Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold160
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: 5021213
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 92036 characters in sequence are not A, C, G, or T
File 26 of 30
Found at i:4287686 original size:76 final size:76
Alignment explanation
Indices: 4287558--4287725 Score: 216
Period size: 76 Copynumber: 2.2 Consensus size: 76
4287548 TGCCACTAGT
*
4287558 TAAGAATAGTAG-TTTTGTATTGAACCTTGCCACCAATTAAGAATAGTAGTTTTTGTATT-GAAA
1 TAAGAATAGTAGTTTTTGTATTGAACCGTGCCACCAATTAAGAATAGTAGTTTTTGT-TTCGAAA
4287621 AATACCACCGGA
65 AATACCACCGGA
* * *
4287633 TAAGAATAGTAGTTTTTGTATTGAACCGTGCCACCAGTTTAA-AATAGTGGTTTTTGTTTCGAAC
1 TAAGAATAGTAGTTTTTGTATTGAACCGTGCCACCA-ATTAAGAATAGTAGTTTTTGTTTCGAAA
* * * *
4287697 CATGCCACTGGT
65 AATACCACCGGA
*
4287709 TTAGAATAGTAGTTTTT
1 TAAGAATAGTAGTTTTT
4287726 ATTTCGAAGC
Statistics
Matches: 81, Mismatches: 9, Indels: 5
0.85 0.09 0.05
Matches are distributed among these distances:
75 14 0.17
76 63 0.78
77 4 0.05
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.37
Consensus pattern (76 bp):
TAAGAATAGTAGTTTTTGTATTGAACCGTGCCACCAATTAAGAATAGTAGTTTTTGTTTCGAAAA
ATACCACCGGA
Found at i:4287733 original size:38 final size:37
Alignment explanation
Indices: 4287543--4287725 Score: 190
Period size: 38 Copynumber: 4.9 Consensus size: 37
4287533 ACTGGTTTCA
*
4287543 AACCATGCCACTAGTTAAGAATAGTAG-TTTTGTATTG
1 AACCATGCCACCAGTTAAGAATAGTAGTTTTTGT-TTG
* *
4287580 AACCTTGCCACCAATTAAGAATAGTAGTTTTTGTATTG
1 AACCATGCCACCAGTTAAGAATAGTAGTTTTTGT-TTG
** * * *
4287618 AAAAATACCACCGGATAAGAATAGTAGTTTTTGTATTG
1 AACCATGCCACCAGTTAAGAATAGTAGTTTTTGT-TTG
* *
4287656 AACCGTGCCACCAGTTTAA-AATAGTGGTTTTTGTTTCG
1 AACCATGCCACCAG-TTAAGAATAGTAGTTTTTGTTT-G
** *
4287694 AACCATGCCACTGGTTTAGAATAGTAGTTTTT
1 AACCATGCCACCAGTTAAGAATAGTAGTTTTT
4287726 ATTTCGAAGC
Statistics
Matches: 120, Mismatches: 22, Indels: 7
0.81 0.15 0.05
Matches are distributed among these distances:
37 29 0.24
38 88 0.73
39 3 0.03
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.36
Consensus pattern (37 bp):
AACCATGCCACCAGTTAAGAATAGTAGTTTTTGTTTG
Found at i:4288593 original size:34 final size:34
Alignment explanation
Indices: 4288526--4288593 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 34
4288516 TTTTAGGTGG
* *
4288526 CTACATTAAAACATTAAAAGAGTGCTTAGGCATT
1 CTACATTAAAACATTAAAAGAATGATTAGGCATT
* *
4288560 CTACA-TAAGAACATTAAAAGAATTATTATGCATT
1 CTACATTAA-AACATTAAAAGAATGATTAGGCATT
4288594 TTTTATTTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 3 0.10
34 26 0.90
ACGTcount: A:0.44, C:0.13, G:0.12, T:0.31
Consensus pattern (34 bp):
CTACATTAAAACATTAAAAGAATGATTAGGCATT
Found at i:4295149 original size:13 final size:13
Alignment explanation
Indices: 4295131--4295156 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4295121 TACAGCAAGT
4295131 ATGTATCGATACA
1 ATGTATCGATACA
4295144 ATGTATCGATACA
1 ATGTATCGATACA
4295157 CAAAAATTGT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:4295156 original size:32 final size:32
Alignment explanation
Indices: 4295115--4295175 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
4295105 GCCAAACTTT
**
4295115 TATCGATACAGCAAGTA-TGTATCGATACAATG
1 TATCGATACA-CAAAAATTGTATCGATACAATG
4295147 TATCGATACACAAAAATTGTATCGATACA
1 TATCGATACACAAAAATTGTATCGATACA
4295176 TTAGCTTGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 4 0.15
32 22 0.85
ACGTcount: A:0.41, C:0.16, G:0.15, T:0.28
Consensus pattern (32 bp):
TATCGATACACAAAAATTGTATCGATACAATG
Found at i:4297415 original size:21 final size:21
Alignment explanation
Indices: 4297382--4297426 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
4297372 TTGCAAGTTG
*
4297382 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
4297404 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
4297424 AAA
1 AAA
4297427 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:4299248 original size:15 final size:15
Alignment explanation
Indices: 4299230--4299268 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
4299220 TAAAAATGTC
*
4299230 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
4299245 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
*
4299260 CCAAATGAA
1 CAAAATGAA
4299269 ATTGATGAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.51, C:0.15, G:0.21, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:4301356 original size:13 final size:13
Alignment explanation
Indices: 4301338--4301376 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
4301328 CATTTTTTCT
4301338 TTGTATCGATACA
1 TTGTATCGATACA
4301351 TTGTATCGATACA
1 TTGTATCGATACA
4301364 TTGTATCGATACA
1 TTGTATCGATACA
4301377 GGGTGATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:4303941 original size:13 final size:13
Alignment explanation
Indices: 4303923--4303948 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4303913 TACAGCAAGT
4303923 ATGTATCGATACA
1 ATGTATCGATACA
4303936 ATGTATCGATACA
1 ATGTATCGATACA
4303949 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:4308598 original size:13 final size:13
Alignment explanation
Indices: 4308580--4308604 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4308570 CATTATGCTT
4308580 TGTATCGATACAA
1 TGTATCGATACAA
4308593 TGTATCGATACA
1 TGTATCGATACA
4308605 TGTTCATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4308635 original size:20 final size:20
Alignment explanation
Indices: 4308589--4308645 Score: 73
Period size: 19 Copynumber: 3.0 Consensus size: 20
4308579 TTGTATCGAT
*
4308589 ACAA-TGTATCGATACATGT
1 ACAATTGTATCGATACATGG
* *
4308608 TC-ATTGTATCAATACATGG
1 ACAATTGTATCGATACATGG
4308627 ACAATTGTATCGATACATG
1 ACAATTGTATCGATACATG
4308646 AAACTGGCAG
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
18 1 0.03
19 15 0.48
20 15 0.48
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (20 bp):
ACAATTGTATCGATACATGG
Found at i:4309626 original size:19 final size:19
Alignment explanation
Indices: 4309589--4309627 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
4309579 TCCATATGGA
* *
4309589 TGAAAAATTAGGTAATTTT
1 TGAAAAATAAAGTAATTTT
4309608 TGAAAAATAAAGT-ATTTT
1 TGAAAAATAAAGTAATTTT
4309626 TG
1 TG
4309628 GTATTTTTGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.41
Consensus pattern (19 bp):
TGAAAAATAAAGTAATTTT
Found at i:4312027 original size:49 final size:49
Alignment explanation
Indices: 4311967--4312077 Score: 222
Period size: 49 Copynumber: 2.3 Consensus size: 49
4311957 ATTTCTAGAA
4311967 TGTATCGATACAAGGTCCCAACGGTCAAACATTTTGAATTTCAACAATT
1 TGTATCGATACAAGGTCCCAACGGTCAAACATTTTGAATTTCAACAATT
4312016 TGTATCGATACAAGGTCCCAACGGTCAAACATTTTGAATTTCAACAATT
1 TGTATCGATACAAGGTCCCAACGGTCAAACATTTTGAATTTCAACAATT
4312065 TGTATCGATACAA
1 TGTATCGATACAA
4312078 ACAATAAATG
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 62 1.00
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.31
Consensus pattern (49 bp):
TGTATCGATACAAGGTCCCAACGGTCAAACATTTTGAATTTCAACAATT
Found at i:4313408 original size:13 final size:13
Alignment explanation
Indices: 4313390--4313446 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
4313380 CATAAAGTGT
4313390 TGTATCGATACAA
1 TGTATCGATACAA
4313403 TGTATCGATACATAA
1 TGTATCGATAC--AA
4313418 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
4313435 TGTATCGATACA
1 TGTATCGATACA
4313447 TAAGTTTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4313425 original size:32 final size:32
Alignment explanation
Indices: 4313370--4313467 Score: 178
Period size: 32 Copynumber: 3.0 Consensus size: 32
4313360 TTCAATGATT
4313370 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACAT-AAGTGTTGTATCGATACAA
4313403 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
4313435 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
4313467 T
1 T
4313468 TTAAGTTCCC
Statistics
Matches: 64, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
32 51 0.80
33 13 0.20
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:4313427 original size:19 final size:18
Alignment explanation
Indices: 4313368--4313465 Score: 90
Period size: 19 Copynumber: 5.8 Consensus size: 18
4313358 ATTTCAATGA
4313368 TTTGTATCGATACATAAAG
1 TTTGTATCGATACAT-AAG
4313387 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
4313403 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
4313419 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
4313435 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
4313451 TTTTGTATCGATACA
1 -TTTGTATCGATACA
4313466 ATTTAAGTTC
Statistics
Matches: 66, Mismatches: 0, Indels: 26
0.72 0.00 0.28
Matches are distributed among these distances:
13 22 0.33
15 4 0.06
17 4 0.06
19 24 0.36
20 12 0.18
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:4313653 original size:13 final size:13
Alignment explanation
Indices: 4313635--4313691 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
4313625 CATAAAGTGT
4313635 TGTATCGATACAA
1 TGTATCGATACAA
4313648 TGTATCGATACATAA
1 TGTATCGATAC--AA
4313663 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
4313680 TGTATCGATACA
1 TGTATCGATACA
4313692 TAAGTTTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4313658 original size:245 final size:245
Alignment explanation
Indices: 4313228--4313717 Score: 971
Period size: 245 Copynumber: 2.0 Consensus size: 245
4313218 TCGAATCCAT
4313228 TTCCCATCGTCCCTAGTCGAGATAGGGTGTTTCGAAGGCAAAAAGGATGAAAAAATTACATTTTT
1 TTCCCATCGTCCCTAGTCGAGATAGGGTGTTTCGAAGGCAAAAAGGATGAAAAAATTACATTTTT
4313293 GTCCAAATGTATCGATACATTGTTAGAATGTATCGATACAAGGTCCCAACGGTTAAAAATTTTGA
66 GTCCAAATGTATCGATACATTGTTAGAATGTATCGATACAAGGTCCCAACGGTTAAAAATTTTGA
*
4313358 ATTTCAATGATTTGTATCGATACATAAAGTGTTGTATCGATACAATGTATCGATACATAAGTGTT
131 ATTTCAACGATTTGTATCGATACATAAAGTGTTGTATCGATACAATGTATCGATACATAAGTGTT
4313423 GTATCGATACAATGTATCGATACATAAGTTTTGTATCGATACAATTTAAG
196 GTATCGATACAATGTATCGATACATAAGTTTTGTATCGATACAATTTAAG
4313473 TTCCCATCGTCCCTAGTCGAGATAGGGTGTTTCGAAGGCAAAAAGGATGAAAAAATTACATTTTT
1 TTCCCATCGTCCCTAGTCGAGATAGGGTGTTTCGAAGGCAAAAAGGATGAAAAAATTACATTTTT
4313538 GTCCAAATGTATCGATACATTGTTAGAATGTATCGATACAAGGTCCCAACGGTTAAAAATTTTGA
66 GTCCAAATGTATCGATACATTGTTAGAATGTATCGATACAAGGTCCCAACGGTTAAAAATTTTGA
4313603 ATTTCAACGATTTGTATCGATACATAAAGTGTTGTATCGATACAATGTATCGATACATAAGTGTT
131 ATTTCAACGATTTGTATCGATACATAAAGTGTTGTATCGATACAATGTATCGATACATAAGTGTT
4313668 GTATCGATACAATGTATCGATACATAAGTTTTGTATCGATACAATTTAAG
196 GTATCGATACAATGTATCGATACATAAGTTTTGTATCGATACAATTTAAG
4313718 CTACTGCCAA
Statistics
Matches: 244, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
245 244 1.00
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.33
Consensus pattern (245 bp):
TTCCCATCGTCCCTAGTCGAGATAGGGTGTTTCGAAGGCAAAAAGGATGAAAAAATTACATTTTT
GTCCAAATGTATCGATACATTGTTAGAATGTATCGATACAAGGTCCCAACGGTTAAAAATTTTGA
ATTTCAACGATTTGTATCGATACATAAAGTGTTGTATCGATACAATGTATCGATACATAAGTGTT
GTATCGATACAATGTATCGATACATAAGTTTTGTATCGATACAATTTAAG
Found at i:4313670 original size:32 final size:32
Alignment explanation
Indices: 4313615--4313712 Score: 178
Period size: 32 Copynumber: 3.0 Consensus size: 32
4313605 TTCAACGATT
4313615 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACAT-AAGTGTTGTATCGATACAA
4313648 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
4313680 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
4313712 T
1 T
4313713 TTAAGCTACT
Statistics
Matches: 64, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
32 51 0.80
33 13 0.20
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:4313672 original size:19 final size:18
Alignment explanation
Indices: 4313613--4313710 Score: 90
Period size: 19 Copynumber: 5.8 Consensus size: 18
4313603 ATTTCAACGA
4313613 TTTGTATCGATACATAAAG
1 TTTGTATCGATACAT-AAG
4313632 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
4313648 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
4313664 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
4313680 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
4313696 TTTTGTATCGATACA
1 -TTTGTATCGATACA
4313711 ATTTAAGCTA
Statistics
Matches: 66, Mismatches: 0, Indels: 26
0.72 0.00 0.28
Matches are distributed among these distances:
13 22 0.33
15 4 0.06
17 4 0.06
19 24 0.36
20 12 0.18
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:4314142 original size:19 final size:19
Alignment explanation
Indices: 4314118--4314182 Score: 70
Period size: 21 Copynumber: 3.6 Consensus size: 19
4314108 TAGCCAAACT
4314118 TGTATCGATACACAAAATA
1 TGTATCGATACACAAAATA
4314137 TGTATCGAT--AC---A-A
1 TGTATCGATACACAAAATA
4314150 TGTATCGATACACAAAAAATA
1 TGTATCGATACAC--AAAATA
4314171 TGTATCGATACA
1 TGTATCGATACA
4314183 TTGGCTTTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 10 0.26
14 1 0.03
15 2 0.05
17 2 0.05
19 9 0.24
20 1 0.03
21 13 0.34
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (19 bp):
TGTATCGATACACAAAATA
Found at i:4314154 original size:13 final size:13
Alignment explanation
Indices: 4314136--4314161 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4314126 TACACAAAAT
4314136 ATGTATCGATACA
1 ATGTATCGATACA
4314149 ATGTATCGATACA
1 ATGTATCGATACA
4314162 CAAAAAATAT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:4314159 original size:32 final size:33
Alignment explanation
Indices: 4314118--4314182 Score: 114
Period size: 34 Copynumber: 2.0 Consensus size: 33
4314108 TAGCCAAACT
4314118 TGTATCGATACAC-AAAATATGTATCGATACAA
1 TGTATCGATACACAAAAATATGTATCGATACAA
4314150 TGTATCGATACACAAAAAATATGTATCGATACA
1 TGTATCGATACAC-AAAAATATGTATCGATACA
4314183 TTGGCTTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 13 0.42
34 18 0.58
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAATATGTATCGATACAA
Found at i:4316416 original size:21 final size:21
Alignment explanation
Indices: 4316383--4316432 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
4316373 TTGCAAGTTG
*
4316383 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
4316405 AAATAATG-AGTTAGCTAAGAA
1 AAATAAAGAAGTTAGCTAAG-A
4316426 AAATAAA
1 AAATAAA
4316433 AACTTGCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 16 0.67
22 7 0.29
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:4318251 original size:15 final size:15
Alignment explanation
Indices: 4318231--4318261 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4318221 TAAAAATGTC
*
4318231 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
4318246 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
4318261 C
1 C
4318262 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:4321239 original size:28 final size:28
Alignment explanation
Indices: 4321158--4321239 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
4321148 TTTTGGAGAT
*
4321158 AATAACGAGGTTGGAGTGTTCCCTCG--GA
1 AATAACGAGGTTGGAGT-AT-CCTCGATGA
* * *
4321186 AGTAACGGGGTTGGAGTATCCCCGATGA
1 AATAACGAGGTTGGAGTATCCTCGATGA
4321214 AATAACGAGGTTGGAGTATCCTCGAT
1 AATAACGAGGTTGGAGTATCCTCGAT
4321240 TGTGAAAAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
26 4 0.09
27 1 0.02
28 40 0.89
ACGTcount: A:0.27, C:0.17, G:0.32, T:0.24
Consensus pattern (28 bp):
AATAACGAGGTTGGAGTATCCTCGATGA
Found at i:4321382 original size:51 final size:51
Alignment explanation
Indices: 4321222--4321392 Score: 198
Period size: 51 Copynumber: 3.3 Consensus size: 51
4321212 GAAATAACGA
* * *
4321222 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTA-TTTTGAAAATAAAATCGG
** * * * * *
4321274 AATTGGAGTATCCCCGATTAAAGGAGAAATTGGTGTTGTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT--ATGAAAAATTGGTATTTTGAAAATAAAATCGG
* * *
4321327 GGTTGGAGTATCCCCGATTATGAAAAATCGATATTTTGAAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
4321378 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
4321393 TCAGAAATAA
Statistics
Matches: 97, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
51 39 0.40
52 16 0.16
53 32 0.33
54 10 0.10
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
Found at i:4321438 original size:27 final size:28
Alignment explanation
Indices: 4321377--4321450 Score: 98
Period size: 27 Copynumber: 2.7 Consensus size: 28
4321367 AATAAAGTCG
* *
4321377 GGGTTGGAGTATCCCCTCA-GAAATAACG
1 GGGTTGGAGTATCCCC-GATGAAATAACA
*
4321405 GGGTTGGAGTATCCCCGATG-ATTAACA
1 GGGTTGGAGTATCCCCGATGAAATAACA
4321432 GGGTTGGAGTATCCCCGAT
1 GGGTTGGAGTATCCCCGAT
4321451 TGTGAAGAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
27 25 0.60
28 17 0.40
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.24
Consensus pattern (28 bp):
GGGTTGGAGTATCCCCGATGAAATAACA
Found at i:4321493 original size:55 final size:51
Alignment explanation
Indices: 4321434--4321565 Score: 142
Period size: 51 Copynumber: 2.5 Consensus size: 51
4321424 GATTAACAGG
**
4321434 GTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTTGGAAA-TAAAATCGGA
1 GTTGGAGTATCCCCGATTGTG-AGAAATTAATG---TTTT-GAAAGTAAAATCGGA
*
4321489 GTTGGAGTATCCCCGATTAT-AGAAAATTAATGTTTTGAAAGTAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAG-AAATTAATGTTTTGAAAGTAAAATCGGA
* *
4321540 GTTGGAATATCCTCGATTGTGGAGAA
1 GTTGGAGTATCCCCGATTGT-GAGAA
4321566 TTGAGCAACT
Statistics
Matches: 67, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
50 4 0.06
51 31 0.46
52 2 0.03
53 4 0.06
54 7 0.10
55 19 0.28
ACGTcount: A:0.32, C:0.10, G:0.26, T:0.33
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGAGAAATTAATGTTTTGAAAGTAAAATCGGA
Found at i:4323929 original size:13 final size:13
Alignment explanation
Indices: 4323911--4323936 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4323901 ACAAAGATCC
4323911 ATGTATCGATACA
1 ATGTATCGATACA
4323924 ATGTATCGATACA
1 ATGTATCGATACA
4323937 CAGAAAAATG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:4323932 original size:33 final size:33
Alignment explanation
Indices: 4323890--4323956 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
4323880 AAAATTTCCA
***
4323890 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
4323923 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
4323956 A
1 A
4323957 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:4324000 original size:19 final size:18
Alignment explanation
Indices: 4323976--4324040 Score: 77
Period size: 19 Copynumber: 3.8 Consensus size: 18
4323966 CAGTAGCCAA
4323976 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
4323995 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
4324010 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
4324027 TTATGTATCGATAC
1 TTATGTATCGATAC
4324041 GAATCGTTGA
Statistics
Matches: 40, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.28
14 1 0.03
16 2 0.05
18 1 0.03
19 25 0.62
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.37
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:4324016 original size:13 final size:13
Alignment explanation
Indices: 4323998--4324022 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4323988 ACAATACTTA
4323998 TGTATCGATACAT
1 TGTATCGATACAT
4324011 TGTATCGATACA
1 TGTATCGATACA
4324023 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4324020 original size:32 final size:32
Alignment explanation
Indices: 4323979--4324040 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
4323969 TAGCCAATTA
*
4323979 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
4324011 TGTATCGATACAAAACTTATGTATCGATAC
1 TGTATCGATACAAAACTTATGTATCGATAC
4324041 GAATCGTTGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:4324105 original size:21 final size:21
Alignment explanation
Indices: 4324079--4324156 Score: 115
Period size: 21 Copynumber: 3.8 Consensus size: 21
4324069 GTTGGGACCT
4324079 TGTATCGATACATTTGTAGAA
1 TGTATCGATACATTTGTAGAA
4324100 TGTATCGATACATTTGT-GAA
1 TGTATCGATACATTTGTAGAA
* *
4324120 TGTATCGATACA-TTCTACAAA
1 TGTATCGATACATTTGTA-GAA
4324141 TGTATCGATACATTTG
1 TGTATCGATACATTTG
4324157 GAATTTTTTT
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
19 3 0.06
20 15 0.29
21 31 0.61
22 2 0.04
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTTGTAGAA
Found at i:4324143 original size:41 final size:40
Alignment explanation
Indices: 4324079--4324160 Score: 121
Period size: 41 Copynumber: 2.0 Consensus size: 40
4324069 GTTGGGACCT
* *
4324079 TGTATCGATACATTTGTAGAATGTATCGATACATTTGTGAA
1 TGTATCGATACATTTCTAAAATGTATCGATACATTTG-GAA
4324120 TGTATCGATACA-TTCTACAAATGTATCGATACATTTGGAA
1 TGTATCGATACATTTCTA-AAATGTATCGATACATTTGGAA
4324160 T
1 T
4324161 TTTTTTTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
40 8 0.21
41 30 0.79
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (40 bp):
TGTATCGATACATTTCTAAAATGTATCGATACATTTGGAA
Found at i:4324835 original size:55 final size:55
Alignment explanation
Indices: 4324751--4325373 Score: 970
Period size: 55 Copynumber: 11.3 Consensus size: 55
4324741 ATAAACTGTA
* * * ** * *
4324751 TCCTGCTCATTGAGGAGTAAAAAATGCCACCAACTCGTGTGGGCTTTGAA-AGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
*
4324806 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AAGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* *
4324861 TCCTGCTCTTTGGGGAATGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
4324916 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* *
4324971 TCCTGTTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* *
4325026 TCCTGCTCTTTGAGGACTGGAAGGCGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
4325081 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
4325136 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* *
4325191 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGGGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
*
4325246 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
4325301 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
4325356 TCCTGCTCTTTGAGGACT
1 TCCTGCTCTTTGAGGACT
4325374 AAAAAGCGGA
Statistics
Matches: 528, Mismatches: 31, Indels: 18
0.92 0.05 0.03
Matches are distributed among these distances:
54 14 0.03
55 502 0.95
56 12 0.02
ACGTcount: A:0.20, C:0.20, G:0.31, T:0.29
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
Found at i:4326360 original size:1 final size:1
Alignment explanation
Indices: 4326356--4326421 Score: 51
Period size: 1 Copynumber: 66.0 Consensus size: 1
4326346 CTTTTCTCTC
* * * * ** ** *
4326356 TTTTTCTTTGTTTTGTTTTTTTGTTTTTTTTTTTTTTGCTTTTTTTTTTTTGCTCTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
4326421 T
1 T
4326422 GAAGAGAAGG
Statistics
Matches: 49, Mismatches: 16, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 49 1.00
ACGTcount: A:0.00, C:0.06, G:0.08, T:0.86
Consensus pattern (1 bp):
T
Found at i:4326374 original size:15 final size:13
Alignment explanation
Indices: 4326356--4326422 Score: 71
Period size: 14 Copynumber: 4.8 Consensus size: 13
4326346 CTTTTCTCTC
*
4326356 TTTTTCTTTGTTT
1 TTTTTTTTTGTTT
*
4326369 TGTTTTTTTGTTTTT
1 T-TTTTTTT-TGTTT
4326384 TTTTTTTTTGCTTT
1 TTTTTTTTTG-TTT
4326398 TTTTTTTTTGCTCTT
1 TTTTTTTTTG-T-TT
4326413 TTTTTTTTTG
1 TTTTTTTTTG
4326423 AAGAGAAGGT
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
13 2 0.04
14 28 0.60
15 17 0.36
ACGTcount: A:0.00, C:0.06, G:0.09, T:0.85
Consensus pattern (13 bp):
TTTTTTTTTGTTT
Found at i:4326388 original size:14 final size:15
Alignment explanation
Indices: 4326366--4326422 Score: 80
Period size: 15 Copynumber: 3.9 Consensus size: 15
4326356 TTTTTCTTTG
* *
4326366 TTTTGTTTTTTTGTT
1 TTTTTTTTTTTTGCT
4326381 TTTTTTTTTTTTGC-
1 TTTTTTTTTTTTGCT
4326395 TTTTTTTTTTTTGCT
1 TTTTTTTTTTTTGCT
*
4326410 CTTTTTTTTTTTG
1 TTTTTTTTTTTTG
4326423 AAGAGAAGGT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
14 14 0.37
15 24 0.63
ACGTcount: A:0.00, C:0.05, G:0.09, T:0.86
Consensus pattern (15 bp):
TTTTTTTTTTTTGCT
Found at i:4326405 original size:16 final size:16
Alignment explanation
Indices: 4326356--4326421 Score: 77
Period size: 17 Copynumber: 4.2 Consensus size: 16
4326346 CTTTTCTCTC
4326356 TTTTT-CTTTGTTTTGTT
1 TTTTTGCTTT-TTTT-TT
4326373 TTTTTG-TTTTTTTTT
1 TTTTTGCTTTTTTTTT
4326388 TTTTTGC--TTTTTTT
1 TTTTTGCTTTTTTTTT
4326402 TTTTTGCTCTTTTTTTT
1 TTTTTGCT-TTTTTTTT
4326419 TTT
1 TTT
4326422 GAAGAGAAGG
Statistics
Matches: 44, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
14 14 0.32
15 8 0.18
16 4 0.09
17 18 0.41
ACGTcount: A:0.00, C:0.06, G:0.08, T:0.86
Consensus pattern (16 bp):
TTTTTGCTTTTTTTTT
Found at i:4338826 original size:28 final size:28
Alignment explanation
Indices: 4338745--4338826 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
4338735 TTTTGGAGAT
*
4338745 AATAACGAGGTTGGAGTGTTCCCTCG--GA
1 AATAACGAGGTTGGAGT-AT-CCTCGATGA
* * *
4338773 AGTAACGGGGTTGGAGTATCCCCGATGA
1 AATAACGAGGTTGGAGTATCCTCGATGA
4338801 AATAACGAGGTTGGAGTATCCTCGAT
1 AATAACGAGGTTGGAGTATCCTCGAT
4338827 TGTGAAAAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
26 4 0.09
27 1 0.02
28 40 0.89
ACGTcount: A:0.27, C:0.17, G:0.32, T:0.24
Consensus pattern (28 bp):
AATAACGAGGTTGGAGTATCCTCGATGA
Found at i:4338969 original size:51 final size:51
Alignment explanation
Indices: 4338809--4338979 Score: 198
Period size: 51 Copynumber: 3.3 Consensus size: 51
4338799 GAAATAACGA
* * *
4338809 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTA-TTTTGAAAATAAAATCGG
** * * * * *
4338861 AATTGGAGTATCCCCGATTAAAGGAGAAATTGGTGTTGTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT--ATGAAAAATTGGTATTTTGAAAATAAAATCGG
* * *
4338914 GGTTGGAGTATCCCCGATTATGAAAAATCGATATTTTGAAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
4338965 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
4338980 TCAGAAATAA
Statistics
Matches: 97, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
51 39 0.40
52 16 0.16
53 32 0.33
54 10 0.10
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
Found at i:4339025 original size:27 final size:28
Alignment explanation
Indices: 4338962--4339037 Score: 102
Period size: 27 Copynumber: 2.8 Consensus size: 28
4338952 AAAATAAAGT
*
4338962 CGGGGTTGGAGTATCCCCTCA-GAAATAA
1 CGGGGTTGGAGTATCCCC-GATGAAATAA
*
4338990 CGGGGTTGGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
4339017 CGGGGTTGGAGTGTCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
4339038 TGTGAAGAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
27 25 0.57
28 19 0.43
ACGTcount: A:0.21, C:0.21, G:0.34, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:4341515 original size:13 final size:13
Alignment explanation
Indices: 4341497--4341522 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4341487 ACAAAGATCC
4341497 ATGTATCGATACA
1 ATGTATCGATACA
4341510 ATGTATCGATACA
1 ATGTATCGATACA
4341523 CAGAAAAATG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:4341518 original size:33 final size:33
Alignment explanation
Indices: 4341476--4341542 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
4341466 AAAATTTCCA
***
4341476 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
4341509 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
4341542 A
1 A
4341543 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:4341586 original size:19 final size:18
Alignment explanation
Indices: 4341562--4341658 Score: 97
Period size: 19 Copynumber: 5.8 Consensus size: 18
4341552 CAGTAGCCAA
4341562 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
4341581 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
4341596 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
4341613 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
4341628 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
4341645 TTATGTATCGATAC
1 TTATGTATCGATAC
4341659 GAATCGTTGA
Statistics
Matches: 66, Mismatches: 0, Indels: 24
0.73 0.00 0.27
Matches are distributed among these distances:
13 22 0.33
14 2 0.03
16 4 0.06
18 2 0.03
19 36 0.55
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.36
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:4341602 original size:13 final size:13
Alignment explanation
Indices: 4341584--4341640 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
4341574 ACAATACTTA
4341584 TGTATCGATACAT
1 TGTATCGATACAT
4341597 TGTATCGATACAAAACTT
1 TGTATCGATAC---A--T
4341615 ATGTATCGATACAT
1 -TGTATCGATACAT
4341629 TGTATCGATACA
1 TGTATCGATACA
4341641 AAACTTATGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
14 1 0.03
16 2 0.05
18 1 0.03
19 11 0.29
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4341606 original size:32 final size:32
Alignment explanation
Indices: 4341565--4341658 Score: 179
Period size: 32 Copynumber: 2.9 Consensus size: 32
4341555 TAGCCAATTA
*
4341565 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
4341597 TGTATCGATACAAAACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
4341629 TGTATCGATACAAAACTTATGTATCGATAC
1 TGTATCGATACAAAACTTATGTATCGATAC
4341659 GAATCGTTGA
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 61 1.00
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:4342215 original size:21 final size:22
Alignment explanation
Indices: 4342191--4342232 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
4342181 TCAAATCTTT
4342191 TTCAAAATACTT-GTTTTTCAC
1 TTCAAAATACTTCGTTTTTCAC
*
4342212 TTCAAATTACTTCGTTTTTCA
1 TTCAAAATACTTCGTTTTTCA
4342233 TCAAAACCAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.26, C:0.19, G:0.05, T:0.50
Consensus pattern (22 bp):
TTCAAAATACTTCGTTTTTCAC
Found at i:4342236 original size:20 final size:20
Alignment explanation
Indices: 4342192--4342238 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
4342182 CAAATCTTTT
4342192 TCAAAATACTTGTTTTTCAC
1 TCAAAATACTTGTTTTTCAC
*
4342212 TTCAAATTACTTCGTTTTTCA-
1 -TCAAAATACTT-GTTTTTCAC
4342233 TCAAAA
1 TCAAAA
4342239 CCAGCATCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 5 0.22
21 10 0.43
22 8 0.35
ACGTcount: A:0.32, C:0.19, G:0.04, T:0.45
Consensus pattern (20 bp):
TCAAAATACTTGTTTTTCAC
Found at i:4344635 original size:19 final size:19
Alignment explanation
Indices: 4344611--4344675 Score: 70
Period size: 21 Copynumber: 3.6 Consensus size: 19
4344601 TAGCCAAACT
4344611 TGTATCGATACACAAAATA
1 TGTATCGATACACAAAATA
4344630 TGTATCGAT--AC---A-A
1 TGTATCGATACACAAAATA
4344643 TGTATCGATACACAAAAAATA
1 TGTATCGATACAC--AAAATA
4344664 TGTATCGATACA
1 TGTATCGATACA
4344676 TTGGCTTGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 10 0.26
14 1 0.03
15 2 0.05
17 2 0.05
19 9 0.24
20 1 0.03
21 13 0.34
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (19 bp):
TGTATCGATACACAAAATA
Found at i:4344647 original size:13 final size:13
Alignment explanation
Indices: 4344629--4344654 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4344619 TACACAAAAT
4344629 ATGTATCGATACA
1 ATGTATCGATACA
4344642 ATGTATCGATACA
1 ATGTATCGATACA
4344655 CAAAAAATAT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:4344652 original size:32 final size:33
Alignment explanation
Indices: 4344611--4344675 Score: 114
Period size: 34 Copynumber: 2.0 Consensus size: 33
4344601 TAGCCAAACT
4344611 TGTATCGATACAC-AAAATATGTATCGATACAA
1 TGTATCGATACACAAAAATATGTATCGATACAA
4344643 TGTATCGATACACAAAAAATATGTATCGATACA
1 TGTATCGATACAC-AAAAATATGTATCGATACA
4344676 TTGGCTTGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 13 0.42
34 18 0.58
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAATATGTATCGATACAA
Found at i:4345451 original size:13 final size:13
Alignment explanation
Indices: 4345433--4345457 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4345423 ATTACTCAAA
4345433 TGTATCGATACAT
1 TGTATCGATACAT
4345446 TGTATCGATACA
1 TGTATCGATACA
4345458 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4353104 original size:25 final size:23
Alignment explanation
Indices: 4353064--4353110 Score: 58
Period size: 25 Copynumber: 2.0 Consensus size: 23
4353054 TATTTTTCTA
* *
4353064 TATATTTAAAATATTTTTATTTT
1 TATATTTAAAAAATTTTAATTTT
4353087 TATATTTCAATAAAATTTTAATTT
1 TATATTT-AA-AAAATTTTAATTT
4353111 AATATGACTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 7 0.35
24 2 0.10
25 11 0.55
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (23 bp):
TATATTTAAAAAATTTTAATTTT
Found at i:4353391 original size:53 final size:53
Alignment explanation
Indices: 4353279--4353404 Score: 130
Period size: 53 Copynumber: 2.4 Consensus size: 53
4353269 ATTGACTCAA
* * *
4353279 ACCCAAATCTAAAATAACTTGAACCTGATTTAACTCGAGTGTTAAACCCGATT
1 ACCCGAATCTAAAATAACTCGAACCTGATTTAACTCAAGTGTTAAACCCGATT
* * ***
4353332 AACCGAATCTAAAATGACTCGAACCCT-A-TTAACTCAAGTGTTAAAGTTGATT
1 ACCCGAATCTAAAATAACTCGAA-CCTGATTTAACTCAAGTGTTAAACCCGATT
* *
4353384 GACCCGAACCCAAAATAACTC
1 -ACCCGAATCTAAAATAACTC
4353405 AAAACCGAAA
Statistics
Matches: 59, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
52 20 0.34
53 36 0.61
54 3 0.05
ACGTcount: A:0.39, C:0.24, G:0.12, T:0.25
Consensus pattern (53 bp):
ACCCGAATCTAAAATAACTCGAACCTGATTTAACTCAAGTGTTAAACCCGATT
Found at i:4353440 original size:32 final size:32
Alignment explanation
Indices: 4353396--4353457 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
4353386 CCCGAACCCA
*
4353396 AAATAACTCAAAACCGAAATAACTTGAACTTT
1 AAATAACCCAAAACCGAAATAACTTGAACTTT
* *
4353428 AAATAACCCAAAATCGAAATGACTTGAACT
1 AAATAACCCAAAACCGAAATAACTTGAACT
4353458 CGAAATTACC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.50, C:0.19, G:0.08, T:0.23
Consensus pattern (32 bp):
AAATAACCCAAAACCGAAATAACTTGAACTTT
Found at i:4353498 original size:16 final size:16
Alignment explanation
Indices: 4353438--4353498 Score: 61
Period size: 16 Copynumber: 3.8 Consensus size: 16
4353428 AAATAACCCA
*
4353438 AAATCGAAATGACTTG
1 AAATCGAAATGACCTG
* *
4353454 AACTCGAAATTACCT-
1 AAATCGAAATGACCTG
*
4353469 AAATCCAAAGTGACCTG
1 AAATCGAAA-TGACCTG
*
4353486 AAATCGAGATGAC
1 AAATCGAAATGAC
4353499 TTAAACTCAA
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
15 7 0.20
16 21 0.60
17 7 0.20
ACGTcount: A:0.43, C:0.20, G:0.16, T:0.21
Consensus pattern (16 bp):
AAATCGAAATGACCTG
Found at i:4354380 original size:13 final size:13
Alignment explanation
Indices: 4354362--4354387 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4354352 CAATTTTTTG
4354362 TGTATCGATACAT
1 TGTATCGATACAT
4354375 TGTATCGATACAT
1 TGTATCGATACAT
4354388 ACTTGCTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4354452 original size:21 final size:21
Alignment explanation
Indices: 4354426--4354501 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
4354416 CTGCCAAGAA
*
4354426 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
4354447 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
4354467 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
4354488 ATGTATCGATACAT
1 ATGTATCGATACAT
4354502 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:4354472 original size:20 final size:20
Alignment explanation
Indices: 4354447--4354519 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
4354437 CATCTTTTTT
4354447 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
4354467 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
4354488 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
4354508 ATGTATCGATAC
1 ATGTATCGATAC
4354520 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:4354483 original size:41 final size:41
Alignment explanation
Indices: 4354426--4354519 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
4354416 CTGCCAAGAA
*
4354426 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
4354467 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
4354508 ATGTATCGATAC
1 ATGTATCGATAC
4354520 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:4355886 original size:13 final size:13
Alignment explanation
Indices: 4355868--4355893 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4355858 ACATTTGGTC
4355868 ATGTATCGATACA
1 ATGTATCGATACA
4355881 ATGTATCGATACA
1 ATGTATCGATACA
4355894 TCTTGTATGT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:4355888 original size:33 final size:32
Alignment explanation
Indices: 4355846--4355913 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 32
4355836 CGTTACAAGC
4355846 CAATGTATCGATACAT-TTGGTCATGTATCGATA
1 CAATGTATCGATACATCTT-GT-ATGTATCGATA
4355879 CAATGTATCGATACATCTTGTATGTATCGATA
1 CAATGTATCGATACATCTTGTATGTATCGATA
4355911 CAA
1 CAA
4355914 ACAATTAAGG
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
32 14 0.41
33 18 0.53
34 2 0.06
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.35
Consensus pattern (32 bp):
CAATGTATCGATACATCTTGTATGTATCGATA
Found at i:4356013 original size:13 final size:13
Alignment explanation
Indices: 4355982--4356006 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4355972 TACAGTGGTC
4355982 ATGTATCGATACA
1 ATGTATCGATACA
4355995 ATGTATCGATAC
1 ATGTATCGATAC
4356007 TGTGTATTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:4357391 original size:21 final size:23
Alignment explanation
Indices: 4357349--4357391 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
4357339 ACATATAAAA
*
4357349 TTAAAAAAAATGATACATATTTT
1 TTAAAAAAAATGATACAAATTTT
*
4357372 TTAAAAAATAT-ATA-AAATTT
1 TTAAAAAAAATGATACAAATTT
4357392 ATGATAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 5 0.28
22 3 0.17
23 10 0.56
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (23 bp):
TTAAAAAAAATGATACAAATTTT
Found at i:4358688 original size:18 final size:18
Alignment explanation
Indices: 4358665--4358705 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
4358655 ATTTGATAAT
4358665 TATTTTT-AAAAAATTAA
1 TATTTTTAAAAAAATTAA
*
4358682 TATTTTTAAAAAAATTTA
1 TATTTTTAAAAAAATTAA
4358700 TATTTT
1 TATTTT
4358706 GTATGTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TATTTTTAAAAAAATTAA
Found at i:4360144 original size:20 final size:20
Alignment explanation
Indices: 4360097--4360145 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
4360087 TTATTTTAAG
* *
4360097 TATTATATATTTATATGAAT
1 TATTATATATTAATATGAAA
*
4360117 TATGATATATTAATAAT-AAA
1 TATTATATATTAAT-ATGAAA
4360137 TATTATATA
1 TATTATATA
4360146 AATTTTAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 22 0.92
21 2 0.08
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (20 bp):
TATTATATATTAATATGAAA
Found at i:4360763 original size:3 final size:3
Alignment explanation
Indices: 4360755--4360784 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
4360745 TGACAATGGT
4360755 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
4360785 GAATTAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
TGA
Found at i:4363419 original size:18 final size:17
Alignment explanation
Indices: 4363392--4363425 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
4363382 TTAAGTTTAA
4363392 AAATTCTTAAAATCGAAT
1 AAATTCTTAAAA-CGAAT
*
4363410 AAATTTTTAAAACGAA
1 AAATTCTTAAAACGAA
4363426 GAATTAATTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.53, C:0.09, G:0.06, T:0.32
Consensus pattern (17 bp):
AAATTCTTAAAACGAAT
Found at i:4366495 original size:13 final size:14
Alignment explanation
Indices: 4366461--4366500 Score: 50
Period size: 13 Copynumber: 3.0 Consensus size: 14
4366451 AATTAAAAAA
4366461 AATATTTTTCA-TT
1 AATATTTTTCATTT
4366474 AAT-TATTTT-ATTT
1 AATAT-TTTTCATTT
4366487 AATATTTTTCATTT
1 AATATTTTTCATTT
4366501 TATGCGAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
12 2 0.09
13 16 0.70
14 5 0.22
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (14 bp):
AATATTTTTCATTT
Found at i:4368159 original size:24 final size:26
Alignment explanation
Indices: 4368118--4368188 Score: 67
Period size: 24 Copynumber: 2.7 Consensus size: 26
4368108 ATAATAACAT
4368118 TAAATATTATTATAATAT-AAAATAA
1 TAAATATTATTATAATATCAAAATAA
*
4368143 TAAA-ATTATTA-ATATATCAAAATTTA
1 TAAATATTATTATA-ATATCAAAA-TAA
*
4368169 TATATATATATATATAATAT
1 TAAATAT-TAT-TATAATAT
4368189 TTTTAATATA
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
23 1 0.03
24 11 0.30
25 8 0.22
26 5 0.14
27 2 0.05
28 3 0.08
29 6 0.16
30 1 0.03
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (26 bp):
TAAATATTATTATAATATCAAAATAA
Found at i:4369088 original size:22 final size:22
Alignment explanation
Indices: 4369062--4369104 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
4369052 AAAATTAAAA
4369062 ATATTTTTAT-ATTAATATTTAT
1 ATATTTTTATAATTAA-ATTTAT
4369084 ATATTTTTATAATTAAATTTA
1 ATATTTTTATAATTAAATTTA
4369105 AATAAATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
ATATTTTTATAATTAAATTTAT
Found at i:4370109 original size:31 final size:34
Alignment explanation
Indices: 4370055--4370117 Score: 87
Period size: 31 Copynumber: 1.9 Consensus size: 34
4370045 ATAATTTTAT
*
4370055 TATATAATTATTTAATATCTATAATACATATATA
1 TATATAATTATATAATATCTATAATACATATATA
*
4370089 TATATAATT-TATAAT-T-TATAATATATATA
1 TATATAATTATATAATATCTATAATACATATA
4370118 AAAGTACAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 12 0.44
32 1 0.04
33 5 0.19
34 9 0.33
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (34 bp):
TATATAATTATATAATATCTATAATACATATATA
Found at i:4371648 original size:24 final size:25
Alignment explanation
Indices: 4371611--4371678 Score: 68
Period size: 24 Copynumber: 2.8 Consensus size: 25
4371601 TCTGTTCTTT
*
4371611 TTTTCTTTACTATTATAATTTTAT-A
1 TTTT-TTTAATATTATAATTTTATAA
* *
4371636 TTTTTTTAATATTAT-CTTTTTTAA
1 TTTTTTTAATATTATAATTTTATAA
* *
4371660 TTATTTTATTATTATAATT
1 TTTTTTTAATATTATAATT
4371679 AAATTTAAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
23 5 0.14
24 24 0.69
25 6 0.17
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (25 bp):
TTTTTTTAATATTATAATTTTATAA
Found at i:4372492 original size:11 final size:11
Alignment explanation
Indices: 4372476--4372517 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
4372466 AAAATGGTTG
4372476 AAATAAATAAA
1 AAATAAATAAA
4372487 AAATAAATTAAA
1 AAATAAA-TAAA
*
4372499 AACAAAAAT-AA
1 AA-ATAAATAAA
4372510 AAATAAAT
1 AAATAAAT
4372518 GGATATAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
10 5 0.19
11 11 0.41
12 7 0.26
13 4 0.15
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (11 bp):
AAATAAATAAA
Found at i:4372584 original size:16 final size:17
Alignment explanation
Indices: 4372535--4372577 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
4372525 ATACAAATTG
*
4372535 AGTCTAAAACCCA-AATA
1 AGTCTAAAA-ACATAATA
4372552 AGTCTAAAAACATAATA
1 AGTCTAAAAACATAATA
*
4372569 GGTCTAAAA
1 AGTCTAAAA
4372578 GATAATATTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 2 0.09
17 21 0.91
ACGTcount: A:0.53, C:0.16, G:0.09, T:0.21
Consensus pattern (17 bp):
AGTCTAAAAACATAATA
Found at i:4389324 original size:20 final size:20
Alignment explanation
Indices: 4389293--4389349 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
4389283 GTCAAAACCC
*
4389293 TGAAAAGTATCGATACACAT
1 TGAAATGTATCGATACACAT
* *
4389313 TTAAATGTATCGATACAGAT
1 TGAAATGTATCGATACACAT
* *
4389333 TGCATTGTATCGATACA
1 TGAAATGTATCGATACA
4389350 TGACCAAATG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.32
Consensus pattern (20 bp):
TGAAATGTATCGATACACAT
Found at i:4389382 original size:21 final size:21
Alignment explanation
Indices: 4389338--4389410 Score: 112
Period size: 21 Copynumber: 3.5 Consensus size: 21
4389328 CAGATTGCAT
* **
4389338 TGTATCGATACATGACCA-AA
1 TGTATCGATACTTGAAAAGAA
4389358 TGTATCGATACTTGAAAAGAA
1 TGTATCGATACTTGAAAAGAA
4389379 TGTATCGATACTTGAAAAGAA
1 TGTATCGATACTTGAAAAGAA
4389400 TGTATCGATAC
1 TGTATCGATAC
4389411 AAGTCATTGG
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
20 15 0.31
21 34 0.69
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.29
Consensus pattern (21 bp):
TGTATCGATACTTGAAAAGAA
Found at i:4389482 original size:13 final size:13
Alignment explanation
Indices: 4389464--4389489 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4389454 CACACAGTAT
4389464 GTATCGATACATC
1 GTATCGATACATC
4389477 GTATCGATACATC
1 GTATCGATACATC
4389490 ATAAAATGTA
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:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (13 bp):
GTATCGATACATC
Found at i:4389504 original size:33 final size:32
Alignment explanation
Indices: 4389445--4389508 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
4389435 AGCCAAACTT
**
4389445 GTATCGATACACACAGTATGTATCGATACATC
1 GTATCGATACACACAAAATGTATCGATACATC
*
4389477 GTATCGATACATCATAAAATGTATCGATACAT
1 GTATCGATACA-CACAAAATGTATCGATACAT
4389509 TGGCTTGTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 11 0.39
33 17 0.61
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.30
Consensus pattern (32 bp):
GTATCGATACACACAAAATGTATCGATACATC
Found at i:4390935 original size:13 final size:13
Alignment explanation
Indices: 4390917--4390942 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4390907 AATTTTTTTG
4390917 TGTATCGATACAT
1 TGTATCGATACAT
4390930 TGTATCGATACAT
1 TGTATCGATACAT
4390943 ACTTGCTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4391046 original size:20 final size:20
Alignment explanation
Indices: 4391023--4391106 Score: 69
Period size: 20 Copynumber: 3.7 Consensus size: 20
4391013 CATTGCAACA
4391023 TGTATCGATACTTTGAATTG
1 TGTATCGATACTTTGAATTG
*
4391043 TGTATCGATACTTTTAAGGGTTTTG
1 TGTATCGATACTTTGAA-----TTG
4391068 CAACATGTATCGATACTTTGAATTG
1 -----TGTATCGATACTTTGAATTG
4391093 TGTATCGATACTTT
1 TGTATCGATACTTT
4391107 TAAGTCAACC
Statistics
Matches: 52, Mismatches: 2, Indels: 20
0.70 0.03 0.27
Matches are distributed among these distances:
20 30 0.58
25 6 0.12
30 16 0.31
ACGTcount: A:0.25, C:0.12, G:0.19, T:0.44
Consensus pattern (20 bp):
TGTATCGATACTTTGAATTG
Found at i:4391090 original size:50 final size:50
Alignment explanation
Indices: 4391015--4391110 Score: 192
Period size: 50 Copynumber: 1.9 Consensus size: 50
4391005 TATCGATACA
4391015 TTGCAACATGTATCGATACTTTGAATTGTGTATCGATACTTTTAAGGGTT
1 TTGCAACATGTATCGATACTTTGAATTGTGTATCGATACTTTTAAGGGTT
4391065 TTGCAACATGTATCGATACTTTGAATTGTGTATCGATACTTTTAAG
1 TTGCAACATGTATCGATACTTTGAATTGTGTATCGATACTTTTAAG
4391111 TCAACCTTAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.27, C:0.12, G:0.19, T:0.42
Consensus pattern (50 bp):
TTGCAACATGTATCGATACTTTGAATTGTGTATCGATACTTTTAAGGGTT
Found at i:4391708 original size:21 final size:21
Alignment explanation
Indices: 4391667--4391710 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
4391657 CTCTCCTTTA
* *
4391667 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
4391688 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
4391709 TC
1 TC
4391711 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:4393532 original size:13 final size:13
Alignment explanation
Indices: 4393514--4393538 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4393504 ATAATCACCT
4393514 TGTATCGATACAA
1 TGTATCGATACAA
4393527 TGTATCGATACA
1 TGTATCGATACA
4393539 TTGAATTTCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4397460 original size:21 final size:21
Alignment explanation
Indices: 4397431--4397475 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
4397421 AAGTTTTCAT
*
4397431 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
4397451 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
4397473 TTT
1 TTT
4397476 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:4399711 original size:13 final size:13
Alignment explanation
Indices: 4399693--4399718 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4399683 AATTTTTTTG
4399693 TGTATCGATACAT
1 TGTATCGATACAT
4399706 TGTATCGATACAT
1 TGTATCGATACAT
4399719 ACTTGCTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4404431 original size:29 final size:29
Alignment explanation
Indices: 4404399--4404882 Score: 460
Period size: 29 Copynumber: 17.1 Consensus size: 29
4404389 TTAATACGAC
*
4404399 CCTTTTCAAAGCCCACAAGTTAGTGGTAT
1 CCTTTTCAAAGCCCACAAGTTAGTGGCAT
* *
4404428 CC-TTTCAAAGCCCATATGTTAGTGGCAT
1 CCTTTTCAAAGCCCACAAGTTAGTGGCAT
* *
4404456 CC-TTTCAAAGCCCATATGTTAGTGGCAT
1 CCTTTTCAAAGCCCACAAGTTAGTGGCAT
* *
4404484 CC-TTTCAAAGCCCACAAGTCAATGGCAT
1 CCTTTTCAAAGCCCACAAGTTAGTGGCAT
* *
4404512 CC-TTTCAAAGCCCATAAGTTAATGGCAT
1 CCTTTTCAAAGCCCACAAGTTAGTGGCAT
* * *
4404540 CCTTCTCAAAGCCCATAAGTCAGTGGCAT
1 CCTTTTCAAAGCCCACAAGTTAGTGGCAT
* * * *
4404569 CCTTCTCAAAGCCTACATGTCAGTGGCAT
1 CCTTTTCAAAGCCCACAAGTTAGTGGCAT
* *
4404598 CCTTCTCAAAGCCCACAAGTTAATGGCAT
1 CCTTTTCAAAGCCCACAAGTTAGTGGCAT
* *
4404627 CC-TTTCAAAGCCCACATGTTAATGGCAT
1 CCTTTTCAAAGCCCACAAGTTAGTGGCAT
* *
4404655 CCTTTTCAAAGCCCACGAGTCAGTGGCAT
1 CCTTTTCAAAGCCCACAAGTTAGTGGCAT
*
4404684 CCTTCTCAAAGCCCACAAGTTAGTGGCAT
1 CCTTTTCAAAGCCCACAAGTTAGTGGCAT
* * *
4404713 CCTTCTCAAAGCCCACAAGTCAGTGGCAC
1 CCTTTTCAAAGCCCACAAGTTAGTGGCAT
* * *
4404742 CCCTTT--AAGCTCATAAGTTAGTGGCAT
1 CCTTTTCAAAGCCCACAAGTTAGTGGCAT
*
4404769 -CTTTTCAAAG-CC-C-A--TA-TGTCA-
1 CCTTTTCAAAGCCCACAAGTTAGTGGCAT
* * * * *
4404790 CCCTTTCGAAGCCCACAAATCAATGGCAT
1 CCTTTTCAAAGCCCACAAGTTAGTGGCAT
** *
4404819 CCTTTT-AAAGCCCACAAGTCGGTGGCAA
1 CCTTTTCAAAGCCCACAAGTTAGTGGCAT
* * *
4404847 CCTTCTCTAAAGCCTACACAAGTTGGTGGCAA
1 CCTTTTC-AAAGCC--CACAAGTTAGTGGCAT
4404879 CCTT
1 CCTT
4404883 CTAAACCCAA
Statistics
Matches: 387, Mismatches: 52, Indels: 29
0.83 0.11 0.06
Matches are distributed among these distances:
22 12 0.03
23 4 0.01
24 1 0.00
25 2 0.01
26 4 0.01
27 19 0.05
28 158 0.41
29 162 0.42
30 6 0.02
32 19 0.05
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (29 bp):
CCTTTTCAAAGCCCACAAGTTAGTGGCAT
Found at i:4404438 original size:28 final size:28
Alignment explanation
Indices: 4404402--4404882 Score: 483
Period size: 28 Copynumber: 17.1 Consensus size: 28
4404392 ATACGACCCT
*
4404402 TTTCAAAGCCCACAAGTTAGTGGTATCC
1 TTTCAAAGCCCACAAGTTAGTGGCATCC
* *
4404430 TTTCAAAGCCCATATGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTTAGTGGCATCC
* *
4404458 TTTCAAAGCCCATATGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTTAGTGGCATCC
* *
4404486 TTTCAAAGCCCACAAGTCAATGGCATCC
1 TTTCAAAGCCCACAAGTTAGTGGCATCC
* *
4404514 TTTCAAAGCCCATAAGTTAATGGCATCC
1 TTTCAAAGCCCACAAGTTAGTGGCATCC
* *
4404542 TTCTCAAAGCCCATAAGTCAGTGGCATCC
1 TT-TCAAAGCCCACAAGTTAGTGGCATCC
* * *
4404571 TTCTCAAAGCCTACATGTCAGTGGCATCC
1 TT-TCAAAGCCCACAAGTTAGTGGCATCC
*
4404600 TTCTCAAAGCCCACAAGTTAATGGCATCC
1 TT-TCAAAGCCCACAAGTTAGTGGCATCC
* *
4404629 TTTCAAAGCCCACATGTTAATGGCATCC
1 TTTCAAAGCCCACAAGTTAGTGGCATCC
* *
4404657 TTTTCAAAGCCCACGAGTCAGTGGCATCC
1 -TTTCAAAGCCCACAAGTTAGTGGCATCC
4404686 TTCTCAAAGCCCACAAGTTAGTGGCATCC
1 TT-TCAAAGCCCACAAGTTAGTGGCATCC
* *
4404715 TTCTCAAAGCCCACAAGTCAGTGGCACCCC
1 TT-TCAAAGCCCACAAGTTAGTGGCA-TCC
* * *
4404745 TTT--AAGCTCATAAGTTAGTGGCATCT
1 TTTCAAAGCCCACAAGTTAGTGGCATCC
* *
4404771 TTTCAAAG-CC-C-A--TA-TGTCACCC
1 TTTCAAAGCCCACAAGTTAGTGGCATCC
* * * *
4404793 TTTCGAAGCCCACAAATCAATGGCATCC
1 TTTCAAAGCCCACAAGTTAGTGGCATCC
* ** *
4404821 TTTTAAAGCCCACAAGTCGGTGGCAACC
1 TTTCAAAGCCCACAAGTTAGTGGCATCC
* *
4404849 TTCTCTAAAGCCTACACAAGTTGGTGGCAACC
1 TT-TC-AAAGCC--CACAAGTTAGTGGCATCC
4404881 TT
1 TT
4404883 CTAAACCCAA
Statistics
Matches: 388, Mismatches: 49, Indels: 28
0.83 0.11 0.06
Matches are distributed among these distances:
22 12 0.03
23 4 0.01
24 1 0.00
25 2 0.01
26 4 0.01
27 19 0.05
28 165 0.43
29 152 0.39
30 10 0.03
32 19 0.05
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (28 bp):
TTTCAAAGCCCACAAGTTAGTGGCATCC
Found at i:4404629 original size:115 final size:115
Alignment explanation
Indices: 4404402--4404789 Score: 545
Period size: 115 Copynumber: 3.4 Consensus size: 115
4404392 ATACGACCCT
* * * *
4404402 TTTCAAAGCCCACAAGTTAGTGGTATCC-TTTCAAAGCCCATATGTTAGTGGCATCCTT-TCAAA
1 TTTCAAAGCCCACAAGTTAATGGCATCCTTTTCAAAGCCCATAAGTCAGTGGCATCCTTCTCAAA
*
4404465 GCCCATATGTTAGTGGCATCCTT-TCAAAGCCCACAAGTCAATGGCATCC
66 GCCCACATGTTAGTGGCATCCTTCTCAAAGCCCACAAGTCAATGGCATCC
* *
4404514 TTTCAAAGCCCATAAGTTAATGGCATCCTTCTCAAAGCCCATAAGTCAGTGGCATCCTTCTCAAA
1 TTTCAAAGCCCACAAGTTAATGGCATCCTTTTCAAAGCCCATAAGTCAGTGGCATCCTTCTCAAA
* * *
4404579 GCCTACATGTCAGTGGCATCCTTCTCAAAGCCCACAAGTTAATGGCATCC
66 GCCCACATGTTAGTGGCATCCTTCTCAAAGCCCACAAGTCAATGGCATCC
* **
4404629 TTTCAAAGCCCACATGTTAATGGCATCCTTTTCAAAGCCCACGAGTCAGTGGCATCCTTCTCAAA
1 TTTCAAAGCCCACAAGTTAATGGCATCCTTTTCAAAGCCCATAAGTCAGTGGCATCCTTCTCAAA
* * *
4404694 GCCCACAAGTTAGTGGCATCCTTCTCAAAGCCCACAAGTCAGTGGCACCCC
66 GCCCACATGTTAGTGGCATCCTTCTCAAAGCCCACAAGTCAATGGCA-TCC
* * * *
4404745 TTT--AAGCTCATAAGTTAGTGGCAT-CTTTTCAAAGCCCATATGTCA
1 TTTCAAAGCCCACAAGTTAATGGCATCCTTTTCAAAGCCCATAAGTCA
4404790 CCCTTTCGAA
Statistics
Matches: 244, Mismatches: 28, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
112 25 0.10
113 45 0.18
114 42 0.17
115 127 0.52
116 5 0.02
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (115 bp):
TTTCAAAGCCCACAAGTTAATGGCATCCTTTTCAAAGCCCATAAGTCAGTGGCATCCTTCTCAAA
GCCCACATGTTAGTGGCATCCTTCTCAAAGCCCACAAGTCAATGGCATCC
Found at i:4408537 original size:33 final size:33
Alignment explanation
Indices: 4408495--4408563 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
4408485 TCGATTACGA
*
4408495 GAACTAAAGTTCTCATCCATGCACTACAAAAGT
1 GAACTAAAGTGCTCATCCATGCACTACAAAAGT
** *
4408528 GAACTAAAGTGCTCATCCATGCGTTACGAAAGT
1 GAACTAAAGTGCTCATCCATGCACTACAAAAGT
4408561 GAA
1 GAA
4408564 GTGAACAACT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.38, C:0.22, G:0.17, T:0.23
Consensus pattern (33 bp):
GAACTAAAGTGCTCATCCATGCACTACAAAAGT
Found at i:4411797 original size:27 final size:27
Alignment explanation
Indices: 4411759--4411829 Score: 142
Period size: 27 Copynumber: 2.6 Consensus size: 27
4411749 GGTTGAAAAC
4411759 GGGGTTGGAGTGTCCCCTCGGAGGAAT
1 GGGGTTGGAGTGTCCCCTCGGAGGAAT
4411786 GGGGTTGGAGTGTCCCCTCGGAGGAAT
1 GGGGTTGGAGTGTCCCCTCGGAGGAAT
4411813 GGGGTTGGAGTGTCCCC
1 GGGGTTGGAGTGTCCCC
4411830 GATGAATAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.13, C:0.20, G:0.45, T:0.23
Consensus pattern (27 bp):
GGGGTTGGAGTGTCCCCTCGGAGGAAT
Found at i:4414064 original size:52 final size:52
Alignment explanation
Indices: 4413954--4414067 Score: 183
Period size: 52 Copynumber: 2.2 Consensus size: 52
4413944 AAAATTCACT
*
4413954 TATCGATACATTTCATAGTGTATCAATACATCTGGGCAAATTTGCCTATATG
1 TATCGATACATTTCATAGTGTATCAATACATCTGGGCAAATTTGCCTACATG
* * * *
4414006 TGTCGATACATTTCATAGTGTATCGATACATCTGGGCAAATTTGCTTGCATG
1 TATCGATACATTTCATAGTGTATCAATACATCTGGGCAAATTTGCCTACATG
4414058 TATCGATACA
1 TATCGATACA
4414068 AAGATTAGTG
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 56 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
TATCGATACATTTCATAGTGTATCAATACATCTGGGCAAATTTGCCTACATG
Found at i:4414077 original size:52 final size:52
Alignment explanation
Indices: 4413954--4414087 Score: 162
Period size: 52 Copynumber: 2.6 Consensus size: 52
4413944 AAAATTCACT
** * *
4413954 TATCGATACATTTCATAGTGTATCAATACATCTGGGCAAATTTGCCTATATG
1 TATCGATACATAACATAGTGTATCGATACATCTGGGCAAATTTGCCTACATG
* ** * *
4414006 TGTCGATACATTTCATAGTGTATCGATACATCTGGGCAAATTTGCTTGCATG
1 TATCGATACATAACATAGTGTATCGATACATCTGGGCAAATTTGCCTACATG
*
4414058 TATCGATACA-AAGATTAGTGTATCGATACA
1 TATCGATACATAACA-TAGTGTATCGATACA
4414088 ATGTATCGAT
Statistics
Matches: 72, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
51 1 0.01
52 71 0.99
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (52 bp):
TATCGATACATAACATAGTGTATCGATACATCTGGGCAAATTTGCCTACATG
Found at i:4414094 original size:13 final size:13
Alignment explanation
Indices: 4414076--4414100 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4414066 CAAAGATTAG
4414076 TGTATCGATACAA
1 TGTATCGATACAA
4414089 TGTATCGATACA
1 TGTATCGATACA
4414101 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4414161 original size:13 final size:13
Alignment explanation
Indices: 4414139--4414228 Score: 54
Period size: 13 Copynumber: 6.0 Consensus size: 13
4414129 GGCAGTAGCT
*
4414139 TTGTAGCGATACA
1 TTGTATCGATACA
4414152 TTGTATCGATACAAAA
1 TTGTATCGATAC---A
4414168 CTTATGTATCGATACA
1 --T-TGTATCGATACA
4414184 TTGTATCGATACAACA
1 TTGTATCGAT---ACA
*
4414200 CTTATGTATCTATACA
1 --T-TGTATCGATACA
4414216 TTGTATCGATACA
1 TTGTATCGATACA
4414229 ACACTTATGT
Statistics
Matches: 62, Mismatches: 3, Indels: 24
0.70 0.03 0.27
Matches are distributed among these distances:
13 31 0.50
14 2 0.03
16 8 0.13
18 2 0.03
19 19 0.31
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:4414177 original size:19 final size:18
Alignment explanation
Indices: 4414153--4414249 Score: 79
Period size: 19 Copynumber: 5.8 Consensus size: 18
4414143 AGCGATACAT
4414153 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
4414172 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
4414185 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
*
4414204 TGTATCTATAC--A--T-
1 TGTATCGATACAAACTTA
4414217 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
*
4414236 TGTTTCGATACAAA
1 TGTATCGATACAAA
4414250 TTGTTGAAAT
Statistics
Matches: 63, Mismatches: 3, Indels: 25
0.69 0.03 0.27
Matches are distributed among these distances:
13 21 0.33
14 2 0.03
16 4 0.06
18 3 0.05
19 33 0.52
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.35
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:4414186 original size:32 final size:32
Alignment explanation
Indices: 4414140--4414247 Score: 180
Period size: 32 Copynumber: 3.4 Consensus size: 32
4414130 GCAGTAGCTT
* *
4414140 TGTAGCGATACATTGTATCGATACAAAACTTA
1 TGTATCGATACATTGTATCGATACAACACTTA
4414172 TGTATCGATACATTGTATCGATACAACACTTA
1 TGTATCGATACATTGTATCGATACAACACTTA
*
4414204 TGTATCTATACATTGTATCGATACAACACTTA
1 TGTATCGATACATTGTATCGATACAACACTTA
*
4414236 TGTTTCGATACA
1 TGTATCGATACA
4414248 AATTGTTGAA
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 71 1.00
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATTGTATCGATACAACACTTA
Found at i:4422519 original size:51 final size:51
Alignment explanation
Indices: 4422441--4422560 Score: 172
Period size: 51 Copynumber: 2.4 Consensus size: 51
4422431 TTGGAAATAA
*
4422441 CGGGGTTAGAGTATCCCCGATGGTGGAAAATTGATGTTTT-GAAAATAAAAC
1 CGGGGTTAGAGTATCCCCGATGATGGAAAATTGATGTTTTAG-AAATAAAAC
* * *
4422492 CGGGGTT-GAAGTATCCTCGATTATGGAAAATTGATGTTTTAGAAATAAAAT
1 CGGGGTTAG-AGTATCCCCGATGATGGAAAATTGATGTTTTAGAAATAAAAC
4422543 CGGGGTTAGAGTATCCCC
1 CGGGGTTAGAGTATCCCC
4422561 TTGGAAATAA
Statistics
Matches: 61, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
50 1 0.02
51 58 0.95
52 2 0.03
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.29
Consensus pattern (51 bp):
CGGGGTTAGAGTATCCCCGATGATGGAAAATTGATGTTTTAGAAATAAAAC
Found at i:4422522 original size:130 final size:130
Alignment explanation
Indices: 4422286--4422638 Score: 492
Period size: 130 Copynumber: 2.7 Consensus size: 130
4422276 GAAGTAACGA
* * *
4422286 GGTTGGAGTATCCCCAAT-GAAATAACGGTGTTAGACTATCCCCGATTGTGAAAAATTGATGTTT
1 GGTTGGAGTAT-CCCATTGGAAATAACGGGGTTAGAGTATCCCCGATTGTGAAAAATTGATGTTT
* * * * * *
4422350 TGGAAATAAAATCAGAGTTAAAGTATCCCCAATTGTGAAAAATTGATATTTTAGAAATAAAATCG
65 TGAAAATAAAACCGGGGTTGAAGTATCCCCAATTATGAAAAATTGATATTTTAGAAATAAAATCG
4422415 G
130 G
* *
4422416 GGTTGGAGTATCCCATTGGAAATAACGGGGTTAGAGTATCCCCGATGGTGGAAAATTGATGTTTT
1 GGTTGGAGTATCCCATTGGAAATAACGGGGTTAGAGTATCCCCGATTGTGAAAAATTGATGTTTT
* * * *
4422481 GAAAATAAAACCGGGGTTGAAGTATCCTCGATTATGGAAAATTGATGTTTTAGAAATAAAATCGG
66 GAAAATAAAACCGGGGTTGAAGTATCCCCAATTATGAAAAATTGATATTTTAGAAATAAAATCGG
* * * *
4422546 GGTTAGAGTATCCCCTTGGAAATAACGGGGTTAGAGTATCCCCGATTATGAAAAATTGGTGTTTT
1 GGTTGGAGTATCCCATTGGAAATAACGGGGTTAGAGTATCCCCGATTGTGAAAAATTGATGTTTT
* * *
4422611 AAAAATAAAACCGAGGTTGGAGTATCCC
66 GAAAATAAAACCGGGGTTGAAGTATCCC
4422639 TTCAAAAATA
Statistics
Matches: 197, Mismatches: 25, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
129 5 0.03
130 192 0.97
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.29
Consensus pattern (130 bp):
GGTTGGAGTATCCCATTGGAAATAACGGGGTTAGAGTATCCCCGATTGTGAAAAATTGATGTTTT
GAAAATAAAACCGGGGTTGAAGTATCCCCAATTATGAAAAATTGATATTTTAGAAATAAAATCGG
Found at i:4422575 original size:79 final size:79
Alignment explanation
Indices: 4422492--4422699 Score: 267
Period size: 79 Copynumber: 2.6 Consensus size: 79
4422482 AAAATAAAAC
* * * * *
4422492 CGGGGTTGAAGTATCCTCGATTATGGAAAATTGATGTTTTAGAAATAAAATCGGGGTTAGAGTAT
1 CGGGGTTGAAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGAGGTTAGAGTAT
**
4422557 CCCCTT-GGAAATAA
66 -CCCTTCAAAAATAA
* *
4422571 CGGGGTT-AGAGTATCCCCGATTATGAAAAATTGGTGTTTTAAAAATAAAACCGAGGTTGGAGTA
1 CGGGGTTGA-AGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGAGGTTAGAGTA
4422635 TCCCTTCAAAAATAA
65 TCCCTTCAAAAATAA
* * * *
4422650 CGGGGTTGGAGTATCCCCGATTGTAAAAAATTGGTGTTTTGGAAATAAAA
1 CGGGGTTGAAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAA
4422700 ACATGAATGA
Statistics
Matches: 112, Mismatches: 14, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
78 6 0.05
79 106 0.95
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (79 bp):
CGGGGTTGAAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGAGGTTAGAGTAT
CCCTTCAAAAATAA
Found at i:4429478 original size:36 final size:34
Alignment explanation
Indices: 4429395--4429491 Score: 121
Period size: 36 Copynumber: 2.9 Consensus size: 34
4429385 CCTTACAACA
*
4429395 CTATC-TTTC-AAGGCTAAGATAGAAAC-C-TCC
1 CTATCTTTTCAAAGGCTAAGATAGAACCTCTTCC
**
4429425 CTATCTTTTCATGGGCTAAGATAGAACCTCTTTCC
1 CTATCTTTTCAAAGGCTAAGATAGAACCTC-TTCC
4429460 CTATCTTTTTCAAAGGCTAAGATAGAACCTCT
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCT
4429492 CAATCACTTA
Statistics
Matches: 56, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
30 5 0.09
31 4 0.07
32 14 0.25
33 1 0.02
35 9 0.16
36 23 0.41
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (34 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTTCC
Found at i:4430200 original size:20 final size:21
Alignment explanation
Indices: 4430175--4430219 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 21
4430165 GGTATTTTGA
4430175 ATTATTTTTA-CTTGAAAAAC
1 ATTATTTTTAGCTTGAAAAAC
4430195 ATTATTTTTATGCTTGAAAAAC
1 ATTATTTTTA-GCTTGAAAAAC
4430217 ATT
1 ATT
4430220 TATACTTAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 10 0.43
22 13 0.57
ACGTcount: A:0.38, C:0.09, G:0.07, T:0.47
Consensus pattern (21 bp):
ATTATTTTTAGCTTGAAAAAC
Found at i:4433751 original size:13 final size:13
Alignment explanation
Indices: 4433733--4433758 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4433723 AATTTTTTTG
4433733 TGTATCGATACAT
1 TGTATCGATACAT
4433746 TGTATCGATACAT
1 TGTATCGATACAT
4433759 ACTTTGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4435879 original size:21 final size:20
Alignment explanation
Indices: 4435850--4435892 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
4435840 CGCTAGTGTG
*
4435850 GGGACTGCCCGGTTGCGACCT
1 GGGACTG-CCGGTCGCGACCT
*
4435871 GGGAGTGCCGGTCGCGACCT
1 GGGACTGCCGGTCGCGACCT
4435891 GG
1 GG
4435893 TGGTGCTGCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.09, C:0.30, G:0.44, T:0.16
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCT
Found at i:4436351 original size:13 final size:13
Alignment explanation
Indices: 4436335--4436370 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
4436325 AATCCCCCTA
4436335 TATCGATACAGTG
1 TATCGATACAGTG
*
4436348 TATCGATACATTG
1 TATCGATACAGTG
4436361 TATCGATACA
1 TATCGATACA
4436371 AAGAAAAATG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (13 bp):
TATCGATACAGTG
Found at i:4438461 original size:15 final size:15
Alignment explanation
Indices: 4438441--4438470 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4438431 ATTTTGTTTG
*
4438441 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
4438456 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
4438471 AGACATTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.23, G:0.13, T:0.50
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:4442214 original size:13 final size:13
Alignment explanation
Indices: 4442196--4442221 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4442186 AATTTTTTTG
4442196 TGTATCGATACAT
1 TGTATCGATACAT
4442209 TGTATCGATACAT
1 TGTATCGATACAT
4442222 ACTTTGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4442233 original size:19 final size:19
Alignment explanation
Indices: 4442209--4442292 Score: 90
Period size: 19 Copynumber: 4.6 Consensus size: 19
4442199 ATCGATACAT
4442209 TGTATCGATACATACTTTG
1 TGTATCGATACATACTTTG
**
4442228 TGTATCGATACAATTTTTTTG
1 TGTATCGATAC-A-TACTTTG
4442249 TGTATCGATAC--A---T-
1 TGTATCGATACATACTTTG
4442262 TGTATCGATACATACTTTG
1 TGTATCGATACATACTTTG
4442281 TGTATCGATACA
1 TGTATCGATACA
4442293 AGTTTGGCTA
Statistics
Matches: 54, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
13 11 0.20
14 1 0.02
15 1 0.02
18 1 0.02
19 23 0.43
20 1 0.02
21 16 0.30
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.43
Consensus pattern (19 bp):
TGTATCGATACATACTTTG
Found at i:4442255 original size:53 final size:53
Alignment explanation
Indices: 4442175--4442293 Score: 238
Period size: 53 Copynumber: 2.2 Consensus size: 53
4442165 TACAAGCCAA
4442175 TGTATCGATACAATTTTTTTGTGTATCGATACATTGTATCGATACATACTTTG
1 TGTATCGATACAATTTTTTTGTGTATCGATACATTGTATCGATACATACTTTG
4442228 TGTATCGATACAATTTTTTTGTGTATCGATACATTGTATCGATACATACTTTG
1 TGTATCGATACAATTTTTTTGTGTATCGATACATTGTATCGATACATACTTTG
4442281 TGTATCGATACAA
1 TGTATCGATACAA
4442294 GTTTGGCTAC
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 66 1.00
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.44
Consensus pattern (53 bp):
TGTATCGATACAATTTTTTTGTGTATCGATACATTGTATCGATACATACTTTG
Found at i:4442267 original size:13 final size:13
Alignment explanation
Indices: 4442249--4442274 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4442239 AATTTTTTTG
4442249 TGTATCGATACAT
1 TGTATCGATACAT
4442262 TGTATCGATACAT
1 TGTATCGATACAT
4442275 ACTTTGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4447587 original size:80 final size:80
Alignment explanation
Indices: 4447439--4447648 Score: 300
Period size: 80 Copynumber: 2.6 Consensus size: 80
4447429 TCATTGATGT
* * * *
4447439 TTTTATTTCTAAAATATCGATTTTTCACCATCGA-GGATACTCCAACCTCGTTGTTTTTGAGGGG
1 TTTTATTCCTAAAATATCGATTTTTCACCATCAAGGGATACTCCAACCTCGTTGTTTTCGAAGGG
*
4447503 ATACTCTAACC-CTAA
66 ATACTCCAACCTC-AA
* *
4447518 TTTTATTCCTAAAACATCGATTTTTCACCATCAAGGGATACTCCAGCCTCGTTGTTTTCGAAGGG
1 TTTTATTCCTAAAATATCGATTTTTCACCATCAAGGGATACTCCAACCTCGTTGTTTTCGAAGGG
*
4447583 ATACTCCAACCTCGA
66 ATACTCCAACCTCAA
*
4447598 TTTTATTCCTAAAATA-CTGATTTTTCACCATCAGGGGATACTCCAACCTCG
1 TTTTATTCCTAAAATATC-GATTTTTCACCATCAAGGGATACTCCAACCTCG
4447649 ATTTTATTCC
Statistics
Matches: 117, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
79 32 0.27
80 84 0.72
81 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.35
Consensus pattern (80 bp):
TTTTATTCCTAAAATATCGATTTTTCACCATCAAGGGATACTCCAACCTCGTTGTTTTCGAAGGG
ATACTCCAACCTCAA
Found at i:4447642 original size:52 final size:52
Alignment explanation
Indices: 4447578--4447698 Score: 215
Period size: 52 Copynumber: 2.3 Consensus size: 52
4447568 GTTGTTTTCG
*
4447578 AAGGGATACTCCAACCTCGATTTTATTCCTAAAATACTGATTTTTCACCATC
1 AAGGGATACTCCAACCTCGATTTTATTCCTAAAACACTGATTTTTCACCATC
*
4447630 AGGGGATACTCCAACCTCGATTTTATTCCTAAAACACTGATTTTTCACCATC
1 AAGGGATACTCCAACCTCGATTTTATTCCTAAAACACTGATTTTTCACCATC
*
4447682 AAGGAATACTCCAACCT
1 AAGGGATACTCCAACCT
4447699 TGTTATTTTC
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.31, C:0.26, G:0.11, T:0.31
Consensus pattern (52 bp):
AAGGGATACTCCAACCTCGATTTTATTCCTAAAACACTGATTTTTCACCATC
Found at i:4447735 original size:132 final size:132
Alignment explanation
Indices: 4447498--4447777 Score: 404
Period size: 132 Copynumber: 2.1 Consensus size: 132
4447488 GTTGTTTTTG
* *
4447498 AGGGGATACTCTAACCCTAATTTTATTCCTAAAACATCGATTTTTCACCATCAAGGGATACTCCA
1 AGGGGATACTCCAACCCTAATTTTATTCCTAAAACATCGATTTTTCACCATCAAGGAATACTCCA
* * * * *
4447563 GCCTCGTTGTTTTCGAAGGGATACTCCAACCTCGATTTTATTCCTAAAATACTGATTTTTCACCA
66 ACCTCGTTATTTTCGAAGGGATACTCCAACCTCGATTTTATTCCTAAAACACTAATTTTCCACCA
4447628 TC
131 TC
*
4447630 AGGGGATACTCCAA-CCTCGATTTTATTCCTAAAACA-CTGATTTTTCACCATCAAGGAATACTC
1 AGGGGATACTCCAACCCT-AATTTTATTCCTAAAACATC-GATTTTTCACCATCAAGGAATACTC
* ** *
4447693 CAACCTTGTTATTTTCGAAGGGATACTCCAACCTCGATTTTATTTTTAAAACATTAATTTTCCAC
64 CAACCTCGTTATTTTCGAAGGGATACTCCAACCTCGATTTTATTCCTAAAACACTAATTTTCCAC
4447758 CATC
129 CATC
*
4447762 -GGGGACACTCCAACCC
1 AGGGGATACTCCAACCC
4447778 CGTCATTTCT
Statistics
Matches: 132, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
131 16 0.12
132 116 0.88
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (132 bp):
AGGGGATACTCCAACCCTAATTTTATTCCTAAAACATCGATTTTTCACCATCAAGGAATACTCCA
ACCTCGTTATTTTCGAAGGGATACTCCAACCTCGATTTTATTCCTAAAACACTAATTTTCCACCA
TC
Found at i:4447802 original size:79 final size:78
Alignment explanation
Indices: 4447632--4447893 Score: 287
Period size: 79 Copynumber: 3.3 Consensus size: 78
4447622 TCACCATCAG
* * * * *
4447632 GGGATACTCCAACCTCGATTTTATTCCTAAAACACTGATTTTTCACCATCAAGGAATACTCCAAC
1 GGGATACTCCAACCTCGATTTTATTTCTAAAACATTGATTTTCCACCATC-GGGGATACTCCAAC
*
4447697 CTTGTTATTTTCGAA
65 CCTG-TATTTTCGAA
* * *
4447712 GGGATACTCCAACCTCGATTTTATTTTTAAAACATTAATTTTCCACCATCGGGGACACTCCAACC
1 GGGATACTCCAACCTCGATTTTATTTCTAAAACATTGATTTTCCACCATCGGGGATACTCCAACC
*
4447777 CCGTCA-TTTCTGAA
66 CTGT-ATTTTC-GAA
* * *
4447791 GGGATACTCCAACC-CCATTTTTATTTCTAAAATATTGA-TTTCTCACCATCGGGGATACTTCAA
1 GGGATACTCCAACCTCGA-TTTTATTTCTAAAACATTGATTTTC-CACCATCGGGGATACTCCAA
* *
4447854 CTCTGTAGTTTTCGAC
64 CCCTGTA-TTTTCGAA
* *
4447870 GGGATACTCCAACCTTGTTTTTAT
1 GGGATACTCCAACCTCGATTTTAT
4447894 CTCCAAAATA
Statistics
Matches: 153, Mismatches: 22, Indels: 15
0.81 0.12 0.08
Matches are distributed among these distances:
78 12 0.08
79 92 0.60
80 49 0.32
ACGTcount: A:0.27, C:0.25, G:0.13, T:0.35
Consensus pattern (78 bp):
GGGATACTCCAACCTCGATTTTATTTCTAAAACATTGATTTTCCACCATCGGGGATACTCCAACC
CTGTATTTTCGAA
Found at i:4450323 original size:21 final size:21
Alignment explanation
Indices: 4450299--4450352 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
4450289 CACTTGCAAC
4450299 TCATTTATTTTCTCCTCTAAT
1 TCATTTATTTTCTCCTCTAAT
**
4450320 TCATTTATTTT-TTTTCTAAT
1 TCATTTATTTTCTCCTCTAAT
* *
4450340 TCACTTAATTTCT
1 TCATTTATTTTCT
4450353 TTTCAAGAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.20, C:0.19, G:0.00, T:0.61
Consensus pattern (21 bp):
TCATTTATTTTCTCCTCTAAT
Found at i:4450339 original size:20 final size:20
Alignment explanation
Indices: 4450299--4450356 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 20
4450289 CACTTGCAAC
**
4450299 TCATTTATTTTCTCCTCTAAT
1 TCATTTATTTT-TTTTCTAAT
4450320 TCATTTATTTTTTTTCTAAT
1 TCATTTATTTTTTTTCTAAT
* *
4450340 TCACTTAATTTCTTTTC
1 TCA-TTTATTTTTTTTC
4450357 AAGAATAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.31
21 22 0.69
ACGTcount: A:0.19, C:0.19, G:0.00, T:0.62
Consensus pattern (20 bp):
TCATTTATTTTTTTTCTAAT
Found at i:4451949 original size:32 final size:29
Alignment explanation
Indices: 4451896--4451954 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 29
4451886 CTTACAACAT
*
4451896 TATCTTTCAAGGCTAAGATAGAAACCTCCC
1 TATCTTTCAAGGCTAAAATAG-AACCTCCC
4451926 TATCTTTTCAAGGGCTAAAATAGAACCTC
1 TATC-TTTCAA-GGCTAAAATAGAACCTC
4451955 TTTCCTTATC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 4 0.15
31 12 0.46
32 10 0.38
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.29
Consensus pattern (29 bp):
TATCTTTCAAGGCTAAAATAGAACCTCCC
Done.