Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 68 of 328
Found at i:18739520 original size:31 final size:31
Alignment explanation
Indices: 18739482--18739584 Score: 102
Period size: 31 Copynumber: 3.4 Consensus size: 31
18739472 TAATCTCATT
* *
18739482 AATATTAAATTAATAAAATATTATCCAGATA
1 AATATTAAATTAATAAAATAATATCCACATA
** * *
18739513 AATATTAAATT--TAATTTAATATCTCATATT
1 AATATTAAATTAATAAAATAATATC-CACATA
* * *
18739543 AATAATAAATTAATAAAATACTATCTACATA
1 AATATTAAATTAATAAAATAATATCCACATA
18739574 AATATTAAATT
1 AATATTAAATT
18739585 TAATTTAATA
Statistics
Matches: 56, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
29 9 0.16
30 14 0.25
31 24 0.43
32 9 0.16
ACGTcount: A:0.52, C:0.07, G:0.01, T:0.40
Consensus pattern (31 bp):
AATATTAAATTAATAAAATAATATCCACATA
Found at i:18739575 original size:61 final size:61
Alignment explanation
Indices: 18739479--18739607 Score: 222
Period size: 61 Copynumber: 2.1 Consensus size: 61
18739469 AATTAATCTC
* * *
18739479 ATTAATATTAAATTAATAAAATATTATCCAGATAAATATTAAATTTAATTTAATATCTCAT
1 ATTAATAATAAATTAATAAAATACTATCCACATAAATATTAAATTTAATTTAATATCTCAT
*
18739540 ATTAATAATAAATTAATAAAATACTATCTACATAAATATTAAATTTAATTTAATATCTCAT
1 ATTAATAATAAATTAATAAAATACTATCCACATAAATATTAAATTTAATTTAATATCTCAT
18739601 ATTAATA
1 ATTAATA
18739608 TCTAGATAAA
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
61 64 1.00
ACGTcount: A:0.50, C:0.07, G:0.01, T:0.42
Consensus pattern (61 bp):
ATTAATAATAAATTAATAAAATACTATCCACATAAATATTAAATTTAATTTAATATCTCAT
Found at i:18742364 original size:50 final size:49
Alignment explanation
Indices: 18742309--18742416 Score: 128
Period size: 50 Copynumber: 2.2 Consensus size: 49
18742299 AATTTTCTCG
*
18742309 AAATTTTAACAAGAGTAAAATTGTCAAAATTTTATTGGGGGT-AATCGTTA
1 AAATTTTAAC-AGAGTAAAATTGTCAAAATTTTACT-GGGGTAAATCGTTA
* * * * *
18742359 AAATTTTATCGGGGTAAAATTGTTAAAATTTTACTGGGGTACAATTGTTA
1 AAATTTTAACAGAGTAAAATTGTCAAAATTTTACTGGGGTA-AATCGTTA
18742409 AAATTTTA
1 AAATTTTA
18742417 CTGGGGTACA
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
48 5 0.10
49 21 0.42
50 24 0.48
ACGTcount: A:0.38, C:0.06, G:0.18, T:0.39
Consensus pattern (49 bp):
AAATTTTAACAGAGTAAAATTGTCAAAATTTTACTGGGGTAAATCGTTA
Found at i:18742389 original size:25 final size:25
Alignment explanation
Indices: 18742323--18742430 Score: 132
Period size: 25 Copynumber: 4.4 Consensus size: 25
18742313 TTTAACAAGA
* *
18742323 GTAAAATTGTCAAAATTTTATTGGGG
1 GTAAAATTGTTAAAATTTTACT-GGG
*
18742349 GT--AATCGTTAAAATTTTA-TCGGG
1 GTAAAATTGTTAAAATTTTACT-GGG
18742372 GTAAAATTGTTAAAATTTTACTGGG
1 GTAAAATTGTTAAAATTTTACTGGG
*
18742397 GTACAATTGTTAAAATTTTACTGGG
1 GTAAAATTGTTAAAATTTTACTGGG
*
18742422 GTACAATTG
1 GTAAAATTG
18742431 GGGTGAGAAA
Statistics
Matches: 74, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
23 6 0.08
24 14 0.19
25 51 0.69
26 3 0.04
ACGTcount: A:0.33, C:0.06, G:0.21, T:0.39
Consensus pattern (25 bp):
GTAAAATTGTTAAAATTTTACTGGG
Found at i:18744194 original size:41 final size:41
Alignment explanation
Indices: 18744148--18744226 Score: 122
Period size: 41 Copynumber: 1.9 Consensus size: 41
18744138 TGGACGTTTG
*
18744148 TTTTTTGTCTCTCTTTTCTTTTGTCTCCTGATCTTTTTTTA
1 TTTTTTGTCTCTCTTTTCTTTTGGCTCCTGATCTTTTTTTA
* * *
18744189 TTTTTTTTCTCTTTTTTCTTTTGGCTCCTGTTCTTTTT
1 TTTTTTGTCTCTCTTTTCTTTTGGCTCCTGATCTTTTT
18744227 GGCTTCTTCT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.03, C:0.19, G:0.08, T:0.71
Consensus pattern (41 bp):
TTTTTTGTCTCTCTTTTCTTTTGGCTCCTGATCTTTTTTTA
Found at i:18744923 original size:22 final size:21
Alignment explanation
Indices: 18744876--18744923 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
18744866 TCCCTGGTTT
* **
18744876 ACACGGGCGTGTGCCTCTGCC
1 ACACGGCCGTGTGCCTCCCCC
18744897 ACACGGCCGTGTGCCTTCCCCC
1 ACACGGCCGTGTGCC-TCCCCC
18744919 ACACG
1 ACACG
18744924 AGTGTTTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 14 0.61
22 9 0.39
ACGTcount: A:0.12, C:0.44, G:0.27, T:0.17
Consensus pattern (21 bp):
ACACGGCCGTGTGCCTCCCCC
Found at i:18745732 original size:21 final size:20
Alignment explanation
Indices: 18745708--18745747 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
18745698 TGAGTATTTT
18745708 AATGTTTAATGATAGATTATG
1 AATGTTTAATGATAG-TTATG
*
18745729 AATGTTTGATGATAGTTAT
1 AATGTTTAATGATAGTTAT
18745748 ACAAGTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.35, C:0.00, G:0.20, T:0.45
Consensus pattern (20 bp):
AATGTTTAATGATAGTTATG
Found at i:18748740 original size:16 final size:16
Alignment explanation
Indices: 18748719--18748751 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
18748709 GAAAAATAGA
18748719 TTTTTAGTTTTTATTT
1 TTTTTAGTTTTTATTT
*
18748735 TTTTTAGTTTTTGTTT
1 TTTTTAGTTTTTATTT
18748751 T
1 T
18748752 GTTATTTGGT
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:0.09, C:0.00, G:0.09, T:0.82
Consensus pattern (16 bp):
TTTTTAGTTTTTATTT
Found at i:18753470 original size:46 final size:46
Alignment explanation
Indices: 18753403--18753664 Score: 393
Period size: 46 Copynumber: 5.7 Consensus size: 46
18753393 TGGCAACCTG
18753403 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
18753449 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
*
18753495 -GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
* *
18753540 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
* ** * *
18753586 AGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG-AAA
* * * *
18753632 TGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCA
18753665 TCAAGTCAAA
Statistics
Matches: 201, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
45 45 0.22
46 156 0.78
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
Found at i:18753559 original size:91 final size:92
Alignment explanation
Indices: 18753404--18753664 Score: 400
Period size: 91 Copynumber: 2.8 Consensus size: 92
18753394 GGCAACCTGT
18753404 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAA
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAA
*
18753469 AGATACCATGGCAACCTGATATG-AAA
66 AGATACCATGGCAACCTGACATGAAAA
*
18753495 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGATGTGTAAGACCATGGTTGAA
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAA
*
18753560 AGATACCATGGCAACGTGACATGAAAA
66 AGATACCATGGCAACCTGACATGAAAA
** * * * *
18753587 GAATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAGTAAGACCATAGTTGA
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG-AAATGTGTAAGACCATGGTTGA
* *
18753651 AAGACACTATGGCA
65 AAGATACCATGGCA
18753665 TCAAGTCAAA
Statistics
Matches: 156, Mismatches: 12, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
91 86 0.55
92 70 0.45
ACGTcount: A:0.39, C:0.15, G:0.25, T:0.21
Consensus pattern (92 bp):
GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAA
AGATACCATGGCAACCTGACATGAAAA
Found at i:18753604 original size:137 final size:130
Alignment explanation
Indices: 18753354--18753664 Score: 428
Period size: 137 Copynumber: 2.3 Consensus size: 130
18753344 AGTGTGCTCT
18753354 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
* * **
18753419 TGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAACCTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
18753484 CTGATATGAAA-GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGATGTGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----T--G-TGTGTAAG
*
18753548 ACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAGACCATGGTTGAAAGATACC
58 ACCATGGTTGAAAGATACCATGGCAACCTGACATGAAAAGAATAAGACCATGGTTGAAAGATACC
18753613 ATGGCAAC
123 ATGGCAAC
* * * * * *
18753621 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
18753665 TCAAGTCAAA
Statistics
Matches: 160, Mismatches: 11, Indels: 12
0.87 0.06 0.07
Matches are distributed among these distances:
129 35 0.22
130 11 0.07
134 1 0.01
136 2 0.01
137 83 0.52
138 28 0.17
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.22
Consensus pattern (130 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
TGAAAGATACCATGGCAACCTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:18753970 original size:23 final size:25
Alignment explanation
Indices: 18753925--18753971 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
18753915 AATAAATATA
*
18753925 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
18753950 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
18753972 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:18758350 original size:14 final size:14
Alignment explanation
Indices: 18758317--18758359 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 14
18758307 ACATGAGTCT
18758317 ATAAAAATAAAGAGAA
1 ATAAAAATAAA-A-AA
*
18758333 ATAAAAGTAAAAAA
1 ATAAAAATAAAAAA
18758347 ATAAAAATAAAAA
1 ATAAAAATAAAAA
18758360 GAGTTTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 14 0.56
15 1 0.04
16 10 0.40
ACGTcount: A:0.79, C:0.00, G:0.07, T:0.14
Consensus pattern (14 bp):
ATAAAAATAAAAAA
Found at i:18779639 original size:9 final size:9
Alignment explanation
Indices: 18779613--18779651 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
18779603 TCGAATCAAG
*
18779613 TTAATCGAG
1 TTAATCGAA
18779622 TTAATCGAA
1 TTAATCGAA
18779631 TTAATCGAA
1 TTAATCGAA
*
18779640 TCAACTCGAA
1 TTAA-TCGAA
18779650 TT
1 TT
18779652 TTTTTCGAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
9 20 0.77
10 6 0.23
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.33
Consensus pattern (9 bp):
TTAATCGAA
Found at i:18780644 original size:249 final size:236
Alignment explanation
Indices: 18780327--18780800 Score: 711
Period size: 244 Copynumber: 2.0 Consensus size: 236
18780317 ATTTCCTAGG
*
18780327 GGTTTACTAATTTATAAGATTTTTTTTAAAACTTAGTTAATTAATTTTGTATTACTGGTTCAAGT
1 GGTTTACTAATTTATAAGATTTTTTTAAAAACTTAGTTAATTAATTTTGTATTACTGGTTCAA--
18780392 TGTACTTGTAATTAGTAAATTCTCGTATGA-TTTTATCCTTATGAATTAGCTAATTTTTCTTCAA
64 -G---TTGTAATTAGTAAATTCTCGTATGATTTTTATCCTTATGAATTAGCTAATTTTTCTTCAA
* * **
18780456 TGATTAAAGAAGAAAAAACCTACAGTAGTGGGCA-ATGGGGTTTA-GGGATTTTAGCTTTATCCA
125 GGATTAAAGAAGAAAAAACCTACAGCAGTGGG-AGATGGGGTCCAGGGGATTTTAGC--T-T---
18780519 CTATTCCACTTGATGTACAATAACCCTTAACAAATATGAATTAGTATACTTATAAT
183 -TA-TCCACTTGATGTACAATAACCCTTAACAAATATGAATTAGTATACTTATAAT
*
18780575 GGTTTACTAATTTATAAGAATTTTTTTAAAAACTTAGTTAATTAATTTTGTATTACTGGTTCTAG
1 GGTTTACTAATTTATAAG-ATTTTTTTAAAAACTTAGTTAATTAATTTTGTATTACTGGTTCAAG
*
18780640 TTGTAATTAGTAAATTCTTGTATGATTTTTATCCTTATGAATTAGCTAATTTTTCTTCAAGGATT
65 TTGTAATTAGTAAATTCTCGTATGATTTTTATCCTTATGAATTAGCTAATTTTTCTTCAAGGATT
*
18780705 GAAGAAGAAAAAACCTACAGCAGTGGGAGATGGGGTCCAGGGGATTTTAGCTTTATCCACTTGAT
130 AAAGAAGAAAAAACCTACAGCAGTGGGAGATGGGGTCCAGGGGATTTTAGCTTTATCCACTTGAT
18780770 GTACAATAACCCTTAACAAATATGAATTAGT
195 GTACAATAACCCTTAACAAATATGAATTAGT
18780801 GTCCTTATGA
Statistics
Matches: 214, Mismatches: 8, Indels: 19
0.89 0.03 0.08
Matches are distributed among these distances:
237 41 0.19
238 2 0.01
242 1 0.00
243 26 0.12
244 71 0.33
245 11 0.05
246 1 0.00
248 18 0.08
249 43 0.20
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.40
Consensus pattern (236 bp):
GGTTTACTAATTTATAAGATTTTTTTAAAAACTTAGTTAATTAATTTTGTATTACTGGTTCAAGT
TGTAATTAGTAAATTCTCGTATGATTTTTATCCTTATGAATTAGCTAATTTTTCTTCAAGGATTA
AAGAAGAAAAAACCTACAGCAGTGGGAGATGGGGTCCAGGGGATTTTAGCTTTATCCACTTGATG
TACAATAACCCTTAACAAATATGAATTAGTATACTTATAAT
Found at i:18783512 original size:29 final size:28
Alignment explanation
Indices: 18783468--18783533 Score: 105
Period size: 29 Copynumber: 2.3 Consensus size: 28
18783458 ATGAATGTTA
18783468 GGCCATATAAGTGTGATTTGGGCCTAATG
1 GGCCATATAAG-GTGATTTGGGCCTAATG
18783497 GGCCATATACAGGTGATTTGGGCCTAATG
1 GGCCATATA-AGGTGATTTGGGCCTAATG
*
18783526 GGCTATAT
1 GGCCATAT
18783534 GAATATGATT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
29 33 0.94
30 2 0.06
ACGTcount: A:0.24, C:0.15, G:0.30, T:0.30
Consensus pattern (28 bp):
GGCCATATAAGGTGATTTGGGCCTAATG
Found at i:18783542 original size:29 final size:29
Alignment explanation
Indices: 18783468--18783565 Score: 94
Period size: 29 Copynumber: 3.4 Consensus size: 29
18783458 ATGAATGTTA
*
18783468 GGCCATATA-AGTGTGATTTGGGCCTAATG
1 GGCCATATACAG-ATGATTTGGGCCTAATG
*
18783497 GGCCATATACAGGTGATTTGGGCCTAATG
1 GGCCATATACAGATGATTTGGGCCTAATG
* * * *
18783526 GGCTATATGA-ATATGA-TTGGGCTTAGTG
1 GGCCATAT-ACAGATGATTTGGGCCTAATG
*
18783554 GGCCAGATACAG
1 GGCCATATACAG
18783566 GTATGTGAAA
Statistics
Matches: 58, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
27 1 0.02
28 17 0.29
29 37 0.64
30 3 0.05
ACGTcount: A:0.26, C:0.14, G:0.32, T:0.29
Consensus pattern (29 bp):
GGCCATATACAGATGATTTGGGCCTAATG
Found at i:18786580 original size:28 final size:28
Alignment explanation
Indices: 18786515--18786615 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
18786505 ATAGTGAATC
*
18786515 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
18786544 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
18786572 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
18786602 CGCACACTTAGTGC
1 CGCACACTTAGTGC
18786616 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:18794541 original size:28 final size:28
Alignment explanation
Indices: 18794476--18794576 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
18794466 ATAGTGAATC
*
18794476 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
18794505 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
18794533 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
18794563 CGCACACTTAGTGC
1 CGCACACTTAGTGC
18794577 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:18800296 original size:16 final size:15
Alignment explanation
Indices: 18800266--18800313 Score: 60
Period size: 16 Copynumber: 3.1 Consensus size: 15
18800256 TGTAACGCCC
* *
18800266 CAAAAATCTCGAAAT
1 CAAAAATCCCAAAAT
18800281 ACAAAAATCCCAAAAT
1 -CAAAAATCCCAAAAT
18800297 CTAAAAATCCCAAAAT
1 C-AAAAATCCCAAAAT
18800313 C
1 C
18800314 TCGATTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
15 1 0.03
16 28 0.97
ACGTcount: A:0.56, C:0.25, G:0.02, T:0.17
Consensus pattern (15 bp):
CAAAAATCCCAAAAT
Found at i:18800304 original size:24 final size:24
Alignment explanation
Indices: 18800268--18800313 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
18800258 TAACGCCCCA
**
18800268 AAAATCTCGAAATACAAAAATCCC
1 AAAATCTAAAAATACAAAAATCCC
* *
18800292 AAAATCTAAAAATCCCAAAATC
1 AAAATCTAAAAATACAAAAATC
18800314 TCGATTTTTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.57, C:0.24, G:0.02, T:0.17
Consensus pattern (24 bp):
AAAATCTAAAAATACAAAAATCCC
Found at i:18800314 original size:16 final size:16
Alignment explanation
Indices: 18800283--18800314 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
18800273 CTCGAAATAC
18800283 AAAAATCCCAAAATCT
1 AAAAATCCCAAAATCT
18800299 AAAAATCCCAAAATCT
1 AAAAATCCCAAAATCT
18800315 CGATTTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.25, G:0.00, T:0.19
Consensus pattern (16 bp):
AAAAATCCCAAAATCT
Found at i:18801706 original size:29 final size:29
Alignment explanation
Indices: 18801670--18801746 Score: 95
Period size: 29 Copynumber: 2.7 Consensus size: 29
18801660 TGGGCCTCAC
18801670 GGGCCATATAAATGTGATTT-GAGCCTAAT
1 GGGCCATATAAATGTGATTTGGA-CCTAAT
*
18801699 GGGTCATATACAA-GTGATTTGGACCTAAT
1 GGGCCATATA-AATGTGATTTGGACCTAAT
* *
18801728 GGGCCATATGAATATGATT
1 GGGCCATATAAATGTGATT
18801747 GGGCTTAGTG
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
28 2 0.05
29 35 0.85
30 4 0.10
ACGTcount: A:0.31, C:0.13, G:0.25, T:0.31
Consensus pattern (29 bp):
GGGCCATATAAATGTGATTTGGACCTAAT
Found at i:18804772 original size:215 final size:210
Alignment explanation
Indices: 18804406--18804794 Score: 652
Period size: 215 Copynumber: 1.8 Consensus size: 210
18804396 GCACAAGAAG
*
18804406 TTAAACTATTCTATAATGGTTTTTGAACTGATGTGTTATTGTTATTAGTTTGGTTTGGTTAGTTA
1 TTAAACTATTCTATAATGGTTTTTGAACTGAGGTGTTATTGTTATTAGTTTGGTTTGGTTAGTTA
* * *
18804471 TTGTTGTTGGATAATTGAGCTTTTGTTGTGTTCTTTTTTTTTGGACTGGTGTAGGTTTCTATTGT
66 TTGTTGTTGGATAATTAAACTTTTGTTGTGTTCTTTTTTTTTGGACTGGTGTAGGTTTCTACTGT
18804536 ATTTTAGACTTTTGCTTATGTTTTTTTTATTACAATGTTGTTGTATTGTTTTTGTTGTTTATTTG
131 ATTTTAGACTTTTGCTTATGTTTTTTTTATTACAATGTTGTTGTATTGTTTTTGTTGTTTATTTG
18804601 GACTCATGAAGAAAC
196 GACTCATGAAGAAAC
18804616 TTAAACTATTCTATAATGGTTTTTGAACTGAGGTGTTATTGTTATTAGTTTGGTTTGGTTTGGTT
1 TTAAACTATTCTATAATGGTTTTTGAACTGAGGTGTTATTGTTATTA-----GTTTGGTTTGGTT
* * *
18804681 TGTTATTGTTGTTGGTTAATTAAACTTTTGTTGTGTTCTTTTTTTTTGGAGTGGTGTAGGTTTCT
61 AGTTATTGTTGTTGGATAATTAAACTTTTGTTGTGTTCTTTTTTTTTGGACTGGTGTAGGTTTCT
* *
18804746 ACTGTATTTTGGACTTTTGCTTATGTTTTTTTTATTATAATGTTGTTGT
126 ACTGTATTTTAGACTTTTGCTTATGTTTTTTTTATTACAATGTTGTTGT
18804795 TTACTTCGAC
Statistics
Matches: 165, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
210 46 0.28
215 119 0.72
ACGTcount: A:0.17, C:0.06, G:0.21, T:0.56
Consensus pattern (210 bp):
TTAAACTATTCTATAATGGTTTTTGAACTGAGGTGTTATTGTTATTAGTTTGGTTTGGTTAGTTA
TTGTTGTTGGATAATTAAACTTTTGTTGTGTTCTTTTTTTTTGGACTGGTGTAGGTTTCTACTGT
ATTTTAGACTTTTGCTTATGTTTTTTTTATTACAATGTTGTTGTATTGTTTTTGTTGTTTATTTG
GACTCATGAAGAAAC
Found at i:18804887 original size:19 final size:19
Alignment explanation
Indices: 18804863--18804906 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
18804853 GTATTTTTTT
*
18804863 TGTTGTTTTTTTGGACTAA
1 TGTTGTTTATTTGGACTAA
**
18804882 TGTTGTTTATTTGGGTTAA
1 TGTTGTTTATTTGGACTAA
18804901 TGTTGT
1 TGTTGT
18804907 GTTGCTTGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.14, C:0.02, G:0.25, T:0.59
Consensus pattern (19 bp):
TGTTGTTTATTTGGACTAA
Found at i:18809685 original size:43 final size:43
Alignment explanation
Indices: 18809635--18809794 Score: 223
Period size: 43 Copynumber: 3.7 Consensus size: 43
18809625 TGGAAAAAAA
*
18809635 CGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGTAGAAG
1 CGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGCAGAAG
* ** * *
18809678 GGCCGCTAAAGGTCAAGGCTTTTAGCGGCGCTTT-TCCCACAAA
1 CGCCGCTAAAGGTCAAGGCTTTTAGCGGCG-TTTGTGGCAGAAG
*
18809721 CGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGTGGAGAAG
1 CGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTG-GCAGAAG
*
18809765 CGCCGCTAAAGGTCAATGCTTTTAGCGGCG
1 CGCCGCTAAAGGTCAAGGCTTTTAGCGGCG
18809795 CTTTTTTTAC
Statistics
Matches: 101, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
42 3 0.03
43 63 0.62
44 35 0.35
ACGTcount: A:0.21, C:0.23, G:0.32, T:0.24
Consensus pattern (43 bp):
CGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGCAGAAG
Found at i:18809807 original size:87 final size:86
Alignment explanation
Indices: 18809632--18809817 Score: 309
Period size: 87 Copynumber: 2.2 Consensus size: 86
18809622 TATTGGAAAA
* *
18809632 AAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGTAGAAGGGCCGCTAAAGGTCAAGGC
1 AAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAGGTCAAGGC
18809697 TTTTAGCGGCGCTTTTCCCAC
66 TTTTAGCGGCGCTTTTCCCAC
*
18809718 AAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGTGGAGAAGCGCCGCTAAAGGTCAATG
1 AAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTG-GGAGAAGCGCCGCTAAAGGTCAAGG
***
18809783 CTTTTAGCGGCGCTTTTTTTAC
65 CTTTTAGCGGCGCTTTTCCCAC
18809805 AAACGCCGCTAAA
1 AAACGCCGCTAAA
18809818 TTTGGCATAT
Statistics
Matches: 93, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
86 39 0.42
87 54 0.58
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (86 bp):
AAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAGGTCAAGGC
TTTTAGCGGCGCTTTTCCCAC
Found at i:18810209 original size:21 final size:21
Alignment explanation
Indices: 18810185--18810230 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
18810175 GCTCGTGCCT
*
18810185 CTGCCTCTCTCGCTGCAGCCG
1 CTGCCTCCCTCGCTGCAGCCG
* * *
18810206 CTGCCTCCCTCTCTGCTGCCT
1 CTGCCTCCCTCGCTGCAGCCG
18810227 CTGC
1 CTGC
18810231 TCTAAGTTGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.02, C:0.50, G:0.20, T:0.28
Consensus pattern (21 bp):
CTGCCTCCCTCGCTGCAGCCG
Found at i:18815893 original size:9 final size:9
Alignment explanation
Indices: 18815879--18816035 Score: 156
Period size: 9 Copynumber: 17.6 Consensus size: 9
18815869 TATTTAAGTA
18815879 TTATGTAAG
1 TTATGTAAG
18815888 TTATGTAAG
1 TTATGTAAG
* *
18815897 TTATAT-AT
1 TTATGTAAG
*
18815905 TTATCTAAG
1 TTATGTAAG
18815914 TTATAG-AAG
1 TTAT-GTAAG
*
18815923 TTATATAAG
1 TTATGTAAG
*
18815932 TTATGTATG
1 TTATGTAAG
*
18815941 TTATATAAG
1 TTATGTAAG
18815950 TTATGTAAG
1 TTATGTAAG
* *
18815959 TTATATATG
1 TTATGTAAG
*
18815968 TTATATAAG
1 TTATGTAAG
18815977 TTATGTAAG
1 TTATGTAAG
*
18815986 TTATATAAG
1 TTATGTAAG
*
18815995 TTATATAAG
1 TTATGTAAG
*
18816004 TTATGTACG
1 TTATGTAAG
*
18816013 TTTTGTAAG
1 TTATGTAAG
* *
18816022 TTATATAAA
1 TTATGTAAG
18816031 TTATG
1 TTATG
18816036 ATATCAAATA
Statistics
Matches: 121, Mismatches: 24, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
8 6 0.05
9 115 0.95
ACGTcount: A:0.36, C:0.01, G:0.15, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:18816035 original size:27 final size:27
Alignment explanation
Indices: 18815880--18816034 Score: 177
Period size: 27 Copynumber: 5.8 Consensus size: 27
18815870 ATTTAAGTAT
* *
18815880 TATGTAAGTTATGTAAGTTATAT-ATT
1 TATGTAAGTTATATAAGTTATATAAGT
* *
18815906 TATCTAAGTTATAGAAGTTATATAAGT
1 TATGTAAGTTATATAAGTTATATAAGT
* *
18815933 TATGTATGTTATATAAGTTATGTAAGT
1 TATGTAAGTTATATAAGTTATATAAGT
* * *
18815960 TATATATGTTATATAAGTTATGTAAGT
1 TATGTAAGTTATATAAGTTATATAAGT
* * *
18815987 TATATAAGTTATATAAGTTATGTACGT
1 TATGTAAGTTATATAAGTTATATAAGT
* *
18816014 TTTGTAAGTTATATAAATTAT
1 TATGTAAGTTATATAAGTTAT
18816035 GATATCAAAT
Statistics
Matches: 114, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
26 20 0.18
27 94 0.82
ACGTcount: A:0.37, C:0.01, G:0.15, T:0.47
Consensus pattern (27 bp):
TATGTAAGTTATATAAGTTATATAAGT
Found at i:18816160 original size:15 final size:15
Alignment explanation
Indices: 18816140--18816195 Score: 64
Period size: 15 Copynumber: 3.8 Consensus size: 15
18816130 AAGTAGCGGG
18816140 ATTAAATAATATTTA
1 ATTAAATAATATTTA
18816155 ATTAAATAATATTT-
1 ATTAAATAATATTTA
18816169 A-TAAA-AATTATTTTA
1 ATTAAATAA-TA-TTTA
*
18816184 ATTAAGTAATAT
1 ATTAAATAATAT
18816196 ACATGTCGTT
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
12 2 0.06
13 6 0.17
14 4 0.11
15 16 0.46
16 5 0.14
17 2 0.06
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (15 bp):
ATTAAATAATATTTA
Found at i:18816935 original size:289 final size:289
Alignment explanation
Indices: 18816277--18817710 Score: 2792
Period size: 289 Copynumber: 5.0 Consensus size: 289
18816267 TTTACAAGTC
18816277 ATCAAACATTATTAATATAAAGAAATAGTATTTTGAATATAATAATATCAAAAAAGAATCGTAGT
1 ATCAAACATTATTAATATAAA-AAATAGTATTTTGAATATAATAATATCAAAAAAGAATCGTAGT
18816342 TTAA--TTTATAAGTAAATTGGAAATAAATTAAGG-T-TATAAATATTCAATAGTAAATGAGCTC
65 TTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATATAAATATTCAATAGTAAATGAGCTC
18816403 GATAGAA-TTTTTTCAAGTCTTTTTGAA-TTTTTAAGATTCATCATACGTGGCGTTGTTACACCT
130 GATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCT
18816466 AGGGAGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATAC
195 AGGGAGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATAC
18816531 TTTGAATCTTTAAAATATTTAAATATTAAA
260 TTTGAATCTTTAAAATATTTAAATATTAAA
18816561 ATCAAACATTATTAATATAAAAAAATAGTATTTTGAATATAATAATATCAAAAAAGAATCGTAGT
1 ATCAAACATTATTAATAT-AAAAAATAGTATTTTGAATATAATAATATCAAAAAAGAATCGTAGT
18816626 TTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATATAAATATTCAATAGTAAATGAGCTC
65 TTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATATAAATATTCAATAGTAAATGAGCTC
18816691 GATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCT
130 GATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCT
18816756 AGGGAGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATAC
195 AGGGAGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATAC
18816821 TTTGAATCTTTAAAATATTTAAATATTAAA
260 TTTGAATCTTTAAAATATTTAAATATTAAA
18816851 ATCAAACATTATTAATATAAAAAATAGTATTTTGAATATAATAATATCAAAAAAGAATCGTAGTT
1 ATCAAACATTATTAATATAAAAAATAGTATTTTGAATATAATAATATCAAAAAAGAATCGTAGTT
18816916 TAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATATAAATATTCAATAGTAAATGAGCTCG
66 TAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATATAAATATTCAATAGTAAATGAGCTCG
18816981 ATAGAACTTTTTTCAAGTCTTTTTGAA-TTTTTAAGATTCATCATACGTGGCGTTGTTACACCTA
131 ATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTA
18817045 GGGAGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACT
196 GGGAGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACT
18817110 TTGAATCTTTAAAATATTTAAATATTAAA
261 TTGAATCTTTAAAATATTTAAATATTAAA
18817139 ATCAAACATTATTAATATAAAGAAATAGTATTTTGAATATAATAATATCAAAAAAGAATCGTAGT
1 ATCAAACATTATTAATATAAA-AAATAGTATTTTGAATATAATAATATCAAAAAAGAATCGTAGT
18817204 TTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATATAAATATTCAATAGTAAATGAGCTC
65 TTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATATAAATATTCAATAGTAAATGAGCTC
18817269 GATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCT
130 GATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCT
18817334 AGGGAGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATAC
195 AGGGAGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATAC
18817399 TTTGAATCTTTAAAATATTTAAATATTAAA
260 TTTGAATCTTTAAAATATTTAAATATTAAA
18817429 ATCAAACATTATTAATATAAAAAATAGTATTTTGAATATAATAATATCAAAAAAGAATCGTAGTT
1 ATCAAACATTATTAATATAAAAAATAGTATTTTGAATATAATAATATCAAAAAAGAATCGTAGTT
18817494 TAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATATAAATATTCAATAGTAAATGAGCTCG
66 TAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATATAAATATTCAATAGTAAATGAGCTCG
18817559 ATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTA
131 ATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTA
18817624 GGGAGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACT
196 GGGAGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACT
18817689 TTGAATCTTTAAAATATTTAAA
261 TTGAATCTTTAAAATATTTAAA
18817711 ACAAGGTTGG
Statistics
Matches: 1141, Mismatches: 0, Indels: 13
0.99 0.00 0.01
Matches are distributed among these distances:
284 65 0.06
285 3 0.00
286 29 0.03
287 1 0.00
288 186 0.16
289 556 0.49
290 301 0.26
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.36
Consensus pattern (289 bp):
ATCAAACATTATTAATATAAAAAATAGTATTTTGAATATAATAATATCAAAAAAGAATCGTAGTT
TAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATATAAATATTCAATAGTAAATGAGCTCG
ATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTA
GGGAGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACT
TTGAATCTTTAAAATATTTAAATATTAAA
Found at i:18822645 original size:3 final size:3
Alignment explanation
Indices: 18822625--18822701 Score: 129
Period size: 3 Copynumber: 26.0 Consensus size: 3
18822615 GTATATGCAT
* *
18822625 ATA ATA AAA AT- ATT ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
18822672 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
18822702 TGAAAATACA
Statistics
Matches: 70, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
2 2 0.03
3 68 0.97
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:18823204 original size:14 final size:16
Alignment explanation
Indices: 18823178--18823212 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
18823168 AAAAAAAGGA
18823178 GAGAAAGGGAGA-GGG
1 GAGAAAGGGAGAGGGG
18823193 GAGAAA-GGAGAGGGG
1 GAGAAAGGGAGAGGGG
18823208 GAGAA
1 GAGAA
18823213 GAGAAGGCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.43, C:0.00, G:0.57, T:0.00
Consensus pattern (16 bp):
GAGAAAGGGAGAGGGG
Found at i:18824131 original size:10 final size:11
Alignment explanation
Indices: 18824110--18824160 Score: 57
Period size: 12 Copynumber: 4.3 Consensus size: 11
18824100 ACTAAACCAC
18824110 TTTTCATATATA
1 TTTT-ATATATA
18824122 TATTTATATATA
1 T-TTTATATATA
*
18824134 TTTTAAAATAATA
1 TTTT-ATAT-ATA
18824147 TTTTATATATA
1 TTTTATATATA
18824158 TTT
1 TTT
18824161 ATCTTATATA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
11 9 0.26
12 15 0.44
13 10 0.29
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTTATATATA
Found at i:18824169 original size:15 final size:15
Alignment explanation
Indices: 18824149--18824180 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
18824139 AAATAATATT
*
18824149 TTATATATATTTATC
1 TTATATACATTTATC
18824164 TTATATACATTTATC
1 TTATATACATTTATC
18824179 TT
1 TT
18824181 CTAAATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.59
Consensus pattern (15 bp):
TTATATACATTTATC
Found at i:18825252 original size:41 final size:41
Alignment explanation
Indices: 18825195--18825454 Score: 371
Period size: 41 Copynumber: 6.4 Consensus size: 41
18825185 GTTATGAGAT
*
18825195 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGC
1 TTTTAGCGGCGTTTTACAGAAAGCGCCGCTAATGCTCTGGC
* *
18825236 TTTTAGCGGTGTTTTACAAAAAGCGCCGCTAATGCTCTGGC
1 TTTTAGCGGCGTTTTACAGAAAGCGCCGCTAATGCTCTGGC
*
18825277 TTTTAGCGGCGTTTTACAAAAAGCGCCGCTAATGCTCTGGC
1 TTTTAGCGGCGTTTTACAGAAAGCGCCGCTAATGCTCTGGC
* *
18825318 TTTTAGCGGTGTTTTACAGGAAGCGCCGCTAATGCTCTGGC
1 TTTTAGCGGCGTTTTACAGAAAGCGCCGCTAATGCTCTGGC
* *
18825359 TTTTAGCGACGTTTTACAGAAAGCGCCGCTAATGCTCT-GT
1 TTTTAGCGGCGTTTTACAGAAAGCGCCGCTAATGCTCTGGC
* * * ** *
18825399 TTTTAGCGGCGTTTTAGTAAAAAACGCCGCTGTTGCTCT-GT
1 TTTTAGCGGCGTTTTA-CAGAAAGCGCCGCTAATGCTCTGGC
18825440 TTTTAGCGGCGTTTT
1 TTTTAGCGGCGTTTT
18825455 GTTTAGAACG
Statistics
Matches: 201, Mismatches: 17, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
40 16 0.08
41 185 0.92
ACGTcount: A:0.19, C:0.22, G:0.25, T:0.33
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACAGAAAGCGCCGCTAATGCTCTGGC
Found at i:18829013 original size:40 final size:40
Alignment explanation
Indices: 18828958--18829038 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
18828948 TTTCTAAGTG
18828958 ATCCCTATACATCATGGAAGAGATCATGTCCAAAAATCTT
1 ATCCCTATACATCATGGAAGAGATCATGTCCAAAAATCTT
18828998 ATCCCTATACATCATGGAAGAGATCATGTCCAAAAATCTT
1 ATCCCTATACATCATGGAAGAGATCATGTCCAAAAATCTT
18829038 A
1 A
18829039 GGTTTCTCAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.38, C:0.22, G:0.12, T:0.27
Consensus pattern (40 bp):
ATCCCTATACATCATGGAAGAGATCATGTCCAAAAATCTT
Found at i:18830682 original size:85 final size:85
Alignment explanation
Indices: 18830537--18830705 Score: 311
Period size: 85 Copynumber: 2.0 Consensus size: 85
18830527 GAAAATGATC
18830537 ATGTTTCAAAAGTTAGGGCACGATATCTCGAATCCTCGAAAATAAAGATTCTCATCATTTGATTA
1 ATGTTTCAAAAGTTAGGGCACGATATCTCGAATCCTCGAAAATAAAGATTCTCATCATTTGATTA
18830602 CTACCTAAGTCTTATATATT
66 CTACCTAAGTCTTATATATT
** *
18830622 ATGTTTCGTAAGTTAGGGCACGATATCTCGAATCCTCGAAAATAAAGATTCTCATTATTTGATTA
1 ATGTTTCAAAAGTTAGGGCACGATATCTCGAATCCTCGAAAATAAAGATTCTCATCATTTGATTA
18830687 CTACCTAAGTCTTATATAT
66 CTACCTAAGTCTTATATAT
18830706 GTTGAATTTT
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
85 81 1.00
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (85 bp):
ATGTTTCAAAAGTTAGGGCACGATATCTCGAATCCTCGAAAATAAAGATTCTCATCATTTGATTA
CTACCTAAGTCTTATATATT
Found at i:18832381 original size:22 final size:22
Alignment explanation
Indices: 18832353--18832396 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
18832343 CGTTGTTTTC
* *
18832353 TCTTTTTTGGATTTGATTCCTT
1 TCTTTTTTCGATTCGATTCCTT
*
18832375 TCTTTTTTCTATTCGATTCCTT
1 TCTTTTTTCGATTCGATTCCTT
18832397 GTAAAAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.09, C:0.18, G:0.09, T:0.64
Consensus pattern (22 bp):
TCTTTTTTCGATTCGATTCCTT
Found at i:18832729 original size:12 final size:13
Alignment explanation
Indices: 18832705--18832747 Score: 54
Period size: 12 Copynumber: 3.3 Consensus size: 13
18832695 ATATTAATGA
18832705 ATTT-TTTATTTT
1 ATTTATTTATTTT
18832717 ATTTATTTA-TTT
1 ATTTATTTATTTT
18832729 ATTTATTTTAGTTTT
1 ATTTA-TTTA-TTTT
18832744 ATTT
1 ATTT
18832748 TTACCCGAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 12 0.44
13 8 0.30
15 7 0.26
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (13 bp):
ATTTATTTATTTT
Found at i:18833591 original size:20 final size:20
Alignment explanation
Indices: 18833546--18833582 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
18833536 CATTGTTATT
*
18833546 AATATATTATATATATTTAA
1 AATAAATTATATATATTTAA
18833566 AATAAATTATAT-TATTT
1 AATAAATTATATATATTT
18833583 GAAGATAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
AATAAATTATATATATTTAA
Found at i:18833681 original size:21 final size:20
Alignment explanation
Indices: 18833648--18833689 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
18833638 TTATATATTC
18833648 TTTTAAATGTAATTTT-ATA
1 TTTTAAATGTAATTTTGATA
18833667 TTTTAAATTTGTAATTTTGATA
1 TTTTAAA--TGTAATTTTGATA
18833689 T
1 T
18833690 ACAATATGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.35
21 9 0.45
22 4 0.20
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (20 bp):
TTTTAAATGTAATTTTGATA
Found at i:18835260 original size:31 final size:31
Alignment explanation
Indices: 18835191--18835253 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
18835181 ATTTCTACTA
* *
18835191 TATTCTTAGGTTAGAATAATTTACTCCTAATG
1 TATT-TTAGGATAGAATAAATTACTCCTAATG
*
18835223 TATTTTAGGATAGAATAAATTAGCTCTTAAT
1 TATTTTAGGATAGAATAAATTA-CTCCTAAT
18835254 TTTTTTACAG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 16 0.59
32 11 0.41
ACGTcount: A:0.35, C:0.10, G:0.13, T:0.43
Consensus pattern (31 bp):
TATTTTAGGATAGAATAAATTACTCCTAATG
Found at i:18843430 original size:2 final size:2
Alignment explanation
Indices: 18843425--18843455 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
18843415 CCTGTGTGTG
18843425 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
18843456 ATTATATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:18843510 original size:2 final size:2
Alignment explanation
Indices: 18843503--18843532 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
18843493 TCATATAATG
18843503 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
18843533 ATGAAGAATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:18845686 original size:3 final size:3
Alignment explanation
Indices: 18845680--18845711 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
18845670 CTTCTTCCTC
18845680 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
18845712 ATGTAAGCAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:18854360 original size:40 final size:40
Alignment explanation
Indices: 18854316--18854403 Score: 131
Period size: 40 Copynumber: 2.2 Consensus size: 40
18854306 TCAAAATTTG
*
18854316 AATTAAATAGTTCAATTTATTCGGATAAACTCAAATAAAA
1 AATTAAAAAGTTCAATTTATTCGGATAAACTCAAATAAAA
* ***
18854356 AATTAAAAATTTTGGTTTATTCGGATAAACTCAAATAAAA
1 AATTAAAAAGTTCAATTTATTCGGATAAACTCAAATAAAA
18854396 AATTAAAA
1 AATTAAAA
18854404 TTTTTGGTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.51, C:0.08, G:0.08, T:0.33
Consensus pattern (40 bp):
AATTAAAAAGTTCAATTTATTCGGATAAACTCAAATAAAA
Found at i:18854409 original size:40 final size:40
Alignment explanation
Indices: 18854331--18854414 Score: 159
Period size: 40 Copynumber: 2.1 Consensus size: 40
18854321 AATAGTTCAA
18854331 TTTATTCGGATAAACTCAAATAAAAAATTAAAAATTTTGG
1 TTTATTCGGATAAACTCAAATAAAAAATTAAAAATTTTGG
*
18854371 TTTATTCGGATAAACTCAAATAAAAAATTAAAATTTTTGG
1 TTTATTCGGATAAACTCAAATAAAAAATTAAAAATTTTGG
18854411 TTTA
1 TTTA
18854415 ACTAGAATAT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.45, C:0.07, G:0.10, T:0.38
Consensus pattern (40 bp):
TTTATTCGGATAAACTCAAATAAAAAATTAAAAATTTTGG
Found at i:18854572 original size:49 final size:49
Alignment explanation
Indices: 18854466--18854572 Score: 151
Period size: 49 Copynumber: 2.2 Consensus size: 49
18854456 AAATAAGAAG
* * *
18854466 AGACAAAACTGCGTCGTTTTGATAAATATTTACCTTTTCTAAAGTTAAA
1 AGACAAAACTACGTCGTTCTGATAAATATTTACATTTTCTAAAGTTAAA
* * *
18854515 AGAAAAAACTACGTCGTTCTGATAAATGTTTATATTTTCTAAAGTTAAA
1 AGACAAAACTACGTCGTTCTGATAAATATTTACATTTTCTAAAGTTAAA
*
18854564 AGGCAAAAC
1 AGACAAAAC
18854573 CATTATACTA
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.34
Consensus pattern (49 bp):
AGACAAAACTACGTCGTTCTGATAAATATTTACATTTTCTAAAGTTAAA
Found at i:18855661 original size:33 final size:32
Alignment explanation
Indices: 18855589--18855661 Score: 83
Period size: 32 Copynumber: 2.2 Consensus size: 32
18855579 GAGGTCCAAG
*
18855589 TTTGTCTTAGAAGCCTAGTTGTAATGTCCTTTT
1 TTTGT-TTAGAAGCCTAGTTGTAAGGTCCTTTT
* * * *
18855622 TGTGTTTAGAGGCCTAGTTGTGAGGTTCGTTTT
1 TTTGTTTAGAAGCCTAGTTGTAAGG-TCCTTTT
18855655 TTTGTTT
1 TTTGTTT
18855662 TAAAGACCTG
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
32 17 0.52
33 16 0.48
ACGTcount: A:0.14, C:0.11, G:0.25, T:0.51
Consensus pattern (32 bp):
TTTGTTTAGAAGCCTAGTTGTAAGGTCCTTTT
Found at i:18857066 original size:43 final size:43
Alignment explanation
Indices: 18857009--18857172 Score: 168
Period size: 43 Copynumber: 3.8 Consensus size: 43
18856999 TACCGAGATG
* *
18857009 TGATTACATGTAAGACCATGTTTGGGACATTGGCATCGTTATA
1 TGATTACATATAAGACCATGTCTGGGACATTGGCATCGTTATA
* *
18857052 TGATTTCATATAAGACCATGTCTGGGACATTGGGATCGTTATA
1 TGATTACATATAAGACCATGTCTGGGACATTGGCATCGTTATA
*** * * ** * *
18857095 TGATTTTGTGTAAGACCTTGTCTGGGACAGAGGCATCGATATG
1 TGATTACATATAAGACCATGTCTGGGACATTGGCATCGTTATA
* * * *
18857138 TGATAACATATAAAACCATATCTGGGATA-TGGCAT
1 TGATTACATATAAGACCATGTCTGGGACATTGGCAT
18857173 TGTATTAGCT
Statistics
Matches: 98, Mismatches: 23, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
42 5 0.05
43 93 0.95
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (43 bp):
TGATTACATATAAGACCATGTCTGGGACATTGGCATCGTTATA
Found at i:18858038 original size:31 final size:31
Alignment explanation
Indices: 18858002--18858093 Score: 163
Period size: 31 Copynumber: 3.1 Consensus size: 31
18857992 AGCCATGAGA
18858002 TGTGGCTTGAAAATGTTGTTATTTTGATGTG
1 TGTGGCTTGAAAATGTTGTTATTTTGATGTG
18858033 TGTGGCTTGAAAATGTTGTTATTTTGA--TG
1 TGTGGCTTGAAAATGTTGTTATTTTGATGTG
18858062 TGT-GCTTGAAAATGTTGTTATTTTGATGTG
1 TGTGGCTTGAAAATGTTGTTATTTTGATGTG
18858092 TG
1 TG
18858094 AAGGATGCAT
Statistics
Matches: 59, Mismatches: 0, Indels: 5
0.92 0.00 0.08
Matches are distributed among these distances:
28 23 0.39
29 5 0.08
30 4 0.07
31 27 0.46
ACGTcount: A:0.20, C:0.03, G:0.28, T:0.49
Consensus pattern (31 bp):
TGTGGCTTGAAAATGTTGTTATTTTGATGTG
Found at i:18858069 original size:28 final size:28
Alignment explanation
Indices: 18858000--18858093 Score: 154
Period size: 28 Copynumber: 3.3 Consensus size: 28
18857990 TTAGCCATGA
18858000 GATGTG-GCTTGAAAATGTTGTTATTTT
1 GATGTGTGCTTGAAAATGTTGTTATTTT
18858027 GATGTGTGTGGCTTGAAAATGTTGTTATTTT
1 GA--TGTGT-GCTTGAAAATGTTGTTATTTT
18858058 GATGTGTGCTTGAAAATGTTGTTATTTT
1 GATGTGTGCTTGAAAATGTTGTTATTTT
18858086 GATGTGTG
1 GATGTGTG
18858094 AAGGATGCAT
Statistics
Matches: 63, Mismatches: 0, Indels: 7
0.90 0.00 0.10
Matches are distributed among these distances:
27 2 0.03
28 29 0.46
29 9 0.14
31 23 0.37
ACGTcount: A:0.20, C:0.03, G:0.29, T:0.48
Consensus pattern (28 bp):
GATGTGTGCTTGAAAATGTTGTTATTTT
Found at i:18858912 original size:21 final size:20
Alignment explanation
Indices: 18858875--18858913 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
18858865 TAGAGGAGTA
* *
18858875 GTTTTAAGGTTTTTTTTTTT
1 GTTTTAAGGTCTATTTTTTT
18858895 GTTTTAGAGGTCTATTTTT
1 GTTTTA-AGGTCTATTTTT
18858914 GAGGTCCATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.13, C:0.03, G:0.18, T:0.67
Consensus pattern (20 bp):
GTTTTAAGGTCTATTTTTTT
Found at i:18860137 original size:21 final size:21
Alignment explanation
Indices: 18860113--18860153 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
18860103 ATATTGATAC
*
18860113 TTTTCTTAAGGTATCGATATA
1 TTTTCCTAAGGTATCGATATA
18860134 TTTTCCTAAGGTATCGATAT
1 TTTTCCTAAGGTATCGATAT
18860154 TCTTACTCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.27, C:0.12, G:0.15, T:0.46
Consensus pattern (21 bp):
TTTTCCTAAGGTATCGATATA
Found at i:18866404 original size:21 final size:21
Alignment explanation
Indices: 18866379--18866421 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
18866369 CGTCCCTGAT
*
18866379 TTTGGCACAACTTTAGGCATA
1 TTTGGCACAACTTTAAGCATA
* *
18866400 TTTGGCATAGCTTTAAGCATA
1 TTTGGCACAACTTTAAGCATA
18866421 T
1 T
18866422 ACACTGATGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (21 bp):
TTTGGCACAACTTTAAGCATA
Found at i:18867226 original size:5 final size:6
Alignment explanation
Indices: 18867207--18867236 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
18867197 TCTGACTCCA
18867207 TTTATT TTTATT TTTATT TTTA-T TTTATT T
1 TTTATT TTTATT TTTATT TTTATT TTTATT T
18867237 ATTTTTCTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTATT
Found at i:18873883 original size:48 final size:48
Alignment explanation
Indices: 18873812--18873994 Score: 240
Period size: 48 Copynumber: 3.8 Consensus size: 48
18873802 GGGAGTCTTG
* * * * *
18873812 CACCCTAAATGCCAATATCATGGCCCAAAGCCAACTCAATGTATCTCC
1 CACCCGAAGTGCCAATATCATGGCCCAAAGCCAAATCAAAGTAACTCC
* *
18873860 CACCCGAAGTGCCAATATCATGGCCCAAAGTCAAATCAAAGTAACTCG
1 CACCCGAAGTGCCAATATCATGGCCCAAAGCCAAATCAAAGTAACTCC
* * *
18873908 CACCCGAAGTGCCAATATCATGGACCAAAGCTAAATCAAAGTAACTCA
1 CACCCGAAGTGCCAATATCATGGCCCAAAGCCAAATCAAAGTAACTCC
* * **
18873956 CACCAGAAGTGTCAATATCATGGCCTGAAGCCAAATCAA
1 CACCCGAAGTGCCAATATCATGGCCCAAAGCCAAATCAA
18873995 TGTATTCCCT
Statistics
Matches: 118, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 118 1.00
ACGTcount: A:0.38, C:0.30, G:0.15, T:0.18
Consensus pattern (48 bp):
CACCCGAAGTGCCAATATCATGGCCCAAAGCCAAATCAAAGTAACTCC
Found at i:18877122 original size:216 final size:214
Alignment explanation
Indices: 18876742--18877170 Score: 696
Period size: 216 Copynumber: 2.0 Consensus size: 214
18876732 ATTCAGCCTT
* * * * *
18876742 TCTGATCGTGGTAACCCCGATAATTCTTCTAGAAAGACATCTGGAAACTTATAGACAACTAGCAC
1 TCTGATCGTGGTAACCCCGATAATTCTTCTAGAAACACATCCGAAAACTCACAGACAACTAGCAC
* *
18876807 TAGTTCAATCTTAGATTTGACACTTTTGTATCTAAAAGATAAGCAAGATAAGCTTCACAACCTTT
66 TAATTCAATCTTAGATTTGACACTTTTGTATCTAAAACATAAGCAAGATAAGCTTCACAACCTTT
* ***
18876872 TCTCACATATCTCTGAGCTGACATCGATGAAATCACAACTGGCAATCAACTTGGCTCATCTGATC
131 TCTCACATATCTCTGAGCTAACATCGATGAAATCACAACTGGCAATCAACTCAACTCATCTGATC
18876937 CAATTCAAAGAATTTCACC
196 CAATTCAAAGAATTTCACC
*
18876956 TCTGATCGGTGGTAACCCCGATAATTCTTCTAGAAACACATCCGAAAACTCACAGACAACTGGCA
1 TCTGATC-GTGGTAACCCCGATAATTCTTCTAGAAACACATCCGAAAACTCACAGACAACTAGCA
* *
18877021 CTAATTCAATCTTAGATTTAGACCCTTTTGTATTTAAAACATAAGCAAGATAAGCTTCACAACCT
65 CTAATTCAATCTTAGATTT-GACACTTTTGTATCTAAAACATAAGCAAGATAAGCTTCACAACCT
* *
18877086 TTTCTCACATATCTCTGAGTTAACATCGATGAAATCACAACTGGCAATCCACTCAACTCATCTGA
129 TTTCTCACATATCTCTGAGCTAACATCGATGAAATCACAACTGGCAATCAACTCAACTCATCTGA
18877151 TCCAATTCAAAGAATTTCAC
194 TCCAATTCAAAGAATTTCAC
18877171 TGTTTTGACA
Statistics
Matches: 197, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
214 7 0.04
215 69 0.35
216 121 0.61
ACGTcount: A:0.34, C:0.24, G:0.13, T:0.29
Consensus pattern (214 bp):
TCTGATCGTGGTAACCCCGATAATTCTTCTAGAAACACATCCGAAAACTCACAGACAACTAGCAC
TAATTCAATCTTAGATTTGACACTTTTGTATCTAAAACATAAGCAAGATAAGCTTCACAACCTTT
TCTCACATATCTCTGAGCTAACATCGATGAAATCACAACTGGCAATCAACTCAACTCATCTGATC
CAATTCAAAGAATTTCACC
Found at i:18879921 original size:2 final size:2
Alignment explanation
Indices: 18879914--18879952 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
18879904 AGCCATATGC
18879914 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
18879953 AAAACATAAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:18888119 original size:46 final size:47
Alignment explanation
Indices: 18888068--18888236 Score: 188
Period size: 46 Copynumber: 3.7 Consensus size: 47
18888058 GTTGAGCATC
* *
18888068 CGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGACGCAAATGTC-
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCT
* * * * *
18888114 CGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCAT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAT-GTC-T
* *
18888160 CGAACTCGTTGAGTTGAGTCCGAGTTCA-TTATGGATGCGAACG-CT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCT
*
18888205 CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
18888237 GGGCGGGTTA
Statistics
Matches: 103, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 30 0.29
46 59 0.57
47 1 0.01
48 5 0.05
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (47 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCT
Found at i:18888228 original size:91 final size:93
Alignment explanation
Indices: 18888063--18888231 Score: 263
Period size: 91 Copynumber: 1.8 Consensus size: 93
18888053 GGATGGTTGA
*
18888063 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGACGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGACGCAAACGTCCGAACTCGTTGAGT
18888128 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
18888156 GCAT-CGAACTCGTTGAGTTGAGTCCGAGTTCA-TTATGGATGCGAACG-CTCGAGCTCGTTGAG
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGACGCAAACGTC-CGAACTCGTTGAG
18888218 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
18888232 ACTTAGGGCG
Statistics
Matches: 70, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
90 1 0.01
91 38 0.54
92 27 0.39
93 4 0.06
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGACGCAAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:18891208 original size:15 final size:15
Alignment explanation
Indices: 18891169--18891248 Score: 76
Period size: 15 Copynumber: 5.4 Consensus size: 15
18891159 GTATCTTGGG
*
18891169 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
18891184 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
18891199 TTTCTTTATTCCAGG-
1 TTTCTTTATT-CTGGA
*
18891214 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
18891229 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
18891243 TTTCTT
1 TTTCTT
18891249 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
13 1 0.02
14 11 0.21
15 36 0.68
16 5 0.09
ACGTcount: A:0.11, C:0.19, G:0.12, T:0.57
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:18891238 original size:30 final size:31
Alignment explanation
Indices: 18891160--18891239 Score: 94
Period size: 30 Copynumber: 2.6 Consensus size: 31
18891150 CATAGTATCG
* * *
18891160 TATCTTGGGTTTCTTTA-TCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCCAGGATCTCTC
*
18891190 TAT-TCTGGATTTCTTTATTCCAGG-TTTCTC
1 TATCT-TGGATTTCTTTATTCCAGGATCTCTC
18891220 TATCTTGGATTTCTTTATTC
1 TATCTTGGATTTCTTTATTC
18891240 GGTTTTCTTG
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
29 1 0.02
30 36 0.84
31 6 0.14
ACGTcount: A:0.12, C:0.19, G:0.14, T:0.55
Consensus pattern (31 bp):
TATCTTGGATTTCTTTATTCCAGGATCTCTC
Found at i:18893029 original size:22 final size:22
Alignment explanation
Indices: 18893003--18893050 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
18892993 GGAGAAAATG
18893003 GGCCAAAGTACGAAATTAACAT
1 GGCCAAAGTACGAAATTAACAT
18893025 GGCCAAAGTACGAAATTAACAT
1 GGCCAAAGTACGAAATTAACAT
18893047 GGCC
1 GGCC
18893051 TGGGCCTCCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.42, C:0.21, G:0.21, T:0.17
Consensus pattern (22 bp):
GGCCAAAGTACGAAATTAACAT
Found at i:18893079 original size:13 final size:13
Alignment explanation
Indices: 18893061--18893090 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
18893051 TGGGCCTCCT
18893061 CACACGGGCAGAC
1 CACACGGGCAGAC
18893074 CACACGGGCAGAC
1 CACACGGGCAGAC
18893087 CACA
1 CACA
18893091 AGGGGAGAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.33, C:0.40, G:0.27, T:0.00
Consensus pattern (13 bp):
CACACGGGCAGAC
Found at i:18898133 original size:75 final size:75
Alignment explanation
Indices: 18898014--18898184 Score: 212
Period size: 75 Copynumber: 2.4 Consensus size: 75
18898004 CATGGCAAAG
** *
18898014 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
18898073 CCATACTGAGC
65 CCATACCGAGC
18898084 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
18898149 CATACCGAGT
66 CATACCGAGC
***
18898159 TAAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
18898185 TGAGGAAAAC
Statistics
Matches: 87, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
70 18 0.21
73 4 0.05
74 5 0.06
75 60 0.69
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:18898152 original size:35 final size:35
Alignment explanation
Indices: 18898017--18898182 Score: 174
Period size: 35 Copynumber: 4.6 Consensus size: 35
18898007 GGCAAAGTGT
* **
18898017 GAAATGTAGGTATGGTATCAT-CCATACTGAGTTGT
1 GAAATGTAGGTATGGTAT-TTCCCATACTGAGTTAA
* **
18898052 GAAATGTAGGTATGGTATTAT-CCATACTGAGCTGT
1 GAAATGTAGGTATGGTATT-TCCCATACTGAGTTAA
18898087 GAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAA
1 GAAATGTAGGTATGGTATT-TC----CCATACTGAGTTAA
* *
18898127 GAAATGTAGGTATGGCATTTCCCATACCGAGTTAA
1 GAAATGTAGGTATGGTATTTCCCATACTGAGTTAA
*
18898162 AAAATGTAGGTATGGTATTTC
1 GAAATGTAGGTATGGTATTTC
18898183 AATGAGGAAA
Statistics
Matches: 116, Mismatches: 9, Indels: 12
0.85 0.07 0.09
Matches are distributed among these distances:
35 85 0.73
39 2 0.02
40 29 0.25
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.33
Consensus pattern (35 bp):
GAAATGTAGGTATGGTATTTCCCATACTGAGTTAA
Found at i:18900552 original size:21 final size:22
Alignment explanation
Indices: 18900526--18900571 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
18900516 GGCTATTACA
18900526 ACACGCCCATGTGAA-GGAGGC
1 ACACGCCCATGTGAAGGGAGGC
**
18900547 ACACGCCTGTGTGAAGGGAGGC
1 ACACGCCCATGTGAAGGGAGGC
18900569 ACA
1 ACA
18900572 TGGCCATATG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.28, C:0.26, G:0.35, T:0.11
Consensus pattern (22 bp):
ACACGCCCATGTGAAGGGAGGC
Found at i:18901445 original size:5 final size:5
Alignment explanation
Indices: 18901437--18901467 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
18901427 AAAACAAATC
18901437 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA T
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA T
18901468 TACTACCACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (5 bp):
TAAAA
Found at i:18902050 original size:27 final size:27
Alignment explanation
Indices: 18902020--18902090 Score: 70
Period size: 28 Copynumber: 2.6 Consensus size: 27
18902010 CTTTTGTGGA
*
18902020 GAACTCTGAAAGAATAACCTTTATGTC
1 GAACTCTGAAAGAATAACCTTTATGGC
** * *
18902047 GAACTCCAAAAAAGATAATCTTTATGGC
1 GAACTCTGAAAGA-ATAACCTTTATGGC
*
18902075 AAACTCTGAAAAGAAT
1 GAACTCTG-AAAGAAT
18902091 GCTTTTGTGG
Statistics
Matches: 33, Mismatches: 9, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
27 10 0.30
28 19 0.58
29 4 0.12
ACGTcount: A:0.44, C:0.17, G:0.14, T:0.25
Consensus pattern (27 bp):
GAACTCTGAAAGAATAACCTTTATGGC
Found at i:18903626 original size:41 final size:40
Alignment explanation
Indices: 18903535--18903671 Score: 136
Period size: 41 Copynumber: 3.5 Consensus size: 40
18903525 CTTTGAGTCA
* * * **
18903535 ATGAGGCACTGGATGCCAATTTACT--TTGG-TTTAACTG
1 ATGAGACACTGGGTGCCAATTTACTACTTGGAATTATTTG
*
18903572 ATGAGACACTGGGTGCCAATTTACTACTTCGGATTTATTTG
1 ATGAGACACTGGGTGCCAATTTACTACTT-GGAATTATTTG
* * **
18903613 ATGAGACATTGGGTGTCAATTTACTACTTGGAATTATCCG
1 ATGAGACACTGGGTGCCAATTTACTACTTGGAATTATTTG
* *
18903653 ATGAGGCACTAGGTGCCAA
1 ATGAGACACTGGGTGCCAA
18903672 ACTGGTGTGT
Statistics
Matches: 83, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
37 23 0.28
39 2 0.02
40 25 0.30
41 33 0.40
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (40 bp):
ATGAGACACTGGGTGCCAATTTACTACTTGGAATTATTTG
Found at i:18906068 original size:398 final size:399
Alignment explanation
Indices: 18905329--18906125 Score: 1488
Period size: 398 Copynumber: 2.0 Consensus size: 399
18905319 TAAATCTAAG
18905329 TTAATGCTATTTTGAATTATGAGATTCTGATATAGCATGATGTGGAGTTCATCTGAATGTTACAC
1 TTAATGCTATTTTGAATTATGAGATTCTGATATAGCATGATGTGGAGTTCATCTGAATGTTACAC
* *
18905394 GTAGTAATTATCAGTATGGATATGTGTACAAAATTGCATTAGGGATGTCTAAGTTGGGGTGTAAA
66 GTAATAATTATCAGTATGGATATGTGTACAAAATTGCATTAGGGATGTCTAAGTTGGGGTGAAAA
*
18905459 TGAACAAAACATTTGATGAACTGTTCGTGAACTGTTCGTATAACGTTTGATTATGTTCGTTTATT
131 TGAACAAAACATTCGATGAACTGTTCGTGAACTGTTCGTATAACGTTTGATTATGTTCGTTTATT
*
18905524 AAGCTAAATAAACGAGTATGAACAATGTTTTTATGATCGTTCAATAAACGAATGAACACGAATAG
196 AAGCTAAATAAACAAGTATGAACAATGTTTTTATGATCGTTCAATAAACGAATGAACACGAATAG
18905589 TGGTATGTTCGGTTCAATTATGTTCACGAACAAGCTCGTTAATAAGCTCATTTATTGACTCGTTT
261 TGGTATGTTCGGTTCAATTATGTTCACGAACAAGCTCGTTAATAAGCTCATTTATTGACTCGTTT
18905654 ATGACTCGTGTATTTTTTAATGATATTTTCTTATAAAAATTTCATTAGTATATATTAATAAAATT
326 ATGACTCGTGTATTTTTTAATGATATTTTCTTATAAAAATTTCATTAGTATATATTAATAAAATT
18905719 ATC-TAAAA
391 ATCTTAAAA
*
18905727 TTAATGCTATTTTGAATTATGAGATTCTGATATAGCATGATGTGGAGTTCATCTGAATGTTATAC
1 TTAATGCTATTTTGAATTATGAGATTCTGATATAGCATGATGTGGAGTTCATCTGAATGTTACAC
18905792 GTAATAATTATCAGTATGGATATGTGTACAAAATTGCATTAGGGATGTCTAAGTTGGGGTGAAAA
66 GTAATAATTATCAGTATGGATATGTGTACAAAATTGCATTAGGGATGTCTAAGTTGGGGTGAAAA
* *
18905857 TGAACAAAACGTTCGATGAACTGTTCGTGAACTGTTCGTATAATGTTTGATTATGTTCGTTTATT
131 TGAACAAAACATTCGATGAACTGTTCGTGAACTGTTCGTATAACGTTTGATTATGTTCGTTTATT
* *
18905922 AAGCTAAATAAACAAGTATGAACAATGTTTTTATGTTCGTTTAATAAACGAATGAACACGAATAG
196 AAGCTAAATAAACAAGTATGAACAATGTTTTTATGATCGTTCAATAAACGAATGAACACGAATAG
18905987 TGGTATGTTCGGTTCAATTATGTTCACGAACAAGCTCGTTAATAAGCTCATTTATTGACTCGTTT
261 TGGTATGTTCGGTTCAATTATGTTCACGAACAAGCTCGTTAATAAGCTCATTTATTGACTCGTTT
* *
18906052 ATGACTTGTTTATTTTTTAATGATATTTTCTTATAAAAATTTCATTAGTATATATTAATAAAATT
326 ATGACTCGTGTATTTTTTAATGATATTTTCTTATAAAAATTTCATTAGTATATATTAATAAAATT
18906117 ATCTTAAAA
391 ATCTTAAAA
18906126 CTCGTTTATT
Statistics
Matches: 387, Mismatches: 11, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
398 382 0.99
399 5 0.01
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.39
Consensus pattern (399 bp):
TTAATGCTATTTTGAATTATGAGATTCTGATATAGCATGATGTGGAGTTCATCTGAATGTTACAC
GTAATAATTATCAGTATGGATATGTGTACAAAATTGCATTAGGGATGTCTAAGTTGGGGTGAAAA
TGAACAAAACATTCGATGAACTGTTCGTGAACTGTTCGTATAACGTTTGATTATGTTCGTTTATT
AAGCTAAATAAACAAGTATGAACAATGTTTTTATGATCGTTCAATAAACGAATGAACACGAATAG
TGGTATGTTCGGTTCAATTATGTTCACGAACAAGCTCGTTAATAAGCTCATTTATTGACTCGTTT
ATGACTCGTGTATTTTTTAATGATATTTTCTTATAAAAATTTCATTAGTATATATTAATAAAATT
ATCTTAAAA
Found at i:18906346 original size:23 final size:23
Alignment explanation
Indices: 18906277--18906364 Score: 88
Period size: 23 Copynumber: 3.8 Consensus size: 23
18906267 TTATTAACAT
* * *
18906277 TGTTCGTGAACATATTCAAATATA
1 TGTTCATGAACATGTTCAATTA-A
***
18906301 TGTTCATGAACATGTTTGTTTAA
1 TGTTCATGAACATGTTCAATTAA
18906324 TGTTCATGAACATGTTCAATTAA
1 TGTTCATGAACATGTTCAATTAA
*
18906347 -GTTAAATGAACATGTTCA
1 TGTT-CATGAACATGTTCA
18906365 TAAACATTAA
Statistics
Matches: 53, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
22 3 0.06
23 34 0.64
24 16 0.30
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.40
Consensus pattern (23 bp):
TGTTCATGAACATGTTCAATTAA
Found at i:18906374 original size:23 final size:23
Alignment explanation
Indices: 18906329--18906375 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
18906319 TTTAATGTTC
* *
18906329 ATGAACATGTTCAATTAAGTTAA
1 ATGAACATGTTCAATAAAATTAA
18906352 ATGAACATGTTC-ATAAACATTAA
1 ATGAACATGTTCAATAAA-ATTAA
18906375 A
1 A
18906376 CAAACGAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 4 0.19
23 17 0.81
ACGTcount: A:0.47, C:0.11, G:0.11, T:0.32
Consensus pattern (23 bp):
ATGAACATGTTCAATAAAATTAA
Found at i:18908350 original size:28 final size:27
Alignment explanation
Indices: 18908270--18908333 Score: 85
Period size: 27 Copynumber: 2.3 Consensus size: 27
18908260 ATAAAAATTC
**
18908270 TATTTTTTAATAATTTTAC-ATTTTTAT
1 TATTTTTTAATAATTTT-CTAAATTTAT
18908297 TATTTTTTAATAATTTTCTAAAATTTAT
1 TATTTTTTAATAATTTTCT-AAATTTAT
18908325 TATTTTTTA
1 TATTTTTTA
18908334 TAGTTTTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
26 1 0.03
27 17 0.52
28 15 0.45
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (27 bp):
TATTTTTTAATAATTTTCTAAATTTAT
Found at i:18908560 original size:90 final size:90
Alignment explanation
Indices: 18908375--18908580 Score: 242
Period size: 90 Copynumber: 2.3 Consensus size: 90
18908365 GGCTTAATTG
* * * *
18908375 TTTTTTTAAAAAATTTTGAAAGTCTTTTTGATGCATTTTGCAAGTTCAAGTACCCAATTGAGTGA
1 TTTTTTTAAAAAAGTTTGAAAGCCTTTTTGATGCATTTTGAAAGTTCAAGTACCCAAGTGAGTGA
*
18908440 AAAAGAAAAGGTAAGGATTTAATTGC
66 AAAAGAAAA-GTAAGGATTTAATTAC
* * * *
18908466 TTTTTTTGAAGAAGTTTGAGAGCCTTTTT-ATGCATTTTGAAAGTTCAAGTACTCAAGTGAGTGC
1 TTTTTTTAAAAAAGTTTGAAAGCCTTTTTGATGCATTTTGAAAGTTCAAGTACCCAAGTGAGT--
* *
18908530 GAAAAA-AAAA-T-TGGGTTTAATTAC
64 GAAAAAGAAAAGTAAGGATTTAATTAC
*
18908554 TTTTTTTAAAAAAGTTTGATAG-CTTTT
1 TTTTTTTAAAAAAGTTTGAAAGCCTTTT
18908581 AACATCCTTA
Statistics
Matches: 99, Mismatches: 14, Indels: 8
0.82 0.12 0.07
Matches are distributed among these distances:
87 5 0.05
88 29 0.29
89 1 0.01
90 30 0.30
91 28 0.28
92 6 0.06
ACGTcount: A:0.34, C:0.08, G:0.18, T:0.40
Consensus pattern (90 bp):
TTTTTTTAAAAAAGTTTGAAAGCCTTTTTGATGCATTTTGAAAGTTCAAGTACCCAAGTGAGTGA
AAAAGAAAAGTAAGGATTTAATTAC
Found at i:18909148 original size:7 final size:7
Alignment explanation
Indices: 18909136--18909165 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
18909126 GAGTGTTTTA
18909136 AAAAATT
1 AAAAATT
18909143 AAAAATT
1 AAAAATT
18909150 AAAAATT
1 AAAAATT
18909157 AAAAATT
1 AAAAATT
18909164 AA
1 AA
18909166 TCAATTATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
AAAAATT
Found at i:18914737 original size:12 final size:12
Alignment explanation
Indices: 18914720--18914744 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
18914710 TAGATTTCCA
18914720 AAAATAGAAATG
1 AAAATAGAAATG
18914732 AAAATAGAAATG
1 AAAATAGAAATG
18914744 A
1 A
18914745 TCCATTTGCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (12 bp):
AAAATAGAAATG
Found at i:18914956 original size:25 final size:25
Alignment explanation
Indices: 18914891--18914961 Score: 79
Period size: 25 Copynumber: 2.8 Consensus size: 25
18914881 ATATTTTCTT
* *
18914891 AAAATTTTACTAGGGGCAAAATGGTC
1 AAAATTTTACCAAGGG-AAAATGGTC
* *
18914917 AAAATTTTACCAAGGTAAAATTGTC
1 AAAATTTTACCAAGGGAAAATGGTC
* *
18914942 AAAATTTTGCTAAGGGAAAA
1 AAAATTTTACCAAGGGAAAA
18914962 ATGAGGATAT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
25 25 0.66
26 13 0.34
ACGTcount: A:0.44, C:0.10, G:0.18, T:0.28
Consensus pattern (25 bp):
AAAATTTTACCAAGGGAAAATGGTC
Found at i:18917625 original size:127 final size:127
Alignment explanation
Indices: 18917399--18917646 Score: 397
Period size: 127 Copynumber: 2.0 Consensus size: 127
18917389 GTTGTGAAGT
* * *
18917399 GTATTTTTTTGGGTTTTGCTACTGGGGTAAAAGGCTATAAGTTATGGTGCCTAGAAACGAGTAAG
1 GTATTTTTCTGGGTTTTGCTACTGGGATAAAAGACTATAAGTTATGGTGCCTAGAAACGAGTAAG
* *
18917464 ATCATCGTCAATAGAGATGTTACGTTTGATGAAACATCGATGATTTTGTCAAAAAAAGGTTC
66 ATCATCGTCAATAGAGATGTTACGTTTGATGAAACATCGATGATTCTATCAAAAAAAGGTTC
* * *
18917526 GTATTTTTCTGGGTTTTGCTGCTGGGATAAAAGATTATAAGTTATGGTGCCTAGAAATGAGTAAG
1 GTATTTTTCTGGGTTTTGCTACTGGGATAAAAGACTATAAGTTATGGTGCCTAGAAACGAGTAAG
* * *
18917591 ATCATCGTTAGTAGAGATTTTACGTTTGATGAAACATCGATGATTCTATCAAAAAA
66 ATCATCGTCAATAGAGATGTTACGTTTGATGAAACATCGATGATTCTATCAAAAAA
18917647 GGGGTTCACC
Statistics
Matches: 110, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
127 110 1.00
ACGTcount: A:0.31, C:0.10, G:0.23, T:0.35
Consensus pattern (127 bp):
GTATTTTTCTGGGTTTTGCTACTGGGATAAAAGACTATAAGTTATGGTGCCTAGAAACGAGTAAG
ATCATCGTCAATAGAGATGTTACGTTTGATGAAACATCGATGATTCTATCAAAAAAAGGTTC
Found at i:18931694 original size:205 final size:205
Alignment explanation
Indices: 18931360--18931749 Score: 690
Period size: 205 Copynumber: 1.9 Consensus size: 205
18931350 AATAAATGTG
* * *
18931360 TTATCCACAATTCAATCATATCCTATACAATATCACAATTTTCATTTACAAGTTGTATAATCAAT
1 TTATCCACAATTCAATCATATCCTATACAAGATCACAATTTTCATTTACAAATCGTATAATCAAT
18931425 ACATATTCATATTTACACCCTATACCATTTCAATATAGCCAATATTTATACAAACTTACAATTCA
66 ACATATTCATATTTACACCCTATACCATTTCAATATAGCCAATATTTATACAAACTTACAATTCA
* *
18931490 TTCCATTTTAAAACCAATGTGTCAAATTTACTAATTCTACTAAAGTCTAATATATGTCATCACCA
131 ATCCATTTTAAAACCAATATGTCAAATTTACTAATTCTACTAAAGTCTAATATATGTCATCACCA
18931555 ATCTCTGTAA
196 ATCTCTGTAA
18931565 TTATCCACAATTCAATCATATCCTATACAAGATCACAATTTTCATTTACAAATCGTATAATCAAT
1 TTATCCACAATTCAATCATATCCTATACAAGATCACAATTTTCATTTACAAATCGTATAATCAAT
* *
18931630 ACATATTCGTATTTAGACCCTATACCATTTCAATATAGCCAATATTTATACAAACTTACAATTCA
66 ACATATTCATATTTACACCCTATACCATTTCAATATAGCCAATATTTATACAAACTTACAATTCA
** *
18931695 ATCCATTTTAAAACTTATATGTCAAATTTACTAATTCTACTCAAGTCTAATATAT
131 ATCCATTTTAAAACCAATATGTCAAATTTACTAATTCTACTAAAGTCTAATATAT
18931750 AAATAAATTC
Statistics
Matches: 175, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
205 175 1.00
ACGTcount: A:0.38, C:0.21, G:0.04, T:0.37
Consensus pattern (205 bp):
TTATCCACAATTCAATCATATCCTATACAAGATCACAATTTTCATTTACAAATCGTATAATCAAT
ACATATTCATATTTACACCCTATACCATTTCAATATAGCCAATATTTATACAAACTTACAATTCA
ATCCATTTTAAAACCAATATGTCAAATTTACTAATTCTACTAAAGTCTAATATATGTCATCACCA
ATCTCTGTAA
Found at i:18933272 original size:23 final size:25
Alignment explanation
Indices: 18933236--18933283 Score: 66
Period size: 23 Copynumber: 2.0 Consensus size: 25
18933226 ATTGATTATA
18933236 CTCTAATTGTTTT-CTCTTCTCATCT
1 CTCTAATTGTTTTCCT-TTCTCATCT
18933261 CTCT-ATTG-TTTCCTTTCTCATCT
1 CTCTAATTGTTTTCCTTTCTCATCT
18933284 ACCTTTCCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 12 0.55
24 6 0.27
25 4 0.18
ACGTcount: A:0.10, C:0.29, G:0.04, T:0.56
Consensus pattern (25 bp):
CTCTAATTGTTTTCCTTTCTCATCT
Found at i:18937214 original size:45 final size:45
Alignment explanation
Indices: 18937163--18937252 Score: 153
Period size: 45 Copynumber: 2.0 Consensus size: 45
18937153 GTTCAAAAAA
* *
18937163 AATAACATCCACGTAAATCTCATCTGCTTCTCGCTGGACCACTTT
1 AATAACATCCACGTAAATCCCATCTGCTGCTCGCTGGACCACTTT
*
18937208 AATAACATCCACGTAAATCCCATCTGCTGCTCGTTGGACCACTTT
1 AATAACATCCACGTAAATCCCATCTGCTGCTCGCTGGACCACTTT
18937253 CTTTTCTTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.27, C:0.31, G:0.12, T:0.30
Consensus pattern (45 bp):
AATAACATCCACGTAAATCCCATCTGCTGCTCGCTGGACCACTTT
Found at i:18937525 original size:22 final size:22
Alignment explanation
Indices: 18937495--18937545 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
18937485 TTAAAAATTC
*
18937495 AATTGAGGTAGTATCACTAATA
1 AATTAAGGTAGTATCACTAATA
18937517 AATTAAGGTAGTATCACTAATA
1 AATTAAGGTAGTATCACTAATA
18937539 AATTAAG
1 AATTAAG
18937546 TTCTAATTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.45, C:0.08, G:0.16, T:0.31
Consensus pattern (22 bp):
AATTAAGGTAGTATCACTAATA
Found at i:18941360 original size:27 final size:26
Alignment explanation
Indices: 18941323--18941437 Score: 140
Period size: 27 Copynumber: 4.3 Consensus size: 26
18941313 AGCATGGCTG
* *
18941323 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
18941349 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
18941377 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * * *
18941404 CTAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
18941431 CCAGAAC
1 CCAGAAC
18941438 GCTTCCTCCA
Statistics
Matches: 78, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
26 5 0.06
27 56 0.72
28 17 0.22
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:18941387 original size:54 final size:54
Alignment explanation
Indices: 18941323--18941437 Score: 160
Period size: 54 Copynumber: 2.1 Consensus size: 54
18941313 AGCATGGCTG
*
18941323 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * * *
18941377 CCAGAACAGATATATGTGGCAGAGCCACTAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
18941431 CCAGAAC
1 CCAGAAC
18941438 GCTTCCTCCA
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 37 0.69
55 17 0.31
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:18943096 original size:26 final size:26
Alignment explanation
Indices: 18943056--18943165 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
18943046 CATGAAATTC
*
18943056 TTATCATGAAGCATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
18943082 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
18943108 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
18943134 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
18943160 TTATCA
1 TTATCA
18943166 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.35, C:0.25, G:0.06, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:18946893 original size:18 final size:18
Alignment explanation
Indices: 18946865--18946899 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
18946855 GGTCTAAAGG
18946865 ACCACCGACCACCGAAACC
1 ACCACCGACCACC-AAACC
18946884 ACCA-CGACCACCAAAC
1 ACCACCGACCACCAAAC
18946900 AATATCTAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 8 0.50
19 4 0.25
ACGTcount: A:0.40, C:0.51, G:0.09, T:0.00
Consensus pattern (18 bp):
ACCACCGACCACCAAACC
Found at i:18951446 original size:2 final size:2
Alignment explanation
Indices: 18951439--18951472 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
18951429 AATTGGAAAC
18951439 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18951473 TCACACATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18952166 original size:26 final size:26
Alignment explanation
Indices: 18952112--18952164 Score: 90
Period size: 25 Copynumber: 2.1 Consensus size: 26
18952102 TCTCATATTA
*
18952112 TTAAAATAATTAAAAATTATATAGAT
1 TTAAAATAATAAAAAATTATATAGAT
18952138 TTAAAATAA-AAAAAATTATATAGAT
1 TTAAAATAATAAAAAATTATATAGAT
18952163 TT
1 TT
18952165 TATATCAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
25 17 0.65
26 9 0.35
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (26 bp):
TTAAAATAATAAAAAATTATATAGAT
Found at i:18953539 original size:20 final size:17
Alignment explanation
Indices: 18953500--18953555 Score: 58
Period size: 20 Copynumber: 3.0 Consensus size: 17
18953490 CCTTTCCATA
18953500 TTTTTTAAATTTGTTAAT
1 TTTTTTAAATTT-TTAAT
18953518 TTTTTTGAAATTTTTATGAT
1 TTTTTT-AAATTTTTA--AT
*
18953538 TTATTTAAAATTTTTAAT
1 TT-TTTTAAATTTTTAAT
18953556 AATCTCATTA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
18 11 0.33
19 6 0.18
20 13 0.39
21 3 0.09
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.64
Consensus pattern (17 bp):
TTTTTTAAATTTTTAAT
Found at i:18954040 original size:2 final size:2
Alignment explanation
Indices: 18954029--18954071 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
18954019 TAAAAATAAA
18954029 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18954070 AT
1 AT
18954072 TTTTGTGAGT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:18954276 original size:13 final size:13
Alignment explanation
Indices: 18954256--18954294 Score: 55
Period size: 12 Copynumber: 3.2 Consensus size: 13
18954246 ATATTTCAAA
18954256 TTTG-GATTTTTT
1 TTTGAGATTTTTT
*
18954268 TTTGAGATTTTTG
1 TTTGAGATTTTTT
18954281 TTTGA-ATTTTTT
1 TTTGAGATTTTTT
18954293 TT
1 TT
18954295 AACAATTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 12 0.50
13 12 0.50
ACGTcount: A:0.13, C:0.00, G:0.15, T:0.72
Consensus pattern (13 bp):
TTTGAGATTTTTT
Found at i:18956260 original size:2 final size:2
Alignment explanation
Indices: 18956253--18956278 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
18956243 AATATACTTA
18956253 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
18956279 TACCATCACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18960907 original size:25 final size:26
Alignment explanation
Indices: 18960879--18960927 Score: 75
Period size: 25 Copynumber: 1.9 Consensus size: 26
18960869 GGACTAGAAG
18960879 ATGAAGAA-AGGAAGAAGGA-AAAGGA
1 ATGAAGAACA-GAAGAAGGAGAAAGGA
18960904 ATGAAGAACAGAAGAAGGAGAAAG
1 ATGAAGAACAGAAGAAGGAGAAAG
18960928 ACTTACCTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.59, C:0.02, G:0.35, T:0.04
Consensus pattern (26 bp):
ATGAAGAACAGAAGAAGGAGAAAGGA
Found at i:18963364 original size:16 final size:15
Alignment explanation
Indices: 18963343--18963372 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
18963333 ATAAACATAA
18963343 ATAACATATGATATAC
1 ATAACATAT-ATATAC
18963359 ATAACATATATATA
1 ATAACATATATATA
18963373 AAAATGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.53, C:0.10, G:0.03, T:0.33
Consensus pattern (15 bp):
ATAACATATATATAC
Found at i:18963499 original size:17 final size:17
Alignment explanation
Indices: 18963479--18963545 Score: 52
Period size: 17 Copynumber: 3.9 Consensus size: 17
18963469 ATGTAAAAAC
*
18963479 AATATATATAAATAATT
1 AATAAATATAAATAATT
*
18963496 AATAAATATACATAATAT
1 AATAAATATAAATAAT-T
18963514 AAGTGAAA-ATATAATAA-T
1 AA-T-AAATATA-AATAATT
18963532 AATAAA-AT-AATAAT
1 AATAAATATAAATAAT
18963546 AATTCGTGAA
Statistics
Matches: 42, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
14 5 0.12
16 5 0.12
17 15 0.36
18 6 0.14
19 4 0.10
20 7 0.17
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (17 bp):
AATAAATATAAATAATT
Found at i:18963540 original size:11 final size:11
Alignment explanation
Indices: 18963474--18963547 Score: 51
Period size: 13 Copynumber: 6.2 Consensus size: 11
18963464 CTAATATGTA
*
18963474 AAAACAATATAT
1 AAAATAATA-AT
18963486 ATAAATAATTAAT
1 A-AAATAA-TAAT
18963499 AAATATACATAAT
1 AAA-ATA-ATAAT
*
18963512 ATAAGTGAA-AAT
1 A-AAAT-AATAAT
*
18963524 ATAATAATAAT
1 AAAATAATAAT
18963535 AAAATAATAAT
1 AAAATAATAAT
18963546 AA
1 AA
18963548 TTCGTGAAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 15
0.71 0.07 0.21
Matches are distributed among these distances:
10 2 0.04
11 17 0.34
12 7 0.14
13 18 0.36
14 6 0.12
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.30
Consensus pattern (11 bp):
AAAATAATAAT
Found at i:18963546 original size:17 final size:17
Alignment explanation
Indices: 18963489--18963548 Score: 61
Period size: 17 Copynumber: 3.4 Consensus size: 17
18963479 AATATATATA
18963489 AATAATTAATAAATATACAT
1 AATAA-TAATAAA-ATA-AT
18963509 AAT-ATAAGTGAAAAT-AT
1 AATAATAA-T-AAAATAAT
18963526 AATAATAATAAAATAAT
1 AATAATAATAAAATAAT
18963543 AATAAT
1 AATAAT
18963549 TCGTGAAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
16 5 0.14
17 14 0.39
18 7 0.19
19 4 0.11
20 6 0.17
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (17 bp):
AATAATAATAAAATAAT
Found at i:18963562 original size:34 final size:35
Alignment explanation
Indices: 18963512--18963580 Score: 88
Period size: 34 Copynumber: 2.0 Consensus size: 35
18963502 TATACATAAT
18963512 ATAAGTGAAAATATAATAATAATAAAATAATAATA
1 ATAAGTGAAAATATAATAATAATAAAATAATAATA
** *
18963547 ATTCGTGAAAA-ATAATGTATAAT-AAATAATAATA
1 ATAAGTGAAAATATAAT-AATAATAAAATAATAATA
18963581 TTATAAAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
34 16 0.53
35 14 0.47
ACGTcount: A:0.61, C:0.01, G:0.07, T:0.30
Consensus pattern (35 bp):
ATAAGTGAAAATATAATAATAATAAAATAATAATA
Found at i:18963645 original size:2 final size:2
Alignment explanation
Indices: 18963638--18963666 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
18963628 ACAAATAACA
18963638 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
18963667 AATGTGTAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:18964165 original size:15 final size:15
Alignment explanation
Indices: 18964145--18964182 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
18964135 TTTCTTTCTC
18964145 TCTGGCCAAGCGAAT
1 TCTGGCCAAGCGAAT
18964160 TCTGGCCAAGCGAAT
1 TCTGGCCAAGCGAAT
18964175 TCTGGCCA
1 TCTGGCCA
18964183 TTCTCCGATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.24, C:0.29, G:0.26, T:0.21
Consensus pattern (15 bp):
TCTGGCCAAGCGAAT
Found at i:18965453 original size:83 final size:82
Alignment explanation
Indices: 18965350--18965611 Score: 314
Period size: 83 Copynumber: 3.3 Consensus size: 82
18965340 TCCTTATAAG
* * **
18965350 CACAAGGATGCCAAACCATCTT-AGGTTTGTTTGAGAACA-CTTGAGAG-CCAAATCTGCTACAT
1 CACAAGAATGCCAAATCATCTTGA-GTTTGTTTGAGAACATC-TGAGAGTCC-AATCTGCTATGT
18965412 CCTCGATTTTTTTCTTGTAAA
63 CCTCGA-TTTTTTCTTGTAAA
*
18965433 CACAAGAATGCCAAATCATCTTGAGTTTGTTTGAGAACATCTGAGAGTCCAATATGCTATGTCCT
1 CACAAGAATGCCAAATCATCTTGAGTTTGTTTGAGAACATCTGAGAGTCCAATCTGCTATGTCCT
*
18965498 CGA-----T-TTGT--T
66 CGATTTTTTCTTGTAAA
18965507 C-CAAGAATGCCAAATCATCTTGAGTTTGTTTGAGAACATCTGAGAGTCCAATCTGCTATGTCCT
1 CACAAGAATGCCAAATCATCTTGAGTTTGTTTGAGAACATCTGAGAGTCCAATCTGCTATGTCCT
*
18965571 CGATTTGTTCCTTGTAAA
66 CGATTT-TTTCTTGTAAA
* *
18965589 CACAAGAATACCAGATCATCTTG
1 CACAAGAATGCCAAATCATCTTG
18965612 GATCTGCTTC
Statistics
Matches: 155, Mismatches: 11, Indels: 26
0.81 0.06 0.14
Matches are distributed among these distances:
73 65 0.42
74 1 0.01
76 4 0.03
77 1 0.01
80 4 0.03
82 1 0.01
83 75 0.48
84 4 0.03
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (82 bp):
CACAAGAATGCCAAATCATCTTGAGTTTGTTTGAGAACATCTGAGAGTCCAATCTGCTATGTCCT
CGATTTTTTCTTGTAAA
Found at i:18965516 original size:73 final size:73
Alignment explanation
Indices: 18965435--18965581 Score: 285
Period size: 73 Copynumber: 2.0 Consensus size: 73
18965425 CTTGTAAACA
18965435 CAAGAATGCCAAATCATCTTGAGTTTGTTTGAGAACATCTGAGAGTCCAATATGCTATGTCCTCG
1 CAAGAATGCCAAATCATCTTGAGTTTGTTTGAGAACATCTGAGAGTCCAATATGCTATGTCCTCG
18965500 ATTTGTTC
66 ATTTGTTC
*
18965508 CAAGAATGCCAAATCATCTTGAGTTTGTTTGAGAACATCTGAGAGTCCAATCTGCTATGTCCTCG
1 CAAGAATGCCAAATCATCTTGAGTTTGTTTGAGAACATCTGAGAGTCCAATATGCTATGTCCTCG
18965573 ATTTGTTC
66 ATTTGTTC
18965581 C
1 C
18965582 TTGTAAACAC
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 73 1.00
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (73 bp):
CAAGAATGCCAAATCATCTTGAGTTTGTTTGAGAACATCTGAGAGTCCAATATGCTATGTCCTCG
ATTTGTTC
Found at i:18965750 original size:119 final size:119
Alignment explanation
Indices: 18965537--18966814 Score: 2304
Period size: 119 Copynumber: 10.7 Consensus size: 119
18965527 TGAGTTTGTT
* *
18965537 TGAGAACATCTGAGAGTCCAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCA
1 TGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCA
* *
18965602 GATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGCTAGATCTGCTATATC
66 AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATC
* *
18965656 TAAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAACACCA
1 TGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCA
18965721 AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATC
66 AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATC
18965775 TGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCA
1 TGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCA
18965840 AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATC
66 AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATC
* *
18965894 TGAGAACTTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAACACCA
1 TGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCA
18965959 AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATC
66 AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATC
18966013 TGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCA
1 TGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCA
18966078 AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATC
66 AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATC
* * *
18966132 TGATAACTTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAACACCA
1 TGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCA
18966197 AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATC
66 AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATC
* * *
18966251 TGAGAATGTATGAGAGCCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCA
1 TGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCA
* *
18966316 GATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGCTAGATCTGCTATATC
66 AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATC
*
18966370 TGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAACACCA
1 TGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCA
* *
18966435 AATCATCTTGGATCTGCTTCAGTATAAACATTTGAAGGTTAGATCTACTATATC
66 AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATC
18966489 TGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCA
1 TGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCA
*
18966554 AATCATCTTGGATCTGTTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATC
66 AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATC
* * *
18966608 TGAGAACTTCTGAGAGTCAAATATGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAACACCA
1 TGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCA
18966673 AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATC
66 AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATC
* * * * *
18966727 TGAAAATGTATGAGAGCCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAATACAAGAATACCA
1 TGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCA
18966792 AATCATCTTGGATCTGCTTCAGT
66 AATCATCTTGGATCTGCTTCAGT
18966815 CTAATTGTCT
Statistics
Matches: 1112, Mismatches: 47, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
119 1112 1.00
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.32
Consensus pattern (119 bp):
TGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCA
AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATC
Found at i:18967665 original size:7 final size:7
Alignment explanation
Indices: 18967653--18967692 Score: 73
Period size: 7 Copynumber: 5.9 Consensus size: 7
18967643 CCTCCCCATT
18967653 TTTTTTA
1 TTTTTTA
18967660 TTTTTTA
1 TTTTTTA
18967667 TTTTTTA
1 TTTTTTA
18967674 -TTTTTA
1 TTTTTTA
18967680 TTTTTTA
1 TTTTTTA
18967687 TTTTTT
1 TTTTTT
18967693 TCTCTCTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 6 0.19
7 26 0.81
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTA
Found at i:18967677 original size:13 final size:13
Alignment explanation
Indices: 18967653--18967691 Score: 69
Period size: 13 Copynumber: 2.9 Consensus size: 13
18967643 CCTCCCCATT
18967653 TTTTTTATTTTTTA
1 TTTTTTA-TTTTTA
18967667 TTTTTTATTTTTA
1 TTTTTTATTTTTA
18967680 TTTTTTATTTTT
1 TTTTTTATTTTT
18967692 TTCTCTCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 18 0.72
14 7 0.28
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (13 bp):
TTTTTTATTTTTA
Found at i:18967679 original size:20 final size:20
Alignment explanation
Indices: 18967654--18967692 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
18967644 CTCCCCATTT
18967654 TTTTTATTTTTTATTTTTTA
1 TTTTTATTTTTTATTTTTTA
18967674 TTTTTATTTTTTATTTTTT
1 TTTTTATTTTTTATTTTTT
18967693 TCTCTCTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (20 bp):
TTTTTATTTTTTATTTTTTA
Found at i:18978532 original size:18 final size:20
Alignment explanation
Indices: 18978505--18978546 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
18978495 TATCATTTTT
18978505 AAAATAAAATAATACATA-A
1 AAAATAAAATAATACATATA
*
18978524 AAAAT-AAATAATATATATA
1 AAAATAAAATAATACATATA
18978543 AAAA
1 AAAA
18978547 ATTAATATGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (20 bp):
AAAATAAAATAATACATATA
Found at i:18978559 original size:21 final size:20
Alignment explanation
Indices: 18978520--18978562 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
18978510 AAAATAATAC
18978520 ATAAAAAATAAATAATATAT
1 ATAAAAAATAAATAATATAT
* *
18978540 ATAAAAAATTAAT-ATGTAT
1 ATAAAAAATAAATAATATAT
18978559 ATAA
1 ATAA
18978563 TATGAGTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (20 bp):
ATAAAAAATAAATAATATAT
Found at i:18978655 original size:16 final size:15
Alignment explanation
Indices: 18978634--18978663 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
18978624 ATAAACATAA
18978634 ATAACATATGATATAC
1 ATAACATAT-ATATAC
18978650 ATAACATATATATA
1 ATAACATATATATA
18978664 AAAATGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.53, C:0.10, G:0.03, T:0.33
Consensus pattern (15 bp):
ATAACATATATATAC
Found at i:18978790 original size:17 final size:16
Alignment explanation
Indices: 18978770--18978861 Score: 52
Period size: 17 Copynumber: 5.8 Consensus size: 16
18978760 ATGTAAAAAC
18978770 AATATATATAAATAATT
1 AATATATATAAATAA-T
* *
18978787 AATAAATATACATAAT
1 AATATATATAAATAAT
18978803 -ATA-AGTGA-AAAT-AT
1 AATATA-T-ATAAATAAT
*
18978817 AATA-ATAATAATAAAAT
1 AATATAT-ATAA-ATAAT
*
18978834 AATGTATAATAAATAAT
1 AATATAT-ATAAATAAT
18978851 AATAT-TATAAA
1 AATATATATAAA
18978862 ATATAAAATG
Statistics
Matches: 60, Mismatches: 8, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
14 5 0.08
15 18 0.30
16 4 0.07
17 26 0.43
18 7 0.12
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (16 bp):
AATATATATAAATAAT
Found at i:18978844 original size:15 final size:16
Alignment explanation
Indices: 18978780--18978864 Score: 68
Period size: 21 Copynumber: 5.1 Consensus size: 16
18978770 AATATATATA
18978780 AATAAT-TAATAAATAT
1 AATAATATAATAAA-AT
18978796 ACATAATATAAGTGAAAATAT
1 A-ATAATATAA-T--AAA-AT
18978817 AATAATAATAATAAAAT
1 AATAAT-ATAATAAAAT
*
18978834 AAT-GTATAAT-AAAT
1 AATAATATAATAAAAT
*
18978848 AATAATATTATAAAAT
1 AATAATATAATAAAAT
18978864 A
1 A
18978865 TAAAATGTAA
Statistics
Matches: 58, Mismatches: 3, Indels: 16
0.75 0.04 0.21
Matches are distributed among these distances:
14 7 0.12
15 10 0.17
16 7 0.12
17 10 0.17
18 6 0.10
19 1 0.02
20 6 0.10
21 11 0.19
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.33
Consensus pattern (16 bp):
AATAATATAATAAAAT
Found at i:18978866 original size:7 final size:7
Alignment explanation
Indices: 18978856--18978922 Score: 59
Period size: 7 Copynumber: 9.6 Consensus size: 7
18978846 ATAATAATAT
18978856 TATAAAA
1 TATAAAA
18978863 TATAAAA
1 TATAAAA
*
18978870 TGTAAAA
1 TATAAAA
*
18978877 CATAAAA
1 TATAAAA
18978884 -ATTAAAA
1 TA-TAAAA
18978891 T-TAAAGA
1 TATAAA-A
18978898 TA-AAAA
1 TATAAAA
*
18978904 AATAACAA
1 TATAA-AA
18978912 TATAAAA
1 TATAAAA
18978919 TATA
1 TATA
18978923 TATATATATA
Statistics
Matches: 49, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
6 7 0.14
7 36 0.73
8 6 0.12
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.25
Consensus pattern (7 bp):
TATAAAA
Found at i:18978866 original size:25 final size:24
Alignment explanation
Indices: 18978810--18978867 Score: 71
Period size: 25 Copynumber: 2.4 Consensus size: 24
18978800 AATATAAGTG
18978810 AAAATATAATAATAATAATAAAAT
1 AAAATATAATAATAATAATAAAAT
** **
18978834 AATGTATAATAAATAATAATATTAT
1 AAAATATAAT-AATAATAATAAAAT
18978859 AAAATATAA
1 AAAATATAA
18978868 AATGTAAAAC
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
24 8 0.30
25 19 0.70
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.33
Consensus pattern (24 bp):
AAAATATAATAATAATAATAAAAT
Found at i:18978923 original size:2 final size:2
Alignment explanation
Indices: 18978918--18978944 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
18978908 ACAATATAAA
18978918 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
18978945 AATGTGTAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:18982385 original size:16 final size:17
Alignment explanation
Indices: 18982364--18982404 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
18982354 AGTTAAATAC
*
18982364 ATTTTTAAACAT-TGGT
1 ATTTTTAAACATATAGT
*
18982380 ATTTTTATACATATAGT
1 ATTTTTAAACATATAGT
18982397 -TTTTTAAA
1 ATTTTTAAA
18982405 TTTATTCACA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 18 0.86
17 3 0.14
ACGTcount: A:0.34, C:0.05, G:0.07, T:0.54
Consensus pattern (17 bp):
ATTTTTAAACATATAGT
Found at i:18987348 original size:51 final size:51
Alignment explanation
Indices: 18987293--18987396 Score: 199
Period size: 51 Copynumber: 2.0 Consensus size: 51
18987283 CAATGTAAAA
18987293 CACAATTCACATATCTCACTATATCAATCACCATTTCATGAACCCATAGTT
1 CACAATTCACATATCTCACTATATCAATCACCATTTCATGAACCCATAGTT
*
18987344 CACAATTCACATATCTCACTATATCAATCACCATTTCATGAACCCATGGTT
1 CACAATTCACATATCTCACTATATCAATCACCATTTCATGAACCCATAGTT
18987395 CA
1 CA
18987397 TACATTTCAA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.35, C:0.30, G:0.05, T:0.31
Consensus pattern (51 bp):
CACAATTCACATATCTCACTATATCAATCACCATTTCATGAACCCATAGTT
Done.