Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 63 of 362
Found at i:19173621 original size:18 final size:18
Alignment explanation
Indices: 19173598--19173641 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
19173588 TTTGTGATCA
19173598 AAATTGAAAGTGAAAGTG
1 AAATTGAAAGTGAAAGTG
*
19173616 AAATTGAAATTGAAAGTG
1 AAATTGAAAGTGAAAGTG
*
19173634 ATATTGAA
1 AAATTGAA
19173642 TTGAGAAAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.23, T:0.27
Consensus pattern (18 bp):
AAATTGAAAGTGAAAGTG
Found at i:19173623 original size:12 final size:12
Alignment explanation
Indices: 19173598--19173641 Score: 61
Period size: 12 Copynumber: 3.7 Consensus size: 12
19173588 TTTGTGATCA
19173598 AAATTGAAAGTG
1 AAATTGAAAGTG
* *
19173610 AAAGTGAAATTG
1 AAATTGAAAGTG
19173622 AAATTGAAAGTG
1 AAATTGAAAGTG
*
19173634 ATATTGAA
1 AAATTGAA
19173642 TTGAGAAAGT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.50, C:0.00, G:0.23, T:0.27
Consensus pattern (12 bp):
AAATTGAAAGTG
Found at i:19180221 original size:18 final size:20
Alignment explanation
Indices: 19180198--19180244 Score: 64
Period size: 18 Copynumber: 2.5 Consensus size: 20
19180188 TCTATTATCT
*
19180198 ATTATTATTA-AATTAAATA
1 ATTATTATAATAATTAAATA
19180217 A-TATT-TAATAATTAAATA
1 ATTATTATAATAATTAAATA
19180235 ATTATTATAA
1 ATTATTATAA
19180245 GATTTTTTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
17 2 0.08
18 14 0.58
19 5 0.21
20 3 0.12
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
ATTATTATAATAATTAAATA
Found at i:19180370 original size:21 final size:21
Alignment explanation
Indices: 19180346--19180386 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
19180336 ATTTTATTTA
* *
19180346 ATTAGTAAATAGATATTTATT
1 ATTAGTAAAAAAATATTTATT
*
19180367 ATTATTAAAAAAATATTTAT
1 ATTAGTAAAAAAATATTTAT
19180387 GAGATAAATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (21 bp):
ATTAGTAAAAAAATATTTATT
Found at i:19181507 original size:41 final size:40
Alignment explanation
Indices: 19181462--19181561 Score: 96
Period size: 39 Copynumber: 2.5 Consensus size: 40
19181452 CGACCTTGAA
* * *
19181462 TCGATGAGACACTGGGTGTCACTATTTTACTTCGGATAGAT
1 TCGATGAGACACTGGGTGTCACAACTTTACTTCGGATAG-G
* ** * *
19181503 TCGATCAGGTACTGGGT-AC-CAACTTTACTTCGGCTAGG
1 TCGATGAGACACTGGGTGTCACAACTTTACTTCGGATAGG
*
19181541 CCGATGAGACACTGGGTGTCA
1 TCGATGAGACACTGGGTGTCA
19181562 AATATTGCTC
Statistics
Matches: 44, Mismatches: 13, Indels: 5
0.71 0.21 0.08
Matches are distributed among these distances:
38 13 0.30
39 16 0.36
40 1 0.02
41 14 0.32
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (40 bp):
TCGATGAGACACTGGGTGTCACAACTTTACTTCGGATAGG
Found at i:19183393 original size:31 final size:32
Alignment explanation
Indices: 19183333--19183469 Score: 117
Period size: 31 Copynumber: 4.4 Consensus size: 32
19183323 TAAAAAAAGC
* *
19183333 TTAGGTATCAAATTAGGAAAAAAAATGTCAAGT
1 TTAGGTACCAAATTAGG-AAAAAAGTGTCAAGT
*
19183366 TTAGGTACTAAATTAGG-AAAAAGTGTCAAGT
1 TTAGGTACCAAATTAGGAAAAAAGTGTCAAGT
* * *
19183397 TCAGGTACCGAATTGGGCCAAAAAA-----AAGT
1 TTAGGTACCAAATTAGG--AAAAAAGTGTCAAGT
* * *
19183426 TTATGTACCAAATTAGG-AAAAAGTATCAAAT
1 TTAGGTACCAAATTAGGAAAAAAGTGTCAAGT
19183457 TTAGGTACCAAAT
1 TTAGGTACCAAAT
19183470 ATTATATTAA
Statistics
Matches: 83, Mismatches: 13, Indels: 18
0.73 0.11 0.16
Matches are distributed among these distances:
26 5 0.06
29 17 0.20
31 41 0.49
33 15 0.18
34 5 0.06
ACGTcount: A:0.45, C:0.10, G:0.19, T:0.26
Consensus pattern (32 bp):
TTAGGTACCAAATTAGGAAAAAAGTGTCAAGT
Found at i:19185490 original size:30 final size:30
Alignment explanation
Indices: 19185456--19185515 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
19185446 ACTTAACAAG
*
19185456 CAAATACCTCTAAAATAATAATAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
* *
19185486 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
19185516 TAATAAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.58, C:0.13, G:0.02, T:0.27
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAACAAAATTAA
Found at i:19186464 original size:20 final size:20
Alignment explanation
Indices: 19186439--19186482 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
19186429 GAGTTTTTTT
19186439 TATATT-TTTAAATTTTATTA
1 TATATTCTTT-AATTTTATTA
* *
19186459 TATATTCTTTAGTTTTATTT
1 TATATTCTTTAATTTTATTA
19186479 TATA
1 TATA
19186483 AATTTTTTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 18 0.86
21 3 0.14
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (20 bp):
TATATTCTTTAATTTTATTA
Found at i:19187995 original size:29 final size:29
Alignment explanation
Indices: 19187953--19188017 Score: 130
Period size: 29 Copynumber: 2.2 Consensus size: 29
19187943 ACTCATCGAT
19187953 CACACGGTCGTGTATCGCCACACAGCCTC
1 CACACGGTCGTGTATCGCCACACAGCCTC
19187982 CACACGGTCGTGTATCGCCACACAGCCTC
1 CACACGGTCGTGTATCGCCACACAGCCTC
19188011 CACACGG
1 CACACGG
19188018 ATAGTCCACA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.22, C:0.42, G:0.22, T:0.15
Consensus pattern (29 bp):
CACACGGTCGTGTATCGCCACACAGCCTC
Found at i:19201479 original size:50 final size:50
Alignment explanation
Indices: 19201351--19201479 Score: 176
Period size: 49 Copynumber: 2.6 Consensus size: 50
19201341 CTGGTACGCA
**
19201351 TAGTAGCCTGCACTTAGTACTACACA--TGCAACCAACAGTCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTG-AACCAACAGTCTAATACACG
* *
19201400 TAGTAGCCTGCA-TTAGTACTACACACGTGACCTCACCA-TCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGAAC-CAACAGTCTAATACACG
19201449 TAGTAGCCTGCACTTAGTACTACACACGTGA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA
19201480 TCACAGTTTT
Statistics
Matches: 72, Mismatches: 4, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
48 13 0.18
49 35 0.49
50 24 0.33
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGAACCAACAGTCTAATACACG
Found at i:19212351 original size:23 final size:22
Alignment explanation
Indices: 19212299--19212356 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 22
19212289 GATCTTCGAA
*
19212299 GATATGCAATCTTAG---ATAT
1 GATATGTAATCTTAGAATATAT
19212318 GATATGTAATCTTAGAATATAT
1 GATATGTAATCTTAGAATATAT
*
19212340 GATTTTGTAATCTTAGA
1 GA-TATGTAATCTTAGA
19212357 GATTTGATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.42
22 6 0.18
23 13 0.39
ACGTcount: A:0.36, C:0.07, G:0.16, T:0.41
Consensus pattern (22 bp):
GATATGTAATCTTAGAATATAT
Found at i:19217330 original size:43 final size:42
Alignment explanation
Indices: 19217241--19217377 Score: 167
Period size: 41 Copynumber: 3.3 Consensus size: 42
19217231 TATTCGGGCT
* *
19217241 TTATTGCCTAGCAGGC-TTTGTGCCGGTG-ATTATATCAGGC
1 TTATTGCCTAGCAGGCTTTTATGCCGGTGTATTATATTAGGC
19217281 TTATTGCCTAGCAGGCTTTATATGCCGGTGTATTATATTAGGC
1 TTATTGCCTAGCAGGCTTT-TATGCCGGTGTATTATATTAGGC
* * *
19217324 TTATTGCCTAGCAGGCTCTGTA--CTGGTGTATTATACTAGGC
1 TTATTGCCTAGCAGGCT-TTTATGCCGGTGTATTATATTAGGC
19217365 TT-TATGCCTAGCA
1 TTAT-TGCCTAGCA
19217378 AATTTTATGT
Statistics
Matches: 87, Mismatches: 5, Indels: 9
0.86 0.05 0.09
Matches are distributed among these distances:
40 17 0.20
41 30 0.34
42 9 0.10
43 30 0.34
44 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.24, T:0.37
Consensus pattern (42 bp):
TTATTGCCTAGCAGGCTTTTATGCCGGTGTATTATATTAGGC
Found at i:19217364 original size:41 final size:40
Alignment explanation
Indices: 19217241--19217377 Score: 170
Period size: 43 Copynumber: 3.3 Consensus size: 40
19217231 TATTCGGGCT
*
19217241 TTATTGCCTAGCAGGCTTTGTGCCGGTG-ATTATATCAGGC
1 TTATTGCCTAGCAGGCTTTGTACCGGTGTATTATAT-AGGC
*
19217281 TTATTGCCTAGCAGGCTTTATATGCCGGTGTATTATATTAGGC
1 TTATTGCCTAGCAGGCTTTGTA--CCGGTGTATTATA-TAGGC
* *
19217324 TTATTGCCTAGCAGGCTCTGTACTGGTGTATTATACTAGGC
1 TTATTGCCTAGCAGGCTTTGTACCGGTGTATTATA-TAGGC
19217365 TT-TATGCCTAGCA
1 TTAT-TGCCTAGCA
19217378 AATTTTATGT
Statistics
Matches: 86, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
40 21 0.24
41 28 0.33
42 6 0.07
43 30 0.35
44 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.24, T:0.37
Consensus pattern (40 bp):
TTATTGCCTAGCAGGCTTTGTACCGGTGTATTATATAGGC
Found at i:19223976 original size:43 final size:41
Alignment explanation
Indices: 19223892--19224029 Score: 181
Period size: 41 Copynumber: 3.3 Consensus size: 41
19223882 TATTCGGGCT
*
19223892 TTATTGCCTAGCAAGCTTTGTGCCGGTGTATTATATCAGGC
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAGGC
* *
19223933 TTATTGCCTAGCAGGCTTTATATGCTGGTGTATTATATCAGGC
1 TTATTGCCTAGCAGGC-TT-TGTGCCGGTGTATTATATCAGGC
* *
19223976 TTATTGCTTAGCAGGCTCTGTGCCGGTGTATTATA-CTAGGC
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATC-AGGC
19224017 TT-TATGCCTAGCA
1 TTAT-TGCCTAGCA
19224030 AATTTTATGT
Statistics
Matches: 85, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
40 2 0.02
41 44 0.52
42 3 0.04
43 36 0.42
ACGTcount: A:0.20, C:0.19, G:0.24, T:0.38
Consensus pattern (41 bp):
TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAGGC
Found at i:19230168 original size:26 final size:26
Alignment explanation
Indices: 19230133--19230183 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
19230123 AATGTGAAAG
*
19230133 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
19230159 GGGGTTGCTAAGTGCTGATTCCCCG
1 GGGGTTGCTAAGTGCTGATTCCCCG
19230184 GTTCATTGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.12, C:0.24, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:19230195 original size:103 final size:103
Alignment explanation
Indices: 19230055--19230276 Score: 374
Period size: 103 Copynumber: 2.2 Consensus size: 103
19230045 TGTATATAAA
** * *
19230055 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
19230119 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
* *
19230158 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGATATCCACCATATCTT
19230223 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
19230261 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
19230277 GATATCCATT
Statistics
Matches: 112, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
103 111 0.99
104 1 0.01
ACGTcount: A:0.18, C:0.18, G:0.32, T:0.32
Consensus pattern (103 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
Found at i:19230328 original size:70 final size:72
Alignment explanation
Indices: 19230196--19230346 Score: 243
Period size: 71 Copynumber: 2.1 Consensus size: 72
19230186 TCATTGGTGG
* *
19230196 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATT-CCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
19230260 GAGGGGT
66 GAGGGGT
***
19230267 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
19230331 GAGGGGT
66 GAGGGGT
19230338 TGCTAAGTG
1 TGCTAAGTG
19230347 ATGATTCCCG
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
70 24 0.32
71 50 0.68
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
GAGGGGT
Found at i:19232376 original size:47 final size:47
Alignment explanation
Indices: 19232302--19232455 Score: 263
Period size: 47 Copynumber: 3.3 Consensus size: 47
19232292 TCCTTCGGGA
* *
19232302 CTTATCACATATATACACTTTCCCATTCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
** *
19232349 CTTATCACATATATACACTTTCACATTCATCACATTTGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
19232396 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
19232443 CTTATCACATATA
1 CTTATCACATATA
19232456 CATATCTTGT
Statistics
Matches: 99, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 99 1.00
ACGTcount: A:0.29, C:0.29, G:0.07, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:19234324 original size:13 final size:13
Alignment explanation
Indices: 19234306--19234330 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19234296 TACTAAATTT
19234306 TCATGGATTCAAA
1 TCATGGATTCAAA
19234319 TCATGGATTCAA
1 TCATGGATTCAA
19234331 TATACCATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAA
Found at i:19235119 original size:17 final size:17
Alignment explanation
Indices: 19235069--19235119 Score: 66
Period size: 19 Copynumber: 2.9 Consensus size: 17
19235059 TGGAAACATG
*
19235069 ATCTTCGAAGATATGCA
1 ATCTTAGAAGATATGCA
*
19235086 ATCTTAGATATGATATGTA
1 ATCTTAGA-A-GATATGCA
19235105 ATCTTAGAAGATATG
1 ATCTTAGAAGATATG
19235120 ATTTTGTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 13 0.43
18 2 0.07
19 15 0.50
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.35
Consensus pattern (17 bp):
ATCTTAGAAGATATGCA
Found at i:19235131 original size:23 final size:21
Alignment explanation
Indices: 19235091--19235149 Score: 82
Period size: 22 Copynumber: 2.7 Consensus size: 21
19235081 ATGCAATCTT
*
19235091 AGATATGATATGTAATCTTAG
1 AGATATGATTTGTAATCTTAG
19235112 AAGATATGATTTTGTAATCTTAG
1 -AGATATGA-TTTGTAATCTTAG
*
19235135 AGATTTGATTTGTAA
1 AGATATGATTTGTAA
19235150 GATACCCTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
21 7 0.21
22 15 0.44
23 12 0.35
ACGTcount: A:0.36, C:0.03, G:0.19, T:0.42
Consensus pattern (21 bp):
AGATATGATTTGTAATCTTAG
Found at i:19236128 original size:16 final size:16
Alignment explanation
Indices: 19236107--19236137 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19236097 ATAATAATAC
19236107 AAAAATTAAAGATTTT
1 AAAAATTAAAGATTTT
*
19236123 AAAAATTAAATATTT
1 AAAAATTAAAGATTT
19236138 ATATATATTA
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:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (16 bp):
AAAAATTAAAGATTTT
Found at i:19238092 original size:18 final size:18
Alignment explanation
Indices: 19238066--19238100 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
19238056 GAATTATTCG
*
19238066 AATCGAGTTAATCGAATT
1 AATCAAGTTAATCGAATT
19238084 AATCAAGTTAATCGAAT
1 AATCAAGTTAATCGAAT
19238101 CAACTCGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.31
Consensus pattern (18 bp):
AATCAAGTTAATCGAATT
Found at i:19238500 original size:12 final size:12
Alignment explanation
Indices: 19238483--19238515 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
19238473 TATTTTTTAG
19238483 TTATTTACTCAC
1 TTATTTACTCAC
*
19238495 TTATTTATTCAC
1 TTATTTACTCAC
19238507 TTATTTACT
1 TTATTTACT
19238516 TCAATTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.24, C:0.18, G:0.00, T:0.58
Consensus pattern (12 bp):
TTATTTACTCAC
Found at i:19238553 original size:16 final size:18
Alignment explanation
Indices: 19238522--19238554 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
19238512 TACTTCAATT
19238522 TTTTGTTGTATGAAAAAA
1 TTTTGTTGTATGAAAAAA
19238540 TTTT-TTGT-TGAAAAA
1 TTTTGTTGTATGAAAAA
19238555 TTACATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.48
Consensus pattern (18 bp):
TTTTGTTGTATGAAAAAA
Found at i:19241641 original size:72 final size:71
Alignment explanation
Indices: 19241562--19241753 Score: 287
Period size: 72 Copynumber: 2.7 Consensus size: 71
19241552 ATGCTAAACC
* *
19241562 AGTTTTATCAATAGTTATTTATGTTTGGTTATTGGATATTAAATTTATGTTCTACTTATTTATGT
1 AGTTTTATCAATAGTTGTTTATGTTTGGTT-TTGGATATTGAATTTATGTTCTACTTATTTATGT
19241627 CTAATCT
65 CTAATCT
* *
19241634 AGTTTTATCAATGGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATATTCTACTTATTTATGT
1 AGTTTTATCAATAGTTGTTTATGTTTGG-TTTTGGATATTGAATTTATGTTCTACTTATTTATGT
*
19241699 GTAATCT
65 CTAATCT
* *
19241706 TG-TTTATTAATAGTTGTTTATGTTTGGTCTTTGGATATTGAATTTATG
1 AGTTTTATCAATAGTTGTTTATGTTTGGT-TTTGGATATTGAATTTATG
19241754 GTACTAGTTT
Statistics
Matches: 109, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
70 1 0.01
71 41 0.38
72 65 0.60
73 2 0.02
ACGTcount: A:0.23, C:0.05, G:0.16, T:0.55
Consensus pattern (71 bp):
AGTTTTATCAATAGTTGTTTATGTTTGGTTTTGGATATTGAATTTATGTTCTACTTATTTATGTC
TAATCT
Found at i:19243281 original size:12 final size:12
Alignment explanation
Indices: 19243259--19243284 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
19243249 TAATGATGAC
19243259 GATGATGATGGT
1 GATGATGATGGT
19243271 GATGATGATGGT
1 GATGATGATGGT
19243283 GA
1 GA
19243285 ATCAAACAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.00, G:0.42, T:0.31
Consensus pattern (12 bp):
GATGATGATGGT
Found at i:19243559 original size:20 final size:20
Alignment explanation
Indices: 19243536--19243585 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
19243526 AAATTCAAAT
* *
19243536 TAAAATATTGAAATTCAGGA
1 TAAAATACTAAAATTCAGGA
*
19243556 TAAAATCCTAAAATTCAGGA
1 TAAAATACTAAAATTCAGGA
19243576 TAAGAATACT
1 TAA-AATACT
19243586 GATGTGGCAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 20 0.80
21 5 0.20
ACGTcount: A:0.50, C:0.10, G:0.12, T:0.28
Consensus pattern (20 bp):
TAAAATACTAAAATTCAGGA
Found at i:19244435 original size:40 final size:40
Alignment explanation
Indices: 19244346--19244452 Score: 119
Period size: 41 Copynumber: 2.6 Consensus size: 40
19244336 ATATATAAAT
* *
19244346 ATTATTTATTATATTTATTAAAAATTCTTTATTCTATCTAG
1 ATTATTTATTAAATTTATT-GAAATTCTTTATTCTATCTAG
*
19244387 ATTATTTATTAAATTTAGTTGAAATTCTTTATT-TATCTCG
1 ATTATTTATTAAATTTA-TTGAAATTCTTTATTCTATCTAG
* *
19244427 -TTAATTTATTAACTTCATTTGAAATT
1 ATT-ATTTATTAAATTTA-TTGAAATT
19244453 ATCTAGTCCT
Statistics
Matches: 58, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
39 2 0.03
40 26 0.45
41 28 0.48
42 2 0.03
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (40 bp):
ATTATTTATTAAATTTATTGAAATTCTTTATTCTATCTAG
Found at i:19247997 original size:21 final size:21
Alignment explanation
Indices: 19247967--19248006 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
19247957 TGGGCTTGCG
*
19247967 GGAGATAAAGG-ATTTGATTGA
1 GGAGACAAAGGTA-TTGATTGA
19247988 GGAGACAAAGGTATTGATT
1 GGAGACAAAGGTATTGATT
19248007 TACGTAACTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 16 0.94
22 1 0.06
ACGTcount: A:0.38, C:0.03, G:0.33, T:0.28
Consensus pattern (21 bp):
GGAGACAAAGGTATTGATTGA
Found at i:19250986 original size:13 final size:13
Alignment explanation
Indices: 19250968--19250993 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
19250958 CTAGGGTCGG
19250968 CATAGATATTTTA
1 CATAGATATTTTA
19250981 CATAGATATTTTA
1 CATAGATATTTTA
19250994 ACTTATATAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (13 bp):
CATAGATATTTTA
Found at i:19256547 original size:14 final size:13
Alignment explanation
Indices: 19256495--19256555 Score: 52
Period size: 14 Copynumber: 4.6 Consensus size: 13
19256485 AGAAATAGAT
*
19256495 AAATAATACAA-A
1 AAATAATATAATA
*
19256507 AAATAATATTATA
1 AAATAATATAATA
* *
19256520 ATATATTATCAATA
1 AAATAATAT-AATA
19256534 AAATAATATAAATA
1 AAATAATAT-AATA
*
19256548 AATTAATA
1 AAATAATA
19256556 AATTATATAA
Statistics
Matches: 38, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
12 9 0.24
13 8 0.21
14 21 0.55
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (13 bp):
AAATAATATAATA
Found at i:19256563 original size:21 final size:21
Alignment explanation
Indices: 19256534--19256586 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
19256524 ATTATCAATA
19256534 AAATAATATAAATAAATTAAT
1 AAATAATATAAATAAATTAAT
*
19256555 AAATTATATAAATAAATT-AT
1 AAATAATATAAATAAATTAAT
19256575 AATACTAATATA
1 AA-A-TAATATA
19256587 TATTTAGAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 4 0.14
21 18 0.64
22 6 0.21
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (21 bp):
AAATAATATAAATAAATTAAT
Found at i:19266802 original size:20 final size:21
Alignment explanation
Indices: 19266773--19266817 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
19266763 AAGTCAAAGT
19266773 AATG-TATAAAAA-TTAAAAA
1 AATGTTATAAAAATTTAAAAA
*
19266792 AATGTTATAAAAATTTTAAAA
1 AATGTTATAAAAATTTAAAAA
19266813 AATGT
1 AATGT
19266818 ATTTTAGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.17
20 8 0.35
21 11 0.48
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (21 bp):
AATGTTATAAAAATTTAAAAA
Found at i:19270797 original size:70 final size:72
Alignment explanation
Indices: 19270683--19270833 Score: 243
Period size: 71 Copynumber: 2.1 Consensus size: 72
19270673 GGGGAATCAT
* *
19270683 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTT-TCATTTCAAATATACAATG
1 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACAATG
19270747 GATATCG
66 GATATCG
***
19270754 CACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
1 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACAATG
19270818 GATATCG
66 GATATCG
19270825 CACTTAGCA
1 CACTTAGCA
19270834 CCACCAATGA
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
70 28 0.38
71 46 0.62
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (72 bp):
CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACAATG
GATATCG
Found at i:19270937 original size:104 final size:103
Alignment explanation
Indices: 19270753--19270975 Score: 367
Period size: 104 Copynumber: 2.2 Consensus size: 103
19270743 AATGGATATC
19270753 GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
1 GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
* *
19270818 GATATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GATATCGCACATAGCACCACCAATAAACCGGGGAATCA
19270856 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
19270921 GGATCA-CGCACATAGCACCACCCATAAATCGGGGAATCA
65 GGAT-ATCGCACATAGCACCACCAATAAACCGGGGAATCA
**
19270960 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
19270976 TTTATATACA
Statistics
Matches: 112, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
103 17 0.15
104 94 0.84
105 1 0.01
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (103 bp):
GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
GATATCGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:19271336 original size:29 final size:29
Alignment explanation
Indices: 19271303--19271366 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
19271293 TAATCCACCA
19271303 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
19271332 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
19271362 CCCAA
1 CCCAA
19271367 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:19271340 original size:30 final size:30
Alignment explanation
Indices: 19271310--19271366 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
19271300 CCACCCAACT
19271310 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
19271339 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
19271367 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:19278256 original size:26 final size:26
Alignment explanation
Indices: 19278220--19278272 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
19278210 CACCACTGAA
* *
19278220 TCGGGGAATCATCACTTAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
19278246 TCGGGGAATCAGCACATAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
19278272 T
1 T
19278273 TTTCATTTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.28, C:0.34, G:0.21, T:0.17
Consensus pattern (26 bp):
TCGGGGAATCAGCACATAGCAACCCC
Found at i:19278347 original size:70 final size:70
Alignment explanation
Indices: 19278232--19278417 Score: 232
Period size: 72 Copynumber: 2.6 Consensus size: 70
19278222 GGGGAATCAT
* *
19278232 CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAA-CCCCTTTTCATTTCAAATATACAATGGA
1 CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTACATTTCAAAGATACAATGGA
19278296 TATCG
66 TATCG
***
19278301 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
1 CACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTT-ACATTTCAAAGATACAATG
19278366 GATATCG
64 GATATCG
*
19278373 CACTTAGC-ACCACCAATGAACGGGGAATCAGCACTTAGCAACCCC
1 CACTTAGCAACC-CC--T---CGGGGAATCAGCACATAGCAACCCC
19278418 TCGGGGGAAT
Statistics
Matches: 102, Mismatches: 6, Indels: 11
0.86 0.05 0.09
Matches are distributed among these distances:
69 16 0.16
70 20 0.20
71 10 0.10
72 31 0.30
74 1 0.01
76 23 0.23
77 1 0.01
ACGTcount: A:0.31, C:0.31, G:0.17, T:0.21
Consensus pattern (70 bp):
CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTACATTTCAAAGATACAATGGA
TATCG
Found at i:19278421 original size:103 final size:104
Alignment explanation
Indices: 19278300--19278522 Score: 378
Period size: 103 Copynumber: 2.2 Consensus size: 104
19278290 AATGGATATC
19278300 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
19278365 GGAT-ATCGCACTTAGCACCACCAATGAA-CGGGGAATCA
66 GGATCA-CGCACATAGCACCACCAATAAATCGGGGAATCA
19278403 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
*
19278468 GGATCACGCACATAGCACCACCCATAAATCGGGGAATCA
66 GGATCACGCACATAGCACCACCAATAAATCGGGGAATCA
**
19278507 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
19278523 TTATATACAA
Statistics
Matches: 113, Mismatches: 5, Indels: 3
0.93 0.04 0.02
Matches are distributed among these distances:
103 88 0.78
104 25 0.22
ACGTcount: A:0.31, C:0.31, G:0.19, T:0.18
Consensus pattern (104 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATCACGCACATAGCACCACCAATAAATCGGGGAATCA
Found at i:19278883 original size:29 final size:29
Alignment explanation
Indices: 19278850--19278913 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
19278840 TAATCCACCA
19278850 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
19278879 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
19278909 CCCAA
1 CCCAA
19278914 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:19278887 original size:30 final size:30
Alignment explanation
Indices: 19278857--19278913 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
19278847 CCACCCAACT
19278857 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
19278886 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
19278914 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:19292618 original size:25 final size:25
Alignment explanation
Indices: 19292590--19292668 Score: 85
Period size: 25 Copynumber: 3.3 Consensus size: 25
19292580 CTAATGGCCG
19292590 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* * * *
19292615 ATGTGAT-AAGGCCG-AA-TGGA-AA
1 ATGTGATGAATG-TGAAAGTGTATAT
19292637 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
19292662 ATGTGAT
1 ATGTGAT
19292669 AAGGCCTAAT
Statistics
Matches: 41, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
22 9 0.22
23 8 0.20
24 8 0.20
25 16 0.39
ACGTcount: A:0.37, C:0.03, G:0.29, T:0.32
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:19292618 original size:47 final size:47
Alignment explanation
Indices: 19292565--19292718 Score: 263
Period size: 47 Copynumber: 3.3 Consensus size: 47
19292555 ACAAGATATG
19292565 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
* ***
19292612 TATATGTGATAAGGCCGAATGGAAAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
*
19292659 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGGGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
19292706 TATATGTGATAAG
1 TATATGTGATAAG
19292719 TCCCGAAGGA
Statistics
Matches: 98, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 98 1.00
ACGTcount: A:0.34, C:0.06, G:0.30, T:0.29
Consensus pattern (47 bp):
TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
Found at i:19295281 original size:39 final size:39
Alignment explanation
Indices: 19295227--19295304 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
19295217 GCTCAGATTA
*
19295227 CATAGTTCCTAGTGATATGTCACTTGTATTCTAAACTAT
1 CATAGTTCCTAGTGATATGTCACTTGTATCCTAAACTAT
*
19295266 CATAGTTCCTTGTGATATGTCACTTGTATCCTAAACTAT
1 CATAGTTCCTAGTGATATGTCACTTGTATCCTAAACTAT
19295305 TTCTAAGGTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.27, C:0.19, G:0.13, T:0.41
Consensus pattern (39 bp):
CATAGTTCCTAGTGATATGTCACTTGTATCCTAAACTAT
Found at i:19295394 original size:25 final size:25
Alignment explanation
Indices: 19295366--19295414 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
19295356 CCAAAGGACC
* *
19295366 AATCATATAACTCATGATAATGATT
1 AATCACATAACTCATCATAATGATT
* *
19295391 AATCACATAATTCTTCATAATGAT
1 AATCACATAACTCATCATAATGAT
19295415 GATAATAAAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.43, C:0.14, G:0.06, T:0.37
Consensus pattern (25 bp):
AATCACATAACTCATCATAATGATT
Found at i:19311776 original size:25 final size:25
Alignment explanation
Indices: 19311747--19311794 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
19311737 TTATAATATG
* * *
19311747 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
19311772 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
19311795 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:19311856 original size:20 final size:20
Alignment explanation
Indices: 19311831--19311893 Score: 108
Period size: 20 Copynumber: 3.1 Consensus size: 20
19311821 ATTTTGATAA
19311831 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
19311851 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
*
19311871 ACACGATATGTATGATATGC
1 ACATGATATGTATGATATGC
19311891 ACA
1 ACA
19311894 CGAGATGTTC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:19311894 original size:20 final size:20
Alignment explanation
Indices: 19311835--19311901 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
19311825 TGATAAACAT
*
19311835 GATATGTATGATATGCACAT
1 GATATGTATGATATGCACAC
*
19311855 GACATGTATGATATGCACAC
1 GATATGTATGATATGCACAC
19311875 GATATGTATGATATGCACAC
1 GATATGTATGATATGCACAC
*
19311895 GAGATGT
1 GATATGT
19311902 TCATAAATGC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.34, C:0.13, G:0.22, T:0.30
Consensus pattern (20 bp):
GATATGTATGATATGCACAC
Found at i:19312003 original size:24 final size:24
Alignment explanation
Indices: 19311947--19312089 Score: 177
Period size: 23 Copynumber: 6.0 Consensus size: 24
19311937 GAGGAAGTGC
19311947 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
19311971 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
19311994 AAAAGGGCTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
19312018 -AAAGGGCATATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
19312041 AAATAAGGGATT-TGCCCTAGTTATT
1 -AA-AAGGGCTTATGCCCCAGTTATT
*
19312066 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
19312090 ATGATAAAGC
Statistics
Matches: 103, Mismatches: 9, Indels: 13
0.82 0.07 0.10
Matches are distributed among these distances:
23 48 0.47
24 29 0.28
25 20 0.19
26 6 0.06
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:19312016 original size:47 final size:48
Alignment explanation
Indices: 19311947--19312068 Score: 194
Period size: 47 Copynumber: 2.6 Consensus size: 48
19311937 GAGGAAGTGC
* *
19311947 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT-
1 AAAAGGGCTTATGCCCTAGTTATTAAAGGGCATATGCCCCAGTTATTA
19311994 AAAAGGGCTTATGCCCTAGTTATTAAAGGGCATATGCCCCAGTTATTA
1 AAAAGGGCTTATGCCCTAGTTATTAAAGGGCATATGCCCCAGTTATTA
*
19312042 AATAAGGGATT-TGCCCTAGTTATTAAA
1 AA-AAGGGCTTATGCCCTAGTTATTAAA
19312069 AGAGGCTAGG
Statistics
Matches: 70, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
47 45 0.64
48 18 0.26
49 7 0.10
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.30
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCTAGTTATTAAAGGGCATATGCCCCAGTTATTA
Found at i:19312317 original size:31 final size:31
Alignment explanation
Indices: 19312282--19312345 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
19312272 CGTTTACAGT
19312282 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
19312313 AAAGGCTTCGGCCCAGTGTTATGAATTATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
19312344 AA
1 AA
19312346 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:19315351 original size:24 final size:23
Alignment explanation
Indices: 19315324--19315395 Score: 56
Period size: 25 Copynumber: 2.9 Consensus size: 23
19315314 CATTTTTTTC
*
19315324 TTTACATTATTTATTATAA-ATTGT
1 TTTACATTATTTATT-TAAGATT-A
19315348 TTTACTATATATATTATTTAAGATTA
1 TTTAC-AT-TAT-TTATTTAAGATTA
*
19315374 TTTATATTATTTACTTTTAAGA
1 TTTACATTATTTA--TTTAAGA
19315396 GCTTTATATA
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
23 3 0.08
24 8 0.20
25 11 0.28
26 10 0.25
27 8 0.20
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (23 bp):
TTTACATTATTTATTTAAGATTA
Found at i:19316377 original size:127 final size:127
Alignment explanation
Indices: 19316137--19316453 Score: 388
Period size: 127 Copynumber: 2.5 Consensus size: 127
19316127 GAAAATTCCT
* * * *
19316137 TAAAACCAAGGCAATATTCGATGTTTGGAAATTCGGGGAAT-AGTGCCTTATCATGCTGGGTTTT
1 TAAAA-CAAGGCAATGTTCGATGTTTGGAAATTCGGGGAATCA-TGCCCTATCGTGCTGGGTTTC
** *
19316201 GATTTACCGTTTGTTCAAAATAATCAAATATTCGTTTAGAATTTTACTCGTGTTTTCTAAATCC
64 GATTTACCGTTTGCCCAAAATAATCAAATATTCGTTTAGAATTTCACTCGTGTTTTCTAAATCC
* *
19316265 TAAAACAAGGCAATGTTTGATATTTGGAAATTCGGGGAATCATGCCCTATCGTGCTGGGTTTCGA
1 TAAAACAAGGCAATGTTCGATGTTTGGAAATTCGGGGAATCATGCCCTATCGTGCTGGGTTTCGA
* * * * * *
19316330 TTTCCCGTTTGCCCAAAATAGTCGAATATTTC-TTTGGGATTTCACTCGTGTTTTCTAAATTC
66 TTTACCGTTTGCCCAAAATAATCAAATA-TTCGTTTAGAATTTCACTCGTGTTTTCTAAATCC
* * * * * *
19316392 TAAGATAAGGCAATGTTCAATGTTTGGAAATTTGGGGAATCGTGCCCT-GCAGTGCTGGGTTT
1 TAAAACAAGGCAATGTTCGATGTTTGGAAATTCGGGGAATCATGCCCTATC-GTGCTGGGTTT
19316454 TAGTTTTTCG
Statistics
Matches: 163, Mismatches: 23, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
126 1 0.01
127 153 0.94
128 9 0.06
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.37
Consensus pattern (127 bp):
TAAAACAAGGCAATGTTCGATGTTTGGAAATTCGGGGAATCATGCCCTATCGTGCTGGGTTTCGA
TTTACCGTTTGCCCAAAATAATCAAATATTCGTTTAGAATTTCACTCGTGTTTTCTAAATCC
Found at i:19324168 original size:42 final size:41
Alignment explanation
Indices: 19324088--19324237 Score: 162
Period size: 41 Copynumber: 3.6 Consensus size: 41
19324078 GAGCTTGGTC
19324088 TCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTT
1 TCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTT
* *
19324129 TCGAAGGGCTTTTTAGAGCCAGTG-TCATAACCGGACTTAGTT
1 TCGAAGGGC-TTTT-GAGCCAGTGCTAATAACCGAACTTAGTT
* * * * * *
19324171 CCGAAGGGCCTTCGAGCCAGTAGTCTAAT--CCGAGCTTGGTC
1 TCGAAGGGCTTTTGAGCCAGT-G-CTAATAACCGAACTTAGTT
*
19324212 TCGAAGGGCTTTTGAGCCGGTGCTAA
1 TCGAAGGGCTTTTGAGCCAGTGCTAA
19324238 GAGTCGGACT
Statistics
Matches: 90, Mismatches: 14, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
39 4 0.04
40 9 0.10
41 37 0.41
42 28 0.31
43 12 0.13
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (41 bp):
TCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTT
Found at i:19324220 original size:41 final size:40
Alignment explanation
Indices: 19324068--19324237 Score: 152
Period size: 41 Copynumber: 4.2 Consensus size: 40
19324058 GCTAATCGGG
* *
19324068 GTCTAAATCTGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGT
1 GTCT-AATCCGAGCTTAGTCTCGAAGGGCTTTTGAGCCAGT
* *
19324109 G-CTAATAACCGAACTTAGTTTCGAAGGGCTTTTTAGAGCCAGT
1 GTCTAAT--CCGAGCTTAGTCTCGAAGGGC-TTTT-GAGCCAGT
* *
19324152 GTCATAA-CCG-GACTTAGT-TCCGAAGGGCCTTCGAGCCAGT
1 GTC-TAATCCGAG-CTTAGTCT-CGAAGGGCTTTTGAGCCAGT
* *
19324192 AGTCTAATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCGGT
1 -GTCTAATCCGAGCTTAGTCTCGAAGGGCTTTTGAGCCAGT
19324233 G-CTAA
1 GTCTAA
19324238 GAGTCGGACT
Statistics
Matches: 106, Mismatches: 11, Indels: 26
0.74 0.08 0.18
Matches are distributed among these distances:
39 7 0.07
40 14 0.13
41 49 0.46
42 23 0.22
43 9 0.08
44 1 0.01
45 3 0.03
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (40 bp):
GTCTAATCCGAGCTTAGTCTCGAAGGGCTTTTGAGCCAGT
Found at i:19332509 original size:42 final size:41
Alignment explanation
Indices: 19332429--19332578 Score: 162
Period size: 41 Copynumber: 3.6 Consensus size: 41
19332419 GAGCTTGGTC
19332429 TCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTT
1 TCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTT
* *
19332470 TCGAAGGGCTTTTTAGAGCCAGTG-TCATAACCGGACTTAGTT
1 TCGAAGGGC-TTTT-GAGCCAGTGCTAATAACCGAACTTAGTT
* * * * * *
19332512 CCGAAGGGCCTTCGAGCCAGTAGTCTAAT--CCGAGCTTGGTC
1 TCGAAGGGCTTTTGAGCCAGT-G-CTAATAACCGAACTTAGTT
*
19332553 TCGAAGGGCTTTTGAGCCGGTGCTAA
1 TCGAAGGGCTTTTGAGCCAGTGCTAA
19332579 GAGTCGGACT
Statistics
Matches: 90, Mismatches: 14, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
39 4 0.04
40 9 0.10
41 37 0.41
42 28 0.31
43 12 0.13
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (41 bp):
TCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTT
Found at i:19332561 original size:41 final size:40
Alignment explanation
Indices: 19332409--19332578 Score: 161
Period size: 41 Copynumber: 4.2 Consensus size: 40
19332399 GCTAATCGGG
*
19332409 GTCTAAATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGT
1 GTCT-AATCCGAGCTTAGTCTCGAAGGGCTTTTGAGCCAGT
* *
19332450 G-CTAATAACCGAACTTAGTTTCGAAGGGCTTTTTAGAGCCAGT
1 GTCTAAT--CCGAGCTTAGTCTCGAAGGGC-TTTT-GAGCCAGT
* *
19332493 GTCATAA-CCG-GACTTAGT-TCCGAAGGGCCTTCGAGCCAGT
1 GTC-TAATCCGAG-CTTAGTCT-CGAAGGGCTTTTGAGCCAGT
* *
19332533 AGTCTAATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCGGT
1 -GTCTAATCCGAGCTTAGTCTCGAAGGGCTTTTGAGCCAGT
19332574 G-CTAA
1 GTCTAA
19332579 GAGTCGGACT
Statistics
Matches: 107, Mismatches: 10, Indels: 26
0.75 0.07 0.18
Matches are distributed among these distances:
39 7 0.07
40 14 0.13
41 50 0.47
42 23 0.21
43 9 0.08
44 1 0.01
45 3 0.03
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (40 bp):
GTCTAATCCGAGCTTAGTCTCGAAGGGCTTTTGAGCCAGT
Found at i:19338727 original size:89 final size:89
Alignment explanation
Indices: 19338618--19339278 Score: 867
Period size: 89 Copynumber: 7.4 Consensus size: 89
19338608 AGCGGGTTGA
* * *
19338618 AGTAGCAAGTCTTATCTCCCTAAAGTTGTAGTGGAGTAGACTAAAGATAGCAGATCTGGTCTCCC
1 AGTAACAAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGACTGAAGATAGCAGATCTGGTCTCCC
19338683 TGAAGTTGCAGTGGAGCAGATCGG
66 TGAAGTTGCAGTGGAGCAGATCGG
* *
19338707 AGTAACAAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGGCTGATGATAGCAGATCTGGTCTCCC
1 AGTAACAAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGACTGAAGATAGCAGATCTGGTCTCCC
* *
19338772 TGAAGTTGCAGTAGAGCAGATCAG
66 TGAAGTTGCAGTGGAGCAGATCGG
* * * * * *
19338796 AGTAACGAGTGTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAAATAGCAGATTTGATCTCCC
1 AGTAACAAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGACTGAAGATAGCAGATCTGGTCTCCC
*
19338861 TGAAGTTGCAGTGGAGCAGATCAG
66 TGAAGTTGCAGTGGAGCAGATCGG
* * * *
19338885 AGTAGCAAGTCTTATCTCTCTAAAGTTGTAGTGGAGCAGACTGAAGACAGCAGATCTGGCCTCCC
1 AGTAACAAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGACTGAAGATAGCAGATCTGGTCTCCC
* *
19338950 TGAAGTTGCAGTGGAGTAGATCAG
66 TGAAGTTGCAGTGGAGCAGATCGG
* * *
19338974 AGTAGCAAGTCTTATCTCCCTAAATTTGTAGTGGAGCAGACTGAAGATAGCAGATCTAGTCTCCC
1 AGTAACAAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGACTGAAGATAGCAGATCTGGTCTCCC
* *
19339039 TAAAGTTGCAGTGGAGCAGATCGA
66 TGAAGTTGCAGTGGAGCAGATCGG
* * *
19339063 AGTAACAAGTCTTATTTTCCTAAATTTGTAGTGGAGCA-AGCTGAAGATAGCAGATCTGGTCTCC
1 AGTAACAAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGA-CTGAAGATAGCAGATCTGGTCTCC
* * *
19339127 CTGAAGTTGCAGTGGAGAAAATTGG
65 CTGAAGTTGCAGTGGAGCAGATCGG
* * * * * *
19339152 AGTAACGAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAAACTAAAGATAGCAGATCTGATCTCCT
1 AGTAACAAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGACTGAAGATAGCAGATCTGGTCTCCC
**** *
19339217 TGAAGCAATAGT-GAGCAGATCGA
66 TGAAGTTGCAGTGGAGCAGATCGG
** ** * *
19339240 AGCCACAAACCTTATCTCCCTAAAGTTGCAGAGGAGCAG
1 AGTAACAAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAG
19339279 GTTGAGGTCA
Statistics
Matches: 500, Mismatches: 70, Indels: 5
0.87 0.12 0.01
Matches are distributed among these distances:
88 38 0.08
89 461 0.92
90 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (89 bp):
AGTAACAAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGACTGAAGATAGCAGATCTGGTCTCCC
TGAAGTTGCAGTGGAGCAGATCGG
Found at i:19339597 original size:17 final size:18
Alignment explanation
Indices: 19339562--19339599 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
19339552 CCCAAATTCA
19339562 AAACCCAAAACATAGCCC
1 AAACCCAAAACATAGCCC
*
19339580 AAACCCAATACA-AGCCC
1 AAACCCAAAACATAGCCC
19339597 AAA
1 AAA
19339600 TAAACTTAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.53, C:0.37, G:0.05, T:0.05
Consensus pattern (18 bp):
AAACCCAAAACATAGCCC
Found at i:19340011 original size:46 final size:46
Alignment explanation
Indices: 19339944--19340040 Score: 194
Period size: 46 Copynumber: 2.1 Consensus size: 46
19339934 AAAAGCAAAG
19339944 ATTTCAAGGTGGTTCATTTTCTTTTCCTCTCTGATTTTCCTCTTTT
1 ATTTCAAGGTGGTTCATTTTCTTTTCCTCTCTGATTTTCCTCTTTT
19339990 ATTTCAAGGTGGTTCATTTTCTTTTCCTCTCTGATTTTCCTCTTTT
1 ATTTCAAGGTGGTTCATTTTCTTTTCCTCTCTGATTTTCCTCTTTT
19340036 ATTTC
1 ATTTC
19340041 TTACTTTTTT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 51 1.00
ACGTcount: A:0.11, C:0.22, G:0.10, T:0.57
Consensus pattern (46 bp):
ATTTCAAGGTGGTTCATTTTCTTTTCCTCTCTGATTTTCCTCTTTT
Found at i:19340872 original size:29 final size:29
Alignment explanation
Indices: 19340838--19340899 Score: 124
Period size: 29 Copynumber: 2.1 Consensus size: 29
19340828 TTTTAAATCT
19340838 TTTTTTTTGTATTATTCATTCTAAAATAA
1 TTTTTTTTGTATTATTCATTCTAAAATAA
19340867 TTTTTTTTGTATTATTCATTCTAAAATAA
1 TTTTTTTTGTATTATTCATTCTAAAATAA
19340896 TTTT
1 TTTT
19340900 ATTACTTAGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.61
Consensus pattern (29 bp):
TTTTTTTTGTATTATTCATTCTAAAATAA
Found at i:19341847 original size:127 final size:126
Alignment explanation
Indices: 19341581--19341897 Score: 357
Period size: 127 Copynumber: 2.5 Consensus size: 126
19341571 GAAAGTTCCT
* * * * * *
19341581 TAAAACCAATGCAATATTCGATGTTTAGAAATTTGGGGAAT-AGTGCCCTATCGTGCTGGGTTTC
1 TAAAA-CAAGGCAATGTTCAATATTTAGAAATTCGGGGAATCA-TGCCCTATCGTGCTAGGTTTC
* ** * * *
19341645 GATTTCCCGTTTGTTCAAATAATCGAATATTCCTTTAGAATTTTACTCGTGTTTTCTAAATCC
64 AATTTCCCGTTTGCCCAAATAATCAAATATTACTTTAGAATTTCACTCGTGTTTTCTAAATCC
** * *
19341708 TAAAACAAGGCAATGTTTGATATTTGGAAATTCGGGGAATCATGCCTTATCGTGCTAGGTTTCAA
1 TAAAACAAGGCAATGTTCAATATTTAGAAATTCGGGGAATCATGCCCTATCGTGCTAGGTTTCAA
* * *
19341773 TTTCCCGTTTGCCCAAAATAGTCAAATATTACTTTGGAATTTCACTCGTGTTTTCTAAATTC
66 TTTCCCGTTTGCCC-AAATAATCAAATATTACTTTAGAATTTCACTCGTGTTTTCTAAATCC
* * * * * * * *
19341835 TAAGATAAGGCAATGTTCAATGTTTACAAATTCAGGGAATCATGCCCTACCGTGATGGGTTTC
1 TAAAACAAGGCAATGTTCAATATTTAGAAATTCGGGGAATCATGCCCTATCGTGCTAGGTTTC
19341898 GGTTTTTCGT
Statistics
Matches: 159, Mismatches: 29, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
126 61 0.38
127 98 0.62
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.36
Consensus pattern (126 bp):
TAAAACAAGGCAATGTTCAATATTTAGAAATTCGGGGAATCATGCCCTATCGTGCTAGGTTTCAA
TTTCCCGTTTGCCCAAATAATCAAATATTACTTTAGAATTTCACTCGTGTTTTCTAAATCC
Found at i:19346601 original size:40 final size:40
Alignment explanation
Indices: 19346556--19346736 Score: 204
Period size: 40 Copynumber: 4.5 Consensus size: 40
19346546 GATTTCGATA
19346556 TATATATGGCACTTAGTGTACGATTCGAGATAGCTTCGGC
1 TATATATGGCACTTAGTGTACGATTCGAGATAGCTTCGGC
* * * *
19346596 TATATATAGCACTTAGTGTGCAATTCAAGATAGCTTCGGC
1 TATATATGGCACTTAGTGTACGATTCGAGATAGCTTCGGC
* * ** *
19346636 TATATATGACATTTAGTGTGTGATTCG-GAATAGCTTTGGC
1 TATATATGGCACTTAGTGTACGATTCGAG-ATAGCTTCGGC
* * *
19346676 TATATATGGCACTTGGTGTGCAAGA-CCGAGATAGCTTCGGC
1 TATATATGGCACTTAGTGT--ACGATTCGAGATAGCTTCGGC
*
19346717 TATATAAGGCACTTAGTGTA
1 TATATATGGCACTTAGTGTA
19346737 ACAGCCCGAT
Statistics
Matches: 117, Mismatches: 20, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
39 2 0.02
40 83 0.71
41 29 0.25
42 3 0.03
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.33
Consensus pattern (40 bp):
TATATATGGCACTTAGTGTACGATTCGAGATAGCTTCGGC
Found at i:19346652 original size:80 final size:81
Alignment explanation
Indices: 19346556--19346736 Score: 240
Period size: 80 Copynumber: 2.2 Consensus size: 81
19346546 GATTTCGATA
19346556 TATATATGGCACTTAGTGTACGATTC-GAGATAGCTTCGGCTATATATAGCACTTAGTGTGCAA-
1 TATATATGGCACTTAGTGTACGATTCGGA-ATAGCTTCGGCTATATATAGCACTTAGTGTGCAAG
**
19346619 TTCAAGATAGCTTCGGC
65 ACCAAGATAGCTTCGGC
* * ** * * *
19346636 TATATATGACATTTAGTGTGTGATTCGGAATAGCTTTGGCTATATATGGCACTTGGTGTGCAAGA
1 TATATATGGCACTTAGTGTACGATTCGGAATAGCTTCGGCTATATATAGCACTTAGTGTGCAAGA
*
19346701 CCGAGATAGCTTCGGC
66 CCAAGATAGCTTCGGC
*
19346717 TATATAAGGCACTTAGTGTA
1 TATATATGGCACTTAGTGTA
19346737 ACAGCCCGAT
Statistics
Matches: 85, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
80 53 0.62
81 32 0.38
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.33
Consensus pattern (81 bp):
TATATATGGCACTTAGTGTACGATTCGGAATAGCTTCGGCTATATATAGCACTTAGTGTGCAAGA
CCAAGATAGCTTCGGC
Found at i:19348007 original size:43 final size:43
Alignment explanation
Indices: 19347956--19348103 Score: 156
Period size: 43 Copynumber: 3.4 Consensus size: 43
19347946 TGAGATTACA
* * *
19347956 TGTAAGACCATGTCTGGGACATTGTCATTG-TATTGTGATTAT-G
1 TGTAAGACCATGTCTGGGACATTGGCATCGTTA-TATGATT-TCG
*
19347999 TGTGAGACCATGTCTGGGACATTGGCATCGTTATATGATTTCG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTTATATGATTTCG
* * * * ** *
19348042 TGTAAGACCCTGTCTGGGACAATGGCATCGATATGTGATAACA
1 TGTAAGACCATGTCTGGGACATTGGCATCGTTATATGATTTCG
*
19348085 TGTAAGACCATATCTGGGA
1 TGTAAGACCATGTCTGGGA
19348104 TATCGCATTG
Statistics
Matches: 89, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
42 1 0.01
43 86 0.97
44 2 0.02
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGTTATATGATTTCG
Found at i:19350784 original size:10 final size:9
Alignment explanation
Indices: 19350761--19350786 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
19350751 TTTGGTTTTG
19350761 GTTTTTGAT
1 GTTTTTGAT
19350770 GTTTTTGAT
1 GTTTTTGAT
19350779 GTTTTTGA
1 GTTTTTGA
19350787 GATCCTTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.23, T:0.65
Consensus pattern (9 bp):
GTTTTTGAT
Found at i:19351806 original size:46 final size:49
Alignment explanation
Indices: 19351657--19351928 Score: 250
Period size: 46 Copynumber: 5.8 Consensus size: 49
19351647 GTGTTATTGT
* * * * *
19351657 GAGCTAGTGTAAGA-CATGTCTGGGATA-AGCATCGGCC-AGATTATG-A
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA-GATGTA
* **
19351703 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTAAGATG-A
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTA
* *
19351751 GAGCTAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCTCGAGATGTA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTA
*
19351798 -AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGG-TTACGAGATGT-
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CGAGATGTA
* * * * *
19351843 --GTCAATGTAAGACCATGTCTGGGACATGGCATTGGCAC-GGATATGTAA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCGAGATGT-A
*
19351891 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGC
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
19351929 ATTATACCCT
Statistics
Matches: 188, Mismatches: 25, Indels: 22
0.80 0.11 0.09
Matches are distributed among these distances:
44 10 0.05
45 15 0.08
46 79 0.42
47 26 0.14
48 25 0.13
49 1 0.01
50 32 0.17
ACGTcount: A:0.28, C:0.18, G:0.31, T:0.23
Consensus pattern (49 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTA
Found at i:19354989 original size:15 final size:15
Alignment explanation
Indices: 19354962--19355005 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
19354952 TATATTCCCG
19354962 TATCTTGGGATTTCTC
1 TATCTT-GGATTTCTC
*
19354978 TATCTTGGATTTCTT
1 TATCTTGGATTTCTC
*
19354993 TA-CTTGGTTTTCT
1 TATCTTGGATTTCT
19355006 TGTTATCTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
14 10 0.38
15 10 0.38
16 6 0.23
ACGTcount: A:0.11, C:0.16, G:0.16, T:0.57
Consensus pattern (15 bp):
TATCTTGGATTTCTC
Found at i:19357544 original size:46 final size:46
Alignment explanation
Indices: 19357395--19357615 Score: 227
Period size: 46 Copynumber: 4.8 Consensus size: 46
19357385 GTGTTATTGT
* * * *
19357395 GAGCTAGTGTAAGACATGTCTGGGACAAGCATCGGCC-AGATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATGA
* **
19357441 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTAAGATGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGA
* *
19357489 GAGCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATG-A
*
19357536 -AGCCAGTGTAAGACATGTCTGGGACATGCATCGG-TTACGAGAT--
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGA
* * *
19357579 GTGTCAATGTAAGACCATGTCTGGGACATGGCATCGG
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGG
19357616 AACGGATATG
Statistics
Matches: 150, Mismatches: 17, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
44 10 0.07
45 15 0.10
46 72 0.48
47 27 0.18
48 25 0.17
49 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.31, T:0.23
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGA
Found at i:19363391 original size:59 final size:58
Alignment explanation
Indices: 19363322--19363452 Score: 138
Period size: 58 Copynumber: 2.2 Consensus size: 58
19363312 ACTTATTTGA
* **
19363322 CCCTTCAACTT-TGCAAAAAAGTCATTTTAACCCTTCATTTACTTTTTTACATCTTTCAG
1 CCCTTAAACTTATG-AAAAAAGTCA-AATAACCCTTCATTTACTTTTTTACATCTTTCAG
****** * *
19363381 CCCTTAAACTTATGTTGTTTGTCAAATCACCCTTCATTTACTTTTTTACCTCTTTCAG
1 CCCTTAAACTTATGAAAAAAGTCAAATAACCCTTCATTTACTTTTTTACATCTTTCAG
19363439 CCCTTAAACTTATG
1 CCCTTAAACTTATG
19363453 TTGTTTGTCA
Statistics
Matches: 60, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
58 44 0.73
59 14 0.23
60 2 0.03
ACGTcount: A:0.24, C:0.26, G:0.06, T:0.44
Consensus pattern (58 bp):
CCCTTAAACTTATGAAAAAAGTCAAATAACCCTTCATTTACTTTTTTACATCTTTCAG
Found at i:19363413 original size:29 final size:29
Alignment explanation
Indices: 19363381--19363471 Score: 73
Period size: 29 Copynumber: 3.1 Consensus size: 29
19363371 CATCTTTCAG
19363381 CCCTTAAACTTATGTTGTTTGTCAAATCA
1 CCCTTAAACTTATGTTGTTTGTCAAATCA
* * * **
19363410 CCCTT-CATTTACT-TT-TTTACCTC-TTTCA
1 CCCTTAAACTTA-TGTTGTTT--GTCAAATCA
19363438 GCCCTTAAACTTATGTTGTTTGTCAAATCA
1 -CCCTTAAACTTATGTTGTTTGTCAAATCA
19363468 CCCT
1 CCCT
19363472 AAAATAGATG
Statistics
Matches: 44, Mismatches: 10, Indels: 16
0.63 0.14 0.23
Matches are distributed among these distances:
27 3 0.07
28 9 0.20
29 20 0.45
30 9 0.20
31 3 0.07
ACGTcount: A:0.22, C:0.26, G:0.08, T:0.44
Consensus pattern (29 bp):
CCCTTAAACTTATGTTGTTTGTCAAATCA
Found at i:19363418 original size:58 final size:58
Alignment explanation
Indices: 19363351--19363471 Score: 233
Period size: 58 Copynumber: 2.1 Consensus size: 58
19363341 AGTCATTTTA
19363351 ACCCTTCATTTACTTTTTTACATCTTTCAGCCCTTAAACTTATGTTGTTTGTCAAATC
1 ACCCTTCATTTACTTTTTTACATCTTTCAGCCCTTAAACTTATGTTGTTTGTCAAATC
*
19363409 ACCCTTCATTTACTTTTTTACCTCTTTCAGCCCTTAAACTTATGTTGTTTGTCAAATC
1 ACCCTTCATTTACTTTTTTACATCTTTCAGCCCTTAAACTTATGTTGTTTGTCAAATC
19363467 ACCCT
1 ACCCT
19363472 AAAATAGATG
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 62 1.00
ACGTcount: A:0.21, C:0.26, G:0.07, T:0.45
Consensus pattern (58 bp):
ACCCTTCATTTACTTTTTTACATCTTTCAGCCCTTAAACTTATGTTGTTTGTCAAATC
Found at i:19363581 original size:9 final size:9
Alignment explanation
Indices: 19363553--19363626 Score: 64
Period size: 9 Copynumber: 8.2 Consensus size: 9
19363543 TAATTATTTT
*
19363553 TTAAAAAAA
1 TTAAAAATA
*
19363562 TTACAAA-A
1 TTAAAAATA
19363570 TTAAAAATA
1 TTAAAAATA
19363579 TTAAAAAGTA
1 TTAAAAA-TA
* *
19363589 TTAAAATTG
1 TTAAAAATA
19363598 TTAAAAAGTA
1 TTAAAAA-TA
19363608 -TAAAAATCA
1 TTAAAAAT-A
19363617 -TAAAAATA
1 TTAAAAATA
19363625 TT
1 TT
19363627 TTTAAAATTT
Statistics
Matches: 54, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
8 9 0.17
9 36 0.67
10 9 0.17
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.31
Consensus pattern (9 bp):
TTAAAAATA
Found at i:19363593 original size:19 final size:19
Alignment explanation
Indices: 19363569--19363626 Score: 68
Period size: 19 Copynumber: 3.2 Consensus size: 19
19363559 AAATTACAAA
19363569 ATTAAAAATATTAAAAAGT
1 ATTAAAAATATTAAAAAGT
* *
19363588 ATTAAAATTGTTAAAAAGT
1 ATTAAAAATATTAAAAAGT
19363607 A-TAAAAATCA-TAAAAA-T
1 ATTAAAAAT-ATTAAAAAGT
19363624 ATT
1 ATT
19363627 TTTAAAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
17 2 0.06
18 13 0.39
19 18 0.55
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (19 bp):
ATTAAAAATATTAAAAAGT
Found at i:19363639 original size:11 final size:11
Alignment explanation
Indices: 19363619--19363655 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
19363609 AAAAATCATA
*
19363619 AAAATATTTTT
1 AAAATTTTTTT
19363630 AAAATTTTTTT
1 AAAATTTTTTT
19363641 --AATTTTTTT
1 AAAATTTTTTT
19363650 AAAATT
1 AAAATT
19363656 AATTAGTTGC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
9 9 0.39
11 14 0.61
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
AAAATTTTTTT
Found at i:19364105 original size:3 final size:3
Alignment explanation
Indices: 19364097--19364137 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
19364087 TATCTAGTTT
19364097 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
19364138 TTCTATATTC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:19373675 original size:49 final size:47
Alignment explanation
Indices: 19373550--19373913 Score: 171
Period size: 48 Copynumber: 7.7 Consensus size: 47
19373540 GGTATGATGC
* * **
19373550 CGACGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAATT
1 CGACGCCATGTCCCAGACATGGTCTTACACTGACTCATCAATCAAGG
* *
19373597 CGATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCGAAATCGAGG
1 CGACGCCATGTCCCAGACATGGTCTTACACTGACTCATC--AATCAAGG
* * *
19373645 CTGACGTCATGTCCCAGACATGGTCTTACACTAGCTCTCA-CATATC-CGTG
1 C-GACGCCATGTCCCAGACATGGTCTTACACT-G-ACTCATCA-ATCAAG-G
* * * * * * *
19373695 CCGATGCCATGTCTCAGACATAGTCTTACACTGACACCTCTAT-ACGTG
1 -CGACGCCATGTCCCAGACATGGTCTTACACTGACTCATCAATCAAG-G
* * * * * * *
19373743 CCAATGCAATGTCCTAGACATGGTCTTACACTGACACATC--TCGTAGC
1 -CGACGCCATGTCCCAGACATGGTCTTACACTGACTCATCAATC-AAGG
* * * *
19373790 CGATG-CATGTCCCAGACAT-GTCTTACATTGGCTTACATC--TCGAGG
1 CGACGCCATGTCCCAGACATGGTCTTACACTGAC-T-CATCAATCAAGG
* * ** *
19373835 CCGATG-CATGTCCCAAACAT-GTCTTACACT-AGCTC-TCGTCTCAATGT
1 -CGACGCCATGTCCCAGACATGGTCTTACACTGA-CTCATC-AATCAA-GG
* *
19373882 CGATGCCATGTTCCAGACATGGTCTTACACTG
1 CGACGCCATGTCCCAGACATGGTCTTACACTG
19373914 GCTCTCATAA
Statistics
Matches: 251, Mismatches: 42, Indels: 46
0.74 0.12 0.14
Matches are distributed among these distances:
43 2 0.01
44 12 0.05
45 15 0.06
46 50 0.20
47 46 0.18
48 58 0.23
49 32 0.13
50 31 0.12
51 4 0.02
52 1 0.00
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (47 bp):
CGACGCCATGTCCCAGACATGGTCTTACACTGACTCATCAATCAAGG
Found at i:19373831 original size:46 final size:48
Alignment explanation
Indices: 19373556--19373958 Score: 245
Period size: 46 Copynumber: 8.5 Consensus size: 48
19373546 ATGCCGACGC
* * **
19373556 CATGTCCCAGACATGGTCTTACACTGGCTCATCCA--TC-AATTCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTC-TACATCTCGTAGCCGATG
* * ** * *
19373602 CCATGTCCCAGACATGGTCTTACACTGACTAT-CGAAATCG-AGGCTGACG
1 -CATGTCCCAGACATGGTCTTACACTGGCTCTAC-ATCTCGTA-GCCGATG
* *
19373651 TCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGT-GCCGATG
1 -CATGTCCCAGACATGGTCTTACACTGGCTCT-ACATCT-CGTAGCCGATG
* * * * * *
19373701 CCATGTCTCAGACATAGTCTTACACTGACACCT-CTAT-ACGT-GCCAATG
1 -CATGTCCCAGACATGGTCTTACACTGGC-TCTAC-ATCTCGTAGCCGATG
* *
19373749 CAATGTCCTAGACATGGTCTTACACT-G-AC-ACATCTCGTAGCCGATG
1 C-ATGTCCCAGACATGGTCTTACACTGGCTCTACATCTCGTAGCCGATG
*
19373795 CATGTCCCAGACAT-GTCTTACATTGGCT-TACATCTCG-AGGCCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTCTACATCTCGTA-GCCGATG
* * * * *
19373841 CATGTCCCAAACAT-GTCTTACACTAGCTCT-CGTCTC-AATGTCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTCTACATCTCGTA-GCCGATG
* * * *
19373887 CCATGTTCCAGACATGGTCTTACACTGGCTCT-CATAAT-GTGGCAGATG
1 -CATGTCCCAGACATGGTCTTACACTGGCTCTACAT-CTCGTAGCCGATG
*
19373935 CATGTTCCAGACAT-GTCTTACACT
1 CATGTCCCAGACATGGTCTTACACT
19373959 AGCACACAAA
Statistics
Matches: 285, Mismatches: 46, Indels: 51
0.75 0.12 0.13
Matches are distributed among these distances:
44 11 0.04
45 20 0.07
46 71 0.25
47 56 0.20
48 55 0.19
49 33 0.12
50 34 0.12
51 5 0.02
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (48 bp):
CATGTCCCAGACATGGTCTTACACTGGCTCTACATCTCGTAGCCGATG
Found at i:19373935 original size:48 final size:48
Alignment explanation
Indices: 19373548--19373958 Score: 254
Period size: 47 Copynumber: 8.7 Consensus size: 48
19373538 AGGGTATGAT
*
19373548 GCCGACGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAT-T-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-T-CAT-AATGTG
* * *
19373597 --CGATGCCATGTCCCAGACATGGTCTTACACTGACTATCGA-AATCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC-ATAAT-GTG
* * * * *
19373644 GCTGACGTCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGT-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-AT--GTG
* * * * *
19373694 GCCGATGCCATGTCTCAGACATAGTCTTACACTGACACCTC-TATACGT-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TCTCATA-ATGTG
* * * * * * *
19373742 GCCAATGCAATGTCCTAGACATGGTCTTACACTGACACATC-T--CGTA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCATAATGTG
* * *
19373788 GCCGATG-CATGTCCCAGACAT-GTCTTACATTGGCT-TACAT-CTCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAAT-GTG
* * *
19373834 GCCGATG-CATGTCCCAAACAT-GTCTTACACTAGCTCTCGTCTCAATGT-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC--AT-AATGTG
*
19373882 --CGATGCCATGTTCCAGACATGGTCTTACACTGGCTCTCATAATGTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTG
* *
19373928 GCAGATG-CATGTTCCAGACAT-GTCTTACACT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT
19373959 AGCACACAAA
Statistics
Matches: 289, Mismatches: 47, Indels: 55
0.74 0.12 0.14
Matches are distributed among these distances:
42 1 0.00
43 1 0.00
44 15 0.05
45 21 0.07
46 58 0.20
47 61 0.21
48 58 0.20
49 34 0.12
50 35 0.12
51 5 0.02
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTG
Found at i:19373935 original size:94 final size:96
Alignment explanation
Indices: 19373556--19373961 Score: 342
Period size: 94 Copynumber: 4.3 Consensus size: 96
19373546 ATGCCGACGC
* *
19373556 CATGTCCCAGACATGGTCTTACACT-G-GCTCATCCATCAAT-TCGATGCCATGTCCCAGACATG
1 CATGTCCCAGACATGGTCTTACACTAGCTCTCAT-C-TCAATGCCGATGCCATGTCCCAGACATG
* * *
19373618 GTCTTACACTGACTATCGA-AATCGAGGCTGACG
64 GTCTTACACTGACTCTC-ATAATCGAGGCAGATG
* ** *
19373651 TCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGTGCCGATGCCATGTCTCAGACAT
1 -CATGTCCCAGACATGGTCTTACACTAGCTCT--CATCTCAATGCCGATGCCATGTCCCAGACAT
* * * *
19373716 AGTCTTACACTGACACCTC-T-ATACGTGCCA-ATG
63 GGTCTTACACTGAC-TCTCATAAT-CGAGGCAGATG
* * * *
19373749 CAATGTCCTAGACATGGTCTTACACT-G-ACACATCTC-GTAGCCGATG-CATGTCCCAGACAT-
1 C-ATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCAAT-GCCGATGCCATGTCCCAGACATG
* * * *
19373809 GTCTTACATTGGCT-TACAT-CTCGAGGCCGATG
64 GTCTTACACTGACTCT-CATAATCGAGGCAGATG
* * * *
19373841 CATGTCCCAAACAT-GTCTTACACTAGCTCTCGTCTCAATGTCGATGCCATGTTCCAGACATGGT
1 CATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCAATGCCGATGCCATGTCCCAGACATGGT
* *
19373905 CTTACACTGGCTCTCATAAT-GTGGCAGATG
66 CTTACACTGACTCTCATAATCGAGGCAGATG
*
19373935 CATGTTCCAGACAT-GTCTTACACTAGC
1 CATGTCCCAGACATGGTCTTACACTAGC
19373962 ACACAAATTA
Statistics
Matches: 251, Mismatches: 39, Indels: 42
0.76 0.12 0.13
Matches are distributed among these distances:
90 11 0.04
91 17 0.07
92 29 0.12
93 29 0.12
94 61 0.24
95 2 0.01
96 26 0.10
97 3 0.01
98 32 0.13
99 36 0.14
100 5 0.02
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (96 bp):
CATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCAATGCCGATGCCATGTCCCAGACATGGT
CTTACACTGACTCTCATAATCGAGGCAGATG
Found at i:19377154 original size:26 final size:26
Alignment explanation
Indices: 19377118--19377227 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
19377108 TGATACAAAT
19377118 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
19377144 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
19377170 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
19377196 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
19377222 TGATAA
1 TGATAA
19377228 GAATTTCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:19378888 original size:27 final size:27
Alignment explanation
Indices: 19378847--19378986 Score: 165
Period size: 27 Copynumber: 5.2 Consensus size: 27
19378837 GAGGAAGCGT
* *
19378847 TCTGGTGGCTATGCCACAAATATCTAA
1 TCTGGTGGCTCTGCCACAAATATCTGA
19378874 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* * *
19378901 TGTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
19378928 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
19378956 TCTGGTGACTCTGTCAC-ACTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
19378982 TCTGG
1 TCTGG
19378987 CAGCCATGCT
Statistics
Matches: 98, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
26 5 0.05
27 78 0.80
28 15 0.15
ACGTcount: A:0.19, C:0.24, G:0.23, T:0.34
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:19380915 original size:6 final size:6
Alignment explanation
Indices: 19380904--19380930 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
19380894 TTACAATAAT
19380904 CATTTA CATTTA CATTTA CATTTA CAT
1 CATTTA CATTTA CATTTA CATTTA CAT
19380931 GCCAATATGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.19, G:0.00, T:0.48
Consensus pattern (6 bp):
CATTTA
Found at i:19396778 original size:7 final size:7
Alignment explanation
Indices: 19396768--19396862 Score: 58
Period size: 7 Copynumber: 14.0 Consensus size: 7
19396758 TTTTATATAC
19396768 TAATAAA
1 TAATAAA
19396775 TAATAAA
1 TAATAAA
*
19396782 TAATGTAA
1 TAAT-AAA
*
19396790 TAATATA
1 TAATAAA
19396797 TAATAAA
1 TAATAAA
**
19396804 -AGGAAGA
1 TAATAA-A
19396811 TAAT--A
1 TAATAAA
*
19396816 TAAGAAA
1 TAATAAA
*
19396823 TAATATA
1 TAATAAA
19396830 TAAT-AA
1 TAATAAA
*
19396836 -AATATA
1 TAATAAA
19396842 TAATGAAA
1 TAAT-AAA
19396850 T-ATAAA
1 TAATAAA
19396856 TAATAAA
1 TAATAAA
19396863 ATAACATATA
Statistics
Matches: 65, Mismatches: 14, Indels: 18
0.67 0.14 0.19
Matches are distributed among these distances:
5 7 0.11
6 9 0.14
7 39 0.60
8 10 0.15
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.29
Consensus pattern (7 bp):
TAATAAA
Found at i:19396832 original size:19 final size:18
Alignment explanation
Indices: 19396810--19396889 Score: 58
Period size: 19 Copynumber: 4.2 Consensus size: 18
19396800 TAAAAGGAAG
19396810 ATAATATAAGAAATAATAT
1 ATAATATAA-AAATAATAT
19396829 ATAATA-AAATATATAATGAAAT
1 ATAATATAAA-A-ATAAT---AT
*
19396851 ATAA-ATAATAAAATAACAT
1 ATAATAT-A-AAAATAATAT
19396870 ATAAT-TAAAAATAATAT
1 ATAATATAAAAATAATAT
19396887 ATA
1 ATA
19396890 CTATTTTTAT
Statistics
Matches: 50, Mismatches: 2, Indels: 20
0.69 0.03 0.28
Matches are distributed among these distances:
17 13 0.26
18 4 0.08
19 18 0.36
21 1 0.02
22 10 0.20
23 2 0.04
24 2 0.04
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.31
Consensus pattern (18 bp):
ATAATATAAAAATAATAT
Found at i:19396842 original size:26 final size:26
Alignment explanation
Indices: 19396813--19396865 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
19396803 AAGGAAGATA
*
19396813 ATATAA-GAAATAATATATAATAAAAT
1 ATATAATGAAAT-ATAAATAATAAAAT
19396839 ATATAATGAAATATAAATAATAAAAT
1 ATATAATGAAATATAAATAATAAAAT
19396865 A
1 A
19396866 ACATATAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 20 0.80
27 5 0.20
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (26 bp):
ATATAATGAAATATAAATAATAAAAT
Found at i:19396864 original size:14 final size:12
Alignment explanation
Indices: 19396824--19396865 Score: 57
Period size: 12 Copynumber: 3.3 Consensus size: 12
19396814 TATAAGAAAT
19396824 AATATATAATAA
1 AATATATAATAA
19396836 AATATATAATGAA
1 AATATATAAT-AA
*
19396849 ATATAAATAATAA
1 A-ATATATAATAA
19396862 AATA
1 AATA
19396866 ACATATAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
12 13 0.48
13 6 0.22
14 8 0.30
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (12 bp):
AATATATAATAA
Found at i:19398550 original size:44 final size:44
Alignment explanation
Indices: 19398459--19398766 Score: 370
Period size: 44 Copynumber: 7.0 Consensus size: 44
19398449 TCAGGAATGT
* * * * * ***
19398459 CAAATCTGCTATCTTTGATTTGCTCCCTGACAATACGGAGGTTC
1 CAAATCTACTATCTTCGATCTGCTCTCTGACAATACAGAGACGC
*
19398503 CAAACCTACTATCTTCGATCTGCTCTCTGACAATACAGAGACGC
1 CAAATCTACTATCTTCGATCTGCTCTCTGACAATACAGAGACGC
* * *
19398547 CAAATCTATTATCTTCGATCTTCTCTCTAACAATACAGAGACGC
1 CAAATCTACTATCTTCGATCTGCTCTCTGACAATACAGAGACGC
* *
19398591 TAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGC
1 CAAATCTACTATCTTCGATCTGCTCTCTGACAATACAGAGACGC
* * ** *
19398635 CAAATCTTCTATC-TCTGATCTGCTCTCCGTTAATACAGAGATGC
1 CAAATCTACTATCTTC-GATCTGCTCTCTGACAATACAGAGACGC
* * * * *
19398679 CAGATGT-C-ATCTTCGATCTGCTCTCTGTCAATACAAAGATGC
1 CAAATCTACTATCTTCGATCTGCTCTCTGACAATACAGAGACGC
19398721 CAAATCTACTATCTTCGATCTGCTCTCTGACAATACAGAGACGC
1 CAAATCTACTATCTTCGATCTGCTCTCTGACAATACAGAGACGC
19398765 CA
1 CA
19398767 GATGTCACCG
Statistics
Matches: 226, Mismatches: 34, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
42 33 0.15
43 6 0.03
44 187 0.83
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.30
Consensus pattern (44 bp):
CAAATCTACTATCTTCGATCTGCTCTCTGACAATACAGAGACGC
Found at i:19398783 original size:86 final size:86
Alignment explanation
Indices: 19398513--19398773 Score: 362
Period size: 86 Copynumber: 3.0 Consensus size: 86
19398503 CAAACCTACT
* * *
19398513 ATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTATTATCTTCGATCTTCTCTCTAAC
1 ATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCTGAC
* * *
19398578 AATACAGAGACGCTAAATCTGC
66 AATACAGAGACGCCAGATGT-C
* *
19398600 TATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTTCTATC-TCTGATCTGCTCTCCG
1 -ATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTACTATCTTC-GATCTGCTCTCTG
** *
19398664 TTAATACAGAGATGCCAGATGTC
64 ACAATACAGAGACGCCAGATGTC
* * *
19398687 ATCTTCGATCTGCTCTCTGTCAATACAAAGATGCCAAATCTACTATCTTCGATCTGCTCTCTGAC
1 ATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCTGAC
19398752 AATACAGAGACGCCAGATGTC
66 AATACAGAGACGCCAGATGTC
19398773 A
1 A
19398774 CCGGTGATCT
Statistics
Matches: 152, Mismatches: 19, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
86 76 0.50
87 5 0.03
88 71 0.47
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.30
Consensus pattern (86 bp):
ATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCTGAC
AATACAGAGACGCCAGATGTC
Found at i:19410709 original size:7 final size:7
Alignment explanation
Indices: 19410699--19410793 Score: 58
Period size: 7 Copynumber: 14.0 Consensus size: 7
19410689 TTTTATATAC
19410699 TAATAAA
1 TAATAAA
19410706 TAATAAA
1 TAATAAA
*
19410713 TAATGTAA
1 TAAT-AAA
*
19410721 TAATATA
1 TAATAAA
19410728 TAATAAA
1 TAATAAA
**
19410735 -AGGAAGA
1 TAATAA-A
19410742 TAAT--A
1 TAATAAA
*
19410747 TAAGAAA
1 TAATAAA
*
19410754 TAATATA
1 TAATAAA
19410761 TAAT-AA
1 TAATAAA
*
19410767 -AATATA
1 TAATAAA
19410773 TAATGAAA
1 TAAT-AAA
19410781 T-ATAAA
1 TAATAAA
19410787 TAATAAA
1 TAATAAA
19410794 ATAACATATA
Statistics
Matches: 65, Mismatches: 14, Indels: 18
0.67 0.14 0.19
Matches are distributed among these distances:
5 7 0.11
6 9 0.14
7 39 0.60
8 10 0.15
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.29
Consensus pattern (7 bp):
TAATAAA
Found at i:19410763 original size:19 final size:18
Alignment explanation
Indices: 19410741--19410820 Score: 58
Period size: 19 Copynumber: 4.2 Consensus size: 18
19410731 TAAAAGGAAG
19410741 ATAATATAAGAAATAATAT
1 ATAATATAA-AAATAATAT
19410760 ATAATA-AAATATATAATGAAAT
1 ATAATATAAA-A-ATAAT---AT
*
19410782 ATAA-ATAATAAAATAACAT
1 ATAATAT-A-AAAATAATAT
19410801 ATAAT-TAAAAATAATAT
1 ATAATATAAAAATAATAT
19410818 ATA
1 ATA
19410821 CTATTTTTAT
Statistics
Matches: 50, Mismatches: 2, Indels: 20
0.69 0.03 0.28
Matches are distributed among these distances:
17 13 0.26
18 4 0.08
19 18 0.36
21 1 0.02
22 10 0.20
23 2 0.04
24 2 0.04
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.31
Consensus pattern (18 bp):
ATAATATAAAAATAATAT
Found at i:19410773 original size:26 final size:26
Alignment explanation
Indices: 19410744--19410796 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
19410734 AAGGAAGATA
*
19410744 ATATAA-GAAATAATATATAATAAAAT
1 ATATAATGAAAT-ATAAATAATAAAAT
19410770 ATATAATGAAATATAAATAATAAAAT
1 ATATAATGAAATATAAATAATAAAAT
19410796 A
1 A
19410797 ACATATAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 20 0.80
27 5 0.20
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (26 bp):
ATATAATGAAATATAAATAATAAAAT
Found at i:19410795 original size:14 final size:12
Alignment explanation
Indices: 19410755--19410796 Score: 57
Period size: 12 Copynumber: 3.3 Consensus size: 12
19410745 TATAAGAAAT
19410755 AATATATAATAA
1 AATATATAATAA
19410767 AATATATAATGAA
1 AATATATAAT-AA
*
19410780 ATATAAATAATAA
1 A-ATATATAATAA
19410793 AATA
1 AATA
19410797 ACATATAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
12 13 0.48
13 6 0.22
14 8 0.30
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (12 bp):
AATATATAATAA
Found at i:19425400 original size:47 final size:47
Alignment explanation
Indices: 19425349--19425593 Score: 382
Period size: 47 Copynumber: 5.2 Consensus size: 47
19425339 TATACACTTC
* * **
19425349 CACATTTATCACATTAGCCATTCTACCTTATCACACATATGCATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTT
19425396 CACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTT
*
19425443 CACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTT
19425490 CACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTT
** * * * **
19425537 CACATTCATCACATTGGCCATTAAGCCTTATCTCATATATACACATT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTT
19425584 CACATTCATC
1 CACATTCATC
19425594 TCATAAAATC
Statistics
Matches: 185, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 185 1.00
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.33
Consensus pattern (47 bp):
CACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTT
Found at i:19425430 original size:22 final size:22
Alignment explanation
Indices: 19425403--19425524 Score: 65
Period size: 22 Copynumber: 5.3 Consensus size: 22
19425393 GTTCACATTC
19425403 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* *
19425425 ATCACACATAT-G-CATGTTC-ACATT
1 AT--CACAT-TGGCCA--TTCGGCCTT
19425449 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * *
19425472 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
19425496 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
19425519 ATCACA
1 ATCACA
19425525 CATATGCATG
Statistics
Matches: 74, Mismatches: 10, Indels: 32
0.64 0.09 0.28
Matches are distributed among these distances:
22 22 0.30
23 18 0.24
24 18 0.24
25 16 0.22
ACGTcount: A:0.25, C:0.30, G:0.13, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:19425565 original size:141 final size:141
Alignment explanation
Indices: 19425288--19425593 Score: 393
Period size: 141 Copynumber: 2.1 Consensus size: 141
19425278 CACAATATAT
*
19425288 ATATACACATCTCATACATATC-TCACATTAGCCATTCGGCTTCGCCACATATATACACTTCCAC
1 ATATACACAT-TC--ACAT-TCATCACATTAGCCATTCGGCTTCACCACATATATACACTTCCAC
* *
19425352 ATTTATCACATTAGCCATTCTACCTTATCACACATATGCATGTTCACATTCATCACATTGGCCAT
62 ATTCATCACATTAGCCATTCGACCTTATCACACATATGCATGTTCACATTCATCACATTGGCCAT
**
19425417 TCGGCCTTATCACAC
127 TAAGCCTTATCACAC
* ** * * * *
19425432 ATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTT-ATCACATATATGCA-TGTTCACAT
1 ATATACACATTCACATTCATCACATTAGCCATTCGG-CTTCACCACATATATACACT-TCCACAT
* *
19425495 TCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTA
64 TCATCACATTAGCCATTCGACCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTA
* *
19425560 AGCCTTATCTCAT
129 AGCCTTATCACAC
19425573 ATATACACATTCACATTCATC
1 ATATACACATTCACATTCATC
19425594 TCATAAAATC
Statistics
Matches: 140, Mismatches: 19, Indels: 9
0.83 0.11 0.05
Matches are distributed among these distances:
140 3 0.02
141 125 0.89
142 3 0.02
143 2 0.01
144 7 0.05
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.33
Consensus pattern (141 bp):
ATATACACATTCACATTCATCACATTAGCCATTCGGCTTCACCACATATATACACTTCCACATTC
ATCACATTAGCCATTCGACCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTAAG
CCTTATCACAC
Found at i:19433530 original size:43 final size:43
Alignment explanation
Indices: 19433386--19433544 Score: 171
Period size: 43 Copynumber: 3.7 Consensus size: 43
19433376 GATTGACGAG
* * * *
19433386 ATGAGATTACATCTAAGACCATGTTTGGGACATTAGCATTG-T
1 ATGAGATTACATGTAAGACCATGTCTGGGACATTGGCATCGAT
* **
19433428 ATTGTGATTATGTGTAAGACCATGTCTGGGACATTGGCATC-ATT
1 A-TGAGATTACATGTAAGACCATGTCTGGGACATTGGCATCGA-T
* *
19433472 AT-ATGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCGAT
1 ATGA-GATTACATGTAAGACCATGTCTGGGACATTGGCATCGAT
* *
19433515 ATGAGATAACATGTAAGACCATATCTGGGA
1 ATGAGATTACATGTAAGACCATGTCTGGGA
19433545 TGTGGAATTG
Statistics
Matches: 97, Mismatches: 14, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
42 1 0.01
43 92 0.95
44 4 0.04
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (43 bp):
ATGAGATTACATGTAAGACCATGTCTGGGACATTGGCATCGAT
Found at i:19438615 original size:12 final size:12
Alignment explanation
Indices: 19438598--19438622 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
19438588 ATGTAAGTGA
19438598 TCTTGATGATTT
1 TCTTGATGATTT
19438610 TCTTGATGATTT
1 TCTTGATGATTT
19438622 T
1 T
19438623 TACATTTTTG
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:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TCTTGATGATTT
Found at i:19442988 original size:47 final size:46
Alignment explanation
Indices: 19442927--19443189 Score: 203
Period size: 47 Copynumber: 5.6 Consensus size: 46
19442917 TGTATGTGCT
*
19442927 AGTGTAAGACATGTCTGGGACAT-GCATCAGCTACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCAGCTACA-GATGAGAGCC
* ** * ** * *
19442973 AGTATAAGACCATGTCCAGGACATGGCATCGGCATTGAGATGAGTGCT
1 AGTGTAAGA-CATGTCTGGGACATGGCATCAGC-TACAGATGAGAGCC
* * * * **
19443021 AGCGTAAGACATGTCTGGGACAT-ACATCGGCCT-CGAAATGTTAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCAG-CTAC-AGATGAGAGCC
* * *
19443067 AGTGTCAGACATGTCTGGGACAT-GCATTAGCTACAAGATGATAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCAGCTAC-AGATGAGAGCC
* * ** *
19443113 AGTGTAAGACCATGTCTTGAACATGGCATC-GACTTGAGATGTGAGCC
1 AGTGTAAGA-CATGTCTGGGACATGGCATCAG-CTACAGATGAGAGCC
19443160 AGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGA-CATGTCTGGGACATGGCATC
19443190 GACACCTTAC
Statistics
Matches: 170, Mismatches: 38, Indels: 17
0.76 0.17 0.08
Matches are distributed among these distances:
45 2 0.01
46 64 0.38
47 75 0.44
48 27 0.16
49 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGGCATCAGCTACAGATGAGAGCC
Found at i:19443179 original size:140 final size:140
Alignment explanation
Indices: 19442927--19443183 Score: 372
Period size: 140 Copynumber: 1.8 Consensus size: 140
19442917 TGTATGTGCT
**
19442927 AGTGTAAGACATGTCTGGGACATGCATCAGCTACATTATGAGAGCCAGTATAAGACCATGTCCAG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCTACAAGATGAGAGCCAGTATAAGACCATGTCCAG
* * * *
19442992 GACATGGCATCGGCATTGAGATGAGTGCTAGCGTAAGACATGTCTGGGACATACATCGGCCTCGA
66 AACATGGCATCGACATTGAGATGAGAGCCAGCGTAAGACATGTCTGGGACATACATCGGCCTCGA
19443057 AATGTTAGCC
131 AATGTTAGCC
* * * * **
19443067 AGTGTCAGACATGTCTGGGACATGCATTAGCTACAAGATGATAGCCAGTGTAAGACCATGTCTTG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCTACAAGATGAGAGCCAGTATAAGACCATGTCCAG
* *
19443132 AACATGGCATCGAC-TTGAGATGTGAGCCAGTGTAAGACCATGTCTGGGACAT
66 AACATGGCATCGACATTGAGATGAGAGCCAGCGTAAGA-CATGTCTGGGACAT
19443184 GGCATCGACA
Statistics
Matches: 102, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
139 19 0.19
140 83 0.81
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (140 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCTACAAGATGAGAGCCAGTATAAGACCATGTCCAG
AACATGGCATCGACATTGAGATGAGAGCCAGCGTAAGACATGTCTGGGACATACATCGGCCTCGA
AATGTTAGCC
Found at i:19446852 original size:40 final size:40
Alignment explanation
Indices: 19446804--19447190 Score: 672
Period size: 40 Copynumber: 9.7 Consensus size: 40
19446794 GCAAACACCT
* * * *
19446804 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
19446844 TTGCCTTCGGGTCTTAGCCCGGATATCA-T--CTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATAT-ATTAACTCGCATAA
* *
19446882 TTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
19446922 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
19446962 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
19447002 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
19447042 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
*
19447082 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
*
19447122 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
19447162 TTGCCTTCGGGTCTTAGCCCGGATATATT
1 TTGCCTTCGGGTCTTAGCCCGGATATATT
19447191 CCAATGCTCA
Statistics
Matches: 333, Mismatches: 10, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
37 1 0.00
38 33 0.10
40 298 0.89
41 1 0.00
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
Found at i:19455667 original size:40 final size:40
Alignment explanation
Indices: 19455619--19456004 Score: 668
Period size: 40 Copynumber: 9.7 Consensus size: 40
19455609 GCAAACACCT
* * *
19455619 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
19455659 TTGCCTTCGGGTCTTAGCCCGG--ATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* * *
19455697 TTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
19455737 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
19455777 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
19455817 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
19455857 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
19455897 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
19455937 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
19455977 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
19456005 TCCAATGCTC
Statistics
Matches: 333, Mismatches: 11, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
38 35 0.11
40 298 0.89
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:19475150 original size:21 final size:23
Alignment explanation
Indices: 19475110--19475158 Score: 66
Period size: 21 Copynumber: 2.2 Consensus size: 23
19475100 TATCCCTTTT
19475110 TATAATACATAAATTAATTAAAA
1 TATAATACATAAATTAATTAAAA
* *
19475133 -ATAATATA-AAATTTATTAAAA
1 TATAATACATAAATTAATTAAAA
19475154 TATAA
1 TATAA
19475159 CCTTTATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 12 0.52
22 11 0.48
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (23 bp):
TATAATACATAAATTAATTAAAA
Found at i:19475939 original size:20 final size:19
Alignment explanation
Indices: 19475903--19475953 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
19475893 AAAGACTATT
*
19475903 TTGTAAA-GTTGTAAAATAA
1 TTGTAAATG-TGTGAAATAA
19475922 GTTGTAAATGTGTGAAATAA
1 -TTGTAAATGTGTGAAATAA
19475942 TTG-AAAT-TGTGA
1 TTGTAAATGTGTGA
19475954 GTTGCTATAG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 3 0.10
20 16 0.55
21 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.37
Consensus pattern (19 bp):
TTGTAAATGTGTGAAATAA
Found at i:19479386 original size:44 final size:44
Alignment explanation
Indices: 19479323--19479854 Score: 656
Period size: 44 Copynumber: 12.1 Consensus size: 44
19479313 CGAGAACACC
* *
19479323 AATCTGTTATTTTCGATCTGCTCTCTGCCAATACAGAGATGCCA
1 AATCTGCTATCTTCGATCTGCTCTCTGCCAATACAGAGATGCCA
* * *
19479367 AATCT-ATCATCTTCGATCTGCTCTCTGTCAACACAGAGATGCCA
1 AATCTGCT-ATCTTCGATCTGCTCTCTGCCAATACAGAGATGCCA
* * * * *
19479411 AATCTGCTATCTTCGATCTTCCCTATGACAATACAGAGACGCCA
1 AATCTGCTATCTTCGATCTGCTCTCTGCCAATACAGAGATGCCA
* *
19479455 AATCTGCTATCTTCGATCTGCCCTCTGACAATACAGAGACT-CCA
1 AATCTGCTATCTTCGATCTGCTCTCTGCCAATACAGAGA-TGCCA
* * * *
19479499 AATCTGCTATCTTCGATATGCCCTCTGACAATACAGAGACGCCA
1 AATCTGCTATCTTCGATCTGCTCTCTGCCAATACAGAGATGCCA
* * * *
19479543 AATCTGTTATCTTCGATCTACTCTCTGTCAACACAGAGATGCCA
1 AATCTGCTATCTTCGATCTGCTCTCTGCCAATACAGAGATGCCA
* * *
19479587 AATCTGCTATCTTTGATCTGCTCT-TCGCTAATACAGAGACGCCA
1 AATCTGCTATCTTCGATCTGCTCTCT-GCCAATACAGAGATGCCA
* ** *
19479631 AATCTCCTATCTTCGATCTGCTCTCCACCAATACAGAGACGCCA
1 AATCTGCTATCTTCGATCTGCTCTCTGCCAATACAGAGATGCCA
* *
19479675 AATCTGCTATCTTCGATTTGCTCCCTGCCAATACAGAGATGCCA
1 AATCTGCTATCTTCGATCTGCTCTCTGCCAATACAGAGATGCCA
* * * *
19479719 AATCTGTTATCTTCGATCTGCTCTCTGTCAACACAGAGATACCA
1 AATCTGCTATCTTCGATCTGCTCTCTGCCAATACAGAGATGCCA
* ** *
19479763 AATCTGCTATCTTTGATCTGCTCTCCACCAATACAGAGACGCCA
1 AATCTGCTATCTTCGATCTGCTCTCTGCCAATACAGAGATGCCA
* * *
19479807 AATCTGTTATCTTCGATCTGCTCTCTGTCAACACAGAGATGCCA
1 AATCTGCTATCTTCGATCTGCTCTCTGCCAATACAGAGATGCCA
19479851 AATC
1 AATC
19479855 CGCAGGATTC
Statistics
Matches: 420, Mismatches: 62, Indels: 12
0.85 0.13 0.02
Matches are distributed among these distances:
43 2 0.00
44 417 0.99
45 1 0.00
ACGTcount: A:0.27, C:0.29, G:0.14, T:0.29
Consensus pattern (44 bp):
AATCTGCTATCTTCGATCTGCTCTCTGCCAATACAGAGATGCCA
Found at i:19486832 original size:40 final size:40
Alignment explanation
Indices: 19486748--19486924 Score: 254
Period size: 40 Copynumber: 4.5 Consensus size: 40
19486738 AAACCAAGTA
* *
19486748 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
19486786 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
19486826 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
19486866 CCTTCGGGGCTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
19486906 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
19486925 TTATCATCCG
Statistics
Matches: 127, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
38 14 0.11
39 17 0.13
40 96 0.76
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:19494604 original size:40 final size:40
Alignment explanation
Indices: 19494527--19494744 Score: 343
Period size: 40 Copynumber: 5.5 Consensus size: 40
19494517 AAACCAAGTA
* *
19494527 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
19494566 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
19494606 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
19494646 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
19494686 CCTTCGGGGCTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
19494726 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
19494745 TTATCATCCG
Statistics
Matches: 168, Mismatches: 8, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
39 15 0.09
40 153 0.91
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:19504221 original size:40 final size:40
Alignment explanation
Indices: 19504140--19504346 Score: 206
Period size: 40 Copynumber: 5.5 Consensus size: 40
19504130 CAACCAAGTA
** * *
19504140 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGAAATAG-TAACTCGCACAAATG
** *
19504179 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATG
* *
19504219 CCTTCGGGACTTAACCCAGAAATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATG
*
19504259 ----C----C---GCCCAGAAATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATG
* *
19504288 ACTTCGGGACTTAGCCTGGAAATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATG
19504328 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
19504347 TTATCATCCG
Statistics
Matches: 140, Mismatches: 15, Indels: 25
0.78 0.08 0.14
Matches are distributed among these distances:
29 26 0.19
32 1 0.01
33 1 0.01
36 1 0.01
37 1 0.01
39 13 0.09
40 97 0.69
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATG
Found at i:19504311 original size:69 final size:69
Alignment explanation
Indices: 19504200--19504329 Score: 215
Period size: 69 Copynumber: 1.9 Consensus size: 69
19504190 TAGCCCGGTT
* *
19504200 ATAGTAACTCGCACAATTGCCTTCGGGACTTAACCCAGAAATAGTAACTCGCACAAATGCCGCCC
1 ATAGTAACTCGCACAAATGACTTCGGGACTTAACCCAGAAATAGTAACTCGCACAAATGCCGCCC
19504265 AGAA
66 AGAA
* **
19504269 ATAGTAACTCGCACAAATGACTTCGGGACTTAGCCTGGAAATAGTAACTCGCACAAATGCC
1 ATAGTAACTCGCACAAATGACTTCGGGACTTAACCCAGAAATAGTAACTCGCACAAATGCC
19504330 TTCGGGACTT
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
69 56 1.00
ACGTcount: A:0.35, C:0.27, G:0.18, T:0.20
Consensus pattern (69 bp):
ATAGTAACTCGCACAAATGACTTCGGGACTTAACCCAGAAATAGTAACTCGCACAAATGCCGCCC
AGAA
Found at i:19512399 original size:40 final size:40
Alignment explanation
Indices: 19512355--19512506 Score: 241
Period size: 40 Copynumber: 3.8 Consensus size: 40
19512345 CGATATAGCT
* **
19512355 ACTCGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAATAGTA
* *
19512395 ACTCGCACAATTGCCTTCGGGACTTAACCCGGAAATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAATAGTA
* *
19512435 ACTCGCACAAATGCCTTCGAGACTTAGCCCGAAAATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAATAGTA
19512475 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
19512507 TTATCATCCG
Statistics
Matches: 101, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 101 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAATAGTA
Found at i:19514525 original size:131 final size:131
Alignment explanation
Indices: 19514356--19514662 Score: 305
Period size: 131 Copynumber: 2.3 Consensus size: 131
19514346 GCTGTCACAC
* * * *
19514356 GCCAAACATCGAACATCGCCTTCGTTTTGCAAGG-TTTTTAATAAACATGAATCAAAAC-CTAAA
1 GCCAAACACCGAATATCGCCTTCGTTTT-AAAGGATTTTTAA-AAACACGAAT-AAAACTCTAAA
* * * *
19514419 GGAATATTCGATTGTTTTGAACAAACGAAAAATCACAACCCAGCACGATAGGGCATGATTCC-CG
63 GGAATATTCGATTATTTTGAACAAACGAAAAATCACAACCCAACACGATAGGGCACGATTCCGCA
19514483 AATT
128 AATT
* * * * * * * *
19514487 GTCAAACACCGAGTATTGCCTTCGTTTTAAAGGATTTTTAGAAGACACGAGTGAAACTTTGAAGG
1 GCCAAACACCGAATATCGCCTTCGTTTTAAAGGATTTTTA-AAAACACGAATAAAACTCTAAAGG
* * ** ** *
19514552 GATATTCGATTATTTTGAGCAAACGCGAAATTGCAACCCAACACGTTAGGGCACGATTCCGCAAA
65 AATATTCGATTATTTTGAACAAACGAAAAATCACAACCCAACACGATAGGGCACGATTCCGCAAA
19514617 TT
130 TT
* * * * *
19514619 GCCAAATATCGAATCTCGTCTTCGTTTTAAAGAATTTTTAAAAA
1 GCCAAACACCGAATATCGCCTTCGTTTTAAAGGATTTTTAAAAA
19514663 AAATTGTGAA
Statistics
Matches: 140, Mismatches: 32, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
130 8 0.06
131 94 0.67
132 38 0.27
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.28
Consensus pattern (131 bp):
GCCAAACACCGAATATCGCCTTCGTTTTAAAGGATTTTTAAAAACACGAATAAAACTCTAAAGGA
ATATTCGATTATTTTGAACAAACGAAAAATCACAACCCAACACGATAGGGCACGATTCCGCAAAT
T
Found at i:19517753 original size:24 final size:29
Alignment explanation
Indices: 19517673--19517779 Score: 72
Period size: 26 Copynumber: 3.8 Consensus size: 29
19517663 ACACATAAAA
*
19517673 ATTAAAT-ATAT-AATA-ATA-TATAATGT
1 ATTAAATAATATAAATACATATTAAAAT-T
*
19517699 ATTAAAAAATATTAAGATGACTATATATAAAATT
1 ATTAAATAATA-TAA-AT-AC-ATAT-TAAAATT
19517733 -TT-AATAA-ATAAA-A-ATATT-AAATT
1 ATTAAATAATATAAATACATATTAAAATT
19517756 ATTAAATAATATAAATACATATTA
1 ATTAAATAATATAAATACATATTA
19517780 TTTATTCTTT
Statistics
Matches: 63, Mismatches: 3, Indels: 27
0.68 0.03 0.29
Matches are distributed among these distances:
23 5 0.08
24 3 0.05
25 9 0.14
26 11 0.17
27 5 0.08
28 6 0.10
29 2 0.03
30 5 0.08
31 2 0.03
32 4 0.06
33 5 0.08
34 1 0.02
35 5 0.08
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.38
Consensus pattern (29 bp):
ATTAAATAATATAAATACATATTAAAATT
Found at i:19525615 original size:43 final size:43
Alignment explanation
Indices: 19525530--19525616 Score: 99
Period size: 43 Copynumber: 2.0 Consensus size: 43
19525520 ATATCGTATA
**
19525530 ATGCCAACGTCCCAGACGTGGTCTTACATGTAGCCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGTAAACACATATCG
*
19525573 ATGCC-ACTGTCCCAGACAG-GGTCTTAC-TCGTAAACACTTATCG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACAT-GTAAACACATATCG
19525616 A
1 A
19525617 AAATACAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
42 3 0.08
43 34 0.89
44 1 0.03
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGTAAACACATATCG
Found at i:19532539 original size:26 final size:26
Alignment explanation
Indices: 19532503--19532610 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
19532493 TGAAATTCCA
19532503 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
19532529 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
19532555 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
19532581 ATCATGGAACATTTACCTAACTCATT
1 ATCATGGAACATTTACCTAACCCATT
19532607 ATCA
1 ATCA
19532611 ATTTGTACCA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.36, C:0.26, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:19535043 original size:40 final size:39
Alignment explanation
Indices: 19534999--19535114 Score: 171
Period size: 40 Copynumber: 2.9 Consensus size: 39
19534989 TGAGTTACCA
*
19534999 TAGTGAATCAGGAACAAATCCTATTCACTTTATATATT-TC
1 TAGTGAATCAGGAATAAATCCTATTCACTTTA-AT-TTCTC
*
19535039 TAGTGAATCAGGAATAAATCCTATTCACTTTAATTTCTT
1 TAGTGAATCAGGAATAAATCCTATTCACTTTAATTTCTC
19535078 TGAGTGAATCAGGAATAAATCCTATTCACTTTTAATT
1 T-AGTGAATCAGGAATAAATCCTATTCAC-TTTAATT
19535115 CTCGAGAAGG
Statistics
Matches: 71, Mismatches: 2, Indels: 5
0.91 0.03 0.06
Matches are distributed among these distances:
38 2 0.03
39 4 0.06
40 58 0.82
41 7 0.10
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (39 bp):
TAGTGAATCAGGAATAAATCCTATTCACTTTAATTTCTC
Found at i:19536001 original size:16 final size:16
Alignment explanation
Indices: 19535976--19536009 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
19535966 CCCCATTTTC
19535976 TCCCTTTTC-TTTCTT
1 TCCCTTTTCTTTTCTT
19535991 TCCCTTTTTCTTTTCTT
1 TCCC-TTTTCTTTTCTT
19536008 TC
1 TC
19536010 TTTCTCCCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 5 0.29
17 8 0.47
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (16 bp):
TCCCTTTTCTTTTCTT
Found at i:19536247 original size:8 final size:8
Alignment explanation
Indices: 19536234--19536264 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
19536224 TTTAATTAAT
19536234 ATAATATA
1 ATAATATA
19536242 ATAATATA
1 ATAATATA
19536250 ATAATATA
1 ATAATATA
19536258 ATAATAT
1 ATAATAT
19536265 TTACTTAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (8 bp):
ATAATATA
Found at i:19539825 original size:130 final size:131
Alignment explanation
Indices: 19539590--19539841 Score: 371
Period size: 130 Copynumber: 1.9 Consensus size: 131
19539580 ATTATTCATC
* * ** * *
19539590 TAAAAATTCTTTAAAACGAAGGCGATGTTCGATATTTGGCAATTCACGGAATCGTGTCCTATCGT
1 TAAAAATTCTTCAAAACGAAGGCAATACTCGATATTTGGCAAGTCACGGAATCGTGCCCTATCGT
* * *
19539655 GCTAGGTTGCGATTTCCTGTTTGTTTAAAACAATCAAATATTCTTTTGGAATTTCACCCACGTCT
66 GCTAGGTTGCGATTTCCTGTTTGTTCAAAACAATCAAATATTCATTTAGAATTTCACCCACGTCT
19539720 T
131 T
* *
19539721 TAAAAATTCTTCAAAACGAAGGCAATACTCGATGTTTGGCAAGTC-GGGAATCGTGCCCTATCGT
1 TAAAAATTCTTCAAAACGAAGGCAATACTCGATATTTGGCAAGTCACGGAATCGTGCCCTATCGT
* * *
19539785 GCTGGGTTGCGATTTCCTGTTTGTTCAAAATAATCGAATATTCATTTAGAATTTCAC
66 GCTAGGTTGCGATTTCCTGTTTGTTCAAAACAATCAAATATTCATTTAGAATTTCAC
19539842 TCGTGTTTTC
Statistics
Matches: 107, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
130 68 0.64
131 39 0.36
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (131 bp):
TAAAAATTCTTCAAAACGAAGGCAATACTCGATATTTGGCAAGTCACGGAATCGTGCCCTATCGT
GCTAGGTTGCGATTTCCTGTTTGTTCAAAACAATCAAATATTCATTTAGAATTTCACCCACGTCT
T
Done.