Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 112 of 290
Found at i:38148391 original size:109 final size:110
Alignment explanation
Indices: 38148267--38148517 Score: 357
Period size: 109 Copynumber: 2.3 Consensus size: 110
38148257 ATTTCTATGA
*
38148267 ATTTGTTGAGTTTATTTATTTCAAAATTTATTACATTAGTGTAGATTTGAATTCTTAGATTTTGG
1 ATTTGTTGAGTTTATTTATTTCAAAATTTATTACATTAGTGTAGATTCGAATTCTTAGATTTT-G
*
38148332 T-GATTAGTAGATATACCATTAAAGGTTTTAAAATTTTAATTTG-G
65 TAGATTACTAGATATACCATTAAAGGTTTTAAAATTTTAATTTGAG
* * *
38148376 ATTTGTTGAGTTTATTTATTTCAAAATTTTTTACATTAGTTTAGATTCGAATTCTTAGATTTTTT
1 ATTTGTTGAGTTTATTTATTTCAAAATTTATTACATTAGTGTAGATTCGAATTCTTAGATTTTGT
* * * *
38148441 AGATTACTAGATGTACCATTAAAGGTTTTAAATTTTTATTTTGAAT
66 AGATTACTAGATATACCATTAAAGGTTTTAAAATTTTAATTTG-AG
*
38148487 ATTTCTTTGAGTTTATTT-TTT-AAAATTTATT
1 ATTT-GTTGAGTTTATTTATTTCAAAATTTATT
38148518 TTCAACATAA
Statistics
Matches: 127, Mismatches: 11, Indels: 7
0.88 0.08 0.05
Matches are distributed among these distances:
108 1 0.01
109 98 0.77
110 9 0.07
111 7 0.06
112 12 0.09
ACGTcount: A:0.30, C:0.05, G:0.13, T:0.52
Consensus pattern (110 bp):
ATTTGTTGAGTTTATTTATTTCAAAATTTATTACATTAGTGTAGATTCGAATTCTTAGATTTTGT
AGATTACTAGATATACCATTAAAGGTTTTAAAATTTTAATTTGAG
Found at i:38152745 original size:48 final size:48
Alignment explanation
Indices: 38152672--38152902 Score: 181
Period size: 48 Copynumber: 4.9 Consensus size: 48
38152662 AGGATATGCA
* *
38152672 TGATCCCATGTAAGATCATGCCTGGGACATGGCATTGGCATCGATGTG
1 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATGTG
* * *
38152720 TGATCCCATGTAAGACCATGTCTGGGACATGTCATTGGCAT-TAAGATG
1 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATG-TG
* ** * * * * **
38152768 AGA-CATTATGTAAGAGCATAG-CTAGG-CTATCGG-TTTCG-AT--ATGCA
1 TGATC-CCATGTAAGACCAT-GTCTGGGAC-AT-GGCATTGGCATCGATGTG
* *
38152813 TGACCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATG
1 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATGTG
* * * *
38152861 TGATCCCATGAAAGACCATATCTGGGATATGGAATTGGCATC
1 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC
38152903 CTACTATGTG
Statistics
Matches: 140, Mismatches: 31, Indels: 24
0.72 0.16 0.12
Matches are distributed among these distances:
44 3 0.02
45 22 0.16
46 6 0.04
47 6 0.04
48 101 0.72
49 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.27
Consensus pattern (48 bp):
TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATGTG
Found at i:38154678 original size:33 final size:32
Alignment explanation
Indices: 38154637--38154700 Score: 119
Period size: 33 Copynumber: 2.0 Consensus size: 32
38154627 TCCTGCTGAG
38154637 GGGGCAGTGCCAACTAATAACCAACCTCCCANA
1 GGGGCAGTGCCAACTAATAACCAACCTCCCA-A
38154670 GGGGCAGTGCCAACTAATAACCAACCTCCCA
1 GGGGCAGTGCCAACTAATAACCAACCTCCCA
38154701 CGGTTAGCCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.33, C:0.34, G:0.19, T:0.12
Consensus pattern (32 bp):
GGGGCAGTGCCAACTAATAACCAACCTCCCAA
Found at i:38163650 original size:145 final size:140
Alignment explanation
Indices: 38163485--38163771 Score: 430
Period size: 144 Copynumber: 2.0 Consensus size: 140
38163475 AATTGTGTTA
* * * *
38163485 TTAACATCAATAAAACATTCACTTTTCCACTAAACCAAAAATTTATTTTAATATAATATTTGCGT
1 TTAACATCAACAAAACATTCACTTTACCACTAAACCAAAAATTTATTTT-ATATAATATTTACAT
* *
38163550 TTTAATTGTACTATGCATACTTTGTTACATCTATCAATTGTATATATTTATCTATACTCTTAATA
65 TTTAATTGTACTATGCATACTTGGTTACATCTATCAATTGTATATA--T-T-TATACTATTAATA
38163615 AAATCCCTAACTGAG
126 AAATCCCTAACTGAG
* *
38163630 TTAACATCAACAAAACATTCACTTTACCACTAAACCAAATATTTATTTTATATGATATTTACATT
1 TTAACATCAACAAAACATTCACTTTACCACTAAACCAAAAATTTATTTTATATAATATTTACATT
* * *
38163695 TTAATTGTATTATGCATACTTGGTTACCTTTATCAATTGTATATATTTATACTATTAATAAAATC
66 TTAATTGTACTATGCATACTTGGTTACATCTATCAATTGTATATATTTATACTATTAATAAAATC
38163760 CCTAACTGAG
131 CCTAACTGAG
38163770 TT
1 TT
38163772 GATGTCATGA
Statistics
Matches: 131, Mismatches: 11, Indels: 5
0.89 0.07 0.03
Matches are distributed among these distances:
140 29 0.22
141 1 0.01
142 1 0.01
144 54 0.41
145 46 0.35
ACGTcount: A:0.37, C:0.16, G:0.06, T:0.42
Consensus pattern (140 bp):
TTAACATCAACAAAACATTCACTTTACCACTAAACCAAAAATTTATTTTATATAATATTTACATT
TTAATTGTACTATGCATACTTGGTTACATCTATCAATTGTATATATTTATACTATTAATAAAATC
CCTAACTGAG
Found at i:38170554 original size:46 final size:47
Alignment explanation
Indices: 38170487--38170601 Score: 148
Period size: 46 Copynumber: 2.5 Consensus size: 47
38170477 AGACTCACCA
* *
38170487 CAGCTCGTAAA-AGCTTACTGTTTCAACTCATTGGAGCTTACCGATT-
1 CAGCTCG-AAAGAGCTTACTGTTTCAACTCAATAGAGCTTACCGATTC
* *
38170533 CAGCTCGAAAGAGCTTACTG-TTCAGCTCAATAGAGCTTACCGTTTC
1 CAGCTCGAAAGAGCTTACTGTTTCAACTCAATAGAGCTTACCGATTC
38170579 CAGCTC-AATAGAGCTTACTGTTT
1 CAGCTCGAA-AGAGCTTACTGTTT
38170602 ATCATTTCAG
Statistics
Matches: 61, Mismatches: 4, Indels: 7
0.85 0.06 0.10
Matches are distributed among these distances:
45 26 0.43
46 33 0.54
47 2 0.03
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.31
Consensus pattern (47 bp):
CAGCTCGAAAGAGCTTACTGTTTCAACTCAATAGAGCTTACCGATTC
Found at i:38170559 original size:22 final size:23
Alignment explanation
Indices: 38170520--38170596 Score: 104
Period size: 22 Copynumber: 3.3 Consensus size: 23
38170510 CAACTCATTG
38170520 GAGCTTACCGATTCAGCTCGAA-A
1 GAGCTTACCGATTCAGCTC-AATA
*
38170543 GAGCTTACTG-TTCAGCTCAATA
1 GAGCTTACCGATTCAGCTCAATA
*
38170565 GAGCTTACCGTTTCCAGCTCAATA
1 GAGCTTACCGATT-CAGCTCAATA
38170589 GAGCTTAC
1 GAGCTTAC
38170597 TGTTTATCAT
Statistics
Matches: 49, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
21 2 0.04
22 18 0.37
23 11 0.22
24 18 0.37
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.27
Consensus pattern (23 bp):
GAGCTTACCGATTCAGCTCAATA
Found at i:38170587 original size:24 final size:23
Alignment explanation
Indices: 38170498--38170601 Score: 122
Period size: 23 Copynumber: 4.5 Consensus size: 23
38170488 AGCTCGTAAA
* * *
38170498 AGCTTACTGTTTCAACTCATTGG
1 AGCTTACTGTTTCAGCTCAATAG
* *
38170521 AGCTTACCGATTCAGCTCGAA-AG
1 AGCTTACTGTTTCAGCTC-AATAG
38170544 AGCTTACTG-TTCAGCTCAATAG
1 AGCTTACTGTTTCAGCTCAATAG
*
38170566 AGCTTACCGTTTCCAGCTCAATAG
1 AGCTTACTGTTT-CAGCTCAATAG
38170590 AGCTTACTGTTT
1 AGCTTACTGTTT
38170602 ATCATTTCAG
Statistics
Matches: 69, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
21 2 0.03
22 18 0.26
23 26 0.38
24 23 0.33
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (23 bp):
AGCTTACTGTTTCAGCTCAATAG
Found at i:38175229 original size:19 final size:20
Alignment explanation
Indices: 38175186--38175241 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 20
38175176 ATTGGGTCTT
38175186 GCCCATATTAACACAGTTGG
1 GCCCATATTAACACAGTTGG
* * *
38175206 GCCCATTTTAATATAGTT-G
1 GCCCATATTAACACAGTTGG
* *
38175225 GCCCATAATAAAACAGT
1 GCCCATATTAACACAGT
38175242 CTCATATGAT
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (20 bp):
GCCCATATTAACACAGTTGG
Found at i:38177404 original size:3 final size:3
Alignment explanation
Indices: 38177396--38177422 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
38177386 AACACCACAT
38177396 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
38177423 CTATAGCAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:38182079 original size:12 final size:12
Alignment explanation
Indices: 38182058--38182103 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
38182048 TCACAAACAA
*
38182058 GCTCGCTTATTG
1 GCTCGTTTATTG
**
38182070 GCTCGTTTATAA
1 GCTCGTTTATTG
38182082 GCTCGTTTATTG
1 GCTCGTTTATTG
*
38182094 ACTCGTTTAT
1 GCTCGTTTAT
38182104 GACTCATTTA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.15, C:0.20, G:0.20, T:0.46
Consensus pattern (12 bp):
GCTCGTTTATTG
Found at i:38182083 original size:24 final size:24
Alignment explanation
Indices: 38182056--38182103 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
38182046 GTTCACAAAC
*
38182056 AAGCTCGCTTATTGGCTCGTTTAT
1 AAGCTCGCTTATTGACTCGTTTAT
*
38182080 AAGCTCGTTTATTGACTCGTTTAT
1 AAGCTCGCTTATTGACTCGTTTAT
38182104 GACTCATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.44
Consensus pattern (24 bp):
AAGCTCGCTTATTGACTCGTTTAT
Found at i:38182108 original size:11 final size:11
Alignment explanation
Indices: 38182071--38182114 Score: 52
Period size: 12 Copynumber: 3.8 Consensus size: 11
38182061 CGCTTATTGG
*
38182071 CTCGTTTATAA
1 CTCGTTTATGA
38182082 GCTCGTTTATTGA
1 -CTCGTTTA-TGA
38182095 CTCGTTTATGA
1 CTCGTTTATGA
*
38182106 CTCATTTAT
1 CTCGTTTAT
38182115 TTATTAATGA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
11 11 0.38
12 16 0.55
13 2 0.07
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (11 bp):
CTCGTTTATGA
Found at i:38192374 original size:33 final size:33
Alignment explanation
Indices: 38192332--38192397 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
38192322 GCGTTCTTAG
38192332 TTAGATTAGTTTAGTAATTTTAGGTTAAAAACA
1 TTAGATTAGTTTAGTAATTTTAGGTTAAAAACA
38192365 TTAGATTAGTTTAGTAATTTTAGGTTAAAAACA
1 TTAGATTAGTTTAGTAATTTTAGGTTAAAAACA
38192398 ATCACTCCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.39, C:0.03, G:0.15, T:0.42
Consensus pattern (33 bp):
TTAGATTAGTTTAGTAATTTTAGGTTAAAAACA
Found at i:38195858 original size:6 final size:6
Alignment explanation
Indices: 38195840--38195927 Score: 74
Period size: 6 Copynumber: 14.3 Consensus size: 6
38195830 AAGAAACATT
* *
38195840 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATTAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* *
38195889 ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
38195928 GTGAATGCAA
Statistics
Matches: 66, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
5 4 0.06
6 54 0.82
7 6 0.09
8 2 0.03
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:38195885 original size:31 final size:31
Alignment explanation
Indices: 38195849--38195927 Score: 122
Period size: 31 Copynumber: 2.5 Consensus size: 31
38195839 TATCAGAACT
* *
38195849 AGAATCAGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
*
38195880 AGAATCAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
*
38195911 AGAATCAAAATCAGAAT
1 AGAATCAGAATCAGAAT
38195928 GTGAATGCAA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.19
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGAATCAGGTAAC
Found at i:38196387 original size:27 final size:27
Alignment explanation
Indices: 38196347--38196522 Score: 273
Period size: 27 Copynumber: 6.6 Consensus size: 27
38196337 TACCTCACAA
*
38196347 GGTATCTCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* **
38196374 GGAATTTCAATAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
38196401 GGTATTTCGGTATTTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
38196428 GGTATTTCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
38196455 GGTATTTCGGTAATTCTACCCTACA-G
1 GGTATTTCGGTAATTCTACCCTACAGG
* * *
38196481 GGTATTGCGATAATTCTACCCTATAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
38196508 GGTATTTCGGTAATT
1 GGTATTTCGGTAATT
38196523 TTACAAGTCA
Statistics
Matches: 134, Mismatches: 14, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
26 23 0.17
27 111 0.83
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (27 bp):
GGTATTTCGGTAATTCTACCCTACAGG
Found at i:38196535 original size:27 final size:27
Alignment explanation
Indices: 38196397--38196632 Score: 168
Period size: 27 Copynumber: 8.8 Consensus size: 27
38196387 TTCTACCCTA
*
38196397 CAGGGGTATTTCGGT-ATTTCTAC-CCT
1 CAGGGGTATTTCGGTAATTT-TACAACT
* *
38196423 ACAGGGGTATTTCGGTAATTCTAC-CCT
1 -CAGGGGTATTTCGGTAATTTTACAACT
* *
38196450 ACAGGGGTATTTCGGTAATTCTAC-CCT
1 -CAGGGGTATTTCGGTAATTTTACAACT
* * * *
38196477 ACA-GGGTATTGCGATAATTCTAC-CCT
1 -CAGGGGTATTTCGGTAATTTTACAACT
* *
38196503 ATAGGGGTATTTCGGTAATTTTACAAGT
1 -CAGGGGTATTTCGGTAATTTTACAACT
**
38196531 CAGGGGTATTTTAGTAATTTTACAAAC-
1 CAGGGGTATTTCGGTAATTTTAC-AACT
**
38196558 CAGGGGTATTTTAGTAATTTTACAAAC-
1 CAGGGGTATTTCGGTAATTTTAC-AACT
*
38196585 CAGGGGTATTTTGGTAATTTTACTAA-T
1 CAGGGGTATTTCGGTAATTTTAC-AACT
*
38196612 C-GAGGGTATTTTGGTAATTTT
1 CAG-GGGTATTTCGGTAATTTT
38196633 GTAAACTAAG
Statistics
Matches: 188, Mismatches: 15, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
26 24 0.13
27 158 0.84
28 6 0.03
ACGTcount: A:0.25, C:0.15, G:0.22, T:0.38
Consensus pattern (27 bp):
CAGGGGTATTTCGGTAATTTTACAACT
Found at i:38196548 original size:80 final size:81
Alignment explanation
Indices: 38196347--38196549 Score: 266
Period size: 80 Copynumber: 2.5 Consensus size: 81
38196337 TACCTCACAA
* * * * * *
38196347 GGTATCTCGGTAATTCTACCCTACAGGGGAATTTCAATAATTCTACCCTACAGGGGTATTTCGGT
1 GGTATTTCGGTAATTCTACACTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTGCGAT
*
38196412 ATTTCTACCCTACAGG
66 AATTCTACCCTACAGG
* *
38196428 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACA-GGGTATTGCGAT
1 GGTATTTCGGTAATTCTACACTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTGCGAT
*
38196492 AATTCTACCCTATAGG
66 AATTCTACCCTACAGG
* * *
38196508 GGTATTTCGGTAATTTTACAAGT-CAGGGGTATTTTAGTAATT
1 GGTATTTCGGTAATTCTAC-ACTACAGGGGTATTTCAGTAATT
38196550 TTACAAACCA
Statistics
Matches: 108, Mismatches: 13, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
80 59 0.55
81 49 0.45
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (81 bp):
GGTATTTCGGTAATTCTACACTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTGCGAT
AATTCTACCCTACAGG
Found at i:38196562 original size:107 final size:108
Alignment explanation
Indices: 38196347--38196568 Score: 281
Period size: 107 Copynumber: 2.1 Consensus size: 108
38196337 TACCTCACAA
* *
38196347 GGTATCTCGGTAATTCTACCCTACAGGGGAATTTCAATAATTCTACCCTACAGGGGTATTTCGGT
1 GGTATTTCGGTAATTCTACCCTACAGGGGAATTGCAATAATTCTACCCTACAGGGGTATTTCGGT
* * **
38196412 ATTTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGG
66 ATTTCTACACTACAGGGGTATTTCAGTAATTCTACCAAACAGG
* * *
38196455 GGTATTTCGGTAATTCTACCCTACA-GGGTATTGCGATAATTCTACCCTATAGGGGTATTTCGGT
1 GGTATTTCGGTAATTCTACCCTACAGGGGAATTGCAATAATTCTACCCTACAGGGGTATTTCGGT
* * *
38196519 AATTT-TACAAGT-CAGGGGTATTTTAGTAATTTTA-CAAACCAGG
66 -ATTTCTAC-ACTACAGGGGTATTTCAGTAATTCTACCAAA-CAGG
38196562 GGTATTT
1 GGTATTT
38196569 TAGTAATTTT
Statistics
Matches: 99, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
106 2 0.02
107 68 0.69
108 29 0.29
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (108 bp):
GGTATTTCGGTAATTCTACCCTACAGGGGAATTGCAATAATTCTACCCTACAGGGGTATTTCGGT
ATTTCTACACTACAGGGGTATTTCAGTAATTCTACCAAACAGG
Found at i:38196563 original size:54 final size:54
Alignment explanation
Indices: 38196505--38196659 Score: 177
Period size: 54 Copynumber: 2.9 Consensus size: 54
38196495 TCTACCCTAT
* **
38196505 AGGGGTATTTCGGTAATTTTACAAGTCAGGGGTATTTTAGTAATTTTACAAACC
1 AGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAAACC
* * * *
38196559 AGGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACTAATC
1 AGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAAACC
** * * * *
38196613 -GAGGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTCAATAATTTT
1 AG-GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTT
38196660 GTAAATCGAG
Statistics
Matches: 85, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
53 1 0.01
54 84 0.99
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.41
Consensus pattern (54 bp):
AGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAAACC
Found at i:38196589 original size:107 final size:108
Alignment explanation
Indices: 38196347--38196594 Score: 245
Period size: 107 Copynumber: 2.3 Consensus size: 108
38196337 TACCTCACAA
* * ** * * *
38196347 GGTATCTCGGTAATTCTACCCTACAGGGGAATTTCAATAATTCTACCCTACAGGGGTATTTCGGT
1 GGTATTTCAGTAATTCTACCAAACAGGGGTATTGCGATAATTCTACCCTACAGGGGTATTTCGGT
* * **
38196412 ATTTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGG
66 ATTTCTACACTACAGGGGTATTTCAGTAATTCTACCAAACAGG
* ** *
38196455 GGTATTTCGGTAATTCTACCCTACA-GGGTATTGCGATAATTCTACCCTATAGGGGTATTTCGGT
1 GGTATTTCAGTAATTCTACCAAACAGGGGTATTGCGATAATTCTACCCTACAGGGGTATTTCGGT
* * *
38196519 AATTT-TACAAGT-CAGGGGTATTTTAGTAATTTTA-CAAACCAGG
66 -ATTTCTAC-ACTACAGGGGTATTTCAGTAATTCTACCAAA-CAGG
* *
38196562 GGTATTTTAGTAATTTTA-CAAACCAGGGGTATT
1 GGTATTTCAGTAATTCTACCAAA-CAGGGGTATT
38196595 TTGGTAATTT
Statistics
Matches: 118, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
106 4 0.03
107 78 0.66
108 36 0.31
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (108 bp):
GGTATTTCAGTAATTCTACCAAACAGGGGTATTGCGATAATTCTACCCTACAGGGGTATTTCGGT
ATTTCTACACTACAGGGGTATTTCAGTAATTCTACCAAACAGG
Found at i:38196602 original size:81 final size:81
Alignment explanation
Indices: 38196505--38196659 Score: 206
Period size: 81 Copynumber: 1.9 Consensus size: 81
38196495 TCTACCCTAT
*
38196505 AGGGGTATTTCGGTAATTTTAC-AAGTC-AGGGGTATTTTAGTAATTTTACAAACCAGGGGTATT
1 AGGGGTATTTCGGTAATTTTACTAA-TCGA-GGGTATTTTAGTAATTTTACAAACCAAGGGTATT
* *
38196568 TTAGTAATTTTACAAACC
64 TCAATAATTTTACAAACC
* * ** *
38196586 AGGGGTATTTTGGTAATTTTACTAATCGAGGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTC
1 AGGGGTATTTCGGTAATTTTACTAATCGAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTC
38196651 AATAATTTT
66 AATAATTTT
38196660 GTAAATCGAG
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
81 61 0.95
82 3 0.05
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.41
Consensus pattern (81 bp):
AGGGGTATTTCGGTAATTTTACTAATCGAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTC
AATAATTTTACAAACC
Found at i:38196644 original size:27 final size:27
Alignment explanation
Indices: 38196507--38196664 Score: 129
Period size: 27 Copynumber: 5.9 Consensus size: 27
38196497 TACCCTATAG
** * ** *
38196507 GGGTATTTCGGTAATTTTACAAGTCAG
1 GGGTATTTTAGTAATTTTATAAACCAA
* *
38196534 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTAGTAATTTTATAAACCAA
* *
38196561 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTAGTAATTTTATAAACCAA
* * *
38196588 GGGTATTTTGGTAATTTTACT-AATCGA
1 GGGTATTTTAGTAATTTTA-TAAACCAA
* * *
38196615 GGGTATTTTGGTAATTTTGTAAACTAA
1 GGGTATTTTAGTAATTTTATAAACCAA
* * *
38196642 GGGTATTTCAATAATTTTGTAAA
1 GGGTATTTTAGTAATTTTATAAA
38196665 TCGAGGATAA
Statistics
Matches: 113, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
26 1 0.01
27 112 0.99
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.41
Consensus pattern (27 bp):
GGGTATTTTAGTAATTTTATAAACCAA
Found at i:38196683 original size:27 final size:27
Alignment explanation
Indices: 38196661--38196931 Score: 382
Period size: 27 Copynumber: 10.0 Consensus size: 27
38196651 AATAATTTTG
* *
38196661 TAAATCGAGGATAAAACAGTAATTCTG
1 TAAATCGAGGGTAAAACAGTAATTCTA
38196688 TAAATCGAGGGTAAAACAGTAATTCTA
1 TAAATCGAGGGTAAAACAGTAATTCTA
*
38196715 TAAATCGAGGGTAAAA-TGATAATTCTA
1 TAAATCGAGGGTAAAACAG-TAATTCTA
* *
38196742 TAAATCGAGGGTAAAACGGTAATTCTG
1 TAAATCGAGGGTAAAACAGTAATTCTA
*
38196769 TAAATCGAGGGTAAAATAGTAATTCTA
1 TAAATCGAGGGTAAAACAGTAATTCTA
*
38196796 TAAATCGAGGGTAAAACGGTAATTCTA
1 TAAATCGAGGGTAAAACAGTAATTCTA
*
38196823 TAAATCGAGGGTAAAACGGTAATTCTA
1 TAAATCGAGGGTAAAACAGTAATTCTA
* * *
38196850 TAAATCGATGGTAAAACAGTAATTTTG
1 TAAATCGAGGGTAAAACAGTAATTCTA
* *
38196877 TAAATCGAGGGTAAAACGGTAATTCTG
1 TAAATCGAGGGTAAAACAGTAATTCTA
* **
38196904 CAAATCGAGGGTAAAATGGTAATTCTA
1 TAAATCGAGGGTAAAACAGTAATTCTA
38196931 T
1 T
38196932 CTTATTTCAG
Statistics
Matches: 221, Mismatches: 21, Indels: 4
0.90 0.09 0.02
Matches are distributed among these distances:
26 1 0.00
27 219 0.99
28 1 0.00
ACGTcount: A:0.41, C:0.10, G:0.21, T:0.28
Consensus pattern (27 bp):
TAAATCGAGGGTAAAACAGTAATTCTA
Found at i:38196930 original size:81 final size:81
Alignment explanation
Indices: 38196661--38196931 Score: 425
Period size: 81 Copynumber: 3.3 Consensus size: 81
38196651 AATAATTTTG
* * *
38196661 TAAATCGAGGATAAAACAGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGG
1 TAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGG
* *
38196726 TAAAATGATAATTCTA
66 TAAAACGGTAATTCTA
* *
38196742 TAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCGAGGG
1 TAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGG
38196807 TAAAACGGTAATTCTA
66 TAAAACGGTAATTCTA
* * *
38196823 TAAATCGAGGGTAAAACGGTAATTCTATAAATCGATGGTAAAACAGTAATTTTGTAAATCGAGGG
1 TAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGG
*
38196888 TAAAACGGTAATTCTG
66 TAAAACGGTAATTCTA
* *
38196904 CAAATCGAGGGTAAAATGGTAATTCTAT
1 TAAATCGAGGGTAAAACGGTAATTCTAT
38196932 CTTATTTCAG
Statistics
Matches: 177, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
81 177 1.00
ACGTcount: A:0.41, C:0.10, G:0.21, T:0.28
Consensus pattern (81 bp):
TAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGG
TAAAACGGTAATTCTA
Found at i:38196974 original size:27 final size:27
Alignment explanation
Indices: 38196944--38197011 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 27
38196934 TATTTCAGTG
38196944 ATTTTACAAATCGAGGATA-TTTGGGTA
1 ATTTTACAAATCGAGGATACTTT-GGTA
* * *
38196971 ATTTTATAAATCGGGGGTACTTTGGTA
1 ATTTTACAAATCGAGGATACTTTGGTA
*
38196998 ATTTTACAAGTCGA
1 ATTTTACAAATCGA
38197012 ATGTATTTCA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
27 31 0.91
28 3 0.09
ACGTcount: A:0.31, C:0.09, G:0.22, T:0.38
Consensus pattern (27 bp):
ATTTTACAAATCGAGGATACTTTGGTA
Found at i:38201645 original size:17 final size:17
Alignment explanation
Indices: 38201623--38201655 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
38201613 GTGACATGCC
38201623 CGTGTGGGCCC-CACACT
1 CGTGT-GGCCCACACACT
38201640 CGTGTGGCCCACACAC
1 CGTGTGGCCCACACAC
38201656 CCAACTTGGC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.15, C:0.42, G:0.27, T:0.15
Consensus pattern (17 bp):
CGTGTGGCCCACACACT
Found at i:38205844 original size:18 final size:19
Alignment explanation
Indices: 38205818--38205855 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
38205808 ATACGCGTAT
*
38205818 ATATCTAAAA-AATAAAGA
1 ATATCTAAAATAAAAAAGA
*
38205836 ATATGTAAAATAAAAAAGA
1 ATATCTAAAATAAAAAAGA
38205855 A
1 A
38205856 CTAAAAAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.68, C:0.03, G:0.08, T:0.21
Consensus pattern (19 bp):
ATATCTAAAATAAAAAAGA
Found at i:38206444 original size:3 final size:3
Alignment explanation
Indices: 38206428--38206499 Score: 53
Period size: 3 Copynumber: 25.0 Consensus size: 3
38206418 TTTACCATTT
** *
38206428 TTA TTA TT- TT- TTA TTA TTA -TA TTTA CCA TTA TTG TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA
* * *
38206471 TTA TTA TTA GTA -TA TTT TTA CTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
38206500 GAATTATTTT
Statistics
Matches: 54, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
2 8 0.15
3 44 0.81
4 2 0.04
ACGTcount: A:0.29, C:0.04, G:0.03, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:38219378 original size:65 final size:65
Alignment explanation
Indices: 38219262--38219438 Score: 167
Period size: 65 Copynumber: 2.6 Consensus size: 65
38219252 GCGAGAAATT
* * * *
38219262 AGTTGAGCCTCAAGAGACGTTGAGGTATTTTCAATTTCTGTCTTTTAAAAAAATCAACTCATGTG
1 AGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTATATCTTTTAAAAAAATCAACTCATGTG
* * * *
38219327 AGTTGAGCCTTAGGACACGCTGAGGT-TGTTTCAATTTATATTTTTTCAAAAAATCAACTCATAT
1 AGTTGAGCCTCAAGACACGCTGAGGTAT-TTTCAATTTATATCTTTTAAAAAAATCAACTC--A-
38219391 TGTGAGAGGTG
62 --T-----GTG
*
38219402 AGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT
1 AGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTT
38219439 CTGTTTTCTT
Statistics
Matches: 91, Mismatches: 9, Indels: 14
0.80 0.08 0.12
Matches are distributed among these distances:
64 1 0.01
65 50 0.55
67 1 0.01
70 1 0.01
75 37 0.41
76 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (65 bp):
AGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTATATCTTTTAAAAAAATCAACTCATGTG
Found at i:38219513 original size:92 final size:93
Alignment explanation
Indices: 38219355--38219537 Score: 314
Period size: 92 Copynumber: 2.0 Consensus size: 93
38219345 GCTGAGGTTG
* * *
38219355 TTTCAATTTATATTTTTTCAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACAC
1 TTTCAATTTATATTATTTCAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAGGACAC
*
38219420 GCTGAGGTATTTTCAATTTCTGTTTTCT
66 GCTGAGGTATTTTCAATTTCTATTTTCT
*
38219448 TTTCAATTTATA-TATTTCAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCGGGACAC
1 TTTCAATTTATATTATTTCAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAGGACAC
38219512 GCTGAGGTATTTTCAATTTCTATTTT
66 GCTGAGGTATTTTCAATTTCTATTTT
38219538 TCAAAAAAAT
Statistics
Matches: 85, Mismatches: 5, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
92 73 0.86
93 12 0.14
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.39
Consensus pattern (93 bp):
TTTCAATTTATATTATTTCAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAGGACAC
GCTGAGGTATTTTCAATTTCTATTTTCT
Found at i:38219556 original size:167 final size:167
Alignment explanation
Indices: 38219327--38219710 Score: 469
Period size: 167 Copynumber: 2.3 Consensus size: 167
38219317 AACTCATGTG
**
38219327 AGTTGAGCCTTAGGACACGCTGAGGT-TGTTTCAATTTATATTTTTTCAAAAAATCAACTCATAT
1 AGTTGAGCCTCGGGACACGCTGAGGTAT-TTTCAATTTATATTTTTTCAAAAAATCAACTCATAT
* * * *
38219391 TGTGAGAGGTGAGTTGAGCCTC-AG-GACACGCTGAGGTATTTTC-AATTTCTGTTTTCTTTTCA
65 TGCGAGAGATGAGTTGAGCCTCGAGCCACACGCCGAGGTATTTTCAAATTTC-G---T-TTTTCA
38219453 ATTTATATATT-T-C-AAAAAATCAACTCATATTGCGAGAGGTA
125 ATTTATAT-TTCTCCAAAAAAATCAACTCATATTGCGAGAGGTA
*
38219494 AGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTCTA-TTTTTCAAAAAAATCAACTCATAT
1 AGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTATATTTTTTC-AAAAAATCAACTCATAT
*
38219558 TGCGAGAGATGAGTTGAGCCTCGAGCCACATGCCGAGGTATTTTCAAAATTTCGTTTTTCAATTT
65 TGCGAGAGATGAGTTGAGCCTCGAGCCACACGCCGAGGTATTTTC-AAATTTCGTTTTTCAATTT
* * * *
38219623 CTGTTTCTCCCAAAAAAATCAACTTATATTGCGAGAGGTG
129 ATATTTCT-CCAAAAAAATCAACTCATATTGCGAGAGGTA
* * *
38219663 AGTTGAGCCTCGGCTTACATGCTGAGGTATTTTCAATTTATGTTTTTT
1 AGTTGAGCCTCGG--GACACGCTGAGGTATTTTCAATTTATATTTTTT
38219711 GAATTTATAC
Statistics
Matches: 188, Mismatches: 16, Indels: 21
0.84 0.07 0.09
Matches are distributed among these distances:
165 2 0.01
166 19 0.10
167 73 0.39
168 4 0.02
169 55 0.29
170 1 0.01
171 29 0.15
172 5 0.03
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (167 bp):
AGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTATATTTTTTCAAAAAATCAACTCATATT
GCGAGAGATGAGTTGAGCCTCGAGCCACACGCCGAGGTATTTTCAAATTTCGTTTTTCAATTTAT
ATTTCTCCAAAAAAATCAACTCATATTGCGAGAGGTA
Found at i:38219573 original size:75 final size:76
Alignment explanation
Indices: 38219447--38219604 Score: 230
Period size: 75 Copynumber: 2.1 Consensus size: 76
38219437 TTCTGTTTTC
* *
38219447 TTTTCAATTTATATATTTCAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCG-G-GAC
1 TTTTCAATTTATATATTTCAAAAAATCAACTCATATTGCGAGAGATAAGTTGAGCCTCGAGCCAC
*
38219510 ACGCTGAGGTA
66 ACGCCGAGGTA
* * *
38219521 TTTTCAATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGAGCCA
1 TTTTCAATTTATATATTTC-AAAAAATCAACTCATATTGCGAGAGATAAGTTGAGCCTCGAGCCA
*
38219586 CATGCCGAGGTA
65 CACGCCGAGGTA
38219598 TTTTCAA
1 TTTTCAA
38219605 AATTTCGTTT
Statistics
Matches: 74, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
74 17 0.23
75 38 0.51
76 1 0.01
77 18 0.24
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (76 bp):
TTTTCAATTTATATATTTCAAAAAATCAACTCATATTGCGAGAGATAAGTTGAGCCTCGAGCCAC
ACGCCGAGGTA
Found at i:38219652 original size:94 final size:89
Alignment explanation
Indices: 38219521--38219901 Score: 351
Period size: 94 Copynumber: 4.2 Consensus size: 89
38219511 CGCTGAGGTA
* * *
38219521 TTTTCAATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGAGCCA
1 TTTTCAATTTCT-GTTTTCAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCG-GCCA
38219586 CATGCCGAGGTATTTTCAAAATTTCGT
64 CATGCCGAGGTATTTTCAAAATTT-GT
38219613 TTTTCAATTTCTGTTTCTCCCAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGCT
1 TTTTCAATTTCTGTTT-T--CAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGC-
* * *
38219678 TACATGCTGAGGTATTTTC-AATTTATGTT
62 CACATGCCGAGGTATTTTCAAAATT-TG-T
* * * * * *
38219707 TTTTGAATTTATACTTTTC-AAAAAATTAA-TTCATATTACGAGAGGTGAGTTGAGCCTCGGGTC
1 TTTTCAATTTCT-GTTTTCAAAAAAATCAACTT-ATATTGCGAGAGGTGAGTTGAGCCTC-GGCC
*
38219770 ACATGCCGAGGTATTTTCAAAATCTGT
63 ACATGCCGAGGTATTTTCAAAATTTGT
* * * * * * * *
38219797 TTTGCAAATTCTGTTTTC--AAAAGTCAACTCATATTGCGAGAAGTGAGTTAAGTCTTGGCTCAC
1 TTTTCAATTTCTGTTTTCAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGC-CAC
* * * **
38219860 GTGCTGAGCTATTTTCAATTTTTGT
65 ATGCCGAGGTATTTTCAAAATTTGT
*
38219885 TTTT-AATGTCTAGTTTT
1 TTTTCAATTTCT-GTTTT
38219902 AAAGAGTCAA
Statistics
Matches: 237, Mismatches: 39, Indels: 30
0.77 0.13 0.10
Matches are distributed among these distances:
87 7 0.03
88 58 0.24
89 6 0.03
90 11 0.05
91 56 0.24
92 19 0.08
93 7 0.03
94 70 0.30
95 3 0.01
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (89 bp):
TTTTCAATTTCTGTTTTCAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGCCACA
TGCCGAGGTATTTTCAAAATTTGT
Found at i:38219762 original size:185 final size:180
Alignment explanation
Indices: 38219521--38219888 Score: 477
Period size: 179 Copynumber: 2.0 Consensus size: 180
38219511 CGCTGAGGTA
* * *
38219521 TTTTCAATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGAGCCA
1 TTTTCAATTTATACTTTTCAAAAAAATCAACTCATATTACGAGAGATGAGTTGAGCCTCGAGCCA
* * * *
38219586 CATGCCGAGGTATTTTCAAAATTTCGTTTTTCAATTTCTGTTTCTCCCAAAAAAATCAACTTATA
66 CATGCCGAGGTATTTTCAAAATCT-GTTTTGCAAATTCTGTTT-T--C--AAAAATCAACTCATA
* * * *
38219651 TTGCGAGAGGTGAGTTGAGCCTCGGCTTACATGCTGAGGTATTTTCAATTTATGTT
125 TTGCGAGAAGTGAGTTAAGCCTCGGCTCACATGCTGAGCTATTTTCAATTTATGTT
* * * * * *
38219707 TTTTGAATTTATACTTTTC-AAAAAATTAATTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCA
1 TTTTCAATTTATACTTTTCAAAAAAATCAACTCATATTACGAGAGATGAGTTGAGCCTCGAGCCA
*
38219771 CATGCCGAGGTATTTTCAAAATCTGTTTTGCAAATTCTGTTTTCAAAAGTCAACTCATATTGCGA
66 CATGCCGAGGTATTTTCAAAATCTGTTTTGCAAATTCTGTTTTCAAAAATCAACTCATATTGCGA
* * * *
38219836 GAAGTGAGTTAAGTCTTGGCTCACGTGCTGAGCTATTTTCAATTTTTGTT
131 GAAGTGAGTTAAGCCTCGGCTCACATGCTGAGCTATTTTCAATTTATGTT
38219886 TTT
1 TTT
38219889 AATGTCTAGT
Statistics
Matches: 160, Mismatches: 22, Indels: 7
0.85 0.12 0.04
Matches are distributed among these distances:
179 64 0.40
181 1 0.01
183 1 0.01
184 16 0.10
185 62 0.39
186 16 0.10
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.38
Consensus pattern (180 bp):
TTTTCAATTTATACTTTTCAAAAAAATCAACTCATATTACGAGAGATGAGTTGAGCCTCGAGCCA
CATGCCGAGGTATTTTCAAAATCTGTTTTGCAAATTCTGTTTTCAAAAATCAACTCATATTGCGA
GAAGTGAGTTAAGCCTCGGCTCACATGCTGAGCTATTTTCAATTTATGTT
Found at i:38219809 original size:14 final size:13
Alignment explanation
Indices: 38219783--38219818 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
38219773 TGCCGAGGTA
38219783 TTTTCAAAATCTG
1 TTTTCAAAATCTG
*
38219796 TTTTGCAAATTCTG
1 TTTT-CAAAATCTG
38219810 TTTTCAAAA
1 TTTTCAAAA
38219819 GTCAACTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.31, C:0.14, G:0.08, T:0.47
Consensus pattern (13 bp):
TTTTCAAAATCTG
Found at i:38219873 original size:88 final size:89
Alignment explanation
Indices: 38219529--38219955 Score: 357
Period size: 88 Copynumber: 4.7 Consensus size: 89
38219519 TATTTTCAAT
*
38219529 TTCTATTTTTCAAAAAAATCAACTCATATTGCGAG-AGATGAGTTGAGCCTCGAGC-CACATGCC
1 TTCTAGTTTTC-AAAAAATCAACTCATATTGCGAGAAG-TGAGTTGAGCCTCG-GCTCACATGCC
* *
38219592 GAGGTATTTTCAAAATTTCGTTTTTCAAT
63 GAGGTATTTTCAAAATTT-G-TTTTGAAA
* * *
38219621 TTCT-GTTTCTCCCAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGCTTACATGC
1 TTCTAGTTT-T--C-AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGC
* * *
38219685 TGAGGTATTTTC-AATTTATGTTTTTTGAAT
62 CGAGGTATTTTCAAAATT-TG--TTTTGAAA
* * * * * * *
38219715 TTATACTTTTCAAAAAATTAATTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAG
1 TTCTAGTTTTCAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGCCGAG
*
38219780 GTATTTTCAAAATCTGTTTTGCAAA
66 GTATTTTCAAAATTTGTTTTG-AAA
* * * * * *
38219805 TTCT-GTTTTC-AAAAGTCAACTCATATTGCGAGAAGTGAGTTAAGTCTTGGCTCACGTGCTGAG
1 TTCTAGTTTTCAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGCCGAG
* ** *
38219868 CTATTTTCAATTTTTGTTTT-TAA
66 GTATTTTCAAAATTTGTTTTGAAA
* * * * * * * *
38219891 TGTCTAGTTTT-AAAGAGTCAATTCATATTGCAAGAAATGAGTTGAGCTTAGGATCACATGCCGA
1 T-TCTAGTTTTCAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGCCGA
38219955 G
65 G
38219956 TAAAGAATAA
Statistics
Matches: 274, Mismatches: 48, Indels: 30
0.78 0.14 0.09
Matches are distributed among these distances:
86 3 0.01
87 3 0.01
88 105 0.38
89 10 0.04
90 5 0.02
91 60 0.22
92 9 0.03
93 7 0.03
94 68 0.25
95 4 0.01
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.37
Consensus pattern (89 bp):
TTCTAGTTTTCAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGCCGAG
GTATTTTCAAAATTTGTTTTGAAA
Found at i:38221084 original size:3 final size:3
Alignment explanation
Indices: 38221069--38221298 Score: 70
Period size: 3 Copynumber: 76.3 Consensus size: 3
38221059 TTGTCTTTAT
* * * *
38221069 TTA TTA CTA TTA TTA TT- TCTA CTT- TTA TTA TTG TTA CTA CTA -TA
1 TTA TTA TTA TTA TTA TTA T-TA -TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
38221113 TTA TTG TTA TTG TTA TTA TTA TTA TTA TT- TT- TTT TTA TTA GTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
38221158 TGTT TTA TTA TACA TGTA TTTA TTA TTA TT- TTA -TA TTA CTG TTA TTTC
1 T-TA TTA TTA T-TA T-TA -TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
* * * *
38221206 TTA TTT TTCA -TA TTA TTA CTG TTA TTA GTGTA -TA CTA TTA TTA TTA
1 TTA TTA TT-A TTA TTA TTA TTA TTA TTA -T-TA TTA TTA TTA TTA TTA
* * * *
38221252 TT- TCCTA TTA TCA TTC TT- TTA TTA CTGA TTA TTA TTA TTT TTA TTA
1 TTA T--TA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA
38221298 T
1 T
38221299 CACTTACTAT
Statistics
Matches: 168, Mismatches: 36, Indels: 46
0.67 0.14 0.18
Matches are distributed among these distances:
2 21 0.12
3 128 0.76
4 14 0.08
5 5 0.03
ACGTcount: A:0.26, C:0.07, G:0.05, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:38221406 original size:3 final size:3
Alignment explanation
Indices: 38221400--38221448 Score: 57
Period size: 3 Copynumber: 17.0 Consensus size: 3
38221390 TTATTTGACA
* * *
38221400 TAT TAT TGT TAT CAT TAT TAT TTT TA- TAT TAT TAT TAT TAT TA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
38221446 TAT
1 TAT
38221449 ATTTAGTTAT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
2 4 0.11
3 34 0.89
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:38221435 original size:17 final size:17
Alignment explanation
Indices: 38221413--38221448 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
38221403 TATTGTTATC
*
38221413 ATTATTATTTTTATATT
1 ATTATTATTATTATATT
38221430 ATTATTATTATTATATT
1 ATTATTATTATTATATT
38221447 AT
1 AT
38221449 ATTTAGTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
ATTATTATTATTATATT
Found at i:38221507 original size:3 final size:3
Alignment explanation
Indices: 38221499--38221524 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
38221489 TATATGCACA
38221499 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
38221525 GTACTAGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:38221652 original size:25 final size:24
Alignment explanation
Indices: 38221624--38221730 Score: 112
Period size: 25 Copynumber: 4.3 Consensus size: 24
38221614 TCATGTCTAA
38221624 TATATATGTTTTTATATATATTATG
1 TATATAT-TTTTTATATATATTATG
*
38221649 TATATATTTTTAATAT-TATTA-G
1 TATATATTTTTTATATATATTATG
38221671 TTATATATTTTTT-TATACTATTCCATG
1 -TATATATTTTTTATATA-TATT--ATG
*
38221698 TATATATTTTTTATATCATCTTATG
1 TATATATTTTTTATAT-ATATTATG
*
38221723 CATATATT
1 TATATATT
38221731 CTTAAACACT
Statistics
Matches: 70, Mismatches: 4, Indels: 16
0.78 0.04 0.18
Matches are distributed among these distances:
22 4 0.06
23 16 0.23
24 12 0.17
25 17 0.24
26 13 0.19
27 7 0.10
28 1 0.01
ACGTcount: A:0.31, C:0.06, G:0.05, T:0.59
Consensus pattern (24 bp):
TATATATTTTTTATATATATTATG
Found at i:38222031 original size:19 final size:19
Alignment explanation
Indices: 38221989--38222031 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
38221979 ATGTAGATAT
* *
38221989 TTATTAATATATTTTTATA
1 TTATTAATATATTATAATA
38222008 TTATTAATAT-TTATAATA
1 TTATTAATATATTATAATA
38222026 TATATT
1 T-TATT
38222032 GTATACGTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
TTATTAATATATTATAATA
Found at i:38222093 original size:22 final size:22
Alignment explanation
Indices: 38221954--38222093 Score: 57
Period size: 22 Copynumber: 6.5 Consensus size: 22
38221944 ATTTTAATGT
* *
38221954 TATTATATATTTATTTTCAATATA
1 TATTATATATATATTAT--ATATA
* *
38221978 TATGTAGATATTTATTA-ATATA
1 TAT-TATATATATATTATATATA
* *
38222000 T-TTTTATAT-TATTA-ATATT
1 TATTATATATATATTATATATA
*
38222019 TA-TA-ATATATATTGTATACGT-
1 TATTATATATATATTATATA--TA
38222040 TCATT-T-TATATATTATATATA
1 T-ATTATATATATATTATATATA
* *
38222061 TATTGTATATATATTCTAGTAT-
1 TATTATATATATATTATA-TATA
*
38222083 TATTATGTATA
1 TATTATATATA
38222094 CACTTTTCAT
Statistics
Matches: 92, Mismatches: 11, Indels: 28
0.70 0.08 0.21
Matches are distributed among these distances:
18 4 0.04
19 15 0.16
20 12 0.13
21 4 0.04
22 39 0.42
23 4 0.04
24 3 0.03
25 11 0.12
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.56
Consensus pattern (22 bp):
TATTATATATATATTATATATA
Found at i:38234801 original size:50 final size:51
Alignment explanation
Indices: 38234623--38234803 Score: 174
Period size: 50 Copynumber: 3.6 Consensus size: 51
38234613 ATCTGATACG
** * ** *
38234623 CATAGTAGCCTGCACTTAGTACTACACACATGACCTCA-CCATCTGA-TACA
1 CATAGTAGCCTGCACTTAGTACTACACACGCGATCAAAGTCAT-TGAGTACA
** * * *
38234673 TGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTCATTGAGTACG
1 CATAGTAGCCTGCACTTAGTACTACACACGCGATCAAAGTCATTGAGTACA
* * *
38234724 CATACTAGCCTGCACTTAGTACTACACATGCGACTTAATAGT-A-TG-GTACA
1 CATAGTAGCCTGCACTTAGTACTACACACGCGA-TCAA-AGTCATTGAGTACA
38234774 CATAGTAGCCTGCACTTAGTACTACACACG
1 CATAGTAGCCTGCACTTAGTACTACACACG
38234804 TGTATTCACA
Statistics
Matches: 109, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
50 67 0.61
51 36 0.33
52 3 0.03
53 3 0.03
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (51 bp):
CATAGTAGCCTGCACTTAGTACTACACACGCGATCAAAGTCATTGAGTACA
Found at i:38236148 original size:15 final size:15
Alignment explanation
Indices: 38236128--38236196 Score: 75
Period size: 15 Copynumber: 4.6 Consensus size: 15
38236118 GTATCTCGGG
38236128 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* * *
38236143 TCTCTTTGTTCTGGA
1 TTTCTTTATCCTGGA
* *
38236158 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
38236173 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
38236188 TTTCTTTAT
1 TTTCTTTAT
38236197 TCGGTTTTCT
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 43 1.00
ACGTcount: A:0.10, C:0.17, G:0.14, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:38236207 original size:14 final size:14
Alignment explanation
Indices: 38236123--38236207 Score: 62
Period size: 15 Copynumber: 5.8 Consensus size: 14
38236113 GTATCGTATC
*
38236123 TCGGGTTTCTTTAT
1 TCGGATTTCTTTAT
* * *
38236137 CCTGGATCTCTTTGT
1 TC-GGATTTCTTTAT
38236152 TCTGGATTTCTTTAT
1 TC-GGATTTCTTTAT
* *
38236167 TCTGGGTTTCTCTAT
1 TC-GGATTTCTTTAT
*
38236182 CTTGGATTTCTTTAT
1 -TCGGATTTCTTTAT
*
38236197 TCGGTTTTCTT
1 TCGGATTTCTT
38236208 GTTATCTTTG
Statistics
Matches: 55, Mismatches: 14, Indels: 4
0.75 0.19 0.05
Matches are distributed among these distances:
14 10 0.18
15 44 0.80
16 1 0.02
ACGTcount: A:0.08, C:0.18, G:0.18, T:0.56
Consensus pattern (14 bp):
TCGGATTTCTTTAT
Found at i:38249896 original size:33 final size:30
Alignment explanation
Indices: 38249854--38249917 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 30
38249844 TTTGTTCTGC
*
38249854 AGGAATGCACTGTACTCCTTTGTCAAGGCA
1 AGGAATGCACTGCACTCCTTTGTCAAGGCA
38249884 NNNAGGAATGCACTGCACTCCTTTGTCAAGGCA
1 ---AGGAATGCACTGCACTCCTTTGTCAAGGCA
38249917 A
1 A
38249918 CAGTCTCATA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 1 0.03
33 29 0.97
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.23
Consensus pattern (30 bp):
AGGAATGCACTGCACTCCTTTGTCAAGGCA
Found at i:38255255 original size:23 final size:23
Alignment explanation
Indices: 38255210--38255255 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
38255200 ATATTCCGGT
*
38255210 TGATCAATAAAATATGCTGTCTC
1 TGATCAATAAAATATGCTCTCTC
*
38255233 TGATCAATAAAATATGTTCTCTC
1 TGATCAATAAAATATGCTCTCTC
38255256 ATTCTCTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.37
Consensus pattern (23 bp):
TGATCAATAAAATATGCTCTCTC
Found at i:38258883 original size:12 final size:11
Alignment explanation
Indices: 38258866--38258895 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
38258856 CAAAATATTC
38258866 AAAATTTTCATA
1 AAAATTTTCA-A
38258878 AAAATTTTCAA
1 AAAATTTTCAA
38258889 AAAATTT
1 AAAATTT
38258896 CTAAAATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 8 0.44
12 10 0.56
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (11 bp):
AAAATTTTCAA
Found at i:38258900 original size:21 final size:21
Alignment explanation
Indices: 38258852--38258920 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
38258842 ATCAAAATCA
* * *
38258852 TTCTCAAAATATTC-AAAATT
1 TTCTAAAAATTTTCAAAAAAT
38258872 TTCATAAAAATTTTCAAAAAAT
1 TTC-TAAAAATTTTCAAAAAAT
* *
38258894 TTCTAAAATTTATTTAAAAAA-
1 TTCTAAAAATT-TTCAAAAAAT
38258915 TTCTAA
1 TTCTAA
38258921 GGAATATTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
20 3 0.07
21 22 0.54
22 16 0.39
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (21 bp):
TTCTAAAAATTTTCAAAAAAT
Found at i:38259324 original size:69 final size:69
Alignment explanation
Indices: 38259245--38259382 Score: 267
Period size: 69 Copynumber: 2.0 Consensus size: 69
38259235 GTATTCTAAC
38259245 ATAGAATTAGTAATATTGTAACAATATTTTAATTTAATATGTTTAATTATTTAAAATTTAAATGG
1 ATAGAATTAGTAATATTGTAACAATATTTTAATTTAATATGTTTAATTATTTAAAATTTAAATGG
38259310 AAAA
66 AAAA
*
38259314 ATAGAATTAGTAATATTGTAACAATATTTTAATTTAATATGTTTAATTATTTAAAATTTAAATTG
1 ATAGAATTAGTAATATTGTAACAATATTTTAATTTAATATGTTTAATTATTTAAAATTTAAATGG
38259379 AAAA
66 AAAA
38259383 TTTTCACTTA
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.46, C:0.01, G:0.08, T:0.44
Consensus pattern (69 bp):
ATAGAATTAGTAATATTGTAACAATATTTTAATTTAATATGTTTAATTATTTAAAATTTAAATGG
AAAA
Found at i:38259818 original size:17 final size:17
Alignment explanation
Indices: 38259796--38259829 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
38259786 CTCTCACCCC
38259796 ACTTATGTATTATATGG
1 ACTTATGTATTATATGG
38259813 ACTTATGTATTATATGG
1 ACTTATGTATTATATGG
38259830 GAAAATGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.06, G:0.18, T:0.47
Consensus pattern (17 bp):
ACTTATGTATTATATGG
Found at i:38263371 original size:13 final size:13
Alignment explanation
Indices: 38263353--38263379 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
38263343 CTGAATTAGT
38263353 TTTACTAACCACC
1 TTTACTAACCACC
38263366 TTTACTAACCACC
1 TTTACTAACCACC
38263379 T
1 T
38263380 GATCATGACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.37, G:0.00, T:0.33
Consensus pattern (13 bp):
TTTACTAACCACC
Found at i:38267217 original size:19 final size:19
Alignment explanation
Indices: 38267193--38267239 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
38267183 ATTTCTTCTC
38267193 TGTTTCGTTTCAACTC-TTT
1 TGTTTC-TTTCAACTCTTTT
* *
38267212 TGTTTCTTTTAATTCTTTT
1 TGTTTCTTTCAACTCTTTT
38267231 TGTTTCTTT
1 TGTTTCTTT
38267240 TATTTTGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 7 0.28
19 18 0.72
ACGTcount: A:0.09, C:0.15, G:0.09, T:0.68
Consensus pattern (19 bp):
TGTTTCTTTCAACTCTTTT
Found at i:38267779 original size:27 final size:27
Alignment explanation
Indices: 38267743--38267795 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
38267733 TGATGCCACA
38267743 TTACAGTAGAAGAATCAGAAGAAACAT
1 TTACAGTAGAAGAATCAGAAGAAACAT
* * *
38267770 TTACATTAGAGGAATTAGAAGAAACA
1 TTACAGTAGAAGAATCAGAAGAAACA
38267796 CCATTAGGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.51, C:0.09, G:0.19, T:0.21
Consensus pattern (27 bp):
TTACAGTAGAAGAATCAGAAGAAACAT
Found at i:38271276 original size:237 final size:237
Alignment explanation
Indices: 38270861--38271338 Score: 947
Period size: 237 Copynumber: 2.0 Consensus size: 237
38270851 ATATATGCCA
*
38270861 AAGTTTATTAATATCATCATCTGACAAGGAAGAGGAAGCAACAGATACATCACTAGTAACAATAG
1 AAGTTTAGTAATATCATCATCTGACAAGGAAGAGGAAGCAACAGATACATCACTAGTAACAATAG
38270926 AACCCTGCAAAACATTTAACTTGGTAGTTTTTCTCTGCCCTTTCATCACAACAAGGGAACCTTTG
66 AACCCTGCAAAACATTTAACTTGGTAGTTTTTCTCTGCCCTTTCATCACAACAAGGGAACCTTTG
38270991 GAAATCTTTAAAACTTCACTTTCAGCTGTGCATTTATATCCTTTTGAATCAAGAGTACTCAACGA
131 GAAATCTTTAAAACTTCACTTTCAGCTGTGCATTTATATCCTTTTGAATCAAGAGTACTCAACGA
38271056 AATTAAATTTCTCTTCAATTCTGGAACATGTCGTACGTCACT
196 AATTAAATTTCTCTTCAATTCTGGAACATGTCGTACGTCACT
38271098 AAGTTTAGTAATATCATCATCTGACAAGGAAGAGGAAGCAACAGATACATCACTAGTAACAATAG
1 AAGTTTAGTAATATCATCATCTGACAAGGAAGAGGAAGCAACAGATACATCACTAGTAACAATAG
38271163 AACCCTGCAAAACATTTAACTTGGTAGTTTTTCTCTGCCCTTTCATCACAACAAGGGAACCTTTG
66 AACCCTGCAAAACATTTAACTTGGTAGTTTTTCTCTGCCCTTTCATCACAACAAGGGAACCTTTG
38271228 GAAATCTTTAAAACTTCACTTTCAGCTGTGCATTTATATCCTTTTGAATCAAGAGTACTCAACGA
131 GAAATCTTTAAAACTTCACTTTCAGCTGTGCATTTATATCCTTTTGAATCAAGAGTACTCAACGA
38271293 AATTAAATTTCTCTTCAATTCTGGAACATGTCGTACGTCACT
196 AATTAAATTTCTCTTCAATTCTGGAACATGTCGTACGTCACT
38271335 AAGT
1 AAGT
38271339 GTTCTAACAA
Statistics
Matches: 240, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
237 240 1.00
ACGTcount: A:0.34, C:0.21, G:0.14, T:0.31
Consensus pattern (237 bp):
AAGTTTAGTAATATCATCATCTGACAAGGAAGAGGAAGCAACAGATACATCACTAGTAACAATAG
AACCCTGCAAAACATTTAACTTGGTAGTTTTTCTCTGCCCTTTCATCACAACAAGGGAACCTTTG
GAAATCTTTAAAACTTCACTTTCAGCTGTGCATTTATATCCTTTTGAATCAAGAGTACTCAACGA
AATTAAATTTCTCTTCAATTCTGGAACATGTCGTACGTCACT
Found at i:38272655 original size:24 final size:24
Alignment explanation
Indices: 38272628--38272679 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
38272618 AATCAAATTC
* *
38272628 AAATATATTATACTTATAAATGCT
1 AAATATATTATACTCATAAATACT
38272652 AAATATATTATACTCATAAATACT
1 AAATATATTATACTCATAAATACT
38272676 AAAT
1 AAAT
38272680 CTTCTAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.50, C:0.10, G:0.02, T:0.38
Consensus pattern (24 bp):
AAATATATTATACTCATAAATACT
Found at i:38274561 original size:13 final size:13
Alignment explanation
Indices: 38274543--38274569 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
38274533 CTGAAGTAGT
38274543 TTTACTAACCACC
1 TTTACTAACCACC
38274556 TTTACTAACCACC
1 TTTACTAACCACC
38274569 T
1 T
38274570 GATCGTGACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.37, G:0.00, T:0.33
Consensus pattern (13 bp):
TTTACTAACCACC
Found at i:38274982 original size:8 final size:8
Alignment explanation
Indices: 38274969--38274993 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
38274959 TATTTATAAA
38274969 TATAAAAC
1 TATAAAAC
38274977 TATAAAAC
1 TATAAAAC
38274985 TATAAAAC
1 TATAAAAC
38274993 T
1 T
38274994 CATTAATTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (8 bp):
TATAAAAC
Found at i:38277598 original size:19 final size:18
Alignment explanation
Indices: 38277564--38277627 Score: 67
Period size: 20 Copynumber: 3.4 Consensus size: 18
38277554 ATTTTAAAAC
*
38277564 AATTTTAATTTTGATTGAA
1 AATTTTAA-CTTGATTGAA
38277583 AATATTTAACTTGATTGAA
1 AAT-TTTAACTTGATTGAA
38277602 ACCATTTTAACTTGATT-AA
1 A--ATTTTAACTTGATTGAA
*
38277621 AAGTTTA
1 AATTTTA
38277628 TCCAAAAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
17 5 0.12
19 16 0.40
20 17 0.43
21 2 0.05
ACGTcount: A:0.39, C:0.06, G:0.09, T:0.45
Consensus pattern (18 bp):
AATTTTAACTTGATTGAA
Found at i:38287615 original size:29 final size:30
Alignment explanation
Indices: 38287573--38287638 Score: 116
Period size: 29 Copynumber: 2.2 Consensus size: 30
38287563 GGCCCAGATT
38287573 CCCACACGCTCGTGTGGTGCACCC-TGTGA
1 CCCACACGCTCGTGTGGTGCACCCGTGTGA
*
38287602 CCCACACGCTCGTGTGGTGCACCCGTGTGG
1 CCCACACGCTCGTGTGGTGCACCCGTGTGA
38287632 CCCACAC
1 CCCACAC
38287639 AACCCATTTG
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
29 24 0.69
30 11 0.31
ACGTcount: A:0.14, C:0.41, G:0.27, T:0.18
Consensus pattern (30 bp):
CCCACACGCTCGTGTGGTGCACCCGTGTGA
Found at i:38294014 original size:56 final size:57
Alignment explanation
Indices: 38293916--38294108 Score: 182
Period size: 56 Copynumber: 3.4 Consensus size: 57
38293906 CATACAATAG
* * * **
38293916 GATTACCAGTCCAGGCTAAATCCTATCTGTAACATATGCTCT-AAGAGTTTTGTC-A
1 GATTACCAGTCCAGGCTAAATCCTATCTGTAACAAATACTCTAAAGAGCTTAATCTA
* * * *
38293971 TGATTACCAGTCTAGGCTAAATCCTTTTTGTGACAAATACTCTAAAGAGCTTAATCTA
1 -GATTACCAGTCCAGGCTAAATCCTATCTGTAACAAATACTCTAAAGAGCTTAATCTA
* * * * *
38294029 GATTACCAGTCCAGGCTAAATCC-AGACTTTAACATATGCTC-AAAG-GCTCAAT-TA
1 GATTACCAGTCCAGGCTAAATCCTA-TCTGTAACAAATACTCTAAAGAGCTTAATCTA
*
38294083 GGATTACCAATCCAGGCTAAATCCTA
1 -GATTACCAGTCCAGGCTAAATCCTA
38294109 ATTGCAACAT
Statistics
Matches: 113, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
54 2 0.02
55 28 0.25
56 41 0.36
57 41 0.36
58 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (57 bp):
GATTACCAGTCCAGGCTAAATCCTATCTGTAACAAATACTCTAAAGAGCTTAATCTA
Found at i:38294118 original size:55 final size:56
Alignment explanation
Indices: 38293913--38294162 Score: 215
Period size: 57 Copynumber: 4.4 Consensus size: 56
38293903 TATCATACAA
* * **
38293913 TAGGATTACCAGTCCAGGCTAAATCCT-ATCTGTAACATATGCTCTAAGAGTTTTGT
1 TAGGATTACCAGTCCAGGCTAAATCCTAAT-TGTAACATATGCTCAAAGAGCTTAAT
* * * ** * * *
38293969 CATGATTACCAGTCTAGGCTAAATCCTTTTTGTGACAAATACTCTAAAGAGCTTAAT
1 TAGGATTACCAGTCCAGGCTAAATCCTAATTGTAACATATGCTC-AAAGAGCTTAAT
*
38294026 CTA-GATTACCAGTCCAGGCTAAATCC-AGACTT-TAACATATGCTCAAAG-GCTCAAT
1 -TAGGATTACCAGTCCAGGCTAAATCCTA-A-TTGTAACATATGCTCAAAGAGCTTAAT
* * * *
38294081 TAGGATTACCAATCCAGGCTAAATCCTAATTGCAACATATGCTC-GAGAGGCTTGTAT
1 TAGGATTACCAGTCCAGGCTAAATCCTAATTGTAACATATGCTCAAAGA-GCTT-AAT
* * *
38294138 CAGGATTACTAGTCCGGGCTAAATC
1 TAGGATTACCAGTCCAGGCTAAATC
38294163 GTTTCGATAA
Statistics
Matches: 155, Mismatches: 28, Indels: 21
0.76 0.14 0.10
Matches are distributed among these distances:
54 6 0.04
55 40 0.26
56 43 0.28
57 63 0.41
58 3 0.02
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.30
Consensus pattern (56 bp):
TAGGATTACCAGTCCAGGCTAAATCCTAATTGTAACATATGCTCAAAGAGCTTAAT
Found at i:38308981 original size:28 final size:28
Alignment explanation
Indices: 38308941--38309019 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
38308931 GCAATCAAAT
* * *
38308941 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
*
38308969 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
* *
38308997 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTGCGAAATAT
38309020 CGAATGATTC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTGAGA
Found at i:38311057 original size:29 final size:29
Alignment explanation
Indices: 38311017--38311317 Score: 211
Period size: 28 Copynumber: 10.6 Consensus size: 29
38311007 CCATAACCGA
*
38311017 GCACTGTGTGTGCGAGATCGGTTGTTGAG
1 GCACTGTGTGTGCGAGATCAGTTGTTGAG
* * * * ****
38311046 GTACTATGTGTGCGAGTTCCGTAACCGA-
1 GCACTGTGTGTGCGAGATCAGTTGTTGAG
38311074 GCACTGTGTGTGCGAGATCAGTTGTTGAG
1 GCACTGTGTGTGCGAGATCAGTTGTTGAG
* * ****
38311103 GCACTGTGTGTGCGAGTTCCGTAACCGA-
1 GCACTGTGTGTGCGAGATCAGTTGTTGAG
38311131 GCACTGTGTGTGCGAGATCAGTTGTTGAG
1 GCACTGTGTGTGCGAGATCAGTTGTTGAG
* ****
38311160 GCACTGTGTGTGCGAGTTCCA-TAACCGA-
1 GCACTGTGTGTGCGAGAT-CAGTTGTTGAG
*
38311188 GCACTGTGTGTGCAAGATC-GATTGTTGAG
1 GCACTGTGTGTGCGAGATCAG-TTGTTGAG
* * ****
38311217 GCACTGTGTGTGCGAGTTCCGTAACCGA-
1 GCACTGTGTGTGCGAGATCAGTTGTTGAG
* * ***
38311245 GCACTGTGTGTGCGAGTTCCGTAACTGA-
1 GCACTGTGTGTGCGAGATCAGTTGTTGAG
**
38311273 GCACTGTGTGTGCGAGATTGGTTGTTGAG
1 GCACTGTGTGTGCGAGATCAGTTGTTGAG
* *
38311302 ACACTATGTGTGCGAG
1 GCACTGTGTGTGCGAG
38311318 TTCCGTAACC
Statistics
Matches: 210, Mismatches: 54, Indels: 16
0.75 0.19 0.06
Matches are distributed among these distances:
27 1 0.00
28 110 0.52
29 96 0.46
30 3 0.01
ACGTcount: A:0.18, C:0.18, G:0.35, T:0.29
Consensus pattern (29 bp):
GCACTGTGTGTGCGAGATCAGTTGTTGAG
Found at i:38311063 original size:57 final size:57
Alignment explanation
Indices: 38310987--38311288 Score: 473
Period size: 57 Copynumber: 5.3 Consensus size: 57
38310977 AAGTGAACAT
* * *
38310987 AGGCACTGTGTGTGTGAGTTCCATAACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCAGTTGTTG
* *
38311044 AGGTACTATGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCAGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCAGTTGTTG
38311101 AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCAGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCAGTTGTTG
* *
38311158 AGGCACTGTGTGTGCGAGTTCCATAACCGAGCACTGTGTGTGCAAGATC-GATTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCAG-TTGTTG
* * ***
38311215 AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGTTCCGTAACTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCAGTTGTTG
38311272 A-GCACTGTGTGTGCGAG
1 AGGCACTGTGTGTGCGAG
38311289 ATTGGTTGTT
Statistics
Matches: 228, Mismatches: 15, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
56 17 0.07
57 210 0.92
58 1 0.00
ACGTcount: A:0.19, C:0.19, G:0.34, T:0.28
Consensus pattern (57 bp):
AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCAGTTGTTG
Found at i:38311257 original size:142 final size:143
Alignment explanation
Indices: 38311103--38311372 Score: 443
Period size: 142 Copynumber: 1.9 Consensus size: 143
38311093 AGTTGTTGAG
* *
38311103 GCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCAGTTGTTGAGGCACTGTG
1 GCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCAGTTGTTGAGACACTATG
*
38311168 TGTGCGAGTTCCATAACCGAGCACTGTGTGTGCAAGATCGATTGTTGAGGCACT-GTGTGTGCGA
66 TGTGCGAGTTCCATAACCAAGCACTGTGTGTGCAAGATCGATTGTTGAGGCACTAGTGTGTGCGA
38311232 GTTCCGTAACCGA
131 GTTCCGTAACCGA
* **
38311245 GCACTGTGTGTGCGAGTTCCGTAACTGAGCACTGTGTGTGCGAGATTGGTTGTTGAGACACTATG
1 GCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCAGTTGTTGAGACACTATG
* * *
38311310 TGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCAAGATCGGTTGTTGGGGCACTAAGTGTGTG
66 TGTGCGAGTTCCATAACCAAGCACTGTGTGTGCAAGATCGATTGTTGAGGCACT-AGTGTGTG
38311373 AAATGAGATC
Statistics
Matches: 117, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
142 110 0.94
144 7 0.06
ACGTcount: A:0.19, C:0.19, G:0.34, T:0.29
Consensus pattern (143 bp):
GCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCAGTTGTTGAGACACTATG
TGTGCGAGTTCCATAACCAAGCACTGTGTGTGCAAGATCGATTGTTGAGGCACTAGTGTGTGCGA
GTTCCGTAACCGA
Found at i:38311312 original size:57 final size:57
Alignment explanation
Indices: 38311246--38311370 Score: 178
Period size: 57 Copynumber: 2.2 Consensus size: 57
38311236 CGTAACCGAG
* ** * *
38311246 CACTGTGTGTGCGAGTTCCGTAACTGAGCACTGTGTGTGCGAGATTGGTTGTTGAGA
1 CACTATGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCAAGATCGGTTGTTGAGA
* *
38311303 CACTATGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCAAGATCGGTTGTTGGGG
1 CACTATGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCAAGATCGGTTGTTGAGA
*
38311360 CACTAAGTGTG
1 CACTATGTGTG
38311371 TGAAATGAGA
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
57 60 1.00
ACGTcount: A:0.19, C:0.18, G:0.34, T:0.30
Consensus pattern (57 bp):
CACTATGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCAAGATCGGTTGTTGAGA
Found at i:38316355 original size:28 final size:28
Alignment explanation
Indices: 38316315--38316393 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
38316305 GCAATCAAAT
* * *
38316315 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
*
38316343 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
* *
38316371 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTGCGAAATAT
38316394 CGAATGATTC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTGAGA
Found at i:38318394 original size:28 final size:28
Alignment explanation
Indices: 38318363--38318545 Score: 170
Period size: 28 Copynumber: 6.5 Consensus size: 28
38318353 GTGAACATAG
* *
38318363 GCACTGTGTGTGTGAGTTCCATAACCGA
1 GCACTGTGTGTGCGAGTTCCGTAACCGA
* * ****
38318391 GCACTGTGTGTGCGAGATCGGTTGTTGA
1 GCACTGTGTGTGCGAGTTCCGTAACCGA
* *
38318419 GGTACTATGTGTGCGAGTTCCGTAACCGA
1 -GCACTGTGTGTGCGAGTTCCGTAACCGA
*
38318448 GCACTGTGTGTGCGAGTTCCGTAACTGA
1 GCACTGTGTGTGCGAGTTCCGTAACCGA
* ****
38318476 GCACTGTGTGTGCGAGATT-GGTTGTTGA
1 GCACTGTGTGTGCGAG-TTCCGTAACCGA
* *
38318504 GACACTATGTGTGCGAGTTCCGTAACCAA
1 G-CACTGTGTGTGCGAGTTCCGTAACCGA
38318533 GCACTGTGTGTGC
1 GCACTGTGTGTGC
38318546 AAGATCGGTT
Statistics
Matches: 120, Mismatches: 31, Indels: 8
0.75 0.19 0.05
Matches are distributed among these distances:
28 80 0.67
29 40 0.33
ACGTcount: A:0.19, C:0.19, G:0.33, T:0.30
Consensus pattern (28 bp):
GCACTGTGTGTGCGAGTTCCGTAACCGA
Found at i:38318511 original size:85 final size:85
Alignment explanation
Indices: 38318363--38318545 Score: 303
Period size: 85 Copynumber: 2.2 Consensus size: 85
38318353 GTGAACATAG
* **
38318363 GCACTGTGTGTGTGAGTTCCATAACCGAGCACTGTGTGTGCGAGATCGGTTGTTGAGGTACTATG
1 GCACTGTGTGTGCGAGTTCCATAACCGAGCACTGTGTGTGCGAGATCGGTTGTTGAGACACTATG
*
38318428 TGTGCGAGTTCCGTAACCGA
66 TGTGCGAGTTCCGTAACCAA
* * *
38318448 GCACTGTGTGTGCGAGTTCCGTAACTGAGCACTGTGTGTGCGAGATTGGTTGTTGAGACACTATG
1 GCACTGTGTGTGCGAGTTCCATAACCGAGCACTGTGTGTGCGAGATCGGTTGTTGAGACACTATG
38318513 TGTGCGAGTTCCGTAACCAA
66 TGTGCGAGTTCCGTAACCAA
38318533 GCACTGTGTGTGC
1 GCACTGTGTGTGC
38318546 AAGATCGGTT
Statistics
Matches: 91, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
85 91 1.00
ACGTcount: A:0.19, C:0.19, G:0.33, T:0.30
Consensus pattern (85 bp):
GCACTGTGTGTGCGAGTTCCATAACCGAGCACTGTGTGTGCGAGATCGGTTGTTGAGACACTATG
TGTGCGAGTTCCGTAACCAA
Found at i:38318515 original size:57 final size:57
Alignment explanation
Indices: 38318449--38318573 Score: 178
Period size: 57 Copynumber: 2.2 Consensus size: 57
38318439 CGTAACCGAG
* ** * *
38318449 CACTGTGTGTGCGAGTTCCGTAACTGAGCACTGTGTGTGCGAGATTGGTTGTTGAGA
1 CACTATGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCAAGATCGGTTGTTGAGA
* *
38318506 CACTATGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCAAGATCGGTTGTTGGGG
1 CACTATGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCAAGATCGGTTGTTGAGA
*
38318563 CACTAAGTGTG
1 CACTATGTGTG
38318574 TGAAATGAGA
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
57 60 1.00
ACGTcount: A:0.19, C:0.18, G:0.34, T:0.30
Consensus pattern (57 bp):
CACTATGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCAAGATCGGTTGTTGAGA
Found at i:38323558 original size:28 final size:28
Alignment explanation
Indices: 38323518--38323584 Score: 89
Period size: 28 Copynumber: 2.4 Consensus size: 28
38323508 GCAATCAATC
* *
38323518 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
* *
38323546 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
*
38323574 ATGACACTTAG
1 ATGGCACTTAG
38323585 GGTGCAAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.33, C:0.12, G:0.27, T:0.28
Consensus pattern (28 bp):
ATGGCACTTAGTGTACGAAATATTGAGA
Found at i:38323596 original size:28 final size:28
Alignment explanation
Indices: 38323535--38323596 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
38323525 TCAGTGTACG
* * *
38323535 AAATATTGAGAATGGCACTTAGTGTGCG
1 AAATATTGAGAATGACACTTAGGGTGCA
*
38323563 AGATATTGAGAATGACACTTAGGGTGCA
1 AAATATTGAGAATGACACTTAGGGTGCA
38323591 AAATAT
1 AAATAT
38323597 CGAATGATTC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.37, C:0.10, G:0.26, T:0.27
Consensus pattern (28 bp):
AAATATTGAGAATGACACTTAGGGTGCA
Found at i:38328393 original size:3 final size:3
Alignment explanation
Indices: 38328387--38328419 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
38328377 CCACCACCAC
38328387 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
38328420 AAGAATCCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
CAT
Found at i:38331561 original size:19 final size:19
Alignment explanation
Indices: 38331530--38331590 Score: 74
Period size: 20 Copynumber: 3.2 Consensus size: 19
38331520 TTAAAACAAT
38331530 TTTAACTTTGATTGAAAATG
1 TTTAAC-TTGATTGAAAATG
38331550 TTTAACTTGATTGAAACCAT-
1 TTTAACTTGATTGAAA--ATG
38331570 TTTAACTTGATT-AAAA-G
1 TTTAACTTGATTGAAAATG
38331587 TTTA
1 TTTA
38331591 TTCAAAAAGT
Statistics
Matches: 38, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
17 5 0.13
19 13 0.34
20 18 0.47
21 2 0.05
ACGTcount: A:0.36, C:0.08, G:0.11, T:0.44
Consensus pattern (19 bp):
TTTAACTTGATTGAAAATG
Found at i:38338336 original size:12 final size:13
Alignment explanation
Indices: 38338319--38338355 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
38338309 GAACCGGACA
38338319 CGAACCGAA-CTC
1 CGAACCGAAGCTC
38338331 CGAACC-AAGCTC
1 CGAACCGAAGCTC
*
38338343 CGAACCGTAGCTC
1 CGAACCGAAGCTC
38338356 TGATGCCACT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
11 2 0.09
12 15 0.68
13 5 0.23
ACGTcount: A:0.30, C:0.41, G:0.19, T:0.11
Consensus pattern (13 bp):
CGAACCGAAGCTC
Found at i:38344332 original size:24 final size:24
Alignment explanation
Indices: 38344303--38344352 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
38344293 TTATCCTATT
38344303 AGGATATCTCAAAACTTTATTTGC
1 AGGATATCTCAAAACTTTATTTGC
38344327 AGGATATCTCAAAACTTTATTTGC
1 AGGATATCTCAAAACTTTATTTGC
38344351 AG
1 AG
38344353 CTCTCCAATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (24 bp):
AGGATATCTCAAAACTTTATTTGC
Found at i:38347604 original size:18 final size:18
Alignment explanation
Indices: 38347464--38347610 Score: 70
Period size: 18 Copynumber: 8.2 Consensus size: 18
38347454 ATCTTTGCGA
*
38347464 AGCTCGCATGTTT-GATG
1 AGCTCGCAAGTTTGGATG
* * * *
38347481 AGCTCGTAATTTTGGTTA
1 AGCTCGCAAGTTTGGATG
*
38347499 AGCTCGC-AGCTTTCGATG
1 AGCTCGCAAG-TTTGGATG
* * **
38347517 AACTTGCAA-TTATGTTTG
1 AGCTCGCAAGTT-TGGATG
* * *
38347535 AGCTCGTAACTTTGAATG
1 AGCTCGCAAGTTTGGATG
* *
38347553 AGCTCG-TAGTTTTCGATG
1 AGCTCGCAAG-TTTGGATG
*
38347571 AGCTCGCATA-TCTGGATG
1 AGCTCGCA-AGTTTGGATG
*
38347589 AGCTCGCAAGTTTGGATA
1 AGCTCGCAAGTTTGGATG
38347607 AGCT
1 AGCT
38347611 AACAACTTTG
Statistics
Matches: 92, Mismatches: 29, Indels: 17
0.67 0.21 0.12
Matches are distributed among these distances:
17 15 0.16
18 73 0.79
19 3 0.03
20 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.35
Consensus pattern (18 bp):
AGCTCGCAAGTTTGGATG
Found at i:38354851 original size:20 final size:19
Alignment explanation
Indices: 38354802--38354873 Score: 51
Period size: 20 Copynumber: 3.6 Consensus size: 19
38354792 AATTTTAGAA
*
38354802 AATTTTTTTATATTATTTT
1 AATTTTTTTTTATTATTTT
38354821 --TTTGTAATTTTTATTATTTT
1 AATTT-T--TTTTTATTATTTT
*
38354841 AATTTATTTTTAATTCA-TTT
1 AATTT-TTTTTTATT-ATTTT
38354861 AGATTTTTTTTTA
1 A-ATTTTTTTTTA
38354874 ATTTTTAGGA
Statistics
Matches: 42, Mismatches: 4, Indels: 13
0.71 0.07 0.22
Matches are distributed among these distances:
17 3 0.07
18 1 0.02
20 29 0.69
21 5 0.12
22 4 0.10
ACGTcount: A:0.25, C:0.01, G:0.03, T:0.71
Consensus pattern (19 bp):
AATTTTTTTTTATTATTTT
Found at i:38354866 original size:21 final size:20
Alignment explanation
Indices: 38354838--38354876 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
38354828 TTTTTATTAT
38354838 TTTAATTTATTTTTAATTCA
1 TTTAATTTATTTTTAATTCA
*
38354858 TTTAGATTTTTTTTTAATT
1 TTTA-ATTTATTTTTAATT
38354877 TTTAGGATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.69
Consensus pattern (20 bp):
TTTAATTTATTTTTAATTCA
Found at i:38354888 original size:21 final size:20
Alignment explanation
Indices: 38354828--38354889 Score: 67
Period size: 20 Copynumber: 3.1 Consensus size: 20
38354818 TTTTTTGTAA
*
38354828 TTTTT-ATTATTTTA-ATTTA
1 TTTTTAATTA-TTTAGATTTT
38354847 TTTTTAATTCATTTAGATTTT
1 TTTTTAATT-ATTTAGATTTT
38354868 TTTTTAATT-TTTAGGATTTT
1 TTTTTAATTATTTA-GATTTT
38354888 TT
1 TT
38354890 AAAGTTTCTG
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
19 9 0.24
20 15 0.39
21 14 0.37
ACGTcount: A:0.23, C:0.02, G:0.05, T:0.71
Consensus pattern (20 bp):
TTTTTAATTATTTAGATTTT
Found at i:38355312 original size:20 final size:22
Alignment explanation
Indices: 38355278--38355318 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
38355268 ACAACAGTCT
38355278 TCTCACAATTCTCTCTAAATTC
1 TCTCACAATTCTCTCTAAATTC
*
38355300 TCTC-CAATT-TCTCTCAATT
1 TCTCACAATTCTCTCTAAATT
38355319 TTTGTCAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 5 0.28
22 4 0.22
ACGTcount: A:0.24, C:0.32, G:0.00, T:0.44
Consensus pattern (22 bp):
TCTCACAATTCTCTCTAAATTC
Found at i:38357056 original size:30 final size:30
Alignment explanation
Indices: 38357020--38357140 Score: 127
Period size: 30 Copynumber: 4.0 Consensus size: 30
38357010 ACGCGAGCCT
* *
38357020 ATCAACAGCTTCCACACAGTCACCAGGCTC
1 ATCAACAGCTCCCACACAGTCACCAGGCCC
* * *
38357050 ATCAACAGCGCCCACACAGTGACCGGGCCC
1 ATCAACAGCTCCCACACAGTCACCAGGCCC
* * * *
38357080 ATTAACAGCGCCGACACAGTCATCAGGCCC
1 ATCAACAGCTCCCACACAGTCACCAGGCCC
* *
38357110 ATCAATAG-TGCCCACACAGTCACCAGACCC
1 ATCAACAGCT-CCCACACAGTCACCAGGCCC
38357140 A
1 A
38357141 ACACTTGAAC
Statistics
Matches: 74, Mismatches: 16, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
30 74 1.00
ACGTcount: A:0.31, C:0.40, G:0.17, T:0.12
Consensus pattern (30 bp):
ATCAACAGCTCCCACACAGTCACCAGGCCC
Found at i:38357536 original size:21 final size:22
Alignment explanation
Indices: 38357499--38357541 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
38357489 CTCCTGGAGG
38357499 AACCACAATCCCCGCC-GAAGC
1 AACCACAATCCCCGCCGGAAGC
*
38357520 AACCACAA-CCCTTGCCGGAAGC
1 AACCACAATCCC-CGCCGGAAGC
38357542 TGAACCAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 3 0.16
21 11 0.58
22 5 0.26
ACGTcount: A:0.33, C:0.44, G:0.16, T:0.07
Consensus pattern (22 bp):
AACCACAATCCCCGCCGGAAGC
Found at i:38361072 original size:127 final size:126
Alignment explanation
Indices: 38360847--38361116 Score: 371
Period size: 127 Copynumber: 2.1 Consensus size: 126
38360837 CAAATAGTAA
* * ** * * * * *
38360847 ACTACTGTAGTAAAAGAGCGTCCGTGTGAGAGGTTTTTTCTGTAATTTTGCTGATAGTGCATCCT
1 ACTACTGTAGCAAAAAAGCGTCCACGTGAGAGCTTTTATCCGTAATTTTACTGAAAGTGCATCCT
* * *
38360912 GCTTGAAGCGTTTTGGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTT-TTCAGAT
66 GCTTAAAACGTTTTGGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTCTTCA-AT
*
38360973 ACTACTGTAGCAAAAAAGCGTCCACGTGAGAGCTTTTATCCGTAATTTTACTGACAAGTGCATCT
1 ACTACTGTAGCAAAAAAGCGTCCACGTGAGAGCTTTTATCCGTAATTTTACTGA-AAGTGCATCC
* *
38361038 TGCTTAAAACGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTCTTTAAT
65 TGCTTAAAACGTTTTGGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTCTTCAAT
*
38361100 ACTACTGCAGCAAAAAA
1 ACTACTGTAGCAAAAAA
38361117 AAATAAAAAA
Statistics
Matches: 126, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
126 46 0.37
127 77 0.61
128 3 0.02
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.36
Consensus pattern (126 bp):
ACTACTGTAGCAAAAAAGCGTCCACGTGAGAGCTTTTATCCGTAATTTTACTGAAAGTGCATCCT
GCTTAAAACGTTTTGGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTCTTCAAT
Found at i:38361269 original size:64 final size:62
Alignment explanation
Indices: 38361175--38361304 Score: 208
Period size: 64 Copynumber: 2.1 Consensus size: 62
38361165 TAATTAACCC
*
38361175 TAATAACCCTAAACCTTAAACCCTAATTTAATTGATTCTTTTAAATTAATAGTTAATTTAAT
1 TAATAACCCTAAACCTTAAACCCTAATTTAATTAATTCTTTTAAATTAATAGTTAATTTAAT
*
38361237 TAATAAACCCTAAAATCC-TAAACCCTAATTTAATTAATTTTTTTAAATTAATAGTTAATTTAAT
1 TAAT-AACCCT-AAA-CCTTAAACCCTAATTTAATTAATTCTTTTAAATTAATAGTTAATTTAAT
38361301 TAAT
1 TAAT
38361305 TAACTCTCAA
Statistics
Matches: 63, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
62 4 0.06
63 6 0.10
64 51 0.81
65 2 0.03
ACGTcount: A:0.42, C:0.13, G:0.02, T:0.42
Consensus pattern (62 bp):
TAATAACCCTAAACCTTAAACCCTAATTTAATTAATTCTTTTAAATTAATAGTTAATTTAAT
Found at i:38361332 original size:56 final size:59
Alignment explanation
Indices: 38361191--38361334 Score: 186
Period size: 64 Copynumber: 2.4 Consensus size: 59
38361181 CCCTAAACCT
* *
38361191 TAAACCCTAATTTAATTGATTCTTTTAAATTAATAGTTAATTTAATTAATAAACCCTAAAATCC
1 TAAACCCTAATTTAATTAATTTTTTTAAATTAATAGTTAATTTAATTAAT--A---TAAAATCC
*
38361255 TAAACCCTAATTTAATTAATTTTTTTAAATTAATAGTTAATTTAATTAAT-T-AACT-C
1 TAAACCCTAATTTAATTAATTTTTTTAAATTAATAGTTAATTTAATTAATATAAAATCC
*
38361311 TCAACCCTAATTTAATTAATTTTT
1 TAAACCCTAATTTAATTAATTTTT
38361335 CCTTTAAAAA
Statistics
Matches: 76, Mismatches: 4, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
56 24 0.32
57 3 0.04
58 1 0.01
64 48 0.63
ACGTcount: A:0.40, C:0.12, G:0.02, T:0.45
Consensus pattern (59 bp):
TAAACCCTAATTTAATTAATTTTTTTAAATTAATAGTTAATTTAATTAATATAAAATCC
Found at i:38361370 original size:16 final size:14
Alignment explanation
Indices: 38361343--38361395 Score: 54
Period size: 16 Copynumber: 3.6 Consensus size: 14
38361333 TTCCTTTAAA
38361343 AAACACTAAAACCTT
1 AAAC-CTAAAACCTT
*
38361358 AAACTCTTAAAACCCT
1 AAAC-C-TAAAACCTT
38361374 AAACCT-AAACCTT
1 AAACCTAAAACCTT
*
38361387 AACCCTAAA
1 AAACCTAAA
38361396 CCAATCAGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
13 11 0.34
14 3 0.09
15 6 0.19
16 12 0.38
ACGTcount: A:0.49, C:0.30, G:0.00, T:0.21
Consensus pattern (14 bp):
AAACCTAAAACCTT
Found at i:38363747 original size:3 final size:3
Alignment explanation
Indices: 38363739--38363814 Score: 73
Period size: 3 Copynumber: 25.7 Consensus size: 3
38363729 TAATTTTAAC
* * * *
38363739 ATT ATT ATT TTT ATT ATT ATT ACT ATT -TT TTT ACT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * *
38363786 ATT ATC ACT ACT ATT ATT ATA ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
38363815 AGTATTTTTA
Statistics
Matches: 59, Mismatches: 13, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
2 2 0.03
3 57 0.97
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:38364667 original size:154 final size:155
Alignment explanation
Indices: 38364263--38365031 Score: 1352
Period size: 155 Copynumber: 5.0 Consensus size: 155
38364253 AATTTTATTA
* * *
38364263 TTGTTAAACCCTTTTTTTCACATGATCGTTATTTATTTACTCGATTACCACTGGTTATTTTAAAA
1 TTGTTAAACCCTTTTTTTCACATGATCGTTATTTATTTACTTGATTACCATTAGTTATTTTAAAA
38364328 TTTTGAATTTCTTAGCTTACTTATTATTTTTTCCTTTTTATGATTAATTTGATTCATTTTATTCG
66 TTTTGAATTTCTTAGCTTACTTATTATTTTTTCCTTTTTATGATTAATTTGATTCATTTTATTCG
*
38364393 TTCGTTCTCGTTTTCCTTGTTATAT
131 TTCGTTCTCGTTTTCCTTGTTGTAT
* *
38364418 TTGTTAAACCCTTTTTTTCACATGATTGTTATTTTTTTTACTTGATTACCATTAGTTATTTTAAA
1 TTGTTAAACCCTTTTTTTCACATGATCGTTA-TTTATTTACTTGATTACCATTAGTTATTTTAAA
*
38364483 A-TTTGAATTTCTTAGCTTGCTTATTATTTTTTCCTTTTTATGATTAATTTGATTCA-TTTATTC
65 ATTTTGAATTTCTTAGCTTACTTATTATTTTTTCCTTTTTATGATTAATTTGATTCATTTTATTC
38364546 GTTCGTTCTCGTTTTCCTTGTTGTAT
130 GTTCGTTCTCGTTTTCCTTGTTGTAT
*
38364572 TTGTTAAA-CCATTTTTTCACATGATCGTTATTTATTTACTTGATTACCATTAGTTATTTTAAAA
1 TTGTTAAACCCTTTTTTTCACATGATCGTTATTTATTTACTTGATTACCATTAGTTATTTTAAAA
38364636 TTTTGAATTTCTTAGCTTACTTATTATTTTTTCCTTTTTATGATTAATTTGATTCATTTTATTCG
66 TTTTGAATTTCTTAGCTTACTTATTATTTTTTCCTTTTTATGATTAATTTGATTCATTTTATTCG
*
38364701 TTCGTTCTCGTTTTCCTTGTTATAT
131 TTCGTTCTCGTTTTCCTTGTTGTAT
* *
38364726 TTGTTAAACCCTTTTTTTCACATGATTGTTATTTTTTTTACTTGATTACCATTAGTTATTTTAAA
1 TTGTTAAACCCTTTTTTTCACATGATCGTTA-TTTATTTACTTGATTACCATTAGTTATTTTAAA
*
38364791 A-TTTGAATTTCTTAGCTTGCTTATTATTTTTTCCTTTTTATGATTAATTTGATTCA-TTTATTC
65 ATTTTGAATTTCTTAGCTTACTTATTATTTTTTCCTTTTTATGATTAATTTGATTCATTTTATTC
38364854 GTTCGTTCTCGTTTTCCTTGTTGTAT
130 GTTCGTTCTCGTTTTCCTTGTTGTAT
*
38364880 TTGTTAAA-CCATTTTTTCACATGATCGTTATTTATTTACTTGATTACCATTAGTTATTTTAAAA
1 TTGTTAAACCCTTTTTTTCACATGATCGTTATTTATTTACTTGATTACCATTAGTTATTTTAAAA
*
38364944 TTTTGAATTTCTTAGCTTACTTATTATTTTTTCCTTTTTATGAATAATTTGATTCATTTTATTCG
66 TTTTGAATTTCTTAGCTTACTTATTATTTTTTCCTTTTTATGATTAATTTGATTCATTTTATTCG
38365009 TTCGTTCTCGTTTTCCTTGTTGT
131 TTCGTTCTCGTTTTCCTTGTTGT
38365032 TGCTTAACGC
Statistics
Matches: 585, Mismatches: 22, Indels: 15
0.94 0.04 0.02
Matches are distributed among these distances:
152 66 0.11
153 147 0.25
154 151 0.26
155 158 0.27
156 63 0.11
ACGTcount: A:0.21, C:0.13, G:0.09, T:0.57
Consensus pattern (155 bp):
TTGTTAAACCCTTTTTTTCACATGATCGTTATTTATTTACTTGATTACCATTAGTTATTTTAAAA
TTTTGAATTTCTTAGCTTACTTATTATTTTTTCCTTTTTATGATTAATTTGATTCATTTTATTCG
TTCGTTCTCGTTTTCCTTGTTGTAT
Found at i:38364833 original size:308 final size:308
Alignment explanation
Indices: 38364263--38365029 Score: 1480
Period size: 308 Copynumber: 2.5 Consensus size: 308
38364253 AATTTTATTA
* * * *
38364263 TTGTTAAACCCTTTTTTTCACATGATCGTTATTTATTTACTCGATTACCACTGGTTATTTTAAAA
1 TTGTTAAA-CCATTTTTTCACATGATCGTTATTTATTTACTTGATTACCATTAGTTATTTTAAAA
38364328 TTTTGAATTTCTTAGCTTACTTATTATTTTTTCCTTTTTATGATTAATTTGATTCATTTTATTCG
65 TTTTGAATTTCTTAGCTTACTTATTATTTTTTCCTTTTTATGATTAATTTGATTCATTTTATTCG
38364393 TTCGTTCTCGTTTTCCTTGTTATATTTGTTAAACCCTTTTTTTCACATGATTGTTATTTTTTTTA
130 TTCGTTCTCGTTTTCCTTGTTATATTTGTTAAACCCTTTTTTTCACATGATTGTTATTTTTTTTA
38364458 CTTGATTACCATTAGTTATTTTAAAATTTGAATTTCTTAGCTTGCTTATTATTTTTTCCTTTTTA
195 CTTGATTACCATTAGTTATTTTAAAATTTGAATTTCTTAGCTTGCTTATTATTTTTTCCTTTTTA
38364523 TGATTAATTTGATTCATTTATTCGTTCGTTCTCGTTTTCCTTGTTGTAT
260 TGATTAATTTGATTCATTTATTCGTTCGTTCTCGTTTTCCTTGTTGTAT
38364572 TTGTTAAACCATTTTTTCACATGATCGTTATTTATTTACTTGATTACCATTAGTTATTTTAAAAT
1 TTGTTAAACCATTTTTTCACATGATCGTTATTTATTTACTTGATTACCATTAGTTATTTTAAAAT
38364637 TTTGAATTTCTTAGCTTACTTATTATTTTTTCCTTTTTATGATTAATTTGATTCATTTTATTCGT
66 TTTGAATTTCTTAGCTTACTTATTATTTTTTCCTTTTTATGATTAATTTGATTCATTTTATTCGT
38364702 TCGTTCTCGTTTTCCTTGTTATATTTGTTAAACCCTTTTTTTCACATGATTGTTATTTTTTTTAC
131 TCGTTCTCGTTTTCCTTGTTATATTTGTTAAACCCTTTTTTTCACATGATTGTTATTTTTTTTAC
38364767 TTGATTACCATTAGTTATTTTAAAATTTGAATTTCTTAGCTTGCTTATTATTTTTTCCTTTTTAT
196 TTGATTACCATTAGTTATTTTAAAATTTGAATTTCTTAGCTTGCTTATTATTTTTTCCTTTTTAT
38364832 GATTAATTTGATTCATTTATTCGTTCGTTCTCGTTTTCCTTGTTGTAT
261 GATTAATTTGATTCATTTATTCGTTCGTTCTCGTTTTCCTTGTTGTAT
38364880 TTGTTAAACCATTTTTTCACATGATCGTTATTTATTTACTTGATTACCATTAGTTATTTTAAAAT
1 TTGTTAAACCATTTTTTCACATGATCGTTATTTATTTACTTGATTACCATTAGTTATTTTAAAAT
*
38364945 TTTGAATTTCTTAGCTTACTTATTATTTTTTCCTTTTTATGAATAATTTGATTCATTTTATTCGT
66 TTTGAATTTCTTAGCTTACTTATTATTTTTTCCTTTTTATGATTAATTTGATTCATTTTATTCGT
38365010 TCGTTCTCGTTTTCCTTGTT
131 TCGTTCTCGTTTTCCTTGTT
38365030 GTTGCTTAAC
Statistics
Matches: 453, Mismatches: 5, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
308 445 0.98
309 8 0.02
ACGTcount: A:0.21, C:0.13, G:0.09, T:0.57
Consensus pattern (308 bp):
TTGTTAAACCATTTTTTCACATGATCGTTATTTATTTACTTGATTACCATTAGTTATTTTAAAAT
TTTGAATTTCTTAGCTTACTTATTATTTTTTCCTTTTTATGATTAATTTGATTCATTTTATTCGT
TCGTTCTCGTTTTCCTTGTTATATTTGTTAAACCCTTTTTTTCACATGATTGTTATTTTTTTTAC
TTGATTACCATTAGTTATTTTAAAATTTGAATTTCTTAGCTTGCTTATTATTTTTTCCTTTTTAT
GATTAATTTGATTCATTTATTCGTTCGTTCTCGTTTTCCTTGTTGTAT
Found at i:38366715 original size:11 final size:11
Alignment explanation
Indices: 38366701--38366740 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
38366691 GTTTTCTCCC
38366701 TATTTTGCTAT
1 TATTTTGCTAT
*
38366712 TATTTTACTAT
1 TATTTTGCTAT
* *
38366723 TATGTTGCTAC
1 TATTTTGCTAT
38366734 TATTTTG
1 TATTTTG
38366741 TTGTTATTGT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.20, C:0.10, G:0.10, T:0.60
Consensus pattern (11 bp):
TATTTTGCTAT
Found at i:38366987 original size:12 final size:12
Alignment explanation
Indices: 38366957--38366989 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
38366947 TATATATTTT
38366957 AAAATT-ATATA
1 AAAATTAATATA
38366968 AAAA-TAATATA
1 AAAATTAATATA
38366979 AAAATTAATAT
1 AAAATTAATAT
38366990 GGGCGGGTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:38367349 original size:45 final size:45
Alignment explanation
Indices: 38367254--38367465 Score: 232
Period size: 45 Copynumber: 4.7 Consensus size: 45
38367244 AGGTAGAGGG
* * *
38367254 TATATATAATAATTGTTAGTTTCACCGACCAGTGCTGGGCACATACA
1 TATATATAATATTTGTTGGTTTCACCGACTAGTGCTGGGCACAT--A
* * *
38367301 TATATATAATATTTGTCGGTTTCACCAACTAGTGTTGGGCACATA
1 TATATATAATATTTGTTGGTTTCACCGACTAGTGCTGGGCACATA
* * * * *
38367346 TATATAGT-A-A-TTGTCGGTTTTACCGACCAGTACTGGGCACAAA
1 TATATA-TAATATTTGTTGGTTTCACCGACTAGTGCTGGGCACATA
* **
38367389 TATATATAATATTTGTTGGTTTCACCGACTAGTGCTTGGCACACG
1 TATATATAATATTTGTTGGTTTCACCGACTAGTGCTGGGCACATA
* *
38367434 TATATGTAATATTTGTTGGTTTCACCAACTAG
1 TATATATAATATTTGTTGGTTTCACCGACTAG
38367466 CGCTAGGTGC
Statistics
Matches: 140, Mismatches: 21, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
42 1 0.01
43 34 0.24
44 2 0.01
45 64 0.46
46 1 0.01
47 38 0.27
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (45 bp):
TATATATAATATTTGTTGGTTTCACCGACTAGTGCTGGGCACATA
Found at i:38367357 original size:90 final size:89
Alignment explanation
Indices: 38367254--38367459 Score: 281
Period size: 90 Copynumber: 2.3 Consensus size: 89
38367244 AGGTAGAGGG
* *
38367254 TATATATAATAATTGTTAGTTTCACCGACCAGTGCTGGGCACATACATATATATAATATTTGTCG
1 TATATATAATAATTGTTGGTTTCACCGACCAGTACTGGGCACA-A-ATATATATAATATTTGTCG
38367319 GTTTCACCAACTAGTG-TTGGGCACA-
64 GTTTCACCAACTAGTGCTT-GGCACAC
* * * *
38367344 TATATATAGTAATTGTCGGTTTTACCGACCAGTACTGGGCACAAATATATATAATATTTGTTGGT
1 TATATATAATAATTGTTGGTTTCACCGACCAGTACTGGGCACAAATATATATAATATTTGTCGGT
*
38367409 TTCACCGACTAGTGCTTGGCACAC
66 TTCACCAACTAGTGCTTGGCACAC
* *
38367433 GTATATGTAATATTTGTTGGTTTCACC
1 -TATATATAATAATTGTTGGTTTCACC
38367460 AACTAGCGCT
Statistics
Matches: 101, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
88 39 0.39
89 3 0.03
90 59 0.58
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.36
Consensus pattern (89 bp):
TATATATAATAATTGTTGGTTTCACCGACCAGTACTGGGCACAAATATATATAATATTTGTCGGT
TTCACCAACTAGTGCTTGGCACAC
Found at i:38371262 original size:51 final size:52
Alignment explanation
Indices: 38371160--38371263 Score: 183
Period size: 51 Copynumber: 2.0 Consensus size: 52
38371150 CAAAAAAAAA
38371160 GATAAAATTGAGTTTTGACTAAATTTGTGAAAAGGCCATTCCAGTAAGCTTG
1 GATAAAATTGAGTTTTGACTAAATTTGTGAAAAGGCCATTCCAGTAAGCTTG
* *
38371212 GATAAAATTGAGTTTTGACTAAA-TTGTGAAAGGGCCATTCCAGTAGGCTTG
1 GATAAAATTGAGTTTTGACTAAATTTGTGAAAAGGCCATTCCAGTAAGCTTG
38371263 G
1 G
38371264 CTTGCCAATA
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
51 27 0.54
52 23 0.46
ACGTcount: A:0.33, C:0.12, G:0.24, T:0.32
Consensus pattern (52 bp):
GATAAAATTGAGTTTTGACTAAATTTGTGAAAAGGCCATTCCAGTAAGCTTG
Found at i:38373255 original size:16 final size:16
Alignment explanation
Indices: 38373234--38373264 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
38373224 TCTTTGTTTA
*
38373234 AATTTTTTTTGAATTT
1 AATTTTTTTTAAATTT
38373250 AATTTTTTTTAAATT
1 AATTTTTTTTAAATT
38373265 AAAAAAACCG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (16 bp):
AATTTTTTTTAAATTT
Found at i:38373427 original size:49 final size:47
Alignment explanation
Indices: 38373360--38373470 Score: 134
Period size: 48 Copynumber: 2.3 Consensus size: 47
38373350 AGTGATAATT
*
38373360 TTAAATTTTCAATACTATTCGATATTTTTTTTAATTTATGCAAATT-TAA
1 TTAAA-TTTCAATACTATTCGATA-TTTTATTAATTTATGC-AATTATAA
* * *
38373409 TTAAATTTGCAATTCTATTTGATATTTTATTCATTTATGCAATTATAA
1 TTAAATTT-CAATACTATTCGATATTTTATTAATTTATGCAATTATAA
38373457 TTAAAATTTCAATA
1 TT-AAATTTCAATA
38373471 TTGCTTGATT
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
47 4 0.07
48 26 0.48
49 24 0.44
ACGTcount: A:0.36, C:0.08, G:0.05, T:0.51
Consensus pattern (47 bp):
TTAAATTTCAATACTATTCGATATTTTATTAATTTATGCAATTATAA
Found at i:38373479 original size:48 final size:45
Alignment explanation
Indices: 38373385--38373492 Score: 114
Period size: 48 Copynumber: 2.3 Consensus size: 45
38373375 TATTCGATAT
*
38373385 TTTTTTTAATTTATGCAAATTTAATTAAATTTGCAATTCTATTTGA
1 TTTTTTT-ATTTATGCAAATTTAATTAAATTTGCAATTCTACTTGA
*
38373431 TATTTTATTCATTTATGC-AATTATAATTAAAATTT-CAATAT-TGCTTGA
1 T-TTTT-TT-ATTTATGCAAATT-TAATT-AAATTTGCAAT-TCTACTTGA
38373479 TTTTTTTATTTATG
1 TTTTTTTATTTATG
38373493 ATGTTTGTAT
Statistics
Matches: 54, Mismatches: 3, Indels: 11
0.79 0.04 0.16
Matches are distributed among these distances:
45 7 0.13
46 3 0.06
47 12 0.22
48 25 0.46
49 7 0.13
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.56
Consensus pattern (45 bp):
TTTTTTTATTTATGCAAATTTAATTAAATTTGCAATTCTACTTGA
Found at i:38375762 original size:22 final size:23
Alignment explanation
Indices: 38375731--38375773 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
38375721 AATCGAGTTT
* *
38375731 TTTTTAATTTATGTTTTTATTCG
1 TTTTTAATTTAAGATTTTATTCG
38375754 TTTTT-ATTTAAGATTTTATT
1 TTTTTAATTTAAGATTTTATT
38375774 ATTTGATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.21, C:0.02, G:0.07, T:0.70
Consensus pattern (23 bp):
TTTTTAATTTAAGATTTTATTCG
Found at i:38375938 original size:34 final size:30
Alignment explanation
Indices: 38375878--38375979 Score: 107
Period size: 31 Copynumber: 3.2 Consensus size: 30
38375868 TATTATGTAA
* *
38375878 TATTTCTATTTTAAAATTT-TCTTTATACAT
1 TATTTTTATTTTAAAATTTAT-ATTATACAT
*
38375908 GTATTTTTGTTTTCAAAATTTATACATTATACAT
1 -TATTTTTATTTT-AAAATTTAT--ATTATACAT
*
38375942 TATATATTATTTTAAAATTTATATTATACAT
1 TAT-TTTTATTTTAAAATTTATATTATACAT
38375973 TATTTTT
1 TATTTTT
38375980 TTATATATAT
Statistics
Matches: 61, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
30 3 0.05
31 22 0.36
32 7 0.11
33 13 0.21
34 16 0.26
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.58
Consensus pattern (30 bp):
TATTTTTATTTTAAAATTTATATTATACAT
Found at i:38376017 original size:14 final size:14
Alignment explanation
Indices: 38375942--38376017 Score: 50
Period size: 14 Copynumber: 5.5 Consensus size: 14
38375932 CATTATACAT
38375942 TATATATTATTTTA
1 TATATATTATTTTA
* *
38375956 -AAAT-TTATATTA
1 TATATATTATTTTA
* *
38375968 TACATTATTTTTTTA
1 TATA-TATTATTTTA
*
38375983 TATATATTA-TTGA
1 TATATATTATTTTA
*
38375996 TTTCATATTATTTTA
1 TAT-ATATTATTTTA
*
38376011 TGTATAT
1 TATATAT
38376018 ATCACTTCTT
Statistics
Matches: 46, Mismatches: 11, Indels: 10
0.69 0.16 0.15
Matches are distributed among these distances:
12 7 0.15
13 10 0.22
14 15 0.33
15 14 0.30
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.61
Consensus pattern (14 bp):
TATATATTATTTTA
Found at i:38380803 original size:19 final size:20
Alignment explanation
Indices: 38380755--38380803 Score: 50
Period size: 19 Copynumber: 2.5 Consensus size: 20
38380745 ATAGGCATCC
38380755 AAAAA-GAAAAAAAGTACAA
1 AAAAAGGAAAAAAAGTACAA
* *
38380774 AAATAGAAAAAAAAG-A-AA
1 AAAAAGGAAAAAAAGTACAA
38380792 GAAAAAGGAAAA
1 -AAAAAGGAAAA
38380804 GCAATAAAAC
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
18 2 0.08
19 14 0.58
20 8 0.33
ACGTcount: A:0.80, C:0.02, G:0.14, T:0.04
Consensus pattern (20 bp):
AAAAAGGAAAAAAAGTACAA
Found at i:38381372 original size:14 final size:14
Alignment explanation
Indices: 38381344--38381421 Score: 54
Period size: 14 Copynumber: 5.4 Consensus size: 14
38381334 CATTGAGACC
**
38381344 TAAAAAAATTGAAA
1 TAAAAAAATAAAAA
38381358 TAAAAAAATAAAAA
1 TAAAAAAATAAAAA
**
38381372 TCAAAACAAA-AAATG
1 T-AAAA-AAATAAAAA
38381387 TAAAAAAA-AGGGAAAA
1 TAAAAAAATA---AAAA
38381403 TAAAAAAATAAAAA
1 TAAAAAAATAAAAA
38381417 -AAAAA
1 TAAAAA
38381422 GAGGAAAGAA
Statistics
Matches: 52, Mismatches: 6, Indels: 13
0.73 0.08 0.18
Matches are distributed among these distances:
13 9 0.17
14 21 0.40
15 8 0.15
16 13 0.25
17 1 0.02
ACGTcount: A:0.78, C:0.03, G:0.06, T:0.13
Consensus pattern (14 bp):
TAAAAAAATAAAAA
Found at i:38381433 original size:26 final size:26
Alignment explanation
Indices: 38381379--38381433 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
38381369 AAATCAAAAC
** *
38381379 AAAAAATGTAAAAAAAAGGGAAAATA
1 AAAAAATAAAAAAAAAAGGGAAAAGA
38381405 AAAAAATAAAAAAAAAAGAGG-AAAGA
1 AAAAAATAAAAAAAAAAG-GGAAAAGA
38381431 AAA
1 AAA
38381434 GGAGAGGCCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 23 0.92
27 2 0.08
ACGTcount: A:0.78, C:0.00, G:0.15, T:0.07
Consensus pattern (26 bp):
AAAAAATAAAAAAAAAAGGGAAAAGA
Found at i:38382479 original size:16 final size:16
Alignment explanation
Indices: 38382458--38382493 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
38382448 ATACCTTAAG
*
38382458 CATTTAAAAAAAAGAT
1 CATTTAAAAAAAAGAA
38382474 CATTTAAAAAAAAGAA
1 CATTTAAAAAAAAGAA
38382490 CATT
1 CATT
38382494 CTCATTTTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.61, C:0.08, G:0.06, T:0.25
Consensus pattern (16 bp):
CATTTAAAAAAAAGAA
Found at i:38382651 original size:63 final size:64
Alignment explanation
Indices: 38382524--38382714 Score: 276
Period size: 63 Copynumber: 3.0 Consensus size: 64
38382514 TCATTCATAA
* *
38382524 CACATCTAGTTATGAGCATTTGATTTATTTCGATCATAGCATCCTAATTATTTGACATCAGCAT
1 CACATCTAGTTAGGAGCATTTGATTTATTTTGATCATAGCATCCTAATTATTTGACATCAGCAT
* * *
38382588 CACATCTAGTTAGGAGCATTTGATTCATTTTGA-CATTGCGTCCTAATTATTTGACATCAGCAT
1 CACATCTAGTTAGGAGCATTTGATTTATTTTGATCATAGCATCCTAATTATTTGACATCAGCAT
* * * * * *
38382651 CACATCTGGTTAGGAGTATTGGATTTATTTTGATCACAGCATCCTAATTATTTGGCATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTTATTTTGATCATAGCATCCTAATTATTTGACATCAGCAT
38382715 GATACATGAA
Statistics
Matches: 112, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
63 57 0.51
64 55 0.49
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.38
Consensus pattern (64 bp):
CACATCTAGTTAGGAGCATTTGATTTATTTTGATCATAGCATCCTAATTATTTGACATCAGCAT
Found at i:38383367 original size:177 final size:177
Alignment explanation
Indices: 38383072--38383840 Score: 989
Period size: 177 Copynumber: 4.4 Consensus size: 177
38383062 CTGAAGTTTC
* * * * * * *
38383072 AGTGGAGCAGACCAAAGATGGCAAATCTTGTCTACATGTATCGACAATTGAGCAGATTT-TGCCA
1 AGTGGAGCAGATCAAAGATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCA
* ** *
38383136 CTGGCCTTATCTCTCT-ATGGTAACAAGAGAGCATATTGGC-AGTTGTAGTCTTATCTTCCTGAG
66 CTAGCCTTATCTCTCTGA-GGTAACAAGAGAGCAGGTTGACGA-TTGTAGTCTTATCTTCCTGAG
38383199 GTAGAAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGCAGT
129 GTAGAAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGCAGT
* * *
38383248 AGTGGAGCAGATCGAAGATGACGAATCTTATCTCCATGTATTGGCAATGGAGCAGATTTAAGCCA
1 AGTGGAGCAGATCAAAGATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCA
* * * *
38383313 CTAGCCTTATCTGTCTGAGTTAGCAAGAGAGCAGTTTGACGATTGTAGTCTTATCTTCCTGAGGT
66 CTAGCCTTATCTCTCTGAGGTAACAAGAGAGCAGGTTGACGATTGTAGTCTTATCTTCCTGAGGT
* *
38383378 AGCAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCAAAGCAGT
131 AGAAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGCAGT
* *
38383425 AGTGGAGCGGATCAAAGATGGCAAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCA
1 AGTGGAGCAGATCAAAGATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCA
* * * * *
38383490 C-AGCCTTATCTCTCTGAGGCAGCAAGAGAGTAGGTTGAAGATTG-AGTCTTATCTTTCTGAGGT
66 CTAGCCTTATCTCTCTGAGGTAACAAGAGAGCAGGTTGACGATTGTAGTCTTATCTTCCTGAGGT
* *
38383553 AGCAAA-AAAGCAGACTAAAGATTGAAGATCTTATCTCCCTAAGCAGT
131 AG-AAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGCAGT
* * * * *
38383600 AGTGGAGCAAATCGAAGATGGTGAATCTTATCTCTATGTATCGGCAATGGAGCAGATTTTAGCCA
1 AGTGGAGCAGATCAAAGATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCA
* * * * * * *
38383665 CCAACCTTATCTTTCTAAGGTAACAAGAGAGTAGGTTGGCGATTGTAGTCTTATCTTCCTGAGAT
66 CTAGCCTTATCTCTCTGAGGTAACAAGAGAGCAGGTTGACGATTGTAGTCTTATCTTCCTGAGGT
* * * *
38383730 A-ACAAGGAAGCAGATTGAAGATTGAATATC-TATTTCCCTAAGCAAT
131 AGA-AAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGCAGT
* * * * *
38383776 TGTGGAGCAGATCAAGGATGG-AAATCTTATCTCCGTGTATCGGCAATGGAGCAAATTTAAGCCA
1 AGTGGAGCAGATCAAAGATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCA
38383840 C
66 C
38383841 CAGTCCTATT
Statistics
Matches: 519, Mismatches: 66, Indels: 17
0.86 0.11 0.03
Matches are distributed among these distances:
175 157 0.30
176 158 0.30
177 202 0.39
178 2 0.00
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (177 bp):
AGTGGAGCAGATCAAAGATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCA
CTAGCCTTATCTCTCTGAGGTAACAAGAGAGCAGGTTGACGATTGTAGTCTTATCTTCCTGAGGT
AGAAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGCAGT
Found at i:38383390 original size:44 final size:45
Alignment explanation
Indices: 38383318--38383413 Score: 108
Period size: 44 Copynumber: 2.2 Consensus size: 45
38383308 AGCCACTAGC
* ** * *
38383318 CTTATCTGTCTGAGTTAGCAAGAGAGCAGTTTGACGATTGTAG-T
1 CTTATCTGTCTGAGGTAGCAAGAGAGCAGACTGAAGATTGAAGAT
38383362 CTTATCT-TCCTGAGGTAGCAAG-GAAGCAGACTGAAGATTGAAGAT
1 CTTATCTGT-CTGAGGTAGCAAGAG-AGCAGACTGAAGATTGAAGAT
38383407 CTTATCT
1 CTTATCT
38383414 CCCAAAGCAG
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
43 2 0.05
44 34 0.77
45 8 0.18
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (45 bp):
CTTATCTGTCTGAGGTAGCAAGAGAGCAGACTGAAGATTGAAGAT
Found at i:38383654 original size:352 final size:353
Alignment explanation
Indices: 38383072--38383840 Score: 1066
Period size: 352 Copynumber: 2.2 Consensus size: 353
38383062 CTGAAGTTTC
* * * * * *
38383072 AGTGGAGCAGACCAAAGATGGCAAATCTTGTCTACATGTATCGACAATTGAGCAGATTT-TGCCA
1 AGTGGAGCAGATCAAAGATGGCAAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCA
* * * *
38383136 CTGGCCTTATCTCTCTATGGTAACAAGAGAGCATATTGGCAGTTGTAGTCTTATCTTCCTGAGGT
66 CTAGCCTTATCTCTCTATGGCAACAAGAGAGCAGATTGGAAGTTGTAGTCTTATCTTCCTGAGGT
* * *
38383201 AGAAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA
131 AGAAAGAAAGCAGACTAAAGATTGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATCGAAGA
* * * *
38383266 TGACGAATCTTATCTCCATGTATTGGCAATGGAGCAGATTTAAGCCACTAGCCTTATCTGTCTGA
196 TGACGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCACCAACCTTATCTGTCTAA
* * * * *
38383331 GTTAGCAAGAGAGCAGTTTGACGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGA
261 GGTAACAAGAGAGCAGGTTGACGATTGTAGTCTTATCTTCCTGAGATAACAAGGAAGCAGACTGA
*
38383396 AGATTGAAGATCTTATCTCCCAAAGCAGT
326 AGATTGAAGATC-TATCTCCCAAAGCAAT
*
38383425 AGTGGAGCGGATCAAAGATGGCAAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCA
1 AGTGGAGCAGATCAAAGATGGCAAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCA
* * * *
38383490 C-AGCCTTATCTCTCTGA-GGCAGCAAGAGAGTAGGTT-GAAGATTG-AGTCTTATCTTTCTGAG
66 CTAGCCTTATCTCTCT-ATGGCAACAAGAGAGCAGATTGGAAG-TTGTAGTCTTATCTTCCTGAG
38383551 GTAGCAAA-AAAGCAGACTAAAGATTGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATCGA
129 GTAG-AAAGAAAGCAGACTAAAGATTGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATCGA
** * * *
38383615 AGATGGTGAATCTTATCTCTATGTATCGGCAATGGAGCAGATTTTAGCCACCAACCTTATCTTTC
193 AGATGACGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCACCAACCTTATCTGTC
* * *
38383680 TAAGGTAACAAGAGAGTAGGTTGGCGATTGTAGTCTTATCTTCCTGAGATAACAAGGAAGCAGAT
258 TAAGGTAACAAGAGAGCAGGTTGACGATTGTAGTCTTATCTTCCTGAGATAACAAGGAAGCAGAC
* * *
38383745 TGAAGATTGAATATCTATTTCCCTAAGCAAT
323 TGAAGATTGAAGATCTATCTCCCAAAGCAAT
* * * *
38383776 TGTGGAGCAGATCAAGGATGG-AAATCTTATCTCCGTGTATCGGCAATGGAGCAAATTTAAGCCA
1 AGTGGAGCAGATCAAAGATGGCAAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCA
38383840 C
66 C
38383841 CAGTCCTATT
Statistics
Matches: 368, Mismatches: 44, Indels: 11
0.87 0.10 0.03
Matches are distributed among these distances:
350 42 0.11
351 31 0.08
352 203 0.55
353 86 0.23
354 6 0.02
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (353 bp):
AGTGGAGCAGATCAAAGATGGCAAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCA
CTAGCCTTATCTCTCTATGGCAACAAGAGAGCAGATTGGAAGTTGTAGTCTTATCTTCCTGAGGT
AGAAAGAAAGCAGACTAAAGATTGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATCGAAGA
TGACGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCACCAACCTTATCTGTCTAA
GGTAACAAGAGAGCAGGTTGACGATTGTAGTCTTATCTTCCTGAGATAACAAGGAAGCAGACTGA
AGATTGAAGATCTATCTCCCAAAGCAAT
Found at i:38384997 original size:21 final size:22
Alignment explanation
Indices: 38384967--38385012 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
38384957 CAATGGAGTT
*
38384967 TTTTTAATTTATG-TTTTATTCA
1 TTTTTAATTTAAGATTTTATT-A
38384989 TTTTT-ATTTAAGATTTTATTA
1 TTTTTAATTTAAGATTTTATTA
38385010 TTT
1 TTT
38385013 GTTTTTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.24, C:0.02, G:0.04, T:0.70
Consensus pattern (22 bp):
TTTTTAATTTAAGATTTTATTA
Found at i:38385172 original size:34 final size:30
Alignment explanation
Indices: 38385112--38385213 Score: 107
Period size: 31 Copynumber: 3.2 Consensus size: 30
38385102 TATTATGTAA
* *
38385112 TATTTCTATTTTAAAATTT-TCTTTATACAT
1 TATTTTTATTTTAAAATTTAT-ATTATACAT
*
38385142 GTATTTTTGTTTTCAAAATTTATACATTATACAT
1 -TATTTTTATTTT-AAAATTTAT--ATTATACAT
*
38385176 TATATATTATTTTAAAATTTATATTATACAT
1 TAT-TTTTATTTTAAAATTTATATTATACAT
38385207 TATTTTT
1 TATTTTT
38385214 TTATATATAT
Statistics
Matches: 61, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
30 3 0.05
31 22 0.36
32 7 0.11
33 13 0.21
34 16 0.26
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.58
Consensus pattern (30 bp):
TATTTTTATTTTAAAATTTATATTATACAT
Found at i:38385251 original size:14 final size:14
Alignment explanation
Indices: 38385176--38385251 Score: 50
Period size: 14 Copynumber: 5.5 Consensus size: 14
38385166 CATTATACAT
38385176 TATATATTATTTTA
1 TATATATTATTTTA
* *
38385190 -AAAT-TTATATTA
1 TATATATTATTTTA
* *
38385202 TACATTATTTTTTTA
1 TATA-TATTATTTTA
*
38385217 TATATATTA-TTGA
1 TATATATTATTTTA
*
38385230 TTTCATATTATTTTA
1 TAT-ATATTATTTTA
*
38385245 TGTATAT
1 TATATAT
38385252 ATCACTTCTT
Statistics
Matches: 46, Mismatches: 11, Indels: 10
0.69 0.16 0.15
Matches are distributed among these distances:
12 7 0.15
13 10 0.22
14 15 0.33
15 14 0.30
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.61
Consensus pattern (14 bp):
TATATATTATTTTA
Found at i:38391291 original size:7 final size:7
Alignment explanation
Indices: 38391279--38391318 Score: 80
Period size: 7 Copynumber: 5.7 Consensus size: 7
38391269 TAATCGTTTC
38391279 GTATTTA
1 GTATTTA
38391286 GTATTTA
1 GTATTTA
38391293 GTATTTA
1 GTATTTA
38391300 GTATTTA
1 GTATTTA
38391307 GTATTTA
1 GTATTTA
38391314 GTATT
1 GTATT
38391319 ATGTATTATG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.57
Consensus pattern (7 bp):
GTATTTA
Found at i:38391935 original size:18 final size:18
Alignment explanation
Indices: 38391912--38391950 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
38391902 ATGCCAGGTG
*
38391912 TGTATCCTAGCCCTTATA
1 TGTATCCTAACCCTTATA
38391930 TGTATCCTAACCCTTATA
1 TGTATCCTAACCCTTATA
38391948 TGT
1 TGT
38391951 TTCATTTTCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.23, C:0.26, G:0.10, T:0.41
Consensus pattern (18 bp):
TGTATCCTAACCCTTATA
Found at i:38395704 original size:125 final size:126
Alignment explanation
Indices: 38395383--38395762 Score: 591
Period size: 126 Copynumber: 3.0 Consensus size: 126
38395373 TTATATCCTC
* * *
38395383 ATTTTTCTACGAACCACTGTAGCAAAAGAGTGTCCACGTGGGAGTTTTTTTTAGAAATTTTGCTG
1 ATTTTTCTACGAACAACTGTAGCAAAAGAGTGTCCACGTGGGAGATTTTTTCAGAAATTTTGCTG
* * * * *
38395448 ACAGTGCATCCTACTTGAAGAGTTTTCGACACTATTTGTTCAGAAATGTCTACTTATAATT
66 ACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTCAAAATT
* * * * *
38395509 ATTTTTCTACAAACAACTGTAGCAAAAGAGCGTCCATGTGGAAGCTTTTTTCAGAAATTTTGCTG
1 ATTTTTCTACGAACAACTGTAGCAAAAGAGTGTCCACGTGGGAGATTTTTTCAGAAATTTTGCTG
*
38395574 ACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTATTCAGAAA-GTCTACTCAAAATT
66 ACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTCAAAATT
* * *
38395634 ATTTTCCTACGAACTACTGTAGCAAAAGAGTGTCCACGTGGGAGATTTTTTCAGAAATTTTGCTA
1 ATTTTTCTACGAACAACTGTAGCAAAAGAGTGTCCACGTGGGAGATTTTTTCAGAAATTTTGCTG
*
38395699 ACAGTGCATCCTGCTTGAAGCGTTTTCAACACTATTTGTTCAGAAACGTCTACTCAAAATT
66 ACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTCAAAATT
38395760 ATT
1 ATT
38395763 CTTGCAGAAA
Statistics
Matches: 231, Mismatches: 22, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
125 113 0.49
126 118 0.51
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.35
Consensus pattern (126 bp):
ATTTTTCTACGAACAACTGTAGCAAAAGAGTGTCCACGTGGGAGATTTTTTCAGAAATTTTGCTG
ACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTCAAAATT
Found at i:38396316 original size:19 final size:19
Alignment explanation
Indices: 38396294--38396375 Score: 107
Period size: 19 Copynumber: 4.4 Consensus size: 19
38396284 ACCATTATGT
38396294 ATCAATTAACCCTAAATTA
1 ATCAATTAACCCTAAATTA
38396313 ATCAATTAACCCTAAATTTA
1 ATCAATTAACCCTAAA-TTA
* *
38396333 ATCAATTAACCTTAATTTA
1 ATCAATTAACCCTAAATTA
*
38396352 ATCAA-T--CCCTAATTTA
1 ATCAATTAACCCTAAATTA
38396368 ATCAATTA
1 ATCAATTA
38396376 TCCTTAATAC
Statistics
Matches: 57, Mismatches: 3, Indels: 7
0.85 0.04 0.10
Matches are distributed among these distances:
16 14 0.25
17 1 0.02
18 1 0.02
19 24 0.42
20 17 0.30
ACGTcount: A:0.44, C:0.20, G:0.00, T:0.37
Consensus pattern (19 bp):
ATCAATTAACCCTAAATTA
Found at i:38396373 original size:35 final size:38
Alignment explanation
Indices: 38396294--38396383 Score: 123
Period size: 39 Copynumber: 2.4 Consensus size: 38
38396284 ACCATTATGT
* *
38396294 ATCAATTAACCCTAAATTAATCAATTAACCCTAAATTTA
1 ATCAATTAACCTTAATTTAATCAATT-ACCCTAAATTTA
38396333 ATCAATTAACCTTAATTTAATCAA-T-CCCT-AATTTA
1 ATCAATTAACCTTAATTTAATCAATTACCCTAAATTTA
*
38396368 ATCAATTATCCTTAAT
1 ATCAATTAACCTTAAT
38396384 ACCCTAAACT
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
35 21 0.44
36 4 0.08
38 1 0.02
39 22 0.46
ACGTcount: A:0.42, C:0.20, G:0.00, T:0.38
Consensus pattern (38 bp):
ATCAATTAACCTTAATTTAATCAATTACCCTAAATTTA
Done.