Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 18 of 185
Found at i:4893770 original size:20 final size:19
Alignment explanation
Indices: 4893724--4893775 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 19
4893714 TGTTTTATGT
**
4893724 ATAAGATTATTATTTTATTT
1 ATAA-ATTATTATTTTATAA
4893744 ATAAAATTATTATTTTAATAA
1 AT-AAATTATTATTTT-ATAA
4893765 ATAAATT-TTAT
1 ATAAATTATTAT
4893776 GTTAGAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
19 4 0.14
20 18 0.64
21 6 0.21
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (19 bp):
ATAAATTATTATTTTATAA
Found at i:4897831 original size:222 final size:222
Alignment explanation
Indices: 4897445--4897871 Score: 782
Period size: 222 Copynumber: 1.9 Consensus size: 222
4897435 CTAATAGCTC
* *
4897445 ATCAGAGTTTATCACATACATTGCACCTTGAGATGTAAGTACTACTATTGCATCTGCTACAACTT
1 ATCAGAGTCTATCACATACATTGCACCTTGAGATGTAAGTACTACTATTGCATCAGCTACAACTT
4897510 ATCACAAATATTGCTATGCCTACTGCTATCGGGTGATGGTGCAAGAAATGCTGTTTCAATTCCAA
66 ATCACAAATATTGCTATGCCTACTGCTATCGGGTGATGGTGCAAGAAATGCTGTTTCAATTCCAA
* *
4897575 GCACTTATGATCTGAGACTATTGTCCGAAAGTTGCAGGAAATTGTTAATTGAAGAGGAGAATAGA
131 GCACTTATGATCTGAGACTATTGTCCAAAAGTTGCAGGAAATTGTTAATTGAAGAGAAGAATAGA
4897640 AGGAAAGTGTATCTGATGCCTTCTGCT
196 AGGAAAGTGTATCTGATGCCTTCTGCT
**
4897667 ATCAGAGTCTATCACATACATTGCACCTTGAGATGTAAGTACTACTATTTTATCAGCTACAACTT
1 ATCAGAGTCTATCACATACATTGCACCTTGAGATGTAAGTACTACTATTGCATCAGCTACAACTT
4897732 ATCACAAATATTGCTATGCCTACTGCTATCGGGTGATGGTGCAAGAAATGCTGTTTCAATTCCAA
66 ATCACAAATATTGCTATGCCTACTGCTATCGGGTGATGGTGCAAGAAATGCTGTTTCAATTCCAA
*
4897797 GCACTTATGTTCTGAGACTATTGTCCAAAAGTTGCAGGAAATTGTTAATTGAAGAGAAGAATAGA
131 GCACTTATGATCTGAGACTATTGTCCAAAAGTTGCAGGAAATTGTTAATTGAAGAGAAGAATAGA
*
4897862 GGGAAAGTGT
196 AGGAAAGTGT
4897872 TATACCTGAC
Statistics
Matches: 197, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
222 197 1.00
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (222 bp):
ATCAGAGTCTATCACATACATTGCACCTTGAGATGTAAGTACTACTATTGCATCAGCTACAACTT
ATCACAAATATTGCTATGCCTACTGCTATCGGGTGATGGTGCAAGAAATGCTGTTTCAATTCCAA
GCACTTATGATCTGAGACTATTGTCCAAAAGTTGCAGGAAATTGTTAATTGAAGAGAAGAATAGA
AGGAAAGTGTATCTGATGCCTTCTGCT
Found at i:4902285 original size:3 final size:3
Alignment explanation
Indices: 4902277--4902301 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
4902267 TGGTTTGATC
4902277 TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT T
4902302 TTTGAATGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:4905803 original size:22 final size:21
Alignment explanation
Indices: 4905761--4905803 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
4905751 AGGGTTACTA
*
4905761 AAATAATTATTATTTAAAATT
1 AAATAATTATTATTCAAAATT
* *
4905782 AAATTATTATATATTCAGAATT
1 AAATAATTAT-TATTCAAAATT
4905804 TATATTTTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (21 bp):
AAATAATTATTATTCAAAATT
Found at i:4907338 original size:17 final size:18
Alignment explanation
Indices: 4907318--4907372 Score: 69
Period size: 17 Copynumber: 3.2 Consensus size: 18
4907308 CATAAATAAA
4907318 AAATATATAAA-ATTATT
1 AAATATATAAATATTATT
**
4907335 AAATAT-TAAATATTAAA
1 AAATATATAAATATTATT
*
4907352 AAATATATAAATATTTTT
1 AAATATATAAATATTATT
4907370 AAA
1 AAA
4907373 AAAAATTATT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
16 4 0.13
17 16 0.52
18 11 0.35
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
AAATATATAAATATTATT
Found at i:4910415 original size:24 final size:24
Alignment explanation
Indices: 4910388--4910444 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
4910378 ATAATAAAAA
4910388 ATATTAAATAATAAAAATACATTT-
1 ATATTAAATAATAAAAA-ACATTTG
* * **
4910412 ATATTAACTTATTTAAAACATTTG
1 ATATTAAATAATAAAAAACATTTG
4910436 ATATTAAAT
1 ATATTAAAT
4910445 GATAGTTATT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (24 bp):
ATATTAAATAATAAAAAACATTTG
Found at i:4913350 original size:52 final size:52
Alignment explanation
Indices: 4913279--4913630 Score: 467
Period size: 52 Copynumber: 7.0 Consensus size: 52
4913269 ATCAAGTGAC
* **
4913279 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
* *
4913331 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
* *
4913383 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC------
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
* **
4913429 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
* *
4913481 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC------
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
*
4913527 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
** *
4913579 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAGAGTG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACA-AGTG
4913631 ATAAGTGGCT
Statistics
Matches: 267, Mismatches: 20, Indels: 25
0.86 0.06 0.08
Matches are distributed among these distances:
46 85 0.32
52 178 0.67
53 4 0.01
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (52 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
Found at i:4913401 original size:98 final size:98
Alignment explanation
Indices: 4913331--4913637 Score: 429
Period size: 98 Copynumber: 3.1 Consensus size: 98
4913321 TGACAAGTGG
* *
4913331 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
* * *
4913396 ATAGCTTCGGCTATACTTATCTGATCAAGTGAC
66 ATAGCTACGACTATACTGATCTGATCAAGTGAC
* **
4913429 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
* * *
4913494 ATAGCTTCGGCTATACTTATCTGATCAAGTGAC
66 ATAGCTACGACTATACTGATCTGATCAAGTGAC
* *
4913527 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
* * *
4913592 ATAGCTTTA-G-CTACACTTATCTGATCAAGAGAC
66 ATAGC--TACGACTATACTGATCTGATCAAGTGAC
*
4913625 AGAGTGATAAGTG
1 AAAGTGATAAGTG
4913638 GCTACACTTA
Statistics
Matches: 193, Mismatches: 14, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
98 191 0.99
99 1 0.01
100 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (98 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
ATAGCTACGACTATACTGATCTGATCAAGTGAC
Found at i:4913485 original size:150 final size:144
Alignment explanation
Indices: 4913265--4913630 Score: 579
Period size: 150 Copynumber: 2.5 Consensus size: 144
4913255 TTTGAGTACT
4913265 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
4913330 GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGT
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC------AAAGTGATAAGT
*
4913395 AATAGCTTCGGCTATACTTA
125 AATAGCTTCGGCTACACTTA
4913415 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
4913480 GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGATAGC
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTAATAGC
4913545 TTCGGCTACACTTA
131 TTCGGCTACACTTA
* *
4913559 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGA
1 TCTGATCAAGTGAC------AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGA
4913624 CAGAGTG
60 CA-AGTG
4913631 ATAAGTGGCT
Statistics
Matches: 205, Mismatches: 4, Indels: 13
0.92 0.02 0.06
Matches are distributed among these distances:
144 44 0.21
150 157 0.77
151 4 0.02
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (144 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTAATAGC
TTCGGCTACACTTA
Found at i:4913644 original size:37 final size:37
Alignment explanation
Indices: 4913601--4913783 Score: 307
Period size: 37 Copynumber: 5.0 Consensus size: 37
4913591 GATAGCTTTA
* *
4913601 GCTACACTTATCTGATCAAGAGACAGAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
4913638 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
4913675 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
4913712 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
4913749 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
4913784 ATCATATGTA
Statistics
Matches: 140, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
35 11 0.08
36 4 0.03
37 125 0.89
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:4915112 original size:58 final size:58
Alignment explanation
Indices: 4915035--4915202 Score: 237
Period size: 58 Copynumber: 3.0 Consensus size: 58
4915025 CATGTGAACA
4915035 TGTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
1 TGTGA-TATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
4915094 TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATA--
1 TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
* * *
4915150 TGTG--A--T--TT-CGTGTAAGACCATAGTTGGGCTATGGCATCGGTATGTGATTTG
1 TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
4915201 TG
1 TG
4915203 ATTACGTGTA
Statistics
Matches: 104, Mismatches: 3, Indels: 12
0.87 0.03 0.10
Matches are distributed among these distances:
49 38 0.37
50 2 0.02
51 2 0.02
52 1 0.01
54 1 0.01
56 4 0.04
58 51 0.49
59 5 0.05
ACGTcount: A:0.23, C:0.13, G:0.31, T:0.33
Consensus pattern (58 bp):
TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
Found at i:4915144 original size:28 final size:28
Alignment explanation
Indices: 4915054--4915144 Score: 80
Period size: 28 Copynumber: 3.2 Consensus size: 28
4915044 GTGATTCCGT
4915054 GTAAGACCATAGCTGGGCTATGGCATCG
1 GTAAGACCATAGCTGGGCTATGGCATCG
** * *
4915082 GTAAG-TGATATG-TGTGATATGTG-ATTCCG
1 GTAAGACCATA-GCTGGGCTATG-GCA-T-CG
4915111 TGTAAGACCATAGCTGGGCTATGGCATCG
1 -GTAAGACCATAGCTGGGCTATGGCATCG
4915140 GTAAG
1 GTAAG
4915145 TGATATGTGA
Statistics
Matches: 47, Mismatches: 8, Indels: 16
0.66 0.11 0.23
Matches are distributed among these distances:
27 11 0.23
28 13 0.28
29 4 0.09
30 8 0.17
31 11 0.23
ACGTcount: A:0.25, C:0.15, G:0.32, T:0.27
Consensus pattern (28 bp):
GTAAGACCATAGCTGGGCTATGGCATCG
Found at i:4915167 original size:49 final size:49
Alignment explanation
Indices: 4915095--4915237 Score: 232
Period size: 49 Copynumber: 2.9 Consensus size: 49
4915085 AGTGATATGT
* *
4915095 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
* *
4915144 GTGATATGTGATTTCGTGTAAGACCATAGTTGGGCTATGGCATCGGTAT
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
* *
4915193 GTGATTTGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCG
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCG
4915238 AGAAAACGAA
Statistics
Matches: 88, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 88 1.00
ACGTcount: A:0.24, C:0.14, G:0.30, T:0.32
Consensus pattern (49 bp):
GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
Found at i:4918448 original size:52 final size:52
Alignment explanation
Indices: 4918377--4918728 Score: 467
Period size: 52 Copynumber: 7.0 Consensus size: 52
4918367 ATCAAGTGAC
* **
4918377 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
* *
4918429 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
* *
4918481 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC------
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
* **
4918527 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
* *
4918579 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC------
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
*
4918625 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
** *
4918677 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAGAGTG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACA-AGTG
4918729 ATAAGTGGCT
Statistics
Matches: 267, Mismatches: 20, Indels: 25
0.86 0.06 0.08
Matches are distributed among these distances:
46 85 0.32
52 178 0.67
53 4 0.01
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (52 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
Found at i:4918499 original size:98 final size:98
Alignment explanation
Indices: 4918429--4918735 Score: 429
Period size: 98 Copynumber: 3.1 Consensus size: 98
4918419 TGACAAGTGG
* *
4918429 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
* * *
4918494 ATAGCTTCGGCTATACTTATCTGATCAAGTGAC
66 ATAGCTACGACTATACTGATCTGATCAAGTGAC
* **
4918527 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
* * *
4918592 ATAGCTTCGGCTATACTTATCTGATCAAGTGAC
66 ATAGCTACGACTATACTGATCTGATCAAGTGAC
* *
4918625 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
* * *
4918690 ATAGCTTTA-G-CTACACTTATCTGATCAAGAGAC
66 ATAGC--TACGACTATACTGATCTGATCAAGTGAC
*
4918723 AGAGTGATAAGTG
1 AAAGTGATAAGTG
4918736 GCTACACTTA
Statistics
Matches: 193, Mismatches: 14, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
98 191 0.99
99 1 0.01
100 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (98 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
ATAGCTACGACTATACTGATCTGATCAAGTGAC
Found at i:4918583 original size:150 final size:144
Alignment explanation
Indices: 4918363--4918728 Score: 579
Period size: 150 Copynumber: 2.5 Consensus size: 144
4918353 TTTGAGTACT
4918363 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
4918428 GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGT
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC------AAAGTGATAAGT
*
4918493 AATAGCTTCGGCTATACTTA
125 AATAGCTTCGGCTACACTTA
4918513 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
4918578 GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGATAGC
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTAATAGC
4918643 TTCGGCTACACTTA
131 TTCGGCTACACTTA
* *
4918657 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGA
1 TCTGATCAAGTGAC------AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGA
4918722 CAGAGTG
60 CA-AGTG
4918729 ATAAGTGGCT
Statistics
Matches: 205, Mismatches: 4, Indels: 13
0.92 0.02 0.06
Matches are distributed among these distances:
144 44 0.21
150 157 0.77
151 4 0.02
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (144 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTAATAGC
TTCGGCTACACTTA
Found at i:4918742 original size:37 final size:37
Alignment explanation
Indices: 4918699--4918881 Score: 307
Period size: 37 Copynumber: 5.0 Consensus size: 37
4918689 GATAGCTTTA
* *
4918699 GCTACACTTATCTGATCAAGAGACAGAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
4918736 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
4918773 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
4918810 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
4918847 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
4918882 ATCATATGTA
Statistics
Matches: 140, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
35 11 0.08
36 4 0.03
37 125 0.89
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:4924448 original size:29 final size:29
Alignment explanation
Indices: 4924393--4924457 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 29
4924383 CTTATTCTCG
4924393 TAAATTTTTAAAAAATTGGTCTATTTTTA
1 TAAATTTTTAAAAAATTGGTCTATTTTTA
* * *
4924422 TAATATTTTTAAAAAA-TGGTTTTTTTTTT
1 TAA-ATTTTTAAAAAATTGGTCTATTTTTA
4924451 TAAATTT
1 TAAATTT
4924458 AGTCTGAGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 4 0.12
29 16 0.50
30 12 0.38
ACGTcount: A:0.35, C:0.02, G:0.06, T:0.57
Consensus pattern (29 bp):
TAAATTTTTAAAAAATTGGTCTATTTTTA
Found at i:4924450 original size:30 final size:28
Alignment explanation
Indices: 4924393--4924457 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 28
4924383 CTTATTCTCG
4924393 TAAATTTTTAAAAAATTGGTCTATTTTT
1 TAAATTTTTAAAAAATTGGTCTATTTTT
* *
4924421 ATAATATTTTTAAAAAA-TGGTTTTTTTTTT
1 -TAA-ATTTTTAAAAAATTGG-TCTATTTTT
4924451 TAAATTT
1 TAAATTT
4924458 AGTCTGAGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
28 4 0.12
29 9 0.28
30 19 0.59
ACGTcount: A:0.35, C:0.02, G:0.06, T:0.57
Consensus pattern (28 bp):
TAAATTTTTAAAAAATTGGTCTATTTTT
Found at i:4926346 original size:31 final size:32
Alignment explanation
Indices: 4926286--4926357 Score: 110
Period size: 31 Copynumber: 2.3 Consensus size: 32
4926276 TGCTCGTGTG
* * *
4926286 GGCCCGCACGCCCAACTTGGCTTAGCCCATGT
1 GGCCCACACACCCAACTTGGCCTAGCCCATGT
4926318 GGCCCACACACCCAAC-TGGCCTAGCCCATGT
1 GGCCCACACACCCAACTTGGCCTAGCCCATGT
4926349 GGCCCACAC
1 GGCCCACAC
4926358 GACCACACCT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
31 23 0.62
32 14 0.38
ACGTcount: A:0.19, C:0.44, G:0.22, T:0.14
Consensus pattern (32 bp):
GGCCCACACACCCAACTTGGCCTAGCCCATGT
Found at i:4932932 original size:26 final size:26
Alignment explanation
Indices: 4932893--4932951 Score: 111
Period size: 26 Copynumber: 2.3 Consensus size: 26
4932883 ATATATTATG
4932893 TATA-TTTTTTATTTTTAATCAAATA
1 TATATTTTTTTATTTTTAATCAAATA
4932918 TATATTTTTTTATTTTTAATCAAATA
1 TATATTTTTTTATTTTTAATCAAATA
4932944 TATATTTT
1 TATATTTT
4932952 ATATATATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 4 0.12
26 29 0.88
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (26 bp):
TATATTTTTTTATTTTTAATCAAATA
Found at i:4932957 original size:11 final size:11
Alignment explanation
Indices: 4932940--4932978 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
4932930 TTTTTAATCA
4932940 AATATATATTT
1 AATATATATTT
* *
4932951 TATATATATTA
1 AATATATATTT
4932962 AATATATATTT
1 AATATATATTT
4932973 AATATA
1 AATATA
4932979 GGTCAGGCCG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (11 bp):
AATATATATTT
Found at i:4932962 original size:26 final size:25
Alignment explanation
Indices: 4932893--4932962 Score: 90
Period size: 26 Copynumber: 2.8 Consensus size: 25
4932883 ATATATTATG
4932893 TATAT-TTTTTAT-TTTTAATCAAA
1 TATATATTTTTATATTTTAATCAAA
*
4932916 TATATATTTTTTTATTTTTAATCAAA
1 TATATATTTTTATA-TTTTAATCAAA
*
4932942 TATATATTTTATATATATTAA
1 TATATATTTT-TATATTTTAA
4932963 ATATATATTT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
23 5 0.12
24 6 0.15
26 26 0.65
27 3 0.08
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (25 bp):
TATATATTTTTATATTTTAATCAAA
Found at i:4934622 original size:28 final size:28
Alignment explanation
Indices: 4934575--4934634 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 28
4934565 ATTCCTACTC
*
4934575 TTTTCTAATAGCAGATTGATAAATTAGA
1 TTTTCTAATAGCAGAATGATAAATTAGA
* *
4934603 TTTTCTAGTAGGAGAATGATAAATTAGA
1 TTTTCTAATAGCAGAATGATAAATTAGA
4934631 TTTT
1 TTTT
4934635 TTTTCCTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.37, C:0.05, G:0.17, T:0.42
Consensus pattern (28 bp):
TTTTCTAATAGCAGAATGATAAATTAGA
Found at i:4935915 original size:18 final size:18
Alignment explanation
Indices: 4935892--4935926 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
4935882 TGTAAGTGTG
4935892 TGAAGAGTCATTAAGGTA
1 TGAAGAGTCATTAAGGTA
4935910 TGAAGAGTCATTAAGGT
1 TGAAGAGTCATTAAGGT
4935927 GGAGGAGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.37, C:0.06, G:0.29, T:0.29
Consensus pattern (18 bp):
TGAAGAGTCATTAAGGTA
Found at i:4943944 original size:22 final size:20
Alignment explanation
Indices: 4943917--4943958 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
4943907 CCGGCCCGAT
4943917 TTTTAATAAACACAAAAAAATA
1 TTTTAA-AAACA-AAAAAAATA
*
4943939 TTTTAAAAATAAAAAAAATA
1 TTTTAAAAACAAAAAAAATA
4943959 AAAAAATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 9 0.47
21 4 0.21
22 6 0.32
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.29
Consensus pattern (20 bp):
TTTTAAAAACAAAAAAAATA
Found at i:4947979 original size:30 final size:30
Alignment explanation
Indices: 4947939--4947996 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
4947929 CTGGACATTT
* * *
4947939 CCACATGGGCTGGACACACGCCCGTGTGAG
1 CCACACGGGCTAGACACACGCCCATGTGAG
*
4947969 CCACACGGGCTAGCCACACGCCCATGTG
1 CCACACGGGCTAGACACACGCCCATGTG
4947997 TTAGCCCGTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.21, C:0.38, G:0.29, T:0.12
Consensus pattern (30 bp):
CCACACGGGCTAGACACACGCCCATGTGAG
Found at i:4951132 original size:32 final size:33
Alignment explanation
Indices: 4951077--4951148 Score: 85
Period size: 33 Copynumber: 2.2 Consensus size: 33
4951067 ATTGTTAATG
* *
4951077 AAATATTTTCAGAAAATCTATC-AAACAACAGA
1 AAATATTTTCACAAAATCTATCAAAACAACAAA
* *
4951109 AAATATTTTACACAAATTC-ATCAAAACACCAAA
1 AAATATTTT-CACAAAATCTATCAAAACAACAAA
4951142 AAATATT
1 AAATATT
4951149 AGCTTCCCTA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
32 12 0.35
33 22 0.65
ACGTcount: A:0.54, C:0.17, G:0.03, T:0.26
Consensus pattern (33 bp):
AAATATTTTCACAAAATCTATCAAAACAACAAA
Found at i:4965319 original size:12 final size:13
Alignment explanation
Indices: 4965291--4965328 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
4965281 TTAGCATTGT
*
4965291 TTTTGAGAAA-TG
1 TTTTGAAAAAGTG
*
4965303 TTTTTAAAAAGTG
1 TTTTGAAAAAGTG
4965316 TTTTGAAAAAGTG
1 TTTTGAAAAAGTG
4965329 ATGTTGAGGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
12 8 0.36
13 14 0.64
ACGTcount: A:0.37, C:0.00, G:0.21, T:0.42
Consensus pattern (13 bp):
TTTTGAAAAAGTG
Found at i:4978732 original size:18 final size:18
Alignment explanation
Indices: 4978709--4978746 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
4978699 CTGATTTACA
4978709 TAGGATTAAAAGTAGGAG
1 TAGGATTAAAAGTAGGAG
**
4978727 TAGGATTAGTAGTAGGAG
1 TAGGATTAAAAGTAGGAG
4978745 TA
1 TA
4978747 TGAGTAGTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.34, T:0.26
Consensus pattern (18 bp):
TAGGATTAAAAGTAGGAG
Found at i:4978754 original size:18 final size:18
Alignment explanation
Indices: 4978719--4978754 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
4978709 TAGGATTAAA
*
4978719 AGTAGGAGTAGGATTAGT
1 AGTAGGAGTAGGAGTAGT
*
4978737 AGTAGGAGTATGAGTAGT
1 AGTAGGAGTAGGAGTAGT
4978755 GTTAGATGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.39, T:0.28
Consensus pattern (18 bp):
AGTAGGAGTAGGAGTAGT
Found at i:4982153 original size:70 final size:70
Alignment explanation
Indices: 4981975--4982139 Score: 192
Period size: 70 Copynumber: 2.4 Consensus size: 70
4981965 ATGTTGAAGT
* * *** * * *
4981975 CTCTCGCCATGTTG-AGATTGCAAAGGTTCTTCAAACCGTTTTGATGTTGCAAAGTTCTAGATGG
1 CTCTAGCCATGTTGAAG-TTGCAAAAGTTCTTCCTGCCATGTTGATGTTGCAAAGTTCGAGATGG
*
4982039 GTTCTC
65 GTCCTC
*
4982045 CTCTAGTCATGTTGAAGTTGCAAAAGTTCTTCCTGCCATGTTGATGTTGCAAAGTTCG-GAATGG
1 CTCTAGCCATGTTGAAGTTGCAAAAGTTCTTCCTGCCATGTTGATGTTGCAAAGTTCGAG-ATGG
4982109 G-CCATC
65 GTCC-TC
4982115 CTCTAGCCATGTTGAAGTTGCAAAA
1 CTCTAGCCATGTTGAAGTTGCAAAA
4982140 TCTTTTCTTG
Statistics
Matches: 81, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
69 2 0.02
70 77 0.95
71 2 0.02
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.33
Consensus pattern (70 bp):
CTCTAGCCATGTTGAAGTTGCAAAAGTTCTTCCTGCCATGTTGATGTTGCAAAGTTCGAGATGGG
TCCTC
Found at i:4985102 original size:23 final size:22
Alignment explanation
Indices: 4985076--4985157 Score: 83
Period size: 23 Copynumber: 3.5 Consensus size: 22
4985066 AGATAACGCA
*
4985076 AAGCACAGAAGTGCTGTAACACG
1 AAGCACA-AAGTGCTATAACACG
* *
4985099 AAGCACAAATGTGCTATATCACA
1 AAGCACAAA-GTGCTATAACACG
*
4985122 AAGCACCAAAGTGCTATAACATG
1 AAGCA-CAAAGTGCTATAACACG
*
4985145 AAGTACCAAAGTG
1 AAGCA-CAAAGTG
4985158 TTGAGATCAC
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
22 2 0.04
23 44 0.88
24 4 0.08
ACGTcount: A:0.43, C:0.21, G:0.20, T:0.17
Consensus pattern (22 bp):
AAGCACAAAGTGCTATAACACG
Found at i:4988003 original size:2 final size:2
Alignment explanation
Indices: 4987996--4988032 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
4987986 TCTTATTTTA
4987996 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
4988033 TTGCCTTAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:5017722 original size:87 final size:87
Alignment explanation
Indices: 5017566--5017725 Score: 259
Period size: 87 Copynumber: 1.8 Consensus size: 87
5017556 AAAGAATTAG
*
5017566 TGGTGCTAACATGATTTGAAAGCAATGCATATACAAATCAAGTACATAATTTAGTTAACCAAATA
1 TGGTGCTAACATGATTTGAAAGCAATGCATATACAAATCAAGTACATAAATTAGTTAACCAAATA
5017631 ATTTATAAGCAAAAGAGCTCAA
66 ATTTATAAGCAAAAGAGCTCAA
* * *
5017653 TGGTTCTAACATGATTTGAAAGCAATGCATATACAAATCAAGTGTCA-AAATTAGTTATCCAAAT
1 TGGTGCTAACATGATTTGAAAGCAATGCATATACAAATCAAGT-ACATAAATTAGTTAACCAAAT
*
5017717 GATTTATAA
65 AATTTATAA
5017726 ACATGCTCTT
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
87 65 0.97
88 2 0.03
ACGTcount: A:0.43, C:0.13, G:0.14, T:0.30
Consensus pattern (87 bp):
TGGTGCTAACATGATTTGAAAGCAATGCATATACAAATCAAGTACATAAATTAGTTAACCAAATA
ATTTATAAGCAAAAGAGCTCAA
Found at i:5018320 original size:22 final size:23
Alignment explanation
Indices: 5018248--5018308 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 23
5018238 AACACTCCAT
* * *
5018248 AATAATAATCGCATCAAAGTGCT
1 AATAACAATCGCACCAAAGTGCC
* *
5018271 AGTATCAATCGCACCAAAGTGCC
1 AATAACAATCGCACCAAAGTGCC
5018294 AATAACAATCGCACC
1 AATAACAATCGCACC
5018309 GAGTGTCAAT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.41, C:0.26, G:0.13, T:0.20
Consensus pattern (23 bp):
AATAACAATCGCACCAAAGTGCC
Found at i:5021492 original size:46 final size:46
Alignment explanation
Indices: 5021425--5021585 Score: 263
Period size: 46 Copynumber: 3.5 Consensus size: 46
5021415 TGAGTACTTT
*
5021425 TGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACAATTATC
1 TGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATC
* *
5021471 TGATCAAGTGACAAAGTGATAATTAGTAGCTTTAGCTACACTTATC
1 TGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATC
*
5021517 TGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATC
1 TGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATC
*
5021563 TGATC-AGGGAC-AAGTGATAAGTG
1 TGATCAAGTGACAAAGTGATAAGTG
5021586 ATCATATGTA
Statistics
Matches: 108, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
44 12 0.11
45 5 0.05
46 91 0.84
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.29
Consensus pattern (46 bp):
TGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATC
Found at i:5024223 original size:28 final size:30
Alignment explanation
Indices: 5024157--5024223 Score: 75
Period size: 28 Copynumber: 2.3 Consensus size: 30
5024147 TCCATATCAG
*
5024157 CCCATAAATTTCACAATTTCACACATTTAA
1 CCCATAATTTTCACAATTTCACACATTTAA
* * * *
5024187 CACAAAATTTTCAC-CTTTCTCA-ATTTAA
1 CCCATAATTTTCACAATTTCACACATTTAA
5024215 CCCATAATT
1 CCCATAATT
5024224 GGCAATTTCA
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
28 13 0.43
29 6 0.20
30 11 0.37
ACGTcount: A:0.37, C:0.27, G:0.00, T:0.36
Consensus pattern (30 bp):
CCCATAATTTTCACAATTTCACACATTTAA
Found at i:5030185 original size:25 final size:26
Alignment explanation
Indices: 5030138--5030190 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 26
5030128 GAACAAATGG
**
5030138 AAAGTGATTGTTGCTGTTGAAAAAAA
1 AAAGTGATTGTTGCACTTGAAAAAAA
*
5030164 AAAGTGA-TGTTGCACTTTAAAAAAA
1 AAAGTGATTGTTGCACTTGAAAAAAA
5030189 AA
1 AA
5030191 TTGCAGCAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
25 17 0.71
26 7 0.29
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (26 bp):
AAAGTGATTGTTGCACTTGAAAAAAA
Found at i:5034423 original size:22 final size:23
Alignment explanation
Indices: 5034393--5034436 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
5034383 AAATTACATA
5034393 ATATATAAAAA-TAGAATAAAAAC
1 ATATATAAAAAGTA-AATAAAAAC
5034416 ATAT-TAAAAAGTAAATAAAAA
1 ATATATAAAAAGTAAATAAAAA
5034437 TGGACTGATC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.23
Consensus pattern (23 bp):
ATATATAAAAAGTAAATAAAAAC
Found at i:5035733 original size:6 final size:6
Alignment explanation
Indices: 5035722--5035758 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
5035712 ATAGATAGGT
5035722 AATATA AATATA AATATA AATATA AATATA AATATA A
1 AATATA AATATA AATATA AATATA AATATA AATATA A
5035759 TTTTATTACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
AATATA
Found at i:5035828 original size:23 final size:22
Alignment explanation
Indices: 5035796--5035861 Score: 62
Period size: 23 Copynumber: 3.0 Consensus size: 22
5035786 ATGTGAGTTG
* *
5035796 AAAAAGAATTTTTGTAAAAATAT
1 AAAAAAAATTTTTATAAAAAT-T
*
5035819 AAAAAAAA-TTATATAAAAATT
1 AAAAAAAATTTTTATAAAAATT
* *
5035840 AAAATAAAATTTTGATTAAAAT
1 AAAA-AAAATTTTTATAAAAAT
5035862 GATAAATTTA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 5 0.14
22 14 0.40
23 16 0.46
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (22 bp):
AAAAAAAATTTTTATAAAAATT
Found at i:5038079 original size:20 final size:20
Alignment explanation
Indices: 5038024--5038079 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
5038014 TCAAAGGAAA
*
5038024 ATACAACAAAATATAATATAT
1 ATACAACAATATA-AATATAT
*
5038045 ATATATA-AATATAAATATAT
1 ATACA-ACAATATAAATATAT
*
5038065 ATACAACAATCTAAA
1 ATACAACAATATAAA
5038080 GTAAATAGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
19 1 0.03
20 18 0.62
21 9 0.31
22 1 0.03
ACGTcount: A:0.61, C:0.09, G:0.00, T:0.30
Consensus pattern (20 bp):
ATACAACAATATAAATATAT
Found at i:5038186 original size:25 final size:26
Alignment explanation
Indices: 5038136--5038198 Score: 85
Period size: 25 Copynumber: 2.5 Consensus size: 26
5038126 AAAAGGTTCG
*
5038136 AATAAACAATATACAAGAAAACTTAA
1 AATAAATAATATACAAGAAAACTTAA
*
5038162 AATAAATGAATATA-AA-AAAATTTAA
1 AATAAAT-AATATACAAGAAAACTTAA
5038187 AATAAATAATAT
1 AATAAATAATAT
5038199 TATATATATA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
24 5 0.15
25 15 0.44
26 8 0.24
27 6 0.18
ACGTcount: A:0.67, C:0.05, G:0.03, T:0.25
Consensus pattern (26 bp):
AATAAATAATATACAAGAAAACTTAA
Found at i:5040210 original size:132 final size:132
Alignment explanation
Indices: 5039968--5041003 Score: 1766
Period size: 132 Copynumber: 7.8 Consensus size: 132
5039958 TGCCATCGTC
* * * * *
5039968 GATCGGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCATCGTCGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCGTCGTCGATCCAC
*
5040033 TTCCTACCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
5040098 AA
131 AA
5040100 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCGTCGTCGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCGTCGTCGATCCAC
* * * *
5040165 TTCCAATCATTATAGGAAGATAGGACCTGTTATCTTTGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
5040230 AA
131 AA
5040232 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCGTCGTCGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCGTCGTCGATCCAC
* * * *
5040297 TTCCAATCATTATAGGAAGATAGGACCTGTTATCTTTGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
5040362 AA
131 AA
5040364 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCGTCGTCGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCGTCGTCGATCCAC
* * * **
5040429 TTCCAATCATTATAGGAAGATAGGACCTGTTATCTTTAATCTACTTCACGCCAATACATGAAGAC
66 TTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
5040494 AA
131 AA
5040496 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCGTCGTCGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCGTCGTCGATCCAC
*
5040561 TTCCTATCAATATAGGAAGATAAGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
5040626 AA
131 AA
* * * *
5040628 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGTGTCTTGGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCGTCGTCGATCCAC
*
5040693 TTCCTATCAATATAGGAAGATAAGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
5040758 AA
131 AA
* * ** * *
5040760 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGATAAGATCTGTATCTTGGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCGTCGTCGATCCAC
*
5040825 TTCCTATCAATATAGGAAGATAGGACCTGCTATCCTCGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
5040890 AA
131 AA
5040892 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCGTCGTCGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCGTCGTCGATCCAC
* *
5040957 TTCCTATCAATATAGGAAGATAGGATCAGCTATCTTCGATCTACTTC
66 TTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTC
5041004 TTGCCCCGGG
Statistics
Matches: 870, Mismatches: 34, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
132 870 1.00
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.28
Consensus pattern (132 bp):
GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCGTCGTCGATCCAC
TTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
AA
Found at i:5041221 original size:95 final size:95
Alignment explanation
Indices: 5041116--5041311 Score: 365
Period size: 95 Copynumber: 2.1 Consensus size: 95
5041106 AAGATCTGCA
*
5041116 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCAGCTTCAATGTACTCCACTT
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCAGCTTCAATGTACTCCACTG
5041181 TAGTCAGGGAGGTAAAATCTGCCATCTTTG
66 TAGTCAGGGAGGTAAAATCTGCCATCTTTG
*
5041211 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCAGCTTCAATGTACTCCACTG
*
5041276 TGGTCAGGGAGGTAAAATCTGCCATCTTTG
66 TAGTCAGGGAGGTAAAATCTGCCATCTTTG
5041306 ATCTTC
1 ATCTTC
5041312 TTTGCTGCCA
Statistics
Matches: 98, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
95 98 1.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (95 bp):
ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCAGCTTCAATGTACTCCACTG
TAGTCAGGGAGGTAAAATCTGCCATCTTTG
Found at i:5041409 original size:45 final size:45
Alignment explanation
Indices: 5041347--5042324 Score: 169
Period size: 46 Copynumber: 21.4 Consensus size: 45
5041337 GATCTGCAAT
*
5041347 CTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
* * * * * * *
5041392 CTTCAATGTACTCCACTG--TAGT-CAGGGAGGTAAAATCTGCCATCTTTGAT
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGT-T---ATC---G-G
*
5041442 CTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
* *** * * * * *
5041487 CTTCAATGTACTCCACTG--TGGT-CAGGGAGGTAAAATCTGCCATATTTGAT
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGAT-AGA---G--TTA-TCG-G
*
5041537 CTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
* *** * * * ** **
5041582 CTTCAATGTACTCCACTG--TGGT-CAGGGAGGTAAAATCTGCCAT
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGT-TATCGG
* * * * * ** * * **
5041625 CTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCA-AGATCTGCAAT
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTTAT-C-GG
*
5041671 CTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
* *** * * * ** **
5041716 CTTCAATGTACTCCACTG--TGGT-CAGGGAGGTAAAATCTGCCAT
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGT-TATCGG
** * * * * ** * * **
5041759 CTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCA-AGATCTGCAAT
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTTAT-C-GG
* *
5041805 CTTCAATCTATTCCACTGCCCAATACAGGGAGATAGAGTTAT-GG
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
* *** * * * ** **
5041849 CTTCAATGTACTCCACTG--TGGT-CAGGGAGGTAAAATCTGCCAT
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGT-TATCGG
** * * * * ** * * **
5041892 CTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCA-AGATCTGCAAT
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTTAT-C-GG
*
5041938 CTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
* * * * * * *
5041983 CTTCAATGTACTCCACTG--TAGT-CAGGGAGGTAAAATCTGCCATCTTTGAT
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGT-T---ATC---G-G
*
5042033 CTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
* *** * * * *
5042078 CTTCAATGTACTCCACTG--TGGT-CAGGGAGGTAAAATCTGCCATCTTTGAT
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGT-T---ATC---G-G
*
5042128 CTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
* *** * * * ** **
5042173 CTTCAATGTACTCCACTG--TGGT-CAGGGAGGTAAAATCTGCCAT
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGT-TATCGG
* * * * * ** * * **
5042216 CTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCA-AGATCTGCAAT
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTTAT-C-GG
*
5042262 CTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
*
5042307 CTTCAATGTACTCCACTG
1 CTTCAATCTACTCCACTG
5042325 TGGTCAGGGA
Statistics
Matches: 631, Mismatches: 229, Indels: 146
0.63 0.23 0.15
Matches are distributed among these distances:
41 11 0.02
42 76 0.12
43 70 0.11
44 20 0.03
45 140 0.22
46 163 0.26
47 18 0.03
48 2 0.00
49 15 0.02
50 64 0.10
52 11 0.02
53 41 0.06
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (45 bp):
CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
Found at i:5041416 original size:229 final size:229
Alignment explanation
Indices: 5041011--5042358 Score: 1585
Period size: 229 Copynumber: 5.9 Consensus size: 229
5041001 TTCTTGCCCC
** * **
5041011 GGGAGATAGAACTATCAGCTTCAATGTACTCCACTGTAATCAGGGAGGTAAAATCTGCCATCTTC
1 GGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATCTTC
*
5041076 GATCTGCTTTGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAA
66 GATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAA
* *
5041141 TACAGGGAGATAGAGTTATCAGCTTCAATGTACTCCACTTTAGTCAGGGAGGTAAAATCTGCCAT
131 TACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCAT
5041206 CTTTGATCTTCAATCTATTCCACTGCCAAATACA
196 CTTTGATCTTCAATCTATTCCACTGCCAAATACA
*
5041240 GGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATCTTT
1 GGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATCTTC
* *
5041305 GATCTTCTTTGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAA
66 GATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAA
5041370 TACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCAT
131 TACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCAT
5041435 CTTTGATCTTCAATCTATTCCACTGCCAAATACA
196 CTTTGATCTTCAATCTATTCCACTGCCAAATACA
* *
5041469 GGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATATTT
1 GGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATCTTC
* * * ** * * ** * *
5041534 GATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTAT-C-GGCTTCAATGTACTCCA
66 GATC-T---GC--TT-CGCTGCCAAATACAGGAAGGCA-AGATCTGCAATCTTCAATCTATTCCA
*** * * * ** ** * * * * * * * * *
5041597 CTG--TGGT-CAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGC
123 CTGCCAAATACAGGGAGATAGAGT-TATCGGCTTCAATGTACTCCACTG--TAGT-CAGGGAGGT
*
5041659 AAGATCTG-CA------ATCTTCAATCTATTCCACTGCCAAATACA
184 AAAATCTGCCATCTTTGATCTTCAATCTATTCCACTGCCAAATACA
*
5041698 GGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATCTTT
1 GGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATCTTC
*
5041763 GATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCCAA
66 GATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAA
*
5041828 TACAGGGAGATAGAGTTAT-GGCTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCAT
131 TACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCAT
* *
5041892 CTTTGATC-T---GC--TT-CGCTGCCAAATACA
196 CTTTGATCTTCAATCTATTCCACTGCCAAATACA
* ** * * ** * * *** * * * ** *
5041919 GGAAGGCA-AGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGT-TATCG
1 GGGAGATAGAGTTAT-C-GGCTTCAATGTACTCCACTG--TGGT-CAGGGAGGTAAAATCTGCCA
* * * * * * * * * * *
5041982 GCTTCAATGTACTCCACTG--TAGT-CAGGGAGGTAAAATCTGCCATCTTTGATCTTCAATCTAT
61 TCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTG-CA------ATCTTCAATCTAT
*
5042044 TCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTGGTCAGGGAGGT
119 TCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGT
5042109 AAAATCTGCCATCTTTGATCTTCAATCTATTCCACTGCCAAATACA
184 AAAATCTGCCATCTTTGATCTTCAATCTATTCCACTGCCAAATACA
5042155 GGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATCTTC
1 GGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATCTTC
5042220 GATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAA
66 GATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAA
*
5042285 TACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCAT
131 TACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCAT
5042350 CTTTGATCT
196 CTTTGATCT
5042359 GCTTCGCTGC
Statistics
Matches: 932, Mismatches: 138, Indels: 98
0.80 0.12 0.08
Matches are distributed among these distances:
220 4 0.00
221 51 0.05
222 44 0.05
223 18 0.02
224 29 0.03
225 14 0.02
226 11 0.01
227 1 0.00
228 47 0.05
229 537 0.58
230 2 0.00
232 22 0.02
233 35 0.04
235 44 0.05
236 65 0.07
237 8 0.01
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (229 bp):
GGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATCTTC
GATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAA
TACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCAT
CTTTGATCTTCAATCTATTCCACTGCCAAATACA
Found at i:5041450 original size:95 final size:95
Alignment explanation
Indices: 5041345--5041633 Score: 551
Period size: 95 Copynumber: 3.0 Consensus size: 95
5041335 AAGATCTGCA
5041345 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
*
5041410 TAGTCAGGGAGGTAAAATCTGCCATCTTTG
66 TGGTCAGGGAGGTAAAATCTGCCATCTTTG
5041440 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
*
5041505 TGGTCAGGGAGGTAAAATCTGCCATATTTG
66 TGGTCAGGGAGGTAAAATCTGCCATCTTTG
5041535 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
*
5041600 TGGTCAGGGAGGTAAAATCTGCCATCTTCG
66 TGGTCAGGGAGGTAAAATCTGCCATCTTTG
5041630 ATCT
1 ATCT
5041634 GCTTCGCTGC
Statistics
Matches: 190, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
95 190 1.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.29
Consensus pattern (95 bp):
ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
TGGTCAGGGAGGTAAAATCTGCCATCTTTG
Found at i:5041690 original size:46 final size:46
Alignment explanation
Indices: 5041535--5042427 Score: 275
Period size: 46 Copynumber: 19.7 Consensus size: 46
5041525 GCCATATTTG
* * *
5041535 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTAT-C-
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGGTA-AGATCTGCA
** * * *** * *
5041580 GGCTTCAATGTACTCCACTG--TGGT-CAGGGAGGTAAAATCTGCC
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGGTAAGATCTGCA
* * * * *
5041623 ATCTTCGATCTGCTT-CGCTGCCAAATACAGGAAGGCAAGATCTGCA
1 ATCTTCAATCT-ATTCCACTGCCAAATACAGGGAGGTAAGATCTGCA
* * *
5041669 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTAT-C-
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGGTA-AGATCTGCA
** * * *** * *
5041714 GGCTTCAATGTACTCCACTG--TGGT-CAGGGAGGTAAAATCTGCC
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGGTAAGATCTGCA
** * * * *
5041757 ATCTTTGATCTGCTT-CGCTGCCAAATACAGGAAGGCAAGATCTGCA
1 ATCTTCAATCT-ATTCCACTGCCAAATACAGGGAGGTAAGATCTGCA
* * * *
5041803 ATCTTCAATCTATTCCACTGCCCAATACAGGGAGATAGAGTTATG--
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGGTA-AGATCTGCA
* * * *** * *
5041848 -GCTTCAATGTACTCCACTG--TGGT-CAGGGAGGTAAAATCTGCC
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGGTAAGATCTGCA
** * * * *
5041890 ATCTTTGATCTGCTT-CGCTGCCAAATACAGGAAGGCAAGATCTGCA
1 ATCTTCAATCT-ATTCCACTGCCAAATACAGGGAGGTAAGATCTGCA
* * *
5041936 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTAT-C-
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGGTA-AGATCTGCA
** * * * * *
5041981 GGCTTCAATGTACTCCACTG--TAGT-CAGGGAGGTAAAATCTGCCA
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGGTAAGATCTG-CA
* * *
5042025 TCTTTGATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTAT-C-
1 ------ATCTTCAATCTATTCCACTGCCAAATACAGGGAGGTA-AGATCTGCA
** * * *** *
5042076 GGCTTCAATGTACTCCACTG--TGGT-CAGGGAGGTAAAATCTGCCA
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGGTAAGATCTG-CA
* * *
5042120 TCTTTGATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTAT-C-
1 ------ATCTTCAATCTATTCCACTGCCAAATACAGGGAGGTA-AGATCTGCA
** * * *** * *
5042171 GGCTTCAATGTACTCCACTG--TGGT-CAGGGAGGTAAAATCTGCC
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGGTAAGATCTGCA
* * * * *
5042214 ATCTTCGATCTGCTT-CGCTGCCAAATACAGGAAGGCAAGATCTGCA
1 ATCTTCAATCT-ATTCCACTGCCAAATACAGGGAGGTAAGATCTGCA
* * *
5042260 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTAT-C-
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGGTA-AGATCTGCA
** * * *** * *
5042305 GGCTTCAATGTACTCCACTG--TGGT-CAGGGAGGTAAAATCTGCC
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGGTAAGATCTGCA
** * * * *
5042348 ATCTTTGATCTGCTT-CGCTGCCAAATACAGGAAGGCAAGATCTGCA
1 ATCTTCAATCT-ATTCCACTGCCAAATACAGGGAGGTAAGATCTGCA
*
5042394 ATCTTCAATCTATTCCACTGCCCAATACAGGGAG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAG
5042428 ATAGAGTTAT
Statistics
Matches: 573, Mismatches: 209, Indels: 131
0.63 0.23 0.14
Matches are distributed among these distances:
40 4 0.01
41 27 0.05
42 59 0.10
43 61 0.11
44 21 0.04
45 111 0.19
46 212 0.37
47 17 0.03
50 32 0.06
52 5 0.01
53 18 0.03
54 6 0.01
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.27
Consensus pattern (46 bp):
ATCTTCAATCTATTCCACTGCCAAATACAGGGAGGTAAGATCTGCA
Found at i:5041705 original size:324 final size:324
Alignment explanation
Indices: 5041116--5041767 Score: 1232
Period size: 324 Copynumber: 2.0 Consensus size: 324
5041106 AAGATCTGCA
*
5041116 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCAGCTTCAATGTACTCCACTT
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCAGCTTCAATGTACTCCACTG
*
5041181 TAGTCAGGGAGGTAAAATCTGCCATCTTTGATCTTCAATCTATTCCACTGCCAAATACAGGGAGA
66 TAGTCAGGGAGGTAAAATCTGCCATATTTGATCTTCAATCTATTCCACTGCCAAATACAGGGAGA
* *
5041246 TAGAGTTATCGGCTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATCTTTGATCTT
131 TAGAGTTATCGGCTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATCTTCGATCTG
*
5041311 CTTTGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGG
196 CTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGG
5041376 GAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTTG
261 GAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTTG
*
5041440 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCAGCTTCAATGTACTCCACTG
*
5041505 TGGTCAGGGAGGTAAAATCTGCCATATTTGATCTTCAATCTATTCCACTGCCAAATACAGGGAGA
66 TAGTCAGGGAGGTAAAATCTGCCATATTTGATCTTCAATCTATTCCACTGCCAAATACAGGGAGA
5041570 TAGAGTTATCGGCTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATCTTCGATCTG
131 TAGAGTTATCGGCTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATCTTCGATCTG
5041635 CTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGG
196 CTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGG
*
5041700 GAGATAGAGTTATCGGCTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATCTTTG
261 GAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTTG
5041764 ATCT
1 ATCT
5041768 GCTTCGCTGC
Statistics
Matches: 320, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
324 320 1.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.29
Consensus pattern (324 bp):
ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCAGCTTCAATGTACTCCACTG
TAGTCAGGGAGGTAAAATCTGCCATATTTGATCTTCAATCTATTCCACTGCCAAATACAGGGAGA
TAGAGTTATCGGCTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATCTTCGATCTG
CTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGG
GAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTTG
Found at i:5041929 original size:133 final size:134
Alignment explanation
Indices: 5041535--5042034 Score: 966
Period size: 134 Copynumber: 3.7 Consensus size: 134
5041525 GCCATATTTG
5041535 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
*
5041600 TGGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
66 TGGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
5041665 TGCA
131 TGCA
5041669 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
5041734 TGGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
66 TGGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
5041799 TGCA
131 TGCA
*
5041803 ATCTTCAATCTATTCCACTGCCCAATACAGGGAGATAGAGTTAT-GGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
5041867 TGGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
66 TGGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
5041932 TGCA
131 TGCA
5041936 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
*
5042001 TAGTCAGGGAGGTAAAATCTGCCATCTTTGATCT
66 TGGTCAGGGAGGTAAAATCTGCCATCTTTGATCT
5042035 TCAATCTATT
Statistics
Matches: 361, Mismatches: 4, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
133 132 0.37
134 229 0.63
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.27
Consensus pattern (134 bp):
ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
TGGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
TGCA
Found at i:5042011 original size:267 final size:268
Alignment explanation
Indices: 5041535--5042034 Score: 966
Period size: 267 Copynumber: 1.9 Consensus size: 268
5041525 GCCATATTTG
5041535 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
5041600 TGGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
66 TGGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
5041665 TGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCC
131 TGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCC
*
5041730 ACTGTGGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAA
196 ACTGTAGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAA
5041795 GATCTGCA
261 GATCTGCA
*
5041803 ATCTTCAATCTATTCCACTGCCCAATACAGGGAGATAGAGTTAT-GGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
*
5041867 TGGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
66 TGGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
5041932 TGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCC
131 TGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCC
5041997 ACTGTAGTCAGGGAGGTAAAATCTGCCATCTTTGATCT
196 ACTGTAGTCAGGGAGGTAAAATCTGCCATCTTTGATCT
5042035 TCAATCTATT
Statistics
Matches: 229, Mismatches: 3, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
267 186 0.81
268 43 0.19
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.27
Consensus pattern (268 bp):
ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
TGGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
TGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCC
ACTGTAGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAA
GATCTGCA
Found at i:5042041 original size:95 final size:95
Alignment explanation
Indices: 5041936--5042224 Score: 560
Period size: 95 Copynumber: 3.0 Consensus size: 95
5041926 AAGATCTGCA
5041936 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
*
5042001 TAGTCAGGGAGGTAAAATCTGCCATCTTTG
66 TGGTCAGGGAGGTAAAATCTGCCATCTTTG
5042031 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
5042096 TGGTCAGGGAGGTAAAATCTGCCATCTTTG
66 TGGTCAGGGAGGTAAAATCTGCCATCTTTG
5042126 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
*
5042191 TGGTCAGGGAGGTAAAATCTGCCATCTTCG
66 TGGTCAGGGAGGTAAAATCTGCCATCTTTG
5042221 ATCT
1 ATCT
5042225 GCTTCGCTGC
Statistics
Matches: 192, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
95 192 1.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.29
Consensus pattern (95 bp):
ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
TGGTCAGGGAGGTAAAATCTGCCATCTTTG
Found at i:5042377 original size:591 final size:592
Alignment explanation
Indices: 5041211--5042525 Score: 2587
Period size: 591 Copynumber: 2.2 Consensus size: 592
5041201 GCCATCTTTG
*
5041211 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCCAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
* *
5041276 TGGTCAGGGAGGTAAAATCTGCCATCTTTGATCTTCTTTGCTGCCAAATACAGGAAGGCAAGATC
66 TGGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
5041341 TGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCC
131 TGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCC
5041406 ACTGTAGTCAGGGAGGTAAAATCTGCCATCTTTGATCTTCAATCTATTCCACTGCCAAATACAGG
196 ACTGTAGTCAGGGAGGTAAAATCTGCCATCTTTGATCTTCAATCTATTCCACTGCCAAATACAGG
5041471 GAGATAGAGTTATCGGCTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATATTTGA
261 GAGATAGAGTTATCGGCTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATATTTGA
5041536 TCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGT
326 TCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGT
5041601 GGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCT
391 GGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCT
5041666 GCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCA
456 GCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCA
5041731 CTGTGGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAG
521 CTGTGGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAG
5041796 ATCTGCA
586 ATCTGCA
5041803 ATCTTCAATCTATTCCACTGCCCAATACAGGGAGATAGAGTTAT-GGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCCAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
5041867 TGGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
66 TGGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
5041932 TGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCC
131 TGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCC
5041997 ACTGTAGTCAGGGAGGTAAAATCTGCCATCTTTGATCTTCAATCTATTCCACTGCCAAATACAGG
196 ACTGTAGTCAGGGAGGTAAAATCTGCCATCTTTGATCTTCAATCTATTCCACTGCCAAATACAGG
*
5042062 GAGATAGAGTTATCGGCTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATCTTTGA
261 GAGATAGAGTTATCGGCTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATATTTGA
5042127 TCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGT
326 TCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGT
5042192 GGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCT
391 GGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCT
5042257 GCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCA
456 GCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCA
5042322 CTGTGGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAG
521 CTGTGGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAG
5042387 ATCTGCA
586 ATCTGCA
5042394 ATCTTCAATCTATTCCACTGCCCAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCCAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
5042459 TGGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
66 TGGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
5042524 TG
131 TG
5042526 ATAACTTCAA
Statistics
Matches: 718, Mismatches: 4, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
591 588 0.82
592 130 0.18
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (592 bp):
ATCTTCAATCTATTCCACTGCCCAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
TGGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
TGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCC
ACTGTAGTCAGGGAGGTAAAATCTGCCATCTTTGATCTTCAATCTATTCCACTGCCAAATACAGG
GAGATAGAGTTATCGGCTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATATTTGA
TCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGT
GGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCT
GCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCA
CTGTGGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAG
ATCTGCA
Found at i:5042535 original size:134 final size:134
Alignment explanation
Indices: 5042126--5042525 Score: 782
Period size: 134 Copynumber: 3.0 Consensus size: 134
5042116 GCCATCTTTG
5042126 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
*
5042191 TGGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
66 TGGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
5042256 TGCA
131 TGCA
5042260 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
5042325 TGGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
66 TGGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
5042390 TGCA
131 TGCA
*
5042394 ATCTTCAATCTATTCCACTGCCCAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
5042459 TGGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
66 TGGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
5042524 TG
131 TG
5042526 ATAACTTCAA
Statistics
Matches: 264, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
134 264 1.00
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (134 bp):
ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
TGGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
TGCA
Found at i:5046705 original size:19 final size:20
Alignment explanation
Indices: 5046681--5046724 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
5046671 CGTGAAAGTC
* *
5046681 TAATGCATATG-ATGCAATG
1 TAATGCAAATGCATGAAATG
5046700 TAATGCAAATGCATGAAATG
1 TAATGCAAATGCATGAAATG
5046720 -AATGC
1 TAATGC
5046725 CAAAAGAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.41, C:0.11, G:0.20, T:0.27
Consensus pattern (20 bp):
TAATGCAAATGCATGAAATG
Found at i:5048670 original size:20 final size:20
Alignment explanation
Indices: 5048615--5048670 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
5048605 TCAAAGGAAA
*
5048615 ATACAACAAAATATAATATAT
1 ATACAACAATATA-AATATAT
*
5048636 ATATATA-AATATAAATATAT
1 ATACA-ACAATATAAATATAT
*
5048656 ATACAACAATCTAAA
1 ATACAACAATATAAA
5048671 GTAAATAGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
19 1 0.03
20 18 0.62
21 9 0.31
22 1 0.03
ACGTcount: A:0.61, C:0.09, G:0.00, T:0.30
Consensus pattern (20 bp):
ATACAACAATATAAATATAT
Found at i:5048789 original size:25 final size:26
Alignment explanation
Indices: 5048727--5048790 Score: 85
Period size: 26 Copynumber: 2.5 Consensus size: 26
5048717 AAAAGGTTCG
* *
5048727 AATAAACAATATACAAGAAAACTTAA
1 AATAAATAATATACAAAAAAACTTAA
*
5048753 AATAAATGAATATA-AAAAAAATTTAA
1 AATAAAT-AATATACAAAAAAACTTAA
5048779 AATAAATAATAT
1 AATAAATAATAT
5048791 TATATATATA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
25 5 0.15
26 23 0.68
27 6 0.18
ACGTcount: A:0.67, C:0.05, G:0.03, T:0.25
Consensus pattern (26 bp):
AATAAATAATATACAAAAAAACTTAA
Found at i:5055129 original size:3 final size:3
Alignment explanation
Indices: 5055121--5055145 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
5055111 TCAACAGCAA
5055121 GCT GCT GCT GCT GCT GCT GCT GCT G
1 GCT GCT GCT GCT GCT GCT GCT GCT G
5055146 ATGATGATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.36, T:0.32
Consensus pattern (3 bp):
GCT
Found at i:5055840 original size:12 final size:12
Alignment explanation
Indices: 5055823--5055864 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
5055813 GGGTAATTTA
*
5055823 ATATATATGTAT
1 ATATATATGGAT
5055835 ATATATATGGAT
1 ATATATATGGAT
5055847 GATATA-ATGGAT
1 -ATATATATGGAT
5055859 AT-TATA
1 ATATATA
5055865 GCAATTAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
10 2 0.07
11 3 0.11
12 17 0.63
13 5 0.19
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (12 bp):
ATATATATGGAT
Found at i:5056834 original size:13 final size:14
Alignment explanation
Indices: 5056817--5056867 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
5056807 ATAAACCTTG
*
5056817 AACCCCAAA-CTCG
1 AACCCCAAACCTCA
*
5056830 AACCCTAAACCTCA
1 AACCCCAAACCTCA
* *
5056844 AACCTCAAATCTCA
1 AACCCCAAACCTCA
*
5056858 AATCCCAAAC
1 AACCCCAAAC
5056868 ATTGAATCTC
Statistics
Matches: 29, Mismatches: 8, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
13 8 0.28
14 21 0.72
ACGTcount: A:0.43, C:0.41, G:0.02, T:0.14
Consensus pattern (14 bp):
AACCCCAAACCTCA
Found at i:5056847 original size:27 final size:26
Alignment explanation
Indices: 5056772--5056852 Score: 72
Period size: 27 Copynumber: 3.0 Consensus size: 26
5056762 TTTTTTTTAT
* *
5056772 CTCGAACCCAAAAACCTAAATCCCAAA
1 CTCGAACCC-TAAACCTAAACCCCAAA
* * * *
5056799 CACTAACCATAAACCTTGAACCCCAAA
1 CTCGAACCCTAAACC-TAAACCCCAAA
*
5056826 CTCGAACCCTAAACCTCAAACCTCAAA
1 CTCGAACCCTAAACCT-AAACCCCAAA
5056853 TCTCAAATCC
Statistics
Matches: 41, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
26 6 0.15
27 35 0.85
ACGTcount: A:0.44, C:0.38, G:0.04, T:0.14
Consensus pattern (26 bp):
CTCGAACCCTAAACCTAAACCCCAAA
Found at i:5057461 original size:24 final size:23
Alignment explanation
Indices: 5057403--5057461 Score: 55
Period size: 24 Copynumber: 2.5 Consensus size: 23
5057393 TTCTCATGTT
* * **
5057403 AATTATTTATAATATAATTTCTA
1 AATTATTAAAAATATAATTTAAA
*
5057426 AATTATACAAAAATATAATTTAAAA
1 AATTAT-TAAAAATATAATTT-AAA
5057451 AATTATTAAAA
1 AATTATTAAAA
5057462 TATTAAATTA
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
23 6 0.21
24 15 0.54
25 7 0.25
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (23 bp):
AATTATTAAAAATATAATTTAAA
Found at i:5057938 original size:12 final size:12
Alignment explanation
Indices: 5057922--5057950 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
5057912 TTTTATTTTT
5057922 ATTTTTAAAAT-
1 ATTTTTAAAATA
5057933 ATTTTTAAAATA
1 ATTTTTAAAATA
5057945 ATTTTT
1 ATTTTT
5057951 TATTTTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
ATTTTTAAAATA
Found at i:5057956 original size:19 final size:20
Alignment explanation
Indices: 5057932--5057970 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
5057922 ATTTTTAAAA
5057932 TATTTTTAAAAT-AATTTTT
1 TATTTTTAAAATAAATTTTT
5057951 TATTTTTAAAATAAATTTTT
1 TATTTTTAAAATAAATTTTT
5057971 GGTGTTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TATTTTTAAAATAAATTTTT
Found at i:5057978 original size:20 final size:19
Alignment explanation
Indices: 5057936--5057978 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
5057926 TTAAAATATT
* *
5057936 TTTAAAATAATTTTTTATT
1 TTTAAAATAATTTTTGATG
*
5057955 TTTAAAATAAATTTTTGGTG
1 TTTAAAAT-AATTTTTGATG
5057975 TTTA
1 TTTA
5057979 TTAAAAAATG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (19 bp):
TTTAAAATAATTTTTGATG
Found at i:5068406 original size:15 final size:16
Alignment explanation
Indices: 5068374--5068407 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
5068364 GTTAATGGAA
*
5068374 AAAATAATTTTAATAT
1 AAAATAATTATAATAT
5068390 AAAATAATTAT-ATAT
1 AAAATAATTATAATAT
5068405 AAA
1 AAA
5068408 GTTCTAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AAAATAATTATAATAT
Found at i:5068505 original size:17 final size:16
Alignment explanation
Indices: 5068483--5068518 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
5068473 ATATGATAGC
*
5068483 TTTTTTTATGAAATAA
1 TTTTTTTATCAAATAA
*
5068499 TTTTTTTATCAAATTA
1 TTTTTTTATCAAATAA
5068515 TTTT
1 TTTT
5068519 ACCAAAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (16 bp):
TTTTTTTATCAAATAA
Found at i:5069968 original size:12 final size:13
Alignment explanation
Indices: 5069951--5069979 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
5069941 ATGCACTGGG
5069951 TTTTC-TTTTCTT
1 TTTTCTTTTTCTT
5069963 TTTTCTTTTTCTT
1 TTTTCTTTTTCTT
5069976 TTTT
1 TTTT
5069980 TTAAAATTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.31
13 11 0.69
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (13 bp):
TTTTCTTTTTCTT
Found at i:5072285 original size:2 final size:2
Alignment explanation
Indices: 5072280--5072351 Score: 144
Period size: 2 Copynumber: 36.0 Consensus size: 2
5072270 TTGTGTGTAA
5072280 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
5072322 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
5072352 CAAGTACCCA
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 70 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:5074564 original size:29 final size:28
Alignment explanation
Indices: 5074515--5074569 Score: 92
Period size: 29 Copynumber: 1.9 Consensus size: 28
5074505 TCGGATTCTT
*
5074515 TTTAATAGTACAAGATTAAATTGATCTA
1 TTTAATAGTAAAAGATTAAATTGATCTA
5074543 TTTAATAGTAGAAAGATTAAATTGATC
1 TTTAATAGTA-AAAGATTAAATTGATC
5074570 CAATCTCTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 10 0.40
29 15 0.60
ACGTcount: A:0.44, C:0.05, G:0.13, T:0.38
Consensus pattern (28 bp):
TTTAATAGTAAAAGATTAAATTGATCTA
Found at i:5078089 original size:15 final size:15
Alignment explanation
Indices: 5078069--5078097 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
5078059 AGACAAAGCA
5078069 GAAGAAGAAGCAGAT
1 GAAGAAGAAGCAGAT
5078084 GAAGAAGAAGCAGA
1 GAAGAAGAAGCAGA
5078098 AGAAATAGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.07, G:0.34, T:0.03
Consensus pattern (15 bp):
GAAGAAGAAGCAGAT
Found at i:5078098 original size:24 final size:24
Alignment explanation
Indices: 5078068--5078139 Score: 81
Period size: 24 Copynumber: 3.0 Consensus size: 24
5078058 GAGACAAAGC
*
5078068 AGAAGAAGAAGCAGATGAAGAAGA
1 AGAAGAAGAAGCAGAGGAAGAAGA
* **
5078092 AGCAGAAGAAATAGAGGAAGAAGA
1 AGAAGAAGAAGCAGAGGAAGAAGA
* * *
5078116 GGAAGGAGAAGGAGAGGAAGAAGA
1 AGAAGAAGAAGCAGAGGAAGAAGA
5078140 GAAAGAGAAA
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.56, C:0.03, G:0.39, T:0.03
Consensus pattern (24 bp):
AGAAGAAGAAGCAGAGGAAGAAGA
Found at i:5078140 original size:24 final size:23
Alignment explanation
Indices: 5078104--5078148 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
5078094 CAGAAGAAAT
*
5078104 AGAGGAAGAAGAGGAAGGAGAAGG
1 AGAGGAAGAAGA-GAAAGAGAAGG
5078128 AGAGGAAGAAGAGAAAGAGAA
1 AGAGGAAGAAGAGAAAGAGAA
5078149 AATGATGTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.56, C:0.00, G:0.44, T:0.00
Consensus pattern (23 bp):
AGAGGAAGAAGAGAAAGAGAAGG
Found at i:5081810 original size:2 final size:2
Alignment explanation
Indices: 5081805--5081830 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
5081795 TCAAAATTAC
5081805 CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA
5081831 TATATATACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:5084833 original size:38 final size:38
Alignment explanation
Indices: 5084717--5084835 Score: 136
Period size: 38 Copynumber: 3.1 Consensus size: 38
5084707 ATATATTTGC
* *
5084717 GTTATCGAATGGAATAACTCTTGTGAGCAAACA-GGCGT
1 GTTATCGGATGGAATAACTCTTATGAGCAAA-ATGGCGT
* * *
5084755 GATATCAGG-TGGAATAGCTCTTATGAGCAAACTGGCGT
1 GTTATC-GGATGGAATAACTCTTATGAGCAAAATGGCGT
*
5084793 GTTATCGGAT-GAGATAACTCTTATGAGCAAAATGGTGT
1 GTTATCGGATGGA-ATAACTCTTATGAGCAAAATGGCGT
5084831 GTTAT
1 GTTAT
5084836 TGGGTACCCG
Statistics
Matches: 68, Mismatches: 9, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
37 4 0.06
38 63 0.93
39 1 0.01
ACGTcount: A:0.30, C:0.13, G:0.27, T:0.29
Consensus pattern (38 bp):
GTTATCGGATGGAATAACTCTTATGAGCAAAATGGCGT
Found at i:5088892 original size:14 final size:15
Alignment explanation
Indices: 5088873--5088902 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
5088863 TTCTTGCTTG
5088873 TTTTATTTTAT-TTT
1 TTTTATTTTATCTTT
5088887 TTTTATTTTATCTTT
1 TTTTATTTTATCTTT
5088902 T
1 T
5088903 ACATAAGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.13, C:0.03, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTATTTTATCTTT
Found at i:5089699 original size:9 final size:11
Alignment explanation
Indices: 5089683--5089715 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
5089673 ATATATATTT
5089683 TATATTTTATA
1 TATATTTTATA
5089694 -AT-TTTTATA
1 TATATTTTATA
5089703 TATATTTTATA
1 TATATTTTATA
5089714 TA
1 TA
5089716 CATATACGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
9 7 0.35
10 4 0.20
11 9 0.45
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
TATATTTTATA
Found at i:5093340 original size:11 final size:11
Alignment explanation
Indices: 5093326--5093375 Score: 57
Period size: 11 Copynumber: 4.4 Consensus size: 11
5093316 AAAAAAAGGA
5093326 AAAACAAAAAC
1 AAAACAAAAAC
5093337 AAAAC-AAAAC
1 AAAACAAAAAC
*
5093347 AAAATAAAAAC
1 AAAACAAAAAC
5093358 AAAAATCAAAAATC
1 -AAAA-CAAAAA-C
5093372 AAAA
1 AAAA
5093376 ATCAAAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
10 9 0.27
11 10 0.30
12 4 0.12
13 9 0.27
14 1 0.03
ACGTcount: A:0.80, C:0.14, G:0.00, T:0.06
Consensus pattern (11 bp):
AAAACAAAAAC
Found at i:5093374 original size:14 final size:13
Alignment explanation
Indices: 5093325--5093383 Score: 67
Period size: 14 Copynumber: 4.9 Consensus size: 13
5093315 AAAAAAAAGG
5093325 AAAAA-CAAAAAC
1 AAAAATCAAAAAC
5093337 -AAAA-C-AAAAC
1 AAAAATCAAAAAC
5093347 -AAAAT-AAAAAC
1 AAAAATCAAAAAC
5093358 AAAAATCAAAAATC
1 AAAAATCAAAAA-C
5093372 AAAAATCAAAAA
1 AAAAATCAAAAA
5093384 AATCGAAGTC
Statistics
Matches: 42, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
10 9 0.21
11 10 0.24
12 5 0.12
13 5 0.12
14 13 0.31
ACGTcount: A:0.80, C:0.14, G:0.00, T:0.07
Consensus pattern (13 bp):
AAAAATCAAAAAC
Found at i:5096459 original size:88 final size:88
Alignment explanation
Indices: 5095483--5096438 Score: 1601
Period size: 88 Copynumber: 10.9 Consensus size: 88
5095473 CAACGAAGTT
* * * *
5095483 AAAGATCTTGCCTTCCTGCATTGACAGTGAAGCAGGTCAAATACACAAACCTTGCCTCTCTCGAT
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGT
5095548 TGTGATGGAGCTGGTTGAAGACA
66 TGTGATGGAGCTGGTTGAAGACA
* *
5095571 AAAGATCTTGCCTTCCTGCATTGATAGCGAAGCAGGTCGAAGATACAAACCTTGCCTCTCTCGGT
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGT
5095636 TGTGATGGAGCTGGTTGAAGACA
66 TGTGATGGAGCTGGTTGAAGACA
*
5095659 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCAAAGACACAAACCTTGCCTCTCTCGGT
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGT
*
5095724 TGTGATGGAGCTGGTTGAAGATA
66 TGTGATGGAGCTGGTTGAAGACA
*
5095747 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGAT
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGT
5095812 TGTGATGGAGCTGGTTGAAGACA
66 TGTGATGGAGCTGGTTGAAGACA
* * * *
5095835 AAAGATCTTGCCTTCCTGCATTGACGGTGAAGCAAGTCAAAGACACAAACCTTGCCTCTCTCGGT
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGT
*
5095900 TGTGATGGAGCTGGTTTAAGACA
66 TGTGATGGAGCTGGTTGAAGACA
* * *
5095923 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCAAATACACAAACCTTGCCTCTCTCGAT
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGT
5095988 TGTGATGGAGCTGGTTGAAGACA
66 TGTGATGGAGCTGGTTGAAGACA
* *
5096011 AAAGATCTTGCCTTCCTGCATTGATAGCGAAGCAGGTCGAAGATACAAACCTTGCCTCTCTCGGT
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGT
5096076 TGTGATGGAGCTGGTTGAAGACA
66 TGTGATGGAGCTGGTTGAAGACA
* *
5096099 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCAAAGACACAAACCTTGCCTCTTTCGGT
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGT
5096164 TGTGATGGAGCTGGTTGAAGACA
66 TGTGATGGAGCTGGTTGAAGACA
5096187 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGT
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGT
* *
5096252 TGTGATGGAGCTAGTCGAAGACA
66 TGTGATGGAGCTGGTTGAAGACA
** * *
5096275 AAAGATCTTGCCTTCCTATATTGACAGTGAAGCACGTCGAAGACACAAACCTTGCCTCTCTCGGT
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGT
5096340 TGTGATGGAGCTGGTTGAAGACA
66 TGTGATGGAGCTGGTTGAAGACA
* * * *
5096363 ACAGATCTTGCCTTCCTTCATTGACAGCGAAGCAGATCGAAGACA-AAAGCCTTGCCTCCCTCGG
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAA-CCTTGCCTCTCTCGG
5096427 TTGT-AGTGGAGC
65 TTGTGA-TGGAGC
5096439 AGATCAAAGA
Statistics
Matches: 815, Mismatches: 51, Indels: 4
0.94 0.06 0.00
Matches are distributed among these distances:
87 4 0.00
88 811 1.00
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.25
Consensus pattern (88 bp):
AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGT
TGTGATGGAGCTGGTTGAAGACA
Found at i:5096843 original size:132 final size:132
Alignment explanation
Indices: 5096429--5097103 Score: 1106
Period size: 132 Copynumber: 5.1 Consensus size: 132
5096419 TCCCTCGGTT
5096429 GTAGT-GGAGCAGATCAAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAG
1 GTAGTAGG-GCAGATCAAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAG
* *
5096493 CCATTGGTCCTATCACCCTAAGCAATAGTGGAGTAAGTTGAAAATTGCAGATTCTGTCACTCTAA
65 CCATTGGTCCTATCACCCTAAGCAATAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACTCTAA
5096558 GCA
130 GCA
5096561 GTAGTAGGGCAGATCAAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGC
1 GTAGTAGGGCAGATCAAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGC
5096626 CATTGGTCC--TCACCCTAAGCAATAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACTCTAAG
66 CATTGGTCCTATCACCCTAAGCAATAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACTCTAAG
5096689 CA
131 CA
* * *
5096691 GTAGTAGGGCAGATCGAAGATGGTGAATATTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGT
1 GTAGTAGGGCAGATCAAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGC
* * *
5096756 CATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCATATTCTGTCACTCTAAG
66 CATTGGTCCTATCACCCTAAGCAATAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACTCTAAG
5096821 CA
131 CA
* * *
5096823 ATAGTAGGGCAAATCAAAGATGGTGAATCTTACCTTCCCAATACAGTGGAGAAGCAGATTTAAGC
1 GTAGTAGGGCAGATCAAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGC
5096888 CATTGGTCCTATCACCCTAAGCAATAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACTCTAAG
66 CATTGGTCCTATCACCCTAAGCAATAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACTCTAAG
5096953 CA
131 CA
* *
5096955 GTAGTAGGGCAGATCGAAGATGGTGAATATTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGC
1 GTAGTAGGGCAGATCAAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGC
* * ** * * * * *
5097020 CATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGTCAAAGACTGTAGACTCTGTCCCCCTAAG
66 CATTGGTCCTATCACCCTAAGCAATAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACTCTAAG
5097085 CA
131 CA
5097087 GTAGT-GGTGCAGATCAA
1 GTAGTAGG-GCAGATCAA
5097104 CAATAACGAA
Statistics
Matches: 507, Mismatches: 32, Indels: 8
0.93 0.06 0.01
Matches are distributed among these distances:
130 124 0.24
131 2 0.00
132 379 0.75
133 2 0.00
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (132 bp):
GTAGTAGGGCAGATCAAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGC
CATTGGTCCTATCACCCTAAGCAATAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACTCTAAG
CA
Found at i:5097877 original size:14 final size:15
Alignment explanation
Indices: 5097858--5097887 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
5097848 TTCTTGCTTG
5097858 TTTTATTTTAT-TTT
1 TTTTATTTTATCTTT
5097872 TTTTATTTTATCTTT
1 TTTTATTTTATCTTT
5097887 T
1 T
5097888 ACATAAGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.13, C:0.03, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTATTTTATCTTT
Found at i:5098701 original size:8 final size:8
Alignment explanation
Indices: 5098639--5098701 Score: 53
Period size: 8 Copynumber: 8.1 Consensus size: 8
5098629 TTATTTCCTC
5098639 ATTTATAT
1 ATTTATAT
* *
5098647 ATATACAT
1 ATTTATAT
5098655 ACTTATATAT
1 A-TT-TATAT
5098665 ATTTATAT
1 ATTTATAT
5098673 -TTTATA-
1 ATTTATAT
5098679 ATTT-T-T
1 ATTTATAT
*
5098685 ATATATAT
1 ATTTATAT
5098693 ATTTATAT
1 ATTTATAT
5098701 A
1 A
5098702 CATATACGTG
Statistics
Matches: 43, Mismatches: 6, Indels: 12
0.70 0.10 0.20
Matches are distributed among these distances:
6 4 0.09
7 10 0.23
8 21 0.49
9 3 0.07
10 5 0.12
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (8 bp):
ATTTATAT
Found at i:5100714 original size:20 final size:20
Alignment explanation
Indices: 5100667--5100706 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
5100657 ATTTAAATTT
* *
5100667 TATCAATATCTATCTTTATA
1 TATCTATATCTATCTATATA
5100687 TATCTATATCTATACTATAT
1 TATCTATATCTAT-CTATAT
5100707 TATTTATAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.35, C:0.15, G:0.00, T:0.50
Consensus pattern (20 bp):
TATCTATATCTATCTATATA
Found at i:5105083 original size:18 final size:18
Alignment explanation
Indices: 5105060--5105097 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
5105050 ATGTTTAAAC
* *
5105060 TTGGATTCTGCTGCTTTA
1 TTGGATTCTACTGATTTA
5105078 TTGGATTCTACTGATTTA
1 TTGGATTCTACTGATTTA
5105096 TT
1 TT
5105098 TAGGAAAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.16, C:0.13, G:0.18, T:0.53
Consensus pattern (18 bp):
TTGGATTCTACTGATTTA
Found at i:5108189 original size:28 final size:28
Alignment explanation
Indices: 5108149--5108202 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
5108139 GATATAGTAT
5108149 TTAATCTAGACATGAGTATTAATTGAAC
1 TTAATCTAGACATGAGTATTAATTGAAC
*
5108177 TTAATTTAGACATGAGTATTAATTGA
1 TTAATCTAGACATGAGTATTAATTGA
5108203 GCAAATGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (28 bp):
TTAATCTAGACATGAGTATTAATTGAAC
Found at i:5123064 original size:3 final size:3
Alignment explanation
Indices: 5123056--5123106 Score: 50
Period size: 3 Copynumber: 16.0 Consensus size: 3
5123046 AATAGGGGTG
*
5123056 ATA ATA ATA ATA ATA CTA ATA CA-A ATA ATA ATA CATA TATA TATA ATA
1 ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA -ATA -ATA -ATA ATA
5123104 ATA
1 ATA
5123107 GTAGTCAGAA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
2 1 0.02
3 30 0.71
4 11 0.26
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:5123211 original size:30 final size:32
Alignment explanation
Indices: 5123177--5123242 Score: 82
Period size: 36 Copynumber: 2.0 Consensus size: 32
5123167 TGGAGAGGGC
5123177 ATATATA-AT-ATAATAATAATATAAATAATA
1 ATATATACATAATAATAATAATATAAATAATA
5123207 ATATATACATGAGAAATAATAATAATATAAATAATA
1 ATATATACAT----AATAATAATAATATAAATAATA
5123243 GTAAAAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
30 7 0.23
31 2 0.07
36 21 0.70
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (32 bp):
ATATATACATAATAATAATAATATAAATAATA
Found at i:5127186 original size:6 final size:6
Alignment explanation
Indices: 5127177--5127207 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
5127167 AAAGAGTCCA
*
5127177 ACCATC ACCACC ACCATC ACCATC ACCATC A
1 ACCATC ACCATC ACCATC ACCATC ACCATC A
5127208 TCTTCCTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.35, C:0.52, G:0.00, T:0.13
Consensus pattern (6 bp):
ACCATC
Found at i:5132213 original size:46 final size:46
Alignment explanation
Indices: 5132139--5132299 Score: 263
Period size: 46 Copynumber: 3.5 Consensus size: 46
5132129 TACATATGAT
* *
5132139 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
5132183 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
* * *
5132229 TAATTATCACTTTGTCACTTGATCAGATAATTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
5132275 CACTTATCACTTTGTCACTTGATCA
1 CACTTATCACTTTGTCACTTGATCA
5132300 AAAGTACTCA
Statistics
Matches: 108, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
44 10 0.09
45 5 0.05
46 93 0.86
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.34
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:5135428 original size:22 final size:23
Alignment explanation
Indices: 5135403--5135447 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
5135393 TGGTGGGAGC
5135403 TTATTGACAC-TCGGTGCGATTG
1 TTATTGACACTTCGGTGCGATTG
* *
5135425 TTATTGGCACTTTGGTGCGATTG
1 TTATTGACACTTCGGTGCGATTG
5135448 ATACTAGCAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.16, C:0.16, G:0.29, T:0.40
Consensus pattern (23 bp):
TTATTGACACTTCGGTGCGATTG
Found at i:5135445 original size:23 final size:23
Alignment explanation
Indices: 5135415--5135476 Score: 79
Period size: 23 Copynumber: 2.7 Consensus size: 23
5135405 ATTGACACTC
*
5135415 GGTGCGATTGTTATTGGCACTTT
1 GGTGCGATTGTTATTAGCACTTT
* *
5135438 GGTGCGATTGATACTAGCACTTT
1 GGTGCGATTGTTATTAGCACTTT
* *
5135461 GATGCGATTATTATTA
1 GGTGCGATTGTTATTA
5135477 TGGAGTGTTA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.21, C:0.13, G:0.26, T:0.40
Consensus pattern (23 bp):
GGTGCGATTGTTATTAGCACTTT
Found at i:5136144 original size:87 final size:87
Alignment explanation
Indices: 5135998--5136157 Score: 259
Period size: 87 Copynumber: 1.8 Consensus size: 87
5135988 AAGAGCATGT
*
5135998 TTATAAATCATTTGGATAACTAATTTTGACACTTGATTTGTATATGCATTGCTTTCAAATCATGT
1 TTATAAATCATTTGGATAACTAATTATGACACTTGATTTGTATATGCATTGCTTTCAAATCATGT
5136063 TAGAACCATTGAGCTCTTTTGC
66 TAGAACCATTGAGCTCTTTTGC
* * *
5136085 TTATAAATTATTTGGTTAACTAAATTATG-TACTTGATTTGTATATGCATTGCTTTCAAATCATG
1 TTATAAATCATTTGGATAACT-AATTATGACACTTGATTTGTATATGCATTGCTTTCAAATCATG
*
5136149 TTAGCACCA
65 TTAGAACCA
5136158 CTAATTCTTT
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
87 61 0.91
88 6 0.09
ACGTcount: A:0.30, C:0.14, G:0.13, T:0.43
Consensus pattern (87 bp):
TTATAAATCATTTGGATAACTAATTATGACACTTGATTTGTATATGCATTGCTTTCAAATCATGT
TAGAACCATTGAGCTCTTTTGC
Found at i:5146359 original size:38 final size:38
Alignment explanation
Indices: 5146308--5146384 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
5146298 ATAGAGAGAA
5146308 GCTAAAGAATTGAAAACTAGAGGTTAGACAGTGCAGTT
1 GCTAAAGAATTGAAAACTAGAGGTTAGACAGTGCAGTT
5146346 GCTAAAGAATTGAAAACTAGAGGTTAGACAGTGCAGTT
1 GCTAAAGAATTGAAAACTAGAGGTTAGACAGTGCAGTT
5146384 G
1 G
5146385 ACTTTCCCAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.39, C:0.10, G:0.27, T:0.23
Consensus pattern (38 bp):
GCTAAAGAATTGAAAACTAGAGGTTAGACAGTGCAGTT
Found at i:5161692 original size:52 final size:48
Alignment explanation
Indices: 5161673--5161875 Score: 265
Period size: 46 Copynumber: 4.3 Consensus size: 48
5161663 TGACAAGTGG
* *
5161673 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
5161719 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-A---A
* *
5161771 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
** *
5161817 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
5161863 AAAGTGATAAGTG
1 AAAGTGATAAGTG
5161876 GCTACACTTA
Statistics
Matches: 144, Mismatches: 7, Indels: 12
0.88 0.04 0.07
Matches are distributed among these distances:
46 100 0.69
52 44 0.31
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
Found at i:5161727 original size:98 final size:98
Alignment explanation
Indices: 5161607--5161875 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
5161597 TTTGAGTACT
*
5161607 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
5161672 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
**
5161705 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
5161770 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
5161803 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGT
*
5161868 GATAAGTG
65 GAAAAGTG
5161876 GCTACACTTA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 149 0.93
99 11 0.07
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:5161883 original size:37 final size:37
Alignment explanation
Indices: 5161839--5161947 Score: 177
Period size: 37 Copynumber: 3.0 Consensus size: 37
5161829 GATAGCTTTA
5161839 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
* *
5161876 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
5161913 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
5161948 ATCATACGTA
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
35 11 0.16
36 4 0.06
37 52 0.78
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:5166137 original size:19 final size:18
Alignment explanation
Indices: 5166115--5166154 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
5166105 TGAATAAAAC
5166115 TTATCTACCTAAATAAGAT
1 TTATCTACCTAAATAA-AT
5166134 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
5166152 TTA
1 TTA
5166155 AAATATATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:5181861 original size:24 final size:23
Alignment explanation
Indices: 5181804--5181868 Score: 73
Period size: 21 Copynumber: 2.9 Consensus size: 23
5181794 GGTACGAAAT
**
5181804 TAAATTATAATTT-TTATAATAA
1 TAAATTATAATTTATTATTTTAA
5181826 -AAA-TATAATTTATTATTTTAA
1 TAAATTATAATTTATTATTTTAA
*
5181847 TAAATTATAATTTTATAATTTT
1 TAAATTATAA-TTTATTATTTT
5181869 TAAACAAATT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
20 8 0.22
21 10 0.28
22 3 0.08
23 5 0.14
24 10 0.28
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
TAAATTATAATTTATTATTTTAA
Found at i:5181865 original size:18 final size:19
Alignment explanation
Indices: 5181804--5181865 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 19
5181794 GGTACGAAAT
5181804 TAAATTATAATTTTTATAA
1 TAAATTATAATTTTTATAA
*
5181823 TAAAAATATAATTTATTATTTTAA
1 T-AAATTATAATTT-TTA---TAA
5181847 TAAATTATAA-TTTTATAA
1 TAAATTATAATTTTTATAA
5181865 T
1 T
5181866 TTTTAAACAA
Statistics
Matches: 36, Mismatches: 2, Indels: 11
0.73 0.04 0.22
Matches are distributed among these distances:
18 4 0.11
19 1 0.03
20 11 0.31
21 6 0.17
22 2 0.06
23 8 0.22
24 4 0.11
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
TAAATTATAATTTTTATAA
Found at i:5184645 original size:11 final size:11
Alignment explanation
Indices: 5184629--5184657 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
5184619 CCAAAATTCC
5184629 CAATTCATAAA
1 CAATTCATAAA
5184640 CAATTCATAAA
1 CAATTCATAAA
5184651 CAATTCA
1 CAATTCA
5184658 CCAATTCAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (11 bp):
CAATTCATAAA
Found at i:5202382 original size:18 final size:19
Alignment explanation
Indices: 5202359--5202394 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
5202349 TATTTTAATT
5202359 AATAAAAAATAAA-AAACC
1 AATAAAAAATAAATAAACC
*
5202377 AATAAAATATAAATAAAC
1 AATAAAAAATAAATAAAC
5202395 TAACACAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.75, C:0.08, G:0.00, T:0.17
Consensus pattern (19 bp):
AATAAAAAATAAATAAACC
Found at i:5202674 original size:24 final size:24
Alignment explanation
Indices: 5202617--5202683 Score: 77
Period size: 24 Copynumber: 2.9 Consensus size: 24
5202607 GGTACGAAAT
**
5202617 TAAATTATAA-TTT-TTATAATAA
1 TAAATTATAATTTTATTATTTTAA
*
5202639 -AAAATATAATTTTATTATTTTAA
1 TAAATTATAATTTTATTATTTTAA
*
5202662 TAAATTATAATTTTATAATTTT
1 TAAATTATAATTTTATTATTTT
5202684 TAAACAAATT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 8 0.22
22 3 0.08
23 7 0.19
24 19 0.51
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (24 bp):
TAAATTATAATTTTATTATTTTAA
Found at i:5205458 original size:11 final size:11
Alignment explanation
Indices: 5205442--5205470 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
5205432 CCAAAATTCC
5205442 CAATTCATAAA
1 CAATTCATAAA
5205453 CAATTCATAAA
1 CAATTCATAAA
5205464 CAATTCA
1 CAATTCA
5205471 CCAATTCAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (11 bp):
CAATTCATAAA
Found at i:5214118 original size:16 final size:16
Alignment explanation
Indices: 5214099--5214190 Score: 57
Period size: 16 Copynumber: 5.9 Consensus size: 16
5214089 TGTGTGTTTT
5214099 CCATTTATGTTGTTCG
1 CCATTTATGTTGTTCG
*
5214115 CCA--TGTG-TGTTCG
1 CCATTTATGTTGTTCG
* * ***
5214128 CTAATTAAACTGTTCG
1 CCATTTATGTTGTTCG
*
5214144 ACATTTATGTTGTTCG
1 CCATTTATGTTGTTCG
* * *
5214160 CCAATTA-GACTATTCG
1 CCATTTATG-TTGTTCG
5214176 CCATTTATGTTGTTC
1 CCATTTATGTTGTTC
5214191 ATCATGTGTG
Statistics
Matches: 53, Mismatches: 18, Indels: 10
0.65 0.22 0.12
Matches are distributed among these distances:
13 8 0.15
14 3 0.06
15 2 0.04
16 39 0.74
17 1 0.02
ACGTcount: A:0.20, C:0.20, G:0.17, T:0.43
Consensus pattern (16 bp):
CCATTTATGTTGTTCG
Found at i:5214166 original size:32 final size:32
Alignment explanation
Indices: 5214117--5214190 Score: 103
Period size: 32 Copynumber: 2.3 Consensus size: 32
5214107 GTTGTTCGCC
* *
5214117 ATGTGTGTTCGCTAATTAAACTGTTCGACATTT
1 ATGT-TGTTCGCCAATTAAACTATTCGACATTT
* *
5214150 ATGTTGTTCGCCAATTAGACTATTCGCCATTT
1 ATGTTGTTCGCCAATTAAACTATTCGACATTT
5214182 ATGTTGTTC
1 ATGTTGTTC
5214191 ATCATGTGTG
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
32 33 0.89
33 4 0.11
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.43
Consensus pattern (32 bp):
ATGTTGTTCGCCAATTAAACTATTCGACATTT
Found at i:5223516 original size:12 final size:12
Alignment explanation
Indices: 5223499--5223527 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
5223489 CTAAAGAATC
5223499 TTTATTGGATCA
1 TTTATTGGATCA
5223511 TTTATTGGATCA
1 TTTATTGGATCA
5223523 TTTAT
1 TTTAT
5223528 GTTCACAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.24, C:0.07, G:0.14, T:0.55
Consensus pattern (12 bp):
TTTATTGGATCA
Found at i:5228970 original size:15 final size:16
Alignment explanation
Indices: 5228950--5228979 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
5228940 ACTAGGTATC
5228950 GTCATCTTC-CTGAGT
1 GTCATCTTCACTGAGT
5228965 GTCATCTTCACTGAG
1 GTCATCTTCACTGAG
5228980 ATGCTTAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.17, C:0.27, G:0.20, T:0.37
Consensus pattern (16 bp):
GTCATCTTCACTGAGT
Found at i:5230948 original size:37 final size:35
Alignment explanation
Indices: 5230855--5230951 Score: 115
Period size: 36 Copynumber: 2.7 Consensus size: 35
5230845 TAAAATAACC
* *
5230855 AGTATTCTAATATAACAATCGAATTAAAAGAAAAAT
1 AGTATTCTAAGATAACAATCG-ATTAAAAAAAAAAT
*
5230891 AATATTCT-AGCATAACAATCGATTCAAAAAAAAAAGT
1 AGTATTCTAAG-ATAACAATCGATT-AAAAAAAAAA-T
*
5230928 AGTATTCTAAGATAATAATCGATT
1 AGTATTCTAAGATAACAATCGATT
5230952 TAAACATATA
Statistics
Matches: 52, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
35 4 0.08
36 26 0.50
37 20 0.38
38 2 0.04
ACGTcount: A:0.52, C:0.10, G:0.09, T:0.29
Consensus pattern (35 bp):
AGTATTCTAAGATAACAATCGATTAAAAAAAAAAT
Found at i:5230976 original size:58 final size:58
Alignment explanation
Indices: 5230904--5231050 Score: 174
Period size: 55 Copynumber: 2.5 Consensus size: 58
5230894 ATTCTAGCAT
* * *
5230904 AACAATCGATTCAAAAAAAAAAGTAGTATTCTAAGATAATAATCGATTTAAACATATA
1 AACAATCGATTCAAAAAAAAAAGTAGTATTCTAACATAACAATCAATTTAAACATATA
* * *
5230962 AATAATCGATTC--AAAAGAAA-CAGTATTCTAACATAACAATCAATTTAAACATATA
1 AACAATCGATTCAAAAAAAAAAGTAGTATTCTAACATAACAATCAATTTAAACATATA
* *
5231017 AACAATTGATTCAAAAGAAGAAGAAGTTGTATTC
1 AACAATCGATTCAAAA-AA-AA-AAGTAGTATTC
5231051 CACCTTAACA
Statistics
Matches: 72, Mismatches: 11, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
55 41 0.57
56 7 0.10
57 2 0.03
58 13 0.18
59 1 0.01
60 2 0.03
61 6 0.08
ACGTcount: A:0.52, C:0.12, G:0.10, T:0.27
Consensus pattern (58 bp):
AACAATCGATTCAAAAAAAAAAGTAGTATTCTAACATAACAATCAATTTAAACATATA
Found at i:5231097 original size:18 final size:18
Alignment explanation
Indices: 5231074--5231108 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
5231064 GATTCAAAAG
5231074 ATGTAGTATTTCAACATT
1 ATGTAGTATTTCAACATT
5231092 ATGTAGTATTTCAACAT
1 ATGTAGTATTTCAACAT
5231109 GATCTATAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.43
Consensus pattern (18 bp):
ATGTAGTATTTCAACATT
Found at i:5233925 original size:78 final size:77
Alignment explanation
Indices: 5233829--5233996 Score: 194
Period size: 78 Copynumber: 2.2 Consensus size: 77
5233819 CGGACTAAGA
* * * *
5233829 TCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAGGGCATTCGTGCGAGTTATT
1 TCCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGT-CCGAAGGCA-TCGTGCGAGTTACT
* *
5233894 AAAGCCGGGTTA-G
64 AAAACCGGGCTATG
* ** * * *
5233907 TCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTACGTCCGAAGGCATGGTGTGAGTTACTAA
1 TCCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTCCGAAGGCATCGTGCGAGTTACTAA
5233972 AACCGGGCTATG
66 AACCGGGCTATG
5233984 TCCCGAAGGCATT
1 T-CCGAAGGCATT
5233997 TGAACGAGAG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
76 21 0.28
77 10 0.13
78 45 0.59
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (77 bp):
TCCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTCCGAAGGCATCGTGCGAGTTACTAA
AACCGGGCTATG
Found at i:5233926 original size:38 final size:39
Alignment explanation
Indices: 5233829--5233996 Score: 178
Period size: 38 Copynumber: 4.3 Consensus size: 39
5233819 CGGACTAAGA
* * * *
5233829 TCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAG
1 TCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTACG
* * *
5233868 TCCCGAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTA-G
1 T-CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTACG
**
5233907 TCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTACG
1 TCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTACG
* * * * *
5233946 TCCGAAGGCA-TGGTGTGAGTTACTAAAACCGGGCTATG
1 TCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTACG
5233984 TCCCGAAGGCATT
1 T-CCGAAGGCATT
5233997 TGAACGAGAG
Statistics
Matches: 109, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
38 55 0.50
39 23 0.21
40 31 0.28
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (39 bp):
TCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTACG
Found at i:5247839 original size:40 final size:39
Alignment explanation
Indices: 5247789--5248012 Score: 166
Period size: 40 Copynumber: 5.6 Consensus size: 39
5247779 TTGAATGCTG
*
5247789 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAG-TGAATATA
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGC-AAGAT-AATAAA
* * *
5247829 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGCTAAG-TCCCGAAGG-CTTTGTGCAAGATAATAAA
* * *
5247869 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCAAGATAATAAA
* * * * **
5247909 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCAAGATAATAAA
* * * ** * *
5247949 TCCGGGTTACGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCAAGATAATAAA
* *
5247988 ACCGGGCTATG-CCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGC-TTTG
5248013 AACGAGGAGC
Statistics
Matches: 158, Mismatches: 20, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
38 9 0.06
39 26 0.16
40 113 0.72
41 10 0.06
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCAAGATAATAAA
Found at i:5247926 original size:80 final size:80
Alignment explanation
Indices: 5247789--5248012 Score: 242
Period size: 80 Copynumber: 2.8 Consensus size: 80
5247779 TTGAATGCTG
* * * * * *
5247789 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAATATATCCGGACTAAGAT-CCGAAGGCC
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAATCCGGGCTAAG-TCCCGAAGGCA
5247851 TTTGTGCGAGATACTAAA
63 TTTGTGCGAGATACTAAA
* *
5247869 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGTCCCGAAGGCATTT
* **
5247934 GTGCGAGTTGTTAAA
66 GTGCGAGATACTAAA
* * * * *
5247949 TCCGGGTTACGTCCCGAAGGCA-TTGTGTGAGTTACTAAAACCGGGCTATG-CCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGTCCCGAAGGCATTT
5248012 G
66 G
5248013 AACGAGGAGC
Statistics
Matches: 123, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
78 13 0.11
79 24 0.20
80 76 0.62
81 9 0.07
82 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:5255876 original size:39 final size:40
Alignment explanation
Indices: 5255725--5255894 Score: 207
Period size: 40 Copynumber: 4.3 Consensus size: 40
5255715 GGACTAAGAT
* * *
5255725 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * *
5255765 CCGAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
** *
5255805 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTACGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * * * *
5255845 CCGAAGGCA-TGGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
5255884 CCGAAGGCATT
1 CCGAAGGCATT
5255895 TGAACGAGGA
Statistics
Matches: 112, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
39 32 0.29
40 80 0.71
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
Found at i:5255914 original size:79 final size:80
Alignment explanation
Indices: 5255747--5255929 Score: 208
Period size: 79 Copynumber: 2.3 Consensus size: 80
5255737 GTGCGAGATA
* * * *
5255747 CTAAATCCGGGTTAAGTCCCGAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
5255812 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * * *
5255827 TTAAATCCGGGTTACGTCCCGAAGGCA-TGGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
5255891 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
5255906 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
5255930 TACGTGATTT
Statistics
Matches: 85, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
78 14 0.16
79 47 0.55
80 24 0.28
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.24
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:5259136 original size:14 final size:14
Alignment explanation
Indices: 5259117--5259149 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
5259107 ATCTTCAATC
5259117 TCAATTTCCAATTT
1 TCAATTTCCAATTT
*
5259131 TCAATTTTCAATTT
1 TCAATTTCCAATTT
5259145 TCAAT
1 TCAAT
5259150 CCTCAATACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.30, C:0.18, G:0.00, T:0.52
Consensus pattern (14 bp):
TCAATTTCCAATTT
Done.