120
Period size: 26 Copynumber: 2.3 Consensus size: 26
1769657 TCAATGTTTT
1769667 TCCATTCAGTTCAAAGCTTGAGGATA
1 TCCATTCAGTTCAAAGCTTGAGGATA
1769693 TCCATTCAGTTCAAAGCTTGAGGATA
1 TCCATTCAGTTCAAAGCTTGAGGATA
1769719 TCCATTCA
1 TCCATTCA
1769727 TTCCTGGCTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.32
Consensus pattern (26 bp):
TCCATTCAGTTCAAAGCTTGAGGATA
Found at i:1772902 original size:174 final size:173
Alignment explanation
Indices: 1772590--1772937 Score: 646
Period size: 174 Copynumber: 2.0 Consensus size: 173
1772580 TTATCAAAAC
1772590 TTTTCCTCATTTCAATAAAGAATCCGAACAAAATTTTCTTGAAAGATCAATTCAGTCTTGGTCAC
1 TTTTCCTCATTTCAATAAAGAATCCGAACAAAATTTTCTTGAAAGATCAATTCAGTCTTGGTCAC
1772655 CAGAATAGTCTCATAGAGCATAGCATATCTCAATTCCATTTCTAGGGTCGGGTCATAATTTCTCA
66 CAGAATAGTCTCATAGAGCATAGCATATCTCAATTCCATTTCTAGGGTCGGGTCATAATTTCTCA
1772720 GAAGAGTAACTCT-CATGGCTCGTGTAGTATTTTACAAAATTT
131 GAAGAGTAACTCTACATGGCTCGTGTAGTATTTTACAAAATTT
1772762 TTTTCCTCATTTCAATAAAGAATCCGAACAAAAATTTTCTTG-AAGAATCAATTCAGTCTTGGTC
1 TTTTCCTCATTTCAATAAAGAATCCGAAC-AAAATTTTCTTGAAAG-ATCAATTCAGTCTTGGTC
1772826 ACCAGAATAGTCTCATAGAGCAGTAGCATATCTCAATTCCATTTCTAGGGTCGGGTCATAATTTC
64 ACCAGAATAGTCTCATAGAGCA-TAGCATATCTCAATTCCATTTCTAGGGTCGGGTCATAATTTC
1772891 TCAGAAGAGTAACTCTCACATGGCTCGTGTAGTATTTTACAAAATTT
128 TCAGAAGAGTAACTCT-ACATGGCTCGTGTAGTATTTTACAAAATTT
1772938 AGACAGATGT
Statistics
Matches: 171, Mismatches: 0, Indels: 6
0.97 0.00 0.03
Matches are distributed among these distances:
172 32 0.19
173 52 0.30
174 58 0.34
176 29 0.17
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Consensus pattern (173 bp):
TTTTCCTCATTTCAATAAAGAATCCGAACAAAATTTTCTTGAAAGATCAATTCAGTCTTGGTCAC
CAGAATAGTCTCATAGAGCATAGCATATCTCAATTCCATTTCTAGGGTCGGGTCATAATTTCTCA
GAAGAGTAACTCTACATGGCTCGTGTAGTATTTTACAAAATTT
Found at i:1775145 original size:26 final size:26
Alignment explanation
Indices: 1775109--1775166 Score: 116
Period size: 26 Copynumber: 2.2 Consensus size: 26
1775099 AATGTTTTTT
1775109 CATTCAGTTCAAAGCTTGAGGATATC
1 CATTCAGTTCAAAGCTTGAGGATATC
1775135 CATTCAGTTCAAAGCTTGAGGATATC
1 CATTCAGTTCAAAGCTTGAGGATATC
1775161 CATTCA
1 CATTCA
1775167 TTCCTGGATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (26 bp):
CATTCAGTTCAAAGCTTGAGGATATC
Found at i:1780806 original size:26 final size:26
Alignment explanation
Indices: 1780770--1780827 Score: 116
Period size: 26 Copynumber: 2.2 Consensus size: 26
1780760 AATGTTTTTT
1780770 CATTCAGTTCAAAGCTTGAGGATATC
1 CATTCAGTTCAAAGCTTGAGGATATC
1780796 CATTCAGTTCAAAGCTTGAGGATATC
1 CATTCAGTTCAAAGCTTGAGGATATC
1780822 CATTCA
1 CATTCA
1780828 TTCCTGGATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (26 bp):
CATTCAGTTCAAAGCTTGAGGATATC
Found at i:1783646 original size:19 final size:19
Alignment explanation
Indices: 1783613--1783649 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1783603 ATGACCAACA
*
1783613 AAATCGCAATACGATCTCT
1 AAATCGCAACACGATCTCT
*
1783632 AAATCGCAACGCGATCTC
1 AAATCGCAACACGATCTC
1783650 CAGTATCGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.30, G:0.14, T:0.22
Consensus pattern (19 bp):
AAATCGCAACACGATCTCT
Found at i:1783766 original size:19 final size:21
Alignment explanation
Indices: 1783722--1783768 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
1783712 ACTATCGTAA
* *
1783722 TGCGATAGTCCAAATTTGCGT
1 TGCGATAGTCCAAATATGCAT
1783743 TGCGATAGTCCAAA-AT-CAT
1 TGCGATAGTCCAAATATGCAT
1783762 TGCGATA
1 TGCGATA
1783769 ACACTGTTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 9 0.38
20 1 0.04
21 14 0.58
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (21 bp):
TGCGATAGTCCAAATATGCAT
Found at i:1783811 original size:21 final size:21
Alignment explanation
Indices: 1783761--1783988 Score: 195
Period size: 21 Copynumber: 10.9 Consensus size: 21
1783751 TCCAAAATCA
*
1783761 TTGCGATAACACTGTTCACCG
1 TTGCGATAGCACTGTTCACCG
1783782 TTGCGATAGCACTGTTCACCG
1 TTGCGATAGCACTGTTCACCG
* **
1783803 TTTCGATAGTC-CAAATTCA-CG
1 TTGCGATAG-CAC-TGTTCACCG
*
1783824 TTGCGATAGTC-C-GAATTC-GCG
1 TTGCGATAG-CACTG--TTCACCG
****
1783845 TTGCGATAGTCCAAAAATCA---
1 TTGCGATAG--CACTGTTCACCG
1783865 TTGCGATAGCACTGTTCACCG
1 TTGCGATAGCACTGTTCACCG
1783886 TTGCGATAGCACTGTTCACCG
1 TTGCGATAGCACTGTTCACCG
* *
1783907 TTGCGATAACACTGTTTCA-CA
1 TTGCGATAGCACTG-TTCACCG
1783928 TTGCGATAGCACTGTTCACCG
1 TTGCGATAGCACTGTTCACCG
* **
1783949 TTGCGATAACACTGTTCACAA
1 TTGCGATAGCACTGTTCACCG
1783970 TTGCGATAGCACTGTTCAC
1 TTGCGATAGCACTGTTCAC
1783989 ATTACGAATT
Statistics
Matches: 171, Mismatches: 22, Indels: 28
0.77 0.10 0.13
Matches are distributed among these distances:
18 5 0.03
20 13 0.08
21 141 0.82
22 12 0.07
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (21 bp):
TTGCGATAGCACTGTTCACCG
Found at i:1783901 original size:104 final size:103
Alignment explanation
Indices: 1783722--1783914 Score: 341
Period size: 104 Copynumber: 1.9 Consensus size: 103
1783712 ACTATCGTAA
*
1783722 TGCGATAGTCCAAATTTGCGTTGCGATAGTCCAAAATCATTGCGATAACACTGTTCACCGTTGCG
1 TGCGATAGTCCAAATTCGCGTTGCGATAGTCCAAAATCATTGCGATAACACTGTTCACCGTTGCG
*
1783787 ATAGCACTGTTCACCGTTTCGATAGTCCAAATTCACGT
66 ATAGCACTGTTCACCGTTGCGATAGTCCAAATTCACGT
* *
1783825 TGCGATAGTCCGAATTCGCGTTGCGATAGTCCAAAAATCATTGCGATAGCACTGTTCACCGTTGC
1 TGCGATAGTCCAAATTCGCGTTGCGATAGTCC-AAAATCATTGCGATAACACTGTTCACCGTTGC
1783890 GATAGCACTGTTCACCGTTGCGATA
65 GATAGCACTGTTCACCGTTGCGATA
1783915 ACACTGTTTC
Statistics
Matches: 85, Mismatches: 4, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
103 30 0.35
104 55 0.65
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.29
Consensus pattern (103 bp):
TGCGATAGTCCAAATTCGCGTTGCGATAGTCCAAAATCATTGCGATAACACTGTTCACCGTTGCG
ATAGCACTGTTCACCGTTGCGATAGTCCAAATTCACGT
Found at i:1783926 original size:104 final size:103
Alignment explanation
Indices: 1783722--1783936 Score: 324
Period size: 104 Copynumber: 2.1 Consensus size: 103
1783712 ACTATCGTAA
*
1783722 TGCGATAGTCCAAATTTGCGTTGCGATAGTCCAAAATCATTGCGATAACACTGTTCACCGTTGCG
1 TGCGATAGTCCAAATTCGCGTTGCGATAGTCCAAAATCATTGCGATAACACTGTTCACCGTTGCG
* * *
1783787 ATAGCACTGTTCACCGTTTCGATAGTCCAAATTCACGT
66 ATAGCACTGTTCACCGTTGCGATAGACCAAATTCACAT
* *
1783825 TGCGATAGTCCGAATTCGCGTTGCGATAGTCCAAAAATCATTGCGATAGCACTGTTCACCGTTGC
1 TGCGATAGTCCAAATTCGCGTTGCGATAGTCC-AAAATCATTGCGATAACACTGTTCACCGTTGC
***
1783890 GATAGCACTGTTCACCGTTGCGATA-ACACTGTTTCACAT
65 GATAGCACTGTTCACCGTTGCGATAGAC-CAAATTCACAT
1783929 TGCGATAG
1 TGCGATAG
1783937 CACTGTTCAC
Statistics
Matches: 101, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
103 31 0.31
104 70 0.69
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (103 bp):
TGCGATAGTCCAAATTCGCGTTGCGATAGTCCAAAATCATTGCGATAACACTGTTCACCGTTGCG
ATAGCACTGTTCACCGTTGCGATAGACCAAATTCACAT
Found at i:1784181 original size:22 final size:22
Alignment explanation
Indices: 1784136--1784181 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
1784126 AAAATTTACA
*
1784136 AAAACAAGATAAAAATTTGTAC
1 AAAACAAGATAAAAATTTGAAC
*
1784158 AAAATAAGAT-AAAATCTTGAAC
1 AAAACAAGATAAAAAT-TTGAAC
1784180 AA
1 AA
1784182 TTTTTGTAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.61, C:0.09, G:0.09, T:0.22
Consensus pattern (22 bp):
AAAACAAGATAAAAATTTGAAC
Found at i:1784471 original size:16 final size:17
Alignment explanation
Indices: 1784442--1784493 Score: 63
Period size: 16 Copynumber: 3.1 Consensus size: 17
1784432 ATCATAAATA
*
1784442 ATTTAGAATTTATATTT
1 ATTTAAAATTTATATTT
*
1784459 ATTT-AATTTTATA-TT
1 ATTTAAAATTTATATTT
1784474 ATTTAAAATTTATAGTTT
1 ATTTAAAATTTATA-TTT
1784492 AT
1 AT
1784494 CATAAATAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
15 6 0.21
16 15 0.52
17 4 0.14
18 4 0.14
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.60
Consensus pattern (17 bp):
ATTTAAAATTTATATTT
Found at i:1784674 original size:21 final size:21
Alignment explanation
Indices: 1784650--1784961 Score: 231
Period size: 21 Copynumber: 15.0 Consensus size: 21
1784640 AATTCGTAAT
1784650 GTGAACAGTGCTATCGCAATG
1 GTGAACAGTGCTATCGCAATG
* *
1784671 GTGAATAGTGCTATCGTAATG
1 GTGAACAGTGCTATCGCAATG
* * *
1784692 GTGAACAGTGTTATCGTAATA
1 GTGAACAGTGCTATCGCAATG
* *
1784713 GTGAACAGTGTTATCGCAATA
1 GTGAACAGTGCTATCGCAATG
* * *
1784734 GTGAACAATGTTATCGTAATG
1 GTGAACAGTGCTATCGCAATG
* * * **
1784755 GTGAACAATGTTATCACAACA
1 GTGAACAGTGCTATCGCAATG
1784776 GTGAACAGTGCTATCGCAATG
1 GTGAACAGTGCTATCGCAATG
** * *
1784797 GTGAACAGTATTATCGTAACG
1 GTGAACAGTGCTATCGCAATG
* *
1784818 GTGAACAGTTCTATCGCAACG
1 GTGAACAGTGCTATCGCAATG
* * *
1784839 ATGAACAGTTCTATCGCAACG
1 GTGAACAGTGCTATCGCAATG
* *
1784860 ATGAACAGTGCTATTGCAATG
1 GTGAACAGTGCTATCGCAATG
* *** *
1784881 AT--TTTG-GACTATCGCAA-C
1 GTGAACAGTG-CTATCGCAATG
* *
1784899 GCGAATTC-G-GACTATCGCAACG
1 GTGAA--CAGTG-CTATCGCAATG
*
1784921 GTGAACAGTGCTATCGCAACG
1 GTGAACAGTGCTATCGCAATG
*
1784942 GTGAACAGTGTTATCGCAAT
1 GTGAACAGTGCTATCGCAAT
1784962 TATTTTGGAC
Statistics
Matches: 241, Mismatches: 42, Indels: 16
0.81 0.14 0.05
Matches are distributed among these distances:
18 1 0.00
19 9 0.04
20 1 0.00
21 225 0.93
22 5 0.02
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (21 bp):
GTGAACAGTGCTATCGCAATG
Found at i:1784749 original size:63 final size:63
Alignment explanation
Indices: 1784643--1784869 Score: 271
Period size: 63 Copynumber: 3.6 Consensus size: 63
1784633 TATCGCAAAT
* *
1784643 TCGTAAT-GTGAACAGTGCTATCGCAATGGTGAATAGTGCTATCGTAATGGTGAACAGTGTTA
1 TCGTAATAGTGAACAGTGCTATCGCAATGGTGAACAGTGTTATCGTAATGGTGAACAGTGTTA
* * * *
1784705 TCGTAATAGTGAACAGTGTTATCGCAATAGTGAACAATGTTATCGTAATGGTGAACAATGTTA
1 TCGTAATAGTGAACAGTGCTATCGCAATGGTGAACAGTGTTATCGTAATGGTGAACAGTGTTA
** * * *
1784768 TCACAACAGTGAACAGTGCTATCGCAATGGTGAACAGTATTATCGTAACGGTGAACAGT-TCTA
1 TCGTAATAGTGAACAGTGCTATCGCAATGGTGAACAGTGTTATCGTAATGGTGAACAGTGT-TA
* * * * *
1784831 TCGCAA-CGATGAACAGTTCTATCGCAACGATGAACAGTG
1 TCGTAATAG-TGAACAGTGCTATCGCAATGGTGAACAGTG
1784870 CTATTGCAAT
Statistics
Matches: 141, Mismatches: 21, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
62 9 0.06
63 132 0.94
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.28
Consensus pattern (63 bp):
TCGTAATAGTGAACAGTGCTATCGCAATGGTGAACAGTGTTATCGTAATGGTGAACAGTGTTA
Found at i:1784929 original size:82 final size:82
Alignment explanation
Indices: 1784828--1784999 Score: 281
Period size: 82 Copynumber: 2.1 Consensus size: 82
1784818 GTGAACAGTT
* *
1784828 CTATCGCAACGATGAACAGTTCTATCGCAACGATGAACAGTGCTATTGCAATGATTTTGGACTAT
1 CTATCGCAACGATGAACAGTGCTATCGCAACGATGAACAGTGCTATCGCAATGATTTTGGACTAT
1784893 CGCAACGCGAATTCGGA
66 CGCAACGCGAATTCGGA
* * * *
1784910 CTATCGCAACGGTGAACAGTGCTATCGCAACGGTGAACAGTGTTATCGCAATTATTTTGGACTAT
1 CTATCGCAACGATGAACAGTGCTATCGCAACGATGAACAGTGCTATCGCAATGATTTTGGACTAT
*
1784975 CGCAACGCGAATTTGGA
66 CGCAACGCGAATTCGGA
1784992 CTATCGCA
1 CTATCGCA
1785000 TTGCGATAGT
Statistics
Matches: 83, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
82 83 1.00
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (82 bp):
CTATCGCAACGATGAACAGTGCTATCGCAACGATGAACAGTGCTATCGCAATGATTTTGGACTAT
CGCAACGCGAATTCGGA
Found at i:1785086 original size:20 final size:19
Alignment explanation
Indices: 1785061--1785098 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
1785051 GTAAACTTAT
1785061 TTGCGATACTAGAGATCGCG
1 TTGCGAT-CTAGAGATCGCG
*
1785081 TTGCGATTTAGAGATCGC
1 TTGCGATCTAGAGATCGC
1785099 ATTACGATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (19 bp):
TTGCGATCTAGAGATCGCG
Found at i:1785094 original size:19 final size:19
Alignment explanation
Indices: 1785070--1785108 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
1785060 TTTGCGATAC
* *
1785070 TAGAGATCGCGTTGCGATT
1 TAGAGATCGCATTACGATT
1785089 TAGAGATCGCATTACGATT
1 TAGAGATCGCATTACGATT
1785108 T
1 T
1785109 TGTTGGTCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (19 bp):
TAGAGATCGCATTACGATT
Found at i:1786489 original size:14 final size:14
Alignment explanation
Indices: 1786470--1786497 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1786460 ATATACACGG
1786470 GTGTTGGGGTTTAA
1 GTGTTGGGGTTTAA
1786484 GTGTTGGGGTTTAA
1 GTGTTGGGGTTTAA
1786498 CTAAAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.00, G:0.43, T:0.43
Consensus pattern (14 bp):
GTGTTGGGGTTTAA
Found at i:1794793 original size:14 final size:15
Alignment explanation
Indices: 1794758--1794790 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
1794748 GTGCTTCTTC
1794758 TTCCGATACTCCTTT
1 TTCCGATACTCCTTT
1794773 TTCCGATACTCCTTT
1 TTCCGATACTCCTTT
1794788 TTC
1 TTC
1794791 GATCATGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.12, C:0.33, G:0.06, T:0.48
Consensus pattern (15 bp):
TTCCGATACTCCTTT
Found at i:1797829 original size:21 final size:21
Alignment explanation
Indices: 1797778--1797830 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
1797768 ATTATGACTA
1797778 TCGCAATGCGATTTTCCAATT
1 TCGCAATGCGATTTTCCAATT
**
1797799 TCGCGTTGCGATTTTCCCAA-T
1 TCGCAATGCGATTTT-CCAATT
1797820 TCGCAATGCGA
1 TCGCAATGCGA
1797831 ACAAGTAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (21 bp):
TCGCAATGCGATTTTCCAATT
Found at i:1797884 original size:41 final size:41
Alignment explanation
Indices: 1797857--1797969 Score: 122
Period size: 41 Copynumber: 2.8 Consensus size: 41
1797847 GCGAATTTGG
* *
1797857 AAAATCGCAATGTGATACTGACTATCGCAACGCGATAATAC
1 AAAATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
* * *
1797898 AAAATCGCAACGCGATACTGACTTTCGCAACGCAATTATGAC
1 AAAATCGCAACGCGATACTGACTATCGCAACGCGATAAT-AC
** * *
1797940 --TTTCGCAACGCGATTCTGACTTTCGCAACG
1 AAAATCGCAACGCGATACTGACTATCGCAACG
1797970 AGATTCTGAC
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
40 27 0.43
41 34 0.54
42 2 0.03
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.24
Consensus pattern (41 bp):
AAAATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
Found at i:1797893 original size:20 final size:20
Alignment explanation
Indices: 1797860--1797986 Score: 114
Period size: 20 Copynumber: 6.3 Consensus size: 20
1797850 AATTTGGAAA
* *
1797860 ATCGCAATGTGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
1797880 ATCGCAACGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
1797901 ATCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
1797921 TTCGCAACGCAATTA-TGACT
1 ATCGCAACGCGA-TACTGACT
* *
1797941 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
* * *
1797961 TTCGCAACGAGATTCTGACT
1 ATCGCAACGCGATACTGACT
1797981 ATCGCA
1 ATCGCA
1797987 CCGAGATAAT
Statistics
Matches: 90, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
19 3 0.03
20 68 0.76
21 17 0.19
22 2 0.02
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:1797959 original size:40 final size:40
Alignment explanation
Indices: 1797860--1797986 Score: 132
Period size: 40 Copynumber: 3.1 Consensus size: 40
1797850 AATTTGGAAA
* * * * * *
1797860 ATCGCAATGTGATACTGACTATCGCAACGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGACTTTCGCAACGAGATTATGAC--T
1797901 ATCGCAACGCGATACTGACTTTCGCAACGCA-ATTATGACT
1 ATCGCAACGCGATACTGACTTTCGCAACG-AGATTATGACT
* * *
1797941 TTCGCAACGCGATTCTGACTTTCGCAACGAGATTCTGACT
1 ATCGCAACGCGATACTGACTTTCGCAACGAGATTATGACT
1797981 ATCGCA
1 ATCGCA
1797987 CCGAGATAAT
Statistics
Matches: 73, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
39 1 0.01
40 40 0.55
41 30 0.41
42 2 0.03
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (40 bp):
ATCGCAACGCGATACTGACTTTCGCAACGAGATTATGACT
Found at i:1798564 original size:34 final size:34
Alignment explanation
Indices: 1798521--1798627 Score: 97
Period size: 40 Copynumber: 3.0 Consensus size: 34
1798511 GACATTCATT
1798521 TGACTATCGCAACGGGGAAATCGCAACGCGAAAA
1 TGACTATCGCAACGGGGAAATCGCAACGCGAAAA
**
1798555 TGACTATCGCAACGCGAAAATGGCTATCGCAACGCGAAAA
1 TGACTATCGCAACG-G-----GGAAATCGCAACGCGAAAA
** * * *
1798595 TGGGTATCGCAACGAGAAAATCGCAATGCGAAA
1 TGACTATCGCAACGGGGAAATCGCAACGCGAAA
1798628 TGAAAATCAC
Statistics
Matches: 58, Mismatches: 9, Indels: 12
0.73 0.11 0.15
Matches are distributed among these distances:
34 28 0.48
35 1 0.02
40 29 0.50
ACGTcount: A:0.38, C:0.22, G:0.25, T:0.14
Consensus pattern (34 bp):
TGACTATCGCAACGGGGAAATCGCAACGCGAAAA
Found at i:1798565 original size:20 final size:20
Alignment explanation
Indices: 1798540--1798615 Score: 125
Period size: 20 Copynumber: 3.8 Consensus size: 20
1798530 CAACGGGGAA
*
1798540 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGGCT
1798560 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
*
1798580 ATCGCAACGCGAAAATGGGT
1 ATCGCAACGCGAAAATGGCT
*
1798600 ATCGCAACGAGAAAAT
1 ATCGCAACGCGAAAAT
1798616 CGCAATGCGA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 53 1.00
ACGTcount: A:0.39, C:0.22, G:0.24, T:0.14
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGGCT
Found at i:1798675 original size:19 final size:19
Alignment explanation
Indices: 1798653--1798698 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
1798643 GATTTTCTCG
*
1798653 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTAATTTCGCA
1798672 TTGCGATTTTAATTTCGCA
1 TTGCGATTTTAATTTCGCA
1798691 TTGCGATT
1 TTGCGATT
1798699 CTCTCGTTGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.48
Consensus pattern (19 bp):
TTGCGATTTTAATTTCGCA
Found at i:1800331 original size:42 final size:42
Alignment explanation
Indices: 1800285--1800377 Score: 141
Period size: 42 Copynumber: 2.2 Consensus size: 42
1800275 CCTCTTCAAC
* * *
1800285 GATGACAGTGGCCTCTTGAACGGTGGGGGGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGATGGGAGGGGACTCTTGAGG
* *
1800327 GATGATAGGGGCCTCTTGAACGATTGGAGGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGATGGGAGGGGACTCTTGAGG
1800369 GATGACAGG
1 GATGACAGG
1800378 TGAGTCGGGC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.20, C:0.15, G:0.43, T:0.22
Consensus pattern (42 bp):
GATGACAGGGGCCTCTTGAACGATGGGAGGGGACTCTTGAGG
Found at i:1800337 original size:21 final size:21
Alignment explanation
Indices: 1800313--1800373 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
1800303 AACGGTGGGG
*
1800313 GGGGACTCTTGAGGGATGATA
1 GGGGACTCTTGAGGGATGAGA
* **
1800334 GGGGCCTCTTGAACGATTG-GA
1 GGGGACTCTTGAGGGA-TGAGA
1800355 GGGGACTCTTGAGGGATGA
1 GGGGACTCTTGAGGGATGA
1800374 CAGGTGAGTC
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
20 2 0.06
21 27 0.87
22 2 0.06
ACGTcount: A:0.21, C:0.13, G:0.43, T:0.23
Consensus pattern (21 bp):
GGGGACTCTTGAGGGATGAGA
Found at i:1800740 original size:20 final size:20
Alignment explanation
Indices: 1800715--1800767 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
1800705 GAATAATAGT
*
1800715 TTACTTTCGCAACACGAAAC
1 TTACTTTCGCAACACGAAAA
*
1800735 TTACTTTCGCAACGCGAAAA
1 TTACTTTCGCAACACGAAAA
* *
1800755 TGACTATCGCAAC
1 TTACTTTCGCAAC
1800768 GCGGAAATGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.34, C:0.28, G:0.13, T:0.25
Consensus pattern (20 bp):
TTACTTTCGCAACACGAAAA
Found at i:1800795 original size:19 final size:19
Alignment explanation
Indices: 1800721--1800826 Score: 95
Period size: 20 Copynumber: 5.4 Consensus size: 19
1800711 TAGTTTACTT
* * *
1800721 TCGCAACACGAAACTTACTT
1 TCGCAACGCGAAA-TGACTA
1800741 TCGCAACGCGAAAATGACTA
1 TCGCAACGCG-AAATGACTA
*
1800761 TCGCAACGCGGAAATGGCTA
1 TCGCAACGC-GAAATGACTA
* **
1800781 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGACTA
* **
1800800 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGACTA
1800819 TCGCAACG
1 TCGCAACG
1800827 ACAAAATCGC
Statistics
Matches: 75, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
19 33 0.44
20 38 0.51
21 4 0.05
ACGTcount: A:0.39, C:0.24, G:0.21, T:0.17
Consensus pattern (19 bp):
TCGCAACGCGAAATGACTA
Found at i:1800834 original size:14 final size:14
Alignment explanation
Indices: 1800815--1800871 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
1800805 ATGCGAAATG
1800815 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
1800829 AAAATCGCAATGCGAAATG
1 AAAATCGCAA--CG--A-C
1800848 AAAATCGCAACGAC
1 AAAATCGCAACGAC
1800862 AAAATCGCAA
1 AAAATCGCAA
1800872 TGCGAAACAC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.51, C:0.23, G:0.16, T:0.11
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:1800853 original size:19 final size:19
Alignment explanation
Indices: 1800780--1800857 Score: 112
Period size: 19 Copynumber: 4.4 Consensus size: 19
1800770 GGAAATGGCT
1800780 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
1800799 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
1800818 ATCGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATGAAA
1800832 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
1800851 ATCGCAA
1 ATCGCAA
1800858 CGACAAAATC
Statistics
Matches: 52, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
14 10 0.19
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 36 0.69
ACGTcount: A:0.47, C:0.19, G:0.19, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:1800886 original size:52 final size:52
Alignment explanation
Indices: 1800780--1800895 Score: 139
Period size: 52 Copynumber: 2.2 Consensus size: 52
1800770 GGAAATGGCT
* * *
1800780 ATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGCAAAATGAAAATCGAAACGACAAA
*
1800832 ATCGCAATGCGAAATGAAAATCGCAACGACAAAATCG-CAATGCGAAAC-AC-AA
1 ATCGCAATGCGAAATGAAAATCGCAACG-CAAAAT-GAAAAT-CGAAACGACAAA
*
1800884 ATCGCATTGCGA
1 ATCGCAATGCGA
1800896 TTTTCATTTC
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
52 40 0.71
53 10 0.18
54 6 0.11
ACGTcount: A:0.46, C:0.22, G:0.19, T:0.14
Consensus pattern (52 bp):
ATCGCAATGCGAAATGAAAATCGCAACGCAAAATGAAAATCGAAACGACAAA
Found at i:1800887 original size:19 final size:19
Alignment explanation
Indices: 1800780--1800895 Score: 110
Period size: 19 Copynumber: 6.6 Consensus size: 19
1800770 GGAAATGGCT
*
1800780 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATCAAA
*
1800799 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATCAAA
1800818 ATCGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATCAAA
*
1800832 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATCAAA
1800851 ATCGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATCAAA
1800865 ATCGCAATGCGAAA-CACAA
1 ATCGCAATGCGAAATCA-AA
*
1800884 ATCGCATTGCGA
1 ATCGCAATGCGA
1800896 TTTTCATTTC
Statistics
Matches: 83, Mismatches: 4, Indels: 20
0.78 0.04 0.19
Matches are distributed among these distances:
14 20 0.24
15 2 0.02
16 4 0.05
17 4 0.05
18 4 0.05
19 49 0.59
ACGTcount: A:0.46, C:0.22, G:0.19, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATCAAA
Found at i:1800889 original size:33 final size:33
Alignment explanation
Indices: 1800796--1800878 Score: 166
Period size: 33 Copynumber: 2.5 Consensus size: 33
1800786 ATGCGAAATG
1800796 AAAATCGCAATGCGAAATGAAAATCGCAACGAC
1 AAAATCGCAATGCGAAATGAAAATCGCAACGAC
1800829 AAAATCGCAATGCGAAATGAAAATCGCAACGAC
1 AAAATCGCAATGCGAAATGAAAATCGCAACGAC
1800862 AAAATCGCAATGCGAAA
1 AAAATCGCAATGCGAAA
1800879 CACAAATCGC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 50 1.00
ACGTcount: A:0.49, C:0.20, G:0.18, T:0.12
Consensus pattern (33 bp):
AAAATCGCAATGCGAAATGAAAATCGCAACGAC
Found at i:1800907 original size:19 final size:19
Alignment explanation
Indices: 1800885--1800951 Score: 81
Period size: 19 Copynumber: 3.8 Consensus size: 19
1800875 GAAACACAAA
1800885 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* *
1800904 TCGCGTTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
1800920 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
1800937 TCGCATTGCGATTTT
1 TCGCATTGCGATTTT
1800952 GTCGTTGCGA
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
14 6 0.15
15 3 0.08
16 4 0.10
17 4 0.10
18 3 0.08
19 20 0.50
ACGTcount: A:0.12, C:0.19, G:0.21, T:0.48
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:1800926 original size:14 final size:14
Alignment explanation
Indices: 1800907--1800965 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
1800897 TTTCATTTCG
1800907 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
1800921 CGTTGCGATTTTCATTT
1 CGTTGCGA-TTT--TGT
1800938 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
1800954 CGTTGCGATTTT
1 CGTTGCGATTTT
1800966 CATTTTGTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 18 0.47
15 3 0.08
16 4 0.11
17 4 0.11
18 3 0.08
19 6 0.16
ACGTcount: A:0.10, C:0.17, G:0.24, T:0.49
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:1800932 original size:33 final size:33
Alignment explanation
Indices: 1800890--1800981 Score: 157
Period size: 33 Copynumber: 2.8 Consensus size: 33
1800880 ACAAATCGCA
*
1800890 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
1800923 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
* *
1800956 TTGCGATTTTCATTTTGTATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
1800982 AGCCATTTCC
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.12, C:0.16, G:0.22, T:0.50
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:1801000 original size:20 final size:20
Alignment explanation
Indices: 1800975--1801020 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
1800965 TCATTTTGTA
1800975 TTGCGATAGCCATTTCCGCG
1 TTGCGATAGCCATTTCCGCG
* * *
1800995 TTGCGATAGTCATTTTCGTG
1 TTGCGATAGCCATTTCCGCG
1801015 TTGCGA
1 TTGCGA
1801021 AAGTAAACTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.15, C:0.22, G:0.26, T:0.37
Consensus pattern (20 bp):
TTGCGATAGCCATTTCCGCG
Found at i:1801584 original size:18 final size:18
Alignment explanation
Indices: 1801561--1801609 Score: 89
Period size: 18 Copynumber: 2.7 Consensus size: 18
1801551 CGGGTCGATC
1801561 AGGTGATGGCTCTGGGTG
1 AGGTGATGGCTCTGGGTG
*
1801579 AGGTGATAGCTCTGGGTG
1 AGGTGATGGCTCTGGGTG
1801597 AGGTGATGGCTCT
1 AGGTGATGGCTCT
1801610 CGAAGTGGAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.14, C:0.12, G:0.45, T:0.29
Consensus pattern (18 bp):
AGGTGATGGCTCTGGGTG
Found at i:1802514 original size:20 final size:20
Alignment explanation
Indices: 1802484--1802596 Score: 172
Period size: 20 Copynumber: 5.7 Consensus size: 20
1802474 GATTATGTAT
*
1802484 TATCTCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
* *
1802504 TATCGCATTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTCAG
1802524 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
* *
1802544 TATCGCATTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTCAG
*
1802564 TATCGCGTTGTGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
1802584 TATCGCGTTGCGA
1 TATCGCGTTGCGA
1802597 TTTTGTATTA
Statistics
Matches: 82, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 82 1.00
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.27
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:1802540 original size:40 final size:40
Alignment explanation
Indices: 1802484--1802634 Score: 205
Period size: 40 Copynumber: 3.8 Consensus size: 40
1802474 GATTATGTAT
*
1802484 TATCTCGTTGCGAAAGTCAGTATCGCATTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTCAGTATCGCATTGCGAAAGTAAG
1802524 TATCGCGTTGCGAAAGTCAGTATCGCATTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTCAGTATCGCATTGCGAAAGTAAG
* * ** *
1802564 TATCGCGTTGTGAAAGTCAGTATCGCGTTGCGATTTTGT-AT
1 TATCGCGTTGCGAAAGTCAGTATCGCATTGCGA--AAGTAAG
* *
1802605 TATCGTGTTGCGATAGTCAGTATCGCATTG
1 TATCGCGTTGCGAAAGTCAGTATCGCATTG
1802635 TGATTTTCCC
Statistics
Matches: 99, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
40 70 0.71
41 27 0.27
42 2 0.02
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (40 bp):
TATCGCGTTGCGAAAGTCAGTATCGCATTGCGAAAGTAAG
Found at i:1802656 original size:41 final size:41
Alignment explanation
Indices: 1802464--1802659 Score: 141
Period size: 40 Copynumber: 4.8 Consensus size: 41
1802454 CGCTTTGAAA
* ** * * *
1802464 ATCGCATTGCGATTATGTATTATCTCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATTTTCCAATATCGCGTTGCGATAGTCAGT
*** *
1802505 ATCGCATTGCGAAAGT--AAGTATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATTTTCCAA-TATCGCGTTGCGATAGTCAGT
*** * *
1802545 ATCGCATTGCGAAAGT--AAGTATCGCGTTGTGAAAGTCAGT
1 ATCGCATTGCGATTTTCCAA-TATCGCGTTGCGATAGTCAGT
* ** * *
1802585 ATCGCGTTGCGATTTTGTATTATCGTGTTGCGATAGTCAGT
1 ATCGCATTGCGATTTTCCAATATCGCGTTGCGATAGTCAGT
*
1802626 ATCGCATTGTGATTTTCCCAAT-TCGCGTTGCGAT
1 ATCGCATTGCGATTTT-CCAATATCGCGTTGCGAT
1802660 TTACTTATTC
Statistics
Matches: 131, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
39 1 0.01
40 71 0.54
41 56 0.43
42 3 0.02
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (41 bp):
ATCGCATTGCGATTTTCCAATATCGCGTTGCGATAGTCAGT
Found at i:1802699 original size:21 final size:20
Alignment explanation
Indices: 1802675--1802720 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 20
1802665 TATTCGCATT
1802675 GCGAATTGGGAAAATCGCAAC
1 GCGAATT-GGAAAATCGCAAC
1802696 GCGAAATTGGAAAATCGCAAC
1 GCG-AATTGGAAAATCGCAAC
1802717 GCGA
1 GCGA
1802721 TAGTCATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 1 0.04
21 19 0.79
22 4 0.17
ACGTcount: A:0.39, C:0.20, G:0.28, T:0.13
Consensus pattern (20 bp):
GCGAATTGGAAAATCGCAAC
Found at i:1804145 original size:21 final size:21
Alignment explanation
Indices: 1804097--1804149 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 21
1804087 ACGTATAATT
1804097 ATAAATTAGTTAAAAATTTAAAG
1 ATAAATTA-TTAAAAA-TTAAAG
*
1804120 ATAAATTATTCAAAA-TAAAGG
1 ATAAATTATTAAAAATTAAA-G
1804141 ATAAATTAT
1 ATAAATTAT
1804150 ACCAGTGACC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 4 0.14
21 10 0.36
22 6 0.21
23 8 0.29
ACGTcount: A:0.57, C:0.02, G:0.08, T:0.34
Consensus pattern (21 bp):
ATAAATTATTAAAAATTAAAG
Found at i:1809989 original size:21 final size:21
Alignment explanation
Indices: 1809960--1810012 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
1809950 ATTCTGACTA
*
1809960 TCGCATTGCTATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
* * *
1809981 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTCCCAAAT
*
1810002 TCGCAATGCGA
1 TCGCATTGCGA
1810013 ATACGTAAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.21, C:0.26, G:0.17, T:0.36
Consensus pattern (21 bp):
TCGCATTGCGATTTCCCAAAT
Found at i:1810027 original size:20 final size:20
Alignment explanation
Indices: 1810002--1810115 Score: 97
Period size: 20 Copynumber: 5.7 Consensus size: 20
1809992 TTTTCCTAAT
1810002 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* * *
1810022 TCGCAACGCGATTAAGTAAA
1 TCGCAATGCGAATACGTAAA
** ** * *
1810042 TCATAAAT-ATAATTAGGAAAA
1 TC-GCAATGCGAA-TACGTAAA
*
1810063 TCGCAATGCGAATTAC-TTAA
1 TCGCAATGCGAA-TACGTAAA
1810083 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
1810103 TCGCAATGCGAAT
1 TCGCAATGCGAAT
1810116 CTGACTATCG
Statistics
Matches: 71, Mismatches: 19, Indels: 8
0.72 0.19 0.08
Matches are distributed among these distances:
19 3 0.04
20 53 0.75
21 15 0.21
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.24
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:1810125 original size:20 final size:20
Alignment explanation
Indices: 1810062--1810133 Score: 71
Period size: 20 Copynumber: 3.6 Consensus size: 20
1810052 AATTAGGAAA
1810062 ATCGCAATGCGAAT-T-ACTT
1 ATCGCAATGCGAATCTGAC-T
*
1810081 AATCGCAATGCGAATAC-GTA-A
1 -ATCGCAATGCGAAT-CTG-ACT
1810102 ATCGCAATGCGAATCTGACT
1 ATCGCAATGCGAATCTGACT
1810122 ATCGCAATGCGA
1 ATCGCAATGCGA
1810134 TTTACATAGT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
19 2 0.05
20 41 0.93
23 1 0.02
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.24
Consensus pattern (20 bp):
ATCGCAATGCGAATCTGACT
Found at i:1810696 original size:38 final size:38
Alignment explanation
Indices: 1810654--1810783 Score: 164
Period size: 38 Copynumber: 3.6 Consensus size: 38
1810644 ATAATAGTTT
* **
1810654 CGAG-AATGAAAATCGCAATGCGGAAATGACTATCGCAA
1 CGAGAAATGAAAATCGCAACGC-GAAATGAAAATCGCAA
1810692 CGAG--A-G--AATCGCAACGCGAAATGAAAATCGCAA
1 CGAGAAATGAAAATCGCAACGCGAAATGAAAATCGCAA
*
1810725 CGCGAAATGAAAATCGCAACGCGAAATGAAAATCGCAA
1 CGAGAAATGAAAATCGCAACGCGAAATGAAAATCGCAA
*
1810763 CGCGAAATGAAAATCGCAACG
1 CGAGAAATGAAAATCGCAACG
1810784 AGATAATCGC
Statistics
Matches: 83, Mismatches: 4, Indels: 10
0.86 0.04 0.10
Matches are distributed among these distances:
33 17 0.20
34 10 0.12
35 1 0.01
36 2 0.02
37 1 0.01
38 52 0.63
ACGTcount: A:0.45, C:0.21, G:0.23, T:0.12
Consensus pattern (38 bp):
CGAGAAATGAAAATCGCAACGCGAAATGAAAATCGCAA
Found at i:1810722 original size:19 final size:19
Alignment explanation
Indices: 1810698--1810819 Score: 173
Period size: 19 Copynumber: 6.7 Consensus size: 19
1810688 GCAACGAGAG
1810698 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
1810717 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
1810736 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
1810755 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
1810774 AATCGCAA--CG--A-GAT
1 AATCGCAACGCGAAATGAA
**
1810788 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAATGAA
*
1810807 AATCGCAATGCGA
1 AATCGCAACGCGA
1810820 TTTTGGTTTC
Statistics
Matches: 94, Mismatches: 4, Indels: 10
0.87 0.04 0.09
Matches are distributed among these distances:
14 10 0.11
15 1 0.01
16 2 0.02
17 2 0.02
18 1 0.01
19 78 0.83
ACGTcount: A:0.46, C:0.23, G:0.20, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:1810837 original size:19 final size:19
Alignment explanation
Indices: 1810815--1811087 Score: 386
Period size: 19 Copynumber: 14.8 Consensus size: 19
1810805 AAAATCGCAA
**
1810815 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTCATTTCGCGT
*
1810834 TGCGA--TT-ATCTCG--T
1 TGCGATTTTCATTTCGCGT
1810848 TGCGATTTTCATTTCGCGT
1 TGCGATTTTCATTTCGCGT
1810867 TGCGATTTTCATTTCGCGT
1 TGCGATTTTCATTTCGCGT
1810886 TGCGATTTTCATTTCGCGT
1 TGCGATTTTCATTTCGCGT
1810905 TGCGATTTTCATTTCGCGT
1 TGCGATTTTCATTTCGCGT
1810924 TGCGATTTTCATTTCGCGT
1 TGCGATTTTCATTTCGCGT
1810943 TGCGATTTTCATTTCGCGT
1 TGCGATTTTCATTTCGCGT
1810962 TGCGATTTTCATTTCGCGT
1 TGCGATTTTCATTTCGCGT
1810981 TGCGATTTTCATTTCGCGT
1 TGCGATTTTCATTTCGCGT
*
1811000 TGCGATTTTCATTTCGTGT
1 TGCGATTTTCATTTCGCGT
*
1811019 TGCGA--TTC---TCTCGT
1 TGCGATTTTCATTTCGCGT
**
1811033 TGCGATAGTCATTTCCGCGT
1 TGCGATTTTCATTT-CGCGT
*
1811053 TGCGATTTTCATTCTCTCGT
1 TGCGATTTTCATT-TCGCGT
1811073 TGCGATTTTCATTTC
1 TGCGATTTTCATTTC
1811088 AACCAAAAGA
Statistics
Matches: 231, Mismatches: 11, Indels: 24
0.87 0.04 0.09
Matches are distributed among these distances:
14 15 0.06
16 8 0.03
17 10 0.04
19 165 0.71
20 32 0.14
21 1 0.00
ACGTcount: A:0.11, C:0.21, G:0.21, T:0.47
Consensus pattern (19 bp):
TGCGATTTTCATTTCGCGT
Found at i:1812984 original size:94 final size:93
Alignment explanation
Indices: 1812762--1813039 Score: 419
Period size: 94 Copynumber: 3.1 Consensus size: 93
1812752 TAGATTGCTT
* *
1812762 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAAC--TGT-TT-ATTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1812823 ATTTGTCTTTTGTTTTGTCTTTTGGTTGA
66 ATTTGTC-TTTGTTTTGTCTTTTGGTTGA
1812852 AGT--A--TATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1812913 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTG-A
* * * *
1812942 AGTAAATTTGTTCGTTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAATACTCTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
*
1813007 ATTTGTCTTTGTTTTGTCTTTTGATTGA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGA
1813035 AGTAA
1 AGTAA
1813040 TGCAATACAT
Statistics
Matches: 172, Mismatches: 7, Indels: 15
0.89 0.04 0.08
Matches are distributed among these distances:
86 27 0.16
88 4 0.02
89 22 0.13
90 33 0.19
92 1 0.01
93 6 0.03
94 79 0.46
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.47
Consensus pattern (93 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
ATTTGTCTTTGTTTTGTCTTTTGGTTGA
Found at i:1813176 original size:39 final size:39
Alignment explanation
Indices: 1813128--1813220 Score: 116
Period size: 39 Copynumber: 2.4 Consensus size: 39
1813118 TCTTTTGGTT
* **
1813128 GAAATGAAAATCGCAACGAGAGAA-TGAAAATCGCAACGC
1 GAAACGAAAATCGCAACGAGA-AACCAAAAATCGCAACGC
*
1813167 GAAACGAAAATCGCAACGCGAAACCAAAAATCGCAACGC
1 GAAACGAAAATCGCAACGAGAAACCAAAAATCGCAACGC
* *
1813206 GAAACTATAATCGCA
1 GAAACGAAAATCGCA
1813221 TTGCGATTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
38 2 0.04
39 45 0.96
ACGTcount: A:0.48, C:0.23, G:0.19, T:0.10
Consensus pattern (39 bp):
GAAACGAAAATCGCAACGAGAAACCAAAAATCGCAACGC
Found at i:1813177 original size:19 final size:19
Alignment explanation
Indices: 1813128--1813220 Score: 114
Period size: 20 Copynumber: 4.8 Consensus size: 19
1813118 TCTTTTGGTT
* *
1813128 GAAATGAAAATCGCAACGA
1 GAAACGAAAATCGCAACGC
*
1813147 GAGAATGAAAATCGCAACGC
1 GA-AACGAAAATCGCAACGC
1813167 GAAACGAAAATCGCAACGC
1 GAAACGAAAATCGCAACGC
*
1813186 GAAACCAAAAATCGCAACGC
1 GAAA-CGAAAATCGCAACGC
* *
1813206 GAAACTATAATCGCA
1 GAAACGAAAATCGCA
1813221 TTGCGATTTT
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
19 31 0.46
20 36 0.54
ACGTcount: A:0.48, C:0.23, G:0.19, T:0.10
Consensus pattern (19 bp):
GAAACGAAAATCGCAACGC
Found at i:1813276 original size:33 final size:33
Alignment explanation
Indices: 1813234--1813302 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
1813224 CGATTTTTGG
* *
1813234 TTTCGCGTTGCGATTTTGTCCTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCCTTGCGATTTTCA
*
1813267 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCCTTGCGATTTTCA
1813300 TTT
1 TTT
1813303 TTAAGTTCCA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.09, C:0.22, G:0.20, T:0.49
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTCTCCTTGCGATTTTCA
Found at i:1813781 original size:21 final size:21
Alignment explanation
Indices: 1813757--1813823 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
1813747 TCATTCCTCG
1813757 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
1813778 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
1813799 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
1813820 AGAG
1 AGAG
1813824 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:1815319 original size:19 final size:19
Alignment explanation
Indices: 1815297--1815395 Score: 85
Period size: 19 Copynumber: 5.7 Consensus size: 19
1815287 AAAAATGACT
*
1815297 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
1815316 ATCGCAA--CG--A-GATA
1 ATCGCAACGCGAAATGAAA
1815330 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
1815349 ATCGCAA--CG--A-CAAA
1 ATCGCAACGCGAAATGAAA
1815363 ATCGCAACGCGAAACT-AAA
1 ATCGCAACGCGAAA-TGAAA
1815382 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
1815396 CTAAATTCGC
Statistics
Matches: 66, Mismatches: 3, Indels: 22
0.73 0.03 0.24
Matches are distributed among these distances:
14 20 0.30
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 34 0.52
ACGTcount: A:0.46, C:0.23, G:0.19, T:0.11
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:1815342 original size:33 final size:33
Alignment explanation
Indices: 1815297--1815390 Score: 145
Period size: 33 Copynumber: 2.8 Consensus size: 33
1815287 AAAAATGACT
* * *
1815297 ATCGCAATGCGAAATGAAAATCGCAACGAGATA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
1815330 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
1815363 ATCGCAACGCGAAACT-AAAATCGCAACG
1 ATCGCAACGCGAAA-TGAAAATCGCAACG
1815391 CGAAACTAAA
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
33 56 0.98
34 1 0.02
ACGTcount: A:0.46, C:0.23, G:0.19, T:0.12
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:1815412 original size:19 final size:19
Alignment explanation
Indices: 1815329--1815405 Score: 94
Period size: 19 Copynumber: 4.3 Consensus size: 19
1815319 GCAACGAGAT
1815329 AATCGCAACGCGAAA-TGAA
1 AATCGCAACGCGAAACT-AA
1815348 AATCGCAA--CG--AC-AA
1 AATCGCAACGCGAAACTAA
1815362 AATCGCAACGCGAAACTAA
1 AATCGCAACGCGAAACTAA
1815381 AATCGCAACGCGAAACTAA
1 AATCGCAACGCGAAACTAA
*
1815400 ATTCGC
1 AATCGC
1815406 GTTGCGATTT
Statistics
Matches: 51, Mismatches: 1, Indels: 12
0.80 0.02 0.19
Matches are distributed among these distances:
14 10 0.20
15 1 0.02
16 2 0.04
17 2 0.04
18 2 0.04
19 34 0.67
ACGTcount: A:0.45, C:0.26, G:0.17, T:0.12
Consensus pattern (19 bp):
AATCGCAACGCGAAACTAA
Found at i:1815449 original size:33 final size:33
Alignment explanation
Indices: 1815405--1815531 Score: 182
Period size: 33 Copynumber: 3.8 Consensus size: 33
1815395 ACTAAATTCG
* * * *
1815405 CGTTGCGATTTTCATTTCGCTTTACAATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
* *
1815438 CGTTACAATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
*
1815471 CGTTGCGATTTTCATTTTGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
*
1815504 CGTTGCGATTTTCATTTCGTATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
1815532 AGTCATTTCC
Statistics
Matches: 83, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 83 1.00
ACGTcount: A:0.15, C:0.23, G:0.16, T:0.46
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
Found at i:1815528 original size:19 final size:18
Alignment explanation
Indices: 1815445--1815531 Score: 64
Period size: 19 Copynumber: 5.1 Consensus size: 18
1815435 CCTCGTTACA
1815445 ATTTTCATTTCGCATTGCG
1 ATTTTCATTTCG-ATTGCG
*
1815464 A--TTC-TCTCG-TTGCG
1 ATTTTCATTTCGATTGCG
*
1815478 ATTTTCATTTTGCATTGCG
1 ATTTTCATTTCG-ATTGCG
*
1815497 A--TTC-TCTCG-TTGCG
1 ATTTTCATTTCGATTGCG
1815511 ATTTTCATTTCGTATTGCG
1 ATTTTCATTTCG-ATTGCG
1815530 AT
1 AT
1815532 AGTCATTTCC
Statistics
Matches: 52, Mismatches: 6, Indels: 20
0.67 0.08 0.26
Matches are distributed among these distances:
14 12 0.23
16 13 0.25
17 13 0.25
19 14 0.27
ACGTcount: A:0.14, C:0.21, G:0.17, T:0.48
Consensus pattern (18 bp):
ATTTTCATTTCGATTGCG
Found at i:1815550 original size:20 final size:20
Alignment explanation
Indices: 1815505--1815597 Score: 75
Period size: 20 Copynumber: 4.7 Consensus size: 20
1815495 CGATTCTCTC
**
1815505 GTTGCGATTTTCATTT-CGT
1 GTTGCGATAGTCATTTCCGT
* *
1815524 ATTGCGATAGTCATTTCCGC
1 GTTGCGATAGTCATTTCCGT
* **
1815544 GTTGCGATAGACA-TTAAGAT
1 GTTGCGATAGTCATTTCCG-T
1815564 GATTGCGA-ACGTCATTTCCGT
1 G-TTGCGATA-GTCATTTCCGT
1815585 GTTGCGATAGTCA
1 GTTGCGATAGTCA
1815598 AATGAATGAC
Statistics
Matches: 56, Mismatches: 12, Indels: 11
0.71 0.15 0.14
Matches are distributed among these distances:
19 16 0.29
20 25 0.45
21 12 0.21
22 3 0.05
ACGTcount: A:0.22, C:0.18, G:0.24, T:0.37
Consensus pattern (20 bp):
GTTGCGATAGTCATTTCCGT
Found at i:1817863 original size:14 final size:14
Alignment explanation
Indices: 1817844--1817870 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1817834 TCCCGTGGCA
1817844 TTTTCTTTGGGGAC
1 TTTTCTTTGGGGAC
1817858 TTTTCTTTGGGGA
1 TTTTCTTTGGGGA
1817871 TTTCTTCTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.11, G:0.30, T:0.52
Consensus pattern (14 bp):
TTTTCTTTGGGGAC
Found at i:1817880 original size:3 final size:3
Alignment explanation
Indices: 1817872--1817910 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
1817862 CTTTGGGGAT
* *
1817872 TTC TTC TTC TTC TTT TTC TTC TTC TTC TTT TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1817911 AGTGTTATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (3 bp):
TTC
Found at i:1817889 original size:15 final size:15
Alignment explanation
Indices: 1817871--1817910 Score: 80
Period size: 15 Copynumber: 2.7 Consensus size: 15
1817861 TCTTTGGGGA
1817871 TTTCTTCTTCTTCTT
1 TTTCTTCTTCTTCTT
1817886 TTTCTTCTTCTTCTT
1 TTTCTTCTTCTTCTT
1817901 TTTCTTCTTC
1 TTTCTTCTTC
1817911 AGTGTTATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTCTTCTTCTTCTT
Found at i:1818119 original size:24 final size:24
Alignment explanation
Indices: 1818085--1818138 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
1818075 CTGAAAAATC
1818085 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
1818109 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
1818133 ATCAAA
1 ATCAAA
1818139 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:1818152 original size:24 final size:24
Alignment explanation
Indices: 1818085--1818152 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
1818075 CTGAAAAATC
* * *
1818085 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
1818109 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
1818133 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
1818153 TAGTACTCAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:1819023 original size:20 final size:20
Alignment explanation
Indices: 1819000--1819208 Score: 217
Period size: 20 Copynumber: 10.3 Consensus size: 20
1818990 AGAATCTCGT
1819000 TGCGATTTAC-TAAATCGCAA
1 TGCGA-TTACGTAAATCGCAA
1819020 TGCGATTACGTAAATCG-AA
1 TGCGATTACGTAAATCGCAA
* *
1819039 GTGCGAATTAGGAAAATCGCAA
1 -TGCG-ATTACGTAAATCGCAA
1819061 TGCGATTACGTAAATCGCAA
1 TGCGATTACGTAAATCGCAA
* *
1819081 TGCGAATTAGGAAAATCGCAA
1 TGCG-ATTACGTAAATCGCAA
*
1819102 TGCGATTACGTAAATCGCAT
1 TGCGATTACGTAAATCGCAA
* *
1819122 TGCGATTACGT-ATTCGCAT
1 TGCGATTACGTAAATCGCAA
* * *
1819141 TGCGATTTTCCTAATTCGCAA
1 TGCGA-TTACGTAAATCGCAA
*
1819162 TGCGAATACGTAAATCGCAA
1 TGCGATTACGTAAATCGCAA
** *
1819182 TGCGAATTTGGGAAATCGCAA
1 TGCG-ATTACGTAAATCGCAA
1819203 TGCGAT
1 TGCGAT
1819209 AGTTAGAATC
Statistics
Matches: 160, Mismatches: 21, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
19 18 0.11
20 79 0.49
21 61 0.38
22 2 0.01
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (20 bp):
TGCGATTACGTAAATCGCAA
Found at i:1819062 original size:41 final size:41
Alignment explanation
Indices: 1819011--1819207 Score: 222
Period size: 41 Copynumber: 4.8 Consensus size: 41
1819001 GCGATTTACT
1819011 AAATCGCAATGCGATTACGTAAATCG-AAGTGCGAATTAGGA
1 AAATCGCAATGCGATTACGTAAATCGCAA-TGCGAATTAGGA
1819052 AAATCGCAATGCGATTACGTAAATCGCAATGCGAATTAGGA
1 AAATCGCAATGCGATTACGTAAATCGCAATGCGAATTAGGA
* *
1819093 AAATCGCAATGCGATTACGTAAATCGCATTGCG-ATTACG-
1 AAATCGCAATGCGATTACGTAAATCGCAATGCGAATTAGGA
* * * * * * * *
1819132 TATTCGCATTGCGATTTTCCTAATTCGCAATGCGAA-TACGT
1 AAATCGCAATGCGA-TTACGTAAATCGCAATGCGAATTAGGA
** *
1819173 AAATCGCAATGCGAATTTGGGAAATCGCAATGCGA
1 AAATCGCAATGCG-ATTACGTAAATCGCAATGCGA
1819208 TAGTTAGAAT
Statistics
Matches: 135, Mismatches: 16, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
39 11 0.08
40 24 0.18
41 97 0.72
42 3 0.02
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (41 bp):
AAATCGCAATGCGATTACGTAAATCGCAATGCGAATTAGGA
Found at i:1819220 original size:20 final size:20
Alignment explanation
Indices: 1819156--1819220 Score: 55
Period size: 20 Copynumber: 3.2 Consensus size: 20
1819146 TTTTCCTAAT
1819156 TCGCAATGCGAATACG-TA-AA
1 TCGCAATGCG-ATA-GTTAGAA
* *
1819176 TCGCAATGCGA-ATTTGGGAAA
1 TCGCAATGCGATAGTT-AG-AA
1819197 TCGCAATGCGATAGTTAGAA
1 TCGCAATGCGATAGTTAGAA
1819217 TCGC
1 TCGC
1819221 GTTGCGAATC
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
18 2 0.06
19 1 0.03
20 16 0.44
21 14 0.39
22 3 0.08
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (20 bp):
TCGCAATGCGATAGTTAGAA
Found at i:1825312 original size:29 final size:27
Alignment explanation
Indices: 1825250--1825313 Score: 65
Period size: 28 Copynumber: 2.3 Consensus size: 27
1825240 ACAAATTGCA
* *
1825250 ATTAATTAACAAAATTGTAAATAATGG
1 ATTAAATAACAAAATTGTAAATAAGGG
* *
1825277 ATCTAAATAACAAAGATTGTGAATTTAGGG
1 AT-TAAATAACAAA-ATTGT-AAATAAGGG
1825307 ATTAAAT
1 ATTAAAT
1825314 CATAAAACCA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
27 2 0.07
28 10 0.33
29 10 0.33
30 8 0.27
ACGTcount: A:0.48, C:0.05, G:0.14, T:0.33
Consensus pattern (27 bp):
ATTAAATAACAAAATTGTAAATAAGGG
Found at i:1840161 original size:70 final size:70
Alignment explanation
Indices: 1840078--1840214 Score: 206
Period size: 70 Copynumber: 2.0 Consensus size: 70
1840068 TGGTTATAAT
* *
1840078 TTAGTATAATGATGTTGTGTTTTACAGTACCTAAACTTTTG-TTTGGCACTAAAAGTGCT-ATAT
1 TTAGTATAATGATGTTGTGTTTTACAATACCTAAACTTATGTTTTGG-ACTAAAAGTG-TGATAT
1840141 GTTATTG
64 GTTATTG
* *
1840148 TTAGTATAGTGATGTTGTGTTTTACAATACCTATACTTATGTTTTGGACTAAAAGTGTGATATGT
1 TTAGTATAATGATGTTGTGTTTTACAATACCTAAACTTATGTTTTGGACTAAAAGTGTGATATGT
1840213 TA
66 TA
1840215 CTGATAGCAA
Statistics
Matches: 61, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
69 1 0.02
70 55 0.90
71 5 0.08
ACGTcount: A:0.28, C:0.09, G:0.19, T:0.45
Consensus pattern (70 bp):
TTAGTATAATGATGTTGTGTTTTACAATACCTAAACTTATGTTTTGGACTAAAAGTGTGATATGT
TATTG
Found at i:1840665 original size:2 final size:2
Alignment explanation
Indices: 1840660--1840693 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
1840650 TATATGCTCT
1840660 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1840694 TAATTATAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1848440 original size:20 final size:20
Alignment explanation
Indices: 1848411--1848462 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
1848401 TAAGCATCTC
*
1848411 AGTATCGATACTGAACCAAG
1 AGTATTGATACTGAACCAAG
** *
1848431 AGTATTGATACTTCACCTAG
1 AGTATTGATACTGAACCAAG
*
1848451 GGTATTGATACT
1 AGTATTGATACT
1848463 CAACAATTGG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (20 bp):
AGTATTGATACTGAACCAAG
Found at i:1850051 original size:23 final size:23
Alignment explanation
Indices: 1850025--1850102 Score: 93
Period size: 23 Copynumber: 3.3 Consensus size: 23
1850015 CACCACAGCT
*
1850025 CATATAATTGCATCGAAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
* *
1850048 CATATAATTGCACCGGAGTGCCG
1 CATATAATTGCACCGAAGTGCCA
* *
1850071 CATAGAATTGCACCGTAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
*
1850094 TATAATAAT
1 CAT-ATAAT
1850103 GTCCATAAGG
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
23 42 0.91
24 4 0.09
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (23 bp):
CATATAATTGCACCGAAGTGCCA
Found at i:1850280 original size:103 final size:103
Alignment explanation
Indices: 1850109--1850326 Score: 382
Period size: 103 Copynumber: 2.1 Consensus size: 103
1850099 TAATGTCCAT
* *
1850109 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
* **
1850174 GACTTCGCACATGTTCCAAAGAATGTATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
1850212 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
1850277 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
1850315 AAGGACCACATA
1 AAGGACCACATA
1850327 GACCCTCGAC
Statistics
Matches: 109, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 109 1.00
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:1851724 original size:22 final size:21
Alignment explanation
Indices: 1851699--1851758 Score: 77
Period size: 20 Copynumber: 2.9 Consensus size: 21
1851689 TTCTCTTGAG
*
1851699 GGGTATCGATTCCCCATTGAAT
1 GGGTACCGATTCCCC-TTGAAT
* *
1851721 GGGTACCTATT-CTCTTGAAT
1 GGGTACCGATTCCCCTTGAAT
1851741 GGGTACCGATTCCCCTTG
1 GGGTACCGATTCCCCTTG
1851759 CCCAGAAATC
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 16 0.50
21 7 0.22
22 9 0.28
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.33
Consensus pattern (21 bp):
GGGTACCGATTCCCCTTGAAT
Found at i:1855837 original size:36 final size:36
Alignment explanation
Indices: 1855779--1855894 Score: 133
Period size: 38 Copynumber: 3.1 Consensus size: 36
1855769 TTTTTTTTAA
*
1855779 AAAATAGTTTTCGAAAATATATATATTATATAGTTTTG
1 AAAACAGTTTTC-AAAA-ATATATATTATATAGTTTTG
*
1855817 AAAACGGTTTTCAAAAATATATATATAATATAGTTTTG
1 AAAACAGTTTTCAAAAATATATAT-T-ATATAGTTTTG
* * * * *
1855855 AAAATAATTTTTAGAAATATATATTATATAGTTTTA
1 AAAACAGTTTTCAAAAATATATATTATATAGTTTTG
1855891 AAAA
1 AAAA
1855895 AAATATTTTT
Statistics
Matches: 68, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
36 22 0.32
37 6 0.09
38 40 0.59
ACGTcount: A:0.47, C:0.03, G:0.09, T:0.42
Consensus pattern (36 bp):
AAAACAGTTTTCAAAAATATATATTATATAGTTTTG
Found at i:1855903 original size:38 final size:35
Alignment explanation
Indices: 1855835--1855908 Score: 94
Period size: 36 Copynumber: 2.0 Consensus size: 35
1855825 TTTCAAAAAT
* *
1855835 ATATATATAATATAGTTTTGAAAATAATTTTTAGAA
1 ATATATATAATATAGTTTTAAAAAAAATTTTT-GAA
*
1855871 ATATATATTATATAGTTTTAAAAAAAATATTTTTGAA
1 ATATATATAATATAGTTTT-AAAAAAA-ATTTTTGAA
1855908 A
1 A
1855909 ACGTTTTGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
36 18 0.55
37 9 0.27
38 6 0.18
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.45
Consensus pattern (35 bp):
ATATATATAATATAGTTTTAAAAAAAATTTTTGAA
Done.