Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032252.1 Gossypioides kirkii chromosome KI_10
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: 47257441
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 3600 characters in sequence are not A, C, G, or T
File 93 of 163
Found at i:26513137 original size:20 final size:18
Alignment explanation
Indices: 26513113--26513161 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
26513103 AATAGTATTT
26513113 TATTAATTTAATATTAAA
1 TATTAATTTAATATTAAA
26513131 GTGATT-ATCTTAATATTAAA
1 -T-ATTAAT-TTAATATTAAA
26513151 T-TTAATTTAAT
1 TATTAATTTAAT
26513162 GTTTATTTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 7 0.26
18 2 0.07
19 4 0.15
20 14 0.52
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (18 bp):
TATTAATTTAATATTAAA
Found at i:26513211 original size:61 final size:58
Alignment explanation
Indices: 26513140--26513254 Score: 151
Period size: 61 Copynumber: 1.9 Consensus size: 58
26513130 AGTGATTATC
* * * *
26513140 TTAATATTAAATTTAATTTAATGTTTATTTTGTAGATAA-TATTCTATTAATTTAATAAGAT
1 TTAATATTAAATTTAATCTAAT-ATTA-TCT-T-GATAAGTATTATATTAATTTAATAAGAT
26513201 TTAATATTAAATTTAATCTAATATTATCTTGATAAGTATTATATTAATTTAATA
1 TTAATATTAAATTTAATCTAATATTATCTTGATAAGTATTATATTAATTTAATA
26513255 TTAAAATAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
57 5 0.10
58 18 0.37
59 2 0.04
60 3 0.06
61 21 0.43
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (58 bp):
TTAATATTAAATTTAATCTAATATTATCTTGATAAGTATTATATTAATTTAATAAGAT
Found at i:26519595 original size:53 final size:52
Alignment explanation
Indices: 26519533--26519739 Score: 261
Period size: 52 Copynumber: 4.0 Consensus size: 52
26519523 TTCATTTAAC
*** * ** *
26519533 ACTCACGATGACAAAAAGTCATCGGACCTCTTGTTCTGTAAAGGAATTCATGT
1 ACTCACGATGACACTTAGTCATCGGACCTCATAATCTGTAAAGG-ATTCATTT
* ** *
26519586 ACTAACGATGACACTTAGTCATCAAACCTCACAATCTGTAAAGGATTCATTT
1 ACTCACGATGACACTTAGTCATCGGACCTCATAATCTGTAAAGGATTCATTT
*
26519638 ACTCGCGATGACACTTAGTCATCGGACCTCATAATCTGTAAAGGATTCATTT
1 ACTCACGATGACACTTAGTCATCGGACCTCATAATCTGTAAAGGATTCATTT
** * *
26519690 ACTCACGATGACACTTAGTCATCAAACTTCATAATCCGTAAAGGATTCAT
1 ACTCACGATGACACTTAGTCATCGGACCTCATAATCTGTAAAGGATTCAT
26519740 ATACAATGGT
Statistics
Matches: 133, Mismatches: 21, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
52 99 0.74
53 34 0.26
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (52 bp):
ACTCACGATGACACTTAGTCATCGGACCTCATAATCTGTAAAGGATTCATTT
Found at i:26519656 original size:52 final size:52
Alignment explanation
Indices: 26519567--26519739 Score: 265
Period size: 52 Copynumber: 3.3 Consensus size: 52
26519557 GACCTCTTGT
* * *
26519567 TCTGTAAAGGAATTCATGTACTAACGATGACACTTAGTCATCAAACCTCACAA
1 TCTGTAAAGG-ATTCATTTACTCACGATGACACTTAGTCATCAAACCTCATAA
* **
26519620 TCTGTAAAGGATTCATTTACTCGCGATGACACTTAGTCATCGGACCTCATAA
1 TCTGTAAAGGATTCATTTACTCACGATGACACTTAGTCATCAAACCTCATAA
*
26519672 TCTGTAAAGGATTCATTTACTCACGATGACACTTAGTCATCAAACTTCATAA
1 TCTGTAAAGGATTCATTTACTCACGATGACACTTAGTCATCAAACCTCATAA
*
26519724 TCCGTAAAGGATTCAT
1 TCTGTAAAGGATTCAT
26519740 ATACAATGGT
Statistics
Matches: 109, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
52 99 0.91
53 10 0.09
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.30
Consensus pattern (52 bp):
TCTGTAAAGGATTCATTTACTCACGATGACACTTAGTCATCAAACCTCATAA
Found at i:26519731 original size:104 final size:105
Alignment explanation
Indices: 26519549--26519739 Score: 303
Period size: 104 Copynumber: 1.8 Consensus size: 105
26519539 GATGACAAAA
* **
26519549 AGTCATCGGACCTCTTGTTCTGTAAAGGAATTCATGTACTAACGATGACACTTAGTCATCAAACC
1 AGTCATCGGACCTCATAATCTGTAAAGGAATTCATGTACTAACGATGACACTTAGTCATCAAACC
*
26519614 TCACAATCTGTAAAGGATTCATTTACTCGCGATGACACTT
66 TCACAATCCGTAAAGGATTCATTTACTCGCGATGACACTT
* * *
26519654 AGTCATCGGACCTCATAATCTGTAAAGG-ATTCATTTACTCACGATGACACTTAGTCATCAAACT
1 AGTCATCGGACCTCATAATCTGTAAAGGAATTCATGTACTAACGATGACACTTAGTCATCAAACC
*
26519718 TCATAATCCGTAAAGGATTCAT
66 TCACAATCCGTAAAGGATTCAT
26519740 ATACAATGGT
Statistics
Matches: 78, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
104 53 0.68
105 25 0.32
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (105 bp):
AGTCATCGGACCTCATAATCTGTAAAGGAATTCATGTACTAACGATGACACTTAGTCATCAAACC
TCACAATCCGTAAAGGATTCATTTACTCGCGATGACACTT
Found at i:26522412 original size:14 final size:14
Alignment explanation
Indices: 26522395--26522437 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
26522385 ACGGGTCAAA
26522395 GTCAATGGTCAACG
1 GTCAATGGTCAACG
** *
26522409 GTCAACAGTCAACA
1 GTCAATGGTCAACG
*
26522423 GTCAATGGTTAACG
1 GTCAATGGTCAACG
26522437 G
1 G
26522438 GTCGGGTTCG
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.21, G:0.26, T:0.21
Consensus pattern (14 bp):
GTCAATGGTCAACG
Found at i:26522426 original size:21 final size:20
Alignment explanation
Indices: 26522388--26522427 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
26522378 AAAGTTAACG
**
26522388 GGTCAAAGTCAATGGTCAAC
1 GGTCAAAGTCAACAGTCAAC
26522408 GGTCAACAGTCAACAGTCAA
1 GGTCAA-AGTCAACAGTCAA
26522428 TGGTTAACGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (20 bp):
GGTCAAAGTCAACAGTCAAC
Found at i:26529171 original size:14 final size:14
Alignment explanation
Indices: 26529152--26529179 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
26529142 GTATAGTATT
26529152 AAATTTTTATTAAG
1 AAATTTTTATTAAG
26529166 AAATTTTTATTAAG
1 AAATTTTTATTAAG
26529180 TAAAAAGGAC
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):
AAATTTTTATTAAG
Found at i:26534157 original size:161 final size:160
Alignment explanation
Indices: 26533958--26534279 Score: 590
Period size: 161 Copynumber: 2.0 Consensus size: 160
26533948 AGTAAAAATG
26533958 ACTAAATCATAAAGTTGAAAAAGATGGTTTCTATTAGTTAAAAAGTTAAATCAAAGGACCTAGAT
1 ACTAAATCATAAAGTTGAAAAAGATGGTTTCTATTAGTTAAAAAGTTAAATCAAAGGACCTAGAT
26534023 GGTAAATATACCTATTATGGTATTAATGGATAGTAATGGGTTCATGATTTTTGAAAAGTGAATGA
66 GGTAAATATACCTATTATGGTATTAATGGATAGTAATGGGTTCATGATTTTTGAAAAGTGAATGA
26534088 AATAATAAAGGGCATAATAATAATTAGGTA
131 AATAATAAAGGGCATAATAATAATTAGGTA
*
26534118 ACTAAATCATAAAGTTGAAAAAAGATGGTTTCTATTAGTTATAAAGTTAAATCAAAGGACCTAGA
1 ACTAAATCATAAAGTTG-AAAAAGATGGTTTCTATTAGTTAAAAAGTTAAATCAAAGGACCTAGA
* * * *
26534183 TGGTAAATATACTTGTTATGGTATTAATGGGTGGTAATGGGTTCATGATTTTTGAAAAGTGAATG
65 TGGTAAATATACCTATTATGGTATTAATGGATAGTAATGGGTTCATGATTTTTGAAAAGTGAATG
26534248 AAATAATAAAGGGCATAATAATAATTAGGTA
130 AAATAATAAAGGGCATAATAATAATTAGGTA
26534279 A
1 A
26534280 ATACATTATT
Statistics
Matches: 156, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
160 17 0.11
161 139 0.89
ACGTcount: A:0.42, C:0.06, G:0.20, T:0.32
Consensus pattern (160 bp):
ACTAAATCATAAAGTTGAAAAAGATGGTTTCTATTAGTTAAAAAGTTAAATCAAAGGACCTAGAT
GGTAAATATACCTATTATGGTATTAATGGATAGTAATGGGTTCATGATTTTTGAAAAGTGAATGA
AATAATAAAGGGCATAATAATAATTAGGTA
Found at i:26534665 original size:38 final size:38
Alignment explanation
Indices: 26534597--26534841 Score: 199
Period size: 38 Copynumber: 6.4 Consensus size: 38
26534587 AAAGTGGAAT
*
26534597 ACTGATTATACTT-AATGCTTGCTCAGACGAGCGAATCC
1 ACTGATTATA-TTGAATGCTTGCTCAAACGAGCGAATCC
* *
26534635 ACTGATTATATTGAATTCTTACTCAAACGAGCGAATCC
1 ACTGATTATATTGAATGCTTGCTCAAACGAGCGAATCC
** * *** *
26534673 ACTGATTATATTGAATGCTTATTTAGGTGAGCGTATCC
1 ACTGATTATATTGAATGCTTGCTCAAACGAGCGAATCC
* * * ** *
26534711 ACTGAATATACTGAATGTTTGCTC-AACGAGAAAACCC
1 ACTGATTATATTGAATGCTTGCTCAAACGAGCGAATCC
* * * * * * * * *
26534748 ACTAATTTTACTGAATGTTTGTTCAAATGAGCTATAACT
1 ACTGATTATATTGAATGCTTGCTCAAACGAGCGA-ATCC
*
26534787 ACTGATTATATTGAATGCTCGCTCAAACGAGC-ATTATCC
1 ACTGATTATATTGAATGCTTGCTCAAACGAGCGA--ATCC
26534826 ACTGATTATATTGAAT
1 ACTGATTATATTGAAT
26534842 AAGATTTTTC
Statistics
Matches: 162, Mismatches: 41, Indels: 7
0.77 0.20 0.03
Matches are distributed among these distances:
37 28 0.17
38 88 0.54
39 46 0.28
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.33
Consensus pattern (38 bp):
ACTGATTATATTGAATGCTTGCTCAAACGAGCGAATCC
Found at i:26536425 original size:42 final size:42
Alignment explanation
Indices: 26536351--26536855 Score: 586
Period size: 42 Copynumber: 12.0 Consensus size: 42
26536341 CAAGTTAGGT
* * * * * *
26536351 TTGTTTGTTGTTTTAAATCAATTATGTACTTATTTGAATAGA
1 TTGTTTGTTGTTTTAAATCGATTCTTTGCTTATTTCAATCGA
* *
26536393 TTGTTTGTTGTTTAAAATTGATTCTTTGCTTATTTCAATC-A
1 TTGTTTGTTGTTTTAAATCGATTCTTTGCTTATTTCAATCGA
** * *
26536434 TTTGTTTGTTGTTTTAAATAAATTCTTTGCTTATTTGAATAGA
1 -TTGTTTGTTGTTTTAAATCGATTCTTTGCTTATTTCAATCGA
* * * *
26536477 TTGTTTGTTGTTTTAAATCGATTATTTGCTTCTTTAAATTGA
1 TTGTTTGTTGTTTTAAATCGATTCTTTGCTTATTTCAATCGA
* * *
26536519 TTGTTTGTTGTTTTAAATTGATTCATTCCTTATTTCAATCGA
1 TTGTTTGTTGTTTTAAATCGATTCTTTGCTTATTTCAATCGA
* * * *
26536561 TTGTTTGTTGTTTTAAATCAATCCTTTGCTTATTTGAACCTG-
1 TTGTTTGTTGTTTTAAATCGATTCTTTGCTTATTTCAATC-GA
* * *
26536603 TTGTTTGTTGTTTTAAATAGATTATTTGCTTATTTTAATCGA
1 TTGTTTGTTGTTTTAAATCGATTCTTTGCTTATTTCAATCGA
* *
26536645 TTGTTTGTTGTTTTAAATCGATCCTTTGCTTATTTGAATCGA
1 TTGTTTGTTGTTTTAAATCGATTCTTTGCTTATTTCAATCGA
* *
26536687 TTGTTTGTTGTTTTAAATAGATTATTTGCTTATTTCAATCGA
1 TTGTTTGTTGTTTTAAATCGATTCTTTGCTTATTTCAATCGA
* * ** *
26536729 TTGTTTGTTGTTTTAAATCAATTCTTTGCTTCTTAAAATCAA
1 TTGTTTGTTGTTTTAAATCGATTCTTTGCTTATTTCAATCGA
* *
26536771 TTGTTTATTGTTTTAAATCGATTCTTTGTTTATTTCAATCGA
1 TTGTTTGTTGTTTTAAATCGATTCTTTGCTTATTTCAATCGA
* * * *
26536813 TTTTTTGTTGTTTTAAAT-TAGTTCTTTG-TTTTTTTAATCGA
1 TTGTTTGTTGTTTTAAATCGA-TTCTTTGCTTATTTCAATCGA
26536854 TT
1 TT
26536856 CATTATTGTC
Statistics
Matches: 392, Mismatches: 66, Indels: 11
0.84 0.14 0.02
Matches are distributed among these distances:
41 16 0.04
42 374 0.95
43 2 0.01
ACGTcount: A:0.22, C:0.09, G:0.13, T:0.56
Consensus pattern (42 bp):
TTGTTTGTTGTTTTAAATCGATTCTTTGCTTATTTCAATCGA
Found at i:26536956 original size:16 final size:16
Alignment explanation
Indices: 26536931--26536964 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
26536921 CATATTTATT
26536931 TGGTAAGAAATACATA
1 TGGTAAGAAATACATA
* *
26536947 TGGTAGGAAATATATA
1 TGGTAAGAAATACATA
26536963 TG
1 TG
26536965 AAGAGACAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.03, G:0.24, T:0.29
Consensus pattern (16 bp):
TGGTAAGAAATACATA
Found at i:26537410 original size:21 final size:21
Alignment explanation
Indices: 26537384--26537424 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
26537374 CTTGGGGTAT
*
26537384 TAGCTTCTTGGTGACTTGGGG
1 TAGCTTCTTGATGACTTGGGG
*
26537405 TAGCTTCTTGATGAGTTGGG
1 TAGCTTCTTGATGACTTGGG
26537425 TCAACCACTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.12, C:0.12, G:0.37, T:0.39
Consensus pattern (21 bp):
TAGCTTCTTGATGACTTGGGG
Found at i:26539216 original size:29 final size:29
Alignment explanation
Indices: 26539157--26539219 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 29
26539147 ATGCCATTTT
* * * *
26539157 TTTTTATAATTACTTAGGGTTTTACGTCG
1 TTTTTAAAATTACTTAGGGATATACGACG
* *
26539186 TTTTTAAAATTATTTAGGGATATATGACG
1 TTTTTAAAATTACTTAGGGATATACGACG
26539215 TTTTT
1 TTTTT
26539220 GGGTGGACGC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.25, C:0.06, G:0.16, T:0.52
Consensus pattern (29 bp):
TTTTTAAAATTACTTAGGGATATACGACG
Found at i:26541789 original size:12 final size:12
Alignment explanation
Indices: 26541771--26541825 Score: 56
Period size: 12 Copynumber: 4.6 Consensus size: 12
26541761 ATTTTACGAT
26541771 GTAAATAAATAA
1 GTAAATAAATAA
* *
26541783 CTAAATAAGTAA
1 GTAAATAAATAA
* *
26541795 GTAAGTAAGTAA
1 GTAAATAAATAA
*
26541807 GTAGATAAATAA
1 GTAAATAAATAA
*
26541819 ATAAATA
1 GTAAATA
26541826 TATATATAAA
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 34 1.00
ACGTcount: A:0.60, C:0.02, G:0.13, T:0.25
Consensus pattern (12 bp):
GTAAATAAATAA
Found at i:26542212 original size:24 final size:24
Alignment explanation
Indices: 26542179--26542226 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
26542169 GTTCACGAAC
* *
26542179 AAGCTCGTTTATTGGCTCGTTTAT
1 AAGCTCGTTTATTGACTCATTTAT
*
26542203 AAGCTTGTTTATTGACTCATTTAT
1 AAGCTCGTTTATTGACTCATTTAT
26542227 TTATTAATGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.21, C:0.15, G:0.17, T:0.48
Consensus pattern (24 bp):
AAGCTCGTTTATTGACTCATTTAT
Found at i:26542365 original size:47 final size:46
Alignment explanation
Indices: 26542311--26542399 Score: 126
Period size: 47 Copynumber: 1.9 Consensus size: 46
26542301 TCATTAACAT
* *
26542311 TGTTCATGAATATGTTCAATTATATGTT-AATGAACATGTTCGTTTAA
1 TGTTCATGAACATGTTCAATTA-A-GTTAAATGAACATATTCGTTTAA
*
26542358 TGTTCATGAACATGTTCGATTAAGTTAAATGAACATATTCGT
1 TGTTCATGAACATGTTCAATTAAGTTAAATGAACATATTCGT
26542400 GAGCATTAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
45 3 0.08
46 15 0.39
47 20 0.53
ACGTcount: A:0.33, C:0.10, G:0.16, T:0.42
Consensus pattern (46 bp):
TGTTCATGAACATGTTCAATTAAGTTAAATGAACATATTCGTTTAA
Found at i:26542366 original size:23 final size:23
Alignment explanation
Indices: 26542311--26542398 Score: 97
Period size: 23 Copynumber: 3.8 Consensus size: 23
26542301 TCATTAACAT
* * *
26542311 TGTTCATGAATATGTTCAATTATA
1 TGTTAATGAACATGTTCGATTA-A
*
26542335 TGTTAATGAACATGTTCGTTTAA
1 TGTTAATGAACATGTTCGATTAA
*
26542358 TGTTCATGAACATGTTCGATTAA
1 TGTTAATGAACATGTTCGATTAA
*
26542381 -GTTAAATGAACATATTCG
1 TGTT-AATGAACATGTTCG
26542399 TGAGCATTAA
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
22 3 0.05
23 34 0.62
24 18 0.33
ACGTcount: A:0.33, C:0.10, G:0.16, T:0.41
Consensus pattern (23 bp):
TGTTAATGAACATGTTCGATTAA
Found at i:26549598 original size:29 final size:29
Alignment explanation
Indices: 26549566--26549730 Score: 92
Period size: 29 Copynumber: 5.6 Consensus size: 29
26549556 TAACTTTCGG
26549566 GGGTAAAAATGTAATTTTTGGTGAAATTA
1 GGGTAAAAATGTAATTTTTGGTGAAATTA
* * *
26549595 GGGTCAAAATGGAA-TTTT-G-GAAAGTTTGC
1 GGGTAAAAATGTAATTTTTGGTGAAA--TT-A
* ** *
26549624 GGGTTAAACGGTAATTTTTGGTGAAATTG
1 GGGTAAAAATGTAATTTTTGGTGAAATTA
**
26549653 GGGCTAAAAATG-AGGTTTT-G-GAAAGTTTGA
1 GGG-TAAAAATGTAATTTTTGGTGAAA--TT-A
*
26549683 GGGT-AAAATGGTAATTTTTGGTGAAATCGA
1 GGGTAAAAAT-GTAATTTTTGGTGAAAT-TA
* *
26549713 GGTTAAAAATGGAATTTT
1 GGGTAAAAATGTAATTTT
26549731 AGAAAGTTTG
Statistics
Matches: 101, Mismatches: 19, Indels: 31
0.67 0.13 0.21
Matches are distributed among these distances:
26 4 0.04
27 5 0.05
28 12 0.12
29 34 0.34
30 31 0.31
31 7 0.07
32 8 0.08
ACGTcount: A:0.33, C:0.03, G:0.29, T:0.35
Consensus pattern (29 bp):
GGGTAAAAATGTAATTTTTGGTGAAATTA
Found at i:26549720 original size:30 final size:30
Alignment explanation
Indices: 26549566--26549781 Score: 77
Period size: 29 Copynumber: 7.3 Consensus size: 30
26549556 TAACTTTCGG
*
26549566 GGGTAAAAAT-GTAATTTTTGGTGAAAT-TA
1 GGGT-AAAATGGTAATTTTTGGTGAAATCGA
* *
26549595 GGGTCAAAATGG-AA-TTTT-G-GAAAGTTTGC
1 GGGT-AAAATGGTAATTTTTGGTGAAA--TCGA
* * *
26549624 GGGTTAAACGGTAATTTTTGGTGAAATTG-
1 GGGTAAAATGGTAATTTTTGGTGAAATCGA
** *
26549653 GGGCTAAAAAT-G-AGGTTTT-G-GAAAGTTTGA
1 GGG-T-AAAATGGTAATTTTTGGTGAAA--TCGA
26549683 GGGTAAAATGGTAATTTTTGGTGAAATCGA
1 GGGTAAAATGGTAATTTTTGGTGAAATCGA
* * * *
26549713 GGTTAAAAATGG-AA-TTTT--AGAAAGTTTGG
1 GGGT-AAAATGGTAATTTTTGGTGAAA--TCGA
* *
26549742 GGGTAAAATGGTAATTTTGGGTGAAAGCG-
1 GGGTAAAATGGTAATTTTTGGTGAAATCGA
26549771 GGGTTAAAATG
1 GGG-TAAAATG
26549782 AAATTTTAGA
Statistics
Matches: 141, Mismatches: 21, Indels: 49
0.67 0.10 0.23
Matches are distributed among these distances:
26 4 0.03
27 9 0.06
28 23 0.16
29 44 0.31
30 37 0.26
31 12 0.09
32 12 0.09
ACGTcount: A:0.33, C:0.03, G:0.31, T:0.33
Consensus pattern (30 bp):
GGGTAAAATGGTAATTTTTGGTGAAATCGA
Found at i:26549749 original size:29 final size:28
Alignment explanation
Indices: 26549718--26549888 Score: 136
Period size: 29 Copynumber: 6.0 Consensus size: 28
26549708 ATCGAGGTTA
*
26549718 AAAATGGAATTTTAGAAAGTTTGGGGGT
1 AAAATGGAATTTTAGAAAGTTTCGGGGT
*
26549746 AAAATGGTAATTTTGGGTGAAAG---CGGGGTT
1 AAAATGG-AATTTT---AGAAAGTTTCGGGG-T
* *
26549776 AAAATGAAATTTTAGAAAGTTT-GGGTT
1 AAAATGGAATTTTAGAAAGTTTCGGGGT
* *
26549803 AAAAATGAAATTTTAGAAAGTTTAGGGGT
1 -AAAATGGAATTTTAGAAAGTTTCGGGGT
** *
26549832 AAAATGGTAATTTTAG-GTGTAATCGGGGTT
1 AAAATGG-AATTTTAGAAAGT-TTCGGGG-T
*
26549862 AAAATGGAATTTTAGAAAGTTTGGGGG
1 AAAATGGAATTTTAGAAAGTTTCGGGG
26549889 CTAGAGAGCA
Statistics
Matches: 114, Mismatches: 15, Indels: 27
0.73 0.10 0.17
Matches are distributed among these distances:
26 5 0.04
27 1 0.01
28 40 0.35
29 46 0.40
30 17 0.15
32 5 0.04
ACGTcount: A:0.36, C:0.01, G:0.30, T:0.33
Consensus pattern (28 bp):
AAAATGGAATTTTAGAAAGTTTCGGGGT
Found at i:26549760 original size:117 final size:115
Alignment explanation
Indices: 26549565--26549816 Score: 301
Period size: 117 Copynumber: 2.2 Consensus size: 115
26549555 TTAACTTTCG
* * * *
26549565 GGGGTAAAAATGTAATTTTTGGTGAAATTAGGGTCAAAATGGAATTTTGGAAAGTTTGCGGGTTA
1 GGGGT-AAAATGTAATTTTTGGTGAAATGAGGGTAAAAATGGAATTTTAGAAAGTTTGCGGGTAA
** ** *
26549630 AACGGTAATTTTT-GGTGAAATTGGGGCTAAAAATGAGGTTTTGGAAAGTTT
65 AACGGTAATTTTTGGGTGAAAGCGGGG-TAAAAATGAAATTTTAGAAAGTTT
* *
26549681 GAGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTAGAAAGTTTGGGGGT
1 G-GGGTAAAAT-GTAATTTTTGGTGAAAT-GAGGGTAAAAATGGAATTTTAGAAAGTTTGCGGGT
* *
26549746 AAAATGGTAA-TTTTGGGTGAAAGCGGGGTTAAAATGAAATTTTAGAAAGTTT
63 AAAACGGTAATTTTTGGGTGAAAGCGGGGTAAAAATGAAATTTTAGAAAGTTT
* *
26549798 GGGTTAAAAATGAAATTTT
1 GGGGT-AAAATGTAATTTT
26549817 AGAAAGTTTA
Statistics
Matches: 116, Mismatches: 15, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
116 16 0.14
117 51 0.44
118 49 0.42
ACGTcount: A:0.35, C:0.02, G:0.29, T:0.34
Consensus pattern (115 bp):
GGGGTAAAATGTAATTTTTGGTGAAATGAGGGTAAAAATGGAATTTTAGAAAGTTTGCGGGTAAA
ACGGTAATTTTTGGGTGAAAGCGGGGTAAAAATGAAATTTTAGAAAGTTT
Found at i:26549809 original size:58 final size:58
Alignment explanation
Indices: 26549564--26549800 Score: 278
Period size: 59 Copynumber: 4.1 Consensus size: 58
26549554 TTTAACTTTC
** * * *
26549564 GGGGGTAAAAAT-GTAATTTTTGGTGAAATTAGGGTCAAAATGGAATTTTGGAAAGTTT
1 GGGGGT-AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAATGAAATTTTAGAAAGTTT
* * * * * ** *
26549622 GCGGGTTAAACGGTAATTTTTGGTGAAATTGGGGCTAAAAATGAGGTTTTGGAAAGTTT
1 GGGGGTAAAATGGTAATTTTTGGTGAAATCGGGG-TTAAAATGAAATTTTAGAAAGTTT
* * *
26549681 GAGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTAGAAAGTTT
1 GGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTT-AAAATGAAATTTTAGAAAGTTT
* *
26549740 GGGGGTAAAATGGTAATTTTGGGTGAAAGCGGGGTTAAAATGAAATTTTAGAAAGTTT
1 GGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAATGAAATTTTAGAAAGTTT
26549798 GGG
1 GGG
26549801 TTAAAAATGA
Statistics
Matches: 153, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
57 3 0.02
58 51 0.33
59 99 0.65
ACGTcount: A:0.33, C:0.03, G:0.31, T:0.33
Consensus pattern (58 bp):
GGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAATGAAATTTTAGAAAGTTT
Found at i:26549822 original size:86 final size:86
Alignment explanation
Indices: 26549713--26549886 Score: 294
Period size: 86 Copynumber: 2.0 Consensus size: 86
26549703 GTGAAATCGA
* * *
26549713 GGTTAAAAATGGAATTTTAGAAAGTTTGGGGGTAAAATGGTAATTTTGGGTGAAAGCGGGGTTAA
1 GGTTAAAAATGAAATTTTAGAAAGTTTAGGGGTAAAATGGTAATTTTAGGTGAAAGCGGGGTTAA
26549778 AATGAAATTTTAGAAAGTTTG
66 AATGAAATTTTAGAAAGTTTG
* *
26549799 GGTTAAAAATGAAATTTTAGAAAGTTTAGGGGTAAAATGGTAATTTTAGGTGTAATCGGGGTTAA
1 GGTTAAAAATGAAATTTTAGAAAGTTTAGGGGTAAAATGGTAATTTTAGGTGAAAGCGGGGTTAA
*
26549864 AATGGAATTTTAGAAAGTTTG
66 AATGAAATTTTAGAAAGTTTG
26549885 GG
1 GG
26549887 GGCTAGAGAG
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
86 82 1.00
ACGTcount: A:0.36, C:0.01, G:0.29, T:0.33
Consensus pattern (86 bp):
GGTTAAAAATGAAATTTTAGAAAGTTTAGGGGTAAAATGGTAATTTTAGGTGAAAGCGGGGTTAA
AATGAAATTTTAGAAAGTTTG
Found at i:26551779 original size:6 final size:6
Alignment explanation
Indices: 26551768--26551883 Score: 73
Period size: 6 Copynumber: 20.0 Consensus size: 6
26551758 TATAATAATT
* * * *
26551768 TTTAAA TTTAAA -ATAAA TTTAGA CTTAAA -TTAAA TTCAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * * * * *
26551814 GATTAAT TTTAAT TTTAAA TTTAAA -ATAAA TCTAAA TTTAAA -TCAAA
1 -TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
26551861 TTT-AA TCTTAAA -ATAAA TTTAAA
1 TTTAAA T-TTAAA TTTAAA TTTAAA
26551884 AGGGCCCGAT
Statistics
Matches: 84, Mismatches: 18, Indels: 16
0.71 0.15 0.14
Matches are distributed among these distances:
5 24 0.29
6 54 0.64
7 6 0.07
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (6 bp):
TTTAAA
Found at i:26551812 original size:17 final size:16
Alignment explanation
Indices: 26551769--26551883 Score: 68
Period size: 17 Copynumber: 6.7 Consensus size: 16
26551759 ATAATAATTT
*
26551769 TTAAATTTAAAATAAA
1 TTAAATTTAAATTAAA
* *
26551785 TTTAGACTTAAATTAAA
1 -TTAAATTTAAATTAAA
*
26551802 TTCAAATTTAAAGATTAATT
1 TT-AAATTT-AA-ATTAA-A
*
26551822 TTAATTTTAAATTTAAA
1 TTAAATTTAAA-TTAAA
* *
26551839 ATAAATCTAAATTTAAA
1 TTAAATTTAAA-TTAAA
* *
26551856 TCAAATTTAATCTTAAA
1 TTAAATTTAA-ATTAAA
*
26551873 ATAAATTTAAA
1 TTAAATTTAAA
26551884 AGGGCCCGAT
Statistics
Matches: 74, Mismatches: 18, Indels: 13
0.70 0.17 0.12
Matches are distributed among these distances:
16 2 0.03
17 52 0.70
18 8 0.11
19 10 0.14
20 2 0.03
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (16 bp):
TTAAATTTAAATTAAA
Found at i:26551872 original size:59 final size:58
Alignment explanation
Indices: 26551767--26551880 Score: 149
Period size: 59 Copynumber: 1.9 Consensus size: 58
26551757 TTATAATAAT
* * * *
26551767 TTTTAAATTTAAAATAAATTTAGACTTAAATTAAATTCAAATTTAAAGATTAATTTTAA
1 TTTTAAATTTAAAATAAATCTAAACTTAAATCAAATTCAAATTTAAA-ATAAATTTTAA
* *
26551826 TTTTAAATTTAAAATAAATCTAAATTTAAATCAAATT-TAATCTTAAAATAAATTT
1 TTTTAAATTTAAAATAAATCTAAACTTAAATCAAATTCAAAT-TTAAAATAAATTT
26551881 AAAAGGGCCC
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
58 10 0.21
59 38 0.79
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (58 bp):
TTTTAAATTTAAAATAAATCTAAACTTAAATCAAATTCAAATTTAAAATAAATTTTAA
Found at i:26553758 original size:49 final size:48
Alignment explanation
Indices: 26553687--26553785 Score: 171
Period size: 49 Copynumber: 2.0 Consensus size: 48
26553677 GCATCTATTT
**
26553687 ATAAGTTGAAAAATATTATTCTAATCCATGTCAAATAGAAGCAGTGTA
1 ATAAGTTGAAAAATATTATTCTAATCCATGTCAAATAGAAAAAGTGTA
26553735 ATAAGGTTGAAAAATATTATTCTAATCCATGTCAAATAGAAAAAGTGTA
1 ATAA-GTTGAAAAATATTATTCTAATCCATGTCAAATAGAAAAAGTGTA
26553784 AT
1 AT
26553786 TATATACGGA
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
48 4 0.08
49 44 0.92
ACGTcount: A:0.45, C:0.09, G:0.14, T:0.31
Consensus pattern (48 bp):
ATAAGTTGAAAAATATTATTCTAATCCATGTCAAATAGAAAAAGTGTA
Found at i:26555454 original size:14 final size:14
Alignment explanation
Indices: 26555420--26555454 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
26555410 ATCCTGTGAG
*
26555420 AGTTTGCTAGGATA
1 AGTTTGGTAGGATA
26555434 AGTTTGGTAGGATA
1 AGTTTGGTAGGATA
26555448 AGTTTGG
1 AGTTTGG
26555455 GTAATGCGGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.26, C:0.03, G:0.34, T:0.37
Consensus pattern (14 bp):
AGTTTGGTAGGATA
Found at i:26562524 original size:22 final size:22
Alignment explanation
Indices: 26562499--26562566 Score: 82
Period size: 22 Copynumber: 3.1 Consensus size: 22
26562489 GCCACCATTT
*
26562499 ATTTGCAAATAAATTGCAACTG
1 ATTTGCAAATAAATTGCCACTG
* *
26562521 ATTTGCATATAAATTGCCATTG
1 ATTTGCAAATAAATTGCCACTG
* * *
26562543 ATTTGTAGATAAATTACCACTG
1 ATTTGCAAATAAATTGCCACTG
26562565 AT
1 AT
26562567 AACACTGATG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (22 bp):
ATTTGCAAATAAATTGCCACTG
Found at i:26581038 original size:11 final size:11
Alignment explanation
Indices: 26581024--26581048 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
26581014 AATTTGTGCT
26581024 TTATTTTTTTG
1 TTATTTTTTTG
26581035 TTATTTTTTTG
1 TTATTTTTTTG
26581046 TTA
1 TTA
26581049 GTTACTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.12, C:0.00, G:0.08, T:0.80
Consensus pattern (11 bp):
TTATTTTTTTG
Found at i:26581809 original size:13 final size:14
Alignment explanation
Indices: 26581787--26581820 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
26581777 GTGACTGAGG
*
26581787 AAAAAGTAAAAAGT
1 AAAAAGTAAAAAAT
26581801 AAAAA-TAAAAAAT
1 AAAAAGTAAAAAAT
26581814 AAAAAGT
1 AAAAAGT
26581821 CACAAAAGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (14 bp):
AAAAAGTAAAAAAT
Found at i:26581811 original size:6 final size:7
Alignment explanation
Indices: 26581787--26581820 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
26581777 GTGACTGAGG
26581787 AAAAAGT
1 AAAAAGT
26581794 AAAAAGT
1 AAAAAGT
26581801 AAAAA-T
1 AAAAAGT
*
26581807 AAAAAAT
1 AAAAAGT
26581814 AAAAAGT
1 AAAAAGT
26581821 CACAAAAGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
6 6 0.24
7 19 0.76
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (7 bp):
AAAAAGT
Found at i:26585573 original size:3 final size:3
Alignment explanation
Indices: 26585567--26585607 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
26585557 TATTATTATT
* *
26585567 ATC ATC ATC ATC ATC ATC ATC ATT ATC ATC ACC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
26585608 TATTATTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.34, C:0.32, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:26585612 original size:3 final size:3
Alignment explanation
Indices: 26585606--26585634 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
26585596 CACCATCATC
26585606 ATT ATT ATT ATT ATT ATT ATT ATT -TT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
26585635 CTGGTTGAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
ATT
Found at i:26603710 original size:21 final size:21
Alignment explanation
Indices: 26603657--26603713 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
26603647 TGGACAAGCC
*
26603657 ACCACATATTTGCCAATAATG
1 ACCACATATTTTCCAATAATG
* *
26603678 GCCACGTATTTTCCAATAATG
1 ACCACATATTTTCCAATAATG
26603699 ACCACATATTTTCCA
1 ACCACATATTTTCCA
26603714 CCTTGCACAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.33, C:0.26, G:0.09, T:0.32
Consensus pattern (21 bp):
ACCACATATTTTCCAATAATG
Found at i:26606747 original size:12 final size:12
Alignment explanation
Indices: 26606725--26606754 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
26606715 AACTCTTACG
26606725 GAGAGAGAAGAAA
1 GAGA-AGAAGAAA
26606738 GAGAAGAAGAAA
1 GAGAAGAAGAAA
26606750 GAGAA
1 GAGAA
26606755 TGATCTGCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 13 0.76
13 4 0.24
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (12 bp):
GAGAAGAAGAAA
Found at i:26606961 original size:32 final size:32
Alignment explanation
Indices: 26606924--26607001 Score: 95
Period size: 32 Copynumber: 2.4 Consensus size: 32
26606914 AATTAGTTTC
*
26606924 TTGGATTTTGAAATTATTATGTTTTAAACTTG
1 TTGGATTTTGAAATTATCATGTTTTAAACTTG
* *
26606956 TTGGATATTT-AATTTATCATGTTTTAAGCTTG
1 TTGGAT-TTTGAAATTATCATGTTTTAAACTTG
* *
26606988 TTGAATATTGAAAT
1 TTGGATTTTGAAAT
26607002 GATTTACAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
31 2 0.05
32 33 0.87
33 3 0.08
ACGTcount: A:0.29, C:0.04, G:0.15, T:0.51
Consensus pattern (32 bp):
TTGGATTTTGAAATTATCATGTTTTAAACTTG
Found at i:26609616 original size:25 final size:25
Alignment explanation
Indices: 26609588--26609636 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
26609578 AATATAAGAA
*
26609588 AATAACATGATTGGAATAAATGAAC
1 AATAACATGATTGAAATAAATGAAC
*
26609613 AATAACATGATTTAAATAAATGAA
1 AATAACATGATTGAAATAAATGAA
26609637 TATTCTAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.55, C:0.06, G:0.12, T:0.27
Consensus pattern (25 bp):
AATAACATGATTGAAATAAATGAAC
Found at i:26610547 original size:30 final size:31
Alignment explanation
Indices: 26610506--26610580 Score: 102
Period size: 31 Copynumber: 2.5 Consensus size: 31
26610496 ATTATATTTA
*
26610506 ACAACACAGTCACTCAAC-TT-T-GAAAATGTG
1 ACAAAACAGTCACT-AACATTATCGAAAA-GTG
26610536 ACAAAACAGTCACTAACATTATCGAAAAGTG
1 ACAAAACAGTCACTAACATTATCGAAAAGTG
26610567 ACAAAACAGTCACT
1 ACAAAACAGTCACT
26610581 GTTTAATCCA
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
29 3 0.07
30 15 0.37
31 18 0.44
32 5 0.12
ACGTcount: A:0.45, C:0.23, G:0.12, T:0.20
Consensus pattern (31 bp):
ACAAAACAGTCACTAACATTATCGAAAAGTG
Found at i:26611699 original size:32 final size:30
Alignment explanation
Indices: 26611645--26611720 Score: 93
Period size: 32 Copynumber: 2.5 Consensus size: 30
26611635 AGGTAATGAC
26611645 AGTGACTGTTTTGTCAATTTTTCGATAACGTT-
1 AGTGACTGTTTTGTCAATTTTTC-A-AA-GTTA
26611677 AGTGACTGTTTTGTC-ATATTTTCAAAGTTA
1 AGTGACTGTTTTGTCAAT-TTTTCAAAGTTA
*
26611707 AGTGACTATTTTGT
1 AGTGACTGTTTTGT
26611721 TAAATATAAC
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
29 3 0.07
30 15 0.37
31 3 0.07
32 20 0.49
ACGTcount: A:0.24, C:0.11, G:0.18, T:0.47
Consensus pattern (30 bp):
AGTGACTGTTTTGTCAATTTTTCAAAGTTA
Found at i:26613198 original size:57 final size:60
Alignment explanation
Indices: 26613093--26613205 Score: 169
Period size: 57 Copynumber: 1.9 Consensus size: 60
26613083 ATAAAATGAG
* * *
26613093 ATTTTAGGTTCTTTAAATGTTAGAGAATTTTTTTAAGTCTCTTAAAAGTTGATAAAAAAA
1 ATTTTAGGATCTTTAAAAGTTAGAGAATTTTTTTAAGTCCCTTAAAAGTTGATAAAAAAA
*
26613153 ATTTTA-GATCTTTAAAAGTTA-A-AATTTTTTTGAGTCCCTTAAAAGTTGATAAA
1 ATTTTAGGATCTTTAAAAGTTAGAGAATTTTTTTAAGTCCCTTAAAAGTTGATAAA
26613206 TTCATTTCGG
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
57 29 0.59
58 1 0.02
59 13 0.27
60 6 0.12
ACGTcount: A:0.38, C:0.06, G:0.12, T:0.43
Consensus pattern (60 bp):
ATTTTAGGATCTTTAAAAGTTAGAGAATTTTTTTAAGTCCCTTAAAAGTTGATAAAAAAA
Found at i:26615949 original size:51 final size:51
Alignment explanation
Indices: 26615839--26616002 Score: 161
Period size: 51 Copynumber: 3.2 Consensus size: 51
26615829 GACATTACGC
* * * * * * *
26615839 CACATAGGCTTTAGAGGTGACTCACCACAAAGGCTTCCCCAAATAAAT--T
1 CACAAAGGCTTTACAAGTGACTTACCATAAAGACTTCCCAAAATAAATCAT
* * * * *
26615888 GCAACGAAGGCTTTACAAGTGATTTGCCTTAAAGACTTCCTAAAATAAATCAT
1 -C-ACAAAGGCTTTACAAGTGACTTACCATAAAGACTTCCCAAAATAAATCAT
* * *
26615941 CACAAAGGCTTTACAGGTGACTTACCATAAAGGCTTCCCAAATTAAATCAT
1 CACAAAGGCTTTACAAGTGACTTACCATAAAGACTTCCCAAAATAAATCAT
26615992 CACAAAGGCTT
1 CACAAAGGCTT
26616003 GGTTTGGTTT
Statistics
Matches: 91, Mismatches: 20, Indels: 5
0.78 0.17 0.04
Matches are distributed among these distances:
50 1 0.01
51 88 0.97
52 1 0.01
53 1 0.01
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.25
Consensus pattern (51 bp):
CACAAAGGCTTTACAAGTGACTTACCATAAAGACTTCCCAAAATAAATCAT
Found at i:26618209 original size:29 final size:29
Alignment explanation
Indices: 26618161--26618567 Score: 187
Period size: 29 Copynumber: 14.0 Consensus size: 29
26618151 CAAAAGGTTT
*
26618161 AGGGTTAAAAATGG-ATTTTTTGAACATTCG
1 AGGG-TAAAAATGGTAATTTTTGAA-ATTCG
*
26618191 AGGGT-AAAATGGTAATTTTGGAAAATTC-
1 AGGGTAAAAATGGTAATTTTTG-AAATTCG
*
26618219 AGGGTTAAAAATGG-AATTTTTAGACA-TCTG
1 AGGG-TAAAAATGGTAATTTTT-GAAATTC-G
* * * *
26618249 GGGGT-AAAATAGTAAATTTTGGAAAGTTTG
1 AGGGTAAAAATGGT-AATTTTTGAAA-TTCG
*
26618279 -GGGTAAAAAT-GTAATTTTTGGAAACTT-T
1 AGGGTAAAAATGGTAATTTTT-GAAA-TTCG
* * *
26618307 AGGATTAAAAATGG-AATTTTGGAAAGTTTG
1 AGG-GTAAAAATGGTAATTTTTGAAA-TTCG
26618337 AGGGTAAAAAT-GTAATTTTTGGTAAATTCG
1 AGGGTAAAAATGGTAATTTTT-G-AAATTCG
* * *
26618367 -GGGTCAAAAATGG-AATTTTGGAGAGTTTG
1 AGGGT-AAAAATGGTAATTTTTGA-AATTCG
26618396 AGGGTAAAAAT-GTAATTTTCTGTAAATTCG
1 AGGGTAAAAATGGTAATTTT-TG-AAATTCG
* *
26618426 A--GTTAAAATGG-AATTTTGGAAAGTTCG
1 AGGGTAAAAATGGTAATTTTTGAAA-TTCG
* * *
26618453 GGGGTAAAAAT-GTAATTTTTAGTGAATTTG
1 AGGGTAAAAATGGTAATTTTT-G-AAATTCG
* * *
26618483 AGGTTAAAAATGG-AA--TTGGAAAGTTTG
1 AGGGTAAAAATGGTAATTTTTGAAA-TTCG
*
26618510 AGAGTAAAAAT-GTAATTTTTGGTAAATTCG
1 AGGGTAAAAATGGTAATTTTT-G-AAATTCG
* * *
26618540 -GGGTCAAAATAG-AATTTTGGAAAGTTCG
1 AGGGTAAAAATGGTAATTTTTGAAA-TTCG
26618568 GGGAACCTCT
Statistics
Matches: 291, Mismatches: 43, Indels: 88
0.69 0.10 0.21
Matches are distributed among these distances:
26 6 0.02
27 24 0.08
28 49 0.17
29 108 0.37
30 91 0.31
31 13 0.04
ACGTcount: A:0.37, C:0.03, G:0.26, T:0.34
Consensus pattern (29 bp):
AGGGTAAAAATGGTAATTTTTGAAATTCG
Found at i:26618229 original size:58 final size:56
Alignment explanation
Indices: 26618161--26618566 Score: 317
Period size: 59 Copynumber: 7.0 Consensus size: 56
26618151 CAAAAGGTTT
* *
26618161 AGGGTTAAAAATG-GATTTTTTGAACATTCGAGGGTAAAATGGTAATTTTGGAAAATTC
1 AGGG-TAAAAATGTAATTTTTTGAA-ATTCGAGGGTAAAATGG-AATTTTGGAAAGTTC
* * * * * *
26618219 AGGGTTAAAAATGGAATTTTTAGACA-TCTGGGGGTAAAATAGTAAATTTTGGAAAGTTT
1 AGGG-TAAAAATGTAATTTTTTGAAATTC-GAGGGTAAAAT-G-GAATTTTGGAAAGTTC
* * * * *
26618278 GGGGTAAAAATGTAATTTTTGGAAACTT-TAGGATTAAAAATGGAATTTTGGAAAGTTTG
1 AGGGTAAAAATGTAATTTTTTGAAA-TTCGAGG-GT-AAAATGGAATTTTGGAAAG-TTC
* * *
26618337 AGGGTAAAAATGTAATTTTTGGTAAATTCG-GGGTCAAAAATGGAATTTTGGAGAGTTTG
1 AGGGTAAAAATGTAATTTTTTG-AAATTCGAGGGT--AAAATGGAATTTTGGAAAG-TTC
* *
26618396 AGGGTAAAAATGTAATTTTCTGTAAATTCGA-GTTAAAATGGAATTTTGGAAAGTTC
1 AGGGTAAAAATGTAATTTTTTG-AAATTCGAGGGTAAAATGGAATTTTGGAAAGTTC
* * * *
26618452 GGGGGTAAAAATGTAATTTTTAGTG-AATTTGAGGTTAAAAATGGAA--TTGGAAAGTTTG
1 -AGGGTAAAAATGTAATTTTT--TGAAATTCGAGGGT-AAAATGGAATTTTGGAAAG-TTC
* * *
26618510 AGAGTAAAAATGTAATTTTTGGTAAATTCG-GGGTCAAAATAGAATTTTGGAAAGTTC
1 AGGGTAAAAATGTAATTTTTTG-AAATTCGAGGGT-AAAATGGAATTTTGGAAAGTTC
26618567 GGGGAACCTC
Statistics
Matches: 288, Mismatches: 37, Indels: 47
0.77 0.10 0.13
Matches are distributed among these distances:
55 1 0.00
56 13 0.05
57 77 0.27
58 70 0.24
59 118 0.41
60 9 0.03
ACGTcount: A:0.37, C:0.03, G:0.25, T:0.34
Consensus pattern (56 bp):
AGGGTAAAAATGTAATTTTTTGAAATTCGAGGGTAAAATGGAATTTTGGAAAGTTC
Found at i:26618316 original size:59 final size:58
Alignment explanation
Indices: 26618263--26618565 Score: 336
Period size: 59 Copynumber: 5.2 Consensus size: 58
26618253 TAAAATAGTA
26618263 AATTTTGGAAAGTTTG-GGGTAAAAATGTAATTTTTGGAAACTTTAGGATTAAAAATGG
1 AATTTTGGAAAGTTTGAGGGTAAAAATGTAATTTTTGGAAA-TTTAGGATTAAAAATGG
** * *
26618321 AATTTTGGAAAGTTTGAGGGTAAAAATGTAATTTTTGGTAAATTCGGGGTCAAAAATGG
1 AATTTTGGAAAGTTTGAGGGTAAAAATGTAATTTTTGG-AAATTTAGGATTAAAAATGG
* * *
26618380 AATTTTGGAGAGTTTGAGGGTAAAAATGTAATTTTCTGTAAA-TT-CGAGTT-AAAATGG
1 AATTTTGGAAAGTTTGAGGGTAAAAATGTAATTTT-TGGAAATTTAGGA-TTAAAAATGG
* *
26618437 AATTTTGGAAAGTTCGGGGGTAAAAATGTAATTTTTAGTG-AATTTGAGG-TTAAAAATGG
1 AATTTTGGAAAGTTTGAGGGTAAAAATGTAATTTTT-G-GAAATTT-AGGATTAAAAATGG
* * ** * *
26618496 AA--TTGGAAAGTTTGAGAGTAAAAATGTAATTTTTGGTAAA-TTCGGGGTCAAAATAG
1 AATTTTGGAAAGTTTGAGGGTAAAAATGTAATTTTTGG-AAATTTAGGATTAAAAATGG
26618552 AATTTTGGAAAGTT
1 AATTTTGGAAAGTT
26618566 CGGGGAACCT
Statistics
Matches: 208, Mismatches: 22, Indels: 30
0.80 0.08 0.12
Matches are distributed among these distances:
55 3 0.01
56 13 0.06
57 74 0.36
58 32 0.15
59 80 0.38
60 6 0.03
ACGTcount: A:0.37, C:0.03, G:0.25, T:0.35
Consensus pattern (58 bp):
AATTTTGGAAAGTTTGAGGGTAAAAATGTAATTTTTGGAAATTTAGGATTAAAAATGG
Found at i:26618461 original size:57 final size:57
Alignment explanation
Indices: 26618263--26618565 Score: 357
Period size: 57 Copynumber: 5.2 Consensus size: 57
26618253 TAAAATAGTA
*
26618263 AATTTTGGAAAGTTTG-GGGTAAAAATGTAATTTTTGG-AAACTT-TAGGATTAAAAATGG
1 AATTTTGGAAAGTTTGAGGGTAAAAATGTAATTTTTGGTAAA-TTCGA-G-TT-AAAATGG
* *
26618321 AATTTTGGAAAGTTTGAGGGTAAAAATGTAATTTTTGGTAAATTCGGGGTCAAAAATGG
1 AATTTTGGAAAGTTTGAGGGTAAAAATGTAATTTTTGGTAAATTC-GAGT-TAAAATGG
*
26618380 AATTTTGGAGAGTTTGAGGGTAAAAATGTAATTTTCT-GTAAATTCGAGTTAAAATGG
1 AATTTTGGAAAGTTTGAGGGTAAAAATGTAATTTT-TGGTAAATTCGAGTTAAAATGG
* * * * *
26618437 AATTTTGGAAAGTTCGGGGGTAAAAATGTAATTTTTAGTGAATTTGAGGTTAAAAATGG
1 AATTTTGGAAAGTTTGAGGGTAAAAATGTAATTTTTGGTAAATTCGA-GTT-AAAATGG
* * * *
26618496 AA--TTGGAAAGTTTGAGAGTAAAAATGTAATTTTTGGTAAATTCGGGGTCAAAATAG
1 AATTTTGGAAAGTTTGAGGGTAAAAATGTAATTTTTGGTAAATTC-GAGTTAAAATGG
26618552 AATTTTGGAAAGTT
1 AATTTTGGAAAGTT
26618566 CGGGGAACCT
Statistics
Matches: 213, Mismatches: 20, Indels: 24
0.83 0.08 0.09
Matches are distributed among these distances:
56 9 0.04
57 84 0.39
58 33 0.15
59 82 0.38
60 5 0.02
ACGTcount: A:0.37, C:0.03, G:0.25, T:0.35
Consensus pattern (57 bp):
AATTTTGGAAAGTTTGAGGGTAAAAATGTAATTTTTGGTAAATTCGAGTTAAAATGG
Found at i:26620395 original size:23 final size:22
Alignment explanation
Indices: 26620369--26620443 Score: 71
Period size: 23 Copynumber: 3.3 Consensus size: 22
26620359 TTAGAATAAT
26620369 TTTAAATTTGAACTTAAATTAAA
1 TTTAAATTT-AACTTAAATTAAA
**
26620392 TTTAAATTTTAAAATAAATTTAAA
1 TTTAAA-TTTAACTTAAA-TTAAA
* *
26620416 -ATAAATTTAATCTTAAAATAAA
1 TTTAAATTTAA-CTTAAATTAAA
26620438 TTTAAA
1 TTTAAA
26620444 ATGGGTTTAG
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
22 9 0.22
23 24 0.59
24 8 0.20
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (22 bp):
TTTAAATTTAACTTAAATTAAA
Found at i:26620398 original size:11 final size:11
Alignment explanation
Indices: 26620370--26620425 Score: 51
Period size: 11 Copynumber: 4.9 Consensus size: 11
26620360 TAGAATAATT
*
26620370 TTAAATTTGAAC
1 TTAAATTT-AAA
26620382 TTAAA-TTAAA
1 TTAAATTTAAA
26620392 TTTAAATTTTAAA
1 -TTAAA-TTTAAA
*
26620405 ATAAATTTAAA
1 TTAAATTTAAA
*
26620416 ATAAATTTAA
1 TTAAATTTAA
26620426 TCTTAAAATA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
10 2 0.05
11 23 0.59
12 9 0.23
13 5 0.13
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (11 bp):
TTAAATTTAAA
Found at i:26620404 original size:7 final size:6
Alignment explanation
Indices: 26620351--26620443 Score: 56
Period size: 6 Copynumber: 16.2 Consensus size: 6
26620341 GACTTGCATC
* * *
26620351 ATTTAA ATTTAGA A--TAA TTTTAA ATTTGA ACTTAA A-TTAA ATTTAA
1 ATTTAA ATTTA-A ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA
* * *
26620397 ATTTTAA A-ATAA ATTTAA A-ATAA ATTT-A ATCTTAA A-ATAA ATTTAA
1 A-TTTAA ATTTAA ATTTAA ATTTAA ATTTAA AT-TTAA ATTTAA ATTTAA
26620443 A
1 A
26620444 ATGGGTTTAG
Statistics
Matches: 66, Mismatches: 11, Indels: 20
0.68 0.11 0.21
Matches are distributed among these distances:
4 1 0.02
5 22 0.33
6 33 0.50
7 10 0.15
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (6 bp):
ATTTAA
Found at i:26620440 original size:28 final size:29
Alignment explanation
Indices: 26620382--26620445 Score: 103
Period size: 28 Copynumber: 2.2 Consensus size: 29
26620372 AAATTTGAAC
* *
26620382 TTAAATTAAATTTAAATTTTAAAATAAAT
1 TTAAAATAAATTTAAATCTTAAAATAAAT
26620411 TTAAAATAAATTT-AATCTTAAAATAAAT
1 TTAAAATAAATTTAAATCTTAAAATAAAT
26620439 TTAAAAT
1 TTAAAAT
26620446 GGGTTTAGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
28 21 0.64
29 12 0.36
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (29 bp):
TTAAAATAAATTTAAATCTTAAAATAAAT
Found at i:26620445 original size:11 final size:11
Alignment explanation
Indices: 26620394--26620425 Score: 55
Period size: 11 Copynumber: 2.8 Consensus size: 11
26620384 AAATTAAATT
26620394 TAAATTTTAAAA
1 TAAA-TTTAAAA
26620406 TAAATTTAAAA
1 TAAATTTAAAA
26620417 TAAATTTAA
1 TAAATTTAA
26620426 TCTTAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 16 0.80
12 4 0.20
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:26626428 original size:7 final size:7
Alignment explanation
Indices: 26626412--26626446 Score: 52
Period size: 7 Copynumber: 4.7 Consensus size: 7
26626402 TACAACTCAA
26626412 TTTTATTT
1 TTTTA-TT
26626420 TTTTATT
1 TTTTATT
26626427 TTTTATT
1 TTTTATT
26626434 TTTTATGT
1 TTTTAT-T
26626442 TTTTA
1 TTTTA
26626447 AACAACTCAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 15 0.58
8 11 0.42
ACGTcount: A:0.14, C:0.00, G:0.03, T:0.83
Consensus pattern (7 bp):
TTTTATT
Found at i:26626432 original size:15 final size:15
Alignment explanation
Indices: 26626412--26626446 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
26626402 TACAACTCAA
26626412 TTTTATTTTTTTAT-T
1 TTTTA-TTTTTTATGT
26626427 TTTTATTTTTTATGT
1 TTTTATTTTTTATGT
26626442 TTTTA
1 TTTTA
26626447 AACAACTCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.42
15 11 0.58
ACGTcount: A:0.14, C:0.00, G:0.03, T:0.83
Consensus pattern (15 bp):
TTTTATTTTTTATGT
Found at i:26628130 original size:28 final size:27
Alignment explanation
Indices: 26628099--26628240 Score: 115
Period size: 28 Copynumber: 5.1 Consensus size: 27
26628089 TTGCCAAACC
26628099 CAGAGTAATGCTCTTTCGAGCCAGAATA
1 CAGA-TAATGCTCTTTCGAGCCAGAATA
* * *
26628127 CAGAAAATCACTCTTTCGAGCCAGATTA
1 CAGATAAT-GCTCTTTCGAGCCAGAATA
* *
26628155 CAGCAT-ATCGCTCTTTCGAGCTAGATTA
1 CAG-ATAAT-GCTCTTTCGAGCCAGAATA
* * *
26628183 CAGAATAATGCTCATACGAGCTAGAATA
1 CAG-ATAATGCTCTTTCGAGCCAGAATA
* * * *
26628211 CACAGTTATGCTCTTACGAGCCCGAATA
1 CAGA-TAATGCTCTTTCGAGCCAGAATA
26628239 CA
1 CA
26628241 AAATATTTGT
Statistics
Matches: 95, Mismatches: 15, Indels: 8
0.81 0.13 0.07
Matches are distributed among these distances:
27 4 0.04
28 88 0.93
29 3 0.03
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (27 bp):
CAGATAATGCTCTTTCGAGCCAGAATA
Found at i:26628224 original size:56 final size:55
Alignment explanation
Indices: 26628106--26628240 Score: 139
Period size: 56 Copynumber: 2.4 Consensus size: 55
26628096 ACCCAGAGTA
* * *
26628106 ATGCTCTTTCGAGCCAGAATACAGAAAATCACTCTTTCGAGCCAGATTACAGCAT
1 ATGCTCTTTCGAGCCAGAATACAGAAAATCACTCATACGAGCCAGAATACAGCAT
* * * *
26628161 ATCGCTCTTTCGAGCTAGATTACAGAATAAT-GCTCATACGAGCTAGAATACA-CAGTT
1 AT-GCTCTTTCGAGCCAGAATACAGAA-AATCACTCATACGAGCCAGAATACAGCA--T
* *
26628218 ATGCTCTTACGAGCCCGAATACA
1 ATGCTCTTTCGAGCCAGAATACA
26628241 AAATATTTGT
Statistics
Matches: 65, Mismatches: 11, Indels: 7
0.78 0.13 0.08
Matches are distributed among these distances:
55 4 0.06
56 55 0.85
57 6 0.09
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (55 bp):
ATGCTCTTTCGAGCCAGAATACAGAAAATCACTCATACGAGCCAGAATACAGCAT
Found at i:26635342 original size:28 final size:28
Alignment explanation
Indices: 26635311--26635377 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 28
26635301 TTCGAATGTC
* *
26635311 GCTCTTTCGAGCCAAATTACAAAATAAT
1 GCTCTTACGAGCCAAAATACAAAATAAT
* * * *
26635339 GCTCATACAAGCCAAAATACAAAGTTAT
1 GCTCTTACGAGCCAAAATACAAAATAAT
26635367 GCTCTTACGAG
1 GCTCTTACGAG
26635378 TCCGAATATA
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.39, C:0.22, G:0.13, T:0.25
Consensus pattern (28 bp):
GCTCTTACGAGCCAAAATACAAAATAAT
Found at i:26643837 original size:26 final size:27
Alignment explanation
Indices: 26643808--26643859 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
26643798 TTGAAAATCA
26643808 AAAAGAAAAGAAGAATGAGT-AGAAAC
1 AAAAGAAAAGAAGAATGAGTAAGAAAC
* **
26643834 AAAAGAAGAGAATCATGAGTAAGAAA
1 AAAAGAAAAGAAGAATGAGTAAGAAA
26643860 ACATATGAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 17 0.77
27 5 0.23
ACGTcount: A:0.63, C:0.04, G:0.23, T:0.10
Consensus pattern (27 bp):
AAAAGAAAAGAAGAATGAGTAAGAAAC
Found at i:26659438 original size:18 final size:18
Alignment explanation
Indices: 26659415--26659451 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
26659405 TTTGTGATCA
26659415 AAATTGAAAGTGAAAGTG
1 AAATTGAAAGTGAAAGTG
* *
26659433 AAATTGGAATTGAAAGTG
1 AAATTGAAAGTGAAAGTG
26659451 A
1 A
26659452 TATGAATTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.49, C:0.00, G:0.27, T:0.24
Consensus pattern (18 bp):
AAATTGAAAGTGAAAGTG
Found at i:26663614 original size:33 final size:33
Alignment explanation
Indices: 26663572--26663653 Score: 155
Period size: 33 Copynumber: 2.5 Consensus size: 33
26663562 TGTTTGTATG
*
26663572 AAATTGAAGAAAAAGGGAGGAAGAAGAATGACC
1 AAATTGAAGAAAAAGGGAGGAAGAAGAAGGACC
26663605 AAATTGAAGAAAAAGGGAGGAAGAAGAAGGACC
1 AAATTGAAGAAAAAGGGAGGAAGAAGAAGGACC
26663638 AAATTGAAGAAAAAGG
1 AAATTGAAGAAAAAGG
26663654 AAAGGAGAAA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 48 1.00
ACGTcount: A:0.56, C:0.05, G:0.30, T:0.09
Consensus pattern (33 bp):
AAATTGAAGAAAAAGGGAGGAAGAAGAAGGACC
Found at i:26676714 original size:16 final size:17
Alignment explanation
Indices: 26676693--26676731 Score: 62
Period size: 18 Copynumber: 2.3 Consensus size: 17
26676683 TAAGTTTTAA
26676693 TGCATTTTA-TTATCAC
1 TGCATTTTATTTATCAC
26676709 TGCATTTTATTTTATCAC
1 TGCATTTTA-TTTATCAC
26676727 TGCAT
1 TGCAT
26676732 CATTTTGTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 9 0.43
18 12 0.57
ACGTcount: A:0.23, C:0.18, G:0.08, T:0.51
Consensus pattern (17 bp):
TGCATTTTATTTATCAC
Found at i:26680568 original size:19 final size:19
Alignment explanation
Indices: 26680540--26680578 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
26680530 TTTATAGTTT
26680540 TAAATGATTTTTGGGTAAAA
1 TAAATGA-TTTTGGGTAAAA
*
26680560 TAAAT-ATTTTGGGTCAAA
1 TAAATGATTTTGGGTAAAA
26680578 T
1 T
26680579 TAGAATTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 12 0.67
19 1 0.06
20 5 0.28
ACGTcount: A:0.38, C:0.03, G:0.18, T:0.41
Consensus pattern (19 bp):
TAAATGATTTTGGGTAAAA
Found at i:26687729 original size:19 final size:20
Alignment explanation
Indices: 26687690--26687729 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
26687680 ACAGTAATGG
26687690 CGATGTGCGACGATAACAACGA
1 CGATGTGCGACG--AACAACGA
26687712 CGATGTGCGACG-ACAACG
1 CGATGTGCGACGAACAACG
26687730 TTGGTGCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
22 12 0.67
ACGTcount: A:0.33, C:0.25, G:0.30, T:0.12
Consensus pattern (20 bp):
CGATGTGCGACGAACAACGA
Found at i:26687951 original size:21 final size:21
Alignment explanation
Indices: 26687912--26687955 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
26687902 TTTTATATAG
26687912 GGAAAAATTAAGGCAACATGTA
1 GGAAAAATTAAGGCAACAT-TA
* *
26687934 GGAAAAATTTA-GCTACATTA
1 GGAAAAATTAAGGCAACATTA
26687954 GG
1 GG
26687956 GTTACTTGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 4 0.20
21 6 0.30
22 10 0.50
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (21 bp):
GGAAAAATTAAGGCAACATTA
Found at i:26695417 original size:23 final size:22
Alignment explanation
Indices: 26695386--26695429 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
26695376 AAAAAAATAA
*
26695386 AATTAACCCAATTTAATTAATT
1 AATTAACCCAAATTAATTAATT
*
26695408 AATTCAACCCAAATTATTTAAT
1 AATT-AACCCAAATTAATTAAT
26695430 GAAATATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.39
Consensus pattern (22 bp):
AATTAACCCAAATTAATTAATT
Found at i:26701046 original size:19 final size:20
Alignment explanation
Indices: 26701022--26701066 Score: 60
Period size: 18 Copynumber: 2.4 Consensus size: 20
26701012 CTAAATATTC
*
26701022 TTATTTTTATTAT-ATTTGT
1 TTATTTTTACTATAATTTGT
26701041 TTA--TTTACTATAATTTGT
1 TTATTTTTACTATAATTTGT
26701059 TTATTTTT
1 TTATTTTT
26701067 GCTCTTTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
17 7 0.32
18 9 0.41
19 3 0.14
20 3 0.14
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.71
Consensus pattern (20 bp):
TTATTTTTACTATAATTTGT
Found at i:26701155 original size:17 final size:18
Alignment explanation
Indices: 26701133--26701176 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
26701123 TTAATACGTG
26701133 CTATTATATATT-TATTT
1 CTATTATATATTATATTT
26701150 CTATTACT-TATTATATTT
1 CTATTA-TATATTATATTT
26701168 CT-TTATATA
1 CTATTATATA
26701177 ACTATATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
16 1 0.04
17 15 0.62
18 8 0.33
ACGTcount: A:0.30, C:0.09, G:0.00, T:0.61
Consensus pattern (18 bp):
CTATTATATATTATATTT
Found at i:26701186 original size:22 final size:21
Alignment explanation
Indices: 26701136--26701187 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
26701126 ATACGTGCTA
* *
26701136 TTATATATTTATTTCTATTAC
1 TTATATATTTATTTATATAAC
*
26701157 TTATTATATTTCTTTATATAAC
1 TTA-TATATTTATTTATATAAC
26701179 TATATATAT
1 T-TATATAT
26701188 ATACCCATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 3 0.12
22 21 0.81
23 2 0.08
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.60
Consensus pattern (21 bp):
TTATATATTTATTTATATAAC
Found at i:26706485 original size:16 final size:17
Alignment explanation
Indices: 26706464--26706496 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
26706454 TATGACAACT
26706464 AATC-AAATAAAATAAA
1 AATCAAAATAAAATAAA
*
26706480 AATCAAAATAAATTAAA
1 AATCAAAATAAAATAAA
26706497 TGTGGATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.73, C:0.06, G:0.00, T:0.21
Consensus pattern (17 bp):
AATCAAAATAAAATAAA
Found at i:26714131 original size:84 final size:84
Alignment explanation
Indices: 26713975--26714132 Score: 183
Period size: 84 Copynumber: 1.9 Consensus size: 84
26713965 GCTAGACGTT
* * * *
26713975 CATGAGAATCAACGTTAGAACAGTTCGGCTCTTCCCTCTCGCCGTCATATCCCCTATTACTCTAT
1 CATGAGAATCAACATTAAAACAGTTCGGCTCTTCCCTCTCGCCATCATATCCCCTATTACTCTAC
*
26714040 CATTTCACCGTCGGTCGTA
66 CACTTCACCGTCGGTCGTA
* * * * * * * *
26714059 CATGAGAAT-AGACATTAAAACCGTTCGGTTCTTCCCTCTCGCTATCCTCTCCTCTATTACTTTG
1 CATGAGAATCA-ACATTAAAACAGTTCGGCTCTTCCCTCTCGCCATCATATCCCCTATTACTCTA
26714123 CCACTTCACC
65 CCACTTCACC
26714133 AACGTTCTTG
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
83 1 0.02
84 59 0.98
ACGTcount: A:0.22, C:0.33, G:0.13, T:0.32
Consensus pattern (84 bp):
CATGAGAATCAACATTAAAACAGTTCGGCTCTTCCCTCTCGCCATCATATCCCCTATTACTCTAC
CACTTCACCGTCGGTCGTA
Found at i:26715908 original size:15 final size:16
Alignment explanation
Indices: 26715872--26715910 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
26715862 TAAACAGGGA
*
26715872 TTTCTAATAATTCTAT
1 TTTCTTATAATTCTAT
*
26715888 TATCTTATAATT-TAT
1 TTTCTTATAATTCTAT
26715903 TTTCTTAT
1 TTTCTTAT
26715911 TTTTAAATTC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.28, C:0.10, G:0.00, T:0.62
Consensus pattern (16 bp):
TTTCTTATAATTCTAT
Found at i:26726032 original size:390 final size:390
Alignment explanation
Indices: 26724972--26726148 Score: 1748
Period size: 392 Copynumber: 3.0 Consensus size: 390
26724962 GTAACATACT
* * *
26724972 TATCAATTTTGGTTTTTAAGCATTCTGACCCCTTGGTTGCTACATAGAAGAGGGTATGTCACATC
1 TATCGATTTTGGTTTTTAAGCATTCTGACCCCTTGGTTGCTACATAGAAGAGGGTATGTCGCGTC
* ** *
26725037 ATAGCATGCCTGGGTGTCTTTAAAGCAGTCTGGTTGCTTTGTCGCGACGTGTCCTATCTGTGTCG
66 ATAGCATGCCTAGGTGTCTTTGGAGCAGTCTGGTTGCTTTGTCGCGACGTGGCCTATCTGTGTCG
* * * *
26725102 CGACAAACATATCAGATTTAAAAGAAATACCTTAAATGGATGAGATGTGATTGCATTAGTATATT
131 CGACAAACATATCAGATTTAAAAGAAATACCTGAAACGGATGAGATGTGATTACATTAGTATGTT
*
26725167 AGTGACTAAAATATAAAATTAAGGGTTAGTTCTTGTTAGAATGGTTTGACAAGAGTGTTAGGGTG
196 AGTGACTAAAATATAAAATTAAGGGTTAGTTCTTGTAAGAATGGTTTGACAAGAGTGTTAGGGTG
* * * * *
26725232 CACTGTAGTCGATCTACTTTATTGTTATTTGTCCAGTAGCCATTGTGCCAAGCTATTTTCTGGAG
261 CACTGCAGTC-ATCTATTTTATTGTTGTTTGTCCAGCAGCCGTTGTGCCAAGCTATTTTCTGGAG
* * **
26725297 TTTCTCTCTTTCTCGAAGTTTTCCTTTTCTTTCAACGTAGATTACCGCCAGTTCCTTTCTCCGAT
325 TTTATCTCTTTCTCGAAGTTTTCCTTTTCTTCCTGCGTAGATTACCGCCAGTTCCTTT-TCCGAT
*
26725362 TA
389 CA
* * * *
26725364 TATCGATTTTGGTTTGTAAGCATTCTAACCCCTTAGTTGCTACATAAAAGAGGGTATGTCGCGTC
1 TATCGATTTTGGTTTTTAAGCATTCTGACCCCTTGGTTGCTACATAGAAGAGGGTATGTCGCGTC
* * * * * *
26725429 ACAGCATGCCTAGGTGTCTTTGGGGTAGTCTAGTTACTATGTCGCGACGTGGCCTATCTGTGTCG
66 ATAGCATGCCTAGGTGTCTTTGGAGCAGTCTGGTTGCTTTGTCGCGACGTGGCCTATCTGTGTCG
*
26725494 CGACAAACATATCAGATTTAAAAGAAATACCTGAAACGGATGAGATGTAATTACATTAGTATGTT
131 CGACAAACATATCAGATTTAAAAGAAATACCTGAAACGGATGAGATGTGATTACATTAGTATGTT
*
26725559 AGTGACTTAAATATAAAATTAAGGGTTAGTTCTTGTCAA-AATGGTTTGACAAGAGTGTTAGGGT
196 AGTGACTAAAATATAAAATTAAGGGTTAGTTCTTGT-AAGAATGGTTTGACAAGAGTGTTAGGGT
* * * * *
26725623 ACACTACAGTCGGTCTATTTTATTGTTGTTTGTCTAGCAGCCGTTGTGCCAAGCTATTTTCTAGA
260 GCACTGCAGTC-ATCTATTTTATTGTTGTTTGTCCAGCAGCCGTTGTGCCAAGCTATTTTCTGGA
*
26725688 GTTTATCTCTTTCTCGAAGTTTTCCTTTTCTTCCTGCGTAGATTACCGCCAGTTCCTTTTGCGAT
324 GTTTATCTCTTTCTCGAAGTTTTCCTTTTCTTCCTGCGTAGATTACCGCCAGTTCCTTTTCCGAT
26725753 CA
389 CA
*
26725755 TATCGATTTTGGTTTTTAAGCATTTTGACCCCTTGGTTGCTACATAGAAGAGGGTATGTCGCGTC
1 TATCGATTTTGGTTTTTAAGCATTCTGACCCCTTGGTTGCTACATAGAAGAGGGTATGTCGCGTC
* * * *
26725820 ATAACATG-CTTGG-GTCTTTGGAGCAGTTTGGTTGCTTTGTCGTGACGTGGCCTATCTGTGTCG
66 ATAGCATGCCTAGGTGTCTTTGGAGCAGTCTGGTTGCTTTGTCGCGACGTGGCCTATCTGTGTCG
* * * *
26725883 TGACAAACCTATCAGATTTAAAAGAAATGCCCTGAAGCGGATGAGATGTGATTACATTAGTATGT
131 CGACAAACATATCAGATTTAAAAGAAAT-ACCTGAAACGGATGAGATGTGATTACATTAGTATGT
* * *
26725948 TAGTGAGTAAAATATAAAATTAAGGGTTAGTTCTTGTAAGAATTGTCTGACAAGAGTGTTAGGGT
195 TAGTGACTAAAATATAAAATTAAGGGTTAGTTCTTGTAAGAATGGTTTGACAAGAGTGTTAGGGT
* * *
26726013 GCAATGCAGTCATTCTATTTTATCGTTGTTTGTCCAGCAGTCGTTGTGCCAAGCTATTTTCTGGA
260 GCACTGCAGTCA-TCTATTTTATTGTTGTTTGTCCAGCAGCCGTTGTGCCAAGCTATTTTCTGGA
* * * *
26726078 GTTTATCTCTTTCTCAAAATTTTCCTTTTCTTCCTGTGTAGATTACCGCCAGTTCCTTTACCGAT
324 GTTTATCTCTTTCTCGAAGTTTTCCTTTTCTTCCTGCGTAGATTACCGCCAGTTCCTTTTCCGAT
26726143 CA
389 CA
26726145 TATC
1 TATC
26726149 CATTGATAAC
Statistics
Matches: 704, Mismatches: 77, Indels: 10
0.89 0.10 0.01
Matches are distributed among these distances:
389 71 0.10
390 217 0.31
391 72 0.10
392 343 0.49
393 1 0.00
ACGTcount: A:0.24, C:0.17, G:0.21, T:0.37
Consensus pattern (390 bp):
TATCGATTTTGGTTTTTAAGCATTCTGACCCCTTGGTTGCTACATAGAAGAGGGTATGTCGCGTC
ATAGCATGCCTAGGTGTCTTTGGAGCAGTCTGGTTGCTTTGTCGCGACGTGGCCTATCTGTGTCG
CGACAAACATATCAGATTTAAAAGAAATACCTGAAACGGATGAGATGTGATTACATTAGTATGTT
AGTGACTAAAATATAAAATTAAGGGTTAGTTCTTGTAAGAATGGTTTGACAAGAGTGTTAGGGTG
CACTGCAGTCATCTATTTTATTGTTGTTTGTCCAGCAGCCGTTGTGCCAAGCTATTTTCTGGAGT
TTATCTCTTTCTCGAAGTTTTCCTTTTCTTCCTGCGTAGATTACCGCCAGTTCCTTTTCCGATCA
Found at i:26726940 original size:252 final size:252
Alignment explanation
Indices: 26726495--26726998 Score: 990
Period size: 252 Copynumber: 2.0 Consensus size: 252
26726485 TCTGTAAAAA
26726495 ATTGAAAGATTTTCACTTTAGAAATTTCTCTAAGGATTTTCTGCACCATGAAAGTATTATACATA
1 ATTGAAAGATTTTCACTTTAGAAATTTCTCTAAGGATTTTCTGCACCATGAAAGTATTATACATA
26726560 GTAGCTAATCTCAATTGGAAATTGAATCTTTGATCAATGATATCTTCAACTAATATTTATTTTAC
66 GTAGCTAATCTCAATTGGAAATTGAATCTTTGATCAATGATATCTTCAACTAATATTTATTTTAC
26726625 TGATGGTTTTGCAACAGTTATTAGTTGAAGATCTAGATTTGGAATATTGGAATTGTCTTCTTCCT
131 TGATGGTTTTGCAACAGTTATTAGTTGAAGATCTAGATTTGGAATATTGGAATTGTCTTCTTCCT
26726690 CTATAGGGTTTGATTCATCACTGGATTGGGGCTCAATCTCGATTTTTACATGACTAT
196 CTATAGGGTTTGATTCATCACTGGATTGGGGCTCAATCTCGATTTTTACATGACTAT
26726747 ATTGAAAGATTTTCACTTTAGAAATTTCTCTAAGGATTTTCTGCACCATGAAAGTATTATACATA
1 ATTGAAAGATTTTCACTTTAGAAATTTCTCTAAGGATTTTCTGCACCATGAAAGTATTATACATA
26726812 GTAGCTAATCTCAATTGGAAATTGAATCTTTGATCAATGATATCTTCAACTAATATTTATTTTAC
66 GTAGCTAATCTCAATTGGAAATTGAATCTTTGATCAATGATATCTTCAACTAATATTTATTTTAC
*
26726877 TGATGGTTTTGCAACAGTTTTTAGTTGAAGATCTAGATTTGGAATATTGGAATTGTCTTCTTCCT
131 TGATGGTTTTGCAACAGTTATTAGTTGAAGATCTAGATTTGGAATATTGGAATTGTCTTCTTCCT
*
26726942 CTATGGGGTTTGATTCATCACTGGATTGGGGCTCAATCTCGATTTTTACATGACTAT
196 CTATAGGGTTTGATTCATCACTGGATTGGGGCTCAATCTCGATTTTTACATGACTAT
26726999 CCCATTCCCC
Statistics
Matches: 250, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
252 250 1.00
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.41
Consensus pattern (252 bp):
ATTGAAAGATTTTCACTTTAGAAATTTCTCTAAGGATTTTCTGCACCATGAAAGTATTATACATA
GTAGCTAATCTCAATTGGAAATTGAATCTTTGATCAATGATATCTTCAACTAATATTTATTTTAC
TGATGGTTTTGCAACAGTTATTAGTTGAAGATCTAGATTTGGAATATTGGAATTGTCTTCTTCCT
CTATAGGGTTTGATTCATCACTGGATTGGGGCTCAATCTCGATTTTTACATGACTAT
Found at i:26727752 original size:14 final size:15
Alignment explanation
Indices: 26727728--26727757 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
26727718 AAGTTATTTG
26727728 AAAGTATAAAAATAA
1 AAAGTATAAAAATAA
26727743 AAAG-ATAAAAATAA
1 AAAGTATAAAAATAA
26727757 A
1 A
26727758 TTAAATTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.77, C:0.00, G:0.07, T:0.17
Consensus pattern (15 bp):
AAAGTATAAAAATAA
Found at i:26737443 original size:24 final size:24
Alignment explanation
Indices: 26737410--26737456 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
26737400 GTTAAGAGTA
**
26737410 AAAATTGTCAGTGCAAATGTAATAT
1 AAAATTGTCAAAGCAAAT-TAATAT
26737435 AAAA-TGTCAAAGCAAATTAATA
1 AAAATTGTCAAAGCAAATTAATA
26737457 AAAGATGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 5 0.25
24 11 0.55
25 4 0.20
ACGTcount: A:0.51, C:0.09, G:0.13, T:0.28
Consensus pattern (24 bp):
AAAATTGTCAAAGCAAATTAATAT
Found at i:26740443 original size:28 final size:27
Alignment explanation
Indices: 26740385--26740448 Score: 101
Period size: 27 Copynumber: 2.4 Consensus size: 27
26740375 ATCTAGAGGC
*
26740385 AAAAATAGGGGGTAGCCATAGCGGCTA
1 AAAAATAGAGGGTAGCCATAGCGGCTA
*
26740412 AAAAATAGAGGGTAGCCATAGCGGCTG
1 AAAAATAGAGGGTAGCCATAGCGGCTA
*
26740439 AAAAACAGAG
1 AAAAATAGAG
26740449 CTGAAAGGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.42, C:0.14, G:0.31, T:0.12
Consensus pattern (27 bp):
AAAAATAGAGGGTAGCCATAGCGGCTA
Found at i:26744248 original size:50 final size:50
Alignment explanation
Indices: 26744143--26744251 Score: 125
Period size: 50 Copynumber: 2.2 Consensus size: 50
26744133 AACAAAATCA
* *
26744143 ATTAAATAAATATTTATTTTATATATAACATCAGATTTAAACAAATCACTT
1 ATTAAATAAATATTTATTTTATATAAAACATCAGATTGAAACAAA-CACTT
* * *
26744194 -TTAAATAAATATTTATATTTATTTAAAACATCATATCTGAAAGAAA-A-TT
1 ATTAAATAAATATTTAT-TTTATATAAAACATCAGAT-TGAAACAAACACTT
26744243 ATTAAATAA
1 ATTAAATAA
26744252 GATCTGAAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
49 2 0.04
50 25 0.50
51 16 0.32
52 7 0.14
ACGTcount: A:0.50, C:0.07, G:0.03, T:0.40
Consensus pattern (50 bp):
ATTAAATAAATATTTATTTTATATAAAACATCAGATTGAAACAAACACTT
Found at i:26748958 original size:3 final size:3
Alignment explanation
Indices: 26748927--26748980 Score: 72
Period size: 3 Copynumber: 18.0 Consensus size: 3
26748917 GCTAATGCTA
* * * *
26748927 TAT TGT TAT TGT TAT TGT TAT TGT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
26748975 TAT TAT
1 TAT TAT
26748981 GGGCGAGTTA
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.26, C:0.00, G:0.07, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:26749078 original size:6 final size:6
Alignment explanation
Indices: 26749069--26749094 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
26749059 GCTAATGCTA
26749069 TATTGT TATTGT TATTGT TATTGT TA
1 TATTGT TATTGT TATTGT TATTGT TA
26749095 CTACTACTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.00, G:0.15, T:0.65
Consensus pattern (6 bp):
TATTGT
Found at i:26749092 original size:142 final size:142
Alignment explanation
Indices: 26748836--26749257 Score: 590
Period size: 142 Copynumber: 3.0 Consensus size: 142
26748826 GTAAAGTGTA
* *
26748836 TATGGGCGAGTTAGCTACTGAGGGGGAGTTTTTCTTTTGCAAGCTTGCTACTGTTAGTTCTGTTG
1 TATGGGCGAGTTAGCTACTGAGTGGGAGTTTTTCTTTTGCAAGCTTGCTACTGTTAGTTATGTTG
* * * *
26748901 TTTATTGATAATGTTTGCTAATGCTATATTGTTATTGTTATTGTTATTGTTATTATTATTATTAT
66 TTTATTGATAATGTTTGCTAATGCTATATTGTTATTGTTATTGTTATTGTTATTACTACTACTAC
* * * *
26748966 TATTATTATTAT
131 TACTACTACTAC
26748978 TATGGGCGAGTTAGCTACTGAGTGGGAGTTTTTCTTTTGCAAGCTTGCTACTGTTAGTTATGTTG
1 TATGGGCGAGTTAGCTACTGAGTGGGAGTTTTTCTTTTGCAAGCTTGCTACTGTTAGTTATGTTG
*
26749043 TTTATTGATAATGTTTGCTAATGCTATATTGTTATTGTTATTGTTATTGTTACTACTACTACTAC
66 TTTATTGATAATGTTTGCTAATGCTATATTGTTATTGTTATTGTTATTGTTATTACTACTACTAC
26749108 TACTACTACTAC
131 TACTACTACTAC
* * * * * *
26749120 TACT--ACTA-CTA-CTACT-ACT---ACTACTTTCTTTTGCAAGCTTGCTACTGTTAGTTATGT
1 TA-TGGGCGAGTTAGCTACTGAGTGGGAGT-TTTTCTTTTGCAAGCTTGCTACTGTTAGTTATGT
* **
26749177 TGTTTATTGATAATGGTTGCTAATGCTATATTGTTATTGTTATTGTTATTGTTATTGTTACTACT
64 TGTTTATTGATAATGTTTGCTAATGCTATATTGTTATTGTTATTGTTATTGTTATTACTACTACT
26749242 ACTACTACTACTAC
129 ACTACTACTACTAC
26749256 TA
1 TA
26749258 CTACTACTAC
Statistics
Matches: 257, Mismatches: 21, Indels: 10
0.89 0.07 0.03
Matches are distributed among these distances:
135 2 0.01
136 110 0.43
138 2 0.01
139 5 0.02
140 2 0.01
141 2 0.01
142 133 0.52
143 1 0.00
ACGTcount: A:0.22, C:0.12, G:0.17, T:0.48
Consensus pattern (142 bp):
TATGGGCGAGTTAGCTACTGAGTGGGAGTTTTTCTTTTGCAAGCTTGCTACTGTTAGTTATGTTG
TTTATTGATAATGTTTGCTAATGCTATATTGTTATTGTTATTGTTATTGTTATTACTACTACTAC
TACTACTACTAC
Found at i:26749101 original size:3 final size:3
Alignment explanation
Indices: 26749093--26749144 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
26749083 TTGTTATTGT
26749093 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC
26749141 TAC T
1 TAC T
26749145 TTCTTTTGCA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.35
Consensus pattern (3 bp):
TAC
Found at i:26749168 original size:136 final size:136
Alignment explanation
Indices: 26748866--26749280 Score: 582
Period size: 136 Copynumber: 3.0 Consensus size: 136
26748856 AGGGGGAGTT
*
26748866 TTTCTTTTGCAAGCTTGCTACTGTTAGTTCTGTTGTTTATTGATAATGTTTGCTAATGCTATATT
1 TTTCTTTTGCAAGCTTGCTACTGTTAGTTATGTTGTTTATTGATAATGTTTGCTAATGCTATATT
* * * * * * * * * *
26748931 GTTATTGTTATTGTTATTGTTATTATTATTATTATTATTATTATTATTA-TGGGCGAGTTAGCTA
66 GTTATTGTTATTGTTATTGTTATTATTACTACTACTACTACTACTACTACT--ACTA-CTA-CTA
* * *
26748995 CTGAGTGGGAGT-T
127 CT-ACT---ACTAC
26749008 TTTCTTTTGCAAGCTTGCTACTGTTAGTTATGTTGTTTATTGATAATGTTTGCTAATGCTATATT
1 TTTCTTTTGCAAGCTTGCTACTGTTAGTTATGTTGTTTATTGATAATGTTTGCTAATGCTATATT
* *
26749073 GTTATTGTTATTGTTATTGTTACTACTACTACTACTACTACTACTACTACTACTACTACTACTAC
66 GTTATTGTTATTGTTATTGTTATTATTACTACTACTACTACTACTACTACTACTACTACTACTAC
26749138 TACTAC
131 TACTAC
*
26749144 TTTCTTTTGCAAGCTTGCTACTGTTAGTTATGTTGTTTATTGATAATGGTTGCTAATGCTATATT
1 TTTCTTTTGCAAGCTTGCTACTGTTAGTTATGTTGTTTATTGATAATGTTTGCTAATGCTATATT
*
26749209 GTTATTGTTATTGTTATTGTTATTGTTACTACTACTACTACTACTACTACTACTACTACTACTAC
66 GTTATTGTTATTGTTATTGTTATTATTACTACTACTACTACTACTACTACTACTACTACTACTAC
26749274 TACTAC
131 TACTAC
26749280 T
1 T
26749281 ACTACTACTA
Statistics
Matches: 251, Mismatches: 20, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
135 2 0.01
136 133 0.53
138 2 0.01
139 5 0.02
140 2 0.01
141 2 0.01
142 104 0.41
143 1 0.00
ACGTcount: A:0.23, C:0.14, G:0.14, T:0.49
Consensus pattern (136 bp):
TTTCTTTTGCAAGCTTGCTACTGTTAGTTATGTTGTTTATTGATAATGTTTGCTAATGCTATATT
GTTATTGTTATTGTTATTGTTATTATTACTACTACTACTACTACTACTACTACTACTACTACTAC
TACTAC
Found at i:26749214 original size:6 final size:6
Alignment explanation
Indices: 26749205--26749236 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
26749195 GCTAATGCTA
26749205 TATTGT TATTGT TATTGT TATTGT TATTGT TA
1 TATTGT TATTGT TATTGT TATTGT TATTGT TA
26749237 CTACTACTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.19, C:0.00, G:0.16, T:0.66
Consensus pattern (6 bp):
TATTGT
Found at i:26749243 original size:3 final size:3
Alignment explanation
Indices: 26749235--26749326 Score: 175
Period size: 3 Copynumber: 30.7 Consensus size: 3
26749225 TTGTTATTGT
26749235 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC
*
26749283 TAC TAC TAC TAC TAC AAC TAC TAC TAC TAC TAC TAC TAC TAC TA
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TA
26749327 AAGTGCTTTG
Statistics
Matches: 87, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
3 87 1.00
ACGTcount: A:0.35, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
TAC
Found at i:26753052 original size:24 final size:24
Alignment explanation
Indices: 26753024--26753075 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
26753014 GACTAATAAG
*
26753024 AGTTTGACTGAAACAAATAAACAA
1 AGTTTAACTGAAACAAATAAACAA
*
26753048 AGTTTAATTGAAACAAATAAACAA
1 AGTTTAACTGAAACAAATAAACAA
26753072 AGTT
1 AGTT
26753076 CAATTGGAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.54, C:0.10, G:0.12, T:0.25
Consensus pattern (24 bp):
AGTTTAACTGAAACAAATAAACAA
Found at i:26753080 original size:24 final size:24
Alignment explanation
Indices: 26753032--26753081 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
26753022 AGAGTTTGAC
*
26753032 TGAAACAAATAAACAAAGTTTAAT
1 TGAAACAAATAAACAAAGTTCAAT
26753056 TGAAACAAATAAACAAAGTTCAAT
1 TGAAACAAATAAACAAAGTTCAAT
26753080 TG
1 TG
26753082 GAAGATTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.10, T:0.24
Consensus pattern (24 bp):
TGAAACAAATAAACAAAGTTCAAT
Found at i:26759159 original size:52 final size:53
Alignment explanation
Indices: 26759085--26759198 Score: 167
Period size: 52 Copynumber: 2.2 Consensus size: 53
26759075 CACTCTAGAA
* *
26759085 AATGGAAGCCTTTGTGGCAATCTATAAAATGGAAGCC-TGTGGAAATCTATGG
1 AATGGAAGCCTTTATGGCAATCTATAAAATGGAAGCCTTGTAGAAATCTATGG
* *
26759137 AATGGAAGCCTTTATGGCAATCTATGAAATGGAAGCCTTTGTAGCAATCTATGG
1 AATGGAAGCCTTTATGGCAATCTATAAAATGGAAGCC-TTGTAGAAATCTATGG
*
26759191 AATAGAAG
1 AATGGAAG
26759199 TCTTAGTGGA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
52 35 0.64
54 20 0.36
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.27
Consensus pattern (53 bp):
AATGGAAGCCTTTATGGCAATCTATAAAATGGAAGCCTTGTAGAAATCTATGG
Found at i:26759189 original size:27 final size:27
Alignment explanation
Indices: 26759084--26759207 Score: 153
Period size: 27 Copynumber: 4.7 Consensus size: 27
26759074 ACACTCTAGA
*
26759084 AAATGGAAGCCTTTGTGGCAATCTATA
1 AAATGGAAGCCTTTGTGGCAATCTATG
*
26759111 AAATGGAAGCC--TGTGGAAATCTATG
1 AAATGGAAGCCTTTGTGGCAATCTATG
* *
26759136 GAATGGAAGCCTTTATGGCAATCTATG
1 AAATGGAAGCCTTTGTGGCAATCTATG
*
26759163 AAATGGAAGCCTTTGTAGCAATCTATG
1 AAATGGAAGCCTTTGTGGCAATCTATG
* * * *
26759190 GAATAGAAGTCTTAGTGG
1 AAATGGAAGCCTTTGTGG
26759208 AGAACTATGC
Statistics
Matches: 82, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
25 22 0.27
27 60 0.73
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (27 bp):
AAATGGAAGCCTTTGTGGCAATCTATG
Found at i:26759666 original size:158 final size:158
Alignment explanation
Indices: 26759377--26759705 Score: 496
Period size: 158 Copynumber: 2.1 Consensus size: 158
26759367 AATATGTAAA
* *
26759377 GCAAACTTTGAAGGAACGGAAGAATAATAGACTTTGAAGGAAGAACCGTTGTGGCATAACTTGTT
1 GCAAACTTTGAAGGAACGAAAGAATAATAGACTTTGAAGGAAGAACCGTTATGGCATAACTTGTT
* * * *
26759442 ATACCTCCAAAAAGGGTATTTTAATGATTTCCTCCATGGTGACTCATGAAAAGAAATGCCCTTGT
66 ATACCTCCAAAAAGAGTATTTTAATGATTTCCTCCATGGCGACTCATAAAAAGAAATGCCCCTGT
** *
26759507 GGTGTAATATGAAAGGAAATCCTCTATG
131 GGCATAATATGAAAGAAAATCCTCTATG
* * *
26759535 GCAAACTCTGAAGGAACGAAAGAATAATCGACTTTGAAGGAAGAACCGTTATGGCCTAACTTGTT
1 GCAAACTTTGAAGGAACGAAAGAATAATAGACTTTGAAGGAAGAACCGTTATGGCATAACTTGTT
* * ** *
26759600 ATTCCTCTAAAAAGAGTATTTTAATGATTTCCTCTGTGGCGACTCCTAAAAAGAAATGCCCCTGT
66 ATACCTCCAAAAAGAGTATTTTAATGATTTCCTCCATGGCGACTCATAAAAAGAAATGCCCCTGT
26759665 GGCATAATATGAAAGAAAATCCTCTATG
131 GGCATAATATGAAAGAAAATCCTCTATG
*
26759693 GCGAACTTTGAAG
1 GCAAACTTTGAAG
26759706 AAATTGCATT
Statistics
Matches: 152, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
158 152 1.00
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (158 bp):
GCAAACTTTGAAGGAACGAAAGAATAATAGACTTTGAAGGAAGAACCGTTATGGCATAACTTGTT
ATACCTCCAAAAAGAGTATTTTAATGATTTCCTCCATGGCGACTCATAAAAAGAAATGCCCCTGT
GGCATAATATGAAAGAAAATCCTCTATG
Found at i:26762010 original size:18 final size:18
Alignment explanation
Indices: 26761987--26762021 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
26761977 TAGTCCATCA
*
26761987 GCTTTCCCTTCTCCGACG
1 GCTTTCCCTCCTCCGACG
26762005 GCTTTCCCTCCTCCGAC
1 GCTTTCCCTCCTCCGAC
26762022 TTCAAGCTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.06, C:0.49, G:0.14, T:0.31
Consensus pattern (18 bp):
GCTTTCCCTCCTCCGACG
Found at i:26769596 original size:23 final size:22
Alignment explanation
Indices: 26769533--26769590 Score: 80
Period size: 24 Copynumber: 2.5 Consensus size: 22
26769523 ATCCATTTGC
26769533 TTTATTTATTTATAAATAATATT
1 TTTA-TTATTTATAAATAATATT
*
26769556 TTTGATGATTTTATAAATAATATT
1 TTT-ATTA-TTTATAAATAATATT
26769580 TTTATTATTTA
1 TTTATTATTTA
26769591 AGAAATGCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
22 4 0.13
23 8 0.26
24 19 0.61
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.60
Consensus pattern (22 bp):
TTTATTATTTATAAATAATATT
Found at i:26770068 original size:21 final size:22
Alignment explanation
Indices: 26770028--26770069 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
26770018 AAAATTATTA
26770028 AATTTTACTTTAACTAAAATAT
1 AATTTTACTTTAACTAAAATAT
26770050 AATTTTA-TTT-ACTATAAATA
1 AATTTTACTTTAACTA-AAATA
26770070 ATATTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.21
21 8 0.42
22 7 0.37
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (22 bp):
AATTTTACTTTAACTAAAATAT
Found at i:26771443 original size:13 final size:13
Alignment explanation
Indices: 26771425--26771451 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
26771415 ATGACACACA
26771425 ATAGAATCCGTAT
1 ATAGAATCCGTAT
26771438 ATAGAATCCGTAT
1 ATAGAATCCGTAT
26771451 A
1 A
26771452 GAACTACACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATAGAATCCGTAT
Found at i:26771863 original size:31 final size:31
Alignment explanation
Indices: 26771828--26771912 Score: 95
Period size: 31 Copynumber: 2.8 Consensus size: 31
26771818 AACCAATATT
26771828 TTAAAAATAAAAAAATAAAAAAATTAAATTC
1 TTAAAAATAAAAAAATAAAAAAATTAAATTC
* *
26771859 TTAAAAAT--AAAAATATAAAAATGAAATTC
1 TTAAAAATAAAAAAATAAAAAAATTAAATTC
** *
26771888 -TAAATTTATAAAAAATACAAAAATT
1 TTAAAAATA-AAAAAATAAAAAAATT
26771913 TATAACAAAT
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
28 5 0.11
29 19 0.42
31 21 0.47
ACGTcount: A:0.67, C:0.04, G:0.01, T:0.28
Consensus pattern (31 bp):
TTAAAAATAAAAAAATAAAAAAATTAAATTC
Found at i:26779736 original size:13 final size:13
Alignment explanation
Indices: 26779715--26779748 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
26779705 TTGGGTTCTC
*
26779715 TTTGTTTTTTTTT
1 TTTGGTTTTTTTT
26779728 TTTGGTTTTTTTT
1 TTTGGTTTTTTTT
*
26779741 TTGGGTTT
1 TTTGGTTT
26779749 AAAGCATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.00, C:0.00, G:0.18, T:0.82
Consensus pattern (13 bp):
TTTGGTTTTTTTT
Found at i:26781610 original size:31 final size:31
Alignment explanation
Indices: 26781553--26781612 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
26781543 TTTTCTTGCA
*
26781553 AATTCATTGTATTTGCTAAAGGAATAATGCC
1 AATTCATTGTATTTGCTAAAGAAATAATGCC
**
26781584 AATTCATTGTATTTGCTATCGAAATAATG
1 AATTCATTGTATTTGCTAAAGAAATAATG
26781613 GCACGTGTCT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (31 bp):
AATTCATTGTATTTGCTAAAGAAATAATGCC
Found at i:26787541 original size:24 final size:24
Alignment explanation
Indices: 26787501--26787547 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
26787491 GTTCATCTTT
**
26787501 TATTAATTTGCTCTGAC-ATTTTG
1 TATTAATTTGCAATGACAATTTTG
26787524 TATTACATTTGCAATGACAATTTT
1 TATTA-ATTTGCAATGACAATTTT
26787548 TTACTCTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 5 0.25
24 10 0.50
25 5 0.25
ACGTcount: A:0.28, C:0.13, G:0.11, T:0.49
Consensus pattern (24 bp):
TATTAATTTGCAATGACAATTTTG
Found at i:26790396 original size:34 final size:32
Alignment explanation
Indices: 26790350--26790414 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 32
26790340 ATAGATTGCT
* *
26790350 TCCCCTTAATAAAAAACCATTTTGAATTTAAGC
1 TCCCCCTAAT-AAAAACCATTTTCAATTTAAGC
*
26790383 TCCCCCTATATAAAAATCATTTTCAATTTAAG
1 TCCCCCTA-ATAAAAACCATTTTCAATTTAAG
26790415 GCATAAAGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 26 0.93
34 2 0.07
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.35
Consensus pattern (32 bp):
TCCCCCTAATAAAAACCATTTTCAATTTAAGC
Found at i:26792905 original size:21 final size:21
Alignment explanation
Indices: 26792866--26792906 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
26792856 GATACCTGAT
* *
26792866 AAAAGGTATTGATATTTTTTG
1 AAAAGGTATCGATACTTTTTG
*
26792887 AAAAGGTATCGCTACTTTTT
1 AAAAGGTATCGATACTTTTT
26792907 TTCATTGTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.07, G:0.17, T:0.44
Consensus pattern (21 bp):
AAAAGGTATCGATACTTTTTG
Found at i:26798896 original size:19 final size:17
Alignment explanation
Indices: 26798872--26798906 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
26798862 TATTACATGA
26798872 TGAATTGATGAATTGATGT
1 TGAATTGA-GAA-TGATGT
26798891 TGAATTGAGAATGATG
1 TGAATTGAGAATGATG
26798907 GGATGTGAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 3 0.19
19 8 0.50
ACGTcount: A:0.34, C:0.00, G:0.29, T:0.37
Consensus pattern (17 bp):
TGAATTGAGAATGATGT
Found at i:26800506 original size:49 final size:48
Alignment explanation
Indices: 26800449--26800775 Score: 249
Period size: 49 Copynumber: 6.6 Consensus size: 48
26800439 AATCCGAATG
**
26800449 TTCTACCATCTTGGGTGGACTGACAATGATGGCTTTCACTATTTGTGTA
1 TTCTACCATCTTGGGTGG-CTGACAATGATGGCTTTCACTATTTGCATA
** * * * * **
26800498 TTCTACCATCCCGAGTAGCCCCGATAATGATAACTTTCACTATTTGCATA
1 TTCTACCATCTTGGGT-G-GCTGACAATGATGGCTTTCACTATTTGCATA
* * * *
26800548 TTCTACCATCTTGGGTGGCTCAACAATGATGGTTTTCACTATTTACATT
1 TTCTACCATCTTGGGTGGCT-GACAATGATGGCTTTCACTATTTGCATA
** ** * * *
26800597 TTCTACCATCCCGAATGGCTCGACAACGATGGTTTTCACTATTTGTATA
1 TTCTACCATCTTGGGTGGCT-GACAATGATGGCTTTCACTATTTGCATA
* * * **
26800646 TTCTACCATCCTGGGTGGCCTAACAGTGATGATTTTCACTATTTGCATA
1 TTCTACCATCTTGGGTGG-CTGACAATGATGGCTTTCACTATTTGCATA
* * * * * * * *
26800695 CTCTATCATCTTGGGTAGCTCGAAAATAATGGCGTTCACTATTTACACA
1 TTCTACCATCTTGGGTGGCT-GACAATGATGGCTTTCACTATTTGCATA
* * *
26800744 TTTTACCATCTTGGGTTGCCTGAAAATGATGG
1 TTCTACCATCTTGGG-TGGCTGACAATGATGG
26800776 TGGCTTAAGT
Statistics
Matches: 214, Mismatches: 58, Indels: 12
0.75 0.20 0.04
Matches are distributed among these distances:
48 3 0.01
49 168 0.79
50 43 0.20
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.36
Consensus pattern (48 bp):
TTCTACCATCTTGGGTGGCTGACAATGATGGCTTTCACTATTTGCATA
Found at i:26800676 original size:98 final size:98
Alignment explanation
Indices: 26800449--26800704 Score: 289
Period size: 98 Copynumber: 2.6 Consensus size: 98
26800439 AATCCGAATG
* * *** *
26800449 TTCTACCATCTTGGGTGGACTGACAATGATGGCTTTCACTATTTGTGTATTCTACCATCCCGAGT
1 TTCTACCATCTTGGGTGG-CTAACAATGATGGTTTTCACTATTTACATATTCTACCATCCCGAAT
* *
26800514 AGCCCCGATAATGATAACTTTCACTATTTGCATA
65 AGCCCCGACAACGATAACTTTCACTATTTGCATA
*
26800548 TTCTACCATCTTGGGTGGCTCAACAATGATGGTTTTCACTATTTACATTTTCTACCATCCCGAAT
1 TTCTACCATCTTGGGTGGCT-AACAATGATGGTTTTCACTATTTACATATTCTACCATCCCGAAT
* * *** *
26800613 -GGCTCGACAACGATGGTTTTCACTATTTGTATA
65 AGCCCCGACAACGATAACTTTCACTATTTGCATA
* * * * * *
26800646 TTCTACCATCCTGGGTGGCCTAACAGTGATGATTTTCACTATTTGCATACTCTATCATC
1 TTCTACCATCTTGGGTGG-CTAACAATGATGGTTTTCACTATTTACATATTCTACCATC
26800705 TTGGGTAGCT
Statistics
Matches: 133, Mismatches: 22, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
98 76 0.57
99 57 0.43
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.37
Consensus pattern (98 bp):
TTCTACCATCTTGGGTGGCTAACAATGATGGTTTTCACTATTTACATATTCTACCATCCCGAATA
GCCCCGACAACGATAACTTTCACTATTTGCATA
Found at i:26800775 original size:147 final size:148
Alignment explanation
Indices: 26800449--26800776 Score: 358
Period size: 147 Copynumber: 2.2 Consensus size: 148
26800439 AATCCGAATG
* * *
26800449 TTCTACCATCTTGGGTGGACTGACAATGATGGCTTTCACTATTTGTGTATTCTACCATCCCGAGT
1 TTCTACCATCTTGGGTTGACTGACAATGATGGTTTTCACTATTTGTATATTCTACCATCCCGAGT
* * * * *
26800514 AGCCCCGATAATGATAACTTTCACTATTTGCATATTCTACCATCTTGGGTGGCTCAACAATGATG
66 AGCCCCAACAATGATAACTTTCACTATTTGCATACTCTACCATCTTGGGTAGCTCAACAATAATG
** *
26800579 GTTTTCACTATTTACATT
131 GCGTTCACTATTTACAAT
** ** * * * *
26800597 TTCTACCATC-CCGAATGGCTCGACAACGATGGTTTTCACTATTTGTATATTCTACCATCCTGGG
1 TTCTACCATCTTGGGTTGACT-GACAATGATGGTTTTCACTATTTGTATATTCTACCATCCCGAG
* * * * * *
26800661 T-GGCCTAACAGTGATGATTTTCACTATTTGCATACTCTATCATCTTGGGTAGCTCGAA-AATAA
65 TAGCCCCAACAATGATAACTTTCACTATTTGCATACTCTACCATCTTGGGTAGCTC-AACAATAA
26800724 TGGCGTTCACTATTTACACAT
129 TGGCGTTCACTATTTACA-AT
* *
26800745 TT-TACCATCTTGGGTTGCCTGAAAATGATGGT
1 TTCTACCATCTTGGGTTGACTGACAATGATGGT
26800777 GGCTTAAGTT
Statistics
Matches: 144, Mismatches: 32, Indels: 9
0.78 0.17 0.05
Matches are distributed among these distances:
147 85 0.59
148 59 0.41
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.36
Consensus pattern (148 bp):
TTCTACCATCTTGGGTTGACTGACAATGATGGTTTTCACTATTTGTATATTCTACCATCCCGAGT
AGCCCCAACAATGATAACTTTCACTATTTGCATACTCTACCATCTTGGGTAGCTCAACAATAATG
GCGTTCACTATTTACAAT
Found at i:26805905 original size:41 final size:42
Alignment explanation
Indices: 26805848--26805950 Score: 113
Period size: 42 Copynumber: 2.5 Consensus size: 42
26805838 AAAACATGAT
** *
26805848 CCACACGACCTGACACACGAC-CATGTGAT-GA-CCCGTGTATG
1 CCACACGGTCTGACACACG-CTCATGTG-TCGAGCCCATGTATG
* *
26805889 CCACACGGTCTGACACACGCTCGTGTGTCGAGCCCATGTGTG
1 CCACACGGTCTGACACACGCTCATGTGTCGAGCCCATGTATG
*
26805931 CCACACGGTTTGACACACGC
1 CCACACGGTCTGACACACGC
26805951 CCGTGTAACC
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
40 2 0.04
41 24 0.45
42 27 0.51
ACGTcount: A:0.22, C:0.35, G:0.24, T:0.18
Consensus pattern (42 bp):
CCACACGGTCTGACACACGCTCATGTGTCGAGCCCATGTATG
Found at i:26808555 original size:16 final size:16
Alignment explanation
Indices: 26808534--26808564 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
26808524 TGTTATTTTC
*
26808534 TTATATATTATGAAAT
1 TTATATAATATGAAAT
26808550 TTATATAATATGAAA
1 TTATATAATATGAAA
26808565 ATTAAATGTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.45
Consensus pattern (16 bp):
TTATATAATATGAAAT
Found at i:26809894 original size:22 final size:22
Alignment explanation
Indices: 26809868--26809913 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
26809858 AAATATTATA
26809868 TTTGTAACTCTCCTCATAATGT
1 TTTGTAACTCTCCTCATAATGT
*
26809890 TTTGTAACTCTCCTCATTATGT
1 TTTGTAACTCTCCTCATAATGT
26809912 TT
1 TT
26809914 GTTTTAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.20, C:0.22, G:0.09, T:0.50
Consensus pattern (22 bp):
TTTGTAACTCTCCTCATAATGT
Found at i:26810270 original size:20 final size:20
Alignment explanation
Indices: 26810245--26810287 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
26810235 ACAATCCATC
*
26810245 TACAAATACTACGTAAAGTA
1 TACAAATACTACATAAAGTA
26810265 TACAAATACTACATAAAGTA
1 TACAAATACTACATAAAGTA
26810285 TAC
1 TAC
26810288 TTGTTATTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.51, C:0.16, G:0.07, T:0.26
Consensus pattern (20 bp):
TACAAATACTACATAAAGTA
Found at i:26813659 original size:22 final size:21
Alignment explanation
Indices: 26813606--26813677 Score: 117
Period size: 21 Copynumber: 3.4 Consensus size: 21
26813596 ACAAAACATT
26813606 ATGTTTGTAACTCTCCTCATA
1 ATGTTTGTAACTCTCCTCATA
*
26813627 ATGTTTGTAACTTTCCTCATA
1 ATGTTTGTAACTCTCCTCATA
*
26813648 ATGTCTTGTAACTCTCCTCATT
1 ATGT-TTGTAACTCTCCTCATA
26813670 ATGTTTGT
1 ATGTTTGT
26813678 TCTAAATTTC
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
21 28 0.60
22 19 0.40
ACGTcount: A:0.21, C:0.21, G:0.11, T:0.47
Consensus pattern (21 bp):
ATGTTTGTAACTCTCCTCATA
Found at i:26816622 original size:16 final size:16
Alignment explanation
Indices: 26816603--26816635 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
26816593 TTTATAATAC
*
26816603 TTTATATTATATTATT
1 TTTATATTATATAATT
26816619 TTTATATTATATAATT
1 TTTATATTATATAATT
26816635 T
1 T
26816636 AGAACACGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTATATTATATAATT
Found at i:26816990 original size:15 final size:13
Alignment explanation
Indices: 26816954--26816991 Score: 51
Period size: 12 Copynumber: 2.8 Consensus size: 13
26816944 CAAATTTTGT
26816954 TTTTATTTTATTA
1 TTTTATTTTATTA
26816967 TTTTA-TTTATTA
1 TTTTATTTTATTA
26816979 TTATTTATTTTAT
1 -T-TTTATTTTAT
26816992 AAATAAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 7 0.32
13 6 0.27
14 4 0.18
15 5 0.23
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTATTTTATTA
Found at i:26817960 original size:29 final size:30
Alignment explanation
Indices: 26817928--26818061 Score: 157
Period size: 29 Copynumber: 4.5 Consensus size: 30
26817918 GTTTTGGCCT
* *
26817928 CTAAATTTTCTAAAAATTTAAATTTGAC-C
1 CTAAATTTTCCAAAAATTCAAATTTGACTC
26817957 CTAAATTTTCCAAAAATTCAAATTTGAAC-C
1 CTAAATTTTCCAAAAATTCAAATTTG-ACTC
*
26817987 C-AAATTTTCCAAAAATTTCAATTTTGACTC
1 CTAAATTTTCCAAAAA-TTCAAATTTGACTC
* * * *
26818017 TTGAATTTCCCAAAAATTCCAATTTGACTC
1 CTAAATTTTCCAAAAATTCAAATTTGACTC
*
26818047 CTAAATTTTACAAAA
1 CTAAATTTTCCAAAA
26818062 TTTTTGATTT
Statistics
Matches: 89, Mismatches: 12, Indels: 7
0.82 0.11 0.06
Matches are distributed among these distances:
29 40 0.45
30 37 0.42
31 12 0.13
ACGTcount: A:0.40, C:0.19, G:0.04, T:0.37
Consensus pattern (30 bp):
CTAAATTTTCCAAAAATTCAAATTTGACTC
Found at i:26818030 original size:31 final size:30
Alignment explanation
Indices: 26817989--26818046 Score: 89
Period size: 31 Copynumber: 1.9 Consensus size: 30
26817979 TTTGAACCCA
* *
26817989 AATTTTCCAAAAATTTCAATTTTGACTCTTG
1 AATTTCCCAAAAATTCCAA-TTTGACTCTTG
26818020 AATTTCCCAAAAATTCCAATTTGACTC
1 AATTTCCCAAAAATTCCAATTTGACTC
26818047 CTAAATTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 8 0.32
31 17 0.68
ACGTcount: A:0.34, C:0.21, G:0.05, T:0.40
Consensus pattern (30 bp):
AATTTCCCAAAAATTCCAATTTGACTCTTG
Found at i:26818074 original size:60 final size:60
Alignment explanation
Indices: 26817930--26818061 Score: 155
Period size: 60 Copynumber: 2.2 Consensus size: 60
26817920 TTTGGCCTCT
* * * *
26817930 AAATTTT-CTAAAAATTT-AAATTTGAC-CCTAAATTTTCCAAAAATTCAAATTTGAACCC
1 AAATTTTAC-AAAAATTTCAATTTTGACTCTTGAATTTCCCAAAAATTCAAATTTGAACCC
* *
26817988 AAATTTTCCAAAAATTTCAATTTTGACTCTTGAATTTCCCAAAAATTCCAATTTG-ACTCC
1 AAATTTTACAAAAATTTCAATTTTGACTCTTGAATTTCCCAAAAATTCAAATTTGAAC-CC
26818048 TAAATTTTACAAAA
1 -AAATTTTACAAAA
26818062 TTTTTGATTT
Statistics
Matches: 63, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
58 15 0.24
59 11 0.17
60 25 0.40
61 12 0.19
ACGTcount: A:0.41, C:0.18, G:0.04, T:0.37
Consensus pattern (60 bp):
AAATTTTACAAAAATTTCAATTTTGACTCTTGAATTTCCCAAAAATTCAAATTTGAACCC
Found at i:26818171 original size:26 final size:27
Alignment explanation
Indices: 26818131--26818189 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 27
26818121 TATTTTTTTA
* *
26818131 TTTATTTTATCTTATATTTATATTAT-
1 TTTATTGTATCTTATATATATATTATC
* * *
26818157 TTTATTGTATGTTATGTATATATTGTC
1 TTTATTGTATCTTATATATATATTATC
26818184 TTTATT
1 TTTATT
26818190 ATGTGTACTT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 21 0.78
27 6 0.22
ACGTcount: A:0.24, C:0.03, G:0.07, T:0.66
Consensus pattern (27 bp):
TTTATTGTATCTTATATATATATTATC
Found at i:26825083 original size:36 final size:36
Alignment explanation
Indices: 26825003--26825083 Score: 119
Period size: 36 Copynumber: 2.2 Consensus size: 36
26824993 TTGTTGTGAA
26825003 AGTGAATATGTGGGTATGTTATTCATGCCATGAGAC
1 AGTGAATATGTGGGTATGTTATTCATGCCATGAGAC
** *
26825039 AGAAAATATGTGGGTATGTTATTCATGTCAT-ATGAC
1 AGTGAATATGTGGGTATGTTATTCATGCCATGA-GAC
26825075 AGTGAATAT
1 AGTGAATAT
26825084 ATTGTGTTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
35 1 0.03
36 38 0.97
ACGTcount: A:0.32, C:0.09, G:0.25, T:0.35
Consensus pattern (36 bp):
AGTGAATATGTGGGTATGTTATTCATGCCATGAGAC
Found at i:26825483 original size:10 final size:10
Alignment explanation
Indices: 26825468--26825569 Score: 69
Period size: 10 Copynumber: 9.2 Consensus size: 10
26825458 CCAAACTATC
26825468 ATTAAATGTG
1 ATTAAATGTG
*
26825478 ATTAAATGTC
1 ATTAAATGTG
*
26825488 ACTAAATGTG
1 ATTAAATGTG
26825498 ATTAATATGTG
1 ATTAA-ATGTG
26825509 ATTTGATAAATGCTG
1 A--T--TAAATG-TG
**
26825524 AAATATTCATGTG
1 --AT-TAAATGTG
26825537 ATTAAATGTG
1 ATTAAATGTG
*
26825547 ACTAAATGTG
1 ATTAAATGTG
26825557 ATTAATATGTG
1 ATTAA-ATGTG
26825568 AT
1 AT
26825570 GTGATAAATG
Statistics
Matches: 73, Mismatches: 10, Indels: 17
0.73 0.10 0.17
Matches are distributed among these distances:
10 40 0.55
11 15 0.21
13 3 0.04
14 8 0.11
15 6 0.08
17 1 0.01
ACGTcount: A:0.38, C:0.05, G:0.18, T:0.39
Consensus pattern (10 bp):
ATTAAATGTG
Found at i:26825565 original size:59 final size:59
Alignment explanation
Indices: 26825473--26825664 Score: 240
Period size: 59 Copynumber: 3.1 Consensus size: 59
26825463 CTATCATTAA
* *
26825473 ATGTGATTAAATGTCACTAAATGTGATTAATATGTGATTTGATAAATGCTGAAATATTC
1 ATGTGATTAAATGTGACTAAATGTGATTAATATGTGATGTGATAAATGCTGAAATATTC
*
26825532 ATGTGATTAAATGTGACTAAATGTGATTAATATGTGATGTGATAAATGCTAAAATATTC
1 ATGTGATTAAATGTGACTAAATGTGATTAATATGTGATGTGATAAATGCTGAAATATTC
* * * *
26825591 ATGTGACTAATGTCATTAAATGTGACTAAATGTAATTAATATGTGATGTGATAGATGTTGAAATG
1 A--TG-----TG--ATTAAATGTGACTAAATGTGATTAATATGTGATGTGATAAATGCTGAAATA
26825656 TTC
57 TTC
26825659 ATGTGA
1 ATGTGA
26825665 CCAATGTGAT
Statistics
Matches: 116, Mismatches: 8, Indels: 18
0.82 0.06 0.13
Matches are distributed among these distances:
59 58 0.50
61 4 0.03
66 4 0.03
68 50 0.43
ACGTcount: A:0.37, C:0.06, G:0.19, T:0.38
Consensus pattern (59 bp):
ATGTGATTAAATGTGACTAAATGTGATTAATATGTGATGTGATAAATGCTGAAATATTC
Found at i:26825615 original size:19 final size:21
Alignment explanation
Indices: 26825591--26825636 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
26825581 TAAAATATTC
*
26825591 ATGTGACT-AATGTCATTAA-
1 ATGTGACTAAATGTAATTAAT
26825610 ATGTGACTAAATGTAATTAAT
1 ATGTGACTAAATGTAATTAAT
26825631 ATGTGA
1 ATGTGA
26825637 TGTGATAGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 8 0.33
20 10 0.42
21 6 0.25
ACGTcount: A:0.39, C:0.07, G:0.17, T:0.37
Consensus pattern (21 bp):
ATGTGACTAAATGTAATTAAT
Found at i:26825616 original size:68 final size:68
Alignment explanation
Indices: 26825532--26825671 Score: 217
Period size: 68 Copynumber: 2.1 Consensus size: 68
26825522 TGAAATATTC
* *
26825532 ATGTGATTAAATGTGACTAAATGTGATTAATATGTGATGTGATAAATGCTAAAATATTCATGTGA
1 ATGTCATTAAATGTGACTAAATGTAATTAATATGTGATGTGATAAATGCTAAAATATTCATGTGA
*
26825597 CTA
66 CCA
* * * *
26825600 ATGTCATTAAATGTGACTAAATGTAATTAATATGTGATGTGATAGATGTTGAAATGTTCATGTGA
1 ATGTCATTAAATGTGACTAAATGTAATTAATATGTGATGTGATAAATGCTAAAATATTCATGTGA
26825665 CCA
66 CCA
26825668 ATGT
1 ATGT
26825672 GATTTGTGCT
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
68 65 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.37
Consensus pattern (68 bp):
ATGTCATTAAATGTGACTAAATGTAATTAATATGTGATGTGATAAATGCTAAAATATTCATGTGA
CCA
Found at i:26825693 original size:23 final size:23
Alignment explanation
Indices: 26825667--26825929 Score: 382
Period size: 23 Copynumber: 11.4 Consensus size: 23
26825657 TCATGTGACC
26825667 AATGTGATTTGTGCTTAAATATT
1 AATGTGATTTGTGCTTAAATATT
* * *
26825690 AATGTGATTTATGCTTAAGTTTT
1 AATGTGATTTGTGCTTAAATATT
* * * *
26825713 AATATGATTTATGTTTAAAAATT
1 AATGTGATTTGTGCTTAAATATT
26825736 AATGTGATTTGTGCTTAAATATT
1 AATGTGATTTGTGCTTAAATATT
*
26825759 AATGTGATTTGTGCTTAAAAATT
1 AATGTGATTTGTGCTTAAATATT
*
26825782 AATGTGATTTGTGTTTAAATATT
1 AATGTGATTTGTGCTTAAATATT
*
26825805 AATATGATTTGTGCTTAAATATT
1 AATGTGATTTGTGCTTAAATATT
*
26825828 AATGTGATTTATGCTTAAATATT
1 AATGTGATTTGTGCTTAAATATT
26825851 AATGTGATTTGTGCTTAAATATT
1 AATGTGATTTGTGCTTAAATATT
* * *
26825874 AATGTGATTTATGGTTAAATGTT
1 AATGTGATTTGTGCTTAAATATT
* *
26825897 AATATGATTTATGCTTAAATATT
1 AATGTGATTTGTGCTTAAATATT
26825920 AATGTGATTT
1 AATGTGATTT
26825930 ATGTGTAAAT
Statistics
Matches: 213, Mismatches: 27, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 213 1.00
ACGTcount: A:0.33, C:0.03, G:0.16, T:0.48
Consensus pattern (23 bp):
AATGTGATTTGTGCTTAAATATT
Done.