Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold192
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: 2196177
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 12544 characters in sequence are not A, C, G, or T
File 6 of 14
Found at i:889667 original size:13 final size:13
Alignment explanation
Indices: 889649--889678 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
889639 GTAAACACAG
889649 AATGTATCGATAC
1 AATGTATCGATAC
889662 AATGTATCGATAC
1 AATGTATCGATAC
889675 AATG
1 AATG
889679 AACAATGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:890324 original size:40 final size:41
Alignment explanation
Indices: 890280--890382 Score: 120
Period size: 41 Copynumber: 2.5 Consensus size: 41
890270 GTCCCACTTT
* *
890280 TTGAGGACAAAGGAAAAGAG-AATGAAATAG-GTCTTGCTCC
1 TTGAGGACAAAGGAAAAAAGAAAAGAAA-AGTGTCTTGCTCC
* *
890320 TTGAGGACAAAGGAAAAAAGAAAAGGAAAGTGTCTTGCTTC
1 TTGAGGACAAAGGAAAAAAGAAAAGAAAAGTGTCTTGCTCC
*
890361 TTGATGACAAAGTGAAGAAAAG
1 TTGAGGACAAAG-GAA-AAAAG
890383 TACGTCCTGC
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
40 21 0.39
41 25 0.46
42 3 0.06
43 5 0.09
ACGTcount: A:0.44, C:0.10, G:0.27, T:0.19
Consensus pattern (41 bp):
TTGAGGACAAAGGAAAAAAGAAAAGAAAAGTGTCTTGCTCC
Found at i:890520 original size:45 final size:43
Alignment explanation
Indices: 890426--890575 Score: 225
Period size: 42 Copynumber: 3.5 Consensus size: 43
890416 GAAAACGAAA
*
890426 TGTGTCCTACTCTTTGAGGACAAA-AGAAAGAGGAAAATAAAG
1 TGTGTCCTGCTCTTTGAGGACAAAGAGAAAGAGGAAAATAAAG
*
890468 TGAGTCCTGCTCTTTGAGGACAAAAGAGAAAAGAAGG-AAATAAAG
1 TGTGTCCTGCTCTTTGAGGAC-AAAGAG-AAAG-AGGAAAATAAAG
890513 TGTGTCCTGCTCTTTGAGGACAAAG-GAAAGAGGAAAATAAAG
1 TGTGTCCTGCTCTTTGAGGACAAAGAGAAAGAGGAAAATAAAG
*
890555 TGCGTCCTGCTCTTTGAGGAC
1 TGTGTCCTGCTCTTTGAGGAC
890576 TAAAAAGTGC
Statistics
Matches: 99, Mismatches: 4, Indels: 10
0.88 0.04 0.09
Matches are distributed among these distances:
41 3 0.03
42 51 0.52
43 4 0.04
44 6 0.06
45 32 0.32
46 3 0.03
ACGTcount: A:0.37, C:0.14, G:0.27, T:0.22
Consensus pattern (43 bp):
TGTGTCCTGCTCTTTGAGGACAAAGAGAAAGAGGAAAATAAAG
Found at i:890640 original size:61 final size:60
Alignment explanation
Indices: 890559--890818 Score: 275
Period size: 61 Copynumber: 4.3 Consensus size: 60
890549 ATAAAGTGCG
* *
890559 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAAGAAAAGCG
1 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTG-AAAAGAAAAGCA
* * * * * *
890620 TCTTGCT-TTTCGAGGACTAAAAGGTGCCACCAACTTATATGGGCTTTGCAGAGAGAAAGCA
1 TCCTGCTCTTT-GAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGA-AAAGCA
* * *
890681 TCCTG-TTTCTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCA
1 TCCTGCTCT-TTGAGGACT-AAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAA-GCA
* **
890742 TCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGG-TTTTAAAAG----GTG
1 TCCTGCTCTTTGAGGACTA-AAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAGCA
890798 TCCTGCTCTTTGAGGACTAAA
1 TCCTGCTCTTTGAGGACTAAA
890819 GAGCGAAAGG
Statistics
Matches: 168, Mismatches: 22, Indels: 24
0.79 0.10 0.11
Matches are distributed among these distances:
55 2 0.01
56 20 0.12
60 11 0.07
61 109 0.65
62 26 0.15
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (60 bp):
TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAGCA
Found at i:891030 original size:55 final size:55
Alignment explanation
Indices: 890837--891136 Score: 309
Period size: 55 Copynumber: 5.3 Consensus size: 55
890827 GGAGAGAGCC
* * * *
890837 TCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCG
1 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * * *
890892 TCCTGCTCTTTGAGGACTAAAAAAATGCCACTAACTTGTGTGGGCTTTG--AGACA
1 TCCTGCTCTTTGAGGACT-AGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * * *
890946 TCCTGCTCTTTGAGAACT-GAAAGGTGCCACCAATTTATGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTAGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * * *
891001 TCCTACTCTTTAAGGACTGGAAAATGCCACCAACTTGTGTGGACTTTGAAAGGAAAAGGCG
1 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCG
* * * *
891062 TCTTGCTCTTTCAGGACTAGAAAAGTGTCACCAACTTGTGTGGGCTTTAAAAGGCG
1 TCCTGCTCTTTGAGGACTAGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGCG
*
891118 TCCTGCTCTTTAAGGACTA
1 TCCTGCTCTTTGAGGACTA
891137 AAGGGCGAAA
Statistics
Matches: 201, Mismatches: 32, Indels: 23
0.79 0.12 0.09
Matches are distributed among these distances:
52 3 0.01
53 21 0.10
54 20 0.10
55 56 0.28
56 52 0.26
60 1 0.00
61 27 0.13
62 21 0.10
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
Found at i:891059 original size:320 final size:324
Alignment explanation
Indices: 890551--891438 Score: 1118
Period size: 320 Copynumber: 2.7 Consensus size: 324
890541 AGAGGAAAAT
* *
890551 AAAGTGCGTCCTGCTCTTTGAGGACT-AAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAAGAA
1 AAAG-GCGTCCTGCTCTTTGAGGACTAAAAAAATGCCACCAACTTGTGTGGGCTTTG---AAG-A
* * * * * * * *
890615 AAGCGT-CTTGCTTTTCGAGGACTAAAAGGTGCCACCAACTTATATGGGCTTTGCAGAGAGAAAG
61 CATCCTAC-T-C-TTT-GAGAACTGAAAGGTGCCACCAACTCATGTGGGCTTT--AGA-A-AAGG
* * * *
890679 CATCCT-GTTTCTTG-AGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCA
118 CGTCCTACTCT-TTGAAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCG
* *
890742 TCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGTTTTAAAAGGTGTCCTGCTCT
182 TCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCT
* * *
890807 TTGAGGACTAAAGAGCGAAAGGAGAGAGCCTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACT
247 TTAAGGACTAAAGAGCGAAAAGAGAGAGCCTCCTACTCTTTGAGGACTGGGAAGTGCCACCAACT
890872 TGTGTGGGCTTTA
312 TGTGTGGGCTTTA
*
890885 AAAGGCGTCCTGCTCTTTGAGGACTAAAAAAATGCCACTAACTTGTGTGGGCTTTG-AGACATCC
1 AAAGGCGTCCTGCTCTTTGAGGACTAAAAAAATGCCACCAACTTGTGTGGGCTTTGAAGACATCC
* * *
890949 TGCTCTTTGAGAACTGAAAGGTGCCACCAATTTATGTGGGCTTT-G-AAAGGCGTCCTACTCTTT
66 TACTCTTTGAGAACTGAAAGGTGCCACCAACTCATGTGGGCTTTAGAAAAGGCGTCCTACTCTTT
* * *
891012 -AAGGACTGGAAAATGCCACCAACTTGTGTGGACTTTGAAAGGAAAAGGCGTCTTGCTCTTTCAG
131 GAAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCTGCTCTTTGAG
* *
891076 GACTAGAAAAGTGTCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTAAGGACTAAAGG
196 GACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTAAGGACTAAAGA
* * *
891141 GCGAAAAGAGAGAGCGTCCTATTCTTTGAGGACTGGGAAGTGCCACCAACTTGTTTGGGCTTTA
261 GCGAAAAGAGAGAGCCTCCTACTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTA
* * *
891205 AAAGGCGTCCTGCTCTTTGAGGACTAAAAAAATGCGACCAACTTGTGTGGGCTTTGAAAGGCGTC
1 AAAGGCGTCCTGCTCTTTGAGGACTAAAAAAATGCCACCAACTTGTGTGGGCTTTG-AAGACATC
* * * *
891270 CTACTCTTTGAGGATTGAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAGAAAAGGTGTCCTACT
65 CTACTCTTTGAGAACTGAAAGGTGCCACCAACTCATGTGGGCTTT---AGAAAAGGCGTCCTACT
* * * *
891335 CTTTGAA-GACT--AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAAGGCGTCCCGCTC
127 CTTTGAAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAG-GAAAAGGCGTCCTGCTC
*
891397 TTTGAGGACT--AAAGGTGCCACCAACTTGTGTGGGCTTTAAAA
190 TTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAA
891439 AGAAAAAAAG
Statistics
Matches: 492, Mismatches: 48, Indels: 37
0.85 0.08 0.06
Matches are distributed among these distances:
320 242 0.49
321 3 0.01
322 44 0.09
323 1 0.00
325 33 0.07
326 59 0.12
327 47 0.10
328 3 0.01
329 5 0.01
330 3 0.01
333 21 0.04
334 31 0.06
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.26
Consensus pattern (324 bp):
AAAGGCGTCCTGCTCTTTGAGGACTAAAAAAATGCCACCAACTTGTGTGGGCTTTGAAGACATCC
TACTCTTTGAGAACTGAAAGGTGCCACCAACTCATGTGGGCTTTAGAAAAGGCGTCCTACTCTTT
GAAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCTGCTCTTTGAG
GACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTAAGGACTAAAGA
GCGAAAAGAGAGAGCCTCCTACTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTA
Found at i:891277 original size:150 final size:151
Alignment explanation
Indices: 890998--891283 Score: 387
Period size: 150 Copynumber: 1.9 Consensus size: 151
890988 GCTTTGAAAG
890998 GCGTCCTACTCTTTAAGGACTGGAAAATGCCACCAACTTGTGTGGACTTTGAAAGGAAAAGGCGT
1 GCGTCCTACTCTTTAAGGACTGGAAAATGCCACCAACTTGTGTGGACTTT---A--AAAAGGCGT
* * * *
891063 CTTGCTCTTTCAGGACTAGAAAAGTGTCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTT
61 CCTGCTCTTTCAGGACTAAAAAAATGTCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTACTCTT
891128 TAAGGACTAAAGGGCGAAAAGAGAGA
126 TAAGGACTAAAGGGCGAAAAGAGAGA
* * * * * *
891154 GCGTCCTATTCTTTGAGGACTGGGAAGTGCCACCAACTTGTTTGGGCTTT-AAAAGGCGTCCTGC
1 GCGTCCTACTCTTTAAGGACTGGAAAATGCCACCAACTTGTGTGGACTTTAAAAAGGCGTCCTGC
* * *
891218 TCTTTGAGGACTAAAAAAATG-CGACCAACTTGTGTGGGCTTTGAAAGGCGTCCTACTCTTTGAG
66 TCTTTCAGGACTAAAAAAATGTC-ACCAACTTGTGTGGGCTTTAAAAGGCGTCCTACTCTTTAAG
891282 GA
130 GA
891284 TTGAAAGGTG
Statistics
Matches: 116, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
149 1 0.01
150 71 0.61
156 44 0.38
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (151 bp):
GCGTCCTACTCTTTAAGGACTGGAAAATGCCACCAACTTGTGTGGACTTTAAAAAGGCGTCCTGC
TCTTTCAGGACTAAAAAAATGTCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTACTCTTTAAGG
ACTAAAGGGCGAAAAGAGAGA
Found at i:891415 original size:61 final size:61
Alignment explanation
Indices: 891154--891657 Score: 477
Period size: 61 Copynumber: 8.4 Consensus size: 61
891144 AAAAGAGAGA
* * * *
891154 GCGTCCTATTCTTTGAGGACTGGGAA-GTGCCACCAACTTGTTTGGGCTTT------AAAAG
1 GCGTCCTACTCTTTGAGGACT-GAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAG
* * ** * *
891209 GCGTCCTGCTCTTTGAGGACTAAAAAAATGCGACCAACTTGTGTGGGCTTT----G--AAAG
1 GCGTCCTACTCTTTGAGGACT-GAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAG
* *
891265 GCGTCCTACTCTTTGAGGATTGAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAG-AAAAG
1 GCGTCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAG
* * *
891325 GTGTCCTACTCTTTGAAGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAAG
1 GCGTCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAG-AAAAAG
** *
891386 GCGTCCCGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAAG
1 GCGTCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTCGTGTGGGCTTT-AAAAG--AAAAAG
* * * * *** * *
891449 GCGTCTTACTCTTTGAGGACTGGAGGGTACCACCAACTCGTGTGGGC-TTGGGAGGAGAAG
1 GCGTCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAG
* * * * *
891509 GTGTCCTACTCTTTGAGGATTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
1 GCGTCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAG
* * * *
891570 ACGTCTTGCTCTTTGAAGACT-AAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAG
1 GCGTCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTCGTGTGGGCTTT-AAAAGAAAAAG
* *
891631 GCGTCCTGCTCTTTGAGGACTGGAAGG
1 GCGTCCTACTCTTTGAGGACTGAAAGG
891658 GCTAAAAGAG
Statistics
Matches: 374, Mismatches: 60, Indels: 23
0.82 0.13 0.05
Matches are distributed among these distances:
55 45 0.12
56 44 0.12
59 32 0.09
60 92 0.25
61 102 0.27
62 11 0.03
63 27 0.07
64 21 0.06
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (61 bp):
GCGTCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAG
Found at i:891512 original size:184 final size:182
Alignment explanation
Indices: 891261--891657 Score: 589
Period size: 184 Copynumber: 2.2 Consensus size: 182
891251 GTGGGCTTTG
* * * *
891261 AAAGGCGTCCTACTCTTTGAGGATTGAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAGAAAAGG
1 AAAGGCGTCCTACTCTTTGAGGACTGGAAGGTACCACCAACTCGTGTGGGCTTGGAAAGAAAAGG
*
891326 TGTCCTACTCTTTGAAGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAAGGCGT
66 TGTCCTACTCTTTGAAGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG-AAAAAGACGT
* *
891390 CCCGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAA
130 CCCGCTCTTTGAAGACTAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAG--AA
* * * * *
891445 AAAGGCGTCTTACTCTTTGAGGACTGGAGGGTACCACCAACTCGTGTGGGCTTGGGAGGAGAAGG
1 AAAGGCGTCCTACTCTTTGAGGACTGGAAGGTACCACCAACTCGTGTGGGCTTGGAAAGAAAAGG
* * *
891510 TGTCCTACTCTTTGAGGATTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGACGTC
66 TGTCCTACTCTTTGAAGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGACGTC
** *
891575 TTGCTCTTTGAAGACTAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAA
131 CCGCTCTTTGAAGACTAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAA
*
891627 AAAGGCGTCCTGCTCTTTGAGGACTGGAAGG
1 AAAGGCGTCCTACTCTTTGAGGACTGGAAGG
891658 GCTAAAAGAG
Statistics
Matches: 191, Mismatches: 21, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
182 30 0.16
184 128 0.67
185 33 0.17
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (182 bp):
AAAGGCGTCCTACTCTTTGAGGACTGGAAGGTACCACCAACTCGTGTGGGCTTGGAAAGAAAAGG
TGTCCTACTCTTTGAAGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGACGTC
CCGCTCTTTGAAGACTAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAA
Found at i:899433 original size:81 final size:81
Alignment explanation
Indices: 899318--899517 Score: 346
Period size: 81 Copynumber: 2.5 Consensus size: 81
899308 TGTGTTCTGG
* *
899318 AAATAAAACCGGGGTTAGAGTATCCCCTCGAAAATAACAGAGATGGAGTATCCCTCATTATAGAA
1 AAATAAAATCGGGGTTGGAGTATCCCCTCGAAAATAACAGAGATGGAGTATCCCTCATTATAGAA
899383 AATCAGTATATTTTGA
66 AATCAGTATATTTTGA
* * *
899399 AAATAAAATCGGGGTTGGAGTATCCCCTCAAAAATAACAGGGATGGAGTATCCCTGATTATAGAA
1 AAATAAAATCGGGGTTGGAGTATCCCCTCGAAAATAACAGAGATGGAGTATCCCTCATTATAGAA
899464 AATCAGTATATTTTGA
66 AATCAGTATATTTTGA
*
899480 AAATAAAATCGGGGTTGGAGTATTCCCTCGAAAATAAC
1 AAATAAAATCGGGGTTGGAGTATCCCCTCGAAAATAAC
899518 GAGGTTGAAG
Statistics
Matches: 112, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
81 112 1.00
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.26
Consensus pattern (81 bp):
AAATAAAATCGGGGTTGGAGTATCCCCTCGAAAATAACAGAGATGGAGTATCCCTCATTATAGAA
AATCAGTATATTTTGA
Found at i:899548 original size:81 final size:80
Alignment explanation
Indices: 899282--899538 Score: 340
Period size: 81 Copynumber: 3.2 Consensus size: 80
899272 ATAATGGGGC
* * * * * * * *
899282 TGGAGTATCCCCAATTATGGAAAATC--TGTGTTCTGGAAATAAAACCGGGGTTAGAGTATCCCC
1 TGGAGTATCCCCGATTATAGAAAATCAGTATATTTTGAAAATAAAATCGGGGTTGGAGTATCCCC
899345 TCGAAAATAACAGAGA
66 TCGAAAATAACAG-GA
899361 TGGAGTATCCCTC-ATTATAGAAAATCAGTATATTTTGAAAATAAAATCGGGGTTGGAGTATCCC
1 TGGAGTATCCC-CGATTATAGAAAATCAGTATATTTTGAAAATAAAATCGGGGTTGGAGTATCCC
*
899425 CTCAAAAATAACAGGGA
65 CTCGAAAATAACA-GGA
* *
899442 TGGAGTATCCCTGATTATAGAAAATCAGTATATTTTGAAAATAAAATCGGGGTTGGAGTATTCCC
1 TGGAGTATCCCCGATTATAGAAAATCAGTATATTTTGAAAATAAAATCGGGGTTGGAGTATCCCC
*
899507 TCGAAAATAACGAGGT
66 TCGAAAATAAC-AGGA
*
899523 TGAAGTATCCCCGATT
1 TGGAGTATCCCCGATT
899539 GTGAAAAATC
Statistics
Matches: 158, Mismatches: 14, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
79 23 0.15
80 1 0.01
81 132 0.84
82 2 0.01
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.27
Consensus pattern (80 bp):
TGGAGTATCCCCGATTATAGAAAATCAGTATATTTTGAAAATAAAATCGGGGTTGGAGTATCCCC
TCGAAAATAACAGGA
Found at i:899584 original size:51 final size:51
Alignment explanation
Indices: 899520--899639 Score: 179
Period size: 51 Copynumber: 2.4 Consensus size: 51
899510 AAAATAACGA
*
899520 GGTTGAAGTATCCCCGATTGTGAAAAATCGATAATTTAGAAATAAAG-CTGG
1 GGTTGAAGTATCCCCGATTGTGAAAAATCAATAATTTAGAAATAAAGAC-GG
* * *
899571 GGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGACGG
1 GGTTGAAGTATCCCCGATTGTGAAAAATCAATAATTTAGAAATAAAGACGG
*
899622 GGTTGGAGTATCCCCGAT
1 GGTTGAAGTATCCCCGAT
899640 GAAATAACGG
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
51 62 0.98
52 1 0.02
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (51 bp):
GGTTGAAGTATCCCCGATTGTGAAAAATCAATAATTTAGAAATAAAGACGG
Found at i:899615 original size:130 final size:130
Alignment explanation
Indices: 899444--899805 Score: 407
Period size: 130 Copynumber: 2.8 Consensus size: 130
899434 AACAGGGATG
* * *
899444 GAGTATCCCTGATTAT-AGAAAATCAGTATATTTTGAAAATAAAATCGGGGTTGGAGTATTCCCT
1 GAGTATCCCCGATTGTGAGAAAATCA--ATATTTTGGAAATAAAA-CGGGGTTGGAGTATTCCCT
* * *
899508 CGA-AAATAACGAGGTTGAAGTATCCCCGATTGTGAAAAATCGATAATTTAGAAAT-AAAGCTGG
63 CGAGAAATAACGGGGTTGAAGTATCCCCAATTGTGAAAAATCGATAATTTAGAAATAAAATC-GG
899571 GGTT
127 GGTT
899575 GAAGTATCCCCGATTGTGAG-AAATCAATATTTTGGAAATAAAGACGGGGTTGGAGTA-TCCC-C
1 G-AGTATCCCCGATTGTGAGAAAATCAATATTTTGGAAATAAA-ACGGGGTTGGAGTATTCCCTC
* * * **
899637 GATGAAATAACGGGGTTGGAGTATCCCCAATTGTGAAAAATTGGTGTTTTAGAAATAAAATCGGG
64 GA-GAAATAACGGGGTTGAAGTATCCCCAATTGTGAAAAATCGATAATTTAGAAATAAAATCGGG
899702 GTT
128 GTT
*** * * * * *
899705 GAGTATCCCCGATTGTG-GAAAATTGGTGTTGTAGAAATGAAACCGGGGTTGGAGTATCCCCTC-
1 GAGTATCCCCGATTGTGAGAAAATCAATATTTTGGAAAT-AAAACGGGGTTGGAGTATTCCCTCG
* *
899768 AGAAATGACGGGGTTGAAATATCCCCAATTGTGAAAAA
65 AGAAATAACGGGGTTGAAGTATCCCCAATTGTGAAAAA
899806 CTGGTGTTTT
Statistics
Matches: 199, Mismatches: 22, Indels: 22
0.82 0.09 0.09
Matches are distributed among these distances:
128 4 0.02
129 80 0.40
130 87 0.44
131 7 0.04
132 19 0.10
133 2 0.01
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.27
Consensus pattern (130 bp):
GAGTATCCCCGATTGTGAGAAAATCAATATTTTGGAAATAAAACGGGGTTGGAGTATTCCCTCGA
GAAATAACGGGGTTGAAGTATCCCCAATTGTGAAAAATCGATAATTTAGAAATAAAATCGGGGTT
Found at i:899702 original size:79 final size:78
Alignment explanation
Indices: 899569--899717 Score: 201
Period size: 79 Copynumber: 1.9 Consensus size: 78
899559 AAATAAAGCT
* * *
899569 GGGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGACGGGGTTGGAGTATC
1 GGGGTTGAAGTATCCCCAATTGTGAAAAATCAATATTTTAGAAATAAAGACGGGGTT-GAGTATC
899634 CCCGATGAAATAAC
65 CCCGATGAAATAAC
* *** *
899648 GGGGTTGGAGTATCCCCAATTGTGAAAAATTGGTGTTTTAGAAATAAA-ATCGGGGTTGAGTATC
1 GGGGTTGAAGTATCCCCAATTGTGAAAAATCAATATTTTAGAAATAAAGA-CGGGGTTGAGTATC
899712 CCCGAT
65 CCCGAT
899718 TGTGGAAAAT
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
78 14 0.23
79 47 0.77
ACGTcount: A:0.31, C:0.13, G:0.28, T:0.28
Consensus pattern (78 bp):
GGGGTTGAAGTATCCCCAATTGTGAAAAATCAATATTTTAGAAATAAAGACGGGGTTGAGTATCC
CCGATGAAATAAC
Found at i:899765 original size:51 final size:51
Alignment explanation
Indices: 899647--899765 Score: 186
Period size: 50 Copynumber: 2.4 Consensus size: 51
899637 GATGAAATAA
* *
899647 CGGGGTTGGAGTATCCCCAATTGTGAAAAATTGGTGTTTTAGAAATAAAAT
1 CGGGGTTGGAGTATCCCCAATTGTGAAAAATTGGTGTTGTAGAAATAAAAC
* * *
899698 CGGGGTT-GAGTATCCCCGATTGTGGAAAATTGGTGTTGTAGAAATGAAAC
1 CGGGGTTGGAGTATCCCCAATTGTGAAAAATTGGTGTTGTAGAAATAAAAC
899748 CGGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
899766 TCAGAAATGA
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
50 45 0.73
51 17 0.27
ACGTcount: A:0.28, C:0.13, G:0.30, T:0.29
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCCCAATTGTGAAAAATTGGTGTTGTAGAAATAAAAC
Found at i:899779 original size:129 final size:128
Alignment explanation
Indices: 899480--899844 Score: 414
Period size: 129 Copynumber: 2.8 Consensus size: 128
899470 TATATTTTGA
* * *
899480 AAATAAAATCGGGGTTGGAGTATTCCCTC-GAAAATAACGAGGTTGAAGTATCCCCGATTGTGAA
1 AAATAAAA-CGGGGTTGGAGTATCCCCTCAG-AAATAACGGGGTTGAAGTATCCCCAATTGTGAA
* * ** * *
899544 AAATCGATAATTTAGAAAT-AAAGCTGGGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTT
64 AAATTGGTGTTTTAGAAATAAAATC-GGGGTTG-AGTATCCCCGATTGTGAGAAATCAATATTGT
*
899608 GG
127 AG
* *
899610 AAATAAAGACGGGGTTGGAGTATCCCC-GATGAAATAACGGGGTTGGAGTATCCCCAATTGTGAA
1 AAATAAA-ACGGGGTTGGAGTATCCCCTCA-GAAATAACGGGGTTGAAGTATCCCCAATTGTGAA
*** *
899674 AAATTGGTGTTTTAGAAATAAAATCGGGGTTGAGTATCCCCGATTGTG-GAAAATTGGTGTTGTA
64 AAATTGGTGTTTTAGAAATAAAATCGGGGTTGAGTATCCCCGATTGTGAG-AAATCAATATTGTA
899738 G
128 G
* * *
899739 AAATGAAACCGGGGTTGGAGTATCCCCTCAGAAATGACGGGGTTGAAATATCCCCAATTGTGAAA
1 AAAT-AAAACGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGAAGTATCCCCAATTGTGAAA
* * * *
899804 AACTGGTGTTTTGGGAATAAAATCGAGGTTGGAGTATCCCC
65 AATTGGTGTTTTAGAAATAAAATCGGGGTT-GAGTATCCCC
899845 TCGAAAATAA
Statistics
Matches: 202, Mismatches: 25, Indels: 16
0.83 0.10 0.07
Matches are distributed among these distances:
128 1 0.00
129 105 0.52
130 90 0.45
131 6 0.03
ACGTcount: A:0.33, C:0.14, G:0.27, T:0.27
Consensus pattern (128 bp):
AAATAAAACGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGAAGTATCCCCAATTGTGAAAA
ATTGGTGTTTTAGAAATAAAATCGGGGTTGAGTATCCCCGATTGTGAGAAATCAATATTGTAG
Found at i:899834 original size:79 final size:77
Alignment explanation
Indices: 899698--899922 Score: 245
Period size: 79 Copynumber: 2.9 Consensus size: 77
899688 GAAATAAAAT
* * * * *
899698 CGGGGTTGAGTATCCCCGATTGTGGAAAATTGGTGTTGTAGAAATGAAACCGGGGTTGGAGTATC
1 CGGGGTTGAGTATCCCCGATTGTGAAAAATTGGTGTTCTGGAAAT-AAAACGAGGTTGGAGTATC
*
899763 CCCTC-AGAAATGA
65 CCCTCGA-AAATAA
* * * * *
899776 CGGGGTTGAAATATCCCCAATTGTGAAAAACTGGTGTTTTGGGAATAAAATCGAGGTTGGAGTAT
1 CGGGGTTG-AGTATCCCCGATTGTGAAAAATTGGTGTTCTGGAAATAAAA-CGAGGTTGGAGTAT
899841 CCCCTCGAAAATAA
64 CCCCTCGAAAATAA
* * * * *
899855 CGGGATTGGAGTATCCTCGATTATGAAAAATTGATGTTCTGGAAATAAAACCAGGGTTGGAGTAT
1 CGGGGTT-GAGTATCCCCGATTGTGAAAAATTGGTGTTCTGGAAATAAAACGA-GGTTGGAGTAT
899920 CCC
64 CCC
899923 TGAGATGAAA
Statistics
Matches: 122, Mismatches: 20, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
78 13 0.11
79 107 0.88
80 2 0.02
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.27
Consensus pattern (77 bp):
CGGGGTTGAGTATCCCCGATTGTGAAAAATTGGTGTTCTGGAAATAAAACGAGGTTGGAGTATCC
CCTCGAAAATAA
Found at i:902275 original size:20 final size:20
Alignment explanation
Indices: 902252--902325 Score: 58
Period size: 20 Copynumber: 3.3 Consensus size: 20
902242 AAATACATAT
902252 ATACAATGAGCAATGTATCG
1 ATACAATGAGCAATGTATCG
*
902272 ATACAATGCATTGATACAAATTGTATTG
1 ATACAATG-A--G---C-AA-TGTATCG
*
902300 ATACAATGAACAATGTATCG
1 ATACAATGAGCAATGTATCG
902320 ATACAA
1 ATACAA
902326 ATTGTGAAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 16
0.69 0.05 0.26
Matches are distributed among these distances:
20 20 0.47
21 3 0.07
22 1 0.02
23 1 0.02
26 1 0.02
27 3 0.07
28 14 0.33
ACGTcount: A:0.43, C:0.14, G:0.15, T:0.28
Consensus pattern (20 bp):
ATACAATGAGCAATGTATCG
Found at i:902909 original size:42 final size:42
Alignment explanation
Indices: 902844--902930 Score: 120
Period size: 42 Copynumber: 2.1 Consensus size: 42
902834 CATCACTATT
* * * *
902844 CATCACTATTTATGTATCAATACATTGCGAATAGTATTGATA
1 CATCACTATTCATATATCAATACATTACGAATAGTATCGATA
* *
902886 CATCACTGTTCATATATCGATACATTACGAATAGTATCGATA
1 CATCACTATTCATATATCAATACATTACGAATAGTATCGATA
902928 CAT
1 CAT
902931 TGAGTCCAAC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.36
Consensus pattern (42 bp):
CATCACTATTCATATATCAATACATTACGAATAGTATCGATA
Found at i:902925 original size:20 final size:20
Alignment explanation
Indices: 902857--902931 Score: 71
Period size: 20 Copynumber: 3.6 Consensus size: 20
902847 CACTATTTAT
* *
902857 GTATCAATACATTGCGAATA
1 GTATCGATACATTACGAATA
* * *
902877 GTATTGATACATCACTGTTCATA
1 GTATCGATACATTAC-G--AATA
902900 -TATCGATACATTACGAATA
1 GTATCGATACATTACGAATA
902919 GTATCGATACATT
1 GTATCGATACATT
902932 GAGTCCAACG
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
19 3 0.07
20 23 0.53
21 2 0.05
22 12 0.28
23 3 0.07
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.35
Consensus pattern (20 bp):
GTATCGATACATTACGAATA
Found at i:903765 original size:13 final size:13
Alignment explanation
Indices: 903747--903771 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
903737 CATTTTATGG
903747 TGTATCGATACAA
1 TGTATCGATACAA
903760 TGTATCGATACA
1 TGTATCGATACA
903772 TACTGTGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:903767 original size:33 final size:32
Alignment explanation
Indices: 903724--903791 Score: 91
Period size: 33 Copynumber: 2.1 Consensus size: 32
903714 CGTTGCAAGC
**
903724 CAATGCATCGATACATTTTATGGTGTATCGATA
1 CAATGCATCGATACATACTAT-GTGTATCGATA
* *
903757 CAATGTATCGATACATACTGTGTGTATCGATA
1 CAATGCATCGATACATACTATGTGTATCGATA
903789 CAA
1 CAA
903792 GTTTAGCTAC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 14 0.45
33 17 0.55
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (32 bp):
CAATGCATCGATACATACTATGTGTATCGATA
Found at i:903853 original size:20 final size:20
Alignment explanation
Indices: 903824--903874 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
903814 CCAATGACTT
* *
903824 GTATCAATACATTTTCTCAA
1 GTATCGATACATTTACTCAA
*
903844 GTATCGATACATTTAGTCAA
1 GTATCGATACATTTACTCAA
903864 GTATCGATACA
1 GTATCGATACA
903875 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (20 bp):
GTATCGATACATTTACTCAA
Found at i:906155 original size:20 final size:21
Alignment explanation
Indices: 906126--906166 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
906116 TGTTTTTGAT
906126 GATGATTTTG-A-TGAAAAAC
1 GATGATTTTGAAGTGAAAAAC
906145 GATGTATTTTGAAGTGAAAAAC
1 GATG-ATTTTGAAGTGAAAAAC
906167 AAGTAATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 6 0.32
21 1 0.05
22 8 0.42
ACGTcount: A:0.41, C:0.05, G:0.22, T:0.32
Consensus pattern (21 bp):
GATGATTTTGAAGTGAAAAAC
Found at i:906175 original size:22 final size:20
Alignment explanation
Indices: 906130--906171 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 20
906120 TTTGATGATG
*
906130 ATTTTGATGAAAAACGATGT
1 ATTTTGATGAAAAACGAAGT
906150 ATTTTGAAGTGAAAAAC-AAGT
1 ATTTTG-A-TGAAAAACGAAGT
906171 A
1 A
906172 ATTTACAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 6 0.32
21 5 0.26
22 8 0.42
ACGTcount: A:0.45, C:0.05, G:0.19, T:0.31
Consensus pattern (20 bp):
ATTTTGATGAAAAACGAAGT
Found at i:906316 original size:13 final size:13
Alignment explanation
Indices: 906298--906322 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
906288 ATAATCCCTT
906298 TGTATCGATACAG
1 TGTATCGATACAG
906311 TGTATCGATACA
1 TGTATCGATACA
906323 TCTGCATTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:910854 original size:3 final size:3
Alignment explanation
Indices: 910846--910879 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
910836 TCTGAGTCAC
* *
910846 CAT CAT CAT CAT CAT CTT CAT CAT CTT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
910880 CTTGATGGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.26, C:0.35, G:0.00, T:0.38
Consensus pattern (3 bp):
CAT
Found at i:910860 original size:9 final size:9
Alignment explanation
Indices: 910846--910879 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
910836 TCTGAGTCAC
*
910846 CATCATCAT
1 CATCATCTT
910855 CATCATCTT
1 CATCATCTT
910864 CATCATCTT
1 CATCATCTT
910873 CATCATC
1 CATCATC
910880 CTTGATGGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.26, C:0.35, G:0.00, T:0.38
Consensus pattern (9 bp):
CATCATCTT
Found at i:912590 original size:20 final size:20
Alignment explanation
Indices: 912561--912611 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
912551 CCAATGACTT
* **
912561 GTATCCATACATTTTTTCAA
1 GTATCGATACATTTAGTCAA
912581 GTATCGATACATTTAGTCAA
1 GTATCGATACATTTAGTCAA
912601 GTATCGATACA
1 GTATCGATACA
912612 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.37
Consensus pattern (20 bp):
GTATCGATACATTTAGTCAA
Found at i:913343 original size:36 final size:35
Alignment explanation
Indices: 913298--913367 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 35
913288 TGAAGTGATT
*
913298 GAGAGGTTCTATCTTAGC-CTTTGAAAAAGATAGGGA
1 GAGAGGTTCTATCTTAGCTC-GTG-AAAAGATAGGGA
913334 GAGAGGTTCTATCTTAGCTCGTGAAAAGATAGGG
1 GAGAGGTTCTATCTTAGCTCGTGAAAAGATAGGG
913368 TGGTTTATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
35 11 0.34
36 20 0.62
37 1 0.03
ACGTcount: A:0.31, C:0.11, G:0.30, T:0.27
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCTCGTGAAAAGATAGGGA
Found at i:913851 original size:21 final size:19
Alignment explanation
Indices: 913824--913882 Score: 82
Period size: 20 Copynumber: 2.9 Consensus size: 19
913814 TACAACCCTG
*
913824 TGATTGTATCGATACATGTT
1 TGATTGTATCGATACAT-TA
913844 TAGATTGTATCGATACATTA
1 T-GATTGTATCGATACATTA
913864 TGAATTGTATCGATACATT
1 TG-ATTGTATCGATACATT
913883 TGGCCCAATA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
19 1 0.03
20 19 0.53
21 16 0.44
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.42
Consensus pattern (19 bp):
TGATTGTATCGATACATTA
Found at i:913872 original size:20 final size:20
Alignment explanation
Indices: 913825--913884 Score: 86
Period size: 21 Copynumber: 3.0 Consensus size: 20
913815 ACAACCCTGT
*
913825 GATTGTATCGATACATGTTTA
1 GATTGTATCGATACAT-TTGA
913846 GATTGTATCGATACATTATGA
1 GATTGTATCGATACATT-TGA
913867 -ATTGTATCGATACATTTG
1 GATTGTATCGATACATTTG
913885 GCCCAATAAC
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
19 2 0.05
20 17 0.46
21 18 0.49
ACGTcount: A:0.30, C:0.10, G:0.18, T:0.42
Consensus pattern (20 bp):
GATTGTATCGATACATTTGA
Found at i:914694 original size:20 final size:20
Alignment explanation
Indices: 914671--914713 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
914661 AACGTTTTAG
*
914671 GTTCATTTTTTAACAAATAT
1 GTTCATTTTCTAACAAATAT
914691 GTTCATTTTCTAACAAATAT
1 GTTCATTTTCTAACAAATAT
914711 GTT
1 GTT
914714 AGAAAATCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.12, G:0.07, T:0.49
Consensus pattern (20 bp):
GTTCATTTTCTAACAAATAT
Found at i:916498 original size:20 final size:21
Alignment explanation
Indices: 916454--916505 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
916444 TTTTATAATT
*
916454 TGTATTGATACAAACAGTAAA
1 TGTATCGATACAAACAGTAAA
* *
916475 TGTATCGATACATA-AGTGAA
1 TGTATCGATACAAACAGTAAA
916495 TGTATCGATAC
1 TGTATCGATAC
916506 GTGCCTGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.31
Consensus pattern (21 bp):
TGTATCGATACAAACAGTAAA
Found at i:916592 original size:54 final size:54
Alignment explanation
Indices: 916507--916612 Score: 185
Period size: 54 Copynumber: 2.0 Consensus size: 54
916497 TATCGATACG
*
916507 TGCCTGAAATGTATCGATACAAAATCATCCTGCATTCTGGAAAGGAAATGTACA
1 TGCCTGAAATGTATCGAAACAAAATCATCCTGCATTCTGGAAAGGAAATGTACA
* *
916561 TGCCTGAAATGTATCGAAACAAAATCCTCCTGCATTCTGGAATGGAAATGTA
1 TGCCTGAAATGTATCGAAACAAAATCATCCTGCATTCTGGAAAGGAAATGTA
916613 TCGATACATA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (54 bp):
TGCCTGAAATGTATCGAAACAAAATCATCCTGCATTCTGGAAAGGAAATGTACA
Found at i:916631 original size:20 final size:20
Alignment explanation
Indices: 916606--916683 Score: 84
Period size: 20 Copynumber: 3.9 Consensus size: 20
916596 TCTGGAATGG
* *
916606 AAATGTATCGATACATAAGT
1 AAATGTATCGATACATTACT
916626 AAATGTATCGATACATTTACT
1 AAATGTATCGATACA-TTACT
* * *
916647 GATTGTATCGATACATTATT
1 AAATGTATCGATACATTACT
* *
916667 CATTGTATCGATACATT
1 AAATGTATCGATACATT
916684 CTAGGTTTTT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
20 35 0.69
21 16 0.31
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (20 bp):
AAATGTATCGATACATTACT
Found at i:916655 original size:21 final size:21
Alignment explanation
Indices: 916629--916683 Score: 85
Period size: 20 Copynumber: 2.7 Consensus size: 21
916619 CATAAGTAAA
*
916629 TGTATCGATACATTTACTGAT
1 TGTATCGATACATTTACTCAT
*
916650 TGTATCGATACA-TTATTCAT
1 TGTATCGATACATTTACTCAT
916670 TGTATCGATACATT
1 TGTATCGATACATT
916684 CTAGGTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 18 0.58
21 13 0.42
ACGTcount: A:0.29, C:0.15, G:0.13, T:0.44
Consensus pattern (21 bp):
TGTATCGATACATTTACTCAT
Found at i:919146 original size:97 final size:97
Alignment explanation
Indices: 918963--919187 Score: 245
Period size: 97 Copynumber: 2.3 Consensus size: 97
918953 TACATCCTTA
* * * * **
918963 CCAACCCCATTCTTTCGAAGGGATACTCTAACCCCTTTTTTAAACTCATCTAGATTTAAATCTCA
1 CCAACCCTATTCTTTCGAAGAGATACTCCAACCCCATTTTTAAACTCATAAAGATTTAAATCTCA
*** *
919028 TTTTTGCTCAAATTTTTATCATTCGGGG-TACT
66 TTTTTGCTCAAATTGCCATCATT-GGGGAGACT
* * * **
919060 CCAACCCTATTCTTTCGTAGAGATACTCCAACCCCATTTTTAAACTCATAAATATTTAAATTTTG
1 CCAACCCTATTCTTTCGAAGAGATACTCCAACCCCATTTTTAAACTCATAAAGATTTAAATCTCA
*
919125 TTTTTGCTCAGATTGCCATCATTGGGGAGACT
66 TTTTTGCTCAAATTGCCATCATTGGGGAGACT
* * * * *
919157 GCAACCCTATTCCTCCGAGGGGATACTCCAA
1 CCAACCCTATTCTTTCGAAGAGATACTCCAA
919188 TCTTGTTTTT
Statistics
Matches: 105, Mismatches: 22, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
96 4 0.04
97 101 0.96
ACGTcount: A:0.27, C:0.25, G:0.12, T:0.36
Consensus pattern (97 bp):
CCAACCCTATTCTTTCGAAGAGATACTCCAACCCCATTTTTAAACTCATAAAGATTTAAATCTCA
TTTTTGCTCAAATTGCCATCATTGGGGAGACT
Found at i:923541 original size:13 final size:13
Alignment explanation
Indices: 923523--923547 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
923513 CATAAAATGT
923523 TGTATCGATACAA
1 TGTATCGATACAA
923536 TGTATCGATACA
1 TGTATCGATACA
923548 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:923559 original size:33 final size:33
Alignment explanation
Indices: 923503--923569 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
923493 TTCAACGATT
*
923503 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCAATACAA
*** *
923536 TGTATCGATACATATTTTTTTGTATCAATACAA
1 TGTATCGATACATAAAATGTTGTATCAATACAA
923569 T
1 T
923570 TTAAGCTACT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCAATACAA
Found at i:923631 original size:13 final size:13
Alignment explanation
Indices: 923613--923637 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
923603 ATTACTCACA
923613 TGTATCGATACAT
1 TGTATCGATACAT
923626 TGTATCGATACA
1 TGTATCGATACA
923638 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:923689 original size:52 final size:51
Alignment explanation
Indices: 923626--923770 Score: 175
Period size: 52 Copynumber: 2.8 Consensus size: 51
923616 ATCGATACAT
** *
923626 TGTATCGATACACTGATCTTTGTATCAATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACTGAT-AATGTATCAATACATGCAGGCAAATTTACCCAGA
* * *
923678 TGTATCGATACATTTTATAATGTATCGATACATGCAGGCAAATTTACCCAGA
1 TGTATCGATACA-CTGATAATGTATCAATACATGCAGGCAAATTTACCCAGA
* *
923730 TGTATCGATACACT-ATTAAATGTATCGATACATGCAAGCAA
1 TGTATCGATACACTGA-T-AATGTATCAATACATGCAGGCAA
923771 CTTTTCATAT
Statistics
Matches: 82, Mismatches: 8, Indels: 6
0.85 0.08 0.06
Matches are distributed among these distances:
50 1 0.01
51 2 0.02
52 76 0.93
53 3 0.04
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (51 bp):
TGTATCGATACACTGATAATGTATCAATACATGCAGGCAAATTTACCCAGA
Found at i:937248 original size:21 final size:18
Alignment explanation
Indices: 937206--937259 Score: 72
Period size: 21 Copynumber: 2.8 Consensus size: 18
937196 CATCCTTCGT
*
937206 AAAAAAATCAAAACACAA
1 AAAAAAATCAAAAAACAA
937224 AAAAAAATCAAAAAATCAA
1 AAAAAAATCAAAAAA-CAA
937243 TCAAAAAAATCAAAAAA
1 --AAAAAAATCAAAAAA
937260 AAAGGGATGA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
18 14 0.44
19 3 0.09
21 15 0.47
ACGTcount: A:0.78, C:0.13, G:0.00, T:0.09
Consensus pattern (18 bp):
AAAAAAATCAAAAAACAA
Found at i:938520 original size:14 final size:13
Alignment explanation
Indices: 938503--938582 Score: 65
Period size: 14 Copynumber: 6.1 Consensus size: 13
938493 TAATTTGCCA
938503 TTGTCAAGAAATT
1 TTGTCAAGAAATT
938516 GTTGTCAAGAAATT
1 -TTGTCAAGAAATT
* *
938530 ATCGTCAAGAACTT
1 -TTGTCAAGAAATT
*
938544 TTGTCGAG-AATGT
1 TTGTCAAGAAAT-T
*
938557 TTGTC-AGAAACT
1 TTGTCAAGAAATT
**
938569 TCATCAAGAAATT
1 TTGTCAAGAAATT
938582 T
1 T
938583 ACGTCAAAAC
Statistics
Matches: 53, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
12 8 0.15
13 21 0.40
14 24 0.45
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.35
Consensus pattern (13 bp):
TTGTCAAGAAATT
Found at i:938646 original size:28 final size:28
Alignment explanation
Indices: 938606--938683 Score: 97
Period size: 28 Copynumber: 2.8 Consensus size: 28
938596 TCCCTTCTCA
* *
938606 AAGTCCACTAGTTAGTGGCACCTCTTCG
1 AAGTCTACAAGTTAGTGGCACCTCTTCG
* *
938634 AAGTCTACAAGTTAGTGGCACATTTTCG
1 AAGTCTACAAGTTAGTGGCACCTCTTCG
938662 AAGT-TCACAA-TTAGTGGCACCT
1 AAGTCT-ACAAGTTAGTGGCACCT
938684 GTCGTATATA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
27 12 0.27
28 32 0.73
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (28 bp):
AAGTCTACAAGTTAGTGGCACCTCTTCG
Found at i:938804 original size:34 final size:34
Alignment explanation
Indices: 938761--938842 Score: 112
Period size: 34 Copynumber: 2.4 Consensus size: 34
938751 CAACCTTCTT
*
938761 CAAAAGCCCACACATCCGTGGCAACC-TTTCCATC
1 CAAAAGCCCACACATCCATGGCAACCTTTTCC-TC
* * *
938795 CAAAAGCCCAGACATCCATGGCATCCTTTTCCTT
1 CAAAAGCCCACACATCCATGGCAACCTTTTCCTC
938829 CAAAAGCCCACACA
1 CAAAAGCCCACACA
938843 AGTTGGTAGC
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
34 37 0.88
35 5 0.12
ACGTcount: A:0.32, C:0.39, G:0.11, T:0.18
Consensus pattern (34 bp):
CAAAAGCCCACACATCCATGGCAACCTTTTCCTC
Found at i:938873 original size:33 final size:31
Alignment explanation
Indices: 938828--938908 Score: 108
Period size: 33 Copynumber: 2.5 Consensus size: 31
938818 TCCTTTTCCT
*
938828 TCAAAAGCCCACACAAGTTGGTAGCAACCTTTT
1 TCAAAA-CCCACACAAGTTGGTAGCAACC-TTC
*
938861 TCCAAAACCCACACAAGTTGGTGGCAACCTTC
1 T-CAAAACCCACACAAGTTGGTAGCAACCTTC
938893 TCAAAACCTCACACAA
1 TCAAAACC-CACACAA
938909 ATAGGTGGCA
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
31 7 0.16
32 10 0.23
33 22 0.50
34 5 0.11
ACGTcount: A:0.36, C:0.32, G:0.12, T:0.20
Consensus pattern (31 bp):
TCAAAACCCACACAAGTTGGTAGCAACCTTC
Found at i:938916 original size:32 final size:32
Alignment explanation
Indices: 938828--938934 Score: 112
Period size: 32 Copynumber: 3.3 Consensus size: 32
938818 TCCTTTTCCT
* *
938828 TCAAAAGCCCACACAAGTTGGTAGCAACCTTTT
1 TCAAAA-CCCACACAAGTTGGTGGCAACCTTTC
938861 TCCAAAACCCACACAAGTTGGTGGCAACC-TTC
1 T-CAAAACCCACACAAGTTGGTGGCAACCTTTC
* * *
938893 TCAAAACCTCACACAAATAGGTGGCATCTCTTTC
1 TCAAAACC-CACACAAGTTGGTGGCAAC-CTTTC
938927 -C-AAACCCA
1 TCAAAACCCA
938935 ATGTTGTTGG
Statistics
Matches: 65, Mismatches: 5, Indels: 10
0.81 0.06 0.12
Matches are distributed among these distances:
31 9 0.14
32 24 0.37
33 24 0.37
34 8 0.12
ACGTcount: A:0.34, C:0.32, G:0.13, T:0.21
Consensus pattern (32 bp):
TCAAAACCCACACAAGTTGGTGGCAACCTTTC
Found at i:939043 original size:58 final size:58
Alignment explanation
Indices: 938934--939043 Score: 130
Period size: 58 Copynumber: 1.9 Consensus size: 58
938924 TTCCAAACCC
**** *
938934 AATGTTGTTGGCCTTGAATCAACACATAAGCATTTGTCAGACCTTCATTCTCAAGCCT
1 AATGTTGTTGGCCTTGAATCAACACATAAGCACACATCAAACCTTCATTCTCAAGCCT
* * * * *
938992 AATGTTGTTGGCTTTGAATCAACACATTAGCACACATTAAATCTTCCTTCTC
1 AATGTTGTTGGCCTTGAATCAACACATAAGCACACATCAAACCTTCATTCTC
939044 TAGGTCTAAT
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
58 42 1.00
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.35
Consensus pattern (58 bp):
AATGTTGTTGGCCTTGAATCAACACATAAGCACACATCAAACCTTCATTCTCAAGCCT
Found at i:939268 original size:52 final size:53
Alignment explanation
Indices: 939190--939302 Score: 131
Period size: 52 Copynumber: 2.2 Consensus size: 53
939180 AATGGCATTT
* * * * *
939190 TTTAAGTCCAATGTCGTTGACCTTGAATC-TC-TATTTTGGGATTCTTATAATC
1 TTTAAGTCCAATGACGCTGACCTTGAATCAGCATA-TTTGGCATTCTTACAATC
* * *
939242 TTTAAGTCCAATGAGGCTGGCCTTGAATCAGCATATTTGGCATTCTTACCATC
1 TTTAAGTCCAATGACGCTGACCTTGAATCAGCATATTTGGCATTCTTACAATC
939295 TTTAAGTC
1 TTTAAGTC
939303 TAGATTCATT
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
52 25 0.49
53 24 0.47
54 2 0.04
ACGTcount: A:0.24, C:0.19, G:0.17, T:0.40
Consensus pattern (53 bp):
TTTAAGTCCAATGACGCTGACCTTGAATCAGCATATTTGGCATTCTTACAATC
Found at i:939374 original size:157 final size:157
Alignment explanation
Indices: 939188--939480 Score: 339
Period size: 157 Copynumber: 1.9 Consensus size: 157
939178 ACAATGGCAT
* * * * *
939188 TTTTTAAGTCCAATGTCGTTGACCTTGAATC-TCTATTTTGGGATTCTTATAATCTTTAAGTCCA
1 TTTTTAAGTCCAATGTCGTTGACCCTGAATCAGC-ATATTGGCATTATTATAATCTTTAAGTCCA
** * * *
939252 ATGAGGCTGGCCTTGAATCAGCATATTTGGCATTCTTAC-CATCTTT-AAGTCTAGAT-TCATTA
65 ATGACACTAGCCTTGAATCAGCACA-TTGGCACTCTT-CTCATCTTTAAAGTCTAG-TGTCA-TA
939314 -GCCTTGAATCAGCATATTGGCACCTTTATTA
126 GGCCTTGAATCAGCATATTGGCACCTTTATTA
* *
939345 TTTTTAAG-CCTAATGTCGTT-AGCCCTGAATCAGCATATTGGCATTATTCTCATCTTTAAGTCC
1 TTTTTAAGTCC-AATGTCGTTGA-CCCTGAATCAGCATATTGGCATTATTATAATCTTTAAGTCC
* * *
939408 AATGTCATTAGCCTTGAATCAGCACATTGGCACTCTTCTTATCTTTAAAGTCTAGTGTCATAGGC
64 AATGACACTAGCCTTGAATCAGCACATTGGCACTCTTCTCATCTTTAAAGTCTAGTGTCATAGGC
939473 CTTGAATC
129 CTTGAATC
939481 TGCACACTAG
Statistics
Matches: 114, Mismatches: 15, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
155 1 0.01
156 22 0.19
157 90 0.79
158 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (157 bp):
TTTTTAAGTCCAATGTCGTTGACCCTGAATCAGCATATTGGCATTATTATAATCTTTAAGTCCAA
TGACACTAGCCTTGAATCAGCACATTGGCACTCTTCTCATCTTTAAAGTCTAGTGTCATAGGCCT
TGAATCAGCATATTGGCACCTTTATTA
Found at i:939455 original size:104 final size:105
Alignment explanation
Indices: 939265--939455 Score: 282
Period size: 104 Copynumber: 1.8 Consensus size: 105
939255 AGGCTGGCCT
* * *
939265 TGAATCAGCATATTTGGCATTCTTACCATCTTTAAGTCTAGATTCATTAGCCTTGAATCAGCATA
1 TGAATCAGCATATTTGGCATTATTACCATCTTTAAGTCCAGATTCATTAGCCTTGAATCAGCACA
*
939330 TTGGCACCTTTATTATTTTTAAGCCTAATGTCGTTAGCCC
66 TTGGCACCTTTATTATCTTTAAGCCTAATGTCGTTAGCCC
939370 TGAATCAGCATA-TTGGCATTATT-CTCATCTTTAAGTCCA-ATGTCATTAGCCTTGAATCAGCA
1 TGAATCAGCATATTTGGCATTATTAC-CATCTTTAAGTCCAGAT-TCATTAGCCTTGAATCAGCA
*
939432 CATTGGCA-CTCTTCTTATCTTTAA
64 CATTGGCACCT-TTATTATCTTTAA
939456 AGTCTAGTGT
Statistics
Matches: 78, Mismatches: 5, Indels: 7
0.87 0.06 0.08
Matches are distributed among these distances:
103 5 0.06
104 61 0.78
105 12 0.15
ACGTcount: A:0.26, C:0.21, G:0.14, T:0.39
Consensus pattern (105 bp):
TGAATCAGCATATTTGGCATTATTACCATCTTTAAGTCCAGATTCATTAGCCTTGAATCAGCACA
TTGGCACCTTTATTATCTTTAAGCCTAATGTCGTTAGCCC
Found at i:939486 original size:53 final size:52
Alignment explanation
Indices: 939261--939480 Score: 241
Period size: 52 Copynumber: 4.2 Consensus size: 52
939251 AATGAGGCTG
*
939261 GCCTTGAATCAGCATATTTGGCATTCTTAC-CATCTTTAAGTCTAGAT-TCATTA
1 GCCTTGAATCAGCATA-TTGGCACTCTT-CTCATCTTTAAGTCTA-ATGTCATTA
* * * * *
939314 GCCTTGAATCAGCATATTGGCAC-CTTTATTATTTTTAAGCCTAATGTCGTTA
1 GCCTTGAATCAGCATATTGGCACTC-TTCTCATCTTTAAGTCTAATGTCATTA
* * * *
939366 GCCCTGAATCAGCATATTGGCATTATTCTCATCTTTAAGTCCAATGTCATTA
1 GCCTTGAATCAGCATATTGGCACTCTTCTCATCTTTAAGTCTAATGTCATTA
* * *
939418 GCCTTGAATCAGCACATTGGCACTCTTCTTATCTTTAAAGTCTAGTGTCA-TA
1 GCCTTGAATCAGCATATTGGCACTCTTCTCATCTTT-AAGTCTAATGTCATTA
939470 GGCCTTGAATC
1 -GCCTTGAATC
939481 TGCACACTAG
Statistics
Matches: 139, Mismatches: 22, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
51 3 0.02
52 99 0.71
53 37 0.27
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.38
Consensus pattern (52 bp):
GCCTTGAATCAGCATATTGGCACTCTTCTCATCTTTAAGTCTAATGTCATTA
Found at i:940140 original size:20 final size:21
Alignment explanation
Indices: 940115--940167 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 21
940105 ATTTACAATT
940115 TGTATCGATACATAAATG-AA
1 TGTATCGATACATAAATGAAA
**
940135 TGTATCGATACATACCTGAAA
1 TGTATCGATACATAAATGAAA
940156 TGTATCGATACA
1 TGTATCGATACA
940168 AAACCAGCCT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 16 0.53
21 14 0.47
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (21 bp):
TGTATCGATACATAAATGAAA
Found at i:941010 original size:19 final size:20
Alignment explanation
Indices: 940972--941011 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
940962 AACCTATATT
*
940972 CATGCATTTTATGCCATGTTC
1 CATGCATTTCAT-CCATGTTC
940993 CATGCATTTCAT-CATGTTC
1 CATGCATTTCATCCATGTTC
941012 AATCTATGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
21 11 0.61
ACGTcount: A:0.20, C:0.25, G:0.12, T:0.42
Consensus pattern (20 bp):
CATGCATTTCATCCATGTTC
Found at i:946103 original size:30 final size:30
Alignment explanation
Indices: 946046--946434 Score: 309
Period size: 30 Copynumber: 12.5 Consensus size: 30
946036 AAAAGCCCAC
*
946046 GACTCAGTGGCATCT-TTC-CTAAAGTCCAT
1 GACTCAGTGGCATCTCTTCTC-CAAGTCCAT
946075 GACTCAGTGGCATCTCTTCTCCAAGTCCAT
1 GACTCAGTGGCATCTCTTCTCCAAGTCCAT
* *
946105 GACTCAGTGGCATCCTTTTTCTTCCAAATCCAT
1 GACTCAGTGGCAT-C-TCTTC-TCCAAGTCCAT
* *
946138 GACTTAGTGGCATC-CTTTCTCCTAAAGTCCAC
1 GACTCAGTGGCATCTC-TTCTCC--AAGTCCAT
* * * *
946170 GGCTTAGGGGCATCTCTTCCCCAAGTCCAT
1 GACTCAGTGGCATCTCTTCTCCAAGTCCAT
* * *
946200 GACTCAGTGGCATCTTTTTTCTTTCAAGTCCAC
1 GACTCAGTGGCATC--TCTTC-TCCAAGTCCAT
* *
946233 AACTTAGTGGCATC-CTTTCTCCAAAAGTCCAT
1 GACTCAGTGGCATCTC-TTCTCC--AAGTCCAT
* *
946265 GACTCAATGGCATCTCTTCTCCAAGTCCAC
1 GACTCAGTGGCATCTCTTCTCCAAGTCCAT
* * * *
946295 AACTTAGTGGCATCTTTTTTCTTTCAAGTCCAT
1 GACTCAGTGGCATC--TCTTC-TCCAAGTCCAT
* * * *
946328 GACTTAGTAGCATCTCTTCTCTAAGTCCAC
1 GACTCAGTGGCATCTCTTCTCCAAGTCCAT
* * *
946358 GACTCAGTGGCATCCATTTTTTTCCAAGTCCAC
1 GACTCAGTGGCAT-C--TCTTCTCCAAGTCCAT
* * *
946391 GACTTAGTGGCATTTCTTCTCTAAGTCCAT
1 GACTCAGTGGCATCTCTTCTCCAAGTCCAT
946421 GACTCAGTGGCATC
1 GACTCAGTGGCATC
946435 ATTTTTCTTC
Statistics
Matches: 286, Mismatches: 52, Indels: 43
0.75 0.14 0.11
Matches are distributed among these distances:
29 15 0.05
30 108 0.38
31 13 0.05
32 60 0.21
33 90 0.31
ACGTcount: A:0.22, C:0.29, G:0.16, T:0.33
Consensus pattern (30 bp):
GACTCAGTGGCATCTCTTCTCCAAGTCCAT
Found at i:946137 original size:33 final size:32
Alignment explanation
Indices: 946046--946507 Score: 330
Period size: 33 Copynumber: 14.7 Consensus size: 32
946036 AAAAGCCCAC
* *
946046 GACTCAGTGGCAT-C-TTTCCT-AAAGTCCAT
1 GACTCAGTGGCATCCTTTTTCTCCAAGTCCAT
*
946075 GACTCAGTGGCAT-C-TCTTCTCCAAGTCCAT
1 GACTCAGTGGCATCCTTTTTCTCCAAGTCCAT
*
946105 GACTCAGTGGCATCCTTTTTCTTCCAAATCCAT
1 GACTCAGTGGCATCCTTTTTC-TCCAAGTCCAT
* *
946138 GACTTAGTGGCATCC--TTTCTCCTAAAGTCCAC
1 GACTCAGTGGCATCCTTTTTCTCC--AAGTCCAT
* * * * *
946170 GGCTTAGGGGCAT-C-TCTTCCCCAAGTCCAT
1 GACTCAGTGGCATCCTTTTTCTCCAAGTCCAT
* * *
946200 GACTCAGTGGCATCTTTTTTCTTTCAAGTCCAC
1 GACTCAGTGGCATCCTTTTTC-TCCAAGTCCAT
* *
946233 AACTTAGTGGCATCC--TTTCTCCAAAAGTCCAT
1 GACTCAGTGGCATCCTTTTTCTCC--AAGTCCAT
* * *
946265 GACTCAATGGCAT-C-TCTTCTCCAAGTCCAC
1 GACTCAGTGGCATCCTTTTTCTCCAAGTCCAT
* * * *
946295 AACTTAGTGGCATCTTTTTTCTTTCAAGTCCAT
1 GACTCAGTGGCATCCTTTTTC-TCCAAGTCCAT
* * * * *
946328 GACTTAGTAGCAT-C-TCTTCTCTAAGTCCAC
1 GACTCAGTGGCATCCTTTTTCTCCAAGTCCAT
* *
946358 GACTCAGTGGCATCCATTTTTTTCCAAGTCCAC
1 GACTCAGTGGCATCC-TTTTTCTCCAAGTCCAT
* * *
946391 GACTTAGTGGCAT--TTCTTCTCTAAGTCCAT
1 GACTCAGTGGCATCCTTTTTCTCCAAGTCCAT
* **
946421 GACTCAGTGGCATCATTTTTCTTCCAAGTCTGT
1 GACTCAGTGGCATCCTTTTTC-TCCAAGTCCAT
* * * *
946454 GACTCAATGGTATCCTTTTTCTTCCAACTCCAC
1 GACTCAGTGGCATCCTTTTTC-TCCAAGTCCAT
*
946487 GACAT-AGTGGCAACCTTTTTC
1 GAC-TCAGTGGCATCCTTTTTC
946508 CTTTCTGTTA
Statistics
Matches: 340, Mismatches: 70, Indels: 42
0.75 0.15 0.09
Matches are distributed among these distances:
29 18 0.05
30 104 0.31
31 16 0.05
32 62 0.18
33 139 0.41
34 1 0.00
ACGTcount: A:0.21, C:0.29, G:0.15, T:0.34
Consensus pattern (32 bp):
GACTCAGTGGCATCCTTTTTCTCCAAGTCCAT
Found at i:946147 original size:63 final size:63
Alignment explanation
Indices: 946042--946507 Score: 375
Period size: 63 Copynumber: 7.4 Consensus size: 63
946032 TTCCAAAAGC
*
946042 CCACGACTCAGTGGCAT-C--TTTC--CTAAAGTCCATGACTCAGTGGCATCTCTTCTCCAAGT
1 CCACGACTCAGTGGCATCCTTTTTCTTCCAAA-TCCATGACTCAGTGGCATCTCTTCTCCAAGT
* *
946101 CCATGACTCAGTGGCATCCTTTTTCTTCCAAATCCATGACTTAGTGGCATC-CTTTCTCCTAAAG
1 CCACGACTCAGTGGCATCCTTTTTCTTCCAAATCCATGACTCAGTGGCATCTC-TTCTCC--AAG
946165 T
63 T
* * * * * * * *
946166 CCACGGCTTAGGGGCAT-C-TCTTC-CCCAAGTCCATGACTCAGTGGCATCTTTTTTCTTTCAAG
1 CCACGACTCAGTGGCATCCTTTTTCTTCCAAATCCATGACTCAGTGGCATC--TCTTC-TCCAAG
946228 T
63 T
* * *
946229 CCACAACTTAGTGGCATCC--TTTC-TCCAAAAGTCCATGACTCAATGGCATCTCTTCTCCAAGT
1 CCACGACTCAGTGGCATCCTTTTTCTTCC-AAA-TCCATGACTCAGTGGCATCTCTTCTCCAAGT
* * * * * * * *
946291 CCACAACTTAGTGGCATCTTTTTTCTTTCAAGTCCATGACTTAGTAGCATCTCTTCTCTAAGT
1 CCACGACTCAGTGGCATCCTTTTTCTTCCAAATCCATGACTCAGTGGCATCTCTTCTCCAAGT
* * * * *
946354 CCACGACTCAGTGGCATCCATTTTT-TTCCAAGTCCACGACTTAGTGGCATTTCTTCTCTAAGT
1 CCACGACTCAGTGGCATCC-TTTTTCTTCCAAATCCATGACTCAGTGGCATCTCTTCTCCAAGT
* * * ** * * * *
946417 CCATGACTCAGTGGCATCATTTTTCTTCCAAGTCTGTGACTCAATGGTATCCTTTTTCTTCCAAC
1 CCACGACTCAGTGGCATCCTTTTTCTTCCAAATCCATGACTCAGTGGCAT-C-TCTTC-TCCAAG
946482 T
63 T
*
946483 CCACGACAT-AGTGGCAACCTTTTTC
1 CCACGAC-TCAGTGGCATCCTTTTTC
946508 CTTTCTGTTA
Statistics
Matches: 332, Mismatches: 51, Indels: 41
0.78 0.12 0.10
Matches are distributed among these distances:
59 16 0.05
60 1 0.00
62 56 0.17
63 168 0.51
64 22 0.07
65 43 0.13
66 25 0.08
67 1 0.00
ACGTcount: A:0.21, C:0.29, G:0.15, T:0.34
Consensus pattern (63 bp):
CCACGACTCAGTGGCATCCTTTTTCTTCCAAATCCATGACTCAGTGGCATCTCTTCTCCAAGT
Found at i:946168 original size:95 final size:95
Alignment explanation
Indices: 946046--946434 Score: 445
Period size: 95 Copynumber: 4.1 Consensus size: 95
946036 AAAAGCCCAC
* * *
946046 GACTCAGTGGCAT-C-TT-TCCTAAAGTCCATGACTCAGTGGCATCTCTTCTCCAAGTCCATGAC
1 GACTTAGTGGCATCCTTTCTCCTAAAGTCCACGACTCAGTGGCATCTCTTCTCCAAGTCCACGAC
* *
946108 TCAGTGGCATCCTTTTTCTTCCAAATCCAT
66 TCAGTGGCATCTTTTTTCTTCCAAGTCCAT
* * * * *
946138 GACTTAGTGGCATCCTTTCTCCTAAAGTCCACGGCTTAGGGGCATCTCTTCCCCAAGTCCATGAC
1 GACTTAGTGGCATCCTTTCTCCTAAAGTCCACGACTCAGTGGCATCTCTTCTCCAAGTCCACGAC
* *
946203 TCAGTGGCATCTTTTTTCTTTCAAGTCCAC
66 TCAGTGGCATCTTTTTTCTTCCAAGTCCAT
* * * * *
946233 AACTTAGTGGCATCCTTTCTCCAAAAGTCCATGACTCAATGGCATCTCTTCTCCAAGTCCACAAC
1 GACTTAGTGGCATCCTTTCTCCTAAAGTCCACGACTCAGTGGCATCTCTTCTCCAAGTCCACGAC
* *
946298 TTAGTGGCATCTTTTTTCTTTCAAGTCCAT
66 TCAGTGGCATCTTTTTTCTTCCAAGTCCAT
* * *
946328 GACTTAGTAGCAT-CTCTTCT-CT-AAGTCCACGACTCAGTGGCATCCATTTTTTTCCAAGTCCA
1 GACTTAGTGGCATCCT-TTCTCCTAAAGTCCACGACTCAGTGGCAT-C--TCTTCTCCAAGTCCA
* * *
946390 CGACTTAGTGGCA--TTTCTTC-TCTAAGTCCAT
62 CGACTCAGTGGCATCTTTTTTCTTCCAAGTCCAT
*
946421 GACTCAGTGGCATC
1 GACTTAGTGGCATC
946435 ATTTTTCTTC
Statistics
Matches: 254, Mismatches: 35, Indels: 14
0.84 0.12 0.05
Matches are distributed among these distances:
92 12 0.05
93 40 0.16
94 12 0.05
95 165 0.65
96 25 0.10
ACGTcount: A:0.22, C:0.29, G:0.16, T:0.33
Consensus pattern (95 bp):
GACTTAGTGGCATCCTTTCTCCTAAAGTCCACGACTCAGTGGCATCTCTTCTCCAAGTCCACGAC
TCAGTGGCATCTTTTTTCTTCCAAGTCCAT
Found at i:946291 original size:125 final size:122
Alignment explanation
Indices: 946054--946403 Score: 332
Period size: 125 Copynumber: 2.8 Consensus size: 122
946044 ACGACTCAGT
* **
946054 GGCATCTTTCCTAAAGTCCATGACTCAGTGGCATCTCTTCTCCAAGTCCATGACTCAGTGGCATC
1 GGCATCTTTCCCAAAGTCCATGACTCAGTGGCATCTCTTCTCCAAGTCCACAACTCAGTGGCATC
* * **
946119 CTTTTTCTTCCAAATCCATGACTTAGTGGCATCCTTTCTCCTAAAGTCCACGGCTTAGG
66 C-TTTTCTTCCAAATCCATGACTCAATGGCATCCTTTCTCC-AAAGTCCACAACTTAGG
* * * *
946178 GGCATCTCTTCCCCAAGTCCATGACTCAGTGGCATCTTTTTTCTTTCAAGTCCACAACTTAGTGG
1 GGCATCT-TTCCCAAAGTCCATGACTCAGTGGCATC--TCTTC-TCCAAGTCCACAACTCAGTGG
*
946243 CATCC-TTTC-TCCAAAAGTCCATGACTCAATGGCAT-CTCTTCTCC-AAGTCCACAACTTAGT
62 CATCCTTTTCTTCC-AAA-TCCATGACTCAATGGCATCCT-TTCTCCAAAGTCCACAACTTAGG
* * * * *
946303 GGCATCTTTTTTCTTTC-AAGTCCATGACTTAGTAGCATCTCTTCTCTAAGTCCACGACTCAGTG
1 GGCATC---TTTC--CCAAAGTCCATGACTCAGTGGCATCTCTTCTCCAAGTCCACAACTCAGTG
* * * * *
946367 GCATCCATTTTTTTCCAAGTCCACGACTTAGTGGCAT
61 GCATCC-TTTTCTTCCAAATCCATGACTCAATGGCAT
946404 TTCTTCTCTA
Statistics
Matches: 186, Mismatches: 25, Indels: 28
0.78 0.10 0.12
Matches are distributed among these distances:
124 7 0.04
125 70 0.38
126 28 0.15
127 34 0.18
128 46 0.25
129 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.15, T:0.33
Consensus pattern (122 bp):
GGCATCTTTCCCAAAGTCCATGACTCAGTGGCATCTCTTCTCCAAGTCCACAACTCAGTGGCATC
CTTTTCTTCCAAATCCATGACTCAATGGCATCCTTTCTCCAAAGTCCACAACTTAGG
Found at i:946334 original size:158 final size:157
Alignment explanation
Indices: 946080--946447 Score: 447
Period size: 158 Copynumber: 2.3 Consensus size: 157
946070 TCCATGACTC
* **
946080 AGTGGCATCTCTTCTCCAAGTCCATGACTCAGTGGCATCCTTTTTCTTCCAAATCCATGACTTAG
1 AGTGGCATCTCTTCTCCAAGTCCATGACTCAGTGGCAT-CTTCTTCTTCCAAATCCACAACTTAG
* * *
946145 TGGCATCCTTTCTCCTAAAGTCCACGGCTTAGGGGCATCTCTTCCCCAAGTCCATGACTCAGTGG
65 TGGCATCCTTTCTCCTAAAGTCCACGACTTAGGAGCATCTCTTCCCCAAGTCCACGACTCAGTGG
* *
946210 CAT-CTTTTTTCTTTCAAGTCCACAACTT
130 CATCCATTTTT-TTCCAAGTCCACAACTT
* *
946238 AGTGGCATC-CTTTCTCCAAAAGTCCATGACTCAATGGCATC-TCTTC-TCCAAGTCCACAACTT
1 AGTGGCATCTC-TTCTCC--AAGTCCATGACTCAGTGGCATCTTCTTCTTCCAAATCCACAACTT
* * * * * * * *
946300 AGTGGCATCTTTTTTCTTTCAAGTCCATGACTTAGTAGCATCTCTTCTCTAAGTCCACGACTCAG
63 AGTGGCATCCTTTCTC-CTAAAGTCCACGACTTAGGAGCATCTCTTCCCCAAGTCCACGACTCAG
*
946365 TGGCATCCATTTTTTTCCAAGTCCACGACTT
127 TGGCATCCATTTTTTTCCAAGTCCACAACTT
* * *
946396 AGTGGCATTTCTTCTCTAAGTCCATGACTCAGTGGCATCATTTTTCTTCCAA
1 AGTGGCATCTCTTCTCCAAGTCCATGACTCAGTGGCATC-TTCTTCTTCCAA
946448 GTCTGTGACT
Statistics
Matches: 178, Mismatches: 23, Indels: 17
0.82 0.11 0.08
Matches are distributed among these distances:
156 21 0.12
157 28 0.16
158 96 0.54
159 13 0.07
160 20 0.11
ACGTcount: A:0.21, C:0.29, G:0.15, T:0.35
Consensus pattern (157 bp):
AGTGGCATCTCTTCTCCAAGTCCATGACTCAGTGGCATCTTCTTCTTCCAAATCCACAACTTAGT
GGCATCCTTTCTCCTAAAGTCCACGACTTAGGAGCATCTCTTCCCCAAGTCCACGACTCAGTGGC
ATCCATTTTTTTCCAAGTCCACAACTT
Found at i:946458 original size:96 final size:95
Alignment explanation
Indices: 946046--946498 Score: 276
Period size: 95 Copynumber: 4.8 Consensus size: 95
946036 AAAAGCCCAC
* * * * * *
946046 GACTCAGTGGCATCT-TTC-CTAAAGTCCATGACTCAGTGGCAT-C-TCTTC-TCCAAGTCCATG
1 GACTCAGTAGCATCTCTTCTC-CAAGTCCACGACTCAATGGCATCCTTTTTCTTCCAAGTCCACG
* *
946106 ACTCAGTGGCATCCTTT-TTCT-TCCAAATCCAT
65 ACTTAGTGGCA--CTTTCTTCTCT-CAAGTCCAT
* * * * ** * *
946138 GACTTAGTGGCATC-CTTTCTCCTAAAGTCCACGGCTTAGGGGCAT-C-TCTTC-CCCAAGTCCA
1 GACTCAGTAGCATCTC-TTCTCC--AAGTCCACGACTCAATGGCATCCTTTTTCTTCCAAGTCCA
* * * * *
946199 TGACTCAGTGGCATCTTTTTTCTTTCAAGTCCAC
63 CGACTTAGTGGCA-CTTTCTTCTCTCAAGTCCAT
* * * * *
946233 AACTTAGTGGCATC-CTTTCTCCAAAAGTCCATGACTCAATGGCAT-C-TCTTC-TCCAAGTCCA
1 GACTCAGTAGCATCTC-TTCTCC--AAGTCCACGACTCAATGGCATCCTTTTTCTTCCAAGTCCA
* * *
946294 CAACTTAGTGGCATCTTTTTTCTTTCAAGTCCAT
63 CGACTTAGTGGCA-CTTTCTTCTCTCAAGTCCAT
* * *
946328 GACTTAGTAGCATCTCTTCTCTAAGTCCACGACTCAGTGGCATCCATTTTT-TTCCAAGTCCACG
1 GACTCAGTAGCATCTCTTCTCCAAGTCCACGACTCAATGGCATCC-TTTTTCTTCCAAGTCCACG
946392 ACTTAGTGGCA-TTTCTTCTCT-AAGTCCAT
65 ACTTAGTGGCACTTTCTTCTCTCAAGTCCAT
* * *** * *
946421 GACTCAGTGGCATCATTTTTCTTCCAAGTCTGTGACTCAATGGTATCCTTTTTCTTCCAACTCCA
1 GACTCAGTAGCATC--TCTTC-TCCAAGTCCACGACTCAATGGCATCCTTTTTCTTCCAAGTCCA
*
946486 CGACATAGTGGCA
63 CGACTTAGTGGCA
946499 ACCTTTTTCC
Statistics
Matches: 303, Mismatches: 42, Indels: 28
0.81 0.11 0.08
Matches are distributed among these distances:
92 13 0.04
93 42 0.14
94 14 0.05
95 165 0.54
96 69 0.23
ACGTcount: A:0.22, C:0.29, G:0.15, T:0.34
Consensus pattern (95 bp):
GACTCAGTAGCATCTCTTCTCCAAGTCCACGACTCAATGGCATCCTTTTTCTTCCAAGTCCACGA
CTTAGTGGCACTTTCTTCTCTCAAGTCCAT
Found at i:946944 original size:20 final size:20
Alignment explanation
Indices: 946919--946994 Score: 91
Period size: 20 Copynumber: 3.7 Consensus size: 20
946909 CACTGTTCAT
946919 GTATCGATACATTGTGAATA
1 GTATCGATACATTGTGAATA
**
946939 GTATCGATACATCACTGTTCAT-
1 GTATCGATACAT---TGTGAATA
*
946961 GTATCGATACATTATGAATA
1 GTATCGATACATTGTGAATA
946981 GTATCGATACATTG
1 GTATCGATACATTG
946995 AGCCCAACAG
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
19 4 0.09
20 25 0.54
22 12 0.26
23 5 0.11
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (20 bp):
GTATCGATACATTGTGAATA
Found at i:946965 original size:42 final size:42
Alignment explanation
Indices: 946906--946992 Score: 165
Period size: 42 Copynumber: 2.1 Consensus size: 42
946896 CATCACCATT
*
946906 CATCACTGTTCATGTATCGATACATTGTGAATAGTATCGATA
1 CATCACTGTTCATGTATCGATACATTATGAATAGTATCGATA
946948 CATCACTGTTCATGTATCGATACATTATGAATAGTATCGATA
1 CATCACTGTTCATGTATCGATACATTATGAATAGTATCGATA
946990 CAT
1 CAT
946993 TGAGCCCAAC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (42 bp):
CATCACTGTTCATGTATCGATACATTATGAATAGTATCGATA
Found at i:946967 original size:22 final size:22
Alignment explanation
Indices: 946906--946972 Score: 86
Period size: 22 Copynumber: 3.1 Consensus size: 22
946896 CATCACCATT
946906 CATCACTGTTCATGTATCGATA
1 CATCACTGTTCATGTATCGATA
**
946928 CAT---TGTGAATAGTATCGATA
1 CATCACTGTTCAT-GTATCGATA
946948 CATCACTGTTCATGTATCGATA
1 CATCACTGTTCATGTATCGATA
946970 CAT
1 CAT
946973 TATGAATAGT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
19 5 0.14
20 12 0.32
22 15 0.41
23 5 0.14
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (22 bp):
CATCACTGTTCATGTATCGATA
Found at i:947501 original size:35 final size:36
Alignment explanation
Indices: 947431--947523 Score: 117
Period size: 36 Copynumber: 2.7 Consensus size: 36
947421 CGAAGTGATT
*
947431 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAAGGA
1 GAGAGGTTCTATCTTAGCCTTTGAAAAAGACAAGGA
947467 GAGAGGTTCTATCTTAG-CTTGTG-AAAAGACAA-G-
1 GAGAGGTTCTATCTTAGCCTT-TGAAAAAGACAAGGA
*
947500 GAG-GTTTCTATCTTAGCC-TTGAAA
1 GAGAGGTTCTATCTTAGCCTTTGAAA
947524 GATAGTGTTG
Statistics
Matches: 52, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
31 2 0.04
32 15 0.29
33 4 0.08
34 1 0.02
35 11 0.21
36 19 0.37
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.30
Consensus pattern (36 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAAGACAAGGA
Found at i:947852 original size:33 final size:33
Alignment explanation
Indices: 947805--948700 Score: 516
Period size: 34 Copynumber: 28.0 Consensus size: 33
947795 TCTGTTGCGC
** * *
947805 CCTTTTATTTCCACAACTCCGTGACACATTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTT
* **** *
947838 CCCTTTAAGTCCACAACTTAAAGGCACATTTTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCAC--CTTTTT
*
947873 CCTTTTAAGTCCATAACTCCGTGGCACC-TTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTT
* * * *
947905 CCCTTTAAGTCCACAACTTCATGGTACCTTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTT
**
947938 CCTTTTAAGTCCACAACTGTGTGGCACCTTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTT
*
947971 -CTTTTAAGTCCATAACTCCGTGGCA-------
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTT
* * **
947996 CCTTTTAAGGCCATAACTTTGTGGCACCTTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTT
* * * *
948029 -CTTTCTAAAGCCCATAACTCTGTGGCA-CTCTTT
1 CCTTT-T-AAGTCCACAACTCCGTGGCACCTTTTT
*
948062 CACTTTTTAAGTCCACAACTCCATGGCACCCTTTTT
1 C-C-TTTTAAGTCCACAACTCCGTGGCA-CCTTTTT
* * *
948098 TCTTTTAAGTTCACAACTCCGTGGTA-C-----
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTT
* *
948125 CCTTTTAAGTCCACAACTCCATAGCACCTTTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACC-TTTTT
** *
948159 CCTTTTAAGTCCACCGCTCTGTGGCACCTTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTT
*
948192 -CTTTTCAAAGCCCACAACTCCGTGGCACCCTTTATT
1 CCTTTT--AAGTCCACAACTCCGTGGCA-CCTTT-TT
* *
948228 -CTTTTAAGTCCACAACTCTGTAGCA-C-----
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTT
* * *
948254 CCTTTTAAATCCGCAACTCCATGGCACCTTTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACC-TTTTT
* *
948288 CCTTTTAAGTCCACAGCTCCATGGCACCTTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTT
*
948321 -CTTTTCAAAG-CCTACAACTCCGTGACACCCTTTTT
1 CCTTTT--AAGTCC-ACAACTCCGTGGCA-CCTTTTT
948356 CCTTTTAAGTCCACAACTCCGTGGCA-C-----
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTT
* ** *
948383 ACTTTTAAGTCCACAACTCTATAGCACCTTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTT
* *
948416 -CTTTTCAAAGCCCACAACTCCGTGACA-C-----
1 CCTTTT--AAGTCCACAACTCCGTGGCACCTTTTT
948444 CCTTTTAAG-CCTACAACTCCGTGGCACCTTTTT
1 CCTTTTAAGTCC-ACAACTCCGTGGCACCTTTTT
* * **
948477 -CTTTTCAAAGCCCACAACTCCATGGCATTTTTTTT
1 CCTTTT--AAGTCCACAACTCCGTGGCA-CCTTTTT
* * ** *
948512 CTTTTTAAGTTCACAACTCAATGGCAGC----T
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTT
** *
948541 --TTTTAAGTCCACAACTTAGTGGCACCATTTTC
1 CCTTTTAAGTCCACAACTCCGTGGCACC-TTTTT
948573 CCTTTTAAGTCCACAACTCCGTGGCA-C-----
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTT
* * *
948600 CCTTTTAAGACAACAACTCCATGGCACCTTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTT
* * * *
948633 -CTTTTCAAAGCCCACAATTCCATGGCACATTTTTT
1 CCTTTT--AAGTCCACAACTCCGTGGCAC-CTTTTT
* * *
948668 CCTTTTAAGTCCACAACTTCATGGCACCCTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTT
948701 AAGTCTACAA
Statistics
Matches: 671, Mismatches: 111, Indels: 162
0.71 0.12 0.17
Matches are distributed among these distances:
26 24 0.04
27 124 0.18
28 5 0.01
29 6 0.01
32 81 0.12
33 75 0.11
34 272 0.41
35 55 0.08
36 29 0.04
ACGTcount: A:0.22, C:0.31, G:0.11, T:0.36
Consensus pattern (33 bp):
CCTTTTAAGTCCACAACTCCGTGGCACCTTTTT
Found at i:947967 original size:65 final size:65
Alignment explanation
Indices: 947805--948700 Score: 330
Period size: 61 Copynumber: 14.0 Consensus size: 65
947795 TCTGTTGCGC
** * * * * *
947805 CCTTTTATTTCCACAACTCCGTGACACATTTTTCCCTTTAAGTCCACAACTTAAAGGCACATTTT
1 CCTTTTAAGTCCACAACTCCGTGGCAC-CTTTTCCCTTTAAGTCCACAACTTCATGGCAC--CTT
947870 TTT
63 TTT
* *
947873 CCTTTTAAGTCCATAACTCCGTGGCACCTTTTCCCTTTAAGTCCACAACTTCATGGTACCTTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTCCCTTTAAGTCCACAACTTCATGGCACCTTTTT
** * * * * *
947938 CCTTTTAAGTCCACAACTGTGTGGCACCTTTTTCTTTTAAGTCCATAACTCCGTGGCA-------
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTCCCTTTAAGTCCACAACTTCATGGCACCTTTTT
* * ** * * * * * *
947996 CCTTTTAAGGCCATAACTTTGTGGCACCTTTTTCTTTCTAAAGCCCATAAC-TCTGTGGCA-CTC
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTCCCTT-T-AAGTCCACAACTTC-ATGGCACCTT
948059 TTT
63 TTT
* * * * * * *
948062 CACTTTTTAAGTCCACAACTCCATGGCACCCTTTTTTCTTTTAAGTTCACAACTCCGTGGTA-C-
1 C-C-TTTTAAGTCCACAACTCCGTGGCA-CC-TTTTCCCTTTAAGTCCACAACTTCATGGCACCT
948125 ----
62 TTTT
* * * ** *
948125 CCTTTTAAGTCCACAACTCCATAGCACCTTTTTTCCTTTTAAGTCCACCGC-TCTGTGGCACCTT
1 CCTTTTAAGTCCACAACTCCGTGGCACC--TTTTCCCTTTAAGTCCACAACTTC-ATGGCACCTT
948189 TTT
63 TTT
* * *
948192 -CTTTTCAAAGCCCACAACTCCGTGGCACCCTTTATTCTTTTAAGTCCACAAC-TC-TGTAGCA-
1 CCTTTT--AAGTCCACAACTCCGTGGCA-CCTTT-TCCCTTTAAGTCCACAACTTCATG--GCAC
948253 C-----
60 CTTTTT
* * * * * *
948254 CCTTTTAAATCCGCAACTCCATGGCACCTTTTTTCCTTTTAAGTCCACAGCTCCATGGCACCTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACC--TTTTCCCTTTAAGTCCACAACTTCATGGCACCTTT
948319 TT
64 TT
* * * *
948321 -CTTTTCAAAG-CCTACAACTCCGTGACACCCTTTTTCCTTTTAAGTCCACAACTCCGTGGCA-C
1 CCTTTT--AAGTCC-ACAACTCCGTGGCA-CC-TTTTCCCTTTAAGTCCACAACTTCATGGCACC
948383 -----
61 TTTTT
* ** * * * * * * *
948383 ACTTTTAAGTCCACAACTCTATAGCACCTTTTTCTTTTCAAAGCCCACAACTCCGTGACA-C---
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTCCCTTT--AAGTCCACAACTTCATGGCACCTTT
948444 --
64 TT
* * * * **
948444 CCTTTTAAG-CCTACAACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACAACTCCATGGCATTTT
1 CCTTTTAAGTCC-ACAACTCCGTGGCACCTTTTCCCTTT--AAGTCCACAACTTCATGGCA-CCT
948508 TTTT
62 TTTT
* * ** *
948512 CTTTTTAAGTTCACAACTCAATGGCAGC--TT---TTTAAGTCCACAACTT-AGTGGCACCATTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTCCCTTTAAGTCCACAACTTCA-TGGCACC-TTT
*
948571 TC
64 TT
* * * *
948573 CCTTTTAAGTCCACAACTCCGTGGCA-C----CCTTTTAAGACAACAACTCCATGGCACCTTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTCCCTTTAAGTCCACAACTTCATGGCACCTTTTT
* * * * * *
948633 -CTTTTCAAAGCCCACAATTCCATGGCACATTTTTTCCTTTTAAGTCCACAACTTCATGGCACCC
1 CCTTTT--AAGTCCACAACTCCGTGGCAC--CTTTTCCCTTTAAGTCCACAACTTCATGGCACCT
948697 TTTT
62 TTTT
948701 AAGTCTACAA
Statistics
Matches: 658, Mismatches: 99, Indels: 142
0.73 0.11 0.16
Matches are distributed among these distances:
58 34 0.05
59 16 0.02
60 31 0.05
61 243 0.37
62 10 0.02
63 16 0.02
65 54 0.08
66 15 0.02
67 36 0.05
68 185 0.28
69 9 0.01
70 9 0.01
ACGTcount: A:0.22, C:0.31, G:0.11, T:0.36
Consensus pattern (65 bp):
CCTTTTAAGTCCACAACTCCGTGGCACCTTTTCCCTTTAAGTCCACAACTTCATGGCACCTTTTT
Found at i:948009 original size:26 final size:26
Alignment explanation
Indices: 947971--948027 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
947961 GCACCTTTTT
*
947971 CTTTTAAGTCCATAACTCCGTGGCAC
1 CTTTTAAGGCCATAACTCCGTGGCAC
**
947997 CTTTTAAGGCCATAACTTTGTGGCAC
1 CTTTTAAGGCCATAACTCCGTGGCAC
948023 CTTTT
1 CTTTT
948028 TCTTTCTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.21, C:0.26, G:0.16, T:0.37
Consensus pattern (26 bp):
CTTTTAAGGCCATAACTCCGTGGCAC
Found at i:948096 original size:27 final size:27
Alignment explanation
Indices: 948066--948157 Score: 76
Period size: 27 Copynumber: 3.1 Consensus size: 27
948056 CTCTTTCACT
948066 TTTTAAGTCCACAACTCCATGGCACCCTTTTTTC
1 TTTTAAGTCCACAACTCCATGGCA-CC------C
* * *
948100 TTTTAAGTTCACAACTCCGTGGTACCC
1 TTTTAAGTCCACAACTCCATGGCACCC
* *
948127 TTTTAAGTCCACAACTCCATAGCACCT
1 TTTTAAGTCCACAACTCCATGGCACCC
948154 TTTT
1 TTTT
948158 TCCTTTTAAG
Statistics
Matches: 50, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
27 27 0.54
33 2 0.04
34 21 0.42
ACGTcount: A:0.23, C:0.30, G:0.10, T:0.37
Consensus pattern (27 bp):
TTTTAAGTCCACAACTCCATGGCACCC
Found at i:948258 original size:95 final size:92
Alignment explanation
Indices: 948159--948605 Score: 363
Period size: 95 Copynumber: 4.7 Consensus size: 92
948149 CACCTTTTTT
** * * *
948159 CCTTTTAAGTCCACCGCTCTGTGGCACCTTTTTCTTTTCAAAGCCCACAACTCCGTGGCACCCTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTT--AAGTCCACAACTCCATGGCA-CCTT
*
948224 TATTCTTTT-AAGTCCACAACTCTGT-AGCAC
63 T-TTCTTTTAAAGTCCACAACTCCGTGA-CAC
* * * *
948254 CCTTTTAAATCCGCAACTCCATGGCACCTTTTTTCCTTTTAAGTCCACAGCTCCATGGCACCTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACC-TTTTT-CTTTTAAGTCCACAACTCCATGGCACCTTT
948319 TTCTTTTCAAAG-CCTACAACTCCGTGACACCC
64 TTCTTTT-AAAGTCC-ACAACTCCGTGACA--C
* * *
948351 TTTTTCCTTTTAAGTCCACAACTCCGTGGCA-C----ACTTTTAAGTCCACAACTCTATAGCACC
1 -----CCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTTAAGTCCACAACTCCATGGCACC
*
948411 TTTTTCTTTTCAAAGCCCACAACTCCGTGACAC
61 TTTTTCTTTT-AAAGTCCACAACTCCGTGACAC
* **
948444 CCTTTTAAG-CCTACAACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACAACTCCATGGCATTTT
1 CCTTTTAAGTCC-ACAACTCCGTGGCACCTTTTTCTTTT--AAGTCCACAACTCCATGGCA-CCT
* * ** * *
948508 TTTTCTTTTTAAGTTCACAACTCAATGGCAG
62 TTTTCTTTTAAAGTCCACAACTCCGTGACAC
* ** * * *
948539 CTTTTTAAGTCCACAACTTAGTGGCACCATTTTCCCTTTTAAGTCCACAACTCCGTGGCACCCTT
1 CCTTTTAAGTCCACAACTCCGTGGCACC-TTTT-TCTTTTAAGTCCACAACTCCATGGCACCTTT
948604 TT
64 TT
948606 AAGACAACAA
Statistics
Matches: 287, Mismatches: 39, Indels: 53
0.76 0.10 0.14
Matches are distributed among these distances:
87 2 0.01
88 23 0.08
89 1 0.00
93 13 0.05
94 11 0.04
95 178 0.62
96 24 0.08
97 11 0.04
101 1 0.00
102 23 0.08
ACGTcount: A:0.22, C:0.32, G:0.11, T:0.34
Consensus pattern (92 bp):
CCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTTAAGTCCACAACTCCATGGCACCTTTTT
CTTTTAAAGTCCACAACTCCGTGACAC
Found at i:948431 original size:129 final size:123
Alignment explanation
Indices: 947873--948605 Score: 619
Period size: 129 Copynumber: 5.8 Consensus size: 123
947863 ACATTTTTTT
* * * * * * *
947873 CCTTTTAAGTCCATAACTCCGTGGCACCTTTTCCCTTTAAGTCCACAACTTCATGGTACCTTTTT
1 CCTTTTAAGTCCACAACTCCATGGCACCTTTTTCTTTTAAGTCCACAACTCCGTGGCACCTTTTT
** *
947938 CCTTTTAAGTCCACAACTGTGTGGCA-CCTTTTTCTTTTAAGTCCATAACTCCGTGGCA-
66 -CTTTTAAG-CCACAACTCCGTGGCACCCTTTTTCTTTTAAGTCCACAACTCCGTGGCAC
* * *** * * *
947996 CCTTTTAAGGCCATAACTTTGTGGCACCTTTTTCTTTCTAAAGCCCATAACTCTGTGGCACTCTT
1 CCTTTTAAGTCCACAACTCCATGGCACCTTTTTCTTT-T-AAGTCCACAACTCCGTGGCAC-CTT
** * * *
948061 TCACTTTTTAAGTCCACAACTCCATGGCACCCTTTTTTCTTTTAAGTTCACAACTCCGTGGTAC
63 TTTC-TTTTAAG-CCACAACTCCGTGGCACCC-TTTTTCTTTTAAGTCCACAACTCCGTGGCAC
* ** *
948125 CCTTTTAAGTCCACAACTCCATAGCACCTTTTTTCCTTTTAAGTCCACCGCTCTGTGGCACCTTT
1 CCTTTTAAGTCCACAACTCCATGGCACC-TTTTT-CTTTTAAGTCCACAACTCCGTGGCACCTTT
* *
948190 TTCTTTTCAAAGCCCACAACTCCGTGGCACCCTTTATTCTTTTAAGTCCACAACTCTGTAGCAC
64 TTCTTTT--AAG-CCACAACTCCGTGGCACCCTTT-TTCTTTTAAGTCCACAACTCCGTGGCAC
* * * *
948254 CCTTTTAAATCCGCAACTCCATGGCACCTTTTTTCCTTTTAAGTCCACAGCTCCATGGCACCTTT
1 CCTTTTAAGTCCACAACTCCATGGCACC-TTTTT-CTTTTAAGTCCACAACTCCGTGGCACCTTT
*
948319 TTCTTTTCAAAGCCTACAACTCCGTGACACCCTTTTTCCTTTTAAGTCCACAACTCCGTGGCAC
64 TTCTTTT--AAGCC-ACAACTCCGTGGCACCCTTTTT-CTTTTAAGTCCACAACTCCGTGGCAC
* * * * *
948383 ACTTTTAAGTCCACAACTCTATAGCACCTTTTTCTTTTCAAAGCCCACAACTCCGTGACACC---
1 CCTTTTAAGTCCACAACTCCATGGCACCTTTTTCTTTT--AAGTCCACAACTCCGTGGCACCTTT
* *
948445 --CTTTTAAGCCTACAACTCCGTGGCA-CCTTTTTCTTTTCAAAGCCCACAACTCCATGGCATTT
64 TTCTTTTAAGCC-ACAACTCCGTGGCACCCTTTTTCTTTT--AAGTCCACAACTCCGTGGCA---
*
948507 TTTTT
123 ----C
* * * * **
948512 CTTTTTAAGTTCACAACTCAATGGCAGC----T-TTTTAAGTCCACAACTTAGTGGCACCATTTT
1 CCTTTTAAGTCCACAACTCCATGGCACCTTTTTCTTTTAAGTCCACAACTCCGTGGCACC-TTTT
*
948572 CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
65 -TCTTTTAAG-CCACAACTCCGTGGCACCCTTTT
948606 AAGACAACAA
Statistics
Matches: 507, Mismatches: 69, Indels: 61
0.80 0.11 0.10
Matches are distributed among these distances:
120 5 0.01
121 7 0.01
122 55 0.11
123 32 0.06
124 10 0.02
125 17 0.03
126 25 0.05
127 11 0.02
128 44 0.09
129 283 0.56
130 14 0.03
131 4 0.01
ACGTcount: A:0.22, C:0.31, G:0.11, T:0.36
Consensus pattern (123 bp):
CCTTTTAAGTCCACAACTCCATGGCACCTTTTTCTTTTAAGTCCACAACTCCGTGGCACCTTTTT
CTTTTAAGCCACAACTCCGTGGCACCCTTTTTCTTTTAAGTCCACAACTCCGTGGCAC
Found at i:948459 original size:27 final size:27
Alignment explanation
Indices: 948356--948476 Score: 82
Period size: 27 Copynumber: 4.2 Consensus size: 27
948346 CACCCTTTTT
* *
948356 CCTTTTAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAGCCCACAACTCCGTGACAC
* * **
948383 ACTTTTAAGTCCACAACTCTAT-AGCAC
1 CCTTTTAAGCCCACAACTCCGTGA-CAC
948410 CTTTTTCTTTTCAAAGCCCACAACTCCGTGACAC
1 C-----CTTTT--AAGCCCACAACTCCGTGACAC
* *
948444 CCTTTTAAGCCTACAACTCCGTGGCAC
1 CCTTTTAAGCCCACAACTCCGTGACAC
*
948471 CTTTTT
1 CCTTTT
948477 CTTTTCAAAG
Statistics
Matches: 74, Mismatches: 11, Indels: 18
0.72 0.11 0.17
Matches are distributed among these distances:
27 46 0.62
29 5 0.07
32 5 0.07
34 17 0.23
35 1 0.01
ACGTcount: A:0.24, C:0.34, G:0.11, T:0.31
Consensus pattern (27 bp):
CCTTTTAAGCCCACAACTCCGTGACAC
Found at i:948469 original size:156 final size:153
Alignment explanation
Indices: 948288--948725 Score: 565
Period size: 156 Copynumber: 2.8 Consensus size: 153
948278 CACCTTTTTT
* * * * **
948288 CCTTTTAAGTCCACAGCTCCATGGCACCTTTTTCTTTTCAAAGCCTACAACTCCGTGACACCCTT
1 CCTTTTAAG-CCACAACTCCATGGCACCTTTTTCTTTTCAAAGCCCACAACTCCATGGCACATTT
* * *
948353 TTTCCTTTTAAGTCCACAACTCCGTGGCACACTTTTAAGTCCACAACTCTATAGCACCTTTT-TC
65 TTTCCTTTTAAGTCCACAACTCCATGGCAC-CTTTTAAGTCCACAACTCTATGGCACCTTTTCCC
948417 TTTTCAAAGCCCACAACTCCGTGACAC
129 TTTT--AAGCCCACAACTCCGTGACAC
* **
948444 CCTTTTAAGCCTACAACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACAACTCCATGGCATTTTT
1 CCTTTTAAGCC-ACAACTCCATGGCACCTTTTTCTTTTCAAAGCCCACAACTCCATGGCACATTT
* * * *
948509 TTTCTTTTTAAGTTCACAACTCAATGGCAGCTTTTTAAGTCCACAACT-TAGTGGCACCATTTTC
65 TTTCCTTTTAAGTCCACAACTCCATGGCA-CCTTTTAAGTCCACAACTCTA-TGGCACC-TTTTC
* *
948573 CCTTTTAAGTCCACAACTCCGTGGCAC
127 CCTTTTAAGCCCACAACTCCGTGACAC
* *
948600 CCTTTTAAGACAACAACTCCATGGCACCTTTTTCTTTTCAAAGCCCACAATTCCATGGCACATTT
1 CCTTTTAAG-CCACAACTCCATGGCACCTTTTTCTTTTCAAAGCCCACAACTCCATGGCACATTT
* * *
948665 TTTCCTTTTAAGTCCACAACTTCATGGCACCCTTTTAAGTCTACAACTCTGTGGCACCTTT
65 TTTCCTTTTAAGTCCACAACTCCATGGCA-CCTTTTAAGTCCACAACTCTATGGCACCTTT
948726 CAAAGCCCAC
Statistics
Matches: 245, Mismatches: 30, Indels: 15
0.84 0.10 0.05
Matches are distributed among these distances:
155 7 0.03
156 226 0.92
157 7 0.03
158 5 0.02
ACGTcount: A:0.24, C:0.31, G:0.11, T:0.34
Consensus pattern (153 bp):
CCTTTTAAGCCACAACTCCATGGCACCTTTTTCTTTTCAAAGCCCACAACTCCATGGCACATTTT
TTCCTTTTAAGTCCACAACTCCATGGCACCTTTTAAGTCCACAACTCTATGGCACCTTTTCCCTT
TTAAGCCCACAACTCCGTGACAC
Found at i:948571 original size:27 final size:27
Alignment explanation
Indices: 948514--948571 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
948504 TTTTTTTTCT
* * *
948514 TTTTAAGTTCACAACTCAATGGCAGCT
1 TTTTAAGTCCACAACTCAATGGCACCA
* *
948541 TTTTAAGTCCACAACTTAGTGGCACCA
1 TTTTAAGTCCACAACTCAATGGCACCA
948568 TTTT
1 TTTT
948572 CCCTTTTAAG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (27 bp):
TTTTAAGTCCACAACTCAATGGCACCA
Found at i:948615 original size:27 final size:27
Alignment explanation
Indices: 948572--948632 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
948562 GCACCATTTT
* * *
948572 CCCTTTTAAGTCCACAACTCCGTGGCA
1 CCCTTTTAAGACAACAACTCCATGGCA
948599 CCCTTTTAAGACAACAACTCCATGGCA
1 CCCTTTTAAGACAACAACTCCATGGCA
*
948626 CCTTTTT
1 CCCTTTT
948633 CTTTTCAAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.25, C:0.34, G:0.11, T:0.30
Consensus pattern (27 bp):
CCCTTTTAAGACAACAACTCCATGGCA
Found at i:948648 original size:95 final size:92
Alignment explanation
Indices: 948549--948840 Score: 279
Period size: 95 Copynumber: 3.2 Consensus size: 92
948539 CTTTTTAAGT
* *
948549 CCACAACTTAGTGGCACCATTTTCCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGACAAC
1 CCACAACTTAGTGGCACC-TTTT-CCTTTTAAGTCCACAACTTCGTGGCACCCTTTTAAGTCAAC
948614 AACTCCATGGCACCTTTTTCTTTTCAAAGC
64 AACTCCATGGCACC-TTTTCTTTTCAAAGC
* * *
948644 CCACAA-TTCCA-TGGCACATTTTTTCCTTTTAAGTCCACAACTTCATGGCACCCTTTTAAGTCT
1 CCACAACTT--AGTGGCAC--CTTTTCCTTTTAAGTCCACAACTTCGTGGCACCCTTTTAAGTCA
**
948707 ACAACTCTGTGGCA-C----C-TTTCAAAGC
62 ACAACTCCATGGCACCTTTTCTTTTCAAAGC
* * * * * * *
948732 CCACAACTTCGTGGCACC-TTT-C---AAAGCCCACAACTTTGTAGCA-CCTTGTAAGTCCACAA
1 CCACAACTTAGTGGCACCTTTTCCTTTTAAGTCCACAACTTCGTGGCACCCTTTTAAGTCAACAA
948791 CTCCATGGCACCCTTTTCTTTTCAAAGC
66 CTCCATGGCA-CCTTTTCTTTTCAAAGC
*
948819 CCACAACTTTGTGGCACCTTTT
1 CCACAACTTAGTGGCACCTTTT
948841 AAGTCTAAAA
Statistics
Matches: 164, Mismatches: 19, Indels: 35
0.75 0.09 0.16
Matches are distributed among these distances:
80 22 0.13
81 16 0.10
82 1 0.01
84 1 0.01
85 3 0.02
86 1 0.01
87 26 0.16
88 24 0.15
89 3 0.02
94 3 0.02
95 59 0.36
96 5 0.03
ACGTcount: A:0.25, C:0.33, G:0.12, T:0.31
Consensus pattern (92 bp):
CCACAACTTAGTGGCACCTTTTCCTTTTAAGTCCACAACTTCGTGGCACCCTTTTAAGTCAACAA
CTCCATGGCACCTTTTCTTTTCAAAGC
Found at i:948698 original size:27 final size:26
Alignment explanation
Indices: 948668--948866 Score: 132
Period size: 27 Copynumber: 7.2 Consensus size: 26
948658 CACATTTTTT
*
948668 CCTTTTAAGTCCACAACTTCATGGCA
1 CCTTTTAAGTCCACAACTTCGTGGCA
*
948694 CCCTTTTAAGTCTACAAC-TCTGTGGCA
1 -CCTTTTAAGTCCACAACTTC-GTGGCA
* *
948721 CCTTTCAAAGCCCACAACTTCGTGGCA
1 CCTTT-TAAGTCCACAACTTCGTGGCA
* * * *
948748 CCTTTCAAAGCCCACAACTTTGTAGCA
1 CCTTT-TAAGTCCACAACTTCGTGGCA
* * *
948775 CCTTGTAAGTCCACAACTCCATGGCA
1 CCTTTTAAGTCCACAACTTCGTGGCA
* *
948801 CCCTTTTCTTTTCAAAGCCCACAACTTTGTGGCA
1 --C----CTTTT--AAGTCCACAACTTCGTGGCA
* *
948835 CCTTTTAAGTCTAAAAC-TCTGTGGCA
1 CCTTTTAAGTCCACAACTTC-GTGGCA
948861 CCTTTT
1 CCTTTT
948867 CCTTCTAAAG
Statistics
Matches: 137, Mismatches: 23, Indels: 25
0.74 0.12 0.14
Matches are distributed among these distances:
25 1 0.01
26 42 0.31
27 65 0.47
28 8 0.06
32 5 0.04
34 16 0.12
ACGTcount: A:0.25, C:0.32, G:0.13, T:0.31
Consensus pattern (26 bp):
CCTTTTAAGTCCACAACTTCGTGGCA
Found at i:948749 original size:54 final size:53
Alignment explanation
Indices: 948668--948807 Score: 149
Period size: 54 Copynumber: 2.6 Consensus size: 53
948658 CACATTTTTT
* * * * *
948668 CCTTTTAAGTCCACAACTTCATGGCACCCTTTTAAGTCTACAACTCTGTGGCA
1 CCTTGTAAGCCCACAACTTCATGGCACCCTTTTAAGCCCACAACTCTGTAGCA
* * *
948721 CCTT-TCAAAGCCCACAACTTCGTGGCA-CCTTTCAAAGCCCACAACTTTGTAGCA
1 CCTTGT--AAGCCCACAACTTCATGGCACCCTTT-TAAGCCCACAACTCTGTAGCA
* *
948775 CCTTGTAAGTCCACAACTCCATGGCACCCTTTT
1 CCTTGTAAGCCCACAACTTCATGGCACCCTTTT
948808 CTTTTCAAAG
Statistics
Matches: 71, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
52 1 0.01
53 26 0.37
54 43 0.61
55 1 0.01
ACGTcount: A:0.25, C:0.34, G:0.13, T:0.29
Consensus pattern (53 bp):
CCTTGTAAGCCCACAACTTCATGGCACCCTTTTAAGCCCACAACTCTGTAGCA
Found at i:948844 original size:60 final size:58
Alignment explanation
Indices: 948749--948882 Score: 178
Period size: 60 Copynumber: 2.3 Consensus size: 58
948739 TTCGTGGCAC
*
948749 CTTTCAAAGCCCACAACTTTGTAGCACCTTGTAAGTCCACAACTCCATGGCACCCTTTT
1 CTTTCAAAGCCCACAACTTTGTAGCACCTTGTAAGTCCAAAACTCCATGGCA-CCTTTT
* * * **
948808 CTTTTCAAAGCCCACAACTTTGTGGCACCTTTTAAGTCTAAAACTCTGTGGCACCTTTT
1 C-TTTCAAAGCCCACAACTTTGTAGCACCTTGTAAGTCCAAAACTCCATGGCACCTTTT
*
948867 CCTTCTAAAGCCCACA
1 CTTTC-AAAGCCCACA
948883 CAAGTCGATG
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
58 3 0.05
59 18 0.27
60 45 0.68
ACGTcount: A:0.25, C:0.32, G:0.12, T:0.31
Consensus pattern (58 bp):
CTTTCAAAGCCCACAACTTTGTAGCACCTTGTAAGTCCAAAACTCCATGGCACCTTTT
Found at i:949048 original size:49 final size:48
Alignment explanation
Indices: 948995--949490 Score: 271
Period size: 52 Copynumber: 10.0 Consensus size: 48
948985 ATTAACACCG
* *
948995 TCATCTATAAGTCTAATGTCGCTGGCCTTGAATCAACACATTGGCACTG
1 TCATCT-TAAGTCCAATGTCGCTGGCCTTGAATCAACACATTGGCACTT
* * * *
949044 TCATCTTTAAGTCCAATGTTGTTGGCCTTGAATCAGCACAATGGCACCTT
1 TCATC-TTAAGTCCAATGTCGCTGGCCTTGAATCAACACATTGGCA-CTT
* * * *
949094 T-ATCTTTAAGACTAATGTCGCTGGTCTTGAATCAGCACATTGG-----
1 TCATC-TTAAGTCCAATGTCGCTGGCCTTGAATCAACACATTGGCACTT
* *
949137 -CA-C--AAG-CCAATATCGCTGGCCTTGAATCAACATATTGGCACCTT
1 TCATCTTAAGTCCAATGTCGCTGGCCTTGAATCAACACATTGGCA-CTT
* *
949181 TACCATCTTTAAGTCCAATGTCGCGGGCCTTGAATCAGCACATTGGCACATTTT
1 T--CATC-TTAAGTCCAATGTCGCTGGCCTTGAATCAACACATTGGCAC---TT
* * * * *
949235 TCGCTCTTAAATCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTT
1 TC-ATCTTAAGTCCAATGTCGCTGGCCTTGAATCAACACATTGGCAC-TT
* * * * * * *
949285 CATCATCTCTAAGTCCAATATCGCTAGCCTTGAATTAGCATATTGACATTTTT
1 --TCATCT-TAAGTCCAATGTCGCTGGCCTTGAATCAACACATTGGCA--CTT
* * * *
949338 TAACCTTCCTAAG-CCTAATGTCACTGGCCTTGAATTAACACATTGGCATTCTTT
1 T---CATCTTAAGTCC-AATGTCGCTGGCCTTGAATCAACACATTGGCA--C-TT
* * * *
949392 TCATCTTCAAGTCTAATATCGCTGG-CTGTGAATCAATACATTGGCATTTTT
1 TCATCTT-AAGTCCAATGTCGCTGGCCT-TGAATCAACACATTGGCA--CTT
* * * * *
949443 CTCATCTTTAAGCCCAATATCACTAGCCTTGAATCAACATATTGGCAC
1 -TCATC-TTAAGTCCAATGTCGCTGGCCTTGAATCAACACATTGGCAC
949491 CTTTATCACT
Statistics
Matches: 354, Mismatches: 56, Indels: 73
0.73 0.12 0.15
Matches are distributed among these distances:
38 27 0.08
39 3 0.01
42 1 0.00
43 1 0.00
47 2 0.01
48 1 0.00
49 75 0.21
50 7 0.02
51 16 0.05
52 171 0.48
53 41 0.12
54 9 0.03
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.33
Consensus pattern (48 bp):
TCATCTTAAGTCCAATGTCGCTGGCCTTGAATCAACACATTGGCACTT
Found at i:949220 original size:90 final size:87
Alignment explanation
Indices: 949066--949230 Score: 240
Period size: 90 Copynumber: 1.9 Consensus size: 87
949056 CCAATGTTGT
* * * *
949066 TGGCCTTGAATCAGCACAATGGCACCTTTATCTTTAAGACTAATGTCGCTGGTCTTGAATCAGCA
1 TGGCCTTGAATCAACACAATGGCACCTTTATCTTTAAGACCAATGTCGCGGGCCTTGAATCAGCA
949131 CATTGGCACAAGCCAATATCGC
66 CATTGGCACAAGCCAATATCGC
* * *
949153 TGGCCTTGAATCAACATATTGGCACCTTTACCATCTTTAAGTCCAATGTCGCGGGCCTTGAATCA
1 TGGCCTTGAATCAACACAATGGCACCTTT---ATCTTTAAGACCAATGTCGCGGGCCTTGAATCA
949218 GCACATTGGCACA
63 GCACATTGGCACA
949231 TTTTTCGCTC
Statistics
Matches: 68, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
87 26 0.38
90 42 0.62
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (87 bp):
TGGCCTTGAATCAACACAATGGCACCTTTATCTTTAAGACCAATGTCGCGGGCCTTGAATCAGCA
CATTGGCACAAGCCAATATCGC
Found at i:949226 original size:52 final size:52
Alignment explanation
Indices: 949143--949495 Score: 272
Period size: 52 Copynumber: 6.8 Consensus size: 52
949133 TTGGCACAAG
949143 CCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTTACCATCTTTAAGT
1 CCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTTACCATCTTTAAGT
* * * * * * *
949195 CCAATGTCGCGGGCCTTGAATCAGCACATTGGCACATTTTTCGC-TC-TTAAAT
1 CCAATATCGCTGGCCTTGAATCAACATATTGGCAC-CTTTAC-CATCTTTAAGT
* * *
949247 CCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CTTTCATCATCTCTAAGT
1 CCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTT-ACCATCTTTAAGT
* * * * ** * *
949299 CCAATATCGCTAGCCTTGAATTAGCATATTGACATTTTTTAACCTTC-CTAAG-
1 CCAATATCGCTGGCCTTGAATCAACATATTGGCA-CCTTT-ACCATCTTTAAGT
* * * * * * *
949351 CCTAATGTCACTGGCCTTGAATTAACACATTGGCATTCTTT-TCATCTTCAAGT
1 CC-AATATCGCTGGCCTTGAATCAACATATTGGCA-CCTTTACCATCTTTAAGT
* * * * * *
949404 CTAATATCGCTGG-CTGTGAATCAATACATTGGCA-TTTTTCTCATCTTTAAGC
1 CCAATATCGCTGGCCT-TGAATCAACATATTGGCACCTTTAC-CATCTTTAAGT
* *
949456 CCAATATCACTAGCCTTGAATCAACATATTGGCACCTTTA
1 CCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTTA
949496 TCACTCTTCT
Statistics
Matches: 237, Mismatches: 49, Indels: 29
0.75 0.16 0.09
Matches are distributed among these distances:
50 7 0.03
51 7 0.03
52 167 0.70
53 48 0.20
54 8 0.03
ACGTcount: A:0.26, C:0.25, G:0.14, T:0.34
Consensus pattern (52 bp):
CCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTTACCATCTTTAAGT
Found at i:949228 original size:139 final size:138
Alignment explanation
Indices: 949013--949281 Score: 364
Period size: 139 Copynumber: 1.9 Consensus size: 138
949003 AAGTCTAATG
* **
949013 TCGCTGGCCTTGAATCAACACATTGGCACTGTCATCTTTAAGTCCAATGTTGTTGGCCTTGAATC
1 TCGCTGGCCTTGAATCAACACATTGGCACTGTCATCTTTAAGTCCAATGTCGCGGGCCTTGAATC
* * * *
949078 AGCACAATGGCACCTTTAT-CT-TTAAGA-CTAATGTCGCTGGTCTTGAATCAGCACATTGGCAC
66 AGCACAATGGCACATTTATCCTCTTAA-ATCCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
949140 AAGCCAATA
130 AAGCCAATA
* *
949149 TCGCTGGCCTTGAATCAACATATTGGCACCTTTACCATCTTTAAGTCCAATGTCGCGGGCCTTGA
1 TCGCTGGCCTTGAATCAACACATTGGCA-CTGT--CATCTTTAAGTCCAATGTCGCGGGCCTTGA
* * *
949214 ATCAGCACATTGGCACATTTTTCGCTCTTAAATCCAATATCGCTGGCCTTGAATCAGCATATTGG
63 ATCAGCACAATGGCACATTTATC-CTCTTAAATCCAATATCGCTGGCCTTGAATCAGCACATTGG
949279 CAC
127 CAC
949282 TTTCATCATC
Statistics
Matches: 114, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
136 27 0.24
137 3 0.03
139 46 0.40
141 3 0.03
142 35 0.31
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (138 bp):
TCGCTGGCCTTGAATCAACACATTGGCACTGTCATCTTTAAGTCCAATGTCGCGGGCCTTGAATC
AGCACAATGGCACATTTATCCTCTTAAATCCAATATCGCTGGCCTTGAATCAGCACATTGGCACA
AGCCAATA
Found at i:949435 original size:157 final size:157
Alignment explanation
Indices: 949143--949486 Score: 369
Period size: 157 Copynumber: 2.2 Consensus size: 157
949133 TTGGCACAAG
* * * ** * * *
949143 CCAATATCGCTGGCCTTGAATCAACATATTGGCA-CCTTT-ACCATCTTTAAGTCC-AATGTCGC
1 CCAATATCACTAGCCTTGAATCAACATATTGACATTTTTTAACCTTC-CTAAG-CCTAATGTCAC
* *
949205 GGGCCTTGAATCAGCACATTGGCACATTTTTCGCTCTTAAATCCAATATCGCTGGCCTTGAATCA
64 GGGCCTTGAATCAACACATTGGCACATTTTTCGATCTTAAATCCAATATCGCTGGCCTTGAATCA
* * *
949270 GCATATTGGCA-CTTTCATCATCTCTAAGT
129 ACACATTGGCATCTTTC-TCATCTCTAAGC
* * * *
949299 CCAATATCGCTAGCCTTGAATTAGCATATTGACATTTTTTAACCTTCCTAAGCCTAATGTCACTG
1 CCAATATCACTAGCCTTGAATCAACATATTGACATTTTTTAACCTTCCTAAGCCTAATGTCACGG
* * * *
949364 GCCTTGAATTAACACATTGGCA-TTCTTTTC-ATCTTCAAGTCTAATATCGCTGG-CTGTGAATC
66 GCCTTGAATCAACACATTGGCACAT-TTTTCGATCTT-AAATCCAATATCGCTGGCCT-TGAATC
* * *
949426 AATACATTGGCATTTTTCTCATCTTTAAGC
128 AACACATTGGCATCTTTCTCATCTCTAAGC
949456 CCAATATCACTAGCCTTGAATCAACATATTG
1 CCAATATCACTAGCCTTGAATCAACATATTG
949487 GCACCTTTAT
Statistics
Matches: 156, Mismatches: 25, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
156 39 0.25
157 108 0.69
158 9 0.06
ACGTcount: A:0.26, C:0.25, G:0.14, T:0.34
Consensus pattern (157 bp):
CCAATATCACTAGCCTTGAATCAACATATTGACATTTTTTAACCTTCCTAAGCCTAATGTCACGG
GCCTTGAATCAACACATTGGCACATTTTTCGATCTTAAATCCAATATCGCTGGCCTTGAATCAAC
ACATTGGCATCTTTCTCATCTCTAAGC
Found at i:956331 original size:47 final size:47
Alignment explanation
Indices: 956177--956501 Score: 298
Period size: 47 Copynumber: 6.9 Consensus size: 47
956167 TATACCTTCA
* * * ** * **
956177 TTTAACTGCATTGGCATTGGGACCTAGTCAAAC-CTTTATTACCCAAG
1 TTTAACTGTATTGGCGTTAGGACCTAGTCAAACTCTTT-CCATCCTCG
* * * * * ** *
956224 TTTGATTGTATTGGCATTAAGACCTAGTCAAACACAAATCCATTCTCG
1 TTTAACTGTATTGGCGTTAGGACCTAGTCAAACTC-TTTCCATCCTCG
* * *
956272 TTTAACTATATTGGCATTAGGACTTAGTCAAACTCTTTCCATCCTCG
1 TTTAACTGTATTGGCGTTAGGACCTAGTCAAACTCTTTCCATCCTCG
* * * *
956319 TTTGACTGTATTGGCGTTAGGACTTAGTCAAACCCTTTCCACTCC-CA
1 TTTAACTGTATTGGCGTTAGGACCTAGTCAAACTCTTTCCA-TCCTCG
*
956366 TTTAACTGTATCGGCGTTAGGACCTAGTCAAACTCTTTCCA-CTCTCG
1 TTTAACTGTATTGGCGTTAGGACCTAGTCAAACTCTTTCCATC-CTCG
* * * *
956413 TTTAACTATATTGACGTTAGGACCTAGTCAAACTCTTTCCACCCTTG
1 TTTAACTGTATTGGCGTTAGGACCTAGTCAAACTCTTTCCATCCTCG
* * * *
956460 TTTGACTGTATTGGCGTTA-GTCCTGGTCAAACTCTTTTCATC
1 TTTAACTGTATTGGCGTTAGGACCTAGTCAAACTCTTTCCATC
956502 TTTATTCAAC
Statistics
Matches: 229, Mismatches: 43, Indels: 13
0.80 0.15 0.05
Matches are distributed among these distances:
45 1 0.00
46 20 0.09
47 170 0.74
48 37 0.16
49 1 0.00
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (47 bp):
TTTAACTGTATTGGCGTTAGGACCTAGTCAAACTCTTTCCATCCTCG
Found at i:956880 original size:84 final size:83
Alignment explanation
Indices: 956598--956931 Score: 247
Period size: 84 Copynumber: 3.9 Consensus size: 83
956588 CAGCTTGGTC
* * * * * * * * *
956598 CCCAATAAACCCCTTACCCTTTTGGTGACTTGTTAACTCAGTCTCTAGTCAATCTTCAACTTCTT
1 CCCAGTAAACCCCTTACCCTTTAGGTGACCTATTAGCTCAGTCTCCAGTCAACCTTCATC-CCTT
* **
956663 ATTTACCTGTCTACTCAAT
65 GTTTACCTGTCGGCTCAAT
* * * * * *
956682 CCCCAGTAAATCCCTTATCCTCTTAGGTAACCTA-TCGACTCAGTCTCCAATCAACCCTTCATTC
1 -CCCAGTAAACCCCTTACCCT-TTAGGTGACCTATTAG-CTCAGTCTCCAGTCAA-CCTTCATCC
*
956746 CTTGTTTACCTGTCGGCTTAAT
62 CTTGTTTACCTGTCGGCTCAAT
* * ***
956768 CCCTAGTAAACCCTTTACACAAAAGGTGACCTATTAGCTCAGTCTCCAGTCAACCTTCATCCCTT
1 CCC-AGTAAACCCCTTACCCTTTAGGTGACCTATTAGCTCAGTCTCCAGTCAACCTTCATCCCTT
* *
956833 GTTTACCTCTCGGCTCGAT
65 GTTTACCTGTCGGCTCAAT
* * * * * * * * * * *
956852 CCTCGGTAAACCCCTTACCCTTTTGGTGACATGTCAACTTATTCACCAGTCAACCTCCATCTCAT
1 CC-CAGTAAACCCCTTACCCTTTAGGTGACCTATTAGCTCAGTCTCCAGTCAACCTTCATC-CCT
*
956917 TGTTTACCCGTCGGC
64 TGTTTACCTGTCGGC
956932 CCAGTCTCGG
Statistics
Matches: 191, Mismatches: 51, Indels: 14
0.75 0.20 0.05
Matches are distributed among these distances:
84 71 0.37
85 61 0.32
86 54 0.28
87 5 0.03
ACGTcount: A:0.22, C:0.33, G:0.11, T:0.33
Consensus pattern (83 bp):
CCCAGTAAACCCCTTACCCTTTAGGTGACCTATTAGCTCAGTCTCCAGTCAACCTTCATCCCTTG
TTTACCTGTCGGCTCAAT
Found at i:957761 original size:34 final size:34
Alignment explanation
Indices: 957716--957795 Score: 151
Period size: 34 Copynumber: 2.4 Consensus size: 34
957706 ATATGTGCTT
*
957716 TTGAATCTATTTTGCATAACTTTGAATGAAATCC
1 TTGAATTTATTTTGCATAACTTTGAATGAAATCC
957750 TTGAATTTATTTTGCATAACTTTGAATGAAATCC
1 TTGAATTTATTTTGCATAACTTTGAATGAAATCC
957784 TTGAATTTATTT
1 TTGAATTTATTT
957796 CGGTAACAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 45 1.00
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.46
Consensus pattern (34 bp):
TTGAATTTATTTTGCATAACTTTGAATGAAATCC
Found at i:959190 original size:13 final size:12
Alignment explanation
Indices: 959172--959235 Score: 67
Period size: 13 Copynumber: 5.2 Consensus size: 12
959162 AGATTAGCTG
959172 AAAAAAGAAAAGA
1 AAAAAAG-AAAGA
*
959185 AAAAAAGAGAGA
1 AAAAAAGAAAGA
959197 AAGAAAAGAAAGA
1 AA-AAAAGAAAGA
*
959210 AAAAGAGAAA-A
1 AAAAAAGAAAGA
* *
959221 AAAATAGAGAGA
1 AAAAAAGAAAGA
959233 AAA
1 AAA
959236 TTGGAAATAT
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
11 9 0.20
12 17 0.39
13 18 0.41
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (12 bp):
AAAAAAGAAAGA
Found at i:959192 original size:8 final size:8
Alignment explanation
Indices: 959179--959223 Score: 54
Period size: 8 Copynumber: 5.5 Consensus size: 8
959169 CTGAAAAAAG
959179 AAAAGAAA
1 AAAAGAAA
*
959187 AAAAGAGA
1 AAAAGAAA
*
959195 GAAAGAAA
1 AAAAGAAA
959203 AGAAAGAAA
1 A-AAAGAAA
*
959212 AAGAGAAA
1 AAAAGAAA
959220 AAAA
1 AAAA
959224 ATAGAGAGAA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
8 22 0.73
9 8 0.27
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (8 bp):
AAAAGAAA
Found at i:959201 original size:21 final size:21
Alignment explanation
Indices: 959175--959224 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
959165 TTAGCTGAAA
959175 AAAGAAAAGAAA-AAAAGAGAG
1 AAAGAAAAGAAAGAAAA-AGAG
959196 AAAGAAAAGAAAGAAAAAGAG
1 AAAGAAAAGAAAGAAAAAGAG
*
959217 AAAAAAAA
1 AAAGAAAA
959225 TAGAGAGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (21 bp):
AAAGAAAAGAAAGAAAAAGAG
Found at i:960315 original size:3 final size:3
Alignment explanation
Indices: 960307--960347 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
960297 AAATTAAATA
960307 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
960348 ATGAATGATG
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:961669 original size:13 final size:13
Alignment explanation
Indices: 961651--961676 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
961641 CACACCCAGA
961651 TGTATCGATACAT
1 TGTATCGATACAT
961664 TGTATCGATACAT
1 TGTATCGATACAT
961677 GTTCATTATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:961713 original size:20 final size:19
Alignment explanation
Indices: 961660--961716 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
961650 ATGTATCGAT
*
961660 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGG
* * *
961679 TCATTATATCTATACATGG
1 ACATTGTATCGATACATGG
961698 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
961717 AAACTTACAG
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:964022 original size:13 final size:13
Alignment explanation
Indices: 963999--964040 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
963989 GAAACTATTC
*
963999 ACAACGTATCGAT
1 ACAATGTATCGAT
*
964012 ACACTGTATCGAT
1 ACAATGTATCGAT
*
964025 ATAATGTATCGAT
1 ACAATGTATCGAT
964038 ACA
1 ACA
964041 TGAACAGTGA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.29
Consensus pattern (13 bp):
ACAATGTATCGAT
Found at i:964067 original size:24 final size:24
Alignment explanation
Indices: 964035--964106 Score: 99
Period size: 24 Copynumber: 3.0 Consensus size: 24
964025 ATAATGTATC
*
964035 GATACATGAACAGTGATGAATAGT
1 GATACATGAACAGTGATGAACAGT
*
964059 GATACATGAACACTGATGAACAGT
1 GATACATGAACAGTGATGAACAGT
** *
964083 GATATGTGAACAGTCATGAACAGT
1 GATACATGAACAGTGATGAACAGT
964107 AATGTATCAA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.40, C:0.12, G:0.24, T:0.24
Consensus pattern (24 bp):
GATACATGAACAGTGATGAACAGT
Found at i:964231 original size:33 final size:32
Alignment explanation
Indices: 964168--964232 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
964158 ACAATTCATG
*
964168 ATGTATCGACACCAAGAACATTTATCGATACA
1 ATGTATCGACACCAAGAACATGTATCGATACA
* * *
964200 ATGTATCGATACTAAGCAATATGTATCGATACA
1 ATGTATCGACACCAAG-AACATGTATCGATACA
964233 TCTAGGTGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 14 0.50
33 14 0.50
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28
Consensus pattern (32 bp):
ATGTATCGACACCAAGAACATGTATCGATACA
Found at i:970566 original size:30 final size:30
Alignment explanation
Indices: 970520--970581 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
970510 GTATTGACAT
* *
970520 GTCATGCAATGCCGGGATTCCCATTTCTCG
1 GTCACGCAATGCCGGGATTCCCATTTATCG
*
970550 GTCACGCAATGTCGGGATTCCCATTTATCG
1 GTCACGCAATGCCGGGATTCCCATTTATCG
970580 GT
1 GT
970582 TCTAAAACCA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.18, C:0.27, G:0.24, T:0.31
Consensus pattern (30 bp):
GTCACGCAATGCCGGGATTCCCATTTATCG
Found at i:971901 original size:20 final size:20
Alignment explanation
Indices: 971876--971939 Score: 79
Period size: 20 Copynumber: 3.5 Consensus size: 20
971866 CTACCACTGT
971876 TTGTATCGATACATGGCACA
1 TTGTATCGATACATGGCACA
971896 TTGTATCGAT--A---CA-A
1 TTGTATCGATACATGGCACA
971910 -TGTATCGATACATGGCACA
1 TTGTATCGATACATGGCACA
971929 TTGTATCGATA
1 TTGTATCGATA
971940 GAATGTATCG
Statistics
Matches: 37, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 9 0.24
14 1 0.03
15 3 0.08
18 3 0.08
19 1 0.03
20 20 0.54
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (20 bp):
TTGTATCGATACATGGCACA
Found at i:971914 original size:33 final size:33
Alignment explanation
Indices: 971877--971956 Score: 151
Period size: 33 Copynumber: 2.4 Consensus size: 33
971867 TACCACTGTT
971877 TGTATCGATACATGGCACATTGTATCGATACAA
1 TGTATCGATACATGGCACATTGTATCGATACAA
*
971910 TGTATCGATACATGGCACATTGTATCGATAGAA
1 TGTATCGATACATGGCACATTGTATCGATACAA
971943 TGTATCGATACATG
1 TGTATCGATACATG
971957 ATAAATTATA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (33 bp):
TGTATCGATACATGGCACATTGTATCGATACAA
Found at i:971915 original size:13 final size:13
Alignment explanation
Indices: 971897--971921 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
971887 CATGGCACAT
971897 TGTATCGATACAA
1 TGTATCGATACAA
971910 TGTATCGATACA
1 TGTATCGATACA
971922 TGGCACATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:974859 original size:12 final size:13
Alignment explanation
Indices: 974836--974869 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
974826 GTTGATTAAC
974836 ATAAACATAGTAT
1 ATAAACATAGTAT
*
974849 CTAAA-ATAGTAT
1 ATAAACATAGTAT
974861 ATAAACATA
1 ATAAACATA
974870 CTGCAAAGAC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.56, C:0.09, G:0.06, T:0.29
Consensus pattern (13 bp):
ATAAACATAGTAT
Found at i:978468 original size:81 final size:81
Alignment explanation
Indices: 978383--978565 Score: 233
Period size: 81 Copynumber: 2.2 Consensus size: 81
978373 TCAAAAATGG
* ** * *
978383 TGGGGTTGGAGTATCCTTTGAGATGAA-AATTTTGATGTTTTGGAAAATAAAAACAGGGTTGGAG
1 TGGGGTTGGAGTATCCTTTGAGATGAAGAAATTCAATGTTTTAG-AAATAAAAACAGGGTTGGAA
978447 TATCCCCTTGGAATTGA
65 TATCCCCTTGGAATTGA
* * * **
978464 TGGGGTTGGAGTATCCCTAGAGATGAAGAAATTCAATGTTTTAGAAGTAAAAATGGGGTTGGAAT
1 TGGGGTTGGAGTATCCTTTGAGATGAAGAAATTCAATGTTTTAGAAATAAAAACAGGGTTGGAAT
**
978529 ATCCTTTTGGAATTGA
66 ATCCCCTTGGAATTGA
978545 TGGGGTTGGAGTATCCCTTTG
1 TGGGGTTGGAGTAT-CCTTTG
978566 GAATTGATGG
Statistics
Matches: 86, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 70 0.81
82 16 0.19
ACGTcount: A:0.28, C:0.09, G:0.30, T:0.33
Consensus pattern (81 bp):
TGGGGTTGGAGTATCCTTTGAGATGAAGAAATTCAATGTTTTAGAAATAAAAACAGGGTTGGAAT
ATCCCCTTGGAATTGA
Found at i:978559 original size:28 final size:28
Alignment explanation
Indices: 978516--978617 Score: 123
Period size: 28 Copynumber: 3.6 Consensus size: 28
978506 AGAAGTAAAA
* *
978516 ATGGGGTTGGAATATCCTTTTGGAATTG
1 ATGGGGTTGGAGTATCCCTTTGGAATTG
978544 ATGGGGTTGGAGTATCCCTTTGGAATTG
1 ATGGGGTTGGAGTATCCCTTTGGAATTG
* * * * *
978572 ATGGGATTGGAGTATCCCCTCGAAAATG
1 ATGGGGTTGGAGTATCCCTTTGGAATTG
* *
978600 GTGGGGTTGGACTATCCC
1 ATGGGGTTGGAGTATCCC
978618 CTCAGATGAA
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 64 1.00
ACGTcount: A:0.21, C:0.14, G:0.33, T:0.32
Consensus pattern (28 bp):
ATGGGGTTGGAGTATCCCTTTGGAATTG
Found at i:978625 original size:137 final size:137
Alignment explanation
Indices: 978441--978698 Score: 313
Period size: 137 Copynumber: 1.9 Consensus size: 137
978431 AAAAACAGGG
* * * * *
978441 TTGGAGTATCCCCTTGGAATTGATGGGGTTGGAGTATCCCTAGAGATGAAGAAATTCAATGTTTT
1 TTGGAGTATCCCCTCGAAAATGATGGGGTTGGACTATCCCTACAGATGAA-AAATTCAATGTTTT
* * * ** * * *
978506 AG-AAGTAAAAATGGGGTTGGAATATCCTTTTGGAATTGATGGGGTTGGAGTATCCCTTTGGAAT
65 AGAAAATAAAAATAGGGTTAGAATATCCACTTAGAAATGATGGGGTTCGAGTATCCCTTTGGAAT
978570 TGATGGGA
130 TGATGGGA
* * **
978578 TTGGAGTATCCCCTCGAAAATGGTGGGGTTGGACTATCCCCT-CAGATGAAAATTTTGATGTTTT
1 TTGGAGTATCCCCTCGAAAATGATGGGGTTGGACTAT-CCCTACAGATGAAAAATTCAATGTTTT
* *
978642 GGAAAATAAAAATAGGGTTAGAGTATCCACTTAGAAATGATGGGGTTCGAGTATCCC
65 AGAAAATAAAAATAGGGTTAGAATATCCACTTAGAAATGATGGGGTTCGAGTATCCC
978699 AAGAGATAAA
Statistics
Matches: 100, Mismatches: 19, Indels: 4
0.81 0.15 0.03
Matches are distributed among these distances:
136 12 0.12
137 84 0.84
138 4 0.04
ACGTcount: A:0.28, C:0.12, G:0.28, T:0.31
Consensus pattern (137 bp):
TTGGAGTATCCCCTCGAAAATGATGGGGTTGGACTATCCCTACAGATGAAAAATTCAATGTTTTA
GAAAATAAAAATAGGGTTAGAATATCCACTTAGAAATGATGGGGTTCGAGTATCCCTTTGGAATT
GATGGGA
Found at i:978762 original size:218 final size:218
Alignment explanation
Indices: 978365--978779 Score: 623
Period size: 218 Copynumber: 1.9 Consensus size: 218
978355 TCGGGGCTGG
* ** *
978365 GTATCCCCTCAAAAATGGTGGGGTTGGAGTATCCTTTGAGATGAAAATTTTGATGTTTTGGAAAA
1 GTATCCCCTCAAAAATGGTGGGGTTGGACTATCCCCTCAGATGAAAATTTTGATGTTTTGGAAAA
* * * * * * *
978430 TAAAAACAGGGTTGGAGTATCCCCTTGGAATTGATGGGGTTGGAGTATCCCTAGAGATGAAGAAA
66 TAAAAACAGGGTTAGAGTATCCACTTAGAAATGATGGGGTTCGAGTATCCCAAGAGATAAAGAAA
* * ** ** ** *
978495 TTCAATGTTTTAGAAGTAAAAATGGGGTTGGAATATCCTTTTGGAATTGATGGGGTTGGAGTATC
131 TTCAATGTTTTAGAAGTAAAAACGGGATTGGAATATCCCCTCAGAATTGATAAGGTTGGAGAATC
978560 CCTTTGGAATTGATGGGATTGGA
196 CCTTTGGAATTGATGGGATTGGA
*
978583 GTATCCCCTCGAAAATGGTGGGGTTGGACTATCCCCTCAGATGAAAATTTTGATGTTTTGGAAAA
1 GTATCCCCTCAAAAATGGTGGGGTTGGACTATCCCCTCAGATGAAAATTTTGATGTTTTGGAAAA
*
978648 TAAAAATAGGGTTAGAGTATCCACTTAGAAATGATGGGGTTCGAGTATCCCAAGAGATAAAGAAA
66 TAAAAACAGGGTTAGAGTATCCACTTAGAAATGATGGGGTTCGAGTATCCCAAGAGATAAAGAAA
*
978713 TTTAATGTTTTAGAAGTAAAAACGGGATTGGAATATCCCCTCAGAATTGATAAGGTTGGAGAATC
131 TTCAATGTTTTAGAAGTAAAAACGGGATTGGAATATCCCCTCAGAATTGATAAGGTTGGAGAATC
978778 CC
196 CC
978780 CTCAAAAATG
Statistics
Matches: 174, Mismatches: 23, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
218 174 1.00
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.30
Consensus pattern (218 bp):
GTATCCCCTCAAAAATGGTGGGGTTGGACTATCCCCTCAGATGAAAATTTTGATGTTTTGGAAAA
TAAAAACAGGGTTAGAGTATCCACTTAGAAATGATGGGGTTCGAGTATCCCAAGAGATAAAGAAA
TTCAATGTTTTAGAAGTAAAAACGGGATTGGAATATCCCCTCAGAATTGATAAGGTTGGAGAATC
CCTTTGGAATTGATGGGATTGGA
Found at i:978817 original size:190 final size:188
Alignment explanation
Indices: 978578--979114 Score: 698
Period size: 190 Copynumber: 2.8 Consensus size: 188
978568 ATTGATGGGA
* * * *
978578 TTGGAGTATCCCCTCGAAAATGGTGGGGTTGGACTATCCCCTCAGATGAAAATTTTGATGTTTTG
1 TTGGAGTATCCCCTCAAAAATGGTGGGGTTGGAGTATCCCCTAAGATGAAAATTTTAATGTTTTG
978643 GAAAATAAAAATAGGGTTAGAGTATCCACTTAGAAATGATGGGGTTCGAGTATCCCAAGAGATAA
66 GAAAATAAAAATAGGGTTAGAGTATCC-CTTAGAAATGATGGGGTT-GAGTATCCCAAGAGATAA
* *
978708 AGAAATTTAATGTTTTAGAAGTAAAAACGGGATTGGAATATCCCCTCAGAATTGATAAGG
129 AGAAATTCAATGTTTTAGAAGTAAAAACGGGATTAGAATATCCCCTCAGAATTGATAAGG
* *
978768 TTGGAGAATCCCCTCAAAAATGGTGGGGTTGGAGTATCCCCTAAGATGAAAATTTTAATATTTTG
1 TTGGAGTATCCCCTCAAAAATGGTGGGGTTGGAGTATCCCCTAAGATGAAAATTTTAATGTTTTG
* ** ** * * *
978833 GAAAATAAAAATGGGGTTAGAGTATCTCCTCGGAAACAATAGGGTTGGAGTATCCCCAGAGATGA
66 GAAAATAAAAATAGGGTTAGAGTATC-CCTTAGAAATGATGGGGTT-GAGTATCCCAAGAGATAA
* * * * * * **
978898 AGAAGTTCAATATTTTAGAAGTAAAAACGGGGTTAGAGTATCCTCTCGGAATTGATGGGG
129 AGAAATTCAATGTTTTAGAAGTAAAAACGGGATTAGAATATCCCCTCAGAATTGATAAGG
* * * *
978958 TTGGAGTATCCCCTTAGAAATGGTGGGGTTGGAGTATCCCCTGAGATGAAAACTTTAATGTTTTG
1 TTGGAGTATCCCCTCAAAAATGGTGGGGTTGGAGTATCCCCTAAGATGAAAATTTTAATGTTTTG
* * * * *
979023 GAAAATATAAACAGGATTAGAGTATCCCTTCAAAAATGTTGGGGTTGAAGTATCCCTAA-AGATA
66 GAAAATAAAAATAGGGTTAGAGTATCCCTT-AGAAATGATGGGGTTG-AGTATCCC-AAGAGATA
*
979087 AAGAAATTCAATGTTGTAGAAGTAAAAA
128 AAGAAATTCAATGTTTTAGAAGTAAAAA
979115 TGAGGTATCC
Statistics
Matches: 296, Mismatches: 47, Indels: 8
0.84 0.13 0.02
Matches are distributed among these distances:
189 4 0.01
190 290 0.98
191 2 0.01
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.28
Consensus pattern (188 bp):
TTGGAGTATCCCCTCAAAAATGGTGGGGTTGGAGTATCCCCTAAGATGAAAATTTTAATGTTTTG
GAAAATAAAAATAGGGTTAGAGTATCCCTTAGAAATGATGGGGTTGAGTATCCCAAGAGATAAAG
AAATTCAATGTTTTAGAAGTAAAAACGGGATTAGAATATCCCCTCAGAATTGATAAGG
Found at i:978930 original size:81 final size:81
Alignment explanation
Indices: 978793--978971 Score: 229
Period size: 81 Copynumber: 2.2 Consensus size: 81
978783 AAAAATGGTG
* * * *
978793 GGGTTGGAGTATCCCCTAAGATGAAAATTTTAATATTTTGGAAAATAAAAATGGGGTTAGAGTAT
1 GGGTTGGAGTATCCCCTAAGATGAAAAGTTCAATATTTTAGAAAATAAAAACGGGGTTAGAGTAT
978858 -CTCCTCGGAAACAATA
66 CCT-CTCGGAAACAATA
*
978874 GGGTTGGAGTATCCCC-AGAGATGAAGAAGTTCAATATTTTAG-AAGTAAAAACGGGGTTAGAGT
1 GGGTTGGAGTATCCCCTA-AGATGAA-AAGTTCAATATTTTAGAAAATAAAAACGGGGTTAGAGT
*** *
978937 ATCCTCTCGGAATTGATG
64 ATCCTCTCGGAAACAATA
978955 GGGTTGGAGTATCCCCT
1 GGGTTGGAGTATCCCCT
978972 TAGAAATGGT
Statistics
Matches: 85, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
80 1 0.01
81 69 0.81
82 15 0.18
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.28
Consensus pattern (81 bp):
GGGTTGGAGTATCCCCTAAGATGAAAAGTTCAATATTTTAGAAAATAAAAACGGGGTTAGAGTAT
CCTCTCGGAAACAATA
Found at i:978966 original size:28 final size:28
Alignment explanation
Indices: 978926--978999 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 28
978916 AAGTAAAAAC
* * * *
978926 GGGGTTAGAGTATCCTCTCGGAATTGAT
1 GGGGTTGGAGTATCCCCTCAGAAATGAT
* *
978954 GGGGTTGGAGTATCCCCTTAGAAATGGT
1 GGGGTTGGAGTATCCCCTCAGAAATGAT
978982 GGGGTTGGAGTATCCCCT
1 GGGGTTGGAGTATCCCCT
979000 GAGATGAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.19, C:0.16, G:0.35, T:0.30
Consensus pattern (28 bp):
GGGGTTGGAGTATCCCCTCAGAAATGAT
Found at i:979066 original size:109 final size:109
Alignment explanation
Indices: 978874--979078 Score: 252
Period size: 109 Copynumber: 1.9 Consensus size: 109
978864 GGAAACAATA
* * * *
978874 GGGTTGGAGTATCCCCAGAGATGAAGAAGTTCAATATTTTAGAAGTAAAAACGGGGTTAGAGTAT
1 GGGTTGGAGTATCCCCAGAGATGAAGAACTTCAATATTTTAGAAATAAAAACAGGATTAGAGTAT
** * *
978939 CCTCTCGGAATTGATGGGGTTGGAGTATCCCCTTAGAAATGGTG
66 CCTCTCAAAAATGATGGGGTTGAAGTATCCCCTTAGAAATGGTG
* * * * *
978983 GGGTTGGAGTATCCCCTGAGATGAA-AACTTTAATGTTTTGGAAAATATAAACAGGATTAGAGTA
1 GGGTTGGAGTATCCCCAGAGATGAAGAACTTCAATATTTTAG-AAATAAAAACAGGATTAGAGTA
*
979047 TCC-CTTCAAAAATGTTGGGGTTGAAGTATCCC
65 TCCTC-TCAAAAATGATGGGGTTGAAGTATCCC
979079 TAAAGATAAA
Statistics
Matches: 80, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
108 13 0.16
109 67 0.84
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (109 bp):
GGGTTGGAGTATCCCCAGAGATGAAGAACTTCAATATTTTAGAAATAAAAACAGGATTAGAGTAT
CCTCTCAAAAATGATGGGGTTGAAGTATCCCCTTAGAAATGGTG
Found at i:986857 original size:16 final size:16
Alignment explanation
Indices: 986838--986894 Score: 60
Period size: 16 Copynumber: 3.6 Consensus size: 16
986828 TGGGTTTAAG
*
986838 TCATTTCGGGTTCGGA
1 TCATTTCGGGTTCAGA
* *
986854 TCATTGCGAGTTCAGA
1 TCATTTCGGGTTCAGA
** *
986870 TTGTTTCGGGTTCAGC
1 TCATTTCGGGTTCAGA
986886 TCATTTCGG
1 TCATTTCGG
986895 ATTTAGGTCA
Statistics
Matches: 31, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.14, C:0.19, G:0.28, T:0.39
Consensus pattern (16 bp):
TCATTTCGGGTTCAGA
Found at i:987785 original size:16 final size:16
Alignment explanation
Indices: 987760--987806 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
987750 ATTTCGAATT
*
987760 AAGTTTGAATTATTTC
1 AAGTTCGAATTATTTC
* *
987776 GAGTTCGAATTATTTT
1 AAGTTCGAATTATTTC
*
987792 AAGTTCAAATTATTT
1 AAGTTCGAATTATTT
987807 TTGAATTTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.32, C:0.06, G:0.13, T:0.49
Consensus pattern (16 bp):
AAGTTCGAATTATTTC
Found at i:987865 original size:5 final size:5
Alignment explanation
Indices: 987855--987926 Score: 55
Period size: 5 Copynumber: 14.6 Consensus size: 5
987845 TTATCAGCTC
**
987855 AAATT AAATT AAATTT AAATTT AAATT -AATT -AATT AAATT -TTTT AAATTT
1 AAATT AAATT AAA-TT AAA-TT AAATT AAATT AAATT AAATT AAATT AAA-TT
987905 AAATTT AAATT AAA-- AAATT AAA
1 AAA-TT AAATT AAATT AAATT AAA
987927 CAACAAATAA
Statistics
Matches: 57, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
3 3 0.05
4 10 0.18
5 22 0.39
6 22 0.39
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (5 bp):
AAATT
Found at i:987874 original size:6 final size:6
Alignment explanation
Indices: 987858--987915 Score: 54
Period size: 6 Copynumber: 10.2 Consensus size: 6
987848 TCAGCTCAAA
*
987858 TTAAA- TTAAAT TTAAAT TTAAA- TTAATTAA TTAAAT TT---T TTAAAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAA--AT TTAAAT TTAAAT TTAAAT
987903 TTAAAT TTAAAT T
1 TTAAAT TTAAAT T
987916 AAAAAATTAA
Statistics
Matches: 45, Mismatches: 1, Indels: 13
0.76 0.02 0.22
Matches are distributed among these distances:
3 3 0.07
5 9 0.20
6 28 0.62
7 1 0.02
8 4 0.09
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TTAAAT
Found at i:988373 original size:16 final size:16
Alignment explanation
Indices: 988354--988386 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
988344 ATTAAAATAA
988354 AAATAATTAATTAAAT
1 AAATAATTAATTAAAT
*
988370 AAATAATTAATTTAAT
1 AAATAATTAATTAAAT
988386 A
1 A
988387 GTAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AAATAATTAATTAAAT
Found at i:989225 original size:20 final size:20
Alignment explanation
Indices: 989193--989231 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
989183 TTATTCATTT
*
989193 TAAATATTAATTATGTATTA
1 TAAATATTAATTATATATTA
989213 TAAATA-TATATTATATATT
1 TAAATATTA-ATTATATATT
989232 TTAATACGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (20 bp):
TAAATATTAATTATATATTA
Found at i:989571 original size:22 final size:22
Alignment explanation
Indices: 989545--989588 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
989535 AATTTTTAAC
989545 CCCATTTTGGCATGAACTGTCA
1 CCCATTTTGGCATGAACTGTCA
989567 CCCATTTTGGCATGAACTGTCA
1 CCCATTTTGGCATGAACTGTCA
989589 TTTTCTATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.23, C:0.27, G:0.18, T:0.32
Consensus pattern (22 bp):
CCCATTTTGGCATGAACTGTCA
Found at i:990656 original size:21 final size:24
Alignment explanation
Indices: 990616--990660 Score: 69
Period size: 21 Copynumber: 2.0 Consensus size: 24
990606 AAATTTTAAA
990616 TTTTAATATTTATAATTTTTTTAT
1 TTTTAATATTTATAATTTTTTTAT
990640 TTTTAA-A-TTAT-ATTTTTTTAT
1 TTTTAATATTTATAATTTTTTTAT
990661 ATAAAAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 10 0.48
22 4 0.19
23 1 0.05
24 6 0.29
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (24 bp):
TTTTAATATTTATAATTTTTTTAT
Found at i:991674 original size:75 final size:75
Alignment explanation
Indices: 991551--991705 Score: 276
Period size: 75 Copynumber: 2.1 Consensus size: 75
991541 GAGAAGAGAT
*
991551 TATTTTGTGCATGTTCCCCAAGTTTGATTACATATAGGTCATAGCCTTTT-CGTCTCAGCACTAT
1 TATTTTGTGCATGTTCCCCAAGTTTGATTACATATAGGTCATAGCCTTTTCCG-CTCAGCACAAT
991615 CACTTGAAAAA
65 CACTTGAAAAA
*
991626 TATTTTGTGCATGTTCCCCAAGTTTGATTACATATAGGTCATAGCCTTTTCCGGTCAGCACAATC
1 TATTTTGTGCATGTTCCCCAAGTTTGATTACATATAGGTCATAGCCTTTTCCGCTCAGCACAATC
991691 ACTTGAAAAA
66 ACTTGAAAAA
991701 TATTT
1 TATTT
991706 ATTCATAATT
Statistics
Matches: 77, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
75 75 0.97
76 2 0.03
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.37
Consensus pattern (75 bp):
TATTTTGTGCATGTTCCCCAAGTTTGATTACATATAGGTCATAGCCTTTTCCGCTCAGCACAATC
ACTTGAAAAA
Found at i:991922 original size:5 final size:5
Alignment explanation
Indices: 991834--991924 Score: 52
Period size: 5 Copynumber: 19.2 Consensus size: 5
991824 ATAAATATGA
* * * *
991834 TATAT T-TAT TATA- TATTT TATTT TA-AT TATAT T-TAAA TATAT CATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TAT-AT TATAT TATAT
* * *
991881 CATAT T-TAT TATTT TATGTT TATAT T-TAT TA-AT TATAT TATAT T
1 TATAT TATAT TATAT TAT-AT TATAT TATAT TATAT TATAT TATAT T
991925 TCGGTATAAC
Statistics
Matches: 69, Mismatches: 8, Indels: 18
0.73 0.08 0.19
Matches are distributed among these distances:
4 23 0.33
5 40 0.58
6 6 0.09
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.62
Consensus pattern (5 bp):
TATAT
Done.