Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 ID=Chr09-JGI_221_v2.0
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: 70713020
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1142373 characters in sequence are not A, C, G, or T
File 86 of 226
Found at i:30598489 original size:51 final size:51
Alignment explanation
Indices: 30598305--30598516 Score: 167
Period size: 47 Copynumber: 4.4 Consensus size: 51
30598295 TTCGTACTGT
* * * * *
30598305 TGGTGTCGGCCATTGACAGGCCAGCA-CC-AAAA-TTTTTTTTCGTACTGG
1 TGGTGCCGGCCATTGACAAGCTAGCACCCAAAAATTTTTTTTTCATACTAG
* * * * * * *
30598353 TGGTGCTGACCATTGACAGGCCAGCA--C-ACAA-TTTTTTTTCGTACTGG
1 TGGTGCCGGCCATTGACAAGCTAGCACCCAAAAATTTTTTTTTCATACTAG
*
30598400 TGGTGCCGGCCATTGACAAGCTAGCACCCAAAAATTTTTTTTTTATACTAG
1 TGGTGCCGGCCATTGACAAGCTAGCACCCAAAAATTTTTTTTTCATACTAG
* * * * *
30598451 TGGTGCCGGTCATTGACAGAGC-AGCA-CC-TAATTTTTTTTTTCGTA-TAC
1 TGGTGCCGGCCATTGACA-AGCTAGCACCCAAAAATTTTTTTTTCATACTAG
*
30598499 TGGTGCCAGCCATTGACA
1 TGGTGCCGGCCATTGACA
30598517 GTCCAACACC
Statistics
Matches: 139, Mismatches: 20, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
47 42 0.30
48 41 0.29
49 14 0.10
50 5 0.04
51 34 0.24
52 3 0.02
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.33
Consensus pattern (51 bp):
TGGTGCCGGCCATTGACAAGCTAGCACCCAAAAATTTTTTTTTCATACTAG
Found at i:30599772 original size:100 final size:99
Alignment explanation
Indices: 30599458--30599812 Score: 436
Period size: 99 Copynumber: 3.6 Consensus size: 99
30599448 TTATTAATTA
* **
30599458 TTATAAATTGTTTGTGTTTAGTTTAGTG-TT-TTGTGATTTCTTATGAATGTAATTTTTTTAAAA
1 TTATAAATTGTTTGTGTTTAGTTTAGTGTTTATTGTGATTTGTTATGAATGTAATTTTTTT--TG
*
30599521 TTAATTTATAGTTATTTTGTTAGTAATTTATGATTAGG
64 TT--TTTATAATTATTTTGTTAGTAATTTATGATTAGG
* *
30599559 TTATAAATTGTTTGTGTTTAGTTCAGTGTTTATTGTGATTTTTTATGAATGTAATTTTTTTTGTT
1 TTATAAATTGTTTGTGTTTAGTTTAGTGTTTATTGTGATTTGTTATGAATGTAATTTTTTTTGTT
* *
30599624 TTTTTAATTATTTTGTTAGTAATTTA-GTTTTAGG
66 TTTATAATTATTTTGTTAGTAATTTATG-ATTAGG
* *
30599658 TTATAAATTGTTTGTATTTAGTTTAGTGTTTATTGTGACTTGTTAT-AATGTAATTATTTTTGTG
1 TTATAAATTGTTTGTGTTTAGTTTAGTGTTTATTGTGATTTGTTATGAATGTAATT-TTTTT-TG
* * *
30599722 TTTTTAAAATTATTTTGTTTGTAAGTTATGATTAGG
64 TTTTTATAATTATTTTGTTAGTAATTTATGATTAGG
* * * * *
30599758 TTATAAATT-ATT-TGTTAAGTCTAATGTGTATTGTGATTTGTTAT-AATGTAATTTT
1 TTATAAATTGTTTGTGTTTAGTTTAGTGTTTATTGTGATTTGTTATGAATGTAATTTT
30599813 ATTTATTTGA
Statistics
Matches: 225, Mismatches: 23, Indels: 16
0.85 0.09 0.06
Matches are distributed among these distances:
97 2 0.01
98 45 0.20
99 78 0.35
100 40 0.18
101 30 0.13
102 2 0.01
103 28 0.12
ACGTcount: A:0.25, C:0.01, G:0.16, T:0.58
Consensus pattern (99 bp):
TTATAAATTGTTTGTGTTTAGTTTAGTGTTTATTGTGATTTGTTATGAATGTAATTTTTTTTGTT
TTTATAATTATTTTGTTAGTAATTTATGATTAGG
Found at i:30603749 original size:113 final size:111
Alignment explanation
Indices: 30603626--30604459 Score: 1063
Period size: 113 Copynumber: 7.5 Consensus size: 111
30603616 TAAAATAATT
* *
30603626 AAAAAAATTTACATTCGTAAAAAATCACAATAAACACTAAACTAAACCCAAACAATTTATAACCT
1 AAAAAAATTTACATTCATAAAAAATCAC-A-AAACACTAAACTAAACACAAACAATTTATAACCT
* *
30603691 AATCATAAATTACTAACAAAATAACTTTCAAATAATTAAAAAAAAAAC
64 AATCATAAATTACTAACAAAATAACTATAAAATAATTAAAAAAAAAAC
* * * *
30603739 AAAAAAATTTACA-TCTATAGAAAATCACAATAAACATTAAACTAAGCACAAGCAATTTATAACC
1 AAAAAAATTTACATTC-ATAAAAAATCAC-A-AAACACTAAACTAAACACAAACAATTTATAACC
* * * * *
30603803 TAACCATAAATTACTAACAAAATGACTTTAAAATAATT-TAAAAAATAC
63 TAATCATAAATTACTAACAAAATAACTATAAAATAATTAAAAAAAAAAC
*
30603851 AAAAAAA-TTACATTCATAGAAAAA-CACAAAACACTAAACTAAACACAAACAATTTATAACCTG
1 AAAAAAATTTACATTCATA-AAAAATCACAAAACACTAAACTAAACACAAACAATTTATAACCTA
***
30603914 ATCATAAATTACTAACAAAATAACTATAAAATAATT------TTTA-
65 ATCATAAATTACTAACAAAATAACTATAAAATAATTAAAAAAAAAAC
* * * *
30603954 AAAAAAATTTACATTCATAAAAAATCACAAAAGACTAAACTAGACACAAACAATTTATAGCCTGA
1 AAAAAAATTTACATTCATAAAAAATCACAAAACACTAAACTAAACACAAACAATTTATAACCTAA
30604019 TCATAAATTACTAACAAAATAACTATAAAATAATTTAAAAAAAACAA-
66 TCATAAATTACTAACAAAATAACTATAAAATAA-TTAAAAAAAA-AAC
** *
30604066 AAAAAAA-TTATGTTCATAAAAAATCACAAAACACTAAACTAAATACAAACAATTTATAACCTAA
1 AAAAAAATTTACATTCATAAAAAATCACAAAACACTAAACTAAACACAAACAATTTATAACCTAA
30604130 TCATAAATTACTAACAAAATAACTATAAAATAATTTAAAACAAAAAAC
66 TCATAAATTACTAACAAAATAACTATAAAATAA-TTAAAA-AAAAAAC
* * *
30604178 -AAAATATTTAAATTCATAAAAAATCACAAAATACTAAACTAAACACAAACAATTTATAACCTAA
1 AAAAAAATTTACATTCATAAAAAATCACAAAACACTAAACTAAACACAAACAATTTATAACCTAA
* * *
30604242 TCATAAATTACTAAAAAACATAACAATAAAATAATT--TAAAAAAAC
66 TCATAAATTACTAACAAA-ATAACTATAAAATAATTAAAAAAAAAAC
* * * **
30604287 AAAAAAAATTACATTCATAGAAAATCACAAAATACTAAACTAAACACAAACAATTTATAAAGTAA
1 AAAAAAATTTACATTCATAAAAAATCACAAAACACTAAACTAAACACAAACAATTTATAACCTAA
* *
30604352 TCATAAATTACTAACAAAATAACTTTCAAATAATTTTAAAAAAAACAA-
66 TCATAAATTACTAACAAAATAACTATAAAATAA--TTAAAAAAAA-AAC
* * *
30604400 AAAAAAAATTACATTCATAAAGAATCACAAAATACTAAACTAAACACAAACAATTTATAA
1 AAAAAAATTTACATTCATAAAAAATCACAAAACACTAAACTAAACACAAACAATTTATAA
30604460 TAATTAATAA
Statistics
Matches: 643, Mismatches: 55, Indels: 46
0.86 0.07 0.06
Matches are distributed among these distances:
103 12 0.02
104 83 0.13
105 2 0.00
109 83 0.13
110 77 0.12
111 110 0.17
112 107 0.17
113 167 0.26
114 2 0.00
ACGTcount: A:0.59, C:0.15, G:0.02, T:0.24
Consensus pattern (111 bp):
AAAAAAATTTACATTCATAAAAAATCACAAAACACTAAACTAAACACAAACAATTTATAACCTAA
TCATAAATTACTAACAAAATAACTATAAAATAATTAAAAAAAAAAC
Found at i:30603959 original size:222 final size:221
Alignment explanation
Indices: 30603421--30604459 Score: 1274
Period size: 215 Copynumber: 4.8 Consensus size: 221
30603411 AAAAATAAAT
* * * *
30603421 AAAATTACATT-ATAACAAATCACAATACATATTAAACT-AA-ACAAATAATTTATAACCTAATC
1 AAAATTACATTCATAAAAAATCACAA-A-ACACTAAACTAAACACAAACAATTTATAACCTAATC
* * * * * * *
30603483 ATAAATTACTAACAAAATAGCTTTAAAATAA-GTTAAAAAACAC-AAATAA-TTACATTTATAAC
64 ATAAATTACTAACAAAATAACTATAAAATAATTTTAAAAAAAACAAAAAAATTTACATTCATAAA
* *
30603545 AAATCACAATAAACACTAAACTAAACACAAACAATTTATAATCTAATCATAAATTACTAACAAAA
129 AAATCAC-A-AAATACTAAACTAAACACAAACAATTTATAACCTAATCATAAATTACTAACAAAA
*
30603610 TAACTTTAAAATAA--T------T--AAAA
192 TAACTATAAAATAATTTAAAAAATACAAAA
* * *
30603630 AAATTTACATTCGTAAAAAATCACAATAAACACTAAACTAAACCCAAACAATTTATAACCTAATC
1 AAAATTACATTCATAAAAAATCAC-A-AAACACTAAACTAAACACAAACAATTTATAACCTAATC
* * ** *
30603695 ATAAATTACTAACAAAATAACTTTCAAATAATTAAAAAAAAAACAAAAAAATTTACA-TCTATAG
64 ATAAATTACTAACAAAATAACTATAAAATAATTTTAAAAAAAACAAAAAAATTTACATTC-ATAA
* * *
30603759 AAAATCACAATAA-ACATTAAACTAAGCACAAGCAATTTATAACCTAACCATAAATTACTAACAA
128 AAAATCACAA-AATAC--TAAACTAAACACAAACAATTTATAACCTAATCATAAATTACTAACAA
* *
30603823 AATGACTTTAAAATAATTTAAAAAATAC-AAA
190 AATAACTATAAAATAATTTAAAAAATACAAAA
*
30603854 AAAATTACATTCATAGAAAAA-CACAAAACACTAAACTAAACACAAACAATTTATAACCTGATCA
1 AAAATTACATTCATA-AAAAATCACAAAACACTAAACTAAACACAAACAATTTATAACCTAATCA
*
30603918 TAAATTACTAACAAAATAACTATAAAATAATTTT------TA-AAAAAAATTTACATTCATAAAA
65 TAAATTACTAACAAAATAACTATAAAATAATTTTAAAAAAAACAAAAAAATTTACATTCATAAAA
* * * *
30603976 AATCACAAAAGACTAAACTAGACACAAACAATTTATAGCCTGATCATAAATTACTAACAAAATAA
130 AATCACAAAATACTAAACTAAACACAAACAATTTATAACCTAATCATAAATTACTAACAAAATAA
*
30604041 CTATAAAATAATTTAAAAAAAACAAAAA
195 CTATAAAATAATTTAAAAAATAC-AAAA
** *
30604069 AAAATTATGTTCATAAAAAATCACAAAACACTAAACTAAATACAAACAATTTATAACCTAATCAT
1 AAAATTACATTCATAAAAAATCACAAAACACTAAACTAAACACAAACAATTTATAACCTAATCAT
*
30604134 AAATTACTAACAAAATAACTATAAAATAA-TTTAAAACAAAA-AACAAAATATTTAAATTCATAA
66 AAATTACTAACAAAATAACTATAAAATAATTTTAAAA-AAAACAA-AAAA-ATTTACATTCATAA
*
30604197 AAAATCACAAAATACTAAACTAAACACAAACAATTTATAACCTAATCATAAATTACTAAAAAACA
128 AAAATCACAAAATACTAAACTAAACACAAACAATTTATAACCTAATCATAAATTACTAACAAA-A
*
30604262 TAACAATAAAATAATTTAAAAAA-ACAAAA
192 TAACTATAAAATAATTTAAAAAATACAAAA
* * **
30604291 AAAATTACATTCATAGAAAATCACAAAATACTAAACTAAACACAAACAATTTATAAAGTAATCAT
1 AAAATTACATTCATAAAAAATCACAAAACACTAAACTAAACACAAACAATTTATAACCTAATCAT
* * *
30604356 AAATTACTAACAAAATAACTTTCAAATAATTTTAAAAAAAACAAAAAAAAAATTACATTCATAAA
66 AAATTACTAACAAAATAACTATAAAATAATTTTAAAAAAAAC--AAAAAAATTTACATTCATAAA
*
30604421 GAATCACAAAATACTAAACTAAACACAAACAATTTATAA
129 AAATCACAAAATACTAAACTAAACACAAACAATTTATAA
30604460 TAATTAATAA
Statistics
Matches: 723, Mismatches: 65, Indels: 70
0.84 0.08 0.08
Matches are distributed among these distances:
209 10 0.01
210 18 0.02
211 4 0.01
212 50 0.07
213 77 0.11
214 19 0.03
215 188 0.26
216 3 0.00
217 1 0.00
221 3 0.00
222 164 0.23
223 133 0.18
224 46 0.06
225 7 0.01
ACGTcount: A:0.59, C:0.15, G:0.02, T:0.25
Consensus pattern (221 bp):
AAAATTACATTCATAAAAAATCACAAAACACTAAACTAAACACAAACAATTTATAACCTAATCAT
AAATTACTAACAAAATAACTATAAAATAATTTTAAAAAAAACAAAAAAATTTACATTCATAAAAA
ATCACAAAATACTAAACTAAACACAAACAATTTATAACCTAATCATAAATTACTAACAAAATAAC
TATAAAATAATTTAAAAAATACAAAA
Found at i:30604120 original size:111 final size:111
Alignment explanation
Indices: 30603953--30604459 Score: 768
Period size: 111 Copynumber: 4.5 Consensus size: 111
30603943 AATAATTTTT
* * * * *
30603953 AAAAAAAATTTACATTCATAAAAAATCACAAAAGACTAAACTAGACACAAACAATTTATAGCCTG
1 AAAAAAAAATTACATTCATAAAAAATCACAAAATACTAAACTAAACACAAACAATTTATAACCTA
30604018 ATCATAAATTACTAACAAAATAACTATAAAATAATTTAAAAAAAAC
66 ATCATAAATTACTAACAAAATAACTATAAAATAATTTAAAAAAAAC
** * *
30604064 AAAAAAAAATTATGTTCATAAAAAATCACAAAACACTAAACTAAATACAAACAATTTATAACCTA
1 AAAAAAAAATTACATTCATAAAAAATCACAAAATACTAAACTAAACACAAACAATTTATAACCTA
30604129 ATCATAAATTACTAACAAAATAACTATAAAATAATTTAAAACAAAA-
66 ATCATAAATTACTAACAAAATAACTATAAAATAATTTAAAA-AAAAC
* * *
30604175 AACAAAATATTTAAATTCATAAAAAATCACAAAATACTAAACTAAACACAAACAATTTATAACCT
1 AA-AAAAAAATTACATTCATAAAAAATCACAAAATACTAAACTAAACACAAACAATTTATAACCT
* *
30604240 AATCATAAATTACTAAAAAACATAACAATAAAATAATTT-AAAAAAAC
65 AATCATAAATTACTAACAAA-ATAACTATAAAATAATTTAAAAAAAAC
* **
30604287 -AAAAAAAATTACATTCATAGAAAATCACAAAATACTAAACTAAACACAAACAATTTATAAAGTA
1 AAAAAAAAATTACATTCATAAAAAATCACAAAATACTAAACTAAACACAAACAATTTATAACCTA
* *
30604351 ATCATAAATTACTAACAAAATAACTTTCAAATAATTTTAAAAAAAAC
66 ATCATAAATTACTAACAAAATAACTATAAAATAA-TTTAAAAAAAAC
*
30604398 AAAAAAAAAATTACATTCATAAAGAATCACAAAATACTAAACTAAACACAAACAATTTATAA
1 -AAAAAAAAATTACATTCATAAAAAATCACAAAATACTAAACTAAACACAAACAATTTATAA
30604460 TAATTAATAA
Statistics
Matches: 360, Mismatches: 28, Indels: 14
0.90 0.07 0.03
Matches are distributed among these distances:
109 12 0.03
110 78 0.22
111 113 0.31
112 82 0.23
113 75 0.21
ACGTcount: A:0.61, C:0.14, G:0.02, T:0.24
Consensus pattern (111 bp):
AAAAAAAAATTACATTCATAAAAAATCACAAAATACTAAACTAAACACAAACAATTTATAACCTA
ATCATAAATTACTAACAAAATAACTATAAAATAATTTAAAAAAAAC
Found at i:30604148 original size:437 final size:428
Alignment explanation
Indices: 30603411--30604459 Score: 1305
Period size: 437 Copynumber: 2.4 Consensus size: 428
30603401 CAAATAAATC
* * *
30603411 AAAAATA-AATAAAATTACATT-ATA-ACAAATCACAATACATATTAAACT-AA-ACAAATAATT
1 AAAAATACAAAAAAATTACATTCATAGA-AAATCACAA-A-ATACTAAACTAAACACAAACAATT
* * *
30603471 TATAACCTAATCATAAATTACTAACAAAATAGCTTTAAAATAAGTTAAAAAACACAAATAATTAC
63 TATAACCTAATCATAAATTACTAACAAAATAACTTTAAAATAATTTTAAAAA-A-AAAT--TTAC
* * *
30603536 ATTTATAACAAATCACAATAAACACTAAACTAAACACAAACAATTTATAATCTAATCATAAATTA
124 ATTCATAAAAAATCAC-A-AAACACTAAACTAAACACAAACAATTTATAACCTAATCATAAATTA
* * *
30603601 CTAACAAAATAACTTTAAAATAATTAAAAAAATTTACATTCGTAAAAAATCACAATAAACACTAA
187 CTAACAAAATAACTATAAAATAATTAAAAAAAATTACATTCATAAAAAATCACAATAAACACTAA
* * *
30603666 ACTAAACCCAAACAATTTATAACCTAATCATAAATTACTAACAAAATAACTTTCAAATAA-TTAA
252 ACTAAACACAAACAATTTATAACCTAATCATAAATTACTAACAAAATAACTATAAAATAATTTAA
* * * *
30603730 AA-AAAAAACAAAAAAATTTACA-TCTATAGAAAATCACAATAA-ACATTAAACTAAGCACAAGC
317 AACAAAAAAC-AAAAAATTTAAATTC-ATAAAAAATCACAA-AATAC--TAAACTAAACACAAAC
* * **
30603792 AATTTATAACCTAACCATAAATTACTAACAAA-ATGACTTTAAAATAATTTA
377 AATTTATAACCTAACCATAAATTACTAAAAAACATAACAATAAAATAATTTA
* *
30603843 AAAAATACAAAAAAATTACATTCATAGAAAAACACAAAACACTAAACTAAACACAAACAATTTAT
1 AAAAATACAAAAAAATTACATTCATAGAAAATCACAAAATACTAAACTAAACACAAACAATTTAT
* * *
30603908 AACCTGATCATAAATTACTAACAAAATAACTATAAAATAATTTTTAAAAAAAATTTACATTCATA
66 AACCTAATCATAAATTACTAACAAAATAACTTTAAAATAATTTTAAAAAAAAATTTACATTCATA
* * * *
30603973 AAAAATCACAAAAGACTAAACTAGACACAAACAATTTATAGCCTGATCATAAATTACTAACAAAA
131 AAAAATCACAAAACACTAAACTAAACACAAACAATTTATAACCTAATCATAAATTACTAACAAAA
**
30604038 TAACTATAAAATAATTTAAAAAAAACAAAAAAAAATTATGTTCATAAAAAATCAC-A-AAACACT
196 TAACTATAAAATAA-TT----------AAAAAAAATTACATTCATAAAAAATCACAATAAACACT
*
30604101 AAACTAAATACAAACAATTTATAACCTAATCATAAATTACTAACAAAATAACTATAAAATAATTT
250 AAACTAAACACAAACAATTTATAACCTAATCATAAATTACTAACAAAATAACTATAAAATAATTT
*
30604166 AAAACAAAAAACAAAATATTTAAATTCATAAAAAATCACAAAATACTAAACTAAACACAAACAAT
315 AAAACAAAAAACAAAAAATTTAAATTCATAAAAAATCACAAAATACTAAACTAAACACAAACAAT
*
30604231 TTATAACCTAATCATAAATTACTAAAAAACATAACAATAAAATAATTTA
380 TTATAACCTAACCATAAATTACTAAAAAACATAACAATAAAATAATTTA
30604280 AAAAA-ACAAAAAAAATTACATTCATAGAAAATCACAAAATACTAAACTAAACACAAACAATTTA
1 AAAAATAC-AAAAAAATTACATTCATAGAAAATCACAAAATACTAAACTAAACACAAACAATTTA
** * *
30604344 TAAAGTAATCATAAATTACTAACAAAATAACTTTCAAATAATTTTAAAAAAAACAAAAAAAAAAT
65 TAACCTAATCATAAATTACTAACAAAATAACTTTAAAATAATTTT---------AAAAAAAAATT
* *
30604409 TACATTCATAAAGAATCACAAAATACTAAACTAAACACAAACAATTTATAA
121 TACATTCATAAAAAATCACAAAACACTAAACTAAACACAAACAATTTATAA
30604460 TAATTAATAA
Statistics
Matches: 536, Mismatches: 50, Indels: 48
0.85 0.08 0.08
Matches are distributed among these distances:
428 63 0.12
429 3 0.01
430 18 0.03
432 19 0.04
433 17 0.03
434 66 0.12
435 1 0.00
436 46 0.09
437 182 0.34
438 32 0.06
439 33 0.06
446 56 0.10
ACGTcount: A:0.59, C:0.15, G:0.02, T:0.25
Consensus pattern (428 bp):
AAAAATACAAAAAAATTACATTCATAGAAAATCACAAAATACTAAACTAAACACAAACAATTTAT
AACCTAATCATAAATTACTAACAAAATAACTTTAAAATAATTTTAAAAAAAAATTTACATTCATA
AAAAATCACAAAACACTAAACTAAACACAAACAATTTATAACCTAATCATAAATTACTAACAAAA
TAACTATAAAATAATTAAAAAAAATTACATTCATAAAAAATCACAATAAACACTAAACTAAACAC
AAACAATTTATAACCTAATCATAAATTACTAACAAAATAACTATAAAATAATTTAAAACAAAAAA
CAAAAAATTTAAATTCATAAAAAATCACAAAATACTAAACTAAACACAAACAATTTATAACCTAA
CCATAAATTACTAAAAAACATAACAATAAAATAATTTA
Found at i:30604257 original size:59 final size:57
Alignment explanation
Indices: 30604078--30604463 Score: 176
Period size: 59 Copynumber: 6.9 Consensus size: 57
30604068 AAAAATTATG
* *
30604078 TTCATAAAAAATCACAAAACACTAAACTAAATACAAACAATTTATAACCTAATCATAAA
1 TTCATAAAAAATCACAAAATACTAAACTAAACACAAACAATTTATAA--TAATCATAAA
* ** ** * *
30604137 TT-ACTAACAAAATAACTATAAA-A-TAATTTAAA-ACAAA-AA-ACAAAAT-AT-TTAAA
1 TTCA-TAA-AAAATCAC-A-AAATACTAAACTAAACACAAACAATTTATAATAATCATAAA
30604190 TTCATAAAAAATCACAAAATACTAAACTAAACACAAACAATTTATAACCTAATCATAAA
1 TTCATAAAAAATCACAAAATACTAAACTAAACACAAACAATTTATAA--TAATCATAAA
* * ** * *
30604249 TT-ACTAAAAAA-CATAACAATAAAATAATTTAAA-A-AAACAA---A-AAAAAT--TACA
1 TTCA-TAAAAAATCACAA-AAT--ACTAAACTAAACACAAACAATTTATAATAATCATAAA
*
30604300 TTCATAGAAAATCACAAAATACTAAACTAAACACAAACAATTTATAAAGTAATCATAAA
1 TTCATAAAAAATCACAAAATACTAAACTAAACACAAACAATTTAT-AA-TAATCATAAA
* * *** * * * * *
30604359 TT-ACTAACAAAATAACTTTCAAATA--ATTTTAAA-AAAAACAA--AAAAAAAAT--TACA
1 TTCA-TAA-AAAATCAC---AAAATACTAAACTAAACACAAACAATTTATAATAATCATAAA
*
30604413 TTCATAAAGAATCACAAAATACTAAACTAAACACAAACAATTTATAATAAT
1 TTCATAAAAAATCACAAAATACTAAACTAAACACAAACAATTTATAATAAT
30604464 TAATAACAAA
Statistics
Matches: 238, Mismatches: 48, Indels: 86
0.64 0.13 0.23
Matches are distributed among these distances:
49 8 0.03
50 9 0.04
51 22 0.09
52 24 0.10
53 30 0.13
54 14 0.06
55 13 0.05
56 6 0.03
57 9 0.04
58 12 0.05
59 39 0.16
60 29 0.12
61 15 0.06
62 3 0.01
63 5 0.02
ACGTcount: A:0.61, C:0.14, G:0.01, T:0.24
Consensus pattern (57 bp):
TTCATAAAAAATCACAAAATACTAAACTAAACACAAACAATTTATAATAATCATAAA
Found at i:30604484 original size:13 final size:13
Alignment explanation
Indices: 30604466--30604491 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
30604456 ATAATAATTA
30604466 ATAACAAAATAAC
1 ATAACAAAATAAC
30604479 ATAACAAAATAAC
1 ATAACAAAATAAC
30604492 TAATCTCTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.15, G:0.00, T:0.15
Consensus pattern (13 bp):
ATAACAAAATAAC
Found at i:30605022 original size:96 final size:97
Alignment explanation
Indices: 30604829--30605224 Score: 513
Period size: 96 Copynumber: 4.1 Consensus size: 97
30604819 AAATAAGGGT
* * * *
30604829 TTAGGGTTT-AGGATTTCTTAATTAAATTAATTATAAATTTT--AAAAATTAGATTAGGGTTTAG
1 TTAGGGTTTAAGG-TTACTTGAGTAAATTAATTATAATTTTTAAAAAAATTAGATTAGGGTTTAG
*
30604891 TGTTTATGG-TTTTTAAGGAAAAAATCAAATAAA
65 TGTTTA-GGATTTTTAAAGAAAAAATCAAATAAA
* * **
30604924 TTAAGGTTTAAGGTTACTTGAGTAAATTTATTATAATTTTTTTTAAAAA-TAGATTAGGGTTTAG
1 TTAGGGTTTAAGGTTACTTGAGTAAATTAATTATAA-TTTTTAAAAAAATTAGATTAGGGTTTAG
30604988 TGTTTA-GATTTTT-AAGAAAAAAATCAAATAAA
65 TGTTTAGGATTTTTAAAG-AAAAAATCAAATAAA
* *
30605020 TTAGGGTTTAGGGTTTCTTGAGTAAATTAATTATACAATTTTTAAAAAAATTAGATTAGGGTTTA
1 TTAGGGTTTAAGGTTACTTGAGTAAATTAATTAT--AATTTTTAAAAAAATTAGATTAGGGTTTA
*
30605085 GTGTTTAGGGTTTTTAAAGAAAAAATCAAATAAA
64 GTGTTTAGGATTTTTAAAGAAAAAATCAAATAAA
* * * *
30605119 TTAGGGTTTGA-GTTACTTGAGTAAATTAATTATAAATTTAAAAAAAATTAAATTAGGGTTTAAG
1 TTAGGGTTTAAGGTTACTTGAGTAAATTAATTATAATTTTTAAAAAAATTAGATTAGGGTTT-AG
*
30605183 -GTTTAGGATTTTTAAAGAAAAGATCAAATAAA
65 TGTTTAGGATTTTTAAAGAAAAAATCAAATAAA
30605215 TTAGGGTTTA
1 TTAGGGTTTA
30605225 GGATTTAGGG
Statistics
Matches: 266, Mismatches: 23, Indels: 23
0.85 0.07 0.07
Matches are distributed among these distances:
95 30 0.11
96 121 0.45
97 33 0.12
98 49 0.18
99 30 0.11
100 3 0.01
ACGTcount: A:0.41, C:0.02, G:0.17, T:0.40
Consensus pattern (97 bp):
TTAGGGTTTAAGGTTACTTGAGTAAATTAATTATAATTTTTAAAAAAATTAGATTAGGGTTTAGT
GTTTAGGATTTTTAAAGAAAAAATCAAATAAA
Found at i:30605126 original size:44 final size:44
Alignment explanation
Indices: 30605074--30605233 Score: 121
Period size: 44 Copynumber: 3.5 Consensus size: 44
30605064 AAAAAATTAG
*
30605074 ATTAGGGTTT-AGTGTTTAGGGTTTTTAAAGAAAAAATCAAATAA
1 ATTAGGGTTTAAG-GTTTAGGATTTTTAAAGAAAAAATCAAATAA
* * * * *
30605118 ATTAGGGTTTGAGTTACTTGAGTAAATTAATTATAAATTTAAAAAA--AATTAA
1 ATTAGGGTTTAAGGT--TT-AG--GATT--TT-TAAA--GAAAAAATCAAATAA
*
30605170 ATTAGGGTTTAAGGTTTAGGATTTTTAAAGAAAAGATCAAATAA
1 ATTAGGGTTTAAGGTTTAGGATTTTTAAAGAAAAAATCAAATAA
30605214 ATTAGGGTTT-AGGATTTAGG
1 ATTAGGGTTTAAGG-TTTAGG
30605234 GTTACTTAAT
Statistics
Matches: 91, Mismatches: 11, Indels: 28
0.70 0.08 0.22
Matches are distributed among these distances:
42 5 0.05
43 3 0.03
44 36 0.40
45 4 0.04
46 2 0.02
47 5 0.05
49 4 0.04
50 2 0.02
51 2 0.02
52 22 0.24
54 6 0.07
ACGTcount: A:0.41, C:0.02, G:0.20, T:0.37
Consensus pattern (44 bp):
ATTAGGGTTTAAGGTTTAGGATTTTTAAAGAAAAAATCAAATAA
Found at i:30605195 original size:195 final size:191
Alignment explanation
Indices: 30604829--30605230 Score: 578
Period size: 195 Copynumber: 2.1 Consensus size: 191
30604819 AAATAAGGGT
*
30604829 TTAGGGTTTAGGATTTCTTAATTAAATTAATTATAAATTTTAAAAATTAGATTAGGGTTTAGTGT
1 TTAGGGTTTAGGATTTCTTAAGTAAATTAATTATAAATTTTAAAAATTAGATTAGGGTTTAGTGT
* * *
30604894 TTATGGTTTTTAAGGAAAAAATCAAATAAATTAAGGTTTAAGGTTACTTGAGTAAATTTATTATA
66 TTAGGGTTTTTAAAGAAAAAATCAAATAAATTAAGGTTTAAGGTTACTTGAGTAAATTAATTATA
* *** *
30604959 ATTTTTTTTAAAAATAGATTAGGGTTTAGTGTTTAGATTTTT-AAGAAAAAAATCAAATAAA
131 ATATTTAAAAAAAATAAATTAGGGTTTAGTGTTTAGATTTTTAAAG-AAAAAATCAAATAAA
* *
30605020 TTAGGGTTTAGGGTTTCTTGAGTAAATTAATTATACAATTTTTAAAAAAATTAGATTAGGGTTTA
1 TTAGGGTTTAGGATTTCTTAAGTAAATTAATTATA-AA-TTTT--AAAAATTAGATTAGGGTTTA
* *
30605085 GTGTTTAGGGTTTTTAAAGAAAAAATCAAATAAATTAGGGTTTGA-GTTACTTGAGTAAATTAAT
62 GTGTTTAGGGTTTTTAAAGAAAAAATCAAATAAATTAAGGTTTAAGGTTACTTGAGTAAATTAAT
*
30605149 TATAA-ATTTAAAAAAAATTAAATTAGGGTTTAAG-GTTTAGGATTTTTAAAGAAAAGATCAAAT
127 TATAATATTTAAAAAAAA-TAAATTAGGGTTT-AGTGTTTA-GATTTTTAAAGAAAAAATCAAAT
30605212 AAA
189 AAA
30605215 TTAGGGTTTAGGATTT
1 TTAGGGTTTAGGATTT
30605231 AGGGTTACTT
Statistics
Matches: 188, Mismatches: 15, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
191 32 0.17
192 2 0.01
193 12 0.06
194 40 0.21
195 99 0.53
196 3 0.02
ACGTcount: A:0.40, C:0.02, G:0.17, T:0.41
Consensus pattern (191 bp):
TTAGGGTTTAGGATTTCTTAAGTAAATTAATTATAAATTTTAAAAATTAGATTAGGGTTTAGTGT
TTAGGGTTTTTAAAGAAAAAATCAAATAAATTAAGGTTTAAGGTTACTTGAGTAAATTAATTATA
ATATTTAAAAAAAATAAATTAGGGTTTAGTGTTTAGATTTTTAAAGAAAAAATCAAATAAA
Found at i:30605489 original size:125 final size:125
Alignment explanation
Indices: 30605266--30605674 Score: 694
Period size: 125 Copynumber: 3.3 Consensus size: 125
30605256 TAATTTAAAA
* * * * * *
30605266 AAGCTCTCACGTGAACGCTCTTTTGCTACAGTAGTTCTCTCAAAAATAAATTT-AAGAAGACGTT
1 AAGCTCCCACGTGGACGCTCTTTTGCTACAGTAATT-TCTGAAAAATAATTTTGAA-AAGATGTT
* *
30605330 TCTGAGCAAATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAG
64 TATGAGCAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAATGTCAGCAAAAGTACTGAAAG
*
30605392 AAGCTCCCACTTGGACGCTCTTTTGCTACAGTAATTTCTGAAAAATAATTTTGAAAAGATGTTTA
1 AAGCTCCCACGTGGACGCTCTTTTGCTACAGTAATTTCTGAAAAATAATTTTGAAAAGATGTTTA
*
30605457 TGAGCAAATAGTGTGAAAAACGCTTCAAGCAGGATGCAATGTCAGCAAAAGTACTGAAAG
66 TGAGCAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAATGTCAGCAAAAGTACTGAAAG
30605517 AAGCTCCCACGTGGACGCTCTTTTGCTACAGTAATTTCTGAAAAATAATTTTGAAAAGATGTTTA
1 AAGCTCCCACGTGGACGCTCTTTTGCTACAGTAATTTCTGAAAAATAATTTTGAAAAGATGTTTA
*
30605582 TGAGCAAATAGTGTCAAAAACGCTTCAAGTAGGATGCAATGTCAGCAAAAGTACTGAAAG
66 TGAGCAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAATGTCAGCAAAAGTACTGAAAG
30605642 AAGCTCCCACGTGGACGCTCTTTTGCTACAGTA
1 AAGCTCCCACGTGGACGCTCTTTTGCTACAGTA
30605675 GTTCCTATTT
Statistics
Matches: 269, Mismatches: 13, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
125 235 0.87
126 34 0.13
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (125 bp):
AAGCTCCCACGTGGACGCTCTTTTGCTACAGTAATTTCTGAAAAATAATTTTGAAAAGATGTTTA
TGAGCAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAATGTCAGCAAAAGTACTGAAAG
Found at i:30606367 original size:97 final size:95
Alignment explanation
Indices: 30606256--30606490 Score: 289
Period size: 97 Copynumber: 2.5 Consensus size: 95
30606246 TCAACCCTAA
*
30606256 ATCCCAAACCCTAATTTATTTGATTTTTTCTTTAAAAACCCTAAACATTAAACCAT-ATCTAATT
1 ATCCCAAACCCTAATTTATTTGATTTTTTC-TTAAAAACCCTAAACACTAAACCATAATCTAA-T
* *
30606320 TTTTTAAAAATTTATAATTAATTTACTCAAG-T
64 CTTTT-AAAATTTATAATTAATTTAATCAAGAT
** * *
30606352 AATCTTAAACCCTAATTTATTTGATTTTTTCCTTAAAAACCATAAACACTAAACCCTAATCTAAT
1 -ATCCCAAACCCTAATTTATTTGATTTTTT-CTTAAAAACCCTAAACACTAAACCATAATCTAAT
* **
30606417 CTTTTAAATTTTATAATTAATTTAATTGAGAT
64 CTTTTAAAATTTATAATTAATTTAATCAAGAT
* *
30606449 ATCCCAAACCCTTATTCATTT-ATTTTTTCTT-AAAACCCTAAA
1 ATCCCAAACCCTAATTTATTTGATTTTTTCTTAAAAACCCTAAA
30606491 ATTTAAAAAC
Statistics
Matches: 120, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
93 10 0.08
94 3 0.03
95 7 0.06
96 38 0.32
97 55 0.46
98 7 0.06
ACGTcount: A:0.38, C:0.18, G:0.02, T:0.42
Consensus pattern (95 bp):
ATCCCAAACCCTAATTTATTTGATTTTTTCTTAAAAACCCTAAACACTAAACCATAATCTAATCT
TTTAAAATTTATAATTAATTTAATCAAGAT
Found at i:30607921 original size:4 final size:4
Alignment explanation
Indices: 30607914--30607939 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
30607904 AAACCAACCT
30607914 AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AA
30607940 ACATTGTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:30611584 original size:7 final size:7
Alignment explanation
Indices: 30611572--30611599 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
30611562 GTTGAGACAT
30611572 GTCCACA
1 GTCCACA
30611579 GTCCACA
1 GTCCACA
30611586 GTCCACA
1 GTCCACA
30611593 GTCCACA
1 GTCCACA
30611600 ACCACAAGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.43, G:0.14, T:0.14
Consensus pattern (7 bp):
GTCCACA
Found at i:30625126 original size:21 final size:20
Alignment explanation
Indices: 30625100--30625148 Score: 73
Period size: 21 Copynumber: 2.5 Consensus size: 20
30625090 AAAAAAAAGT
*
30625100 TGTTTTTTTTTGTTTTCTTG
1 TGTTTTTTTTTATTTTCTTG
30625120 CTGTTTTTTTTTATTTTCTTG
1 -TGTTTTTTTTTATTTTCTTG
30625141 T-TTTTTTT
1 TGTTTTTTT
30625149 CACTATTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 7 0.26
20 1 0.04
21 19 0.70
ACGTcount: A:0.02, C:0.06, G:0.10, T:0.82
Consensus pattern (20 bp):
TGTTTTTTTTTATTTTCTTG
Found at i:30625674 original size:18 final size:18
Alignment explanation
Indices: 30625653--30625706 Score: 74
Period size: 18 Copynumber: 3.1 Consensus size: 18
30625643 GAACACTTTC
**
30625653 AAAATACCCTAAACCCTA
1 AAAATACCAAAAACCCTA
30625671 AAAATACCAAAAACCCTA
1 AAAATACCAAAAACCCTA
*
30625689 AAAA-ACCAAAAGCCCTA
1 AAAATACCAAAAACCCTA
30625706 A
1 A
30625707 CCCGTGAGAG
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
17 13 0.39
18 20 0.61
ACGTcount: A:0.57, C:0.30, G:0.02, T:0.11
Consensus pattern (18 bp):
AAAATACCAAAAACCCTA
Found at i:30625691 original size:17 final size:17
Alignment explanation
Indices: 30625653--30625706 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
30625643 GAACACTTTC
**
30625653 AAAATACCCTAAACCCT
1 AAAATACCAAAAACCCT
30625670 AAAAATACCAAAAACCCT
1 -AAAATACCAAAAACCCT
* *
30625688 AAAAAACCAAAAGCCCT
1 AAAATACCAAAAACCCT
30625705 AA
1 AA
30625707 CCCGTGAGAG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
17 17 0.53
18 15 0.47
ACGTcount: A:0.57, C:0.30, G:0.02, T:0.11
Consensus pattern (17 bp):
AAAATACCAAAAACCCT
Found at i:30626192 original size:25 final size:26
Alignment explanation
Indices: 30626158--30626217 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 26
30626148 TGAGTTGACC
*
30626158 GCATTGATGTG-TGTTTTAGAAATAT
1 GCATTGATGTGCTATTTTAGAAATAT
30626183 GCATTGATGTGCTTATTTTAGAAATAT
1 GCATTGATGTGC-TATTTTAGAAATAT
30626210 GCATTGAT
1 GCATTGAT
30626218 CGCATCCGAT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
25 11 0.34
27 21 0.66
ACGTcount: A:0.28, C:0.07, G:0.22, T:0.43
Consensus pattern (26 bp):
GCATTGATGTGCTATTTTAGAAATAT
Found at i:30631652 original size:202 final size:201
Alignment explanation
Indices: 30631239--30631696 Score: 684
Period size: 202 Copynumber: 2.3 Consensus size: 201
30631229 AAAGTTATGG
* ** * * * *
30631239 TCTGCCATGTGCATA-TAGATAGCCTTAGGGTTTAGTGACAAATTAGTTCCCATTTGACAAATAA
1 TCTGCCATGTGCATACTA-ATTGCCTTA-GG-AAAGAGACAAATCAATTCCTATTTGACAAATAA
*
30631303 GTTTTTATTAAATTATTTGAAATTGTGTATGTCATTGAATTATTCAAATATGTTCAAAATATTTT
63 GTTTTTATTAAATTATTTGAAATTGTGTATGTCATTGAAATATTCAAATATGTTCAAAATATTTT
* * *
30631368 TTAAATGTTGATTCAAATATGATTATTGTTTGTATCAAACTGAATTACATGTTTGGATTTTTGTA
128 TTAAATGTTGATTCAAATATGATTATTATTTGTATCAAACTGAATTACAGGTTTGAATTTTTGTA
*
30631433 AACTTATTG
193 AACTTATTA
* *
30631442 TTTGCCATGTGCATACTAATTTCCTTAGGAAAGAGACAAATCAATTCCTATTTGACAAATAAGTT
1 TCTGCCATGTGCATACTAATTGCCTTAGGAAAGAGACAAATCAATTCCTATTTGACAAATAAGTT
*
30631507 TTTATTGAATTATTTGAAATTGTGTATGTCATTGAAATATTCAAATATGATTCAAAATATTTTTT
66 TTTATTAAATTATTTGAAATTGTGTATGTCATTGAAATATTCAAATATG-TTCAAAATATTTTTT
* * *
30631572 AAATGTTGATTGAAATATGATTATTATTTGTATCAAATTGAATTGCAGGTTTGAATTTTTGTAAA
130 AAATGTTGATTCAAATATGATTATTATTTGTATCAAACTGAATTACAGGTTTGAATTTTTGTAAA
30631637 CTTATTA
195 CTTATTA
* * *
30631644 TCTGCCATGTGCATACTAATTGCCTTAGGTAAGAGTCAATTCAATTCCTATTT
1 TCTGCCATGTGCATACTAATTGCCTTAGGAAAGAGACAAATCAATTCCTATTT
30631697 TTATGACTAA
Statistics
Matches: 230, Mismatches: 23, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
201 77 0.33
202 130 0.57
203 21 0.09
204 2 0.01
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (201 bp):
TCTGCCATGTGCATACTAATTGCCTTAGGAAAGAGACAAATCAATTCCTATTTGACAAATAAGTT
TTTATTAAATTATTTGAAATTGTGTATGTCATTGAAATATTCAAATATGTTCAAAATATTTTTTA
AATGTTGATTCAAATATGATTATTATTTGTATCAAACTGAATTACAGGTTTGAATTTTTGTAAAC
TTATTA
Found at i:30636913 original size:21 final size:21
Alignment explanation
Indices: 30636862--30636922 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 21
30636852 ACCAAATGGT
* * * *
30636862 TGCCCCAACTCAGCAAGAAGC
1 TGCCCAAACTCACCAACAAAC
* *
30636883 TACCCAAACTCATCAACAAAC
1 TGCCCAAACTCACCAACAAAC
*
30636904 TGCCCTAACTCACCAACAA
1 TGCCCAAACTCACCAACAA
30636923 GTTGCTGCCC
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.39, C:0.39, G:0.08, T:0.13
Consensus pattern (21 bp):
TGCCCAAACTCACCAACAAAC
Found at i:30639397 original size:13 final size:12
Alignment explanation
Indices: 30639372--30639423 Score: 50
Period size: 13 Copynumber: 4.0 Consensus size: 12
30639362 GTATTTATTT
30639372 ATATAAATAAAA
1 ATATAAATAAAA
30639384 ATATGAAATTAAAA
1 ATAT-AAA-TAAAA
**
30639398 ATATTTTATAAAA
1 ATA-TAAATAAAA
30639411 ATAATAAATAAAA
1 AT-ATAAATAAAA
30639424 TTAATTTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
12 4 0.12
13 17 0.53
14 10 0.31
15 1 0.03
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (12 bp):
ATATAAATAAAA
Found at i:30639434 original size:25 final size:28
Alignment explanation
Indices: 30639378--30639438 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 28
30639368 ATTTATATAA
*
30639378 ATAAAAAT-ATGAAATTAAAAATATTTT
1 ATAAAAATAATGAAATTAAAAATAATTT
*
30639405 ATAAAAATAAT-AAA-TAAAATTAATTT
1 ATAAAAATAATGAAATTAAAAATAATTT
30639431 -TAAAAATA
1 ATAAAAATA
30639439 CTTTAACTGT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
25 8 0.26
26 10 0.32
27 11 0.35
28 2 0.06
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (28 bp):
ATAAAAATAATGAAATTAAAAATAATTT
Found at i:30639647 original size:7 final size:7
Alignment explanation
Indices: 30639623--30639667 Score: 54
Period size: 7 Copynumber: 6.3 Consensus size: 7
30639613 AAAAACTCAA
30639623 TTAAAAT
1 TTAAAAT
*
30639630 ATTTAAAT
1 -TTAAAAT
*
30639638 TTACAAT
1 TTAAAAT
*
30639645 TTACAAT
1 TTAAAAT
30639652 TTAAAAT
1 TTAAAAT
30639659 TTAAAAT
1 TTAAAAT
30639666 TT
1 TT
30639668 GTCCGGGAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
7 27 0.82
8 6 0.18
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (7 bp):
TTAAAAT
Found at i:30644862 original size:16 final size:16
Alignment explanation
Indices: 30644841--30644871 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
30644831 AAAAAAAAAG
30644841 TATGTAGACATAAATA
1 TATGTAGACATAAATA
*
30644857 TATGTATACATAAAT
1 TATGTAGACATAAAT
30644872 TATAAAATAT
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:0.06, G:0.10, T:0.35
Consensus pattern (16 bp):
TATGTAGACATAAATA
Found at i:30644968 original size:3 final size:3
Alignment explanation
Indices: 30644960--30645037 Score: 72
Period size: 3 Copynumber: 25.3 Consensus size: 3
30644950 GTAAATGATC
*
30644960 ATA ATA ATAA ATGCA ATA ATA ATA ATA ATA ATA ATA ATA AT- ATA CCTA
1 ATA ATA AT-A AT--A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA
*
30645008 ATTA AT- TTA ATA ATA ATA ATA ATA A-A ATA A
1 A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
30645038 CGAGACTAAA
Statistics
Matches: 63, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
2 5 0.08
3 47 0.75
4 8 0.13
5 3 0.05
ACGTcount: A:0.62, C:0.04, G:0.01, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:30646525 original size:100 final size:100
Alignment explanation
Indices: 30646392--30646581 Score: 242
Period size: 100 Copynumber: 1.9 Consensus size: 100
30646382 AACTCGTAAT
** *
30646392 TTTAATCTGCTTAACTGTGATGTCAAGGAAGCAAGATTCGC-CATTGTAGCTTTAAC-CCGTTCC
1 TTTAATCTGCTTAACTGCAATGTCAAGGAAGCAAGATTCACTCA-TGTAGCTTT-ACTCCGTTCC
30646455 ACTGCACCGCC-TGTGAAGTAAGATTTGCTATTGTAGC
64 ACTGCACCGCCTTG-GAAGTAAGATTTGCTATTGTAGC
** * * * *
30646492 TTTAATCTTTTTAACTGCAATGTCGAGGAAGCAAGATTCACTGATGTGGCTTTACTCTGTTCCAC
1 TTTAATCTGCTTAACTGCAATGTCAAGGAAGCAAGATTCACTCATGTAGCTTTACTCCGTTCCAC
*
30646557 TGCATCGCCTTGGAAGTAAGATTTG
66 TGCACCGCCTTGGAAGTAAGATTTG
30646582 AAATTCTTCG
Statistics
Matches: 77, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
99 2 0.03
100 72 0.94
101 3 0.04
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.34
Consensus pattern (100 bp):
TTTAATCTGCTTAACTGCAATGTCAAGGAAGCAAGATTCACTCATGTAGCTTTACTCCGTTCCAC
TGCACCGCCTTGGAAGTAAGATTTGCTATTGTAGC
Found at i:30646760 original size:44 final size:44
Alignment explanation
Indices: 30646682--30646835 Score: 174
Period size: 44 Copynumber: 3.6 Consensus size: 44
30646672 TTTTAATCCA
* * *
30646682 CTCCACTGTGATCTCAGGGAAATAGGATTACTGGCTTCAATCTG
1 CTCCACTGTAATCTCAGGGAGATAAGATTACTGGCTTCAATCTG
* *
30646726 CTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTG
1 CTCCACTGTAATCTCAGGGAGATAAGATTACTGGCTTCAATCTG
* * ** *
30646770 CTCCACTGTAACCTCAAGGAGATAAGA-T--T--CTTCGGTCTA
1 CTCCACTGTAATCTCAGGGAGATAAGATTACTGGCTTCAATCTG
*
30646809 TTCCACTGTAATCTCAGGGAGATAAGA
1 CTCCACTGTAATCTCAGGGAGATAAGA
30646836 CCTGATGCAA
Statistics
Matches: 96, Mismatches: 14, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
39 31 0.32
41 1 0.01
43 1 0.01
44 63 0.66
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (44 bp):
CTCCACTGTAATCTCAGGGAGATAAGATTACTGGCTTCAATCTG
Found at i:30646983 original size:212 final size:211
Alignment explanation
Indices: 30646584--30647008 Score: 563
Period size: 212 Copynumber: 2.0 Consensus size: 211
30646574 AAGATTTGAA
* * *
30646584 ATTCTTCGGTCCATTCCCCTGTAATCTCAAGGAGATAAGACCTGATGCGATCTACTTTACTGTAA
1 ATTCTTCGGTCCATTCCACTGTAATCTCAAGGAGATAAGACCTGATGCAATCTACTCTACTGTAA
* *
30646649 TTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTGATCTCAGGGAAATAGGATTACT
66 CTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAATCTCAGGGAAATAGGATTACT
* * * * *
30646714 GGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGCTCCACTGT
131 GGCTTAAATATGCTCCGCTCTAATCTCAGGGAGATAAGATTGCCGGCTTCAATCTGCTCCACTGT
30646779 AACCTCAAGGAGATAAG
196 -ACCTCAAGGAGATAAG
* *
30646796 ATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGATGCAATCTACTCTACTGTAA
1 ATTCTTCGGTCCATTCCACTGTAATCTCAAGGAGATAAGACCTGATGCAATCTACTCTACTGTAA
** *
30646861 CTTCAGAGAGATAAGATCCTTTATTTTAATCCGTTCCACTGTAATCTCAGGGAAATAGGACTT-G
66 CTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAATCTCAGGGAAATAGGA-TTAC
* * * *
30646925 TGGCTTAAATATGTTTCC-CTACT-A-CT-GGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCC
130 TGGCTTAAATATG-CTCCGCT-CTAATCTCAGGG-AGATAAGATT-GCCGGCTTCAATCTGCTCC
** *
30646986 ACTGTTGCTTAAGGAGATAAG
191 ACTGTACCTCAAGGAGATAAG
30647007 AT
1 AT
30647009 CTGTAGTTTC
Statistics
Matches: 186, Mismatches: 22, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
210 3 0.02
211 27 0.15
212 150 0.81
213 6 0.03
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (211 bp):
ATTCTTCGGTCCATTCCACTGTAATCTCAAGGAGATAAGACCTGATGCAATCTACTCTACTGTAA
CTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAATCTCAGGGAAATAGGATTACT
GGCTTAAATATGCTCCGCTCTAATCTCAGGGAGATAAGATTGCCGGCTTCAATCTGCTCCACTGT
ACCTCAAGGAGATAAG
Found at i:30647330 original size:131 final size:130
Alignment explanation
Indices: 30646906--30647791 Score: 962
Period size: 128 Copynumber: 6.8 Consensus size: 130
30646896 CCACTGTAAT
* * * *
30646906 CTCAGGGAAATAGGACTTGTGGCTTAAATATGTTTCCCTACTACTGGGGAAGATAAGATTCGCCG
1 CTCAGGGAAATAGGACTTGTGGCTTAAATCTGCTTCCC-ACTACTTGGAAAGATAAGATTCGCCG
** * * * * *
30646971 TCTTCGATCTGCTCCACTGTTGCTTAAGGAGATAAGATCTGTAGTTTCCAACCTATTCCACTGTT
65 TCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGCAATTTCCAACCTATTCCACTGCT
30647036 G
130 G
* * *
30647037 CTCAGGGAAATATGACTTGTGGCTTAAATATGTTTCCCTACTATCTTGGAAAGATAAGA-T----
1 CTCAGGGAAATAGGACTTGTGGCTTAAATCTGCTTCCC-ACTA-CTTGGAAAGATAAGATTCGCC
* * ** *
30647097 -TCTTCGATCTGCTCCACTACTGCTTA-GGAGATAAGATCTGCTATCTT-CAACCTGCTCCGCTG
64 GTCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGCAAT-TTCCAACCTATTCCACTG
30647159 CTG
128 CTG
* * * * * *
30647162 CTCAGGGAGACAAGACTCGGTGGCTTAAATCTGCTTCCCACTATCTTAGAAAGATAAGATTTGCC
1 CTCAGGGAAATAGGACT-TGTGGCTTAAATCTGCTTCCCACTA-CTTGGAAAGATAAGATTCGCC
* * * * *
30647227 GTCTTTGATCTGCTCCGCTACTACCTAGGGAGACAAGATCTGCAATTTCTAACCTATTCCACTGC
64 GTCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGCAATTTCCAACCTATTCCACTGC
30647292 TG
129 TG
* * * *
30647294 GTCAGGGATATAGGACTTGTGGCTTAAATCTACTTCCTTAC-ACTT-G-AAGATAAGATTCGCCG
1 CTCAGGGAAATAGGACTTGTGGCTTAAATCTGCTTCC-CACTACTTGGAAAGATAAGATTCGCCG
* * * * *
30647356 TCTTCGATCTACTCCACTACTGCTTAAGGAGACAAGATCTGCAATTTCCAACCTGTTCCATTCCT
65 TCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGCAATTTCCAACCTATTCCACTGCT
30647421 G
130 G
* * * *
30647422 GTCAGGGACATTGGACTTGTGGCTTAAATCTGCTTCCTTAC-ACTT-G-AAGATAAGATTCGCCG
1 CTCAGGGAAATAGGACTTGTGGCTTAAATCTGCTTCC-CACTACTTGGAAAGATAAGATTCGCCG
* * *
30647484 TCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTACT
65 TCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGCAATTTCCAACCTATTCCACTGCT
30647549 G
130 G
* * * * *
30647550 GTCAGGGATATAGGACTTGTGGCTTAAATCTGTTTCCCTACTACTGGGGAAGATAAGATTCGCCG
1 CTCAGGGAAATAGGACTTGTGGCTTAAATCTGCTTCCC-ACTACTTGGAAAGATAAGATTCGCCG
* ** *
30647615 TCTTCGATCTGCTCCACTA-TCGCTTAGGGAGACAAGATCTACAATCTT-CAACCTGCTCCGCTG
65 TCTTCGATCTGCTCCACTACT-GCTTAGGGAGACAAGATCTGCAAT-TTCCAACCTATTCCACTG
30647678 CTG
128 CTG
* * * *
30647681 CTCAGGGAGACA-AGG-CTCGGTGGCCTCAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTG
1 CTCAGGGA-A-ATAGGACT-TGTGGCTTAAATCTGCTTCCCACTA-CTTGGAAAGATAAGATTCG
* *
30647744 CCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTACAAT
62 CCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGCAAT
30647792 ATTCACTGAT
Statistics
Matches: 653, Mismatches: 79, Indels: 45
0.84 0.10 0.06
Matches are distributed among these distances:
125 62 0.09
126 45 0.07
128 225 0.34
129 4 0.01
130 5 0.01
131 169 0.26
132 141 0.22
133 2 0.00
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (130 bp):
CTCAGGGAAATAGGACTTGTGGCTTAAATCTGCTTCCCACTACTTGGAAAGATAAGATTCGCCGT
CTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGCAATTTCCAACCTATTCCACTGCTG
Found at i:30648993 original size:14 final size:13
Alignment explanation
Indices: 30648966--30649000 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
30648956 CCATTTTTAC
*
30648966 TTTTTCATTTTCA
1 TTTTTCATTGTCA
30648979 TTTTTCAGTTGTCA
1 TTTTTCA-TTGTCA
30648993 TTTTTCAT
1 TTTTTCAT
30649001 CCCCCTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.14, C:0.14, G:0.06, T:0.66
Consensus pattern (13 bp):
TTTTTCATTGTCA
Found at i:30654707 original size:16 final size:16
Alignment explanation
Indices: 30654686--30654716 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
30654676 TAAAAAAAAG
30654686 TATGTAGACATAAATA
1 TATGTAGACATAAATA
*
30654702 TATGTATACATAAAT
1 TATGTAGACATAAAT
30654717 TATAAAATAT
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:0.06, G:0.10, T:0.35
Consensus pattern (16 bp):
TATGTAGACATAAATA
Found at i:30654814 original size:3 final size:3
Alignment explanation
Indices: 30654806--30654880 Score: 57
Period size: 3 Copynumber: 24.3 Consensus size: 3
30654796 GTAAATGATC
*
30654806 ATA ATA ATAA ATGCA ATA ATA ATA ATA ATA GTA ATA ATA ATA AT- ATA
1 ATA ATA AT-A AT--A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
30654853 GCTA ATTA AT- TTA ATA ATA ATA A-A ATA A
1 -ATA A-TA ATA ATA ATA ATA ATA ATA ATA A
30654881 CGGGACTAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
2 5 0.09
3 42 0.72
4 8 0.14
5 3 0.05
ACGTcount: A:0.60, C:0.03, G:0.04, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:30654858 original size:18 final size:18
Alignment explanation
Indices: 30654806--30654858 Score: 69
Period size: 18 Copynumber: 3.1 Consensus size: 18
30654796 GTAAATGATC
30654806 ATAATAATAA-AT-GC-A
1 ATAATAATAATATAGCTA
30654821 ATAATAATAATAATAG-TA
1 ATAATAATAAT-ATAGCTA
30654839 ATAATAATAATATAGCTA
1 ATAATAATAATATAGCTA
30654857 AT
1 AT
30654859 TAATTTAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
15 10 0.30
17 6 0.18
18 17 0.52
ACGTcount: A:0.58, C:0.04, G:0.06, T:0.32
Consensus pattern (18 bp):
ATAATAATAATATAGCTA
Found at i:30656453 original size:113 final size:114
Alignment explanation
Indices: 30656255--30656837 Score: 778
Period size: 114 Copynumber: 5.1 Consensus size: 114
30656245 AAAATAAGCA
* ** *
30656255 TTAGCGGTGTTTTCCAGAAAGCGCCGC-AAAATACCTAAGCCCAACGACGCCGTTTT-TCGAGCT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCT-GAGCT
** * *
30656318 TTTAGGGATTTAGCGGCATTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
65 TTCGGGGATTTAGCGGCGTTTTTAAGTAAGCGCCGCTAATGCTCAGGGCT
* * *
30656368 TTAGCGGCGTTTTTGAGAAAGTGCCACAAAAAAACCTAAGCCCAACGAAGCCG-TTTCTGAGCTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
* *
30656432 TCGGGGATTTAGCGGCGTTTTTAAGTAAGCGCCACTAATGCTCAGAGCT
66 TCGGGGATTTAGCGGCGTTTTTAAGTAAGCGCCGCTAATGCTCAGGGCT
* ** * *
30656481 TTAGCAGCGTTGATGAGAAGGCGCCGCAAAAAAACCTAAGCCCAACGACGCTGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
* *
30656546 TCGGGGATTTAGCAGCGTTTTTAAGTAAGCGCCGCTAATGCTCAAGGCT
66 TCGGGGATTTAGCGGCGTTTTTAAGTAAGCGCCGCTAATGCTCAGGGCT
* * **
30656595 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAATACCTAAGCCCAACGACGTTGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
** * *
30656660 TCGGGGATTTAGTAGTGTGTTTT-AGTAAGCGCCGCTAATGCTCAGGGAT
66 TCGGGGATTTAGCGGCGT-TTTTAAGTAAGCGCCGCTAATGCTCAGGGCT
* * * * * * *
30656709 TTTGCGGCGTTTTTGATAAAGCACCGCGAAAAAAACCTAAGCCCAACAACGTCGTTTTCTTAGGT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGC-AAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
*
30656774 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
65 TTCGGGGATTTAGCGGCGTTTTTAAGTAAGCGCCGCTAATGCTCAGGGCT
*
30656824 TTAGCGGCATTTTT
1 TTAGCGGCGTTTTT
30656838 TAGGATGTGC
Statistics
Matches: 412, Mismatches: 52, Indels: 10
0.87 0.11 0.02
Matches are distributed among these distances:
113 119 0.29
114 205 0.50
115 88 0.21
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (114 bp):
TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
TCGGGGATTTAGCGGCGTTTTTAAGTAAGCGCCGCTAATGCTCAGGGCT
Found at i:30656854 original size:41 final size:41
Alignment explanation
Indices: 30656778--30656867 Score: 117
Period size: 41 Copynumber: 2.2 Consensus size: 41
30656768 TTAGGTTTCG
* *
30656778 GGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCA
1 GGGATTTAGCGGCATTTTTAAGAAAGCGCCACTAATGCTCA
* * * * *
30656819 GGGCTTTAGCGGCATTTTTTAGGATGTGCCACTAATGCTCA
1 GGGATTTAGCGGCATTTTTAAGAAAGCGCCACTAATGCTCA
30656860 GGGATTTA
1 GGGATTTA
30656868 AAATAATTTA
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (41 bp):
GGGATTTAGCGGCATTTTTAAGAAAGCGCCACTAATGCTCA
Found at i:30657489 original size:14 final size:14
Alignment explanation
Indices: 30657470--30657509 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
30657460 TTAATTTGAT
* *
30657470 TTAAGGTTTATGGG
1 TTAAGGGTTAGGGG
30657484 TTAAGGGTTAGGGG
1 TTAAGGGTTAGGGG
*
30657498 TTAGGGGTTAGG
1 TTAAGGGTTAGG
30657510 TTAGGGGTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.20, C:0.00, G:0.45, T:0.35
Consensus pattern (14 bp):
TTAAGGGTTAGGGG
Found at i:30657513 original size:12 final size:13
Alignment explanation
Indices: 30657481--30657519 Score: 53
Period size: 12 Copynumber: 3.0 Consensus size: 13
30657471 TAAGGTTTAT
*
30657481 GGGTTAAGGGTTA
1 GGGTTAGGGGTTA
30657494 GGGGTTAGGGGTTA
1 -GGGTTAGGGGTTA
30657508 -GGTTAGGGGTTA
1 GGGTTAGGGGTTA
30657520 AATGTTAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 12 0.50
14 12 0.50
ACGTcount: A:0.18, C:0.00, G:0.51, T:0.31
Consensus pattern (13 bp):
GGGTTAGGGGTTA
Found at i:30657526 original size:19 final size:20
Alignment explanation
Indices: 30657482--30657536 Score: 58
Period size: 19 Copynumber: 2.7 Consensus size: 20
30657472 AAGGTTTATG
**
30657482 GGTTAAGGGTTAGGGGTTAGG
1 GGTTAA-GGTTAGGGGTTAAA
30657503 GGTT-AGGTTAGGGGTTAAA
1 GGTTAAGGTTAGGGGTTAAA
*
30657522 TGTTAAGAGTTAGGG
1 GGTTAAG-GTTAGGG
30657537 ATTTAGGGAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 15 0.52
20 3 0.10
21 11 0.38
ACGTcount: A:0.24, C:0.00, G:0.45, T:0.31
Consensus pattern (20 bp):
GGTTAAGGTTAGGGGTTAAA
Found at i:30657680 original size:95 final size:93
Alignment explanation
Indices: 30657563--30657890 Score: 383
Period size: 95 Copynumber: 3.6 Consensus size: 93
30657553 TTTGGTGTTA
* *
30657563 GGTTAGAGTTTAGGGTTTAGATTAATTAGTGTGTTTTAA-TTATATATTAAATAAGGTTTAGGGG
1 GGTTAG-GTTTAGGGTTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAAAGTTTAGGGG
30657627 TTAAGGGTTAAGGGTTAGGGATTTAGGATCG
65 TT-AGGGTTAAGGGTTAGGGATTTAGG-TCG
30657658 GGTTATGGTTTAGGGTTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAAAGTTTAGGGG
1 GGTTA-GGTTTAGGGTTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAAAGTTTAGGGG
* * *
30657723 TTAGGGATTCAGAG-TCGGG-TTTA-----
65 TTAGGG-TTAAGGGTTAGGGATTTAGGTCG
*
30657746 -G---GGCTTAGGGTTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAAAGTTTAGGGGT
1 GGTTAGGTTTAGGGTTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAAAGTTTAGGGGT
* * * *
30657807 TGGGGTTAGGGGTTAGGGATTTGGGGTCA
66 TAGGGTTAAGGGTTAGGGATTT-AGGTCG
* * **
30657836 GGTTAGAGTTTAAGATTTAGATTAATTAGTACTTTTTAATTTATATATTAAATAA
1 GGTTAG-GTTTAGGGTTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAA
30657891 GTTCTTTATA
Statistics
Matches: 200, Mismatches: 17, Indels: 32
0.80 0.07 0.13
Matches are distributed among these distances:
82 4 0.02
83 67 0.34
84 3 0.01
87 1 0.00
91 1 0.00
94 5 0.03
95 87 0.44
96 32 0.16
ACGTcount: A:0.29, C:0.02, G:0.27, T:0.43
Consensus pattern (93 bp):
GGTTAGGTTTAGGGTTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAAAGTTTAGGGGT
TAGGGTTAAGGGTTAGGGATTTAGGTCG
Found at i:30657776 original size:83 final size:82
Alignment explanation
Indices: 30657638--30657807 Score: 288
Period size: 83 Copynumber: 2.1 Consensus size: 82
30657628 TAAGGGTTAA
* * *
30657638 GGGTTAGGGATTTAGGATCGGGTTATGGTTTAGGGTTTAGATTAATTAGTGTTTTTTAATTTATA
1 GGGTTAGGGATTCAGGATCGGGTTAGGGCTTAGGGTTTAGATTAATTAGTGTTTTTTAATTTATA
30657703 TATTAAATAAAGTTTAG
66 TATTAAATAAAGTTTAG
30657720 GGGTTAGGGATTCA-GAGTCGGGTTTAGGGCTTAGGGTTTAGATTAATTAGTGTTTTTTAATTTA
1 GGGTTAGGGATTCAGGA-TCGGG-TTAGGGCTTAGGGTTTAGATTAATTAGTGTTTTTTAATTTA
30657784 TATATTAAATAAAGTTTAG
64 TATATTAAATAAAGTTTAG
30657803 GGGTT
1 GGGTT
30657808 GGGGTTAGGG
Statistics
Matches: 83, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
81 2 0.02
82 18 0.22
83 63 0.76
ACGTcount: A:0.27, C:0.02, G:0.27, T:0.44
Consensus pattern (82 bp):
GGGTTAGGGATTCAGGATCGGGTTAGGGCTTAGGGTTTAGATTAATTAGTGTTTTTTAATTTATA
TATTAAATAAAGTTTAG
Found at i:30658009 original size:10 final size:9
Alignment explanation
Indices: 30657986--30658025 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
30657976 ATAATAATTT
30657986 AAAATTGT-
1 AAAATTGTA
30657994 AAAATTGTAA
1 AAAATTGT-A
30658004 AAAATTGTA
1 AAAATTGTA
*
30658013 AAAATTATA
1 AAAATTGTA
30658022 AAAA
1 AAAA
30658026 ATAAAATTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
8 8 0.28
9 13 0.45
10 8 0.28
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.30
Consensus pattern (9 bp):
AAAATTGTA
Found at i:30658009 original size:18 final size:19
Alignment explanation
Indices: 30657986--30658027 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
30657976 ATAATAATTT
*
30657986 AAAATTGT-AAAATTGTAA
1 AAAATTGTAAAAATTATAA
30658004 AAAATTGTAAAAATTATAA
1 AAAATTGTAAAAATTATAA
30658023 AAAAT
1 AAAAT
30658028 AAAATTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (19 bp):
AAAATTGTAAAAATTATAA
Found at i:30658026 original size:10 final size:10
Alignment explanation
Indices: 30657986--30658027 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 10
30657976 ATAATAATTT
30657986 AAAATTGT--
1 AAAATTGTAA
30657994 AAAATTGTAA
1 AAAATTGTAA
30658004 AAAATTGT-A
1 AAAATTGTAA
*
30658013 AAAATTATAA
1 AAAATTGTAA
30658023 AAAAT
1 AAAAT
30658028 AAAATTAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
8 8 0.27
9 8 0.27
10 14 0.47
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (10 bp):
AAAATTGTAA
Found at i:30658051 original size:8 final size:9
Alignment explanation
Indices: 30658021--30658063 Score: 50
Period size: 11 Copynumber: 4.3 Consensus size: 9
30658011 TAAAAATTAT
30658021 AAAAAATAA
1 AAAAAATAA
30658030 AATTAAAATAA
1 AA--AAAATAA
30658041 AAAAAATAAA
1 AAAAAAT-AA
30658051 AAAGAAATAA
1 AAA-AAATAA
30658061 AAA
1 AAA
30658064 CACTAATTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
9 7 0.23
10 10 0.33
11 13 0.43
ACGTcount: A:0.84, C:0.00, G:0.02, T:0.14
Consensus pattern (9 bp):
AAAAAATAA
Found at i:30658058 original size:20 final size:20
Alignment explanation
Indices: 30658011--30658063 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
30658001 TAAAAAATTG
*
30658011 TAAAAATTATAAAAAATAAAA
1 TAAAAA-TAAAAAAAATAAAA
*
30658032 TTAAAATAAAAAAAATAAAA
1 TAAAAATAAAAAAAATAAAA
30658052 -AAGAAATAAAAA
1 TAA-AAATAAAAA
30658064 CACTAATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 1 0.04
20 22 0.79
21 5 0.18
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (20 bp):
TAAAAATAAAAAAAATAAAA
Found at i:30664350 original size:26 final size:26
Alignment explanation
Indices: 30664321--30664429 Score: 82
Period size: 26 Copynumber: 4.3 Consensus size: 26
30664311 CAAATATTGC
*
30664321 TAAATAAACATCAGCTCAAGGCCTGT
1 TAAATAAACACCAGCTCAAGGCCTGT
* *
30664347 TAAATACACACCGGCTCAAGGCC---
1 TAAATAAACACCAGCTCAAGGCCTGT
* * *
30664370 TAAATACACACC-GACTCAAGACCTGC
1 TAAATAAACACCAG-CTCAAGGCCTGT
* * * **
30664396 TAAATAATCACTAGGTCAAGGCCTAC
1 TAAATAAACACCAGCTCAAGGCCTGT
30664422 TAAATAAA
1 TAAATAAA
30664430 GTACATCAAA
Statistics
Matches: 67, Mismatches: 11, Indels: 10
0.76 0.12 0.11
Matches are distributed among these distances:
22 1 0.01
23 20 0.30
26 45 0.67
27 1 0.01
ACGTcount: A:0.40, C:0.27, G:0.14, T:0.19
Consensus pattern (26 bp):
TAAATAAACACCAGCTCAAGGCCTGT
Found at i:30664377 original size:23 final size:23
Alignment explanation
Indices: 30664320--30664389 Score: 77
Period size: 23 Copynumber: 2.9 Consensus size: 23
30664310 TCAAATATTG
* * *
30664320 CTAAATAAACATCAGCTCAAGGC
1 CTAAATACACACCGGCTCAAGGC
30664343 CTGTTAAATACACACCGGCTCAAGGC
1 C---TAAATACACACCGGCTCAAGGC
*
30664369 CTAAATACACACCGACTCAAG
1 CTAAATACACACCGGCTCAAG
30664390 ACCTGCTAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
23 20 0.50
26 20 0.50
ACGTcount: A:0.39, C:0.30, G:0.14, T:0.17
Consensus pattern (23 bp):
CTAAATACACACCGGCTCAAGGC
Found at i:30667361 original size:139 final size:138
Alignment explanation
Indices: 30667130--30667500 Score: 444
Period size: 139 Copynumber: 2.7 Consensus size: 138
30667120 CACATTTATA
*
30667130 TATTTTTTATTTTATGTTGCTTCAAGCTTTTTAAA-TTTTAATT-A-TTTTTTAACATATTAGTT
1 TATTTTTTATTTCATGTTGCTTCAAGCTTTTTAAATTTTTAATTAATTTTTTTAACATATTAGTT
* * * *
30667192 CTTTGGTTAGATAGTTAAATAGTTGCAATTACATCCTTAAGTCTCGAGTTCAATTCCTCT-CTTA
66 CTTTCGTTAGATGGTTAGATAGTT-TAATTACATCCTTAAGTCTCGAGTTCAATTCCTCTAC-TA
**
30667256 CTCTTATTTG
129 CTCACATTTG
*
30667266 TA-TTTTTATTTCATGTTGCTTCAAGCTTTTTAAATTTTTAATTAATGTTTTTTAACATTTTAGT
1 TATTTTTTATTTCATGTTGCTTCAAGCTTTTTAAATTTTTAATTAAT-TTTTTTAACATATTAGT
* * * *
30667330 TCTTTCGTTAGATGGTTAGATAGTTATAATTACATCCTTGAGTCTCGAGTTCGATTTCTTTACTA
65 TCTTTCGTTAGATGGTTAGATAGTT-TAATTACATCCTTAAGTCTCGAGTTCAATTCCTCTACTA
30667395 CTCACATTTG
129 CTCACATTTG
*
30667405 TATTTTTTATTTCATGTTGCTTCAA-----TT---TTTTTAATTAATATTTTTAACATATTAGCT
1 TATTTTTTATTTCATGTTGCTTCAAGCTTTTTAAATTTTTAATTAATTTTTTTAACATATTAG-T
* * * *
30667462 CCTTTTGTTAGGTGGTTAGATAATTTCAATTACATCCTT
65 TCTTTCGTTAGATGGTTAGATAGTTT-AATTACATCCTT
30667501 GAGTATGAGG
Statistics
Matches: 208, Mismatches: 19, Indels: 20
0.84 0.08 0.08
Matches are distributed among these distances:
131 15 0.07
132 46 0.22
135 33 0.16
136 10 0.05
137 1 0.00
139 80 0.38
140 23 0.11
ACGTcount: A:0.25, C:0.13, G:0.11, T:0.52
Consensus pattern (138 bp):
TATTTTTTATTTCATGTTGCTTCAAGCTTTTTAAATTTTTAATTAATTTTTTTAACATATTAGTT
CTTTCGTTAGATGGTTAGATAGTTTAATTACATCCTTAAGTCTCGAGTTCAATTCCTCTACTACT
CACATTTG
Found at i:30667502 original size:132 final size:131
Alignment explanation
Indices: 30667090--30667504 Score: 422
Period size: 139 Copynumber: 3.0 Consensus size: 131
30667080 ACTTTTATCA
* * * * *
30667090 TTGAGTCTCGAGTTTGATTCCATTCCTATTCACATTTATATATTTTTTATTTTATGTTGCTTCAA
1 TTGAGTCTCGAGTTCGATTCC-TTTCTACTCACA-TT-TGTATTTTTTATTTCATGTTGCTTCAA
** * * * * *
30667155 GCTTTTTAAATTTTAATTATTTTTTAACATATTAGTTCTTTGGTTAGATAGTTAAATAGTTGCAA
63 TTTTTTTTAA--TTAA-TA-TTTTTAACATATTAGTTCTTTCGTTAGATGGTTAGATAGTTTCAA
30667220 TTACATCC
124 TTACATCC
* * * **
30667228 TTAAGTCTCGAGTTCAATTCCTCTCTTACTCTTATTTGTA-TTTTTATTTCATGTTGCTTCAAGC
1 TTGAGTCTCGAGTTCGATTCCTTTC-TACTCACATTTGTATTTTTTATTTCATGTTGCTTCAA--
* *
30667292 TTTTTAAATTTTTAATTAATGTTTTTTAACATTTTAGTTCTTTCGTTAGATGGTTAGATAGTTAT
63 --TTT---TTTTTAATTAAT-ATTTTTAACATATTAGTTCTTTCGTTAGATGGTTAGATAGTT-T
30667357 -AATTACATCC
121 CAATTACATCC
*
30667367 TTGAGTCTCGAGTTCGATTTCTTTACTACTCACATTTGTATTTTTTATTTCATGTTGCTTCAA-T
1 TTGAGTCTCGAGTTCGATTCCTTT-CTACTCACATTTGTATTTTTTATTTCATGTTGCTTCAATT
* * * *
30667431 TTTTTTAATTAATATTTTTAACATATTAGCTCCTTTTGTTAGGTGGTTAGATAATTTCAATTACA
65 TTTTTTAATTAATATTTTTAACATATTAG-TTCTTTCGTTAGATGGTTAGATAGTTTCAATTACA
30667496 TCC
129 TCC
30667499 TTGAGT
1 TTGAGT
30667505 ATGAGGTTCT
Statistics
Matches: 232, Mismatches: 31, Indels: 34
0.78 0.10 0.11
Matches are distributed among these distances:
131 15 0.06
132 50 0.22
135 23 0.10
136 3 0.01
137 4 0.02
138 23 0.10
139 81 0.35
140 27 0.12
142 6 0.03
ACGTcount: A:0.24, C:0.13, G:0.11, T:0.51
Consensus pattern (131 bp):
TTGAGTCTCGAGTTCGATTCCTTTCTACTCACATTTGTATTTTTTATTTCATGTTGCTTCAATTT
TTTTTAATTAATATTTTTAACATATTAGTTCTTTCGTTAGATGGTTAGATAGTTTCAATTACATC
C
Found at i:30667608 original size:12 final size:12
Alignment explanation
Indices: 30667573--30667611 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
30667563 AGCTTTTTTA
30667573 TTTTTAATTATT
1 TTTTTAATTATT
*
30667585 TTTTATGA-TATT
1 TTTT-TAATTATT
30667597 TTTTTAATTATT
1 TTTTTAATTATT
30667609 TTT
1 TTT
30667612 ATTTTTAATC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
11 2 0.09
12 19 0.83
13 2 0.09
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (12 bp):
TTTTTAATTATT
Found at i:30668096 original size:141 final size:139
Alignment explanation
Indices: 30667822--30668220 Score: 439
Period size: 141 Copynumber: 2.9 Consensus size: 139
30667812 AGAACCTCAG
* * * * ** * * **
30667822 ACTCAAGGATGTAATTGCAATTATCTAACCATATAATGAAAGGAACTAATATGTTAAAACTATTA
1 ACTCAAGAATGTAATTACAACTATCTAACCATCTAACCAAA-AAACTAATATATTAAAAAAATTA
* * *
30667887 ATTAAAA--ATAAAAACCTTGAAGCAACATGAAATAAAAAATACAATTATGAGTAGTAGAAGAAT
65 ATTAAAATTTTAAAAAGCTTGAAGCAACATGAAATAAAAAATACAAATATGAGTAGTAGAAGAAT
30667950 CGAACTCGAA
130 CGAACTCGAA
* * *
30667960 ACTTAAGAATGTAATTACAACTATCTTACCATCTAA-CAAAAAACCTAATATATTAAGAAACATT
1 ACTCAAGAATGTAATTACAACTATCTAACCATCTAACCAAAAAA-CTAATATATTAA-AAAAATT
* * * *
30668024 AATTAAAATTTTAAAAAAGCTTTAAGTAACATGAAGTAAAAAATACAAATATGTGTA--AGAAAG
64 AATTAAAATTTT-AAAAAGCTTGAAGCAACATGAAATAAAAAATACAAATATGAGTAGTAG-AAG
* *
30668087 AAATTGAACTCGAG
127 -AATCGAACTCGAA
* * * * *
30668101 ACTCAAGAATGTTATTGCAACTATCTAACCATCTAACCAAAGAACTATTATGTTAAAAAAATTAA
1 ACTCAAGAATGTAATTACAACTATCTAACCATCTAACCAAAAAACTAATATATTAAAAAAATTAA
* **
30668166 TTAAAATTTTAAAAAGCTTGAAGGAACATGAAATAAAAAATACAAACGTGAGTAG
66 TTAAAATTTTAAAAAGCTTGAAGCAACATGAAATAAAAAATACAAATATGAGTAG
30668221 GAGCGGAATC
Statistics
Matches: 218, Mismatches: 34, Indels: 16
0.81 0.13 0.06
Matches are distributed among these distances:
136 2 0.01
137 14 0.06
138 43 0.20
139 40 0.18
140 22 0.10
141 91 0.42
142 6 0.03
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.27
Consensus pattern (139 bp):
ACTCAAGAATGTAATTACAACTATCTAACCATCTAACCAAAAAACTAATATATTAAAAAAATTAA
TTAAAATTTTAAAAAGCTTGAAGCAACATGAAATAAAAAATACAAATATGAGTAGTAGAAGAATC
GAACTCGAA
Found at i:30668590 original size:24 final size:24
Alignment explanation
Indices: 30668563--30668614 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
30668553 TTAGTAAGTC
*
30668563 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
30668587 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
30668611 AAAT
1 AAAT
30668615 CTTCTAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:30670559 original size:24 final size:24
Alignment explanation
Indices: 30670532--30670583 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
30670522 TTAGTAAGTC
*
30670532 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
30670556 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
30670580 AAAT
1 AAAT
30670584 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:30671595 original size:74 final size:74
Alignment explanation
Indices: 30671474--30671623 Score: 273
Period size: 74 Copynumber: 2.0 Consensus size: 74
30671464 TATTTTTGGG
30671474 TTAGTTTTACTTTTTAGATATCAAAATTAAAGTTTAGTTGTTAGCATTATTAAAAATATTTTGCT
1 TTAGTTTTACTTTTTAGATATCAAAATTAAAGTTTAGTTGTTAGCATTATTAAAAATATTTTGCT
30671539 AAATTCATA
66 AAATTCATA
* *
30671548 TTAGTTTTACTTTTTAGATATCAAAATTACAGTTTAGTTGTTAGCATTATTAAAAATATTTTGTT
1 TTAGTTTTACTTTTTAGATATCAAAATTAAAGTTTAGTTGTTAGCATTATTAAAAATATTTTGCT
*
30671613 AAGTTCATA
66 AAATTCATA
30671622 TT
1 TT
30671624 TATTATAATA
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
74 73 1.00
ACGTcount: A:0.35, C:0.07, G:0.10, T:0.49
Consensus pattern (74 bp):
TTAGTTTTACTTTTTAGATATCAAAATTAAAGTTTAGTTGTTAGCATTATTAAAAATATTTTGCT
AAATTCATA
Found at i:30671900 original size:19 final size:20
Alignment explanation
Indices: 30671864--30671915 Score: 52
Period size: 19 Copynumber: 2.6 Consensus size: 20
30671854 TATTATTATC
* **
30671864 ATATTTATAATTGTAATA-A
1 ATATTTATTATTAAAATATA
30671883 ATATTTATTATTAAAATATTA
1 ATATTTATTATTAAAATA-TA
*
30671904 ATATTTAATATT
1 ATATTTATTATT
30671916 TGTCACTAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 15 0.56
21 12 0.44
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (20 bp):
ATATTTATTATTAAAATATA
Found at i:30671968 original size:13 final size:14
Alignment explanation
Indices: 30671935--30671976 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
30671925 TATATTAATA
30671935 ATATTATTTAAAATT
1 ATATTA-TTAAAATT
*
30671950 ACTATTCTTAAAATT
1 A-TATTATTAAAATT
30671965 -TATTATTAAAAT
1 ATATTATTAAAAT
30671977 AAAATTGAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 11 0.46
15 9 0.38
16 4 0.17
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (14 bp):
ATATTATTAAAATT
Found at i:30677200 original size:7 final size:7
Alignment explanation
Indices: 30677188--30677214 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
30677178 AACTTAAACG
30677188 TCAAATA
1 TCAAATA
30677195 TCAAATA
1 TCAAATA
30677202 TCAAATA
1 TCAAATA
30677209 TCAAAT
1 TCAAAT
30677215 TGAACTCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.30
Consensus pattern (7 bp):
TCAAATA
Found at i:30677633 original size:59 final size:59
Alignment explanation
Indices: 30677534--30677645 Score: 140
Period size: 59 Copynumber: 1.9 Consensus size: 59
30677524 ATTTTTTTTT
*
30677534 AATTTGATATTTAAACTTGATGTTTTTTCTTAAGCTGGTACTTAAAT-TTTTTGGGATCC
1 AATTTGATATCTAAACTTGATGTTTTTTCTTAAGCTGGTACTT-AATCTTTTTGGGATCC
* * *
30677593 AATTTGGTATCTAAACTTGACTTTTTTTTC-TAA-TTCGGTACTTAATCTTTTTG
1 AATTTGATATCTAAACTTGA-TGTTTTTTCTTAAGCT-GGTACTTAATCTTTTTG
30677646 TTGTTGTTTG
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
58 4 0.09
59 34 0.74
60 8 0.17
ACGTcount: A:0.24, C:0.12, G:0.13, T:0.51
Consensus pattern (59 bp):
AATTTGATATCTAAACTTGATGTTTTTTCTTAAGCTGGTACTTAATCTTTTTGGGATCC
Found at i:30679001 original size:31 final size:29
Alignment explanation
Indices: 30678931--30679004 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 29
30678921 ACCTTAGACC
* * *
30678931 ACATTTTAGTCACTTATGTTTGAAATATT
1 ACATTTTAGTCACTTACGTTAGAAATATA
* *
30678960 ACGTTTTAGTCACTTACGTTAGCACATTATA
1 ACATTTTAGTCACTTACGTTAG-A-AATATA
30678991 ACATTTTAGTCACT
1 ACATTTTAGTCACT
30679005 GAGTCGTTAA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
29 19 0.51
30 1 0.03
31 17 0.46
ACGTcount: A:0.30, C:0.16, G:0.11, T:0.43
Consensus pattern (29 bp):
ACATTTTAGTCACTTACGTTAGAAATATA
Found at i:30679033 original size:12 final size:12
Alignment explanation
Indices: 30679016--30679042 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
30679006 AGTCGTTAAT
30679016 TGTCATTAACGG
1 TGTCATTAACGG
30679028 TGTCATTAACGG
1 TGTCATTAACGG
30679040 TGT
1 TGT
30679043 AACGGTAAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.15, G:0.26, T:0.37
Consensus pattern (12 bp):
TGTCATTAACGG
Found at i:30680149 original size:19 final size:20
Alignment explanation
Indices: 30680113--30680150 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
30680103 GGGAAATAAG
*
30680113 AAAAGAAAAATAAATAAATA
1 AAAAGAAAAACAAATAAATA
*
30680133 AAAAG-AAAACAATTAAAT
1 AAAAGAAAAACAAATAAAT
30680151 TGTTCAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.76, C:0.03, G:0.05, T:0.16
Consensus pattern (20 bp):
AAAAGAAAAACAAATAAATA
Found at i:30681303 original size:15 final size:15
Alignment explanation
Indices: 30681273--30681321 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
30681263 AAATGACTAT
*
30681273 ATAAAAAAT-TT-TA
1 ATAAAAAATATTAAA
30681286 ATAAAAAATATTAAA
1 ATAAAAAATATTAAA
**
30681301 ATACTAAATATTAAA
1 ATAAAAAATATTAAA
30681316 ATAAAA
1 ATAAAA
30681322 TAAAATAAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
13 9 0.31
14 2 0.07
15 18 0.62
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (15 bp):
ATAAAAAATATTAAA
Found at i:30683512 original size:6 final size:6
Alignment explanation
Indices: 30683501--30683533 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
30683491 CCCAAACTGG
30683501 ACTGAT ACTGAT ACTGAT ACTGAT ACTGAT ACT
1 ACTGAT ACTGAT ACTGAT ACTGAT ACTGAT ACT
30683534 AAAAAGGGCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.33
Consensus pattern (6 bp):
ACTGAT
Found at i:30684806 original size:18 final size:18
Alignment explanation
Indices: 30684785--30684821 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
30684775 TGAGTTTTCG
30684785 AATTCGAATAACTTGAAT
1 AATTCGAATAACTTGAAT
*
30684803 AATTCGAATAATTTGAAT
1 AATTCGAATAACTTGAAT
30684821 A
1 A
30684822 TAAAACTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.46, C:0.08, G:0.11, T:0.35
Consensus pattern (18 bp):
AATTCGAATAACTTGAAT
Found at i:30687532 original size:106 final size:107
Alignment explanation
Indices: 30687284--30687566 Score: 383
Period size: 111 Copynumber: 2.6 Consensus size: 107
30687274 AAAAAATTTT
* * * * *
30687284 TTTGAGTGCTGGCCTGTCAATAGA-CAGCACCACCTTTACGGAAATTTTTTTTTTATATTTTGGG
1 TTTG-GTGGTGGCCTGCCAAT-GACCAGCACCACCTTTATGTAAATTTTTTTTTTACATTTTGGG
* *
30687348 GTGTCATTGGCCGGCACCAGTATACGAAAAATTTTTTTAAAAAAAAAT
64 GTGTCATTGGCCGGCACCAGTATACGAAAAA----TATAAAAAAAAAA
* *
30687396 TTTGGTGGTGGCCTGCCAATGGCCGGCACCACCTTTATGTAAATTTTTTTTTTACATTTTGGGGT
1 TTTGGTGGTGGCCTGCCAATGACCAGCACCACCTTTATGTAAATTTTTTTTTTACATTTTGGGGT
*
30687461 GTCATTGGCGGGCACCAGTATACGAAAAA-ATAAAAAAAAAA
66 GTCATTGGCCGGCACCAGTATACGAAAAATATAAAAAAAAAA
* *
30687502 TTTGGTGGTGGCCTGCCAATGACCAGCACCACCTTTATGT-AAGTTTTCTTTTACATTTTGGGGT
1 TTTGGTGGTGGCCTGCCAATGACCAGCACCACCTTTATGTAAATTTTTTTTTTACATTTTGGGGT
30687566 G
66 G
30687567 GATGATTATA
Statistics
Matches: 156, Mismatches: 14, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
105 23 0.15
106 48 0.31
110 1 0.01
111 80 0.51
112 4 0.03
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.35
Consensus pattern (107 bp):
TTTGGTGGTGGCCTGCCAATGACCAGCACCACCTTTATGTAAATTTTTTTTTTACATTTTGGGGT
GTCATTGGCCGGCACCAGTATACGAAAAATATAAAAAAAAAA
Found at i:30688132 original size:19 final size:19
Alignment explanation
Indices: 30688110--30688146 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
30688100 TTCAGGTTAT
*
30688110 TTTAGTGATTTTTTTAAAC
1 TTTAGTGATTTTTATAAAC
*
30688129 TTTAGTTATTTTTATAAA
1 TTTAGTGATTTTTATAAA
30688147 TATAAAAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.30, C:0.03, G:0.08, T:0.59
Consensus pattern (19 bp):
TTTAGTGATTTTTATAAAC
Found at i:30689695 original size:108 final size:106
Alignment explanation
Indices: 30689496--30689807 Score: 401
Period size: 108 Copynumber: 2.9 Consensus size: 106
30689486 GAAAAAAAAG
* * * * *
30689496 AAAAAAAAATTTTGGGTGCTGGTTTGTCAATGGCCGGCACCACCTTTACGAAATTTTTTTTTTTT
1 AAAAAAAAATTTT-GGTGGTGGCTTGCCAATGGCCGGCACCACCTTTATG----TATTTTTTTTT
* *
30689561 TACATTTTGGGGTGTCATTGGGCGGCACCAGTATACAAAAAAATTT
61 TACATTTTGGGGTGTCATTGGCCGGCACTAGTATACAAAAAAATTT
*
30689607 AAAAAAAAAAATTTTGGTGGTGGCTTGCCAATGGCCAGCACCACCTTTATGTATTTTTTTTTTAC
1 --AAAAAAAAATTTTGGTGGTGGCTTGCCAATGGCCGGCACCACCTTTATGTATTTTTTTTTTAC
* * *
30689672 ATTTTGGAGTGTCATTGGCCGGCACTAGCATACGAAAAAATTT
64 ATTTTGGGGTGTCATTGGCCGGCACTAGTATACAAAAAAATTT
* * * * *
30689715 TAAAAAAAATTTTGATGGTGACTTGCCAATGGCCGGCATCACCTTTATGTA-ATTTTTTTTACAT
1 AAAAAAAAATTTTGGTGGTGGCTTGCCAATGGCCGGCACCACCTTTATGTATTTTTTTTTTACAT
*
30689779 TTTGGGGTGTCATTGGCCGACACTAGTAT
66 TTTGGGGTGTCATTGGCCGGCACTAGTAT
30689808 NNNNNNNNNN
Statistics
Matches: 179, Mismatches: 20, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
105 38 0.21
106 46 0.26
108 51 0.28
112 31 0.17
113 13 0.07
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (106 bp):
AAAAAAAAATTTTGGTGGTGGCTTGCCAATGGCCGGCACCACCTTTATGTATTTTTTTTTTACAT
TTTGGGGTGTCATTGGCCGGCACTAGTATACAAAAAAATTT
Found at i:30691370 original size:18 final size:18
Alignment explanation
Indices: 30691347--30691381 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
30691337 AAAATTTTAA
30691347 TTAAATATTTA-TATACAT
1 TTAAAT-TTTATTATACAT
30691365 TTAAATTTTATTATACA
1 TTAAATTTTATTATACA
30691382 CACTTTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (18 bp):
TTAAATTTTATTATACAT
Found at i:30694059 original size:12 final size:12
Alignment explanation
Indices: 30694044--30694068 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
30694034 TTAAAAATTG
30694044 AAAAAAAAGAAA
1 AAAAAAAAGAAA
30694056 AAAAAAAAGAAA
1 AAAAAAAAGAAA
30694068 A
1 A
30694069 GAAATTAATT
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:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (12 bp):
AAAAAAAAGAAA
Found at i:30695054 original size:3 final size:3
Alignment explanation
Indices: 30695048--30695081 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
30695038 GGGAGGTTGC
30695048 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
30695082 GCCCTTTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:30702906 original size:46 final size:46
Alignment explanation
Indices: 30702833--30703060 Score: 386
Period size: 46 Copynumber: 5.0 Consensus size: 46
30702823 ACATTGCTAT
* *
30702833 AACTCAGTATGGTTTTCTTCACGGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTTACCGAAATACCATACCTACTTTTCAC
*
30702879 AACTCAGTATGGTTTTCTTTACTGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTTACCGAAATACCATACCTACTTTTCAC
30702925 AACTCAGTATGGTTTTCTTTACCGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTTACCGAAATACCATACCTACTTTTCAC
* *
30702971 AACTCAGTATGGTTTT-TTTACCGAAACACCATACCTACTTTTAAC
1 AACTCAGTATGGTTTTCTTTACCGAAATACCATACCTACTTTTCAC
* *
30703016 AACTCAGTATGGTTTTCTTCACGGAAATACCATACCTACTTTTCA
1 AACTCAGTATGGTTTTCTTTACCGAAATACCATACCTACTTTTCA
30703061 NNNNNNNNNN
Statistics
Matches: 172, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
45 43 0.25
46 129 0.75
ACGTcount: A:0.29, C:0.25, G:0.10, T:0.36
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTTACCGAAATACCATACCTACTTTTCAC
Found at i:30703043 original size:91 final size:92
Alignment explanation
Indices: 30702833--30703060 Score: 404
Period size: 91 Copynumber: 2.5 Consensus size: 92
30702823 ACATTGCTAT
30702833 AACTCAGTATGGTTTTCTTCACGGAAATACCATACCTACTTTTCACAACTCAGTATGGTTTTCTT
1 AACTCAGTATGGTTTTCTTCACGGAAATACCATACCTACTTTTCACAACTCAGTATGGTTTTCTT
* * *
30702898 TACTGAAATACCATACCTACTTTTCAC
66 TACCGAAACACCATACCTACTTTTAAC
* *
30702925 AACTCAGTATGGTTTTCTTTACCGAAATACCATACCTACTTTTCACAACTCAGTATGGTTTT-TT
1 AACTCAGTATGGTTTTCTTCACGGAAATACCATACCTACTTTTCACAACTCAGTATGGTTTTCTT
30702989 TACCGAAACACCATACCTACTTTTAAC
66 TACCGAAACACCATACCTACTTTTAAC
30703016 AACTCAGTATGGTTTTCTTCACGGAAATACCATACCTACTTTTCA
1 AACTCAGTATGGTTTTCTTCACGGAAATACCATACCTACTTTTCA
30703061 NNNNNNNNNN
Statistics
Matches: 129, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
91 69 0.53
92 60 0.47
ACGTcount: A:0.29, C:0.25, G:0.10, T:0.36
Consensus pattern (92 bp):
AACTCAGTATGGTTTTCTTCACGGAAATACCATACCTACTTTTCACAACTCAGTATGGTTTTCTT
TACCGAAACACCATACCTACTTTTAAC
Found at i:30703231 original size:46 final size:46
Alignment explanation
Indices: 30703161--30703248 Score: 167
Period size: 46 Copynumber: 1.9 Consensus size: 46
30703151 NNNNNNNNNN
*
30703161 TCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCATAAC
1 TCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCATAAC
30703207 TCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCA
1 TCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCA
30703249 CACTTTGCCA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.27, C:0.27, G:0.09, T:0.36
Consensus pattern (46 bp):
TCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCATAAC
Found at i:30706261 original size:22 final size:22
Alignment explanation
Indices: 30706235--30706283 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
30706225 ACAACTCTGA
*
30706235 GCTCGCATCAAATTACAACAGG
1 GCTCGCATCAAAATACAACAGG
* * *
30706257 GCTCGCATGAAAATATAATAGG
1 GCTCGCATCAAAATACAACAGG
30706279 GCTCG
1 GCTCG
30706284 TATGCACATG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.20
Consensus pattern (22 bp):
GCTCGCATCAAAATACAACAGG
Found at i:30711473 original size:2 final size:2
Alignment explanation
Indices: 30711466--30711507 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
30711456 ATACTTTGAC
30711466 AT AT AT 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
30711508 TAGATAATTC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:30715839 original size:33 final size:33
Alignment explanation
Indices: 30715798--30716006 Score: 294
Period size: 33 Copynumber: 6.3 Consensus size: 33
30715788 GTGTATATAT
30715798 GTAAGACCATAGCTGGGCTATAGCATACTGATG
1 GTAAGACCATAGCTGGGCTATAGCATACTGATG
30715831 GTAAGACCATAGCTGGGCTATAGCATACTGATG
1 GTAAGACCATAGCTGGGCTATAGCATACTGATG
*
30715864 GTAAGACCATAGCTGCGCTATAGCATACTGATG
1 GTAAGACCATAGCTGGGCTATAGCATACTGATG
* * * *
30715897 GTAAGACCATAGTTGGCCTATAGCATTCTAATG
1 GTAAGACCATAGCTGGGCTATAGCATACTGATG
*
30715930 ATAAGACCATAGCTGGGCTAT-GTCATACTGATG
1 GTAAGACCATAGCTGGGCTATAG-CATACTGATG
* * * * *
30715963 ATAAGACCATAGTTGGGCTATGGCATTCTAATG
1 GTAAGACCATAGCTGGGCTATAGCATACTGATG
*
30715996 ATAAGACCATA
1 GTAAGACCATA
30716007 ACCGGGTTAT
Statistics
Matches: 160, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
32 1 0.01
33 158 0.99
34 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (33 bp):
GTAAGACCATAGCTGGGCTATAGCATACTGATG
Found at i:30715884 original size:66 final size:66
Alignment explanation
Indices: 30715799--30716006 Score: 328
Period size: 66 Copynumber: 3.2 Consensus size: 66
30715789 TGTATATATG
* * *
30715799 TAAGACCATAGCTGGGCTATAGCATACTGATGGTAAGACCATAGCTGGGCTATAGCATACTGATG
1 TAAGACCATAGCTGGGCTATAGCATACTGATGGTAAGACCATAGTTGGGCTATAGCATTCTAATG
*
30715864 G
66 A
* *
30715865 TAAGACCATAGCTGCGCTATAGCATACTGATGGTAAGACCATAGTTGGCCTATAGCATTCTAATG
1 TAAGACCATAGCTGGGCTATAGCATACTGATGGTAAGACCATAGTTGGGCTATAGCATTCTAATG
30715930 A
66 A
* *
30715931 TAAGACCATAGCTGGGCTAT-GTCATACTGATGATAAGACCATAGTTGGGCTATGGCATTCTAAT
1 TAAGACCATAGCTGGGCTATAG-CATACTGATGGTAAGACCATAGTTGGGCTATAGCATTCTAAT
30715995 GA
65 GA
30715997 TAAGACCATA
1 TAAGACCATA
30716007 ACCGGGTTAT
Statistics
Matches: 131, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
65 1 0.01
66 130 0.99
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (66 bp):
TAAGACCATAGCTGGGCTATAGCATACTGATGGTAAGACCATAGTTGGGCTATAGCATTCTAATG
A
Found at i:30716018 original size:33 final size:33
Alignment explanation
Indices: 30715799--30716037 Score: 237
Period size: 33 Copynumber: 7.2 Consensus size: 33
30715789 TGTATATATG
* * * *
30715799 TAAGACCATAGCTGGGCTATAGCATACTGATGG
1 TAAGACCATAGCTGGGCTATGGCATTCTAATGA
* * * *
30715832 TAAGACCATAGCTGGGCTATAGCATACTGATGG
1 TAAGACCATAGCTGGGCTATGGCATTCTAATGA
* * * * *
30715865 TAAGACCATAGCTGCGCTATAGCATACTGATGG
1 TAAGACCATAGCTGGGCTATGGCATTCTAATGA
* * *
30715898 TAAGACCATAGTTGGCCTATAGCATTCTAATGA
1 TAAGACCATAGCTGGGCTATGGCATTCTAATGA
* * *
30715931 TAAGACCATAGCTGGGCTATGTCATACTGATGA
1 TAAGACCATAGCTGGGCTATGGCATTCTAATGA
*
30715964 TAAGACCATAGTTGGGCTATGGCATTCTAATGA
1 TAAGACCATAGCTGGGCTATGGCATTCTAATGA
* * * * *
30715997 TAAGACCATAACCGGGTTATGGCACTATGAATG-
1 TAAGACCATAGCTGGGCTATGGCATTCT-AATGA
30716030 TAAGACCA
1 TAAGACCA
30716038 CGGTAGAGCC
Statistics
Matches: 182, Mismatches: 23, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
33 178 0.98
34 4 0.02
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (33 bp):
TAAGACCATAGCTGGGCTATGGCATTCTAATGA
Found at i:30716034 original size:66 final size:65
Alignment explanation
Indices: 30715799--30716037 Score: 309
Period size: 66 Copynumber: 3.6 Consensus size: 65
30715789 TGTATATATG
* * * *
30715799 TAAGACCATAGCTGGGCTATAGCATACTGATGGTAAGACCATAGCTGGGCTATAGCATACTGATG
1 TAAGACCATAGCTGGGCTATGGCATACTGAT-GTAAGACCATAGTTGGGCTATAGCATTCTAATG
*
30715864 G
65 A
* * *
30715865 TAAGACCATAGCTGCGCTATAGCATACTGATGGTAAGACCATAGTTGGCCTATAGCATTCTAATG
1 TAAGACCATAGCTGGGCTATGGCATACTGAT-GTAAGACCATAGTTGGGCTATAGCATTCTAATG
30715930 A
65 A
* *
30715931 TAAGACCATAGCTGGGCTATGTCATACTGATGATAAGACCATAGTTGGGCTATGGCATTCTAATG
1 TAAGACCATAGCTGGGCTATGGCATACTGATG-TAAGACCATAGTTGGGCTATAGCATTCTAATG
30715996 A
65 A
* * *
30715997 TAAGACCATAACCGGGTTATGGCACTA-TGAATGTAAGACCA
1 TAAGACCATAGCTGGGCTATGGCA-TACTG-ATGTAAGACCA
30716038 CGGTAGAGCC
Statistics
Matches: 155, Mismatches: 15, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
65 1 0.01
66 149 0.96
67 5 0.03
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (65 bp):
TAAGACCATAGCTGGGCTATGGCATACTGATGTAAGACCATAGTTGGGCTATAGCATTCTAATGA
Found at i:30720428 original size:150 final size:150
Alignment explanation
Indices: 30720157--30720470 Score: 603
Period size: 150 Copynumber: 2.1 Consensus size: 150
30720147 AGAATAACTC
*
30720157 AATTATTTAATTTGAAAATTGTTTTTCAAACTGAGTCGGATTTTGGAAGATCGAGTTTTTCTCCT
1 AATTATTTGATTTGAAAATTGTTTTTCAAACTGAGTCGGATTTTGGAAGATCGAGTTTTTCTCCT
30720222 TCCCATAAATTGTACAAGGTAGATTCAACTGATGTAAAACAAATTTAATTTTACATGTGAGATTA
66 TCCCATAAATTGTACAAGGTAGATTCAACTGATGTAAAACAAATTTAATTTTACATGTGAGATTA
30720287 TGAGTACATTAAAAATGTCA
131 TGAGTACATTAAAAATGTCA
30720307 AATTATTTGATTTGAAAATTGTTTTTCAAACTGAGTCGGATTTTGGAAGATCGAGTTTTTCTCCT
1 AATTATTTGATTTGAAAATTGTTTTTCAAACTGAGTCGGATTTTGGAAGATCGAGTTTTTCTCCT
*
30720372 TCCCATAAATTGTACAAGGTAGATTCAACTGATGTAAAACAAATTTAATTTTACATGTGTGATTA
66 TCCCATAAATTGTACAAGGTAGATTCAACTGATGTAAAACAAATTTAATTTTACATGTGAGATTA
30720437 TGAGTACATTAAAAATGTCA
131 TGAGTACATTAAAAATGTCA
30720457 AATTATTTG-TTTGA
1 AATTATTTGATTTGA
30720471 TGTAAAAATT
Statistics
Matches: 162, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
149 5 0.03
150 157 0.97
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (150 bp):
AATTATTTGATTTGAAAATTGTTTTTCAAACTGAGTCGGATTTTGGAAGATCGAGTTTTTCTCCT
TCCCATAAATTGTACAAGGTAGATTCAACTGATGTAAAACAAATTTAATTTTACATGTGAGATTA
TGAGTACATTAAAAATGTCA
Found at i:30726710 original size:17 final size:17
Alignment explanation
Indices: 30726692--30726724 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
30726682 TTATAATGAT
30726692 TTTTA-ATATAAAAATA
1 TTTTATATATAAAAATA
*
30726708 TTTTATATATTAAAATA
1 TTTTATATATAAAAATA
30726725 ATAAAAGTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TTTTATATATAAAAATA
Found at i:30727192 original size:118 final size:118
Alignment explanation
Indices: 30727021--30727264 Score: 418
Period size: 118 Copynumber: 2.1 Consensus size: 118
30727011 CGTTAAGATA
* * * *
30727021 ACTAAAATTTTTATCATTCAACTAAATTAATTCTAACTAGGCGCAAACCTTATTTATTATTA-TT
1 ACTAACATTTTTATCATTCAACTAAATTAATTCCAACTACGCACAAACCTTATTTATTATTATTT
30727085 ATTTACCCAAAATCCTTATTTATTATTAGAAATTCTATTATATCGGTAAAAACC
66 A-TTACCCAAAATCCTTATTTATTATTAGAAATTCTATTATATCGGTAAAAACC
*
30727139 ACTAACATTTTTATCATTCAACTAAATTAATTCCAACTACGCACAAATCTTATTTATTATTATTT
1 ACTAACATTTTTATCATTCAACTAAATTAATTCCAACTACGCACAAACCTTATTTATTATTATTT
*
30727204 ATTACCCAAACTCCTTATTTATTATTAGAAATTCTATTATATCGGTAAAAACC
66 ATTACCCAAAATCCTTATTTATTATTAGAAATTCTATTATATCGGTAAAAACC
30727257 ACTAACAT
1 ACTAACAT
30727265 ATAATTATGT
Statistics
Matches: 119, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
118 116 0.97
119 3 0.03
ACGTcount: A:0.38, C:0.18, G:0.04, T:0.40
Consensus pattern (118 bp):
ACTAACATTTTTATCATTCAACTAAATTAATTCCAACTACGCACAAACCTTATTTATTATTATTT
ATTACCCAAAATCCTTATTTATTATTAGAAATTCTATTATATCGGTAAAAACC
Found at i:30728525 original size:153 final size:151
Alignment explanation
Indices: 30728326--30729295 Score: 1279
Period size: 153 Copynumber: 6.4 Consensus size: 151
30728316 TAATTGTTCG
* * *
30728326 TATTTCGGCCATTTGTTCGTA-TTTTTTCTTAGATTTTAGTACTTTTAAAAAATATATTATTTTC
1 TATTTCGGCCCTTTGTTCGTATTTTTTTC-CAGATTTTATTACTTTTAAAAAATATATTATTTTC
*
30728390 TAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTGTTT
65 TAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTTTT
30728455 TAAATAAA-TTAAAAAAACTCT
130 TAAATAAATTTAAAAAAACTCT
* * *
30728476 TATTTCAGCCCTTTGTTCATATTTTTTTTCCTCAGATTTTATTACTTTTAAAAAATATACTA-TT
1 TATTTCGGCCCTTTGTTCGTA-TTTTTTT-C-CAGATTTTATTACTTTTAAAAAATATATTATTT
* * * *
30728540 TCATAATTTTATAATTTTATATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTATT
63 TC-TAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGT-GT
**
30728605 TTTTTATTTAAATTT-AAAAAACTCT
126 TTTTTAAATAAATTTAAAAAAACTCT
* * *
30728630 TATTTCGGTCCTTTGTTCGTATTTTTTTTCCAGATATTATTCCTTTTAATAAAAATATATTATTT
1 TATTTCGGCCCTTTGTTCGTA-TTTTTTTCCAGATTTTATTACTTTT-A-AAAAATATATTATTT
* *
30728695 TCGT-ATTTTATTATTTTACTTTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTT
63 TC-TAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTT
*
30728759 TTTTAAAGAAA-TT-AAAAAAC-CAT
127 TTTTAAATAAATTTAAAAAAACTC-T
* *
30728782 TATTTCGGCCCTTTGTTCTTATTTTTTTCCCAGATTTTATTAC-TTTAAAAAATATACTATTTTC
1 TATTTCGGCCCTTTGTTCGTATTTTTTT-CCAGATTTTATTACTTTTAAAAAATATATTATTTTC
* *
30728846 TAATTTTATTATTTTATATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTG-TTTT
65 TAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTTTT
30728910 TAAATAAATTTAAAAAAA-TCCT
130 TAAATAAATTTAAAAAAACT-CT
* * * *
30728932 TATTTCGACCATTTGTTCGTATTTTTTCCCCAGATTTTATTACTTTCAATAAAAATATATTATTT
1 TATTTCGGCCCTTTGTTCGTATTTTTT-TCCAGATTTTATTACTTT-TA-AAAAATATATTATTT
*
30728997 TCTAATTTTATTATTTTACATTATTTTAG----TTATGTTTGAAATGTATTAATTTACTGTGTTT
63 TCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTT
*
30729058 TTTAAATAAATTTAGTAAAAAACCCT
128 TTTAAATAAATTTA--AAAAAACTCT
* * * *
30729084 TATTTCGGCCCTTTGTTCGTATTTTTTTCCGGATTTTATTACTTTAAAAAAATATAATATTTTAT
1 TATTTCGGCCCTTTGTTCGTATTTTTTTCCAGATTTTATTACTTTTAAAAAATATATTATTTTCT
* *
30729149 AATTTTATTATTTTGCATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTT
66 AATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTTTTT
*
30729214 AAATAAATTTAAAAAAACCCCT
131 AAATAAATTTAAAAAAA-CTCT
*
30729236 TATTTCGGCCCTTTGTTCGTATTTTTTTACC-GTATTTTTTTACTTTCAATAAAAAATATA
1 TATTTCGGCCCTTTGTTCGTATTTTTTT-CCAG-ATTTTATTACTTT---TAAAAAATATA
30729296 CTAAATGAAT
Statistics
Matches: 726, Mismatches: 60, Indels: 62
0.86 0.07 0.07
Matches are distributed among these distances:
148 12 0.02
149 140 0.19
150 82 0.11
151 36 0.05
152 133 0.18
153 197 0.27
154 109 0.15
155 7 0.01
156 10 0.01
ACGTcount: A:0.30, C:0.10, G:0.08, T:0.52
Consensus pattern (151 bp):
TATTTCGGCCCTTTGTTCGTATTTTTTTCCAGATTTTATTACTTTTAAAAAATATATTATTTTCT
AATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTTTTT
AAATAAATTTAAAAAAACTCT
Found at i:30729079 original size:302 final size:300
Alignment explanation
Indices: 30728326--30729295 Score: 1354
Period size: 302 Copynumber: 3.2 Consensus size: 300
30728316 TAATTGTTCG
** * *
30728326 TATTTCGGCCATTTGTTCGTA-TTTTTTCTTAGATTTTAGTACTTT-TA-AAAAATATATTATTT
1 TATTTCGGCCATTTGTTCGTATTTTTTTCCCAGATTTTATTACTTTCAATAAAAATATATTATTT
* *
30728388 TCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTGT
66 TCTAATTTTATTATTTTACATTATTTTAG---ATTATGTTTGAAATGTATTAATTTACTGTGTTT
*
30728453 TTTAAATAAATTA-AAAAAACTCTTATTTCAGCCCTTTGTTCATATTTTTTTTCCTCAGATTTTA
128 TTTAAATAAATTATAAAAAAC-CTTATTTCGGCCCTTTGTTCATA-TTTTTTTCC-CAGATTTTA
*
30728517 TTACTTTTAAAAAATATACTA-TTTCATAATTTTATAATTTTATATTATTTTAGTACATTATGTT
190 TTAC-TTTAAAAAATATACTATTTTC-TAATTTTATTATTTTATATTATTTTAGTACATTATGTT
* ** *
30728581 TGAAATGTATTCATTTAGTGTATTTTTTTATTTAAATTTAAAAAACT-CT
253 TGAAATGTATTCATTTAGTG--TGTTTTTAAATAAATTTAAAAAAATCCT
* * * *
30728630 TATTTCGGTCC-TTTGTTCGTATTTTTTTTCCAGATATTATTCCTTTTAATAAAAATATATTATT
1 TATTTCGG-CCATTTGTTCGTATTTTTTTCCCAGATTTTATTACTTTCAATAAAAATATATTATT
*
30728694 TTCGT-ATTTTATTATTTTACTTTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGT
65 TTC-TAATTTTATTATTTTACATTATTTTAG---ATTATGTTTGAAATGTATTAATTTACTGTGT
* *
30728758 TTTTTAAAGAAA-T-TAAAAAACCATTATTTCGGCCCTTTGTTCTTATTTTTTTCCCAGATTTTA
126 TTTTTAAATAAATTATAAAAAACC-TTATTTCGGCCCTTTGTTCATATTTTTTTCCCAGATTTTA
30728821 TTACTTTAAAAAATATACTATTTTCTAATTTTATTATTTTATATTATTTTAGTACATTATGTTTG
190 TTACTTTAAAAAATATACTATTTTCTAATTTTATTATTTTATATTATTTTAGTACATTATGTTTG
30728886 AAATGTATTCATTTAGTGTGTTTTTAAATAAATTTAAAAAAATCCT
255 AAATGTATTCATTTAGTGTGTTTTTAAATAAATTTAAAAAAATCCT
* *
30728932 TATTTCGACCATTTGTTCGTATTTTTTCCCCAGATTTTATTACTTTCAATAAAAATATATTATTT
1 TATTTCGGCCATTTGTTCGTATTTTTTTCCCAGATTTTATTACTTTCAATAAAAATATATTATTT
30728997 TCTAATTTTATTATTTTACATTATTTTAG-TTATGTTTGAAATGTATTAATTTACTGTGTTTTTT
66 TCTAATTTTATTATTTTACATTATTTTAGATTATGTTTGAAATGTATTAATTTACTGTGTTTTTT
* *
30729061 AAATAAATTTAGTAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTT-CCGGATTTTATTA
131 AAATAAA-TTA-TAAAAAA-CCTTATTTCGGCCCTTTGTTCATATTTTTTTCCCAGATTTTATTA
* * **
30729125 CTTTAAAAAAATATAATATTTTATAATTTTATTATTTTGCATTATTTTAGTACATTATGTTTGAA
193 CTTT-AAAAAATATACTATTTTCTAATTTTATTATTTTATATTATTTTAGTACATTATGTTTGAA
*
30729190 ATGTATTCATTTAGTGTGTTTTTTAAATAAATTTAAAAAAACCCCT
257 ATGTATTCATTTAGTGTG-TTTTTAAATAAATTTAAAAAAA-TCCT
* * *
30729236 TATTTCGGCCCTTTGTTCGTATTTTTTTACC-GTATTTTTTTACTTTCAATAAAAAATATA
1 TATTTCGGCCATTTGTTCGTATTTTTTTCCCAG-ATTTTATTACTTTCAAT-AAAAATATA
30729296 CTAAATGAAT
Statistics
Matches: 607, Mismatches: 38, Indels: 41
0.88 0.06 0.06
Matches are distributed among these distances:
298 41 0.07
300 1 0.00
301 40 0.07
302 193 0.32
303 98 0.16
304 81 0.13
305 39 0.06
306 29 0.05
307 84 0.14
308 1 0.00
ACGTcount: A:0.30, C:0.10, G:0.08, T:0.52
Consensus pattern (300 bp):
TATTTCGGCCATTTGTTCGTATTTTTTTCCCAGATTTTATTACTTTCAATAAAAATATATTATTT
TCTAATTTTATTATTTTACATTATTTTAGATTATGTTTGAAATGTATTAATTTACTGTGTTTTTT
AAATAAATTATAAAAAACCTTATTTCGGCCCTTTGTTCATATTTTTTTCCCAGATTTTATTACTT
TAAAAAATATACTATTTTCTAATTTTATTATTTTATATTATTTTAGTACATTATGTTTGAAATGT
ATTCATTTAGTGTGTTTTTAAATAAATTTAAAAAAATCCT
Found at i:30729271 original size:13 final size:13
Alignment explanation
Indices: 30729253--30729278 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
30729243 GCCCTTTGTT
30729253 CGTATTTTTTTAC
1 CGTATTTTTTTAC
30729266 CGTATTTTTTTAC
1 CGTATTTTTTTAC
30729279 TTTCAATAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.08, T:0.62
Consensus pattern (13 bp):
CGTATTTTTTTAC
Found at i:30731716 original size:21 final size:21
Alignment explanation
Indices: 30731673--30731716 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
30731663 CCAATTAATT
* * *
30731673 AACCTATTCAAAATATGATAA
1 AACCTACTCAAAACATGACAA
*
30731694 AACCTACTCAAAACATGCCAA
1 AACCTACTCAAAACATGACAA
30731715 AA
1 AA
30731717 TAATCATCTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.52, C:0.23, G:0.05, T:0.20
Consensus pattern (21 bp):
AACCTACTCAAAACATGACAA
Found at i:30732989 original size:17 final size:17
Alignment explanation
Indices: 30732958--30732990 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
30732948 TACCAAATCA
30732958 ATAACATTCAATCAACT
1 ATAACATTCAATCAACT
30732975 ATAA-ATTCAATTCAAC
1 ATAACATTCAA-TCAAC
30732991 CTCAAAGTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.30
Consensus pattern (17 bp):
ATAACATTCAATCAACT
Found at i:30742696 original size:23 final size:23
Alignment explanation
Indices: 30742669--30742721 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
30742659 ATATCCATCG
30742669 GTTTATTCGATCTATCTTCTATTT
1 GTTTATTCGATC-ATCTTCTATTT
* * *
30742693 -TTTATTCTATCATTTTTTATTT
1 GTTTATTCGATCATCTTCTATTT
30742715 GTTTATT
1 GTTTATT
30742722 ATTTTGATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
22 9 0.36
23 16 0.64
ACGTcount: A:0.17, C:0.11, G:0.06, T:0.66
Consensus pattern (23 bp):
GTTTATTCGATCATCTTCTATTT
Found at i:30745196 original size:24 final size:23
Alignment explanation
Indices: 30745145--30745197 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
30745135 TTCCTATTAT
30745145 CATTTTATTTTCTTTTCTTTTCA
1 CATTTTATTTTCTTTTCTTTTCA
*
30745168 AATTTTAATTTT-TCTTTCTCTTTC-
1 CATTTT-ATTTTCT-TTTCT-TTTCA
30745192 CATTTT
1 CATTTT
30745198 CCCAAAAGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
23 6 0.24
24 15 0.60
25 4 0.16
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.68
Consensus pattern (23 bp):
CATTTTATTTTCTTTTCTTTTCA
Found at i:30745807 original size:14 final size:14
Alignment explanation
Indices: 30745788--30745814 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
30745778 AGACACAGTG
30745788 GTGTGGTCGTGTGA
1 GTGTGGTCGTGTGA
30745802 GTGTGGTCGTGTG
1 GTGTGGTCGTGTG
30745815 GGCCCACACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.04, C:0.07, G:0.52, T:0.37
Consensus pattern (14 bp):
GTGTGGTCGTGTGA
Found at i:30747466 original size:20 final size:20
Alignment explanation
Indices: 30747441--30747484 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
30747431 AACATTAAAT
*
30747441 TAAATTTGATATTAAGA-TAA
1 TAAATTTAATATTAA-ATTAA
30747461 TAAATTTAATATTAAATTAA
1 TAAATTTAATATTAAATTAA
30747481 TAAA
1 TAAA
30747485 ATACTATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 1 0.05
20 21 0.95
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.41
Consensus pattern (20 bp):
TAAATTTAATATTAAATTAA
Found at i:30757747 original size:21 final size:21
Alignment explanation
Indices: 30757721--30757795 Score: 118
Period size: 21 Copynumber: 3.7 Consensus size: 21
30757711 GGGGGATTAG
30757721 TCTTACGAGCTTCTGTTCAGC
1 TCTTACGAGCTTCTGTTCAGC
30757742 TCTTACGAGCTTCTGTTCAGC
1 TCTTACGAGCTTCTGTTCAGC
* *
30757763 TTTTATGAGCTTCTGTTCAGC
1 TCTTACGAGCTTCTGTTCAGC
30757784 T-TT-CGAGCTTCT
1 TCTTACGAGCTTCT
30757796 ATTGACGTAT
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
19 8 0.16
20 2 0.04
21 41 0.80
ACGTcount: A:0.13, C:0.25, G:0.19, T:0.43
Consensus pattern (21 bp):
TCTTACGAGCTTCTGTTCAGC
Found at i:30760906 original size:13 final size:13
Alignment explanation
Indices: 30760873--30760916 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
30760863 TTTAATTGAC
*
30760873 AAATTAATGTAGTT
1 AAATTAAT-TAATT
*
30760887 AAGTTAATTAATT
1 AAATTAATTAATT
*
30760900 AAATTAATTATTT
1 AAATTAATTAATT
30760913 AAAT
1 AAAT
30760917 AAATAATATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
13 19 0.73
14 7 0.27
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (13 bp):
AAATTAATTAATT
Found at i:30765731 original size:2 final size:2
Alignment explanation
Indices: 30765724--30765757 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
30765714 ATTTGAAAAT
*
30765724 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
30765758 AGATAATGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:30768202 original size:21 final size:21
Alignment explanation
Indices: 30768168--30768208 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
30768158 GGGGGAAAGT
*
30768168 GGGAAAGAGTAAAAGTTTTGA
1 GGGAAAGAGTAAAAGGTTTGA
30768189 GGGAAA-AGTAAAAAGGTTTG
1 GGGAAAGAGT-AAAAGGTTTG
30768209 GGAGTTTGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.44, C:0.00, G:0.34, T:0.22
Consensus pattern (21 bp):
GGGAAAGAGTAAAAGGTTTGA
Found at i:30768203 original size:29 final size:30
Alignment explanation
Indices: 30768144--30768203 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
30768134 GAGGGGAGGG
* * **
30768144 GAGTAAAAGTTTTGGGGGGAAAGTGGGAAA
1 GAGTAAAAGTTTTGAGGGAAAAGTGAAAAA
30768174 GAGTAAAAGTTTTGAGGGAAAAGT-AAAAA
1 GAGTAAAAGTTTTGAGGGAAAAGTGAAAAA
30768203 G
1 G
30768204 GTTTGGGAGT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 4 0.15
30 22 0.85
ACGTcount: A:0.43, C:0.00, G:0.37, T:0.20
Consensus pattern (30 bp):
GAGTAAAAGTTTTGAGGGAAAAGTGAAAAA
Found at i:30768712 original size:4 final size:4
Alignment explanation
Indices: 30768696--30768764 Score: 54
Period size: 4 Copynumber: 17.8 Consensus size: 4
30768686 TCAAAATTGA
* * * **
30768696 AAAT AAGT AAAT AAAT AAAT -ATT AAAT GAAAT -ATT AAAT AAA- ATTT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT -AAAT AAAT AAAT AAAT AAAT
*
30768742 TAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAA
30768765 AACAATTAAA
Statistics
Matches: 49, Mismatches: 12, Indels: 8
0.71 0.17 0.12
Matches are distributed among these distances:
3 5 0.10
4 40 0.82
5 4 0.08
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (4 bp):
AAAT
Found at i:30768727 original size:12 final size:11
Alignment explanation
Indices: 30768707--30768762 Score: 60
Period size: 12 Copynumber: 4.9 Consensus size: 11
30768697 AATAAGTAAA
30768707 TAAATAAATAT
1 TAAATAAATAT
30768718 TAAATGAAATAT
1 TAAAT-AAATAT
30768730 TAAATAAA-ATT
1 TAAATAAATA-T
* *
30768741 TTAATAAATAAA
1 TAAATAAAT-AT
30768753 TAAATAAATA
1 TAAATAAATA
30768763 AAAACAATTA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
10 1 0.03
11 17 0.45
12 19 0.50
13 1 0.03
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (11 bp):
TAAATAAATAT
Found at i:30770868 original size:5 final size:5
Alignment explanation
Indices: 30770858--30770892 Score: 63
Period size: 5 Copynumber: 7.2 Consensus size: 5
30770848 AAGCCGAAAA
30770858 AGAAG AGAAG AGAAG AGAAG AGAAG AGAAG -GAAG A
1 AGAAG AGAAG AGAAG AGAAG AGAAG AGAAG AGAAG A
30770893 ACAAGAGATG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 4 0.14
5 25 0.86
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (5 bp):
AGAAG
Found at i:30770898 original size:15 final size:15
Alignment explanation
Indices: 30770858--30770900 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
30770848 AAGCCGAAAA
*
30770858 AGAAGAGAAGAGAAG
1 AGAAGACAAGAGAAG
*
30770873 AGAAGAGAAGAGAAG
1 AGAAGACAAGAGAAG
30770888 -GAAGAACAAGAGA
1 AGAAG-ACAAGAGA
30770901 TGATAGATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
14 4 0.15
15 22 0.85
ACGTcount: A:0.60, C:0.02, G:0.37, T:0.00
Consensus pattern (15 bp):
AGAAGACAAGAGAAG
Found at i:30773823 original size:15 final size:16
Alignment explanation
Indices: 30773789--30773828 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
30773779 TATATATTCT
30773789 TTTTATTTTAAATTAG
1 TTTTATTTTAAATTAG
*
30773805 TTTTATTTTAATTTA-
1 TTTTATTTTAAATTAG
*
30773820 TTTTCTTTT
1 TTTTATTTT
30773829 CCCAAATCCC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.72
Consensus pattern (16 bp):
TTTTATTTTAAATTAG
Found at i:30774286 original size:51 final size:51
Alignment explanation
Indices: 30774226--30774327 Score: 195
Period size: 51 Copynumber: 2.0 Consensus size: 51
30774216 CTCTGAGTAA
*
30774226 GTGTTCTTTATTAGATTCTTTCTAGAGGATTTTGATGAATGAATTGTTTCT
1 GTGTTCTTTATTAGATTCTTTCTAGAGGATTTTGATGAATGAATTATTTCT
30774277 GTGTTCTTTATTAGATTCTTTCTAGAGGATTTTGATGAATGAATTATTTCT
1 GTGTTCTTTATTAGATTCTTTCTAGAGGATTTTGATGAATGAATTATTTCT
30774328 TTTCACTATG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.23, C:0.08, G:0.19, T:0.51
Consensus pattern (51 bp):
GTGTTCTTTATTAGATTCTTTCTAGAGGATTTTGATGAATGAATTATTTCT
Found at i:30774714 original size:21 final size:21
Alignment explanation
Indices: 30774666--30774707 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
30774656 AACAATCCAT
* *
30774666 TAACAAAATTACAGGCCCAAA
1 TAACAAAAGTACAAGCCCAAA
30774687 TAACAAAAGTACAAGCCCAAA
1 TAACAAAAGTACAAGCCCAAA
30774708 ATACAAAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.55, C:0.24, G:0.10, T:0.12
Consensus pattern (21 bp):
TAACAAAAGTACAAGCCCAAA
Found at i:30784935 original size:40 final size:40
Alignment explanation
Indices: 30784884--30785176 Score: 460
Period size: 40 Copynumber: 7.3 Consensus size: 40
30784874 TTATACTCTT
* * * **
30784884 TGTCTAGTGTGTTTTGGTTGGATTAGCTCCGATGAGCTTC
1 TGTCTGGTGTGTTTCGATTGGATTAGCTCTTATGAGCTTC
* * * *
30784924 GGCCTGTTGTGTTTCGGTTGGATTAGCTCTTATGAGCTTC
1 TGTCTGGTGTGTTTCGATTGGATTAGCTCTTATGAGCTTC
30784964 TGTCTGGTGTGTTTCGATTGGATTAGCTCTTATGAGCTTC
1 TGTCTGGTGTGTTTCGATTGGATTAGCTCTTATGAGCTTC
*
30785004 TGTTTGGTGTGTTTCGATTGGATTAGCTCTTATGAGCTTC
1 TGTCTGGTGTGTTTCGATTGGATTAGCTCTTATGAGCTTC
*
30785044 TGACTGGTGTGTTTCGATTGGATTAGCTCTTATGAGCTTC
1 TGTCTGGTGTGTTTCGATTGGATTAGCTCTTATGAGCTTC
30785084 TGTCTGGTGTGTTTCGATTGGATTAGCTCTTATGAGCTTC
1 TGTCTGGTGTGTTTCGATTGGATTAGCTCTTATGAGCTTC
* *
30785124 TGTTTGGTGTGTTTCGATTGGATTAGCTCTTATGAGCTTT
1 TGTCTGGTGTGTTTCGATTGGATTAGCTCTTATGAGCTTC
*
30785164 TGTTTGGTGTGTT
1 TGTCTGGTGTGTT
30785177 CGGTTGATCT
Statistics
Matches: 236, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 236 1.00
ACGTcount: A:0.12, C:0.14, G:0.29, T:0.46
Consensus pattern (40 bp):
TGTCTGGTGTGTTTCGATTGGATTAGCTCTTATGAGCTTC
Found at i:30786993 original size:28 final size:28
Alignment explanation
Indices: 30786962--30787017 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
30786952 TGAGAGATGG
30786962 GCATGTGTCTTAGACATGTGAGTCACAC
1 GCATGTGTCTTAGACATGTGAGTCACAC
30786990 GCATGTGTCTTAGACATGTGAGTCACAC
1 GCATGTGTCTTAGACATGTGAGTCACAC
30787018 AATCTGACCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (28 bp):
GCATGTGTCTTAGACATGTGAGTCACAC
Found at i:30791317 original size:6 final size:6
Alignment explanation
Indices: 30791306--30791335 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
30791296 ACAAATGAAT
*
30791306 CATTTC CATTTC CATTTC CATTTC TATTTC
1 CATTTC CATTTC CATTTC CATTTC CATTTC
30791336 AAAAACTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.30, G:0.00, T:0.53
Consensus pattern (6 bp):
CATTTC
Found at i:30793404 original size:27 final size:27
Alignment explanation
Indices: 30793373--30793534 Score: 143
Period size: 27 Copynumber: 6.0 Consensus size: 27
30793363 GAGACCCTCA
*
30793373 ATTTGTAAAATTACTGAAATACCCCTG
1 ATTTGTAAAATTACTAAAATACCCCTG
* * *
30793400 ATTTGCAAAATTATTGAAATACCCCT-
1 ATTTGTAAAATTACTAAAATACCCCTG
* *
30793426 AGTGTGTAAAATTACTAAAATATCCCC-A
1 A-TTTGTAAAATTACTAAAATA-CCCCTG
* *
30793454 ATTTGTAAAATTA-TCAAAACACCCCAG
1 ATTTGTAAAATTACT-AAAATACCCCTG
* * * *
30793481 ACTTGTGAAATTACCAAAATACCTCT-
1 ATTTGTAAAATTACTAAAATACCCCTG
*
30793507 AGTTTGTGAAATTACTAAAATACCCCTG
1 A-TTTGTAAAATTACTAAAATACCCCTG
30793535 TAGAGTAGGA
Statistics
Matches: 109, Mismatches: 18, Indels: 15
0.77 0.13 0.11
Matches are distributed among these distances:
26 7 0.06
27 97 0.89
28 5 0.05
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.31
Consensus pattern (27 bp):
ATTTGTAAAATTACTAAAATACCCCTG
Found at i:30794043 original size:28 final size:28
Alignment explanation
Indices: 30793991--30794054 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
30793981 TACTGCATAA
* *
30793991 TGTTTCTGTATTGGGCGAAGGCCCACCT
1 TGTTTCTGTATTGGGCGAAAGCCCACAT
* *
30794019 TGTTTCTGTATTGGGCTAAATCCCACAT
1 TGTTTCTGTATTGGGCGAAAGCCCACAT
30794047 TG-TTCTGT
1 TGTTTCTGT
30794055 TCTGTTACTG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 6 0.19
28 26 0.81
ACGTcount: A:0.16, C:0.22, G:0.23, T:0.39
Consensus pattern (28 bp):
TGTTTCTGTATTGGGCGAAAGCCCACAT
Found at i:30797163 original size:55 final size:55
Alignment explanation
Indices: 30797114--30797250 Score: 184
Period size: 55 Copynumber: 2.5 Consensus size: 55
30797104 CACACGATAG
* **
30797114 TGTCGCAGATCATGTGCCAAACCATGTGTGCATTTTATGTTGGGTCACACAACCA
1 TGTCGCAGACCATGTGCCAAACCATGTGTGCATTCGATGTTGGGTCACACAACCA
* * * *
30797169 TGTCGTAGGCCGTGTGCCAAACCGTGTGTGCATTCGATGTTGGGTCACACAACCA
1 TGTCGCAGACCATGTGCCAAACCATGTGTGCATTCGATGTTGGGTCACACAACCA
* * *
30797224 TGTCGTAGGCCGTGTGCCAAACCATGT
1 TGTCGCAGACCATGTGCCAAACCATGT
30797251 TACATACTGA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
55 74 1.00
ACGTcount: A:0.22, C:0.25, G:0.26, T:0.27
Consensus pattern (55 bp):
TGTCGCAGACCATGTGCCAAACCATGTGTGCATTCGATGTTGGGTCACACAACCA
Found at i:30798764 original size:16 final size:17
Alignment explanation
Indices: 30798728--30798764 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
30798718 TATTATCATT
30798728 ACATAAATATTTATGTA
1 ACATAAATATTTATGTA
30798745 ACATAAATATTTAT-TA
1 ACATAAATATTTATGTA
30798761 ACAT
1 ACAT
30798765 TACATACAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.49, C:0.08, G:0.03, T:0.41
Consensus pattern (17 bp):
ACATAAATATTTATGTA
Found at i:30798769 original size:21 final size:20
Alignment explanation
Indices: 30798718--30798770 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 20
30798708 TTTTGATACA
30798718 TATTATCATTACATAAATATT
1 TATTA-CATTACATAAATATT
30798739 TATGT--A--ACATAAATATT
1 TAT-TACATTACATAAATATT
30798756 TATTAACATTACATA
1 TATT-ACATTACATA
30798771 CAAAACATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 12
0.68 0.00 0.32
Matches are distributed among these distances:
16 1 0.04
17 14 0.54
19 2 0.08
21 8 0.31
22 1 0.04
ACGTcount: A:0.45, C:0.09, G:0.02, T:0.43
Consensus pattern (20 bp):
TATTACATTACATAAATATT
Found at i:30800389 original size:29 final size:29
Alignment explanation
Indices: 30800334--30800389 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
30800324 TAACAAAGCA
* *
30800334 AACGTGAGTAACGTGAAGGGGATGAGGAG
1 AACGTGAGTAACGTGAAGGAGAGGAGGAG
30800363 AACGTGAGTAACGTG-AGAGAGAGGAGG
1 AACGTGAGTAACGTGAAG-GAGAGGAGG
30800390 GGGACTTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 2 0.08
29 22 0.92
ACGTcount: A:0.36, C:0.07, G:0.45, T:0.12
Consensus pattern (29 bp):
AACGTGAGTAACGTGAAGGAGAGGAGGAG
Found at i:30806987 original size:26 final size:26
Alignment explanation
Indices: 30806949--30806998 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
30806939 TGGAATAAAA
*
30806949 AGGGGTCGGTAAGTGTAGATTCCCTG
1 AGGGGTCGCTAAGTGTAGATTCCCTG
* *
30806975 AGGGGTTGCTAAGTGTTGATTCCC
1 AGGGGTCGCTAAGTGTAGATTCCC
30806999 CAAATTATTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.36, T:0.30
Consensus pattern (26 bp):
AGGGGTCGCTAAGTGTAGATTCCCTG
Found at i:30807105 original size:42 final size:41
Alignment explanation
Indices: 30807025--30807285 Score: 251
Period size: 42 Copynumber: 6.2 Consensus size: 41
30807015 GAGGTGGTAA
* *
30807025 GTGCTGATTCCACCGTATCT-TTGATTGTGAAAGGGGTTGCTAT
1 GTGCTGATTCC-CCGTAT-TATTGAATAT-AAAGGGGTTGCTAT
* *
30807068 GTGTTGATTCCCCGTATTATTGAATATAAAGGTGGTTGCTAA
1 GTGCTGATTCCCCGTATTATTGAATATAAAGG-GGTTGCTAT
* *
30807110 GTGCTGATTCCACCGTATCT-TTGATTGTGAAAGGGGTTGCTAT
1 GTGCTGATTCC-CCGTAT-TATTGAATAT-AAAGGGGTTGCTAT
* *
30807153 GTGCTGATTCCCCATATTATTGAATATAAAGGTGGTTGCTAA
1 GTGCTGATTCCCCGTATTATTGAATATAAAGG-GGTTGCTAT
* * *
30807195 GTGTTGATTCCACCGTATCT-TTGATTGTGAAAGGGGTTGCTAT
1 GTGCTGATTCC-CCGTAT-TATTGAATAT-AAAGGGGTTGCTAT
* * * *
30807238 GTGCTGATTCCCCGTATCATTGAAT-TTAAGGTAGTTGCTAA
1 GTGCTGATTCCCCGTATTATTGAATATAAAGG-GGTTGCTAT
30807279 GTGCTGA
1 GTGCTGA
30807286 ATCCACCGAG
Statistics
Matches: 183, Mismatches: 23, Indels: 26
0.79 0.10 0.11
Matches are distributed among these distances:
40 4 0.02
41 27 0.15
42 70 0.38
43 70 0.38
44 12 0.07
ACGTcount: A:0.22, C:0.15, G:0.26, T:0.37
Consensus pattern (41 bp):
GTGCTGATTCCCCGTATTATTGAATATAAAGGGGTTGCTAT
Found at i:30807144 original size:85 final size:85
Alignment explanation
Indices: 30806975--30807293 Score: 468
Period size: 85 Copynumber: 3.8 Consensus size: 85
30806965 AGATTCCCTG
* * * ** * *
30806975 AGGGGTTGCTAAGTGTTGATTCCCCAAATTATTGGCTCTAGAGGT-G--G-TAAGTGCTGATTCC
1 AGGGGTTGCTATGTGCTGATTCCCCATATTATTGAATATAAAGGTGGTTGCTAAGTGCTGATTCC
30807036 ACCGTATCTTTGATTGTGAA
66 ACCGTATCTTTGATTGTGAA
* *
30807056 AGGGGTTGCTATGTGTTGATTCCCCGTATTATTGAATATAAAGGTGGTTGCTAAGTGCTGATTCC
1 AGGGGTTGCTATGTGCTGATTCCCCATATTATTGAATATAAAGGTGGTTGCTAAGTGCTGATTCC
30807121 ACCGTATCTTTGATTGTGAA
66 ACCGTATCTTTGATTGTGAA
*
30807141 AGGGGTTGCTATGTGCTGATTCCCCATATTATTGAATATAAAGGTGGTTGCTAAGTGTTGATTCC
1 AGGGGTTGCTATGTGCTGATTCCCCATATTATTGAATATAAAGGTGGTTGCTAAGTGCTGATTCC
30807206 ACCGTATCTTTGATTGTGAA
66 ACCGTATCTTTGATTGTGAA
* * * * *
30807226 AGGGGTTGCTATGTGCTGATTCCCCGTATCATTGAAT-TTAAGGTAGTTGCTAAGTGCTGAATCC
1 AGGGGTTGCTATGTGCTGATTCCCCATATTATTGAATATAAAGGTGGTTGCTAAGTGCTGATTCC
30807290 ACCG
66 ACCG
30807294 AGTAACGGTT
Statistics
Matches: 218, Mismatches: 16, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
81 38 0.17
82 1 0.00
84 28 0.13
85 151 0.69
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.36
Consensus pattern (85 bp):
AGGGGTTGCTATGTGCTGATTCCCCATATTATTGAATATAAAGGTGGTTGCTAAGTGCTGATTCC
ACCGTATCTTTGATTGTGAA
Found at i:30807148 original size:43 final size:43
Alignment explanation
Indices: 30807022--30807293 Score: 303
Period size: 43 Copynumber: 6.4 Consensus size: 43
30807012 CTAGAGGTGG
30807022 TAAGTGCTGATTCCACCGTATCTTTGATTGTGAAAGG-GGTTGC
1 TAAGTGCTGATTCCACCGTATCTTTGATTGT-AAAGGTGGTTGC
* * * *
30807065 TATGTGTTGATTCC-CCGTAT-TATTGAATATAAAGGTGGTTGC
1 TAAGTGCTGATTCCACCGTATCT-TTGATTGTAAAGGTGGTTGC
30807107 TAAGTGCTGATTCCACCGTATCTTTGATTGTGAAAGG-GGTTGC
1 TAAGTGCTGATTCCACCGTATCTTTGATTGT-AAAGGTGGTTGC
* * * *
30807150 TATGTGCTGATTCC-CCATAT-TATTGAATATAAAGGTGGTTGC
1 TAAGTGCTGATTCCACCGTATCT-TTGATTGTAAAGGTGGTTGC
*
30807192 TAAGTGTTGATTCCACCGTATCTTTGATTGTGAAAGG-GGTTGC
1 TAAGTGCTGATTCCACCGTATCTTTGATTGT-AAAGGTGGTTGC
* * *
30807235 TATGTGCTGATTCC-CCGTATCATTGAATT-T-AAGGTAGTTGC
1 TAAGTGCTGATTCCACCGTATCTTTG-ATTGTAAAGGTGGTTGC
*
30807276 TAAGTGCTGAATCCACCG
1 TAAGTGCTGATTCCACCG
30807294 AGTAACGGTT
Statistics
Matches: 193, Mismatches: 23, Indels: 27
0.79 0.09 0.11
Matches are distributed among these distances:
40 4 0.02
41 29 0.15
42 73 0.38
43 75 0.39
44 12 0.06
ACGTcount: A:0.23, C:0.16, G:0.25, T:0.36
Consensus pattern (43 bp):
TAAGTGCTGATTCCACCGTATCTTTGATTGTAAAGGTGGTTGC
Found at i:30816257 original size:28 final size:28
Alignment explanation
Indices: 30816174--30816257 Score: 132
Period size: 28 Copynumber: 3.0 Consensus size: 28
30816164 CAGTAACAGC
*
30816174 ATAGTGTGGGCCTTAGCCCAATACAATA
1 ATAGTGTGGGCCTTAGCCCAATACAGTA
* *
30816202 AAAGTGTGAGCCTTAGCCCAATACAGTA
1 ATAGTGTGGGCCTTAGCCCAATACAGTA
*
30816230 ATAGTGTGGGCCTTAGCCCAATATAGTA
1 ATAGTGTGGGCCTTAGCCCAATACAGTA
30816258 TCAATATAGT
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 50 1.00
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (28 bp):
ATAGTGTGGGCCTTAGCCCAATACAGTA
Found at i:30816412 original size:26 final size:26
Alignment explanation
Indices: 30816365--30816418 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
30816355 AATACACCAA
* *
30816365 TATCGCAGCAAAGCTACTAGTAATAG
1 TATCGCAGCAAAGCTACCAGTAACAG
* *
30816391 TATCGCAGCGAAGCTGCCAGTAACAG
1 TATCGCAGCAAAGCTACCAGTAACAG
30816417 TA
1 TA
30816419 AATGTGGCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.20
Consensus pattern (26 bp):
TATCGCAGCAAAGCTACCAGTAACAG
Found at i:30816628 original size:27 final size:27
Alignment explanation
Indices: 30816598--30816707 Score: 125
Period size: 27 Copynumber: 4.1 Consensus size: 27
30816588 TCATCTCTTA
*
30816598 GGGGTATAACAGTCATTTTACCCTATG
1 GGGGTATATCAGTCATTTTACCCTATG
** *
30816625 GGGGTAT-TTTGATCATTTTACCATATG
1 GGGGTATATCAG-TCATTTTACCCTATG
* *
30816652 GGGGTATTTCAGTCATTTTATCCTATG
1 GGGGTATATCAGTCATTTTACCCTATG
*
30816679 GGGGTA-ATTCAGTTATTTTACCCTATG
1 GGGGTATA-TCAGTCATTTTACCCTATG
30816706 GG
1 GG
30816708 TATTTATGTC
Statistics
Matches: 69, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
26 1 0.01
27 66 0.96
28 2 0.03
ACGTcount: A:0.22, C:0.15, G:0.24, T:0.40
Consensus pattern (27 bp):
GGGGTATATCAGTCATTTTACCCTATG
Done.