Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001129.1 Hibiscus syriacus cultivar Beakdansim tig00002237_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: 21326069
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 69 of 89
Found at i:16490541 original size:165 final size:166
Alignment explanation
Indices: 16490255--16490586 Score: 576
Period size: 165 Copynumber: 2.0 Consensus size: 166
16490245 TTTTCCTACG
*
16490255 CGTGAAAATCATCACACGCTAAGTATACACTTAATGAAGCAATCATATGAATATTAAAAATAATG
1 CGTGAAAATCATCACACGCTAAGAATACACTTAATGAAGCAATCATATGAATATTAAAAATAATG
* * *
16490320 CAACACATAAATTTAAATGAATAACCATATTCAATGCAATATAATCATTGTACCTGTATTCTAAC
66 CAACACATAAATTTAAATGAATAACCATATTCAATGCAATATAATCACTATACCTGTATTCCAAC
*
16490385 CATGTTACCATATATTAACATGATATAATCGGATAT
131 CATGTTAACATATATTAACATGATATAATCGGATAT
*
16490421 CGTGAAAATCATCACACGCTAAGAATACACTTAATGAA-CAATCATATGAATATTTAAAATAATG
1 CGTGAAAATCATCACACGCTAAGAATACACTTAATGAAGCAATCATATGAATATTAAAAATAATG
**
16490485 CAACACATAAATTTAAATGAATAACCATATTCAATGCAATATGGTCACTATACCTGTATTCCAAC
66 CAACACATAAATTTAAATGAATAACCATATTCAATGCAATATAATCACTATACCTGTATTCCAAC
*
16490550 CATGTTAACATATATTAACATGATATAATCGTATAT
131 CATGTTAACATATATTAACATGATATAATCGGATAT
16490586 C
1 C
16490587 AAGTTTCTTA
Statistics
Matches: 157, Mismatches: 9, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
165 120 0.76
166 37 0.24
ACGTcount: A:0.43, C:0.17, G:0.09, T:0.30
Consensus pattern (166 bp):
CGTGAAAATCATCACACGCTAAGAATACACTTAATGAAGCAATCATATGAATATTAAAAATAATG
CAACACATAAATTTAAATGAATAACCATATTCAATGCAATATAATCACTATACCTGTATTCCAAC
CATGTTAACATATATTAACATGATATAATCGGATAT
Found at i:16491531 original size:18 final size:17
Alignment explanation
Indices: 16491510--16491547 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
16491500 ACTTATAAAG
*
16491510 TTATCCTAATATATATAA
1 TTATACTAATAT-TATAA
16491528 TTATACTAATATTATAA
1 TTATACTAATATTATAA
16491545 TTA
1 TTA
16491548 GTTTTAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (17 bp):
TTATACTAATATTATAA
Found at i:16492548 original size:22 final size:22
Alignment explanation
Indices: 16492493--16492556 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 22
16492483 TCCATTTGTA
*
16492493 ATTATAAATA-ATATA-ATAAT
1 ATTATATATATATATATATAAT
*
16492513 -TTAT-TA-ATACATATATAAT
1 ATTATATATATATATATATAAT
16492532 ATTATATATATATATATATTAAT
1 ATTATATATATATATATA-TAAT
16492555 AT
1 AT
16492557 AACACTCGGA
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
17 1 0.03
18 5 0.14
19 9 0.26
20 4 0.11
21 2 0.06
22 8 0.23
23 6 0.17
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (22 bp):
ATTATATATATATATATATAAT
Found at i:16493309 original size:20 final size:20
Alignment explanation
Indices: 16493266--16493314 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
16493256 AACCTACGCT
* * * *
16493266 GAGGCTTTACAAATGACTTG
1 GAGGATTTACAAATCACCTA
*
16493286 GAGGTTTTACAAATCACCTA
1 GAGGATTTACAAATCACCTA
16493306 GAGGATTTA
1 GAGGATTTA
16493315 ATTTTATAGA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.31
Consensus pattern (20 bp):
GAGGATTTACAAATCACCTA
Found at i:16493364 original size:119 final size:119
Alignment explanation
Indices: 16493187--16493491 Score: 443
Period size: 119 Copynumber: 2.6 Consensus size: 119
16493177 AATTTACTAG
* * * *
16493187 GAGGCTTTAATTTTCTAAAACATTGAATGAGAAACTTTGAAAATCGCTTTCTCATTTTCATGCGA
1 GAGGATTTAATTTTCTAGAACATTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTCATGAGA
* * *
16493252 AAACAACCTACGC-TGAGGCTTTACAAATGACTTGGAGGTTTTACAAATCACCTA
66 AAACAACCTAC-CTTGAGGCTTTACAAATGACTCGGAGGCTTTACAAATCACCCA
* * *
16493306 GAGGATTTAATTTTATAGAACATTAAATGAGAAACTTTGAAAATCACTTTCTCATTTTCATGTGA
1 GAGGATTTAATTTTCTAGAACATTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTCATGAGA
* * * *
16493371 AAACATCCTACCTTGAGGTTTTACAGATGACTCGGAGGCTTTACAAATCACCCG
66 AAACAACCTACCTTGAGGCTTTACAAATGACTCGGAGGCTTTACAAATCACCCA
* *
16493425 GAGGATTT-ATTTTCTAGAACATTAAATGAGAAACTTTGAAGATCGCTTTCTTATTTTCATGAGA
1 GAGGATTTAATTTTCTAGAACATTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTCATGAGA
16493489 AAA
66 AAA
16493492 TCATATGTAA
Statistics
Matches: 167, Mismatches: 18, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
118 55 0.33
119 112 0.67
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.33
Consensus pattern (119 bp):
GAGGATTTAATTTTCTAGAACATTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTCATGAGA
AAACAACCTACCTTGAGGCTTTACAAATGACTCGGAGGCTTTACAAATCACCCA
Found at i:16500632 original size:18 final size:17
Alignment explanation
Indices: 16500611--16500648 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
16500601 ACTTATAAAG
*
16500611 TTATCCTAATATATATAA
1 TTATACTAATAT-TATAA
16500629 TTATACTAATATTATAA
1 TTATACTAATATTATAA
16500646 TTA
1 TTA
16500649 GTTTTAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (17 bp):
TTATACTAATATTATAA
Found at i:16500807 original size:21 final size:21
Alignment explanation
Indices: 16500783--16500822 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
16500773 ATAAGTAAAC
16500783 AAAATATAAGAACCAAATTAA
1 AAAATATAAGAACCAAATTAA
* * *
16500804 AAAATGTAGGAACCTAATT
1 AAAATATAAGAACCAAATT
16500823 TTGTGACTGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.57, C:0.10, G:0.10, T:0.23
Consensus pattern (21 bp):
AAAATATAAGAACCAAATTAA
Found at i:16501904 original size:17 final size:19
Alignment explanation
Indices: 16501882--16501926 Score: 58
Period size: 17 Copynumber: 2.4 Consensus size: 19
16501872 AAATAATATA
16501882 ATAATATAT-TA-ATACAT
1 ATAATATATGTATATACAT
*
16501899 ATAATATATGTATATATAT
1 ATAATATATGTATATACAT
16501918 ATTAATATA
1 A-TAATATA
16501927 ACACTCAGAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 9 0.38
18 2 0.08
19 6 0.25
20 7 0.29
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (19 bp):
ATAATATATGTATATACAT
Found at i:16501925 original size:8 final size:9
Alignment explanation
Indices: 16501874--16501926 Score: 56
Period size: 8 Copynumber: 5.9 Consensus size: 9
16501864 GTAATAATAA
16501874 ATAATATA-
1 ATAATATAT
16501882 ATAATATAT
1 ATAATATAT
*
16501891 -TAATACAT
1 ATAATATAT
16501899 ATAATATAT
1 ATAATATAT
*
16501908 GTATATATAT
1 ATA-ATATAT
16501918 ATTAATATA
1 A-TAATATA
16501927 ACACTCAGAC
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
8 15 0.41
9 9 0.24
10 11 0.30
11 2 0.05
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (9 bp):
ATAATATAT
Found at i:16515570 original size:28 final size:28
Alignment explanation
Indices: 16515505--16515573 Score: 102
Period size: 28 Copynumber: 2.5 Consensus size: 28
16515495 TTGGTTTTTG
* *
16515505 AACTGTTGACTCTGCATTACTGAATATA
1 AACTGTTGATTTTGCATTACTGAATATA
* *
16515533 AACTGTTGATTTTGTATTACTGAATCTA
1 AACTGTTGATTTTGCATTACTGAATATA
16515561 AACTGTTGATTTT
1 AACTGTTGATTTT
16515574 AAACTGTCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.29, C:0.13, G:0.14, T:0.43
Consensus pattern (28 bp):
AACTGTTGATTTTGCATTACTGAATATA
Found at i:16519358 original size:21 final size:21
Alignment explanation
Indices: 16519332--16519371 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
16519322 AAACAATTGG
16519332 TAACAATTGATATCATTTTGT
1 TAACAATTGATATCATTTTGT
* *
16519353 TAACAATTGGTATCTTTTT
1 TAACAATTGATATCATTTT
16519372 CATTAAACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (21 bp):
TAACAATTGATATCATTTTGT
Found at i:16519642 original size:20 final size:20
Alignment explanation
Indices: 16519617--16519671 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
16519607 ACCTGCCACT
16519617 AGTGCATCGATGCACCATGA
1 AGTGCATCGATGCACCATGA
16519637 AGTGCATCGATGCACCATGA
1 AGTGCATCGATGCACCATGA
*
16519657 AGTGCATCCATGCAC
1 AGTGCATCGATGCAC
16519672 TCCATTTCGA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.29, C:0.27, G:0.24, T:0.20
Consensus pattern (20 bp):
AGTGCATCGATGCACCATGA
Found at i:16519714 original size:20 final size:20
Alignment explanation
Indices: 16519691--16519737 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
16519681 AATGGACTTA
* * *
16519691 GTGCATTGATGCATCCTGTT
1 GTGCATCGATCCATCCTGCT
16519711 GTGCATCGATCCATCCTGCT
1 GTGCATCGATCCATCCTGCT
16519731 GTGCATC
1 GTGCATC
16519738 CATGTACGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.15, C:0.28, G:0.23, T:0.34
Consensus pattern (20 bp):
GTGCATCGATCCATCCTGCT
Found at i:16520139 original size:34 final size:32
Alignment explanation
Indices: 16520100--16520169 Score: 77
Period size: 34 Copynumber: 2.1 Consensus size: 32
16520090 ATTTGTAAAG
* * *
16520100 GGGAAATATTCTAGCTTATTCCGTGTAAAAGCTA
1 GGGAAAGATTCTAGCTTA-GCC-TGTAAAAACTA
* *
16520134 GGGAAAGGTTCTAGTTTAGCCTGTAAAAACTA
1 GGGAAAGATTCTAGCTTAGCCTGTAAAAACTA
16520166 GGGA
1 GGGA
16520170 GTTGTAAGGT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
32 14 0.45
33 2 0.06
34 15 0.48
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.29
Consensus pattern (32 bp):
GGGAAAGATTCTAGCTTAGCCTGTAAAAACTA
Found at i:16524600 original size:11 final size:12
Alignment explanation
Indices: 16524576--16524604 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
16524566 ATTTTTGATG
16524576 AAAATCAAGAAA
1 AAAATCAAGAAA
16524588 AAAATCAAGAAA
1 AAAATCAAGAAA
16524600 AAAAT
1 AAAAT
16524605 TAAAACTAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.76, C:0.07, G:0.07, T:0.10
Consensus pattern (12 bp):
AAAATCAAGAAA
Found at i:16525330 original size:20 final size:20
Alignment explanation
Indices: 16525305--16525378 Score: 121
Period size: 20 Copynumber: 3.7 Consensus size: 20
16525295 AAAACTTCCT
*
16525305 CGGTATCGATACTTTACCCA
1 CGGTATCGATACTCTACCCA
*
16525325 CGGTATTGATACTCTACCCA
1 CGGTATCGATACTCTACCCA
16525345 CGGTATCGATACTCTACCCA
1 CGGTATCGATACTCTACCCA
*
16525365 CGATATCGATACTC
1 CGGTATCGATACTC
16525379 CATAAGTATC
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 50 1.00
ACGTcount: A:0.26, C:0.31, G:0.15, T:0.28
Consensus pattern (20 bp):
CGGTATCGATACTCTACCCA
Found at i:16529196 original size:21 final size:21
Alignment explanation
Indices: 16529172--16529216 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
16529162 TACATTAATT
16529172 ATATTAAACAAATTTATTCGA
1 ATATTAAACAAATTTATTCGA
* * *
16529193 ATATTAAATATATTTTTTCGA
1 ATATTAAACAAATTTATTCGA
16529214 ATA
1 ATA
16529217 ATTCTTAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.44
Consensus pattern (21 bp):
ATATTAAACAAATTTATTCGA
Found at i:16530729 original size:3 final size:3
Alignment explanation
Indices: 16530723--16530753 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
16530713 AATTATTAAT
16530723 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
16530754 TTAGGACGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:16531115 original size:82 final size:82
Alignment explanation
Indices: 16530912--16531490 Score: 666
Period size: 82 Copynumber: 7.1 Consensus size: 82
16530902 GATAAAATCG
* * * * *
16530912 AACTTGATATGTTCCTCTTTTTTGGGTAGTCGGATCAATTTTGGAAGACAGGTCTACTCCACTCT
1 AACTTGATTTGTTCCTCTTTTTTGGGTAGTCAGATCAATTTTGGAAGACGGGTCTGCTCCTCTCT
**
16530977 TCTTT-TGGGGAGATCA
66 TCTTTCAAGGGAGATCA
* ** * * *
16530993 GACTTGACATGTTCCTCTTTTTTGGGTAGTCAGATAAATTTTGGAAGATGGGTCTGCTCCACTCT
1 AACTTGATTTGTTCCTCTTTTTTGGGTAGTCAGATCAATTTTGGAAGACGGGTCTGCTCCTCTCT
16531058 TCTTTCAAGGGAGATCA
66 TCTTTCAAGGGAGATCA
* * * * *
16531075 AACTTTATTTGTTCCTCTTTTTTGGGTAGTCAGATCAATTTTGGAAGATGGATCTACTCCTCTCA
1 AACTTGATTTGTTCCTCTTTTTTGGGTAGTCAGATCAATTTTGGAAGACGGGTCTGCTCCTCTCT
* *
16531140 TCTTTCAGGGGAGAACA
66 TCTTTCAAGGGAGATCA
* * * * * *
16531157 TACTTGATTTGTTCCTGTTTTTCGGGTAATCAGATCAATTTTGGAAGATC-AGTCTGCTCCTCTA
1 AACTTGATTTGTTCCTCTTTTTTGGGTAGTCAGATCAATTTTGGAAGA-CGGGTCTGCTCCTCTC
* *
16531221 TTCTTTCATGGAAGAT-A
65 TTCTTTCAAGGGAGATCA
* * * * *
16531238 ATACTTGATATGTTCCTCTTTTTTAGGTAGTCAGGTCAATTTTGGAAGAC-GGTCTTCTCCACTC
1 A-ACTTGATTTGTTCCTCTTTTTTGGGTAGTCAGATCAATTTTGGAAGACGGGTCTGCTCCTCTC
*
16531302 TTCTTTC-AGGGAATATCA
65 TTCTTTCAAGGG-AGATCA
* *
16531320 TACTTGAGTTGTTCCTCTTTTTTGGGTAGTCAGATCAATTTTGGAAGACGGGTCTGCTCCTCTCT
1 AACTTGATTTGTTCCTCTTTTTTGGGTAGTCAGATCAATTTTGGAAGACGGGTCTGCTCCTCTCT
*
16531385 TCTTTCAGGGGAGATCA
66 TCTTTCAAGGGAGATCA
* ** * * *
16531402 GACTTGATATT-TTCCTCTTTTTTATGTAGTCAGATCAATTTTGGAAGACGTGTTTGCTCCTCTT
1 AACTTGAT-TTGTTCCTCTTTTTTGGGTAGTCAGATCAATTTTGGAAGACGGGTCTGCTCCTCTC
* *
16531466 TTCTTTCAAGGAAGATTA
65 TTCTTTCAAGGGAGATCA
*
16531484 TACTTGA
1 AACTTGA
16531491 GGATTAATTT
Statistics
Matches: 422, Mismatches: 68, Indels: 15
0.84 0.13 0.03
Matches are distributed among these distances:
80 2 0.00
81 129 0.31
82 286 0.68
83 5 0.01
ACGTcount: A:0.21, C:0.18, G:0.20, T:0.40
Consensus pattern (82 bp):
AACTTGATTTGTTCCTCTTTTTTGGGTAGTCAGATCAATTTTGGAAGACGGGTCTGCTCCTCTCT
TCTTTCAAGGGAGATCA
Found at i:16531343 original size:245 final size:245
Alignment explanation
Indices: 16530913--16531490 Score: 761
Period size: 245 Copynumber: 2.4 Consensus size: 245
16530903 ATAAAATCGA
* * * * *
16530913 ACTTGATATGTTCCTCTTTTTTGGGTAGTCGGATCAATTTTGGAAGACAGGTCTACTCCACTCTT
1 ACTTGATTTGTTCCTCTTTTTTGGGTAGTCAGATCAATTTTGGAAGACA-GTCTGCTCCTCTATT
* * * *
16530978 CTTT--TGGGGAGATCAGACTTGACATGTTCCTCTTTTTTGGGTAGTCAGATAAATTTTGGAAGA
65 CTTTCAT-GGAAGATAATACTTGACATGTTCCTCTTTTTTAGGTAGTCAGATAAATTTTGGAAGA
* * *
16531041 TGGGTCTGCTCCACTCTTCTTTCAAGGGAGATCAAACTTTATTTGTTCCTCTTTTTTGGGTAGTC
129 TCGGTCTGCTCCACTCTTCTTTCAAGGGAGATCAAACTTGAGTTGTTCCTCTTTTTTGGGTAGTC
* *
16531106 AGATCAATTTTGGAAGATGGATCTACTCCTCTCATCTTTCAGGGGAGAACAT
194 AGATCAATTTTGGAAGACGGATCTACTCCTCTCATCTTTCAGGGGAGAACAG
* * *
16531158 ACTTGATTTGTTCCTGTTTTTCGGGTAATCAGATCAATTTTGGAAGATCAGTCTGCTCCTCTATT
1 ACTTGATTTGTTCCTCTTTTTTGGGTAGTCAGATCAATTTTGGAAGA-CAGTCTGCTCCTCTATT
* * *
16531223 CTTTCATGGAAGATAATACTTGATATGTTCCTCTTTTTTAGGTAGTCAGGTCAATTTTGGAAGA-
65 CTTTCATGGAAGATAATACTTGACATGTTCCTCTTTTTTAGGTAGTCAGATAAATTTTGGAAGAT
* * *
16531287 CGGTCTTCTCCACTCTTCTTTC-AGGGAATATCATACTTGAGTTGTTCCTCTTTTTTGGGTAGTC
130 CGGTCTGCTCCACTCTTCTTTCAAGGG-AGATCAAACTTGAGTTGTTCCTCTTTTTTGGGTAGTC
* * * *
16531351 AGATCAATTTTGGAAGACGGGTCTGCTCCTCTCTTCTTTCAGGGGAGATCAG
194 AGATCAATTTTGGAAGACGGATCTACTCCTCTCATCTTTCAGGGGAGAACAG
** * * *
16531403 ACTTGATATT-TTCCTCTTTTTTATGTAGTCAGATCAATTTTGGAAGACGTGTTTGCTCCTCTTT
1 ACTTGAT-TTGTTCCTCTTTTTTGGGTAGTCAGATCAATTTTGGAAGAC-AGTCTGCTCCTCTAT
* *
16531467 TCTTTCAAGGAAGATTATACTTGA
64 TCTTTCATGGAAGATAATACTTGA
16531491 GGATTAATTT
Statistics
Matches: 290, Mismatches: 37, Indels: 12
0.86 0.11 0.04
Matches are distributed among these distances:
244 5 0.02
245 230 0.79
246 54 0.19
247 1 0.00
ACGTcount: A:0.21, C:0.18, G:0.20, T:0.40
Consensus pattern (245 bp):
ACTTGATTTGTTCCTCTTTTTTGGGTAGTCAGATCAATTTTGGAAGACAGTCTGCTCCTCTATTC
TTTCATGGAAGATAATACTTGACATGTTCCTCTTTTTTAGGTAGTCAGATAAATTTTGGAAGATC
GGTCTGCTCCACTCTTCTTTCAAGGGAGATCAAACTTGAGTTGTTCCTCTTTTTTGGGTAGTCAG
ATCAATTTTGGAAGACGGATCTACTCCTCTCATCTTTCAGGGGAGAACAG
Found at i:16531378 original size:163 final size:162
Alignment explanation
Indices: 16530912--16531491 Score: 732
Period size: 163 Copynumber: 3.5 Consensus size: 162
16530902 GATAAAATCG
* *
16530912 AACTTGATATGTTCCTCTTTTTTGGGTAGTCGGATCAATTTTGGAAGACAGGTCTACTCCACTCT
1 AACTTGATATGTTCCTCTTTTTTAGGTAGTCAGATCAATTTTGGAAGAC-GGTCTACTCCACTCT
* * * ** *
16530977 TCTTT-TGGGGAGATCAGACTTGACATGTTCCTCTTTTTTGGGTAGTCAGATAAATTTTGGAAGA
65 TCTTTCAGGGAAGATCATACTTGAGTTGTTCCTCTTTTTTGGGTAGTCAGATCAATTTTGGAAGA
* *
16531041 TGGGTCTGCTCCACTCTTCTTTCAAGGGAGATCA
130 CGGGTCTGCTCCTCTCTTCTTTCAAGGGAGAT-A
* * * * * *
16531075 AACTTTATTTGTTCCTCTTTTTTGGGTAGTCAGATCAATTTTGGAAGATGGATCTACTCCTCTCA
1 AACTTGATATGTTCCTCTTTTTTAGGTAGTCAGATCAATTTTGGAAGACGG-TCTACTCCACTCT
* * * * * *
16531140 TCTTTCAGGGGAGAACATACTTGATTTGTTCCTGTTTTTCGGGTAATCAGATCAATTTTGGAAGA
65 TCTTTCAGGGAAGATCATACTTGAGTTGTTCCTCTTTTTTGGGTAGTCAGATCAATTTTGGAAGA
* * * *
16531205 TC-AGTCTGCTCCTCTATTCTTTCATGGAAGATA
130 -CGGGTCTGCTCCTCTCTTCTTTCAAGGGAGATA
* *
16531238 ATACTTGATATGTTCCTCTTTTTTAGGTAGTCAGGTCAATTTTGGAAGACGGTCTTCTCCACTCT
1 A-ACTTGATATGTTCCTCTTTTTTAGGTAGTCAGATCAATTTTGGAAGACGGTCTACTCCACTCT
*
16531303 TCTTTCAGGGAATATCATACTTGAGTTGTTCCTCTTTTTTGGGTAGTCAGATCAATTTTGGAAGA
65 TCTTTCAGGGAAGATCATACTTGAGTTGTTCCTCTTTTTTGGGTAGTCAGATCAATTTTGGAAGA
*
16531368 CGGGTCTGCTCCTCTCTTCTTTCAGGGGAGATCA
130 CGGGTCTGCTCCTCTCTTCTTTCAAGGGAGAT-A
* * * * * * *
16531402 GACTTGATATTTTCCTCTTTTTTATGTAGTCAGATCAATTTTGGAAGACGTGTTTGCTCCTCTTT
1 AACTTGATATGTTCCTCTTTTTTAGGTAGTCAGATCAATTTTGGAAGACG-GTCTACTCCACTCT
* *
16531467 TCTTTCAAGGAAGATTATACTTGAG
65 TCTTTCAGGGAAGATCATACTTGAG
16531492 GATTAATTTG
Statistics
Matches: 359, Mismatches: 51, Indels: 13
0.85 0.12 0.03
Matches are distributed among these distances:
162 3 0.01
163 203 0.57
164 153 0.43
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.40
Consensus pattern (162 bp):
AACTTGATATGTTCCTCTTTTTTAGGTAGTCAGATCAATTTTGGAAGACGGTCTACTCCACTCTT
CTTTCAGGGAAGATCATACTTGAGTTGTTCCTCTTTTTTGGGTAGTCAGATCAATTTTGGAAGAC
GGGTCTGCTCCTCTCTTCTTTCAAGGGAGATA
Found at i:16531734 original size:56 final size:56
Alignment explanation
Indices: 16531647--16531757 Score: 152
Period size: 56 Copynumber: 2.0 Consensus size: 56
16531637 TTCTCTCCAG
*
16531647 GAATAACAAAAATTGACTTCTTTTTACGAGGAAGTCAAGGATTGACTCCTCTTCAA
1 GAATAACAAAAATTGACTTCTTTTCACGAGGAAGTCAAGGATTGACTCCTCTTCAA
* * * **
16531703 GAATAACAAAGATTTACTT-TTATTCATGAGGAAGTCAAGGATTGGTTCCTCTTCA
1 GAATAACAAAAATTGACTTCTT-TTCACGAGGAAGTCAAGGATTGACTCCTCTTCA
16531758 TGCGAGAGTC
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
55 2 0.04
56 46 0.96
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.32
Consensus pattern (56 bp):
GAATAACAAAAATTGACTTCTTTTCACGAGGAAGTCAAGGATTGACTCCTCTTCAA
Found at i:16535924 original size:43 final size:42
Alignment explanation
Indices: 16535863--16536377 Score: 392
Period size: 43 Copynumber: 12.1 Consensus size: 42
16535853 AACAAAAAAT
* *
16535863 GCCGCAATAGGTCAAGATCTATCGCGGCGTTTTTGGAACAAAC
1 GCCGCAAAAGGTC-AGATCTATAGCGGCGTTTTTGGAACAAAC
* * **
16535906 GCCGCAAAAGTTCGAGATCTATAGCAGCGTTTTTTCCAA-AAAC
1 GCCGCAAAAGGTC-AGATCTATAGCGGCG-TTTTTGGAACAAAC
** * ** *
16535949 GCTACAAAAGGTCAATATCTATAGCGGC-TTTTCAGAATAAAC
1 GCCGCAAAAGGTC-AGATCTATAGCGGCGTTTTTGGAACAAAC
* * * ** *
16535991 GCCGCAAAAGGTCAAGATATATAGTGACGTTTTCAGAATAAAC
1 GCCGCAAAAGGTC-AGATCTATAGCGGCGTTTTTGGAACAAAC
* * * * *
16536034 GCCGTAAAAGGTCAGATCGATAGCGTCATTTTTGGAACAAAT
1 GCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGGAACAAAC
* * * *
16536076 GCCGCAAAAGGTTAGATCTGTAGTGGTGTTTTTGGAA-AACAC
1 GCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGGAACAA-AC
* * * * **
16536118 ACCGCAAAAGGTCTATATCTACAGCGGTGTTTTCAGAACAAAC
1 GCCGCAAAAGGTC-AGATCTATAGCGGCGTTTTTGGAACAAAC
* * * * * ** * **
16536161 GCCACAAAAGGTCAATATATATAGCAGTGTTTTCAGAATAAGG
1 GCCGCAAAAGGTC-AGATCTATAGCGGCGTTTTTGGAACAAAC
* * *
16536204 GCCGCAAAAGGTCAGATCGATAGCGTCATTTTTGGAACAAAC
1 GCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGGAACAAAC
* *
16536246 GCCGTAAAAGGTCAGATCTATAGCGGCGTTTTTGGATACAAAT
1 GCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGGA-ACAAAC
* * **
16536289 GCCGTAAAA-ATCCAGATCTATAGCGGTATTTTTGGAACAAAC
1 GCCGCAAAAGGT-CAGATCTATAGCGGCGTTTTTGGAACAAAC
* * * *
16536331 GCCACAAAAGGTCATATCTATAGCGGCATTTTT-TATACAAAC
1 GCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGGA-ACAAAC
16536373 GCCGC
1 GCCGC
16536378 GAATTAAAAC
Statistics
Matches: 375, Mismatches: 87, Indels: 21
0.78 0.18 0.04
Matches are distributed among these distances:
41 9 0.02
42 178 0.47
43 179 0.48
44 9 0.02
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (42 bp):
GCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGGAACAAAC
Found at i:16536174 original size:170 final size:171
Alignment explanation
Indices: 16535863--16536344 Score: 530
Period size: 170 Copynumber: 2.8 Consensus size: 171
16535853 AACAAAAAAT
* * * * * *
16535863 GCCGCAATAGGTCAAGATCTATCGCGGCGTTTTTGGAACAAACGCCGCAAAAGTTCGAGATCTAT
1 GCCGCAAAAGGTC-AGATCGATAGCGTCATTTTTGGAACAAACGCCGCAAAAGGTC-AGATCTAT
* * * * * *
16535928 AGCAGCGTTTTT---TCCAAAAACGCTACAAAAGGTCAATATCTATAGCGG-CTTTTCAGAATAA
64 AGCGGCGTTTTTGGATACAAACAC-C-GCAAAAGGTCAATATCTATAGCGGTATTTTCAGAACAA
* *
16535989 ACGCCGCAAAAGGTCAAGATATATAG-TGACGTTTTCAGAATAAAC
127 ACGCCACAAAAGGTCAAGATATATAGCAG-CGTTTTCAGAATAAAC
* * * *
16536034 GCCGTAAAAGGTCAGATCGATAGCGTCATTTTTGGAACAAATGCCGCAAAAGGTTAGATCTGTAG
1 GCCGCAAAAGGTCAGATCGATAGCGTCATTTTTGGAACAAACGCCGCAAAAGGTCAGATCTATAG
* * * * *
16536099 TGGTGTTTTTGGA-A-AACACACCGCAAAAGGTCTATATCTACAGCGGTGTTTTCAGAACAAACG
66 CGGCGTTTTTGGATACAA-ACACCGCAAAAGGTCAATATCTATAGCGGTATTTTCAGAACAAACG
* * **
16536162 CCACAAAAGGTCAATATATATAGCAGTGTTTTCAGAATAAGG
130 CCACAAAAGGTCAAGATATATAGCAGCGTTTTCAGAATAAAC
*
16536204 GCCGCAAAAGGTCAGATCGATAGCGTCATTTTTGGAACAAACGCCGTAAAAGGTCAGATCTATAG
1 GCCGCAAAAGGTCAGATCGATAGCGTCATTTTTGGAACAAACGCCGCAAAAGGTCAGATCTATAG
** * * * * **
16536269 CGGCGTTTTTGGATACAAATGCCGTAAAA-ATCCAGATCTATAGCGGTATTTTTGGAACAAACGC
66 CGGCGTTTTTGGATACAAACACCGCAAAAGGTCAATATCTATAGCGGTATTTTCAGAACAAACGC
16536333 CACAAAAGGTCA
131 CACAAAAGGTCA
16536345 TATCTATAGC
Statistics
Matches: 260, Mismatches: 43, Indels: 17
0.81 0.13 0.05
Matches are distributed among these distances:
169 37 0.14
170 197 0.76
171 24 0.09
172 2 0.01
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (171 bp):
GCCGCAAAAGGTCAGATCGATAGCGTCATTTTTGGAACAAACGCCGCAAAAGGTCAGATCTATAG
CGGCGTTTTTGGATACAAACACCGCAAAAGGTCAATATCTATAGCGGTATTTTCAGAACAAACGC
CACAAAAGGTCAAGATATATAGCAGCGTTTTCAGAATAAAC
Found at i:16536350 original size:85 final size:85
Alignment explanation
Indices: 16535863--16536377 Score: 346
Period size: 85 Copynumber: 6.1 Consensus size: 85
16535853 AACAAAAAAT
* * * * * * * *
16535863 GCCGCAATAGGTCAAGATCTATCGCGGCGTTTTTGGAACAAACGCCGCAAAAGTTCGAGATCTAT
1 GCCGCAAAAGGTCCAGATCGATAGCGTCATTTTTGGAACAAACGCCACAAAAGGTC-AGATCTAT
* **
16535928 AGCAGCGTTTTTTCCAA-AAAC
65 AGCGGCG-TTTTTGGAACAAAC
** * * * * ** * * *
16535949 GCTACAAAAGGTCAATATCTATAGCGGC-TTTTCAGAATAAACGCCGCAAAAGGTCAAGATATAT
1 GCCGCAAAAGGTCCAGATCGATAGCGTCATTTTTGGAACAAACGCCACAAAAGGTC-AGATCTAT
* * ** *
16536013 AGTGACGTTTTCAGAATAAAC
65 AGCGGCGTTTTTGGAACAAAC
* * * * *
16536034 GCCGTAAAAGGT-CAGATCGATAGCGTCATTTTTGGAACAAATGCCGCAAAAGGTTAGATCTGTA
1 GCCGCAAAAGGTCCAGATCGATAGCGTCATTTTTGGAACAAACGCCACAAAAGGTCAGATCTATA
* *
16536098 GTGGTGTTTTTGGAA-AACAC
66 GCGGCGTTTTTGGAACAA-AC
* * * * * * ** * *
16536118 ACCGCAAAAGGTCTATATCTACAGCGGT-GTTTTCAGAACAAACGCCACAAAAGGTCAATATATA
1 GCCGCAAAAGGTCCAGATCGATAGC-GTCATTTTTGGAACAAACGCCACAAAAGGTC-AGATCTA
* * ** * **
16536182 TAGCAGTGTTTTCAGAATAAGG
64 TAGCGGCGTTTTTGGAACAAAC
**
16536204 GCCGCAAAAGGT-CAGATCGATAGCGTCATTTTTGGAACAAACGCCGTAAAAGGTCAGATCTATA
1 GCCGCAAAAGGTCCAGATCGATAGCGTCATTTTTGGAACAAACGCCACAAAAGGTCAGATCTATA
*
16536268 GCGGCGTTTTTGGATACAAAT
66 GCGGCGTTTTTGGA-ACAAAC
* * * *
16536289 GCCGTAAAA-ATCCAGATCTATAGCGGT-ATTTTTGGAACAAACGCCACAAAAGGTCATATCTAT
1 GCCGCAAAAGGTCCAGATCGATAGC-GTCATTTTTGGAACAAACGCCACAAAAGGTCAGATCTAT
* *
16536352 AGCGGCATTTTT-TATACAAAC
65 AGCGGCGTTTTTGGA-ACAAAC
16536373 GCCGC
1 GCCGC
16536378 GAATTAAAAC
Statistics
Matches: 333, Mismatches: 85, Indels: 24
0.75 0.19 0.05
Matches are distributed among these distances:
83 2 0.01
84 78 0.23
85 196 0.59
86 55 0.17
87 2 0.01
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (85 bp):
GCCGCAAAAGGTCCAGATCGATAGCGTCATTTTTGGAACAAACGCCACAAAAGGTCAGATCTATA
GCGGCGTTTTTGGAACAAAC
Found at i:16536371 original size:42 final size:42
Alignment explanation
Indices: 16535863--16536377 Score: 365
Period size: 42 Copynumber: 12.1 Consensus size: 42
16535853 AACAAAAAAT
* * *
16535863 GCCGCAATAGGTCAAGATCTATCGCGGCGTTTTTGGAACAAAC
1 GCCGCAAAAGGTC-AGATCTATAGCGGCATTTTTGGAACAAAC
* * * **
16535906 GCCGCAAAAGTTCGAGATCTATAGCAGCGTTTTTTCCAA-AAAC
1 GCCGCAAAAGGTC-AGATCTATAGCGGC-ATTTTTGGAACAAAC
** * ** *
16535949 GCTACAAAAGGTCAATATCTATAGCGGC-TTTTCAGAATAAAC
1 GCCGCAAAAGGTC-AGATCTATAGCGGCATTTTTGGAACAAAC
* * * * ** *
16535991 GCCGCAAAAGGTCAAGATATATAGTGACGTTTTCAGAATAAAC
1 GCCGCAAAAGGTC-AGATCTATAGCGGCATTTTTGGAACAAAC
* * * *
16536034 GCCGTAAAAGGTCAGATCGATAGCGTCATTTTTGGAACAAAT
1 GCCGCAAAAGGTCAGATCTATAGCGGCATTTTTGGAACAAAC
* * * **
16536076 GCCGCAAAAGGTTAGATCTGTAGTGGTGTTTTTGGAA-AACAC
1 GCCGCAAAAGGTCAGATCTATAGCGGCATTTTTGGAACAA-AC
* * * ** **
16536118 ACCGCAAAAGGTCTATATCTACAGCGGTGTTTTCAGAACAAAC
1 GCCGCAAAAGGTC-AGATCTATAGCGGCATTTTTGGAACAAAC
* * * * ** ** * **
16536161 GCCACAAAAGGTCAATATATATAGCAGTGTTTTCAGAATAAGG
1 GCCGCAAAAGGTC-AGATCTATAGCGGCATTTTTGGAACAAAC
* *
16536204 GCCGCAAAAGGTCAGATCGATAGCGTCATTTTTGGAACAAAC
1 GCCGCAAAAGGTCAGATCTATAGCGGCATTTTTGGAACAAAC
* * *
16536246 GCCGTAAAAGGTCAGATCTATAGCGGCGTTTTTGGATACAAAT
1 GCCGCAAAAGGTCAGATCTATAGCGGCATTTTTGGA-ACAAAC
* * *
16536289 GCCGTAAAA-ATCCAGATCTATAGCGGTATTTTTGGAACAAAC
1 GCCGCAAAAGGT-CAGATCTATAGCGGCATTTTTGGAACAAAC
* * *
16536331 GCCACAAAAGGTCATATCTATAGCGGCATTTTT-TATACAAAC
1 GCCGCAAAAGGTCAGATCTATAGCGGCATTTTTGGA-ACAAAC
16536373 GCCGC
1 GCCGC
16536378 GAATTAAAAC
Statistics
Matches: 374, Mismatches: 88, Indels: 21
0.77 0.18 0.04
Matches are distributed among these distances:
41 9 0.02
42 178 0.48
43 178 0.48
44 9 0.02
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (42 bp):
GCCGCAAAAGGTCAGATCTATAGCGGCATTTTTGGAACAAAC
Found at i:16536497 original size:21 final size:22
Alignment explanation
Indices: 16536460--16536513 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
16536450 ATTATTCAAT
* *
16536460 AAACTTGACA-TCGATAACATC
1 AAACTTGAAATTCGATAACAAC
*
16536481 AAACTTGAAATTC-ATAACAAG
1 AAACTTGAAATTCGATAACAAC
16536502 AAACTTGAAATT
1 AAACTTGAAATT
16536514 TATATTAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 27 0.93
22 2 0.07
ACGTcount: A:0.48, C:0.17, G:0.09, T:0.26
Consensus pattern (22 bp):
AAACTTGAAATTCGATAACAAC
Found at i:16542731 original size:10 final size:10
Alignment explanation
Indices: 16542716--16542740 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
16542706 TTAGTAAAAT
16542716 ATAAATAATA
1 ATAAATAATA
16542726 ATAAATAATA
1 ATAAATAATA
16542736 ATAAA
1 ATAAA
16542741 ATCCTACCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (10 bp):
ATAAATAATA
Found at i:16543777 original size:21 final size:20
Alignment explanation
Indices: 16543742--16543785 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
16543732 TTGTTTATCC
*
16543742 ATTTTTAAAATTTTTAATAT
1 ATTTTAAAAATTTTTAATAT
*
16543762 ATTTTAAAATATTTTTATTAT
1 ATTTTAAAA-ATTTTTAATAT
16543783 ATT
1 ATT
16543786 AATAATACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
ATTTTAAAAATTTTTAATAT
Found at i:16543787 original size:19 final size:20
Alignment explanation
Indices: 16543746--16543792 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
16543736 TTATCCATTT
*
16543746 TTAAAAT-TTTTAATATATT
1 TTAAAATATTTTAATATATA
*
16543765 TTAAAATATTTTTAT-TATA
1 TTAAAATATTTTAATATATA
16543784 TTAATAATA
1 TTAA-AATA
16543793 CTTGTGAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TTAAAATATTTTAATATATA
Found at i:16549674 original size:81 final size:82
Alignment explanation
Indices: 16549567--16549734 Score: 194
Period size: 81 Copynumber: 2.1 Consensus size: 82
16549557 CCTATTACTA
* * * * ** * *
16549567 CGTTTGTATAAAAATGCTGCTAAAGTACCAATGTATTGCGGCGTTTAT-TGAAAAATGCCACTAC
1 CGTTTCTATAAAAACGCCGCTAAAGTACCAATCTATTGCGGCGTTTATCAAAAAAACGCCACTAA
* * *
16549631 AGATGGACTTATTGTGG
66 AGATGCACCTATTATGG
* * * *
16549648 CGTTTCTATAAAAACGCCGCTAAAGTACTACTCTGTTGCGGCGTTTGTCAAAAAAACGCCACTAA
1 CGTTTCTATAAAAACGCCGCTAAAGTACCAATCTATTGCGGCGTTTATCAAAAAAACGCCACTAA
16549713 AGATGCACCTATTATGG
66 AGATGCACCTATTATGG
16549730 CGTTT
1 CGTTT
16549735 ATTGAAGAAA
Statistics
Matches: 71, Mismatches: 15, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
81 40 0.56
82 31 0.44
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.30
Consensus pattern (82 bp):
CGTTTCTATAAAAACGCCGCTAAAGTACCAATCTATTGCGGCGTTTATCAAAAAAACGCCACTAA
AGATGCACCTATTATGG
Found at i:16549746 original size:41 final size:40
Alignment explanation
Indices: 16549600--16549753 Score: 114
Period size: 41 Copynumber: 3.8 Consensus size: 40
16549590 AGTACCAATG
* * * * *
16549600 TATTGCGGCGTTTATTGAAAAATGCCACTACAGATGGACT
1 TATTGTGGCGTTTATTGAAAAACGCCACTAAAGATGCACC
* * *
16549640 TATTGTGGCGTTTCTAT-AAAAACGCCGCTAAAG-TACTACTC
1 TATTGTGGCGTTTAT-TGAAAAACGCCACTAAAGATGC-AC-C
* * * **
16549681 TGTTGCGGCGTTTGTCAAAAAAACGCCACTAAAGATGCACC
1 TATTGTGGCGTTTAT-TGAAAAACGCCACTAAAGATGCACC
* *
16549722 TATTATGGCGTTTATTGAAGAAACGACACTAA
1 TATTGTGGCGTTTATTGAA-AAACGCCACTAA
16549754 CATTACCATT
Statistics
Matches: 86, Mismatches: 22, Indels: 11
0.72 0.18 0.09
Matches are distributed among these distances:
39 1 0.01
40 30 0.35
41 36 0.42
42 17 0.20
43 2 0.02
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (40 bp):
TATTGTGGCGTTTATTGAAAAACGCCACTAAAGATGCACC
Found at i:16555630 original size:20 final size:20
Alignment explanation
Indices: 16555594--16555632 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
16555584 AACTATGGTA
*
16555594 GTGATCACCTAGGGGCGGCT
1 GTGATCACCTAGAGGCGGCT
16555614 GTGACTCACC-AGAGGCGGC
1 GTGA-TCACCTAGAGGCGGC
16555633 CATGAGTCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.18, C:0.28, G:0.38, T:0.15
Consensus pattern (20 bp):
GTGATCACCTAGAGGCGGCT
Found at i:16560300 original size:24 final size:24
Alignment explanation
Indices: 16560268--16560316 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
16560258 AGTCTTCCTA
16560268 ATGATGTATAAAACATCTATGTAC
1 ATGATGTATAAAACATCTATGTAC
16560292 ATGATGTATAAAACATCTATGTAC
1 ATGATGTATAAAACATCTATGTAC
16560316 A
1 A
16560317 ATGTCATGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.33
Consensus pattern (24 bp):
ATGATGTATAAAACATCTATGTAC
Found at i:16565906 original size:213 final size:213
Alignment explanation
Indices: 16565538--16565964 Score: 791
Period size: 213 Copynumber: 2.0 Consensus size: 213
16565528 CTATCAATAA
* *
16565538 ACTTTTGACATCCTAGTGGCATGTATACATTCTTGAATTAAAATAAAGTATTTCCATGTTTATAA
1 ACTTTTGACATCCTAGTGGCATGTATACATTCTTGAATTAAAATAAAGTATTTCCATGGTCATAA
16565603 ACGGCTAAACTGAAACCTCTGATACCAATAAATGTAACACCTAAAACCCATATAATTATACCTAT
66 ACGGCTAAACTGAAACCTCTGATACCAATAAATGTAACACCTAAAACCCATATAATTATACCTAT
*
16565668 ACAGATTATAGATGTCACATGAATTTCTCAACATTTTCCAATTCAAAATTGATTTAACATTTTTT
131 ACAGATTATAGATGTCACATGAATTTCTCAACATTTTCCAATTCAAAACTGATTTAACATTTTTT
16565733 CTTAAAATGATAACTGAT
196 CTTAAAATGATAACTGAT
*
16565751 ACTTTTGACATCCTAGTGGCATGTATACATTCTTGACTTAAAATAAAGTATTTCCATGGTCATAA
1 ACTTTTGACATCCTAGTGGCATGTATACATTCTTGAATTAAAATAAAGTATTTCCATGGTCATAA
* *
16565816 ATGGTTAAACTGAAACCTCTGATACCAATAAATGTAACACCTAAAACCCATATAATTATACCTAT
66 ACGGCTAAACTGAAACCTCTGATACCAATAAATGTAACACCTAAAACCCATATAATTATACCTAT
*
16565881 ACAGATTATAGATGTCACCTGAATTTCTCAACATTTTCCAATTCAAAACTGATTTAACATTTTTT
131 ACAGATTATAGATGTCACATGAATTTCTCAACATTTTCCAATTCAAAACTGATTTAACATTTTTT
16565946 CTTAAAATGATAACTGAT
196 CTTAAAATGATAACTGAT
16565964 A
1 A
16565965 ATATAAAAAT
Statistics
Matches: 207, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
213 207 1.00
ACGTcount: A:0.38, C:0.18, G:0.10, T:0.35
Consensus pattern (213 bp):
ACTTTTGACATCCTAGTGGCATGTATACATTCTTGAATTAAAATAAAGTATTTCCATGGTCATAA
ACGGCTAAACTGAAACCTCTGATACCAATAAATGTAACACCTAAAACCCATATAATTATACCTAT
ACAGATTATAGATGTCACATGAATTTCTCAACATTTTCCAATTCAAAACTGATTTAACATTTTTT
CTTAAAATGATAACTGAT
Found at i:16568862 original size:17 final size:17
Alignment explanation
Indices: 16568830--16568879 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
16568820 ATGAAAATGA
16568830 AAAG-GAATGAAG-AAAT
1 AAAGAGAAT-AAGAAAAT
16568846 AAAGAGAATAAGAAAAT
1 AAAGAGAATAAGAAAAT
* *
16568863 GAAGAGAATAAAAAAAT
1 AAAGAGAATAAGAAAAT
16568880 TTGGTTCGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
16 7 0.23
17 23 0.77
ACGTcount: A:0.68, C:0.00, G:0.20, T:0.12
Consensus pattern (17 bp):
AAAGAGAATAAGAAAAT
Found at i:16571119 original size:2 final size:2
Alignment explanation
Indices: 16571090--16571251 Score: 118
Period size: 2 Copynumber: 84.5 Consensus size: 2
16571080 AATATGCTTA
*
16571090 AT AT AA AT AT A- AT A- AT AT AT A- AT A- AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16571128 -T AT AT AGT AT A- AT ACT AT A- AT AT AT AT AT AT AT ACT AT AT
1 AT AT AT A-T AT AT AT A-T AT AT AT AT AT AT AT AT AT A-T AT AT
16571168 A- AT AT A- AT AT -T AT A- AT AT AT AT -T AT AT AT ACT AT AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT
* * * *
16571205 AT AT TT GT ACT AT AC ACT AT AT AT ACT GT AT A- AT AT AT AT AT
1 AT AT AT AT A-T AT AT A-T AT AT AT A-T AT AT AT AT AT AT AT AT
16571247 AT AT A
1 AT AT A
16571252 GAAAAAGAAA
Statistics
Matches: 130, Mismatches: 9, Indels: 42
0.72 0.05 0.23
Matches are distributed among these distances:
1 14 0.11
2 104 0.80
3 12 0.09
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.44
Consensus pattern (2 bp):
AT
Found at i:16571119 original size:20 final size:20
Alignment explanation
Indices: 16571025--16571208 Score: 87
Period size: 20 Copynumber: 8.9 Consensus size: 20
16571015 ATTGGACCTA
*
16571025 AATAA-ATAAAATAATAT-T
1 AATAATATATAATAATATAT
* * *
16571043 TATAAAATATAAT-ATTTA-
1 AATAATATATAATAATATAT
* *
16571061 AAT-ATATACAATGATATAT
1 AATAATATATAATAATATAT
* *
16571080 AAT-ATGCT-TAATATAAATAT
1 AATAAT-ATATAATA-ATATAT
16571100 AATAATATATAATAATATAT
1 AATAATATATAATAATATAT
16571120 ATATATATTATATAGTATAATACTAT
1 A-ATA-A-TATATA--ATAATA-TAT
*
16571146 AATATATATATATATACTATAT
1 AATA-ATATATA-ATAATATAT
*
16571168 AAT-ATAATATTATAATATAT
1 AATAAT-ATATAATAATATAT
*
16571188 ATTATATATACTATATAATAT
1 AATA-ATATA-TA-ATAATAT
16571209 TTGTACTATA
Statistics
Matches: 129, Mismatches: 18, Indels: 33
0.72 0.10 0.18
Matches are distributed among these distances:
17 7 0.05
18 13 0.10
19 14 0.11
20 28 0.22
21 17 0.13
22 10 0.08
23 19 0.15
24 6 0.05
25 11 0.09
26 4 0.03
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (20 bp):
AATAATATATAATAATATAT
Found at i:16571147 original size:66 final size:64
Alignment explanation
Indices: 16571026--16571208 Score: 160
Period size: 66 Copynumber: 2.8 Consensus size: 64
16571016 TTGGACCTAA
* * * * * *
16571026 ATAAATAAAATAATATTTATAA-AATATAATATTTAAATATATACAATGATATATAATATGCT-T
1 ATAAATATAATAATA--TATAATAATAT-ATATATATATATATA-TATAATATATAATAT-ATAT
16571089 A-AT
61 ATAT
16571092 ATAAATATAATAATATATAATAATATATATATATATTATATAGTATAATACTATAATATATATAT
1 ATAAATATAATAATATATAATAATATATATATATA-TATATA-TATAATA-TATAATATATATAT
16571157 AT
63 AT
* *
16571159 ATACTATATAAT-ATAATATTATAATATATAT-TATATATACTATATAATAT
1 ATA-AATATAATAAT-ATATAATAATATATATATATATATA-TATATAATAT
16571209 TTGTACTATA
Statistics
Matches: 100, Mismatches: 9, Indels: 17
0.79 0.07 0.13
Matches are distributed among these distances:
64 12 0.12
65 18 0.18
66 35 0.35
67 13 0.13
68 22 0.22
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.43
Consensus pattern (64 bp):
ATAAATATAATAATATATAATAATATATATATATATATATATATAATATATAATATATATATAT
Found at i:16571151 original size:73 final size:71
Alignment explanation
Indices: 16571026--16571208 Score: 179
Period size: 71 Copynumber: 2.6 Consensus size: 71
16571016 TTGGACCTAA
* * *
16571026 ATAAATAAAATAATAT-TTATAA-A-ATATA-ATATT-TA-AATATATACAATGATATATA-ATA
1 ATAAATATAATAATATATAATAATATATATATATATTATATAATATATACAATAATATATATATA
*
16571084 TGCTTAAT
66 T--ATAAT
* *
16571092 ATAAATATAATAATATATAATAATATATATATATATTATATAGTATAATACTATAATATATATAT
1 ATAAATATAATAATATATAATAATATATATATATATTATATAATAT-ATACAATAATATATATAT
*
16571157 ATATACT
65 ATATAAT
*
16571164 ATATAATATAAT-AT-TATAAT-ATATATTATATATACTATATAATAT
1 ATA-AATATAATAATATATAATAATATA-TATATATATTATATAATAT
16571209 TTGTACTATA
Statistics
Matches: 98, Mismatches: 9, Indels: 15
0.80 0.07 0.12
Matches are distributed among these distances:
66 15 0.15
67 5 0.05
68 1 0.01
69 5 0.05
70 10 0.10
71 25 0.26
72 12 0.12
73 21 0.21
74 4 0.04
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.43
Consensus pattern (71 bp):
ATAAATATAATAATATATAATAATATATATATATATTATATAATATATACAATAATATATATATA
TATAAT
Found at i:16571153 original size:35 final size:34
Alignment explanation
Indices: 16571101--16571249 Score: 169
Period size: 35 Copynumber: 4.3 Consensus size: 34
16571091 TATAAATATA
* *
16571101 ATAATATATAATAATATATATATATATTATATAGT
1 ATAATATATAAT-ATATATATATATACTATATAAT
16571136 ATAATACTATAATATATATATATATACTATATAAT
1 ATAATA-TATAATATATATATATATACTATATAAT
16571171 ATAATATTATAATATATATTATATATACTATATAAT
1 ATAATA-TATAATATATA-TATATATACTATATAAT
* * * *
16571207 AT--T-TGTACTATACACTATATATACTGTATAAT
1 ATAATATATAATATATA-TATATATACTATATAAT
16571239 ATATATATATA
1 ATA-ATATATA
16571250 TAGAAAAAGA
Statistics
Matches: 99, Mismatches: 9, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
32 26 0.26
34 1 0.01
35 44 0.44
36 28 0.28
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (34 bp):
ATAATATATAATATATATATATATACTATATAAT
Found at i:16571226 original size:68 final size:69
Alignment explanation
Indices: 16571096--16571251 Score: 187
Period size: 68 Copynumber: 2.3 Consensus size: 69
16571086 CTTAATATAA
* *
16571096 ATATAATA-ATATATAATAATATATATATATATTATATAGTATAATACTATAATATATATATATA
1 ATATAATATATATATTATAATATATATATATATTATATAGTATAATACTATAATATACATATATA
16571160 TACT
66 TACT
* * *
16571164 ATATAATATA-ATATTATAATATATAT-TATA-TATACTA-TATAATATTTGTACTATACACTAT
1 ATATAATATATATATTATAATATATATATATATTATA-TAGTATAATA-CTATAATATACA-TAT
16571225 ATATACT
63 ATATACT
*
16571232 GTATAATATATATATATATA
1 ATATAATATATATAT-TATA
16571252 GAAAAAGAAA
Statistics
Matches: 76, Mismatches: 6, Indels: 10
0.83 0.07 0.11
Matches are distributed among these distances:
66 11 0.14
67 14 0.18
68 42 0.55
69 5 0.07
70 4 0.05
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (69 bp):
ATATAATATATATATTATAATATATATATATATTATATAGTATAATACTATAATATACATATATA
TACT
Found at i:16572087 original size:201 final size:198
Alignment explanation
Indices: 16571685--16572211 Score: 535
Period size: 201 Copynumber: 2.6 Consensus size: 198
16571675 AAAGTGGCTT
* * * *
16571685 CTTATTGCCAAATCATAGTCAACCTT-GGTCTTCTTCTTGGCTTAAAGACCTCGGTTTAAAATTC
1 CTTATTGCTAAATCGTA-ACAA-CTTAGGTCTTCTTCTTGGCTTAAAGACCTC-GTTT-AAATTT
* * * * * * * * *
16571749 AACC-GAAAAGTATTTCCTCACTTCTACCATGCAGTTGTTATGCCCTCCAACTGAATGGAATCGA
62 AACCAG-AAAGTAGTTCCTCACTACTACCATGCGGTTGATACGCCTTCGAACTAAATGGAATCAA
* * * * *
16571813 ACTCAAAAGTTTTTGTTGACCGACAACATTTCTCGATTTAAGCTATGATGTAAATTTAGCCGGGA
126 AATCAAAAGTTTTCGTTGACCGACAACACTTCTCAACTTAAGCTATGATGTAAATTTAGCCGGGA
16571878 GATAGTTC
191 GATAGTTC
*
16571886 CTTATTGCTAAATCGTAACCAACTTAGGTCTTCTTCTTGGCTTAAAGATCTCGATTTGAAATTTA
1 CTTATTGCTAAATCGTAA-CAACTTAGGTCTTCTTCTTGGCTTAAAGACCTCG-TTT-AAATTTA
*
16571951 ACCAGAAAGTAGTTCCTCACTACTACCATGCGGTTGATACGCCTTCGAGCTAAATGGAATCAAAA
63 ACCAGAAAGTAGTTCCTCACTACTACCATGCGGTTGATACGCCTTCGAACTAAATGGAATCAAAA
* * * * * * * *
16572016 TCGAAAGTTTTCGTTGACTGATAGTC-CTTCTCAACTTAAGTTATGTTGTAGA-TTAGGCTGGGA
128 TCAAAAGTTTTCGTTGACCGACA-ACACTTCTCAACTTAAGCTATGATGTAAATTTA-GCCGGGA
16572079 TG-TAGTTC
191 -GATAGTTC
* * * * *
16572087 CTTATTGCTAAATCGCAGACAACCTAGATCTTCTTATTGGCTTAAAGACCTCTGTTTAAAATTAC
1 CTTATTGCTAAATCGTA-ACAACTTAGGTCTTCTTCTTGGCTTAAAGACCTC-GTTTAAATTTA-
* * * * *
16572152 ACCAGAAAGTAGTTCCTCGCTGCTACCATGCGTTTAATACGCCATT-GAACTCAATGGAAT
63 ACCAGAAAGTAGTTCCTCACTACTACCATGCGGTTGATACGCC-TTCGAACTAAATGGAAT
16572212 TGAACTCAAC
Statistics
Matches: 274, Mismatches: 41, Indels: 22
0.81 0.12 0.07
Matches are distributed among these distances:
200 13 0.05
201 254 0.93
202 7 0.03
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (198 bp):
CTTATTGCTAAATCGTAACAACTTAGGTCTTCTTCTTGGCTTAAAGACCTCGTTTAAATTTAACC
AGAAAGTAGTTCCTCACTACTACCATGCGGTTGATACGCCTTCGAACTAAATGGAATCAAAATCA
AAAGTTTTCGTTGACCGACAACACTTCTCAACTTAAGCTATGATGTAAATTTAGCCGGGAGATAG
TTC
Found at i:16579162 original size:21 final size:20
Alignment explanation
Indices: 16579127--16579170 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
16579117 TTGTTTATCC
*
16579127 ATTTTTAAAATTTTTAATAT
1 ATTTTAAAAATTTTTAATAT
*
16579147 ATTTTAAAATATTTTTATTAT
1 ATTTTAAAA-ATTTTTAATAT
16579168 ATT
1 ATT
16579171 AATAATACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
ATTTTAAAAATTTTTAATAT
Found at i:16579172 original size:19 final size:20
Alignment explanation
Indices: 16579131--16579177 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
16579121 TTATCCATTT
*
16579131 TTAAAAT-TTTTAATATATT
1 TTAAAATATTTTAATATATA
*
16579150 TTAAAATATTTTTAT-TATA
1 TTAAAATATTTTAATATATA
16579169 TTAATAATA
1 TTAA-AATA
16579178 CTTGTGAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TTAAAATATTTTAATATATA
Found at i:16584156 original size:38 final size:39
Alignment explanation
Indices: 16584094--16584173 Score: 144
Period size: 38 Copynumber: 2.1 Consensus size: 39
16584084 GTACTTTAGC
*
16584094 ACTATGGCACTTTGTGTACTTTGTAGTAGTACTTTGTGT
1 ACTATGGAACTTTGTGTACTTTGTAGTAGTACTTTGTGT
16584133 ACTATGGAACTTTGTGTAC-TTGTAGTAGTACTTTGTGT
1 ACTATGGAACTTTGTGTACTTTGTAGTAGTACTTTGTGT
16584171 ACT
1 ACT
16584174 TTGTAGTAGT
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
38 22 0.55
39 18 0.45
ACGTcount: A:0.20, C:0.12, G:0.23, T:0.45
Consensus pattern (39 bp):
ACTATGGAACTTTGTGTACTTTGTAGTAGTACTTTGTGT
Found at i:16584173 original size:60 final size:60
Alignment explanation
Indices: 16584102--16584233 Score: 255
Period size: 60 Copynumber: 2.2 Consensus size: 60
16584092 GCACTATGGC
16584102 ACTTTGTGTACTTTGTAGTAGTACTTTGTGTACTATGGAACTTTGTGTACTTGTAGTAGT
1 ACTTTGTGTACTTTGTAGTAGTACTTTGTGTACTATGGAACTTTGTGTACTTGTAGTAGT
*
16584162 ACTTTGTGTACTTTGTAGTAGTACTTTGTGTACTATGGCACTTTGTGTACTTGTAGTAGT
1 ACTTTGTGTACTTTGTAGTAGTACTTTGTGTACTATGGAACTTTGTGTACTTGTAGTAGT
16584222 ACTTTGTGTACT
1 ACTTTGTGTACT
16584234 ATGGCACTTT
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
60 71 1.00
ACGTcount: A:0.19, C:0.11, G:0.23, T:0.47
Consensus pattern (60 bp):
ACTTTGTGTACTTTGTAGTAGTACTTTGTGTACTATGGAACTTTGTGTACTTGTAGTAGT
Found at i:16584224 original size:38 final size:39
Alignment explanation
Indices: 16584162--16584247 Score: 165
Period size: 38 Copynumber: 2.2 Consensus size: 39
16584152 TTGTAGTAGT
16584162 ACTTTGTGTACTTTGTAGTAGTACTTTGTGTACTATGGC
1 ACTTTGTGTACTTTGTAGTAGTACTTTGTGTACTATGGC
16584201 ACTTTGTGTAC-TTGTAGTAGTACTTTGTGTACTATGGC
1 ACTTTGTGTACTTTGTAGTAGTACTTTGTGTACTATGGC
16584239 ACTTTGTGT
1 ACTTTGTGT
16584248 GCAAGGATGG
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
38 36 0.77
39 11 0.23
ACGTcount: A:0.17, C:0.13, G:0.23, T:0.47
Consensus pattern (39 bp):
ACTTTGTGTACTTTGTAGTAGTACTTTGTGTACTATGGC
Found at i:16588145 original size:2 final size:2
Alignment explanation
Indices: 16588140--16588195 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
16588130 ACATTATATA
16588140 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
16588182 TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG
16588196 AAGAAAGTTT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:16622613 original size:911 final size:900
Alignment explanation
Indices: 16620483--16623146 Score: 3388
Period size: 897 Copynumber: 2.9 Consensus size: 900
16620473 ACATGGGAAT
* * *
16620483 ACAAAACATAAGATAAATATTAAATAAAATAATAAACTAACTTAACTATATAAAGACTAAAATGA
1 ACAAAACATAAGATAAATATTAAATAAAA-GAGAAACTAACTTAAGTATATAAAGACTAAAATGA
*
16620548 AAAAATAAGAATAAAAATAAATAAAAAACTCAACAATAAAAACACTGAAGGGAAGCATATTCATG
65 AAAAAT-AGAATAAAAAT-AA-AAAAAA-TCAATAATAAAAACACTGAAGGGAAGCATATTCATG
* * *
16620613 CTTCTCCGAGAGTAACCACTTTCTTGTCACGCTTAACATAAGCATCGGTGTAGTGCTTAAATCAT
126 CTTCTCCGAGAGTAACCACTTTCTTGTCACGCTCAACATGAGCACCGGTGTAGTGCTTAAATCAT
* * * * *
16620678 TGTTCATTAACTTTAAACTCATGTCCGT-TGATGGTGGACTTGTTTATTGCGGTACCATGGGAGA
191 TGTCCATTAACTTTAAACTCATTTTC-TATGATGGTGGACTTATTTATTACGGTA-CATGGGAGA
* * * *
16620742 AAGGTTTCACTACCTCGAACGGCTCAGACCATCTCGACTTCAGTTTTCCTACAAAAAATTTTAAC
254 AAGGTTTCACTACCTCGAACGGCTCAGACCATCTCGATTTCAGTTTTCCAATAAAAAGTTTTAAC
* * *
16620807 CGAGACTTTAAAGGAAGTTCTAATTGCCCTAGCAATGATTTCAATTATAGTATGGGAGTTTTCTC
319 CGAGACTTTAAAGGAAGTTCTAATTG-CCTTGCAATGATTTCAATTATAGTATGGG-GTTTGCTT
* * *
16620872 AATAGAATATTTTTTGAGTTTACCTTCCTTACCTAAGTAGTCTAATGGTTCAAAATATTTACCCA
382 AATAGAAGATTTTTCGAGTTTACCTTCCTTACCTGAGTAGTCTAATGGTTCAAAATATTTACCCA
* ** * * * * *
16620937 GTTGACTTATAATCCAATTTGCTTCA-TCTGGTTATTTAATTTCATCCGGTTTGGCAATAGAATT
447 GTTTACTT-TAATCTTATTTCCATCATTC-GGTTATTCAATTTCATCCGGTTTGGCCATATAATT
* ** * *
16621001 GTTGTGGCAATTCTATTCTACTTCAAAATTGAATTTGGAAATAGAATTTGCTTTAAGGAATAACA
510 GATGTGGCAATTCTCCTCTACTTCAAAATTGAATTTGGTAATAGAATTTGCTTCAAGGAATAACA
* * *
16621066 CAAACAATGCCAAATGACAACGCATAACATAAC-AATGCAATATGAAAAAACGAACAACACCCCC
575 AAAACAATGCAAAATGACAACGCATAACATAACAAATGCAATATGACAAAACGAACAACACCCCC
* * * * *
16621130 AAATTTGAGATAAGCTTTGTCCTCACTGCATGCAAAACAAATGGGTTAGCTAG-AAATGATGTCA
640 AAACTCGAGATGAGTTTTGTCCTCAATGCATGCAAAACAAATGGGTTAGCTAGAAAAT-ATGTCA
* * * *
16621194 CCTTGATTGATTAGTGTCTTTCAAGCCATTTGTTTTATTTTCTTATTGGCTTGCAGAGGTTTAGA
704 CCTTGATTGATGAGTGTCCTTCAAGCCATTTGTTTGATTTTCTTGTTGGCTTGCAGAGGTTTAGA
* *
16621259 GCGAGTTGCTGGCTTTTTTAATGGTGGAAGCTTTCGTTCGAATAGTGCGATAAATAAGAGTAATA
769 GCGTGTTGCTGGCTTTTTTAATGGTGGAAGCTTTCGTTCGAATAGTGCGATAAATAAGGGTAATA
* *
16621324 AATTAGGATGAACTCCCTCCTTGAATCAAACTCCTCCTTTTCTTGAACTCTTATCCTAAAAATTC
834 AATTAGGATGAACTCCCTCCTTGAATCAAACTCCTCCTTTTCTTGAACTCCTACCCTAAAAATTC
16621389 AA
899 AA
16621391 ACAAAACATAAGATAAATATTAAATAAAAAGAGAAACTAACTTAAGTATATAAAGACTAAAATG-
1 ACAAAACATAAGATAAATATTAAAT-AAAAGAGAAACTAACTTAAGTATATAAAGACTAAAATGA
** * * * *
16621455 -AAAA-A-AAT---AAGGAAAAAAATCGATAATAAAAACACTGAAGAGAAGCATATTCAAGCTTA
65 AAAAATAGAATAAAAATAAAAAAAATCAATAATAAAAACACTGAAGGGAAGCATATTCATGCTTC
** * * ** * *
16621514 TCTTAGAGTAACCACTTTCTTATCACGCTCAAAATGTCCACCGGTGTAGTGCTCAAATCATTTTC
130 TCCGAGAGTAACCACTTTCTTGTCACGCTCAACATGAGCACCGGTGTAGTGCTTAAATCATTGTC
* * * *
16621579 CATTAACTTTAAACTCA-TTTCCATTGATGGTGGACTTTTTTATTACGATACTATGAGAGAAAGG
195 CATTAACTTTAAACTCATTTTCTA-TGATGGTGGACTTATTTATTACGGTAC-ATGGGAGAAAGG
* *
16621643 TTTCACTACCTC-AGACGGCT-AGGACCATCTCGATTTCAGTTTTCCAATAAAACGTTTTAACCA
258 TTTCACTACCTCGA-ACGGCTCA-GACCATCTCGATTTCAGTTTTCCAATAAAAAGTTTTAACCG
* * *
16621706 AGACTTGAAAGAAAGTTCTAAATGCCTTGTCAATGATTTCAATTATAGTATAGGGGTTTGCTTAA
321 AGACTTTAAAGGAAGTTCTAATTGCCTTG-CAATGATTTCAATTATAGTAT-GGGGTTTGCTTAA
* *
16621771 TAAAAGATATTTCGAGTTTACCTTCCTTACCTGAGTAGTCTAATGGTTCAAAATATTTACCCAGT
384 TAGAAGATTTTTCGAGTTTACCTTCCTTACCTGAGTAGTCTAATGGTTCAAAATATTTACCCAGT
* * ***
16621836 TTAC-TTCATCTTGTTGTCCATCATTCGGTTATTCAATTTCATCTAATTTGGCCATATAATTGAT
449 TTACTTTAATCTTATT-TCCATCATTCGGTTATTCAATTTCATCCGGTTTGGCCATATAATTGAT
* * ** *
16621900 GTAGCAATTCTCCTCTACTTAAAAATTGAATTTGGTAATAGAATTTGCTTCAAGGAACGATAAAA
513 GTGGCAATTCTCCTCTACTTCAAAATTGAATTTGGTAATAGAATTTGCTTCAAGGAATAACAAAA
* * *
16621965 ACAATGCAAAATGACGACGCATAAAATAACAAATGCACTATGACAAAACGAACAACACCCCCCAA
578 ACAATGCAAAATGACAACGCATAACATAACAAATGCAATATGACAAAACGAACAACA-CCCCCAA
* *
16622030 ACTCGAGATGAGTTTTGTCCTCAATGCAAGCAAAAAAAAAATGGGTTAGCTAGAAAATATGTCAC
642 ACTCGAGATGAGTTTTGTCCTCAATGCATGC--AAAACAAATGGGTTAGCTAGAAAATATGTCAC
* * *
16622095 CTTGATTGATGAGTGTCCTTCAAGGCATTTGTTTGATTTGCTTGTTGACTTGCAGAGGTTTAGAG
705 CTTGATTGATGAGTGTCCTTCAAGCCATTTGTTTGATTTTCTTGTTGGCTTGCAGAGGTTTAGAG
* * * *
16622160 CGTGTTTCTGGCTTTTTTAATGGTGGAAGCTTGTCGTTTGAATTGTGCGTTAAATAAGGGTAATA
770 CGTGTTGCTGGCTTTTTTAATGGTGGAAGCTT-TCGTTCGAATAGTGCGATAAATAAGGGTAATA
* *
16622225 AATTAGGATGGACTCCCTTCTTGAATCAAACTCCTCCTTTTCTTGAACTCCTACCCTAAAAATTC
834 AATTAGGATGAACTCCCTCCTTGAATCAAACTCCTCCTTTTCTTGAACTCCTACCCTAAAAATTC
16622290 AA
899 AA
*
16622292 ACAAAACATAAGATAAATATTAAATGAAAAGAGAAACTAACTTAAGTATGTAAAGACTAAAATGA
1 ACAAAACATAAGATAAATATTAAAT-AAAAGAGAAACTAACTTAAGTATATAAAGACTAAAATGA
* *
16622357 AAAAATTAGAATAAAAATAAAGAAAAATTCAATAATAAAAACACTGAAGGGAAGTAGATTCATGC
65 AAAAA-TAGAATAAAAATAAA-AAAAA-TCAATAATAAAAACACTGAAGGGAAGCATATTCATGC
*
16622422 TTCTCCGAGAGTAACCACTTTCTTGTCACGCTCAACATGGGCACCGGTGTAGTGCTTAAATCATT
127 TTCTCCGAGAGTAACCACTTTCTTGTCACGCTCAACATGAGCACCGGTGTAGTGCTTAAATCATT
* * * * *
16622487 GTCCATTAAATTTAACCTCATTTTTTATGATGGTAGACTTATTTATTACGGCAGCATGGGAGAAA
192 GTCCATTAACTTTAAACTCATTTTCTATGATGGTGGACTTATTTATTACGGTA-CATGGGAGAAA
* * * *
16622552 GTTTTCACTACCTCGAACGACTCAGACCATCTAGATTTCAGTTTTCCCATAAAAAGTTTTAACCG
256 GGTTTCACTACCTCGAACGGCTCAGACCATCTCGATTTCAGTTTTCCAATAAAAAGTTTTAACCG
* * *
16622617 AGACTTTAAAGGAAGTTATAATTGCCCTGACAATGATTTCAGTTATAGTATGGGGGTTTGCTTAA
321 AGACTTTAAAGGAAGTTCTAATTGCCTTG-CAATGATTTCAATTATAGTAT-GGGGTTTGCTTAA
* * * * *
16622682 TAGATGATTTTTCGAGTCTACCTTCCTAACCTGATTAGTGTAATGGTTCAAAATATTTACCCAGT
384 TAGAAGATTTTTCGAGTTTACCTTCCTTACCTGAGTAGTCTAATGGTTCAAAATATTTACCCAGT
* * *
16622747 TGACTTATTATCCAGTTTTATTCATTTTTCTC-TCCATTATCCGGTTCTTCAATTTCATCCGGTT
449 TTAC-T-TTA---A----TCTT-A--TTTC-CAT-CA-T-T-CGGTTATTCAATTTCATCCGGTT
* *
16622811 TAG-CA-ATAGA--CATGTGGCAATTCTCCTCTACTTCAAAATTGAATTTGGTAATAGAATTTGC
497 TGGCCATATA-ATTGATGTGGCAATTCTCCTCTACTTCAAAATTGAATTTGGTAATAGAATTTGC
* * * *
16622872 TTCAAGGAATTACATAAACAATGCAATATGAAAACGCATAACATAACAAATGCAATATGACAAAA
561 TTCAAGGAATAACAAAAACAATGCAAAATGACAACGCATAACATAACAAATGCAATATGACAAAA
* * * * * * * *
16622937 CGAATAAAACCCCCAAACTCAATATGTGTTTTGACCTCAATGCATGCAAAACAAATAGGTTAGTT
626 CGAACAACACCCCCAAACTCGAGATGAGTTTTGTCCTCAATGCATGCAAAACAAATGGGTTAGCT
** * *
16623002 AGAAAGGATGTCACCTTGATTCATGAGTGTTCTTCAAGCCATTTGTTTGATTTTCTTGTTGGCTT
691 AGAAAATATGTCACCTTGATTGATGAGTGTCCTTCAAGCCATTTGTTTGATTTTCTTGTTGGCTT
** * * * * * *
16623067 GTTGTGGTTTAGAGCATGTTGATGGCTTCTTTAACGGTGGAAGCTTTTCGTTCAAATAGTGCGAT
756 GCAGAGGTTTAGAGCGTGTTGCTGGCTTTTTTAATGGTGGAAGC-TTTCGTTCGAATAGTGCGAT
16623132 AAATAAGGGTAATAA
820 AAATAAGGGTAATAA
16623147 GACATTTTTC
Statistics
Matches: 1509, Mismatches: 197, Indels: 87
0.84 0.11 0.05
Matches are distributed among these distances:
895 6 0.00
896 128 0.08
897 331 0.22
898 41 0.03
899 1 0.00
900 116 0.08
901 157 0.10
903 7 0.00
904 1 0.00
905 1 0.00
906 7 0.00
908 56 0.04
909 8 0.01
910 5 0.00
911 310 0.21
912 7 0.00
914 2 0.00
917 1 0.00
921 141 0.09
922 2 0.00
923 36 0.02
924 116 0.08
925 4 0.00
926 4 0.00
927 21 0.01
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.32
Consensus pattern (900 bp):
ACAAAACATAAGATAAATATTAAATAAAAGAGAAACTAACTTAAGTATATAAAGACTAAAATGAA
AAAATAGAATAAAAATAAAAAAAATCAATAATAAAAACACTGAAGGGAAGCATATTCATGCTTCT
CCGAGAGTAACCACTTTCTTGTCACGCTCAACATGAGCACCGGTGTAGTGCTTAAATCATTGTCC
ATTAACTTTAAACTCATTTTCTATGATGGTGGACTTATTTATTACGGTACATGGGAGAAAGGTTT
CACTACCTCGAACGGCTCAGACCATCTCGATTTCAGTTTTCCAATAAAAAGTTTTAACCGAGACT
TTAAAGGAAGTTCTAATTGCCTTGCAATGATTTCAATTATAGTATGGGGTTTGCTTAATAGAAGA
TTTTTCGAGTTTACCTTCCTTACCTGAGTAGTCTAATGGTTCAAAATATTTACCCAGTTTACTTT
AATCTTATTTCCATCATTCGGTTATTCAATTTCATCCGGTTTGGCCATATAATTGATGTGGCAAT
TCTCCTCTACTTCAAAATTGAATTTGGTAATAGAATTTGCTTCAAGGAATAACAAAAACAATGCA
AAATGACAACGCATAACATAACAAATGCAATATGACAAAACGAACAACACCCCCAAACTCGAGAT
GAGTTTTGTCCTCAATGCATGCAAAACAAATGGGTTAGCTAGAAAATATGTCACCTTGATTGATG
AGTGTCCTTCAAGCCATTTGTTTGATTTTCTTGTTGGCTTGCAGAGGTTTAGAGCGTGTTGCTGG
CTTTTTTAATGGTGGAAGCTTTCGTTCGAATAGTGCGATAAATAAGGGTAATAAATTAGGATGAA
CTCCCTCCTTGAATCAAACTCCTCCTTTTCTTGAACTCCTACCCTAAAAATTCAA
Found at i:16627944 original size:20 final size:20
Alignment explanation
Indices: 16627914--16627964 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
16627904 TTACAAAGGG
* *
16627914 ATGTACCGATACACTCTTGA
1 ATGTATCGATACACTCTTAA
*
16627934 ATGTATTGATACACTCTTAA
1 ATGTATCGATACACTCTTAA
16627954 ATGTATCGATA
1 ATGTATCGATA
16627965 TATACCCAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (20 bp):
ATGTATCGATACACTCTTAA
Found at i:16633881 original size:21 final size:20
Alignment explanation
Indices: 16633857--16633914 Score: 55
Period size: 23 Copynumber: 2.7 Consensus size: 20
16633847 ATCATCACTA
16633857 TGTATCGATACACTATGAATG
1 TGTATCGATACACT-TGAATG
*
16633878 TGTA-CTGATACATTCCTTGAATT
1 TGTATC-GATACA---CTTGAATG
16633901 TGTATCGATACACT
1 TGTATCGATACACT
16633915 CAGGAGTGTA
Statistics
Matches: 31, Mismatches: 1, Indels: 11
0.72 0.02 0.26
Matches are distributed among these distances:
20 3 0.10
21 10 0.32
23 15 0.48
24 3 0.10
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.38
Consensus pattern (20 bp):
TGTATCGATACACTTGAATG
Found at i:16636197 original size:13 final size:13
Alignment explanation
Indices: 16636175--16636208 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
16636165 AAGGAGAGTA
*
16636175 ATTTTCAAAATTG
1 ATTTTCAAAAATG
16636188 A-TTTCAAAAATG
1 ATTTTCAAAAATG
16636200 ATTTTCAAA
1 ATTTTCAAA
16636209 GAAAATCTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (13 bp):
ATTTTCAAAAATG
Found at i:16640002 original size:222 final size:222
Alignment explanation
Indices: 16639616--16640055 Score: 666
Period size: 222 Copynumber: 2.0 Consensus size: 222
16639606 CCTCCACCGT
* * * *
16639616 CTTTCCCTCAGTGGTTGAATAAACGTAATGATGAGATCCAGTTTAAAAAGTTTGTTAATGTCCTT
1 CTTTCCCTCAGTAGTTGAAGAAACATAATGATGAGATCCAGTTTAAAAAGTTTGTCAATGTCCTT
* *
16639681 GATAAGTTGTATATAAATGTCCCACTACTTGAAGCTATTGATCAGATGTCTTCTTACGCCAAGTT
66 GATAAGTTGTAGATAAATGTCCCACTACTTGAAGCTATTGATCAGATGCCTTCTTACGCCAAGTT
* * * *
16639746 CTTAAAAGATATTGTCATGAAGAAGATAAAGGTGGCAATAATAGAAAATGTTACCACGACAACAT
131 CTTAAAAGATATTGTCACGAAGAAGAGAAAGGTGGAAAGAATAGAAAATGTTACCACGACAACAT
16639811 AATATTATACTGCATTGAGTAAATTGC
196 AATATTATACTGCATTGAGTAAATTGC
* * *
16639838 CTTTCCCTCAGTAGTTGAAGAAGCATAATGATGAGATCTAGTTTAAAAAGTTTGTCGATGTCCTT
1 CTTTCCCTCAGTAGTTGAAGAAACATAATGATGAGATCCAGTTTAAAAAGTTTGTCAATGTCCTT
*
16639903 GATAAGTTGTAGA-ACAATGTCCCATTACTTGAAGCTATTGATCAGATGCCTTCTTACGCCAAGT
66 GATAAGTTGTAGATA-AATGTCCCACTACTTGAAGCTATTGATCAGATGCCTTCTTACGCCAAGT
* * * * * *
16639967 TCTTGAAGGATATTGTGACGAAGAAGAGAAAGGTGGAAAGAATAGAAAATGTTTCCACGATAATA
130 TCTTAAAAGATATTGTCACGAAGAAGAGAAAGGTGGAAAGAATAGAAAATGTTACCACGACAACA
* *
16640032 TAATATTGTTCTGCATTGAGTAAA
195 TAATATTATACTGCATTGAGTAAA
16640056 CTTCCGCCGA
Statistics
Matches: 195, Mismatches: 22, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
221 1 0.01
222 194 0.99
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.32
Consensus pattern (222 bp):
CTTTCCCTCAGTAGTTGAAGAAACATAATGATGAGATCCAGTTTAAAAAGTTTGTCAATGTCCTT
GATAAGTTGTAGATAAATGTCCCACTACTTGAAGCTATTGATCAGATGCCTTCTTACGCCAAGTT
CTTAAAAGATATTGTCACGAAGAAGAGAAAGGTGGAAAGAATAGAAAATGTTACCACGACAACAT
AATATTATACTGCATTGAGTAAATTGC
Found at i:16652577 original size:55 final size:55
Alignment explanation
Indices: 16652529--16652862 Score: 431
Period size: 55 Copynumber: 6.1 Consensus size: 55
16652519 ATTTACGTGG
* * * * * *
16652529 GTTGCACACCCATTACCAATACGAAAATTAAAAAACTTATTATGAATTTCTTA--
1 GTTGCACACACAGTACCCATACAAAAATTCATAAACTTATTATGAATTTCTTAGT
* * *
16652582 GTTGTACACACAGTGCCCATACAAAAATTCATAAACTTATTATCAATTTCTTAGT
1 GTTGCACACACAGTACCCATACAAAAATTCATAAACTTATTATGAATTTCTTAGT
* *
16652637 TTTGCACACACAGTACCCATACAGAAATTCATAAACTTATTATGAATTTCTTAGT
1 GTTGCACACACAGTACCCATACAAAAATTCATAAACTTATTATGAATTTCTTAGT
* *
16652692 TTTGCACACACAGTGCCCATACAAAAATTCATAAACTTATTATGAATTTCTTAGT
1 GTTGCACACACAGTACCCATACAAAAATTCATAAACTTATTATGAATTTCTTAGT
* * * **
16652747 TTTGCACACATAGTGCCCATATGAAAATTCATAAACTTATTATGAATTTCTTAGT
1 GTTGCACACACAGTACCCATACAAAAATTCATAAACTTATTATGAATTTCTTAGT
* * * ** *
16652802 TTTGCACACATAGTGCCCATACGGAAATTCATAAACTTGTTATGAATTTCTTAGT
1 GTTGCACACACAGTACCCATACAAAAATTCATAAACTTATTATGAATTTCTTAGT
16652857 -TTGCAC
1 GTTGCAC
16652863 GCATAGTGTC
Statistics
Matches: 257, Mismatches: 22, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
53 44 0.17
54 6 0.02
55 207 0.81
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.35
Consensus pattern (55 bp):
GTTGCACACACAGTACCCATACAAAAATTCATAAACTTATTATGAATTTCTTAGT
Found at i:16652740 original size:110 final size:110
Alignment explanation
Indices: 16652530--16652862 Score: 503
Period size: 110 Copynumber: 3.1 Consensus size: 110
16652520 TTTACGTGGG
* * * * * *
16652530 TTGCACACCCATTACCAATACGAAAATTAAAAAACTTATTATGAATTTCTTAG--TTGTACACAC
1 TTGCACACACAGTACCCATACGAAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAC
*
16652593 AGTGCCCATACAAAAATTCATAAACTTATTATCAATTTCTTAGTT
66 AGTGCCCATACAAAAATTCATAAACTTATTATGAATTTCTTAGTT
16652638 TTGCACACACAGTACCCATAC-AGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACA
1 TTGCACACACAGTACCCATACGA-AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACA
16652702 CAGTGCCCATACAAAAATTCATAAACTTATTATGAATTTCTTAGTT
65 CAGTGCCCATACAAAAATTCATAAACTTATTATGAATTTCTTAGTT
* * * *
16652748 TTGCACACATAGTGCCCATATGAAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAT
1 TTGCACACACAGTACCCATACGAAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAC
** *
16652813 AGTGCCCATACGGAAATTCATAAACTTGTTATGAATTTCTTAG-T
66 AGTGCCCATACAAAAATTCATAAACTTATTATGAATTTCTTAGTT
16652857 TTGCAC
1 TTGCAC
16652863 GCATAGTGTC
Statistics
Matches: 207, Mismatches: 14, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
107 1 0.00
108 46 0.22
109 7 0.03
110 152 0.73
111 1 0.00
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.35
Consensus pattern (110 bp):
TTGCACACACAGTACCCATACGAAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAC
AGTGCCCATACAAAAATTCATAAACTTATTATGAATTTCTTAGTT
Found at i:16652800 original size:165 final size:162
Alignment explanation
Indices: 16652547--16652862 Score: 497
Period size: 165 Copynumber: 1.9 Consensus size: 162
16652537 CCCATTACCA
* *
16652547 ATACGAAAATTAAAAAACTTATTATGAATTTCTTAGTTGTACACACAGTGCCCATACAAAAATTC
1 ATACAAAAATTAAAAAACTTATTATGAATTTCTTAGTTGCACACACAGTGCCCATACAAAAATTC
16652612 ATAAACTTATTATCAATTTCTTAGTTTTGCACACACAGTACCCATACAGAAATTCATAAACTTAT
66 ATAAACTTATTATCAATTTCTTAGTTTTGCACACACAGTACCCATACAGAAATTCATAAACTTAT
16652677 TATGAATTTCTTAGTTTTGCACACACAGTGCCC
131 TATGAATTTCTTAG-TTTGCACACACAGTGCCC
* * * **
16652710 ATACAAAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACATAGTGCCCATATGAAAAT
1 ATACAAAAATTAAAAAACTTATTATGAATTTCTTAG--TTGCACACACAGTGCCCATACAAAAAT
* * * *
16652775 TCATAAACTTATTATGAATTTCTTAGTTTTGCACACATAGTGCCCATACGGAAATTCATAAACTT
64 TCATAAACTTATTATCAATTTCTTAGTTTTGCACACACAGTACCCATACAGAAATTCATAAACTT
*
16652840 GTTATGAATTTCTTAGTTTGCAC
129 ATTATGAATTTCTTAGTTTGCAC
16652863 GCATAGTGTC
Statistics
Matches: 139, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
163 33 0.24
164 7 0.05
165 99 0.71
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.36
Consensus pattern (162 bp):
ATACAAAAATTAAAAAACTTATTATGAATTTCTTAGTTGCACACACAGTGCCCATACAAAAATTC
ATAAACTTATTATCAATTTCTTAGTTTTGCACACACAGTACCCATACAGAAATTCATAAACTTAT
TATGAATTTCTTAGTTTGCACACACAGTGCCC
Found at i:16658997 original size:55 final size:54
Alignment explanation
Indices: 16658927--16659227 Score: 399
Period size: 54 Copynumber: 5.5 Consensus size: 54
16658917 GTAATTCACC
* * * * * * * *
16658927 AAACTTACTAT-AATTTACGTGGGTTGCACACCCACTACCAATACGAAAATTCAT
1 AAACTTATTATGAATTT-CTTGGTTTGCACACACAGTGCCCATACGGAAATTCAT
*
16658981 AAACTTATTATGAATTTCTTAGTTTGCACACACAGTGCCCATACGGAAATTCAT
1 AAACTTATTATGAATTTCTTGGTTTGCACACACAGTGCCCATACGGAAATTCAT
* **
16659035 AAACTTATTATGAATTTCTTAGTTTTGCACACACAGTGCCCATTTGGAAATTCAT
1 AAACTTATTATGAATTTCTT-GGTTTGCACACACAGTGCCCATACGGAAATTCAT
* *
16659090 AAACTTATTATGAATTTCTTAGTCTT-CACACACAGTGCCCATACGAAAATTCAT
1 AAACTTATTATGAATTTCTTGGT-TTGCACACACAGTGCCCATACGGAAATTCAT
**
16659144 AAACTTATTATGAATTTCTTACTTTTGCACACACAGTGCCCATACGGAAATTCAT
1 AAACTTATTATGAATTTCTT-GGTTTGCACACACAGTGCCCATACGGAAATTCAT
*
16659199 AAACTTATTATGAATTTCTTAGTTTGCAC
1 AAACTTATTATGAATTTCTTGGTTTGCAC
16659228 GCGTAATGTC
Statistics
Matches: 219, Mismatches: 23, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
54 114 0.52
55 105 0.48
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.35
Consensus pattern (54 bp):
AAACTTATTATGAATTTCTTGGTTTGCACACACAGTGCCCATACGGAAATTCAT
Found at i:16659025 original size:54 final size:54
Alignment explanation
Indices: 16658967--16659227 Score: 443
Period size: 55 Copynumber: 4.8 Consensus size: 54
16658957 CCCACTACCA
*
16658967 ATACGAAAATTCATAAACTTATTATGAATTTCTTAGTTTGCACACACAGTGCCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTGCACACACAGTGCCC
16659021 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAGTGCCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAG-TTTGCACACACAGTGCCC
**
16659076 ATTTGGAAATTCATAAACTTATTATGAATTTCTTAGTCTT-CACACACAGTGCCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGT-TTGCACACACAGTGCCC
* *
16659130 ATACGAAAATTCATAAACTTATTATGAATTTCTTACTTTTGCACACACAGTGCCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTA-GTTTGCACACACAGTGCCC
16659185 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTGCAC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTGCAC
16659228 GCGTAATGTC
Statistics
Matches: 194, Mismatches: 9, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
54 91 0.47
55 103 0.53
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.36
Consensus pattern (54 bp):
ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTGCACACACAGTGCCC
Found at i:16659086 original size:109 final size:109
Alignment explanation
Indices: 16658967--16659227 Score: 461
Period size: 109 Copynumber: 2.4 Consensus size: 109
16658957 CCCACTACCA
* *
16658967 ATACGAAAATTCATAAACTTATTATGAATTTCTTAGTTTGCACACACAGTGCCCATACGGAAATT
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTGCACACACAGTGCCCATACGAAAATT
*
16659032 CATAAACTTATTATGAATTTCTTAGTTTTGCACACACAGTGCCC
66 CATAAACTTATTATGAATTTCTTACTTTTGCACACACAGTGCCC
**
16659076 ATTTGGAAATTCATAAACTTATTATGAATTTCTTAGTCTT-CACACACAGTGCCCATACGAAAAT
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGT-TTGCACACACAGTGCCCATACGAAAAT
16659140 TCATAAACTTATTATGAATTTCTTACTTTTGCACACACAGTGCCC
65 TCATAAACTTATTATGAATTTCTTACTTTTGCACACACAGTGCCC
16659185 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTGCAC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTGCAC
16659228 GCGTAATGTC
Statistics
Matches: 143, Mismatches: 7, Indels: 4
0.93 0.05 0.03
Matches are distributed among these distances:
108 2 0.01
109 139 0.97
110 2 0.01
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.36
Consensus pattern (109 bp):
ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTGCACACACAGTGCCCATACGAAAATT
CATAAACTTATTATGAATTTCTTACTTTTGCACACACAGTGCCC
Found at i:16662842 original size:12 final size:12
Alignment explanation
Indices: 16662825--16662849 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
16662815 AAAACACATA
16662825 ATTTATATTCAT
1 ATTTATATTCAT
16662837 ATTTATATTCAT
1 ATTTATATTCAT
16662849 A
1 A
16662850 AAAAATATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (12 bp):
ATTTATATTCAT
Found at i:16673216 original size:60 final size:59
Alignment explanation
Indices: 16673094--16673226 Score: 176
Period size: 60 Copynumber: 2.2 Consensus size: 59
16673084 AATGAGGGTT
* * * * **
16673094 ATAGTTTGGGGATGAATTTGGAATGTTAAAATTTTAAGGACCAATTTAAAATGACAAAC
1 ATAGTTTGAGGATGAATTTAGAATGTTAAAAGTTTAAAGACCAATTTAAAAAAACAAAC
* * *
16673153 ATAGTTTGAGGATGAATTTAGAATGTTTAAAAGTTTAAAGACTAATTTAAAAAAAGAATC
1 ATAGTTTGAGGATGAATTTAGAATG-TTAAAAGTTTAAAGACCAATTTAAAAAAACAAAC
16673213 ATAGTTTGAGGATG
1 ATAGTTTGAGGATG
16673227 TATAGTACAA
Statistics
Matches: 64, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
59 23 0.36
60 41 0.64
ACGTcount: A:0.42, C:0.05, G:0.20, T:0.33
Consensus pattern (59 bp):
ATAGTTTGAGGATGAATTTAGAATGTTAAAAGTTTAAAGACCAATTTAAAAAAACAAAC
Found at i:16679229 original size:13 final size:13
Alignment explanation
Indices: 16679211--16679236 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
16679201 TCACCCCATT
16679211 CATAAATTTAAAC
1 CATAAATTTAAAC
16679224 CATAAATTTAAAC
1 CATAAATTTAAAC
16679237 ATAGTATAAT
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:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (13 bp):
CATAAATTTAAAC
Found at i:16685705 original size:24 final size:24
Alignment explanation
Indices: 16685671--16685777 Score: 81
Period size: 24 Copynumber: 4.5 Consensus size: 24
16685661 AAATGAAGAT
*
16685671 ATCAGAAATCAAAACATAATTCAG
1 ATCAGAAATCAAAACAGAATTCAG
* * *
16685695 ATCAGATATCAGAACAGAATCCAG
1 ATCAGAAATCAAAACAGAATTCAG
* * * * * *
16685719 GTTAGGAATCAGAACATATTTCAG
1 ATCAGAAATCAAAACAGAATTCAG
** *
16685743 ATCAGATGTTAAAACAGAATTC-G
1 ATCAGAAATCAAAACAGAATTCAG
16685766 TATCAGAAATCA
1 -ATCAGAAATCA
16685778 GATAAAATAT
Statistics
Matches: 59, Mismatches: 23, Indels: 2
0.70 0.27 0.02
Matches are distributed among these distances:
23 1 0.02
24 58 0.98
ACGTcount: A:0.46, C:0.16, G:0.15, T:0.23
Consensus pattern (24 bp):
ATCAGAAATCAAAACAGAATTCAG
Found at i:16685777 original size:48 final size:49
Alignment explanation
Indices: 16685670--16685779 Score: 127
Period size: 48 Copynumber: 2.3 Consensus size: 49
16685660 TAAATGAAGA
* *
16685670 TATCAGAAATCAAAACATAATTCAGATCAGATATCAGAACAGAATCCAGG
1 TATCAGAAATCAGAACATAATTCAGATCAGATATCAAAACAGAATCCA-G
* * * * *
16685720 T-T-AGGAATCAGAACATATTTCAGATCAGATGTTAAAACAGAATTC-G
1 TATCAGAAATCAGAACATAATTCAGATCAGATATCAAAACAGAATCCAG
16685766 TATCAGAAATCAGA
1 TATCAGAAATCAGA
16685780 TAAAATATTC
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
46 2 0.04
47 1 0.02
48 45 0.90
49 1 0.02
50 1 0.02
ACGTcount: A:0.45, C:0.15, G:0.15, T:0.24
Consensus pattern (49 bp):
TATCAGAAATCAGAACATAATTCAGATCAGATATCAAAACAGAATCCAG
Found at i:16687682 original size:36 final size:36
Alignment explanation
Indices: 16687635--16687707 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
16687625 GATAAATTAT
16687635 AATCTACATATCCATGGCTGATTCTTTTATCACTTA
1 AATCTACATATCCATGGCTGATTCTTTTATCACTTA
*
16687671 AATCTACATATCCATGGTTGATTCTTTTATCACTTA
1 AATCTACATATCCATGGCTGATTCTTTTATCACTTA
16687707 A
1 A
16687708 TTCCAGAACT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.29, C:0.21, G:0.08, T:0.42
Consensus pattern (36 bp):
AATCTACATATCCATGGCTGATTCTTTTATCACTTA
Found at i:16688361 original size:18 final size:18
Alignment explanation
Indices: 16688340--16688397 Score: 80
Period size: 18 Copynumber: 3.2 Consensus size: 18
16688330 GGTCAACTGT
16688340 GGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
*
16688358 GGTCAACTGGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
* * *
16688376 TGTAAACGGGTCGGGTCA
1 GGTCAACGGGTCGGGTCG
16688394 GGTC
1 GGTC
16688398 GGGTTGGAAC
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.14, C:0.21, G:0.45, T:0.21
Consensus pattern (18 bp):
GGTCAACGGGTCGGGTCG
Found at i:16690722 original size:19 final size:19
Alignment explanation
Indices: 16690698--16690743 Score: 92
Period size: 19 Copynumber: 2.4 Consensus size: 19
16690688 TCCGTGGCAA
16690698 GATGAGCACGAAAGAGTTC
1 GATGAGCACGAAAGAGTTC
16690717 GATGAGCACGAAAGAGTTC
1 GATGAGCACGAAAGAGTTC
16690736 GATGAGCA
1 GATGAGCA
16690744 GATGATCAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.37, C:0.15, G:0.33, T:0.15
Consensus pattern (19 bp):
GATGAGCACGAAAGAGTTC
Found at i:16691787 original size:14 final size:14
Alignment explanation
Indices: 16691768--16691795 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
16691758 TTTTATGTGG
16691768 TTTGATAAATATAT
1 TTTGATAAATATAT
16691782 TTTGATAAATATAT
1 TTTGATAAATATAT
16691796 ATATATATAT
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:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (14 bp):
TTTGATAAATATAT
Found at i:16692384 original size:5 final size:5
Alignment explanation
Indices: 16692376--16692413 Score: 76
Period size: 5 Copynumber: 7.6 Consensus size: 5
16692366 AAATTAAAGA
16692376 TGGTT TGGTT TGGTT TGGTT TGGTT TGGTT TGGTT TGG
1 TGGTT TGGTT TGGTT TGGTT TGGTT TGGTT TGGTT TGG
16692414 AATGGCACAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.00, C:0.00, G:0.42, T:0.58
Consensus pattern (5 bp):
TGGTT
Found at i:16692997 original size:151 final size:154
Alignment explanation
Indices: 16692759--16693066 Score: 455
Period size: 150 Copynumber: 2.0 Consensus size: 154
16692749 AGTTCCATGA
* * **
16692759 GATATAATTTTTTGATGGTTCGTGTCAGGTGGACCCCACAGCCTGATTAAAAAATCAAGAGGGAC
1 GATATAATTTTTTAATGGTCCGCATCAGGTGGACCCCACAGCCTGATTAAAAAATCAAGAGGGAC
16692824 TCGTCACACCAGCGTGACGAGTCCCAAT-AAA-ATA-TTTTTTAAATTTTTTAAAAAGAAAATT-
66 TCGTCACACCAGCGTGACGAGTCCCAATAAAATATATTTTTTTAAATTTTTT-AAAAGAAAATTA
16692885 AAAAAA-AATATTTTATGGAGATGG
130 AAAAAATAATATTTTATGGAGATGG
* *
16692909 GATATAATTTTTTAATGGTCCGCATCAGGTGGGCCCCACAGCTTGATTAAAAAATTCAAGAGGGA
1 GATATAATTTTTTAATGGTCCGCATCAGGTGGACCCCACAGCCTGATTAAAAAA-TCAAGAGGGA
* * *
16692974 CTCGTCACACCATCTTGACGAGTCCTAATAAAAAATATATTTTTTTAAATTTTTTAAAAGAAAAT
65 CTCGTCACACCAGCGTGACGAGTCCCAAT--AAAATATATTTTTTTAAATTTTTTAAAAGAAAAT
16693039 TAAAAAAAATAATATTTTATGGAGATGG
128 T-AAAAAAATAATATTTTATGGAGATGG
16693067 AACTCGTCAT
Statistics
Matches: 140, Mismatches: 9, Indels: 10
0.88 0.06 0.06
Matches are distributed among these distances:
150 48 0.34
151 36 0.26
154 3 0.02
155 14 0.10
156 15 0.11
157 6 0.04
158 18 0.13
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (154 bp):
GATATAATTTTTTAATGGTCCGCATCAGGTGGACCCCACAGCCTGATTAAAAAATCAAGAGGGAC
TCGTCACACCAGCGTGACGAGTCCCAATAAAATATATTTTTTTAAATTTTTTAAAAGAAAATTAA
AAAAATAATATTTTATGGAGATGG
Found at i:16693329 original size:95 final size:95
Alignment explanation
Indices: 16693162--16693338 Score: 255
Period size: 95 Copynumber: 1.9 Consensus size: 95
16693152 CAGAGTGTCG
* * *
16693162 GTACTATTAATCTAAGTAGTATCAATATCATATATGGTATCGATGCCATTCTATCATTCTGTTTT
1 GTACTACTAATCTAAGTAGTATCAATATCATATATGGTATCGATACCATTCTAGCATTCTGTTTT
* *
16693227 GATAGTATCGGTACTGCATCAGCATTACCA
66 GACAGTATCGATACTGCATCAGCATTACCA
* * * * * *
16693257 GTACTACTACTCTATGTAGTATCGATATCATATATGGTATCGGTATCATTTTAGCATTCTGTTTT
1 GTACTACTAATCTAAGTAGTATCAATATCATATATGGTATCGATACCATTCTAGCATTCTGTTTT
16693322 GACAGTATCGATACTGC
66 GACAGTATCGATACTGC
16693339 CTGAGAAGTA
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
95 71 1.00
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.39
Consensus pattern (95 bp):
GTACTACTAATCTAAGTAGTATCAATATCATATATGGTATCGATACCATTCTAGCATTCTGTTTT
GACAGTATCGATACTGCATCAGCATTACCA
Found at i:16695024 original size:13 final size:13
Alignment explanation
Indices: 16695002--16695034 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
16694992 AATGTGTTTA
*
16695002 AAAAAAATTTATG
1 AAAAACATTTATG
16695015 AAAAACATTTATG
1 AAAAACATTTATG
16695028 AAAAACA
1 AAAAACA
16695035 AAAGTATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.64, C:0.06, G:0.06, T:0.24
Consensus pattern (13 bp):
AAAAACATTTATG
Found at i:16710354 original size:95 final size:95
Alignment explanation
Indices: 16710205--16710397 Score: 368
Period size: 95 Copynumber: 2.0 Consensus size: 95
16710195 TACGTAAAAT
16710205 AATTAATTTTAAAATATAAAATGTTTATGTTTTACTTTATTTTTTATGGCTTTCTTGGTCCGTAT
1 AATTAATTTTAAAATATAAAATGTTTATGTTTTACTTTATTTTTTATGGCTTTCTTGGTCCGTAT
*
16710270 TTTCTCATAGACCAAACAGGATCCGATTCG
66 TTTCTCATAGACCAAACAGAATCCGATTCG
*
16710300 AATTAATTTTAAAATATAAAATGTTTATGTTTTACTTTATTTTTTATGGTTTTCTTGGTCCGTAT
1 AATTAATTTTAAAATATAAAATGTTTATGTTTTACTTTATTTTTTATGGCTTTCTTGGTCCGTAT
16710365 TTTCTCATAGACCAAACAGAATCCGATTCG
66 TTTCTCATAGACCAAACAGAATCCGATTCG
16710395 AAT
1 AAT
16710398 GATTCAACCA
Statistics
Matches: 96, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
95 96 1.00
ACGTcount: A:0.30, C:0.13, G:0.12, T:0.46
Consensus pattern (95 bp):
AATTAATTTTAAAATATAAAATGTTTATGTTTTACTTTATTTTTTATGGCTTTCTTGGTCCGTAT
TTTCTCATAGACCAAACAGAATCCGATTCG
Found at i:16714535 original size:30 final size:30
Alignment explanation
Indices: 16714499--16714559 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
16714489 GCTCTAATTG
*
16714499 GACAGGAGATTGGTGTAAATTTAGTGGATA
1 GACAGGAGATTGGTGTAAATTTAGTAGATA
16714529 GACAGGAGATTGGTGTAAATTTAGTAGATA
1 GACAGGAGATTGGTGTAAATTTAGTAGATA
16714559 G
1 G
16714560 TGGACGGATG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.34, C:0.03, G:0.33, T:0.30
Consensus pattern (30 bp):
GACAGGAGATTGGTGTAAATTTAGTAGATA
Found at i:16716084 original size:30 final size:30
Alignment explanation
Indices: 16716048--16716111 Score: 128
Period size: 30 Copynumber: 2.1 Consensus size: 30
16716038 AATTAATTAA
16716048 ATATTTCTCTCATAAGTTACAAAATGTCTT
1 ATATTTCTCTCATAAGTTACAAAATGTCTT
16716078 ATATTTCTCTCATAAGTTACAAAATGTCTT
1 ATATTTCTCTCATAAGTTACAAAATGTCTT
16716108 ATAT
1 ATAT
16716112 AATCCCCTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.34, C:0.16, G:0.06, T:0.44
Consensus pattern (30 bp):
ATATTTCTCTCATAAGTTACAAAATGTCTT
Found at i:16717666 original size:22 final size:23
Alignment explanation
Indices: 16717641--16717693 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
16717631 ATATATTTTC
16717641 ATAAAAACTATA-TGA-AATCATT
1 ATAAAAACTATATTGATAAT-ATT
* *
16717663 ATAAAAAATATATTTATAATATT
1 ATAAAAACTATATTGATAATATT
16717686 ATAAAAAC
1 ATAAAAAC
16717694 ATTTATTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
22 11 0.42
23 12 0.46
24 3 0.12
ACGTcount: A:0.58, C:0.06, G:0.02, T:0.34
Consensus pattern (23 bp):
ATAAAAACTATATTGATAATATT
Found at i:16717704 original size:22 final size:23
Alignment explanation
Indices: 16717620--16717702 Score: 73
Period size: 24 Copynumber: 3.6 Consensus size: 23
16717610 AAAAAATAAC
*
16717620 AAAAATA-ATTTATATATTTTCATA
1 AAAAATATATTTATA-ATATT-ATA
* *
16717644 AAAACTATA-TGA-AATCATTATA
1 AAAAATATATTTATAAT-ATTATA
16717666 AAAAATATATTTATAATATTATA
1 AAAAATATATTTATAATATTATA
*
16717689 AAAACATTTATTTA
1 AAAA-ATATATTTA
16717703 ATTTTTAAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
22 13 0.27
23 15 0.31
24 19 0.40
25 1 0.02
ACGTcount: A:0.53, C:0.05, G:0.01, T:0.41
Consensus pattern (23 bp):
AAAAATATATTTATAATATTATA
Found at i:16717902 original size:23 final size:22
Alignment explanation
Indices: 16717862--16717920 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 22
16717852 GATAATTTAA
*
16717862 AAATAAAATCATTTCAAATAAAT
1 AAATAATAT-ATTTCAAATAAAT
*
16717885 AATTAATATTATTTCAAATAAAT
1 AAATAATA-TATTTCAAATAAAT
16717908 AAATAATATATTT
1 AAATAATATATTT
16717921 TTCATAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
22 5 0.16
23 26 0.81
24 1 0.03
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (22 bp):
AAATAATATATTTCAAATAAAT
Found at i:16717949 original size:22 final size:23
Alignment explanation
Indices: 16717924--16717976 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
16717914 TATATTTTTC
16717924 ATAAAAACTATA-TGA-AATCATT
1 ATAAAAACTATATTGATAAT-ATT
* *
16717946 ATAAAAAGTATATTTATAATATT
1 ATAAAAACTATATTGATAATATT
16717969 ATAAAAAC
1 ATAAAAAC
16717977 ATTTATTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
22 11 0.42
23 12 0.46
24 3 0.12
ACGTcount: A:0.57, C:0.06, G:0.04, T:0.34
Consensus pattern (23 bp):
ATAAAAACTATATTGATAATATT
Found at i:16717960 original size:283 final size:284
Alignment explanation
Indices: 16717630--16718200 Score: 1108
Period size: 283 Copynumber: 2.0 Consensus size: 284
16717620 AAAAATAATT
16717630 TATATATTTTCATAAAAACTATATGAAATCATTATAAAAAATATATTTATAATATTATAAAAACA
1 TATATATTTTCATAAAAACTATATGAAATCATTATAAAAAATATATTTATAATATTATAAAAACA
*
16717695 TTTATTTAATTTTTAAAATCAAATTACTTATTTATATAAAATAATATTATTTTAAAATTATCTAT
66 TTTATTTAATTTTTAAAATCAAATTAATTATTTATATAAAATAATATTATTTTAAAATTATCTAT
16717760 TTAACTTTAAATAATTTAAAATTTATGGTAAATTGTACGTTTAGTATCCAACTATCACTTTGATT
131 TTAACTTTAAATAATTTAAAATTTATGGTAAATTGTACGTTTAGTATCCAACTATCACTTTGATT
*
16717825 TAGTATAATATCATTTTAAATTAAATAGATAATTTAAAAATAAAATCATTTCAAATAAATAATTA
196 TAGTATAATATCATTTCAAATTAAATAGATAATTTAAAAATAAAATCATTTCAAATAAATAATTA
16717890 ATATTATTTCAAATAAATAAATAA
261 ATATTATTTCAAATAAATAAATAA
*
16717914 TATAT-TTTTCATAAAAACTATATGAAATCATTATAAAAAGTATATTTATAATATTATAAAAACA
1 TATATATTTTCATAAAAACTATATGAAATCATTATAAAAAATATATTTATAATATTATAAAAACA
16717978 TTTATTTAATTTTTAAAATCAAATTAATTATTTATATAAAATAATATTATTTTAAAATTATCTAT
66 TTTATTTAATTTTTAAAATCAAATTAATTATTTATATAAAATAATATTATTTTAAAATTATCTAT
16718043 TTAACTTTAAATAATTTAAAATTTATGGTAAATTGTACGTTTAGTATCCAACTATCACTTTGATT
131 TTAACTTTAAATAATTTAAAATTTATGGTAAATTGTACGTTTAGTATCCAACTATCACTTTGATT
16718108 TAGTATAATATCATTTCAAATTAAATAGATAATTTAAAAATAAAATCATTTCAAATAAATAATTA
196 TAGTATAATATCATTTCAAATTAAATAGATAATTTAAAAATAAAATCATTTCAAATAAATAATTA
16718173 ATATTATTTCAAATAAATAAATAA
261 ATATTATTTCAAATAAATAAATAA
16718197 TATA
1 TATA
16718201 GTTTCAAAAA
Statistics
Matches: 284, Mismatches: 3, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
283 279 0.98
284 5 0.02
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.43
Consensus pattern (284 bp):
TATATATTTTCATAAAAACTATATGAAATCATTATAAAAAATATATTTATAATATTATAAAAACA
TTTATTTAATTTTTAAAATCAAATTAATTATTTATATAAAATAATATTATTTTAAAATTATCTAT
TTAACTTTAAATAATTTAAAATTTATGGTAAATTGTACGTTTAGTATCCAACTATCACTTTGATT
TAGTATAATATCATTTCAAATTAAATAGATAATTTAAAAATAAAATCATTTCAAATAAATAATTA
ATATTATTTCAAATAAATAAATAA
Found at i:16718167 original size:19 final size:19
Alignment explanation
Indices: 16718112--16718193 Score: 55
Period size: 23 Copynumber: 4.3 Consensus size: 19
16718102 TTGATTTAGT
*
16718112 ATAATATCATTTCAAATTAA
1 ATAAAATCATTTCAAA-TAA
* *
16718132 AT-AGATAATTT--AA-AA
1 ATAAAATCATTTCAAATAA
16718147 ATAAAATCATTTCAAATAA
1 ATAAAATCATTTCAAATAA
*
16718166 ATAATTAATATTATTTCAAATAA
1 AT-A--AA-ATCATTTCAAATAA
16718189 ATAAA
1 ATAAA
16718194 TAATATAGTT
Statistics
Matches: 49, Mismatches: 5, Indels: 16
0.70 0.07 0.23
Matches are distributed among these distances:
15 4 0.08
16 7 0.14
17 2 0.04
18 2 0.04
19 11 0.22
20 5 0.10
22 3 0.06
23 15 0.31
ACGTcount: A:0.56, C:0.06, G:0.01, T:0.37
Consensus pattern (19 bp):
ATAAAATCATTTCAAATAA
Found at i:16718185 original size:23 final size:22
Alignment explanation
Indices: 16718145--16718224 Score: 85
Period size: 23 Copynumber: 3.6 Consensus size: 22
16718135 GATAATTTAA
*
16718145 AAATAAAATCATTTCAAATAAAT
1 AAATAATAT-ATTTCAAATAAAT
*
16718168 AATTAATATTATTTCAAATAAAT
1 AAATAATA-TATTTCAAATAAAT
16718191 AAATAATATAGTTTC-AA-AAAT
1 AAATAATATA-TTTCAAATAAAT
16718212 AAAATAA-ATATTT
1 -AAATAATATATTT
16718225 AAAAATATTA
Statistics
Matches: 51, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
20 3 0.06
21 7 0.14
22 10 0.20
23 30 0.59
24 1 0.02
ACGTcount: A:0.57, C:0.05, G:0.01, T:0.36
Consensus pattern (22 bp):
AAATAATATATTTCAAATAAAT
Found at i:16718228 original size:19 final size:22
Alignment explanation
Indices: 16718187--16718231 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 22
16718177 TATTTCAAAT
16718187 AAAT-AAATAATATAGTTTCAA
1 AAATAAAATAATATAGTTTCAA
16718208 AAATAAAATAA-ATA-TTT-AA
1 AAATAAAATAATATAGTTTCAA
16718227 AAATA
1 AAATA
16718232 TTATAAATAC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 7 0.30
20 3 0.13
21 7 0.30
22 6 0.26
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (22 bp):
AAATAAAATAATATAGTTTCAA
Found at i:16718239 original size:23 final size:23
Alignment explanation
Indices: 16718189--16718284 Score: 60
Period size: 23 Copynumber: 4.2 Consensus size: 23
16718179 TTTCAAATAA
*
16718189 ATAAATAATATAGTTTCAAAA-A-T
1 ATAAATAA-ATA-TTTAAAAATATT
16718212 A-AAATAAATATTTAAAAATATT
1 ATAAATAAATATTTAAAAATATT
* *
16718234 ATAAATACATTTTTAGAATAAT-TT
1 ATAAATAAATATTTA-AA-AATATT
* *
16718258 A-ATATAAAT-TTTATAAATATAT
1 ATAAATAAATATTTAAAAATAT-T
16718280 ATAAA
1 ATAAA
16718285 AATAATTATT
Statistics
Matches: 58, Mismatches: 7, Indels: 16
0.72 0.09 0.20
Matches are distributed among these distances:
20 10 0.17
21 6 0.10
22 14 0.24
23 20 0.34
24 5 0.09
25 3 0.05
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (23 bp):
ATAAATAAATATTTAAAAATATT
Found at i:16718358 original size:23 final size:23
Alignment explanation
Indices: 16718330--16718396 Score: 82
Period size: 23 Copynumber: 2.9 Consensus size: 23
16718320 TAATTCTTTA
*
16718330 ATTTAATAATGATATAAT-TAAGT
1 ATTTAAT-ATGATATAATAAAAGT
*
16718353 ATTTAATTTGATATAATAAAAGT
1 ATTTAATATGATATAATAAAAGT
* *
16718376 ATTTAGTTTGATATAATAAAA
1 ATTTAATATGATATAATAAAA
16718397 ATAGTTTTGC
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
22 9 0.22
23 31 0.77
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.43
Consensus pattern (23 bp):
ATTTAATATGATATAATAAAAGT
Found at i:16718403 original size:19 final size:21
Alignment explanation
Indices: 16718359--16718403 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 21
16718349 AAGTATTTAA
16718359 TTTGATATAATAAAAGTATTTAG
1 TTTGATATAATAAAAG-A-TTAG
16718382 TTTGATATAATAAAA-A-TAG
1 TTTGATATAATAAAAGATTAG
16718401 TTT
1 TTT
16718404 TGCATTATAG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 6 0.27
21 1 0.05
23 15 0.68
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.44
Consensus pattern (21 bp):
TTTGATATAATAAAAGATTAG
Found at i:16720606 original size:20 final size:19
Alignment explanation
Indices: 16720577--16720633 Score: 57
Period size: 17 Copynumber: 3.1 Consensus size: 19
16720567 CGAATGCAAT
16720577 AAATAATATTATTTATT-AA
1 AAAT-ATATTATTTATTAAA
*
16720596 ATA-ATATTATTTATTAAA
1 AAATATATTATTTATTAAA
*
16720614 AAATATTTTTATTT-TTAAA
1 AAATA-TATTATTTATTAAA
16720633 A
1 A
16720634 TATTAGAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
17 12 0.38
18 4 0.12
19 9 0.28
20 7 0.22
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
AAATATATTATTTATTAAA
Found at i:16720620 original size:14 final size:17
Alignment explanation
Indices: 16720576--16720626 Score: 86
Period size: 17 Copynumber: 3.1 Consensus size: 17
16720566 TCGAATGCAA
16720576 TAAATAATATTATTTAT
1 TAAATAATATTATTTAT
16720593 TAAATAATATTATTTAT
1 TAAATAATATTATTTAT
*
16720610 TAAAAAATATT-TTTAT
1 TAAATAATATTATTTAT
16720626 T
1 T
16720627 TTTAAAATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
16 6 0.18
17 27 0.82
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TAAATAATATTATTTAT
Found at i:16720838 original size:21 final size:21
Alignment explanation
Indices: 16720807--16720869 Score: 76
Period size: 19 Copynumber: 3.0 Consensus size: 21
16720797 ATTACTGATT
16720807 AAATAATAATATTAAAAATTAA
1 AAAT-ATAATATTAAAAATTAA
16720829 AAATATAATATT-AAAA-TAA
1 AAATATAATATTAAAAATTAA
*
16720848 AAATATTATATTCTAAAAATTA
1 AAATATAATA-T-TAAAAATTA
16720870 TTAGTAAATA
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
19 12 0.33
20 5 0.14
21 9 0.25
22 8 0.22
23 2 0.06
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (21 bp):
AAATATAATATTAAAAATTAA
Found at i:16723809 original size:20 final size:21
Alignment explanation
Indices: 16723784--16723823 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
16723774 CTCTACATAG
16723784 TAGTATCAATACCAT-AGGCA
1 TAGTATCAATACCATCAGGCA
16723804 TAGTATCAATACCATCAGGC
1 TAGTATCAATACCATCAGGC
16723824 CCAACGGCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (21 bp):
TAGTATCAATACCATCAGGCA
Found at i:16725707 original size:19 final size:19
Alignment explanation
Indices: 16725671--16725707 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
16725661 TGAAAATGAT
*
16725671 TTGATTTTGAAAGCCAAAG
1 TTGATTTTGAAAACCAAAG
*
16725690 TTGATTTTGAAAATCAAA
1 TTGATTTTGAAAACCAAA
16725708 ATGGAATTTT
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:0.41, C:0.08, G:0.16, T:0.35
Consensus pattern (19 bp):
TTGATTTTGAAAACCAAAG
Found at i:16726866 original size:12 final size:12
Alignment explanation
Indices: 16726849--16726874 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
16726839 ACAATGGATC
16726849 GGAGATGGGTTG
1 GGAGATGGGTTG
16726861 GGAGATGGGTTG
1 GGAGATGGGTTG
16726873 GG
1 GG
16726875 TGTAGCTTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.00, G:0.62, T:0.23
Consensus pattern (12 bp):
GGAGATGGGTTG
Found at i:16727488 original size:2 final size:2
Alignment explanation
Indices: 16727402--16727472 Score: 128
Period size: 2 Copynumber: 36.5 Consensus size: 2
16727392 TTATTTTTAT
16727402 TA TA TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
16727443 TA TA TA TA TA TA TA TA TA TA -A TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
16727473 GGATGGATGG
Statistics
Matches: 67, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
1 2 0.03
2 65 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:16727935 original size:40 final size:40
Alignment explanation
Indices: 16727880--16727962 Score: 166
Period size: 40 Copynumber: 2.1 Consensus size: 40
16727870 TTGAGCACAA
16727880 AATGATTTTCACGTACAAGAAGTACCGATACTATTTTTAC
1 AATGATTTTCACGTACAAGAAGTACCGATACTATTTTTAC
16727920 AATGATTTTCACGTACAAGAAGTACCGATACTATTTTTAC
1 AATGATTTTCACGTACAAGAAGTACCGATACTATTTTTAC
16727960 AAT
1 AAT
16727963 ATCGATACAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (40 bp):
AATGATTTTCACGTACAAGAAGTACCGATACTATTTTTAC
Found at i:16728054 original size:3 final size:3
Alignment explanation
Indices: 16728033--16728176 Score: 100
Period size: 3 Copynumber: 47.0 Consensus size: 3
16728023 ATCCGAGTTT
*
16728033 TTA TAA TTA -TA TATA TTA TTA -TA TATA TATA TATA TTA TTGA -TA
1 TTA TTA TTA TTA T-TA TTA TTA TTA T-TA T-TA T-TA TTA TT-A TTA
* * ** **
16728077 TTA TGA -TA TTA TTA TTA TTA TTA TTA TTA CTA TTA TTA CAA TTA CAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
16728124 TTA TAA TATA TTA TATA TTTA TTA TTA TTA TTA TCA TTA TTA TT- TTA
1 TTA TTA T-TA TTA T-TA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
16728171 TTA TTA
1 TTA TTA
16728177 CAAATGGAGG
Statistics
Matches: 112, Mismatches: 18, Indels: 22
0.74 0.12 0.14
Matches are distributed among these distances:
2 8 0.07
3 82 0.73
4 21 0.19
5 1 0.01
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.57
Consensus pattern (3 bp):
TTA
Found at i:16728714 original size:2 final size:2
Alignment explanation
Indices: 16728707--16728741 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
16728697 TTTTTATAAT
16728707 TA TA TA TA 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
16728742 TGATATTATG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:16728761 original size:3 final size:3
Alignment explanation
Indices: 16728753--16728834 Score: 76
Period size: 3 Copynumber: 26.7 Consensus size: 3
16728743 GATATTATGA
* * * * *
16728753 TAT TAT TAT TAT TAC TAC TAT TAC AAT TAT AAT ATAT TAT ATATT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT -TA-T TAT
*
16728801 TAT TAT TAT TAT TAT CAT TAT TAT T-T TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
16728835 CAAATGGAGG
Statistics
Matches: 65, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
2 2 0.03
3 56 0.86
4 6 0.09
5 1 0.02
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:16733919 original size:3 final size:3
Alignment explanation
Indices: 16733898--16734004 Score: 94
Period size: 3 Copynumber: 35.3 Consensus size: 3
16733888 GTCCGAGTTT
* * * *
16733898 TTA TAA TTA -TA TATA TTA TTA TTA TTA ATA TTA TGA -CA TTA TTA
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
16733942 TTA TTA TTA TTA CTA TTA TAA TATA TTA TATA TTTA TTA TTA TCA TTA
1 TTA TTA TTA TTA TTA TTA TTA T-TA TTA T-TA -TTA TTA TTA TTA TTA
16733990 TTA TT- TTA TTA TTA T
1 TTA TTA TTA TTA TTA T
16734005 AAATGGAGGT
Statistics
Matches: 84, Mismatches: 13, Indels: 14
0.76 0.12 0.13
Matches are distributed among these distances:
2 5 0.06
3 69 0.82
4 9 0.11
5 1 0.01
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:16755227 original size:45 final size:44
Alignment explanation
Indices: 16755130--16755228 Score: 146
Period size: 45 Copynumber: 2.2 Consensus size: 44
16755120 ATTTTGTTGC
16755130 CAAAA-TAAAATCAAAGGATTAGTTCCTTTCGATTATTGGATTG
1 CAAAATTAAAATCAAAGGATTAGTTCCTTTCGATTATTGGATTG
* *
16755173 CAAAGATTAAAATCAAAGGATTAGTTCCTTTTGATTATTGGGTTGG
1 CAAA-ATTAAAATCAAAGGATTAGTTCCTTTCGATTATTGGATT-G
*
16755219 TAAAATTAAA
1 CAAAATTAAA
16755229 TGATTAATTC
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
43 4 0.08
44 1 0.02
45 41 0.82
46 4 0.08
ACGTcount: A:0.38, C:0.09, G:0.17, T:0.35
Consensus pattern (44 bp):
CAAAATTAAAATCAAAGGATTAGTTCCTTTCGATTATTGGATTG
Found at i:16755234 original size:39 final size:41
Alignment explanation
Indices: 16755134--16755247 Score: 133
Period size: 45 Copynumber: 2.7 Consensus size: 41
16755124 TGTTGCCAAA
16755134 ATAAAATCAAAGGATTAGTTCCTTTCGATTATTGGATTGCAAAG
1 ATAAAATCAAAGGATTAGTTCCTTTCGATTATTGGATTG---AG
* *
16755178 ATTAAAATCAAAGGATTAGTTCCTTTTGATTATTGGGTTG-G
1 A-TAAAATCAAAGGATTAGTTCCTTTCGATTATTGGATTGAG
* * *
16755219 -TAAAATTAAATGATTAATTCCTTTCGATT
1 ATAAAATCAAAGGATTAGTTCCTTTCGATT
16755248 TCTGTTTGTT
Statistics
Matches: 63, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
39 25 0.40
41 1 0.02
44 1 0.02
45 36 0.57
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (41 bp):
ATAAAATCAAAGGATTAGTTCCTTTCGATTATTGGATTGAG
Found at i:16755610 original size:59 final size:57
Alignment explanation
Indices: 16755397--16755720 Score: 239
Period size: 58 Copynumber: 5.6 Consensus size: 57
16755387 TTTTTAAGGA
* * * * * * **
16755397 AAATAGATTGTTGAATTTATTTCCTTGAGAATATTTAATGATTCTAACTTTGCAAGAA-
1 AAATAAATTGTTAAATTTATTTTCTTGAGAATCTTAAATGATTCT-ATTTTATAA-AAG
* * * * * * * **
16755455 AAATAAGTTGTTGAATTTATTTCCAT-AGAAATCTTGAATGATTTTAACTTCGTAAGAA-
1 AAATAAATTGTTAAATTTATTTTCTTGAG-AATCTTAAATGATTCT-ATTTTATAA-AAG
* * ** *
16755513 AAATAAATTG-TCAATTT-TTTT-TTGAGAATCATGGATGATTCTATCCTTTAAAAAAG
1 AAATAAATTGTTAAATTTATTTTCTTGAGAATCTTAAATGATTCTAT--TTTATAAAAG
* * *
16755569 AAATAAATTGATAAATTTATTTTCTTAAGAATCTTAAATGATTCTATTTTGTAAAAG
1 AAATAAATTGTTAAATTTATTTTCTTGAGAATCTTAAATGATTCTATTTTATAAAAG
* * * *
16755626 TTAATAAATTGTTAAATTTATTTTCTTGAGAATCTTAAATGATTTTATTTTGTTAAAGG
1 -AAATAAATTGTTAAATTTATTTTCTTGAGAATCTTAAATGATTCTATTTT-ATAAAAG
16755685 AAATAAATTGTTAAATTTTATTTTCTTG-GAAATCTT
1 AAATAAATTGTTAAA-TTTATTTTCTTGAG-AATCTT
16755721 GAATAAAGAA
Statistics
Matches: 221, Mismatches: 33, Indels: 23
0.80 0.12 0.08
Matches are distributed among these distances:
54 1 0.00
55 16 0.07
56 19 0.09
57 22 0.10
58 121 0.55
59 42 0.19
ACGTcount: A:0.37, C:0.07, G:0.12, T:0.44
Consensus pattern (57 bp):
AAATAAATTGTTAAATTTATTTTCTTGAGAATCTTAAATGATTCTATTTTATAAAAG
Found at i:16755762 original size:43 final size:43
Alignment explanation
Indices: 16755679--16755793 Score: 167
Period size: 43 Copynumber: 2.6 Consensus size: 43
16755669 TTTATTTTGT
16755679 TAAAGGAAATAAATTGTTAAATTTTATTTTCTTGGAAATCTTGAA
1 TAAA-GAAATAAATTGTTAAA-TTTATTTTCTTGGAAATCTTGAA
* *
16755724 TAAAGAAATAAATTGTTAAATTTATTTTCTTGGGAATCTTGTA
1 TAAAGAAATAAATTGTTAAATTTATTTTCTTGGAAATCTTGAA
* * *
16755767 TAAAGAATTAAATTATTGAATTTATTT
1 TAAAGAAATAAATTGTTAAATTTATTT
16755794 ACTCATATGA
Statistics
Matches: 65, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
43 45 0.69
44 16 0.25
45 4 0.06
ACGTcount: A:0.40, C:0.03, G:0.12, T:0.44
Consensus pattern (43 bp):
TAAAGAAATAAATTGTTAAATTTATTTTCTTGGAAATCTTGAA
Found at i:16755908 original size:40 final size:39
Alignment explanation
Indices: 16755806--16755924 Score: 170
Period size: 39 Copynumber: 3.1 Consensus size: 39
16755796 TCATATGATT
*
16755806 CTATTTT-TAAAAGAAAATAAATCGTTTG-ATTTATTTTC
1 CTATTTTGTAAAAGAAAATAAATTG-TTGAATTTATTTTC
* * *
16755844 CTGTTTTGTAAAAGGAAATAAATTGTTGAATTTACTTTC
1 CTATTTTGTAAAAGAAAATAAATTGTTGAATTTATTTTC
16755883 CTATTTTGTAAAAAGAAAATAAATTGTTGAATTTATTTTC
1 CTATTTTGT-AAAAGAAAATAAATTGTTGAATTTATTTTC
16755923 CT
1 CT
16755925 GAAAATCTCA
Statistics
Matches: 71, Mismatches: 7, Indels: 4
0.87 0.09 0.05
Matches are distributed among these distances:
38 9 0.13
39 32 0.45
40 30 0.42
ACGTcount: A:0.36, C:0.08, G:0.11, T:0.45
Consensus pattern (39 bp):
CTATTTTGTAAAAGAAAATAAATTGTTGAATTTATTTTC
Found at i:16756028 original size:98 final size:98
Alignment explanation
Indices: 16755850--16756099 Score: 272
Period size: 98 Copynumber: 2.6 Consensus size: 98
16755840 TTTCCTGTTT
* * * * * * * *
16755850 TGTAAAAGGAAATAAATTGTTGAATTTA-CTTTCCTATTTTGTAAAAAGAAAATAAATTGTTGAA
1 TGTAAAAGAAAATAAATCGTAGAATTTATTTTTTCTATTTTG-AAAAAGAAAATAAATCGATAAA
* * * *
16755914 TTTATTTTCCTGAAAATCTCACATGTTTCT-AAT
65 TTTATTTTCATAAAAATCTCACATGATTCTGAAA
* * *
16755947 TTTCAAAAGAAAATAAATCGTAGAATTTATTTTTTTTGTTTTGAAAAAGAAAATAAATCGATAAA
1 TGT-AAAAGAAAATAAATCGTAGAATTTATTTTTTCTATTTTGAAAAAGAAAATAAATCGATAAA
***
16756012 TTTATTTTCATAAAAATCTTGTATGATTCTGAAA
65 TTTATTTTCATAAAAATCTCACATGATTCTGAAA
* *
16756046 TGTAAAAGAAAATAAATCGTTGGATTTATTTTTTCTATTTTG-AAAAGAATAATA
1 TGTAAAAGAAAATAAATCGTAGAATTTATTTTTTCTATTTTGAAAAAGAA-AATA
16756100 GAATTTATTT
Statistics
Matches: 126, Mismatches: 23, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
97 9 0.07
98 104 0.83
99 13 0.10
ACGTcount: A:0.41, C:0.07, G:0.11, T:0.41
Consensus pattern (98 bp):
TGTAAAAGAAAATAAATCGTAGAATTTATTTTTTCTATTTTGAAAAAGAAAATAAATCGATAAAT
TTATTTTCATAAAAATCTCACATGATTCTGAAA
Found at i:16756092 original size:39 final size:39
Alignment explanation
Indices: 16756046--16756265 Score: 226
Period size: 39 Copynumber: 5.8 Consensus size: 39
16756036 GATTCTGAAA
* *
16756046 TGTAAAAGAAAATAAATCGTTGGATTTATTTTTTCTATTT
1 TGTAAAAGGAAATAAATCATTGGATTTA-TTTTTCTATTT
* *
16756086 TG-AAAA-G-AAT-AAT-A--GAATTTATTTTGT-T-GTT
1 TGTAAAAGGAAATAAATCATTGGATTTATTTT-TCTATTT
* *
16756117 TGTAAAAGGAAATAAATCGTTGGATTTATTTTCCTATTT
1 TGTAAAAGGAAATAAATCATTGGATTTATTTTTCTATTT
** * *
16756156 TGTAAAAGGAAATAAAT-ATCAGAATTATTTTACTATTT
1 TGTAAAAGGAAATAAATCATTGGATTTATTTTTCTATTT
* ** *
16756194 TGCAAAAGGAAATAAATCACCGGATTTATTTTCCTATTT
1 TGTAAAAGGAAATAAATCATTGGATTTATTTTTCTATTT
16756233 TGTAAAAGGAAATAAATCATTGGATTTATTTTT
1 TGTAAAAGGAAATAAATCATTGGATTTATTTTT
16756266 TGGGGAATAT
Statistics
Matches: 147, Mismatches: 22, Indels: 23
0.77 0.11 0.12
Matches are distributed among these distances:
31 4 0.03
32 9 0.06
33 8 0.05
34 3 0.02
35 3 0.02
36 3 0.02
37 3 0.02
38 43 0.29
39 69 0.47
40 2 0.01
ACGTcount: A:0.38, C:0.06, G:0.14, T:0.42
Consensus pattern (39 bp):
TGTAAAAGGAAATAAATCATTGGATTTATTTTTCTATTT
Found at i:16764712 original size:12 final size:11
Alignment explanation
Indices: 16764675--16764723 Score: 53
Period size: 12 Copynumber: 4.0 Consensus size: 11
16764665 TATTTATAAC
16764675 ATAAATAAAAT
1 ATAAATAAAAT
16764686 AATAATATTAAAAAT
1 -ATAA-A-T-AAAAT
16764701 ATAAATATAAAT
1 ATAAATA-AAAT
16764713 ATAAATAAAAT
1 ATAAATAAAAT
16764724 TAATAGGAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
11 5 0.15
12 16 0.48
13 2 0.06
14 5 0.15
15 5 0.15
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (11 bp):
ATAAATAAAAT
Found at i:16764717 original size:20 final size:20
Alignment explanation
Indices: 16764677--16764728 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
16764667 TTTATAACAT
16764677 AAATAAAATAATAATATTAA
1 AAATAAAATAATAATATTAA
*
16764697 AAATATAAAT-ATAA-A-TAT
1 AAATA-AAATAATAATATTAA
16764715 AAATAAAATTAATA
1 AAATAAAA-TAATA
16764729 GGAGTAATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
17 3 0.11
18 8 0.29
19 4 0.14
20 9 0.32
21 4 0.14
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (20 bp):
AAATAAAATAATAATATTAA
Found at i:16765114 original size:25 final size:25
Alignment explanation
Indices: 16765086--16765204 Score: 188
Period size: 25 Copynumber: 4.8 Consensus size: 25
16765076 CAACATCAAT
*
16765086 GTGCCACGTAGAATATGCACACAAA
1 GTGCCTCGTAGAATATGCACACAAA
16765111 GTGCCTCGTAGAAT-TGCACACAAA
1 GTGCCTCGTAGAATATGCACACAAA
*
16765135 ATGCCTCGTAGAATATGCACACAAA
1 GTGCCTCGTAGAATATGCACACAAA
* *
16765160 GTGCCTCATAAAATATGCACACAAA
1 GTGCCTCGTAGAATATGCACACAAA
16765185 GTGCCTCGTAGAAT-TGCACA
1 GTGCCTCGTAGAATATGCACA
16765205 AATAATGCTC
Statistics
Matches: 86, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
24 29 0.34
25 57 0.66
ACGTcount: A:0.37, C:0.24, G:0.18, T:0.20
Consensus pattern (25 bp):
GTGCCTCGTAGAATATGCACACAAA
Found at i:16765147 original size:49 final size:50
Alignment explanation
Indices: 16765087--16765204 Score: 186
Period size: 49 Copynumber: 2.4 Consensus size: 50
16765077 AACATCAATG
* * *
16765087 TGCCACGTAGAATATGCACACAAAGTGCCTCGTAGAAT-TGCACACAAAA
1 TGCCTCGTAGAATATGCACACAAAGTGCCTCATAAAATATGCACACAAAA
*
16765136 TGCCTCGTAGAATATGCACACAAAGTGCCTCATAAAATATGCACACAAAG
1 TGCCTCGTAGAATATGCACACAAAGTGCCTCATAAAATATGCACACAAAA
16765186 TGCCTCGTAGAAT-TGCACA
1 TGCCTCGTAGAATATGCACA
16765205 AATAATGCTC
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
49 41 0.64
50 23 0.36
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (50 bp):
TGCCTCGTAGAATATGCACACAAAGTGCCTCATAAAATATGCACACAAAA
Found at i:16767741 original size:30 final size:29
Alignment explanation
Indices: 16767681--16767757 Score: 82
Period size: 30 Copynumber: 2.6 Consensus size: 29
16767671 ACCCAAAATA
* * *
16767681 AAACTTTTGAAAATTTATATTTTAGTCCCT
1 AAACTTTT-AAAATTTACACTTTAGCCCCT
*
16767711 AAACTTTTACAAATTTACACTTTGGCCCCT
1 AAACTTTTA-AAATTTACACTTTAGCCCCT
* *
16767741 AGACTTTCAAAATTTAC
1 AAACTTTTAAAATTTAC
16767758 TTTTCAATCA
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
29 9 0.22
30 31 0.77
ACGTcount: A:0.34, C:0.19, G:0.06, T:0.40
Consensus pattern (29 bp):
AAACTTTTAAAATTTACACTTTAGCCCCT
Found at i:16769924 original size:32 final size:33
Alignment explanation
Indices: 16769878--16769941 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 33
16769868 TAAGTTCTAG
*
16769878 TATTAATAACATAAATA-AAATAATAA-TAATAT
1 TATTAAAAACATAAATATAAATAA-AATTAATAT
*
16769910 TATTAAAAATATAAATATAAATAAAATTAATA
1 TATTAAAAACATAAATATAAATAAAATTAATA
16769942 GGAGTAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (33 bp):
TATTAAAAACATAAATATAAATAAAATTAATAT
Found at i:16770341 original size:25 final size:25
Alignment explanation
Indices: 16770313--16770505 Score: 284
Period size: 25 Copynumber: 7.8 Consensus size: 25
16770303 CAACATCAAT
* *
16770313 GTGCCACGTAGAATATGCACATAAA
1 GTGCCTCGTAGAATATGCACACAAA
* * *
16770338 GTGCCTCGTAGAAT-TGAAAATAAA
1 GTGCCTCGTAGAATATGCACACAAA
*
16770362 GTACCTCGTAGAATATGCACACAAA
1 GTGCCTCGTAGAATATGCACACAAA
16770387 GTGCCTCGTAGAATATGCACACAAA
1 GTGCCTCGTAGAATATGCACACAAA
16770412 GTGCCTCGTAGAAT-TGCACACAAA
1 GTGCCTCGTAGAATATGCACACAAA
* *
16770436 ATGCCTCTTAGAATATGCACACAAA
1 GTGCCTCGTAGAATATGCACACAAA
*
16770461 GTGCCTCATAGAATATGCACACAAA
1 GTGCCTCGTAGAATATGCACACAAA
16770486 GTGCCTCGTAGAAT-TGCACA
1 GTGCCTCGTAGAATATGCACA
16770506 AATAATGCTC
Statistics
Matches: 153, Mismatches: 13, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
24 49 0.32
25 104 0.68
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.22
Consensus pattern (25 bp):
GTGCCTCGTAGAATATGCACACAAA
Found at i:16770504 original size:49 final size:50
Alignment explanation
Indices: 16770313--16770505 Score: 284
Period size: 49 Copynumber: 3.9 Consensus size: 50
16770303 CAACATCAAT
* * * * *
16770313 GTGCCACGTAGAATATGCACATAAAGTGCCTCGTAGAAT-TGAAAATAAA
1 GTGCCTCGTAGAATATGCACACAAAGTGCCTCGTAGAATATGCACACAAA
*
16770362 GTACCTCGTAGAATATGCACACAAAGTGCCTCGTAGAATATGCACACAAA
1 GTGCCTCGTAGAATATGCACACAAAGTGCCTCGTAGAATATGCACACAAA
* *
16770412 GTGCCTCGTAGAAT-TGCACACAAAATGCCTCTTAGAATATGCACACAAA
1 GTGCCTCGTAGAATATGCACACAAAGTGCCTCGTAGAATATGCACACAAA
*
16770461 GTGCCTCATAGAATATGCACACAAAGTGCCTCGTAGAAT-TGCACA
1 GTGCCTCGTAGAATATGCACACAAAGTGCCTCGTAGAATATGCACA
16770506 AATAATGCTC
Statistics
Matches: 130, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
49 88 0.68
50 42 0.32
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.22
Consensus pattern (50 bp):
GTGCCTCGTAGAATATGCACACAAAGTGCCTCGTAGAATATGCACACAAA
Found at i:16770513 original size:74 final size:74
Alignment explanation
Indices: 16770321--16770513 Score: 302
Period size: 74 Copynumber: 2.6 Consensus size: 74
16770311 ATGTGCCACG
* *
16770321 TAGAATATGCACATAAAGTGCCTCGTAGAATTG-A-AAATAAAGTACCTCGTAGAATATGCACAC
1 TAGAATATGCACACAAAGTGCCTCGTAGAATTGCACAAAT-AA-TGCCTCGTAGAATATGCACAC
*
16770384 AAAGTGCCTCG
64 AAAGTGCCTCA
*
16770395 TAGAATATGCACACAAAGTGCCTCGTAGAATTGCACACAA-AATGCCTCTTAGAATATGCACACA
1 TAGAATATGCACACAAAGTGCCTCGTAGAATTGCACA-AATAATGCCTCGTAGAATATGCACACA
16770459 AAGTGCCTCA
65 AAGTGCCTCA
16770469 TAGAATATGCACACAAAGTGCCTCGTAGAATTGCACAAATAATGC
1 TAGAATATGCACACAAAGTGCCTCGTAGAATTGCACAAATAATGC
16770514 TCTAACTCTG
Statistics
Matches: 111, Mismatches: 4, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
73 2 0.02
74 103 0.93
75 3 0.03
76 1 0.01
77 2 0.02
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.22
Consensus pattern (74 bp):
TAGAATATGCACACAAAGTGCCTCGTAGAATTGCACAAATAATGCCTCGTAGAATATGCACACAA
AGTGCCTCA
Found at i:16774303 original size:23 final size:23
Alignment explanation
Indices: 16774273--16774354 Score: 73
Period size: 23 Copynumber: 3.6 Consensus size: 23
16774263 GTGTATCGTT
*
16774273 GTGCATCGATGCACACTCAAGGA
1 GTGCATCGATGCACATTCAAGGA
* *
16774296 GTGCATCGGTGCATC-TTC-ATGA
1 GTGCATCGATGCA-CATTCAAGGA
*
16774318 -TGTATCGATGCACATTCATAGG-
1 GTGCATCGATGCACATTCA-AGGA
16774340 GATGCATCGATGCAC
1 G-TGCATCGATGCAC
16774355 TGGATACTAT
Statistics
Matches: 46, Mismatches: 7, Indels: 11
0.72 0.11 0.17
Matches are distributed among these distances:
20 1 0.02
21 13 0.28
22 3 0.07
23 16 0.35
24 13 0.28
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (23 bp):
GTGCATCGATGCACATTCAAGGA
Found at i:16779527 original size:19 final size:18
Alignment explanation
Indices: 16779498--16779543 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 18
16779488 TGTGTTCTTT
16779498 TTTTCTTTCGAACAGTCT-C
1 TTTT-TTTCGAACAG-CTGC
16779517 TCTTTTTTCGAACAGCTGC
1 T-TTTTTTCGAACAGCTGC
16779536 TTTTTTTC
1 TTTTTTTC
16779544 ATTCAACATT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 9 0.36
19 13 0.52
20 3 0.12
ACGTcount: A:0.13, C:0.24, G:0.11, T:0.52
Consensus pattern (18 bp):
TTTTTTTCGAACAGCTGC
Found at i:16780403 original size:6 final size:6
Alignment explanation
Indices: 16780388--16780416 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
16780378 TGCTTAATCG
16780388 AAAA-A AAAATA AAAATA AAAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA
16780417 TAACGGAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.17
6 19 0.83
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAATA
Found at i:16786925 original size:65 final size:64
Alignment explanation
Indices: 16786876--16787031 Score: 217
Period size: 65 Copynumber: 2.4 Consensus size: 64
16786866 TACACTAGGG
*
16786876 GTGCATCCATGCATAAAATGCATTCGATGTTTCAA-ACAAGCCTAGAGTGCATCGATGCATGGTC
1 GTGCATCCATGCATAAAATGCATTCGATGTTTCAATAAAAGCCT-GAGTGCATCGATGCATGG-C
*
16786940 T
64 A
* * * *
16786941 GTGCATCGATGCATAAAATGCATTTGATGTTTCAATAAAATCCTGAGTGCATCAATGCATGGCA
1 GTGCATCCATGCATAAAATGCATTCGATGTTTCAATAAAAGCCTGAGTGCATCGATGCATGGCA
16787005 GTGCAT-CAGTGCATAAAATGCATTCGA
1 GTGCATCCA-TGCATAAAATGCATTCGA
16787032 AATGGGGTGT
Statistics
Matches: 81, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
63 1 0.01
64 24 0.30
65 50 0.62
66 6 0.07
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.28
Consensus pattern (64 bp):
GTGCATCCATGCATAAAATGCATTCGATGTTTCAATAAAAGCCTGAGTGCATCGATGCATGGCA
Found at i:16789270 original size:31 final size:29
Alignment explanation
Indices: 16789235--16789308 Score: 76
Period size: 30 Copynumber: 2.4 Consensus size: 29
16789225 CCCAAAATAT
16789235 AACTTTAGAAAATTAATACTTTTAGTCCCTA
1 AACTTTA-AAAATTAATAC-TTTAGTCCCTA
* * *
16789266 AACTTTTACAAATTTATACTTTGGTCCCTA
1 AAC-TTTAAAAATTAATACTTTAGTCCCTA
* *
16789296 GACTTTCAAAATT
1 AACTTTAAAAATT
16789309 TACTTTTCAG
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
29 8 0.22
30 12 0.33
31 12 0.33
32 4 0.11
ACGTcount: A:0.35, C:0.18, G:0.07, T:0.41
Consensus pattern (29 bp):
AACTTTAAAAATTAATACTTTAGTCCCTA
Done.