Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 53 of 189
Found at i:15209387 original size:12 final size:13
Alignment explanation
Indices: 15209372--15209403 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
15209362 ATCATCATCA
15209372 TCCTCTTCC-TCT
1 TCCTCTTCCGTCT
15209384 TCCTC-TCCGTCT
1 TCCTCTTCCGTCT
15209396 TCCTCTTC
1 TCCTCTTC
15209404 ATCCACAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 3 0.17
12 13 0.72
13 2 0.11
ACGTcount: A:0.00, C:0.50, G:0.03, T:0.47
Consensus pattern (13 bp):
TCCTCTTCCGTCT
Found at i:15214561 original size:18 final size:20
Alignment explanation
Indices: 15214513--15214563 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 20
15214503 TTTAGAAACT
15214513 TTAATTTTAAATTTTATACA
1 TTAATTTTAAATTTTATACA
* *
15214533 TT-CTCTT-AATTTTAT-C-
1 TTAATTTTAAATTTTATACA
15214549 TTAATTTTAAATTTT
1 TTAATTTTAAATTTT
15214564 TAAAAATTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 6
0.71 0.11 0.17
Matches are distributed among these distances:
16 2 0.08
17 4 0.16
18 14 0.56
19 3 0.12
20 2 0.08
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.61
Consensus pattern (20 bp):
TTAATTTTAAATTTTATACA
Found at i:15216832 original size:6 final size:6
Alignment explanation
Indices: 15216823--15216860 Score: 60
Period size: 6 Copynumber: 6.3 Consensus size: 6
15216813 ATCATCATCA
15216823 TCCTCT TCCTCT TCCTCT TCCTC- TCCGTCT TCCTCT TC
1 TCCTCT TCCTCT TCCTCT TCCTCT TCC-TCT TCCTCT TC
15216861 ATCCACAACT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 3 0.10
6 24 0.80
7 3 0.10
ACGTcount: A:0.00, C:0.50, G:0.03, T:0.47
Consensus pattern (6 bp):
TCCTCT
Found at i:15220589 original size:3 final size:3
Alignment explanation
Indices: 15220581--15220606 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
15220571 CTTTTTTATC
15220581 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
15220607 AAGAAATGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:15224254 original size:87 final size:87
Alignment explanation
Indices: 15224100--15224275 Score: 235
Period size: 87 Copynumber: 2.0 Consensus size: 87
15224090 AAAGGAGACA
* * * ** *
15224100 GCTTTTTAGGCCAAAGAGAGTGACACATGGCAATGCGTGAGTAGCCAATGCAAAAGGGGAACTTT
1 GCTTTTCAGGCCAAAAAGAGTGACACATGGCAATGCGTGAGTAGCCAACGCAAAAGGAAAACATT
15224165 TGATAAATTTCAAGAGTTTCAT
66 TGATAAATTTCAAGAGTTTCAT
* * * * * * *
15224187 GCTTTTCAGGCCAAAAAGAGTGAGACATGGTAGTGCGTGAGTGGCCAGCGTAAAAGTAAAACATT
1 GCTTTTCAGGCCAAAAAGAGTGACACATGGCAATGCGTGAGTAGCCAACGCAAAAGGAAAACATT
15224252 TGATAAATTTCAAGAGTTTCAT
66 TGATAAATTTCAAGAGTTTCAT
15224274 GC
1 GC
15224276 GGAAGTGGAA
Statistics
Matches: 76, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
87 76 1.00
ACGTcount: A:0.34, C:0.15, G:0.26, T:0.26
Consensus pattern (87 bp):
GCTTTTCAGGCCAAAAAGAGTGACACATGGCAATGCGTGAGTAGCCAACGCAAAAGGAAAACATT
TGATAAATTTCAAGAGTTTCAT
Found at i:15230040 original size:26 final size:24
Alignment explanation
Indices: 15229991--15230040 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 24
15229981 ACATATGAAC
**
15229991 ATACTTACATTTTTATTTTTTATA
1 ATACTTACATTTTTATTTAATATA
15230015 ATACTTACAAATTTTTATTTAATATA
1 ATACTTAC--ATTTTTATTTAATATA
15230041 TATATTTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 8 0.36
26 14 0.64
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (24 bp):
ATACTTACATTTTTATTTAATATA
Found at i:15230066 original size:18 final size:18
Alignment explanation
Indices: 15230025--15230073 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
15230015 ATACTTACAA
* *
15230025 ATTTTTAT-TTAATATAT
1 ATTTTTATATTTATATAC
*
15230042 ATATTTATATTTATATAC
1 ATTTTTATATTTATATAC
15230060 ATTTTTATACTTTA
1 ATTTTTATA-TTTA
15230074 CGATTTCTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
17 7 0.27
18 15 0.58
19 4 0.15
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (18 bp):
ATTTTTATATTTATATAC
Found at i:15230557 original size:107 final size:107
Alignment explanation
Indices: 15230371--15230582 Score: 361
Period size: 107 Copynumber: 2.0 Consensus size: 107
15230361 AAAGGAAGGT
* *
15230371 TTTTCTAAATAAGGAAATATTTCGCGTTTGGAAAATCGAGGAAACGTGCCCTAACGTGCTGGGTT
1 TTTTCTAAATAAGGAAATATTTCGCGCTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTT
* * *
15230436 TTGATTTCTCGTTCGACCAAATAGCCAAGTATCCTTTTAAGA
66 TCGATTTCTCGTTCGACCAAATAGCCAAATATCCTCTTAAGA
*
15230478 TTTTCTAAATAAGGCAATATTTCGCGCTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTT
1 TTTTCTAAATAAGGAAATATTTCGCGCTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTT
*
15230543 TCGATTTCTCGTTCGACTAAATAGCCAAATATCCTCTTAA
66 TCGATTTCTCGTTCGACCAAATAGCCAAATATCCTCTTAA
15230583 AACTTCAAAG
Statistics
Matches: 98, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
107 98 1.00
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.32
Consensus pattern (107 bp):
TTTTCTAAATAAGGAAATATTTCGCGCTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTT
TCGATTTCTCGTTCGACCAAATAGCCAAATATCCTCTTAAGA
Found at i:15233365 original size:17 final size:19
Alignment explanation
Indices: 15233322--15233366 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
15233312 TTTTATTAAT
15233322 TTAATATTAAAATGATGATC
1 TTAATATTAAAATGA-GATC
*
15233342 TTAATATTAAATTGA-ATC
1 TTAATATTAAAATGAGATC
15233360 -TAATATT
1 TTAATATT
15233367 TATCTTGATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 7 0.29
18 3 0.12
20 14 0.58
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.44
Consensus pattern (19 bp):
TTAATATTAAAATGAGATC
Found at i:15233370 original size:68 final size:69
Alignment explanation
Indices: 15233278--15233406 Score: 188
Period size: 69 Copynumber: 1.9 Consensus size: 69
15233268 ATAAATTTAG
* * * *
15233278 TATTTAATTTAATTTAATACTTATCATGAT-AGTATTTTATTAATTTAATATTAAAATGATGATC
1 TATTAAATTGAATCTAATACTTATCATGATAAGTATTATATTAATTTAATATTAAAATGATGATC
15233342 TTAA
66 TTAA
* * *
15233346 TATTAAATTGAATCTAATATTTATCTTGATAAGTATTATATTAATTTAATATTAAAGTGAT
1 TATTAAATTGAATCTAATACTTATCATGATAAGTATTATATTAATTTAATATTAAAATGAT
15233407 TAAGTTTAAT
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
68 25 0.47
69 28 0.53
ACGTcount: A:0.40, C:0.04, G:0.07, T:0.49
Consensus pattern (69 bp):
TATTAAATTGAATCTAATACTTATCATGATAAGTATTATATTAATTTAATATTAAAATGATGATC
TTAA
Found at i:15234380 original size:23 final size:22
Alignment explanation
Indices: 15234350--15234394 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 22
15234340 AAATATGAAG
15234350 ATGACTTGCCAAAGCCTCCAAAA
1 ATGACTTGCCAAAGCCT-CAAAA
15234373 ATGACTTGCCAAAGCCTCAAAA
1 ATGACTTGCCAAAGCCTCAAAA
15234395 GATATTTCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 5 0.23
23 17 0.77
ACGTcount: A:0.40, C:0.29, G:0.13, T:0.18
Consensus pattern (22 bp):
ATGACTTGCCAAAGCCTCAAAA
Found at i:15238388 original size:290 final size:290
Alignment explanation
Indices: 15237868--15238449 Score: 1065
Period size: 290 Copynumber: 2.0 Consensus size: 290
15237858 ACGTCACGAC
*
15237868 GAGGAAACACCTGATGTCACAACGATTTCCTACACGTGCTGACTTCGATTTTAAGGGCAATTCGA
1 GAGGAAACACCCGATGTCACAACGATTTCCTACACGTGCTGACTTCGATTTTAAGGGCAATTCGA
* * *
15237933 GGTCTTTTTCCATATTTAAAAATCTAATTGTTGTAATAAATGGAGGAGCACTTTGGTCTTTGGAT
66 GATCTTTTTCCATATTTAAAAACCTAATTGTTGTAATAAATGGAGGAGCACATTGGTCTTTGGAT
* * *
15237998 TCTTCATTATATAACCAACGTTCTAATTAAAATTAAAGGGAGACGTTCAGTGGAGACAAACAAAT
131 TCTTCACTATATAACCAACATTCTAATCAAAATTAAAGGGAGACGTTCAGTGGAGACAAACAAAT
15238063 ATTTAGTAGAGTAGATTAGTTTTAGGCTAGGTTTTCTTTTAGAATAATTTTGTATTTATTTATTT
196 ATTTAGTAGAGTAGATTAGTTTTAGGCTAGGTTTTCTTTTAGAATAATTTTGTATTTATTTATTT
15238128 CTTTCTTTTTAGATGTTATTCTAATTGTTA
261 CTTTCTTTTTAGATGTTATTCTAATTGTTA
15238158 GAGGAAACACCCGATGTCACAACGATTTCCTACACGTGCTGACTTCGATTTTAAGGGCAATTCGA
1 GAGGAAACACCCGATGTCACAACGATTTCCTACACGTGCTGACTTCGATTTTAAGGGCAATTCGA
*
15238223 GATCTTTTTCCATATTTAAAAGCCTAATTGTTGTAATAAATGGAGGAGCACATTGGTCTTTGGAT
66 GATCTTTTTCCATATTTAAAAACCTAATTGTTGTAATAAATGGAGGAGCACATTGGTCTTTGGAT
* * *
15238288 TCTTTACTATGTAACCAACATTCTACTCAAAATTAAAGGGAGACGTTCAGTGGAGACAAACAAAT
131 TCTTCACTATATAACCAACATTCTAATCAAAATTAAAGGGAGACGTTCAGTGGAGACAAACAAAT
15238353 ATTTAGTAGAGTAGATTAGTTTTAGGCTAGGTTTTCTTTTAGAATAATTTTGTATTTATTTATTT
196 ATTTAGTAGAGTAGATTAGTTTTAGGCTAGGTTTTCTTTTAGAATAATTTTGTATTTATTTATTT
15238418 CTTTCTTTTTAGATGTTATTCTAATTGTTA
261 CTTTCTTTTTAGATGTTATTCTAATTGTTA
15238448 GA
1 GA
15238450 TTGAATTTCT
Statistics
Matches: 281, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
290 281 1.00
ACGTcount: A:0.30, C:0.13, G:0.18, T:0.39
Consensus pattern (290 bp):
GAGGAAACACCCGATGTCACAACGATTTCCTACACGTGCTGACTTCGATTTTAAGGGCAATTCGA
GATCTTTTTCCATATTTAAAAACCTAATTGTTGTAATAAATGGAGGAGCACATTGGTCTTTGGAT
TCTTCACTATATAACCAACATTCTAATCAAAATTAAAGGGAGACGTTCAGTGGAGACAAACAAAT
ATTTAGTAGAGTAGATTAGTTTTAGGCTAGGTTTTCTTTTAGAATAATTTTGTATTTATTTATTT
CTTTCTTTTTAGATGTTATTCTAATTGTTA
Found at i:15239009 original size:15 final size:15
Alignment explanation
Indices: 15238991--15239021 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
15238981 AGTAAATTAG
*
15238991 AATTAGTTTTATTTT
1 AATTAGTTTCATTTT
15239006 AATTAGTTTCATTTT
1 AATTAGTTTCATTTT
15239021 A
1 A
15239022 GTTTAATCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.03, G:0.06, T:0.61
Consensus pattern (15 bp):
AATTAGTTTCATTTT
Found at i:15245511 original size:29 final size:30
Alignment explanation
Indices: 15245448--15245517 Score: 97
Period size: 29 Copynumber: 2.3 Consensus size: 30
15245438 ATCCCAAAAC
*
15245448 TATACATGAACTATGGTTTAATGTGTAATTG
1 TATACATGAACTATGATTT-ATGTGTAATTG
* *
15245479 TATACATGAACTTTGATTT-TGTGTAATTT
1 TATACATGAACTATGATTTATGTGTAATTG
15245508 TATACATGAA
1 TATACATGAA
15245518 ATTTTAATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 19 0.53
31 17 0.47
ACGTcount: A:0.33, C:0.07, G:0.16, T:0.44
Consensus pattern (30 bp):
TATACATGAACTATGATTTATGTGTAATTG
Found at i:15245528 original size:29 final size:29
Alignment explanation
Indices: 15245469--15245528 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 29
15245459 TATGGTTTAA
* *
15245469 TGTGTAATTGTATACATGAACTTTGATTT
1 TGTGTAATTGTATACATGAAATTTGAATT
* *
15245498 TGTGTAATTTTATACATGAAATTTTAATT
1 TGTGTAATTGTATACATGAAATTTGAATT
15245527 TG
1 TG
15245529 ATCCAATTTC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.30, C:0.05, G:0.15, T:0.50
Consensus pattern (29 bp):
TGTGTAATTGTATACATGAAATTTGAATT
Found at i:15245745 original size:29 final size:29
Alignment explanation
Indices: 15245672--15245760 Score: 81
Period size: 31 Copynumber: 3.0 Consensus size: 29
15245662 GATTAAATCA
*
15245672 AAATTAAAGTTTCAAGTATATATTTGA-ATCT
1 AAATTAAAGTTT-AAGTATATAATT-ACA-CT
* * *
15245703 CAATTACAGTTTTACGTATATAATTACACT
1 AAATTAAAG-TTTAAGTATATAATTACACT
* *
15245733 AAATTAAAGTTTATGTATACAATTACAC
1 AAATTAAAGTTTAAGTATATAATTACAC
15245761 ATTAGATCAA
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
29 17 0.35
30 10 0.21
31 18 0.38
32 3 0.06
ACGTcount: A:0.42, C:0.11, G:0.08, T:0.39
Consensus pattern (29 bp):
AAATTAAAGTTTAAGTATATAATTACACT
Found at i:15247243 original size:36 final size:36
Alignment explanation
Indices: 15247196--15247268 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
15247186 CATTTTTAAA
15247196 CCTCAATTTCGATTCCTTTATCTCCCCAATTCAAAG
1 CCTCAATTTCGATTCCTTTATCTCCCCAATTCAAAG
15247232 CCTCAATTTCGATTCCTTTATCTCCCCAATTCAAAG
1 CCTCAATTTCGATTCCTTTATCTCCCCAATTCAAAG
15247268 C
1 C
15247269 TCATGTATTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.25, C:0.34, G:0.05, T:0.36
Consensus pattern (36 bp):
CCTCAATTTCGATTCCTTTATCTCCCCAATTCAAAG
Found at i:15247671 original size:31 final size:31
Alignment explanation
Indices: 15247636--15247695 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
15247626 GGGTAATTTG
*
15247636 GGTAACAAAGTATAGTTTAGGTATCACTTTA
1 GGTAACAAAGTATAGTTTAGGTACCACTTTA
* *
15247667 GGTAATAGAGTATAGTTTAGGTACCACTT
1 GGTAACAAAGTATAGTTTAGGTACCACTT
15247696 GTGGCCAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.33, C:0.10, G:0.22, T:0.35
Consensus pattern (31 bp):
GGTAACAAAGTATAGTTTAGGTACCACTTTA
Found at i:15251013 original size:49 final size:49
Alignment explanation
Indices: 15250957--15251065 Score: 139
Period size: 49 Copynumber: 2.2 Consensus size: 49
15250947 AATTCAAATG
** *
15250957 TTCTACCATCTTGAATGGCC-AGAAAATGATGGCTTTTACCAACTACTTA
1 TTCTACCATCCCGAATGGCCTAG-AAACGATGGCTTTTACCAACTACTTA
* * *
15251006 TTCTACCATCCCGAATGGCCTAGCAACGATGGCTTTTACCAATTGCTTA
1 TTCTACCATCCCGAATGGCCTAGAAACGATGGCTTTTACCAACTACTTA
*
15251055 TTCTATCATCC
1 TTCTACCATCC
15251066 TAGATAACCC
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
49 50 0.96
50 2 0.04
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.33
Consensus pattern (49 bp):
TTCTACCATCCCGAATGGCCTAGAAACGATGGCTTTTACCAACTACTTA
Found at i:15251086 original size:49 final size:49
Alignment explanation
Indices: 15250981--15251090 Score: 109
Period size: 49 Copynumber: 2.3 Consensus size: 49
15250971 ATGGCCAGAA
* ** *
15250981 AATGATGGCTTTTACCAACTACTTATTCTACCATCCCGAATGGCCTAGC
1 AATGATGGCTTTTACCAACTACTTATTCTACCATCCAGAATACCCGAGC
* * * *
15251030 AACGATGGCTTTTACCAATTGCTTATTCTATCATCCTAG-ATAACCCGA-C
1 AATGATGGCTTTTACCAACTACTTATTCTACCATCC-AGAAT-ACCCGAGC
15251079 AATGATGG-TTTT
1 AATGATGGCTTTT
15251091 CACTATATAC
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
48 4 0.08
49 42 0.84
50 4 0.08
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.34
Consensus pattern (49 bp):
AATGATGGCTTTTACCAACTACTTATTCTACCATCCAGAATACCCGAGC
Found at i:15252697 original size:3 final size:3
Alignment explanation
Indices: 15252689--15252714 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
15252679 GGTCATTACA
15252689 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
15252715 AGACTCATTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:15257055 original size:26 final size:24
Alignment explanation
Indices: 15257026--15257076 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 24
15257016 CTCTTTACAC
15257026 AAAAATTTT-GAGTCGAAAGTTTACTT
1 AAAAATTTTAGAGTC-AAA-TTTA-TT
15257052 -AAAATTTTAGAGTCAAATTTATT
1 AAAAATTTTAGAGTCAAATTTATT
15257075 AA
1 AA
15257077 TTCTTTTGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
23 2 0.09
24 5 0.22
25 11 0.48
26 5 0.22
ACGTcount: A:0.43, C:0.06, G:0.12, T:0.39
Consensus pattern (24 bp):
AAAAATTTTAGAGTCAAATTTATT
Found at i:15260137 original size:81 final size:79
Alignment explanation
Indices: 15260035--15260660 Score: 523
Period size: 81 Copynumber: 7.7 Consensus size: 79
15260025 GGCAATGCAG
* *
15260035 GAAGGGATTTGGAAGGA-AAATATGCTACAGCTTACTTTCACAAAACTTCTGATTCTGCAAATCA
1 GAAGGG-TTTGGAA-GACAAGTATGCTACGGCTTACTTTCACAAAACTTCTGATTCTG-AAATC-
* *
15260099 CTTTGATGGAGGTGATGT
62 CTTTGATGGAGGAGAAGT
** * * * * * * *
15260117 GAAGAATTTGGAAGACAAATATTCTACAGCTTACTTCCACAAAGCTTTTGATGCTGAAAAT-C-T
1 GAAGGGTTTGGAAGACAAGTATGCTACGGCTTACTTTCACAAAACTTCTGATTCTG-AAATCCTT
**
15260180 TGATAGAGAAAAGGAAGT
65 TGAT-G-GAGGA-GAAGT
* * * *
15260198 GACGAGTTTGGAAGACAAGTATGCTACGGCTTACTTTCACAAAACTTCTGATTCTGAAAGCAATG
1 GAAGGGTTTGGAAGACAAGTATGCTACGGCTTACTTTCACAAAACTTCTGATTCTGAAATC-CT-
** * *
15260263 GCGAAGG-GAAAGAAGT
64 TTGATGGAG-GAGAAGT
15260279 GAAGGGTTTGGAAGACAAGTATGCTACGGCTTACTTTCACAAAACTTCTGATTCTGAAAATCACT
1 GAAGGGTTTGGAAGACAAGTATGCTACGGCTTACTTTCACAAAACTTCTGATTCTG-AAATC-CT
** * *
15260344 TCAATGGAGGTGATGT
64 TTGATGGAGGAGAAGT
** * * * * * * *
15260360 GAAGAATTTGGAAGACAAATATTCTACGGCTTACTTCCACAAAGCCTT-TGCTGCCGAAAAT-C-
1 GAAGGGTTTGGAAGACAAGTATGCTACGGCTTACTTTCACAAA-ACTTCTGATTCTG-AAATCCT
**
15260422 TTGATAGAGAAAAAGAAGT
64 TTGAT-G-G-AGGAGAAGT
* * *
15260441 GAAGGGTTTGGAAGACAAGTATGCTACCGCTTACTTTCACAAAACTTCTAATTCTGAAAGCCATG
1 GAAGGGTTTGGAAGACAAGTATGCTACGGCTTACTTTCACAAAACTTCTGATTCTGAAATCC-T-
** * *
15260506 GCGAAGG-GAAAGAAGT
64 TTGATGGAG-GAGAAGT
* * *
15260522 GAAGGGTTTGGAAGACAAGTATACTACGGCTTACTTTCACAAAACTTCTGATTCTGAAAGCC-AT
1 GAAGGGTTTGGAAGACAAGTATGCTACGGCTTACTTTCACAAAACTTCTGATTCTGAAATCCTTT
* *
15260586 GACGAAGGGAAAGAAGT
66 GATGGA-GG--AGAAGT
15260603 GAAGGGTTTGGAAGACAAGTATGCTACGGCTTACTTTCACAAAACTTCTGATTCTGAA
1 GAAGGGTTTGGAAGACAAGTATGCTACGGCTTACTTTCACAAAACTTCTGATTCTGAA
15260661 TCAGAAGTGA
Statistics
Matches: 442, Mismatches: 77, Indels: 51
0.78 0.14 0.09
Matches are distributed among these distances:
78 11 0.02
79 4 0.01
80 15 0.03
81 388 0.88
82 18 0.04
83 2 0.00
84 4 0.01
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (79 bp):
GAAGGGTTTGGAAGACAAGTATGCTACGGCTTACTTTCACAAAACTTCTGATTCTGAAATCCTTT
GATGGAGGAGAAGT
Found at i:15260313 original size:162 final size:157
Alignment explanation
Indices: 15260042--15260792 Score: 667
Period size: 162 Copynumber: 4.8 Consensus size: 157
15260032 CAGGAAGGGA
* * * *
15260042 TTTGGAAGGA-AAATATGCTACAGCTTACTTTCACAAAACTTCTGATTCTGCAAATCACT-TTG-
1 TTTGGAA-GACAAATATGCTACGGCTTACTTTCACAAAACTTCTGATTCTG-AAAGCAATGGTGA
* ** * ** * * * * * *
15260104 ATGGAGGTGATGTGAAGAATTTGGAAGACAAATATTCTACAGCTTACTTCCACAAAGCTTTTGAT
64 AGGGA-AAGAAGTGAAGGGTTTGGAAGACAAGTATGCTACGGCTTACTTTCACAAAACTTCTGAT
* *
15260169 GCTGAAAATCTTGATAGAGAAAAGGAAGTGACGAG
128 TCTGAAAATCTTGA-AG-G--AA-GAAGTGAAGAG
* *
15260204 TTTGGAAGACAAGTATGCTACGGCTTACTTTCACAAAACTTCTGATTCTGAAAGCAATGGCGAAG
1 TTTGGAAGACAAATATGCTACGGCTTACTTTCACAAAACTTCTGATTCTGAAAGCAATGGTGAAG
15260269 GGAAAGAAGTGAAGGGTTTGGAAGACAAGTATGCTACGGCTTACTTTCACAAAACTTCTGATTCT
66 GGAAAGAAGTGAAGGGTTTGGAAGACAAGTATGCTACGGCTTACTTTCACAAAACTTCTGATTCT
* * * *
15260334 GAAAATCACTTCAATGGAGGTGATGTGAAGAA
131 GAAAAT--CTTGAA-GGA--AGAAGTGAAGAG
* * * * * * **
15260366 TTTGGAAGACAAATATTCTACGGCTTACTTCCACAAAGCCTT-TGCTGCCG-AA--AATCTTGAT
1 TTTGGAAGACAAATATGCTACGGCTTACTTTCACAAA-ACTTCTGATTCTGAAAGCAATGGTGA-
* * *
15260427 AGAGAAAAAGAAGTGAAGGGTTTGGAAGACAAGTATGCTACCGCTTACTTTCACAAAACTTCTAA
64 AG-G-GAAAGAAGTGAAGGGTTTGGAAGACAAGTATGCTACGGCTTACTTTCACAAAACTTCTGA
*** *
15260492 TTCTGAAAGCCATGGCGAAGGGAAAGAAGTGAAGGG
127 TTCTGAAA---ATCTTGAA-GG-AAGAAGTGAAGAG
* * * **
15260528 TTTGGAAGACAAGTATACTACGGCTTACTTTCACAAAACTTCTGATTCTGAAAGCCATGACGAAG
1 TTTGGAAGACAAATATGCTACGGCTTACTTTCACAAAACTTCTGATTCTGAAAGCAATGGTGAAG
15260593 GGAAAGAAGTGAAGGGTTTGGAAGACAAGTATGCTACGGCTTACTTTCACAAAACTTCTGATTCT
66 GGAAAGAAGTGAAGGGTTTGGAAGACAAGTATGCTACGGCTTACTTTCACAAAACTTCTGATTCT
15260658 G--AATC--------AGAAGTGAAGAG
131 GAAAATCTTGAAGGAAGAAGTGAAGAG
* * * * *
15260675 CTTGGGAGACAAATATGCTACGGCTTATTTTCATC-AAACTTCTAATTCTGAAAGCCATGGTGAA
1 TTTGGAAGACAAATATGCTACGGCTTACTTTCA-CAAAACTTCTGATTCTGAAAGCAATGGTGAA
* * * * *
15260739 AGGAAAGCAA-TGAAGAGTTTGGAAGACAAATATTCCACGGCTTACTTTCACAAA
65 GGGAAAG-AAGTGAAGGGTTTGGAAGACAAGTATGCTACGGCTTACTTTCACAAA
15260793 GCGTTTGATT
Statistics
Matches: 492, Mismatches: 75, Indels: 59
0.79 0.12 0.09
Matches are distributed among these distances:
147 111 0.23
148 3 0.01
157 2 0.00
159 5 0.01
160 3 0.01
161 15 0.03
162 323 0.66
163 16 0.03
164 8 0.02
165 6 0.01
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.26
Consensus pattern (157 bp):
TTTGGAAGACAAATATGCTACGGCTTACTTTCACAAAACTTCTGATTCTGAAAGCAATGGTGAAG
GGAAAGAAGTGAAGGGTTTGGAAGACAAGTATGCTACGGCTTACTTTCACAAAACTTCTGATTCT
GAAAATCTTGAAGGAAGAAGTGAAGAG
Found at i:15260475 original size:243 final size:243
Alignment explanation
Indices: 15260035--15260580 Score: 923
Period size: 243 Copynumber: 2.2 Consensus size: 243
15260025 GGCAATGCAG
* * *
15260035 GAAGGGATTTGGAAGGA-AAATATGCTACAGCTTACTTTCACAAAACTTCTGATTCTGCAAATCA
1 GAAGGG-TTTGGAA-GACAAGTATGCTACGGCTTACTTTCACAAAACTTCTGATTCTGAAAATCA
** *
15260099 CTTTGATGGAGGTGATGTGAAGAATTTGGAAGACAAATATTCTACAGCTTACTTCCACAAAGCTT
64 CTTCAATGGAGGTGATGTGAAGAATTTGGAAGACAAATATTCTACAGCTTACTTCCACAAAGCCT
* * * *
15260164 TTGATGCTGAAAATCTTGATAGAGAAAAGGAAGTGACGAGTTTGGAAGACAAGTATGCTACGGCT
129 TTGATGCCGAAAATCTTGATAGAGAAAAAGAAGTGAAGAGTTTGGAAGACAAGTATGCTACCGCT
*
15260229 TACTTTCACAAAACTTCTGATTCTGAAAGCAATGGCGAAGGGAAAGAAGT
194 TACTTTCACAAAACTTCTAATTCTGAAAGCAATGGCGAAGGGAAAGAAGT
15260279 GAAGGGTTTGGAAGACAAGTATGCTACGGCTTACTTTCACAAAACTTCTGATTCTGAAAATCACT
1 GAAGGGTTTGGAAGACAAGTATGCTACGGCTTACTTTCACAAAACTTCTGATTCTGAAAATCACT
*
15260344 TCAATGGAGGTGATGTGAAGAATTTGGAAGACAAATATTCTACGGCTTACTTCCACAAAGCCTTT
66 TCAATGGAGGTGATGTGAAGAATTTGGAAGACAAATATTCTACAGCTTACTTCCACAAAGCCTTT
* *
15260409 GCTGCCGAAAATCTTGATAGAGAAAAAGAAGTGAAGGGTTTGGAAGACAAGTATGCTACCGCTTA
131 GATGCCGAAAATCTTGATAGAGAAAAAGAAGTGAAGAGTTTGGAAGACAAGTATGCTACCGCTTA
*
15260474 CTTTCACAAAACTTCTAATTCTGAAAGCCATGGCGAAGGGAAAGAAGT
196 CTTTCACAAAACTTCTAATTCTGAAAGCAATGGCGAAGGGAAAGAAGT
*
15260522 GAAGGGTTTGGAAGACAAGTATACTACGGCTTACTTTCACAAAACTTCTGATTCTGAAA
1 GAAGGGTTTGGAAGACAAGTATGCTACGGCTTACTTTCACAAAACTTCTGATTCTGAAA
15260581 GCCATGACGA
Statistics
Matches: 285, Mismatches: 16, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
242 2 0.01
243 277 0.97
244 6 0.02
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.27
Consensus pattern (243 bp):
GAAGGGTTTGGAAGACAAGTATGCTACGGCTTACTTTCACAAAACTTCTGATTCTGAAAATCACT
TCAATGGAGGTGATGTGAAGAATTTGGAAGACAAATATTCTACAGCTTACTTCCACAAAGCCTTT
GATGCCGAAAATCTTGATAGAGAAAAAGAAGTGAAGAGTTTGGAAGACAAGTATGCTACCGCTTA
CTTTCACAAAACTTCTAATTCTGAAAGCAATGGCGAAGGGAAAGAAGT
Found at i:15260615 original size:243 final size:240
Alignment explanation
Indices: 15260035--15260792 Score: 881
Period size: 243 Copynumber: 3.2 Consensus size: 240
15260025 GGCAATGCAG
*
15260035 GAAGGGATTTGGAAGGA-AAATATGCTACAGCTTACTTTCACAAAACTTCTGATTCTGCAAATCA
1 GAAGGG-TTTGGAA-GACAAATATGCTACGGCTTACTTTCACAAAACTTCTGATTCTG-AAA--A
** * * * *
15260099 CTTTGATGGAGG-TGATGTGAAGAATTTGGAAGACAAATATTCTACAGCTTACTTCCACAAAGCT
61 CCATGACGAAGGATGATGTGAAGAATTTGGAAGACAAATATTCTACGGCTTACTTCCACAAAGCC
* * *
15260163 TTTGATGCTGAAAATCTTGATAGAGAAAAGGAAGTGACGAGTTTGGAAGACAAGTATGCTACGGC
126 TTTGCTGC-GAAAATCTTGATAGAGAAAAAGAAGTGAAGAGTTTGGAAGACAAGTATGCTACGGC
* *
15260228 TTACTTTCACAAAACTTCTGATTCTGAAAGCAATGGCGAAGGGAAAGAAGT
190 TTACTTTCACAAAACTTCTAATTCTGAAAGCCATGGCGAAGGGAAAGAAGT
* *
15260279 GAAGGGTTTGGAAGACAAGTATGCTACGGCTTACTTTCACAAAACTTCTGATTCTGAAAATCACT
1 GAAGGGTTTGGAAGACAAATATGCTACGGCTTACTTTCACAAAACTTCTGATTCTGAAAACCA-T
*
15260344 -TC-AATGGAGGTGATGTGAAGAATTTGGAAGACAAATATTCTACGGCTTACTTCCACAAAGCCT
65 GACGAA-GGA--TGATGTGAAGAATTTGGAAGACAAATATTCTACGGCTTACTTCCACAAAGCCT
* *
15260407 TTGCTGCCGAAAATCTTGATAGAGAAAAAGAAGTGAAGGGTTTGGAAGACAAGTATGCTACCGCT
127 TTGCTG-CGAAAATCTTGATAGAGAAAAAGAAGTGAAGAGTTTGGAAGACAAGTATGCTACGGCT
15260472 TACTTTCACAAAACTTCTAATTCTGAAAGCCATGGCGAAGGGAAAGAAGT
191 TACTTTCACAAAACTTCTAATTCTGAAAGCCATGGCGAAGGGAAAGAAGT
* * *
15260522 GAAGGGTTTGGAAGACAAGTATACTACGGCTTACTTTCACAAAACTTCTGATTCTGAAAGCCATG
1 GAAGGGTTTGGAAGACAAATATGCTACGGCTTACTTTCACAAAACTTCTGATTCTGAAAACCATG
* * ** * * * *
15260587 ACGAAGGGAAAGAAGTGAAGGGTTTGGAAGACAAGTATGCTACGGCTTACTTTCACAAA-AC-TT
66 ACGAA-GG-ATGATGTGAAGAATTTGGAAGACAAATATTCTACGGCTTACTTCCACAAAGCCTTT
* ** * * * *
15260650 -CT--G---A--TT-CT---GAATCAGAAGTGAAGAGCTTGGGAGACAAATATGCTACGGCTTAT
129 GCTGCGAAAATCTTGATAGAGAAAAAGAAGTGAAGAGTTTGGAAGACAAGTATGCTACGGCTTAC
* *
15260703 TTTCATC-AAACTTCTAATTCTGAAAGCCATGGTGAAAGGAAAGCAA-T
194 TTTCA-CAAAACTTCTAATTCTGAAAGCCATGGCGAAGGGAAAG-AAGT
* * *
15260750 GAAGAGTTTGGAAGACAAATATTCCACGGCTTACTTTCACAAA
1 GAAGGGTTTGGAAGACAAATATGCTACGGCTTACTTTCACAAA
15260793 GCGTTTGATT
Statistics
Matches: 457, Mismatches: 45, Indels: 40
0.84 0.08 0.07
Matches are distributed among these distances:
228 116 0.25
229 3 0.01
231 1 0.00
232 2 0.00
234 1 0.00
237 1 0.00
239 1 0.00
240 5 0.01
241 3 0.01
242 7 0.02
243 305 0.67
244 11 0.02
245 1 0.00
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (240 bp):
GAAGGGTTTGGAAGACAAATATGCTACGGCTTACTTTCACAAAACTTCTGATTCTGAAAACCATG
ACGAAGGATGATGTGAAGAATTTGGAAGACAAATATTCTACGGCTTACTTCCACAAAGCCTTTGC
TGCGAAAATCTTGATAGAGAAAAAGAAGTGAAGAGTTTGGAAGACAAGTATGCTACGGCTTACTT
TCACAAAACTTCTAATTCTGAAAGCCATGGCGAAGGGAAAGAAGT
Found at i:15260707 original size:66 final size:66
Alignment explanation
Indices: 15260597--15260726 Score: 190
Period size: 66 Copynumber: 2.0 Consensus size: 66
15260587 ACGAAGGGAA
* * * *
15260597 AGAAGTGAAGGGTTTGGAAGACAAGTATGCTACGGCTTACTTTCA-CAAAACTTCTGATTCTGAA
1 AGAAGTGAAGAGCTTGGAAGACAAATATGCTACGGCTTACTTTCATC-AAACTTCTAATTCTGAA
15260661 TC
65 TC
* *
15260663 AGAAGTGAAGAGCTTGGGAGACAAATATGCTACGGCTTATTTTCATCAAACTTCTAATTCTGAA
1 AGAAGTGAAGAGCTTGGAAGACAAATATGCTACGGCTTACTTTCATCAAACTTCTAATTCTGAA
15260727 AGCCATGGTG
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
66 56 0.98
67 1 0.02
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (66 bp):
AGAAGTGAAGAGCTTGGAAGACAAATATGCTACGGCTTACTTTCATCAAACTTCTAATTCTGAAT
C
Found at i:15260802 original size:147 final size:147
Alignment explanation
Indices: 15260516--15260792 Score: 396
Period size: 147 Copynumber: 1.9 Consensus size: 147
15260506 GCGAAGGGAA
* * * *
15260516 AGAAGTGAAGGGTTTGGAAGACAAGTATACTACGGCTTACTTTCACAAAACTTCTGATTCTGAAA
1 AGAAGTGAAGAGCTTGGAAGACAAATATACTACGGCTTACTTTCACAAAACTTCTAATTCTGAAA
* * * *
15260581 GCCATGACGAAGGGAAAGAAGTGAAGGGTTTGGAAGACAAGTATGCTACGGCTTACTTTCACAAA
66 GCCATGACGAAAGGAAAGAAGTGAAGAGTTTGGAAGACAAATATGCCACGGCTTACTTTCACAAA
15260646 ACTTCTGATTCTGAATC
131 ACTTCTGATTCTGAATC
* * *
15260663 AGAAGTGAAGAGCTTGGGAGACAAATATGCTACGGCTTATTTTCATC-AAACTTCTAATTCTGAA
1 AGAAGTGAAGAGCTTGGAAGACAAATATACTACGGCTTACTTTCA-CAAAACTTCTAATTCTGAA
** *
15260727 AGCCATGGTGAAAGGAAAGCAA-TGAAGAGTTTGGAAGACAAATATTCCACGGCTTACTTTCACA
65 AGCCATGACGAAAGGAAAG-AAGTGAAGAGTTTGGAAGACAAATATGCCACGGCTTACTTTCACA
15260791 AA
129 AA
15260793 GCGTTTGATT
Statistics
Matches: 114, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
147 111 0.97
148 3 0.03
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (147 bp):
AGAAGTGAAGAGCTTGGAAGACAAATATACTACGGCTTACTTTCACAAAACTTCTAATTCTGAAA
GCCATGACGAAAGGAAAGAAGTGAAGAGTTTGGAAGACAAATATGCCACGGCTTACTTTCACAAA
ACTTCTGATTCTGAATC
Found at i:15261998 original size:6 final size:6
Alignment explanation
Indices: 15261987--15262049 Score: 126
Period size: 6 Copynumber: 10.5 Consensus size: 6
15261977 TTCTTGTTTT
15261987 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA
15262035 ATATAA ATATAA ATA
1 ATATAA ATATAA ATA
15262050 ATAATTTTTT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 57 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
ATATAA
Found at i:15267591 original size:16 final size:18
Alignment explanation
Indices: 15267565--15267597 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
15267555 TGGAATTGGT
15267565 TTGAGAAAATT-ATTTAA
1 TTGAGAAAATTAATTTAA
15267582 TTGA-AAAATTAATTTA
1 TTGAGAAAATTAATTTA
15267598 TTTAAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (18 bp):
TTGAGAAAATTAATTTAA
Found at i:15279210 original size:101 final size:102
Alignment explanation
Indices: 15279034--15279239 Score: 405
Period size: 101 Copynumber: 2.0 Consensus size: 102
15279024 GGGGTTCCAA
15279034 AAAGGAGCTCAAAAGGCAGTGATTTTTTTAGGGTTTTTGAAGAGGTTTTCAAAGACTAGAAGAAG
1 AAAGGAGCTCAAAAGGCAGTGATTTTTTTAGGGTTTTTGAAGAGGTTTTCAAAGACTAGAAGAAG
15279099 AGAAGTTTCTGTTGGGTTTGTAGTAAGAGAAAGGAAG
66 AGAAGTTTCTGTTGGGTTTGTAGTAAGAGAAAGGAAG
15279136 AAAGGAGCTCAAAAGGCAGTGA-TTTTTTAGGGTTTTTGAAGAGGTTTTCAAAGACTAGAAGAAG
1 AAAGGAGCTCAAAAGGCAGTGATTTTTTTAGGGTTTTTGAAGAGGTTTTCAAAGACTAGAAGAAG
15279200 AGAAGTTTCTGTTGGGTTTGTAGTAAGAGAAAGGAAG
66 AGAAGTTTCTGTTGGGTTTGTAGTAAGAGAAAGGAAG
15279237 AAA
1 AAA
15279240 ATGAGCTAAC
Statistics
Matches: 104, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
101 82 0.79
102 22 0.21
ACGTcount: A:0.35, C:0.06, G:0.30, T:0.29
Consensus pattern (102 bp):
AAAGGAGCTCAAAAGGCAGTGATTTTTTTAGGGTTTTTGAAGAGGTTTTCAAAGACTAGAAGAAG
AGAAGTTTCTGTTGGGTTTGTAGTAAGAGAAAGGAAG
Found at i:15279953 original size:20 final size:20
Alignment explanation
Indices: 15279915--15279960 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
15279905 TGTATTTTTT
*
15279915 ATTTTTTATTTTATTTTAAG
1 ATTTTTTATTTTATATTAAG
*
15279935 ATTTTTTATTTT-TAATTAAT
1 ATTTTTTATTTTAT-ATTAAG
15279955 ATTTTT
1 ATTTTT
15279961 AACATAGTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 1 0.04
20 22 0.96
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (20 bp):
ATTTTTTATTTTATATTAAG
Found at i:15280311 original size:17 final size:17
Alignment explanation
Indices: 15280289--15280321 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
15280279 ATAATTAATT
15280289 AAAATATTTCAAATATA
1 AAAATATTTCAAATATA
*
15280306 AAAATATTTGAAATAT
1 AAAATATTTCAAATAT
15280322 CATACTACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (17 bp):
AAAATATTTCAAATATA
Found at i:15282298 original size:50 final size:51
Alignment explanation
Indices: 15282243--15282457 Score: 192
Period size: 50 Copynumber: 4.2 Consensus size: 51
15282233 TACTGGATAC
* * * *
15282243 GACATGTCATGACATTTGGGTA-AAGAGATCCCATGTAAGACCATGTCTGG
1 GACATGGCATGGCATTTGGGTACGAGAGGTCCCATGTAAGACCATGTCTGG
* *
15282293 GACATGGCATGGCATCCTTGAGATCATGAGAGGTCCCATGTAAGACCATGTCTGG
1 GACATGGCATGGCAT--TTG-GGT-ACGAGAGGTCCCATGTAAGACCATGTCTGG
** *
15282348 GACATGGCATTGGCA-CCGAG-ACGAGAGGTCCCATGTAAGACCATGTCTGG
1 GACATGGCA-TGGCATTTGGGTACGAGAGGTCCCATGTAAGACCATGTCTGG
* * * * * *
15282398 GACATGGCGTTGGCA--CGAG-ATGAGAGGTCCCCTATAAGACCATGTCT-G
1 GACATGGC-ATGGCATTTGGGTACGAGAGGTCCCATGTAAGACCATGTCTGG
15282446 GACATGGCATGG
1 GACATGGCATGG
15282458 GCACCAAGAT
Statistics
Matches: 143, Mismatches: 15, Indels: 17
0.82 0.09 0.10
Matches are distributed among these distances:
47 3 0.02
48 9 0.06
49 29 0.20
50 55 0.38
52 3 0.02
53 3 0.02
54 1 0.01
55 35 0.24
56 5 0.03
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (51 bp):
GACATGGCATGGCATTTGGGTACGAGAGGTCCCATGTAAGACCATGTCTGG
Found at i:15282436 original size:49 final size:50
Alignment explanation
Indices: 15282266--15282510 Score: 309
Period size: 50 Copynumber: 4.8 Consensus size: 50
15282256 ATTTGGGTAA
*
15282266 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCA-TGGCATCCTTGAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC--GAG---ATG
*
15282321 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
*
15282371 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * *
15282420 AGAGGTCCCCTATAAGACCATGTCT-GGACATGGCATGGGCACCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** *
15282469 A-ACATCCCATGTAAGACCATGTCTTGGGACATGGCTTTGGCA
1 AGAGGTCCCATGTAAGACCATGTC-TGGGACATGGCATTGGCA
15282511 TGTTATTATC
Statistics
Matches: 171, Mismatches: 15, Indels: 13
0.86 0.08 0.07
Matches are distributed among these distances:
48 32 0.19
49 37 0.22
50 57 0.33
53 3 0.02
55 37 0.22
56 5 0.03
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:15282509 original size:98 final size:101
Alignment explanation
Indices: 15282270--15282510 Score: 312
Period size: 98 Copynumber: 2.4 Consensus size: 101
15282260 GGGTAAAGAG
* *
15282270 ATCCCATGTAAGACCATGTCTGGGACATGGCATGGCATCCTTGAGATCATGAGAGGTCCCATGTA
1 ATCCCATGTAAGACCATGTCTGGGACATGGCTTGGCA-CC-TGAGA--ATGAGAGGTCCCATATA
* * *
15282335 AGACCATGTCTGGGACATGGCATTGGCACCGAGACGAGAG
62 AGACCATGTCTGGGACATGGCATGGGCACCAAGACGAGAC
* *
15282375 GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-C-GAG-ATGAGAGGTCCCCTATAAGA
1 ATCCCATGTAAGACCATGTCTGGGACATGGC-TTGGCACCTGAGAATGAGAGGTCCCATATAAGA
*
15282437 CCATGTCT-GGACATGGCATGGGCACCAAGATGA-AC
65 CCATGTCTGGGACATGGCATGGGCACCAAGACGAGAC
15282472 ATCCCATGTAAGACCATGTCTTGGGACATGGCTTTGGCA
1 ATCCCATGTAAGACCATGTC-TGGGACATGGC-TTGGCA
15282511 TGTTATTATC
Statistics
Matches: 124, Mismatches: 10, Indels: 11
0.86 0.07 0.08
Matches are distributed among these distances:
97 20 0.16
98 39 0.31
99 26 0.21
102 3 0.02
104 1 0.01
105 30 0.24
106 5 0.04
ACGTcount: A:0.26, C:0.23, G:0.29, T:0.22
Consensus pattern (101 bp):
ATCCCATGTAAGACCATGTCTGGGACATGGCTTGGCACCTGAGAATGAGAGGTCCCATATAAGAC
CATGTCTGGGACATGGCATGGGCACCAAGACGAGAC
Found at i:15289842 original size:50 final size:50
Alignment explanation
Indices: 15289717--15289965 Score: 318
Period size: 50 Copynumber: 4.8 Consensus size: 50
15289707 ATTTGGGTAA
* *
15289717 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGATCATG
1 AGAGGTCCCATATAAGACCATGTCTGGGACATGGCATTGGCA-CC--GAG---ATG
*
15289773 AGAGGTCCCATATAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATATAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
*
15289823 AGAGGTCCCATATAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATATAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * *
15289873 AGAGGTCCCCTATAAGACCATGTCTTGGACATGGCATGGGCACCAAGATG
1 AGAGGTCCCATATAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * *
15289923 AGAACATCCCATGTAAGACCATGTCTGGGGCATGGCTTTGGCA
1 AG-AGGTCCCATATAAGACCATGTCTGGGACATGGCATTGGCA
15289966 TGTTATTATC
Statistics
Matches: 176, Mismatches: 16, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
50 100 0.57
51 32 0.18
53 3 0.02
55 2 0.01
56 39 0.22
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATATAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:15292793 original size:11 final size:11
Alignment explanation
Indices: 15292777--15292833 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
15292767 ATGGTAAGGA
15292777 AATATTATACG
1 AATATTATACG
15292788 AATATTATACG
1 AATATTATACG
* *
15292799 AAT-TGA-ACA
1 AATATTATACG
*
15292808 AATATTGTACG
1 AATATTATACG
* *
15292819 GATATTATACT
1 AATATTATACG
15292830 AATA
1 AATA
15292834 CTGAAGCAAT
Statistics
Matches: 35, Mismatches: 9, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
9 5 0.14
10 3 0.09
11 27 0.77
ACGTcount: A:0.46, C:0.09, G:0.11, T:0.35
Consensus pattern (11 bp):
AATATTATACG
Found at i:15294064 original size:44 final size:44
Alignment explanation
Indices: 15294023--15294123 Score: 148
Period size: 44 Copynumber: 2.3 Consensus size: 44
15294013 AAAAATTTTG
* * *
15294023 AAACAGGATTAAAAATAAATTATGAATATATATCGATAATTTAA
1 AAACAGGATTAAAAATAAATTATGAATAGATACCAATAATTTAA
* *
15294067 AAATAGAATTAAAAATAAATTATGAATAGATACCAATAATTTAA
1 AAACAGGATTAAAAATAAATTATGAATAGATACCAATAATTTAA
*
15294111 AAACAAGATTAAA
1 AAACAGGATTAAA
15294124 CGTAAAATAT
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 49 1.00
ACGTcount: A:0.58, C:0.05, G:0.08, T:0.29
Consensus pattern (44 bp):
AAACAGGATTAAAAATAAATTATGAATAGATACCAATAATTTAA
Found at i:15294142 original size:44 final size:44
Alignment explanation
Indices: 15294030--15294142 Score: 111
Period size: 44 Copynumber: 2.6 Consensus size: 44
15294020 TTGAAACAGG
* * * * * *
15294030 ATTAAAAATAAATTATGAATATATATCGATAATTTAAAAATAGA
1 ATTAAAAATAAAATATGAACAGATACCAATAATTTAAAAAAAGA
* *
15294074 ATTAAAAATAAATTATGAATAGATACCAATAATTTAAAAACAAG-
1 ATTAAAAATAAAATATGAACAGATACCAATAATTTAAAAA-AAGA
** *
15294118 ATTAAACGTAAAATATTAACAGATA
1 ATTAAAAATAAAATATGAACAGATA
15294143 AATTTAGGCT
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
44 57 0.97
45 2 0.03
ACGTcount: A:0.58, C:0.05, G:0.07, T:0.30
Consensus pattern (44 bp):
ATTAAAAATAAAATATGAACAGATACCAATAATTTAAAAAAAGA
Found at i:15295926 original size:12 final size:12
Alignment explanation
Indices: 15295909--15295937 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
15295899 TTACTAAAAA
15295909 CATCTGGTTATT
1 CATCTGGTTATT
15295921 CATCTGGTTATT
1 CATCTGGTTATT
15295933 CATCT
1 CATCT
15295938 TCAACAAAAT
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:0.17, C:0.21, G:0.14, T:0.48
Consensus pattern (12 bp):
CATCTGGTTATT
Found at i:15302192 original size:50 final size:50
Alignment explanation
Indices: 15302138--15302244 Score: 214
Period size: 50 Copynumber: 2.1 Consensus size: 50
15302128 GTTATGTGCG
15302138 TAATTGTTTGAATGTGCATGTGAAGTGCTTTTAGGATGATTGGTTGATTA
1 TAATTGTTTGAATGTGCATGTGAAGTGCTTTTAGGATGATTGGTTGATTA
15302188 TAATTGTTTGAATGTGCATGTGAAGTGCTTTTAGGATGATTGGTTGATTA
1 TAATTGTTTGAATGTGCATGTGAAGTGCTTTTAGGATGATTGGTTGATTA
15302238 TAATTGT
1 TAATTGT
15302245 CACGAGATCT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 57 1.00
ACGTcount: A:0.24, C:0.04, G:0.27, T:0.45
Consensus pattern (50 bp):
TAATTGTTTGAATGTGCATGTGAAGTGCTTTTAGGATGATTGGTTGATTA
Found at i:15307043 original size:21 final size:21
Alignment explanation
Indices: 15306989--15307046 Score: 66
Period size: 20 Copynumber: 2.8 Consensus size: 21
15306979 GGTATCCATT
*
15306989 ATATTTATTAAAAATTTCAAA
1 ATATTTATTAAAAAATTCAAA
**
15307010 ATA-GCATTCAAAAAATT-AAA
1 ATATTTATT-AAAAAATTCAAA
15307030 ATATTTATTAAAAAATT
1 ATATTTATTAAAAAATT
15307047 TCTCAGTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
20 17 0.57
21 13 0.43
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.38
Consensus pattern (21 bp):
ATATTTATTAAAAAATTCAAA
Found at i:15308409 original size:22 final size:22
Alignment explanation
Indices: 15308384--15308451 Score: 65
Period size: 22 Copynumber: 3.3 Consensus size: 22
15308374 TTTGACTACT
15308384 TTGTTGCATATAAATTATTGAA
1 TTGTTGCATATAAATTATTGAA
*
15308406 TTGTTG-AT-T--TTTATT-AA
1 TTGTTGCATATAAATTATTGAA
* *
15308423 TTTTCTGCATATAAAATATTGAA
1 TTGT-TGCATATAAATTATTGAA
15308446 TTGTTG
1 TTGTTG
15308452 ATTTCCAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 12
0.67 0.10 0.23
Matches are distributed among these distances:
17 5 0.14
18 7 0.20
19 2 0.06
20 2 0.06
21 2 0.06
22 12 0.34
23 5 0.14
ACGTcount: A:0.31, C:0.04, G:0.13, T:0.51
Consensus pattern (22 bp):
TTGTTGCATATAAATTATTGAA
Found at i:15309746 original size:41 final size:40
Alignment explanation
Indices: 15309689--15310008 Score: 216
Period size: 41 Copynumber: 7.8 Consensus size: 40
15309679 ATTTTTAAAC
*
15309689 CTTTAGCGGCGTTTTTATTTGTGCGCCGCTAATGCTCGAAT
1 CTTTAGCGGCGTTTTTATTTGAGCGCCGCTAATGCTCG-AT
*
15309730 CTTTAGTGGCGTTTTTATCTTG-GCGCCGCTAATGCTCCGAT
1 CTTTAGCGGCGTTTTTAT-TTGAGCGCCGCTAATGCT-CGAT
** **
15309771 CTTTAGCGGCGTTTTTACATGAGCGCCGCTAAAT-CTCTGGC
1 CTTTAGCGGCGTTTTTATTTGAGCGCCGCT-AATGCTC-GAT
* * * * * *
15309812 CTTTAGCGGCATTTTTGTCTAAGCGCCGCTAAGGCTCGGAG
1 CTTTAGCGGCGTTTTTATTTGAGCGCCGCTAATGCTC-GAT
* * * * * **
15309853 CTTTAGTGGCGTTTTTATCTCAGCGCCACTAATCCTCTGGC
1 CTTTAGCGGCGTTTTTATTTGAGCGCCGCTAATGCTC-GAT
* * * **
15309894 CTTTAGCGGCGTTTTTGTCTAAGAACCGCTAATGCTCGGAT
1 CTTTAGCGGCGTTTTTATTTGAGCGCCGCTAATGCTC-GAT
* ** * * * *
15309935 CTTTAGTGATGTTTTTATCTGAGCGCCACTAATTCTCCTG-C
1 CTTTAGCGGCGTTTTTATTTGAGCGCCGCTAATGCT-C-GAT
* *
15309976 CTTTAGCGGCGTTTGTT-TCTAAGCGCCGCTAAT
1 CTTTAGCGGCGTTT-TTATTTGAGCGCCGCTAAT
15310009 AGTAACAAAA
Statistics
Matches: 220, Mismatches: 51, Indels: 16
0.77 0.18 0.06
Matches are distributed among these distances:
40 5 0.02
41 203 0.92
42 12 0.05
ACGTcount: A:0.16, C:0.25, G:0.23, T:0.36
Consensus pattern (40 bp):
CTTTAGCGGCGTTTTTATTTGAGCGCCGCTAATGCTCGAT
Found at i:15309827 original size:82 final size:82
Alignment explanation
Indices: 15309689--15310008 Score: 353
Period size: 82 Copynumber: 3.9 Consensus size: 82
15309679 ATTTTTAAAC
* * * * ** * * **
15309689 CTTTAGCGGCGTTTTTATTTGTGCGCCGCTAATGCTC-GAATCTTTAGTGGCGTTTTTATCTTGG
1 CTTTAGCGGCGTTTTTATCTGAGCGCCACTAATCCTCTG-GCCTTTAGCGGCGTTTTTGTCTAAG
*
15309753 CGCCGCTAATGCTCCGAT
65 CGCCGCTAATGCTCGGAT
* *
15309771 CTTTAGCGGCGTTTTTA-CATGAGCGCCGCTAAAT-CTCTGGCCTTTAGCGGCATTTTTGTCTAA
1 CTTTAGCGGCGTTTTTATC-TGAGCGCCACT-AATCCTCTGGCCTTTAGCGGCGTTTTTGTCTAA
* *
15309834 GCGCCGCTAAGGCTCGGAG
64 GCGCCGCTAATGCTCGGAT
* * *
15309853 CTTTAGTGGCGTTTTTATCTCAGCGCCACTAATCCTCTGGCCTTTAGCGGCGTTTTTGTCTAAGA
1 CTTTAGCGGCGTTTTTATCTGAGCGCCACTAATCCTCTGGCCTTTAGCGGCGTTTTTGTCTAAGC
*
15309918 ACCGCTAATGCTCGGAT
66 GCCGCTAATGCTCGGAT
* ** *
15309935 CTTTAGTGATGTTTTTATCTGAGCGCCACTAATTCTCCT-GCCTTTAGCGGCGTTTGTT-TCTAA
1 CTTTAGCGGCGTTTTTATCTGAGCGCCACTAATCCT-CTGGCCTTTAGCGGCGTTT-TTGTCTAA
15309998 GCGCCGCTAAT
64 GCGCCGCTAAT
15310009 AGTAACAAAA
Statistics
Matches: 205, Mismatches: 26, Indels: 14
0.84 0.11 0.06
Matches are distributed among these distances:
81 3 0.01
82 193 0.94
83 9 0.04
ACGTcount: A:0.16, C:0.25, G:0.23, T:0.36
Consensus pattern (82 bp):
CTTTAGCGGCGTTTTTATCTGAGCGCCACTAATCCTCTGGCCTTTAGCGGCGTTTTTGTCTAAGC
GCCGCTAATGCTCGGAT
Found at i:15309907 original size:123 final size:123
Alignment explanation
Indices: 15309688--15309909 Score: 309
Period size: 123 Copynumber: 1.8 Consensus size: 123
15309678 GATTTTTAAA
* * ** * * **
15309688 CCTTTAGCGGCGTTTTTATTTGTGCGCCGCTAATGCTCGAATCTTTAGTGGCGTTTTTATCTTGG
1 CCTTTAGCGGCATTTTTATCTAAGCGCCGCTAAGGCTCGAAGCTTTAGTGGCGTTTTTATCTCAG
* * *
15309753 CGCCGCTAATGCTCCGATCTTTAGCGGCGTTTTTACATGAGCGCCGCTAAATCTCTGG
66 CGCCACTAATCCTCCGACCTTTAGCGGCGTTTTTACATGAGCGCCGCTAAATCTCTGG
* *
15309811 CCTTTAGCGGCATTTTTGTCTAAGCGCCGCTAAGGCTCGGAGCTTTAGTGGCGTTTTTATCTCAG
1 CCTTTAGCGGCATTTTTATCTAAGCGCCGCTAAGGCTCGAAGCTTTAGTGGCGTTTTTATCTCAG
* *
15309876 CGCCACTAATCCTCTGGCCTTTAGCGGCGTTTTT
66 CGCCACTAATCCTCCGACCTTTAGCGGCGTTTTT
15309910 GTCTAAGAAC
Statistics
Matches: 84, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
123 84 1.00
ACGTcount: A:0.14, C:0.25, G:0.24, T:0.36
Consensus pattern (123 bp):
CCTTTAGCGGCATTTTTATCTAAGCGCCGCTAAGGCTCGAAGCTTTAGTGGCGTTTTTATCTCAG
CGCCACTAATCCTCCGACCTTTAGCGGCGTTTTTACATGAGCGCCGCTAAATCTCTGG
Found at i:15309960 original size:123 final size:123
Alignment explanation
Indices: 15309688--15309966 Score: 285
Period size: 123 Copynumber: 2.3 Consensus size: 123
15309678 GATTTTTAAA
* * * * * **
15309688 CCTTTAGCGGCGTTTTTATTTGTGCGCCGCTAATGCTCGAATCTTTAGTGGCGTTTTTATCTTGG
1 CCTTTAGCGACGTTTTTATCTGAGCGCCGCTAAGGCTCGAAGCTTTAGTGGCGTTTTTATCTCAG
* * * * **
15309753 CGCCGCTAATGCTCCGATCTTTAGCGGCGTTTTTACATGAGCGCCGCTAAATCTCTGG
66 CGCCACTAATCCTCCGACCTTTAGCGGCGTTTTTACATAAGAACCGCTAAATCTCTGG
* * * * *
15309811 CCTTTAGCGGCATTTTTGTCTAAGCGCCGCTAAGGCTCGGAGCTTTAGTGGCGTTTTTATCTCAG
1 CCTTTAGCGACGTTTTTATCTGAGCGCCGCTAAGGCTCGAAGCTTTAGTGGCGTTTTTATCTCAG
* * *
15309876 CGCCACTAATCCTCTGGCCTTTAGCGGCGTTTTTGTC-TAAGAACCGCT-AATGCTC-GG
66 CGCCACTAATCCTCCGACCTTTAGCGGCGTTTTT-ACATAAGAACCGCTAAAT-CTCTGG
* * * *
15309933 ATCTTTAGTGATGTTTTTATCTGAGCGCCACTAA
1 -CCTTTAGCGACGTTTTTATCTGAGCGCCGCTAA
15309967 TTCTCCTGCC
Statistics
Matches: 126, Mismatches: 27, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
122 5 0.04
123 120 0.95
124 1 0.01
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.35
Consensus pattern (123 bp):
CCTTTAGCGACGTTTTTATCTGAGCGCCGCTAAGGCTCGAAGCTTTAGTGGCGTTTTTATCTCAG
CGCCACTAATCCTCCGACCTTTAGCGGCGTTTTTACATAAGAACCGCTAAATCTCTGG
Found at i:15310503 original size:15 final size:15
Alignment explanation
Indices: 15310482--15310519 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
15310472 TTTAAGGTTA
15310482 ATTTAGGGGTTAGAG
1 ATTTAGGGGTTAGAG
* *
15310497 GTTTAGGGGTTTGAG
1 ATTTAGGGGTTAGAG
15310512 ATTTAGGG
1 ATTTAGGG
15310520 TTTCAACAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.21, C:0.00, G:0.42, T:0.37
Consensus pattern (15 bp):
ATTTAGGGGTTAGAG
Found at i:15310522 original size:14 final size:14
Alignment explanation
Indices: 15310455--15310522 Score: 52
Period size: 15 Copynumber: 4.9 Consensus size: 14
15310445 TACGGGGTAT
*
15310455 AGATTTAAGGTTTG
1 AGATTTAGGGTTTG
* *
15310469 GGATTTAAGG-TT-
1 AGATTTAGGGTTTG
*
15310481 A-ATTTAGGGGTTAG
1 AGATTTA-GGGTTTG
*
15310495 AGGTTTAGGGGTTTG
1 AGATTTA-GGGTTTG
15310510 AGATTTAGGGTTT
1 AGATTTAGGGTTT
15310523 CAACAGTCAT
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
11 5 0.12
12 2 0.05
13 3 0.07
14 16 0.37
15 17 0.40
ACGTcount: A:0.24, C:0.00, G:0.35, T:0.41
Consensus pattern (14 bp):
AGATTTAGGGTTTG
Found at i:15311961 original size:17 final size:18
Alignment explanation
Indices: 15311939--15311979 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
15311929 AGGGTTAATT
15311939 AGGGTTAGAG-GGATTTA
1 AGGGTTAGAGAGGATTTA
*
15311956 AGGGTTAGAGAGGTTTTA
1 AGGGTTAGAGAGGATTTA
*
15311974 GGGGTT
1 AGGGTT
15311980 TGGCCGGGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.24, C:0.00, G:0.44, T:0.32
Consensus pattern (18 bp):
AGGGTTAGAGAGGATTTA
Found at i:15312402 original size:27 final size:27
Alignment explanation
Indices: 15312372--15312423 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
15312362 AATAAACAAA
* *
15312372 TAAATAAGTAAGTAATTATTTATTTGT
1 TAAATAAATAAGTAATTAATTATTTGT
**
15312399 TAAATAAATTGGTAATTAATTATTT
1 TAAATAAATAAGTAATTAATTATTT
15312424 AAATGTAAGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.48
Consensus pattern (27 bp):
TAAATAAATAAGTAATTAATTATTTGT
Found at i:15315266 original size:21 final size:21
Alignment explanation
Indices: 15315237--15315289 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
15315227 ACATCTTTGA
* *
15315237 TATATATATTTATATACAGTTT
1 TATATATATTTAT-TAAAATTT
15315259 TA-ATATATTTATTAAAATTT
1 TATATATATTTATTAAAATTT
15315279 TATATATATTT
1 TATATATATTT
15315290 GAAAAATTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 8 0.29
21 18 0.64
22 2 0.07
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (21 bp):
TATATATATTTATTAAAATTT
Found at i:15315407 original size:13 final size:15
Alignment explanation
Indices: 15315374--15315414 Score: 59
Period size: 13 Copynumber: 2.8 Consensus size: 15
15315364 AATAATTTAA
15315374 ATAACTTACATAATAC
1 ATAACTTACAT-ATAC
15315390 ATAACTTACAT-T-C
1 ATAACTTACATATAC
15315403 ATAACTTACATA
1 ATAACTTACATA
15315415 AACTTATATG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 12 0.50
14 1 0.04
16 11 0.46
ACGTcount: A:0.46, C:0.20, G:0.00, T:0.34
Consensus pattern (15 bp):
ATAACTTACATATAC
Found at i:15315494 original size:25 final size:25
Alignment explanation
Indices: 15315466--15315782 Score: 188
Period size: 25 Copynumber: 12.4 Consensus size: 25
15315456 ATTTTATATA
* * *
15315466 AACTCACATAATACATAGCATACAT
1 AACTTACATAATACATAACTTACAT
*
15315491 AACTTACATAATACAAAACTTACAT
1 AACTTACATAATACATAACTTACAT
* * *
15315516 AACTTAAATATCTTACACAACTTACAT
1 AACTTACATA--ATACATAACTTACAT
*
15315543 AACCTACATAATACATAACTTACAT
1 AACTTACATAATACATAACTTACAT
*
15315568 AACTTACATAACTTACATAATACATA-AT
1 AACTTACATAA--TACAT-A-ACTTACAT
* *
15315596 AACTTACA-ACTTACATAACATACATT
1 AACTTACATA-ATACATAACTTACA-T
** *
15315622 AA-TTTGATAACTTACATAAGTTACAT
1 AACTTACATAA--TACATAACTTACAT
15315648 AA--TACATAACTTAC--AACTTACAT
1 AACTTACATAA--TACATAACTTACAT
* ***
15315671 AACATACATTAATTTGGTAACTTACAT
1 AACTTACA-TAA-TACATAACTTACAT
*
15315698 AAGTTACATAATACATAACTTAC--
1 AACTTACATAATACATAACTTACAT
* **
15315721 AACTTACATAACATACATTACTTTGAT
1 AACTTACAT-A-ATACATAACTTACAT
*
15315748 AACTTACATAAGTTACATAA--TACAC
1 AACTTACATAA--TACATAACTTACAT
15315773 AACTTACATA
1 AACTTACATA
15315783 GCTTACTTAA
Statistics
Matches: 232, Mismatches: 37, Indels: 46
0.74 0.12 0.15
Matches are distributed among these distances:
23 18 0.08
24 6 0.03
25 106 0.46
26 19 0.08
27 68 0.29
28 11 0.05
29 4 0.02
ACGTcount: A:0.46, C:0.20, G:0.03, T:0.32
Consensus pattern (25 bp):
AACTTACATAATACATAACTTACAT
Found at i:15315498 original size:9 final size:9
Alignment explanation
Indices: 15315486--15315839 Score: 261
Period size: 9 Copynumber: 41.3 Consensus size: 9
15315476 ATACATAGCA
15315486 TACATAACT
1 TACATAACT
15315495 TACATAA--
1 TACATAACT
*
15315502 TACAAAACT
1 TACATAACT
15315511 TACATAACT
1 TACATAACT
* *
15315520 TAAATATCT
1 TACATAACT
*
15315529 TACACAACT
1 TACATAACT
*
15315538 TACATAACC
1 TACATAACT
15315547 TACATAA--
1 TACATAACT
15315554 TACATAACT
1 TACATAACT
15315563 TACATAACT
1 TACATAACT
15315572 TACATAACT
1 TACATAACT
*
15315581 TACATAATACA
1 TACAT-A-ACT
15315592 TA-ATAACT
1 TACATAACT
15315600 TAC--AACT
1 TACATAACT
*
15315607 TACATAACA
1 TACATAACT
15315616 TACATTAA-T
1 TACA-TAACT
**
15315625 TTGATAACT
1 TACATAACT
*
15315634 TACATAAGT
1 TACATAACT
15315643 TACATAA--
1 TACATAACT
15315650 TACATAACT
1 TACATAACT
15315659 TAC--AACT
1 TACATAACT
*
15315666 TACATAACA
1 TACATAACT
15315675 TACATTAA-T
1 TACA-TAACT
***
15315684 TTGGTAACT
1 TACATAACT
*
15315693 TACATAAGT
1 TACATAACT
15315702 TACATAA--
1 TACATAACT
15315709 TACATAACT
1 TACATAACT
15315718 TAC--AACT
1 TACATAACT
*
15315725 TACATAACA
1 TACATAACT
*
15315734 TACATTACT
1 TACATAACT
**
15315743 TTGATAACT
1 TACATAACT
*
15315752 TACATAAGT
1 TACATAACT
15315761 TACATAA--
1 TACATAACT
*
15315768 TACACAACT
1 TACATAACT
*
15315777 TACATAGCT
1 TACATAACT
*
15315786 TACTTAA--
1 TACATAACT
*
15315793 TACATGACT
1 TACATAACT
15315802 TACATAACT
1 TACATAACT
15315811 T--ATACACGT
1 TACATA-AC-T
15315820 T-CATAACT
1 TACATAACT
*
15315828 TACATAATT
1 TACATAACT
15315837 TAC
1 TAC
15315840 TTAATACATA
Statistics
Matches: 271, Mismatches: 45, Indels: 58
0.72 0.12 0.16
Matches are distributed among these distances:
7 62 0.23
8 14 0.05
9 179 0.66
10 12 0.04
11 4 0.01
ACGTcount: A:0.45, C:0.19, G:0.03, T:0.33
Consensus pattern (9 bp):
TACATAACT
Found at i:15315544 original size:43 final size:41
Alignment explanation
Indices: 15315486--15315596 Score: 141
Period size: 43 Copynumber: 2.6 Consensus size: 41
15315476 ATACATAGCA
*
15315486 TACATAACTTACATAATACAAAACTTACATAACTTAAATATCT
1 TACATAACTTACATAATACAAAA--TACATAACTTAAATAACT
* * *
15315529 TACACAACTTACATAACCTACATAATACATAACTTACATAACT
1 TACATAACTTACATAA--TACAAAATACATAACTTAAATAACT
*
15315572 TACATAACTTACATAATACATAATA
1 TACATAACTTACATAATACAAAATA
15315597 ACTTACAACT
Statistics
Matches: 61, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
41 9 0.15
43 46 0.75
45 6 0.10
ACGTcount: A:0.49, C:0.21, G:0.00, T:0.31
Consensus pattern (41 bp):
TACATAACTTACATAATACAAAATACATAACTTAAATAACT
Found at i:15315544 original size:52 final size:52
Alignment explanation
Indices: 15315486--15315584 Score: 162
Period size: 52 Copynumber: 1.9 Consensus size: 52
15315476 ATACATAGCA
* *
15315486 TACATAACTTACATAATACAAAACTTACATAACTTAAATATCTTACACAACT
1 TACATAACCTACATAATACAAAACTTACATAACTTAAATAACTTACACAACT
* *
15315538 TACATAACCTACATAATACATAACTTACATAACTTACATAACTTACA
1 TACATAACCTACATAATACAAAACTTACATAACTTAAATAACTTACA
15315585 TAATACATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 43 1.00
ACGTcount: A:0.47, C:0.22, G:0.00, T:0.30
Consensus pattern (52 bp):
TACATAACCTACATAATACAAAACTTACATAACTTAAATAACTTACACAACT
Found at i:15315682 original size:59 final size:59
Alignment explanation
Indices: 15315566--15315780 Score: 367
Period size: 59 Copynumber: 3.6 Consensus size: 59
15315556 CATAACTTAC
*
15315566 ATAACTTACATAACTTACATAATACATAATAACTTACAACTTACATAACATACATTAATTTG
1 ATAACTTACATAAGTTACATAATAC---ATAACTTACAACTTACATAACATACATTAATTTG
15315628 ATAACTTACATAAGTTACATAATACATAACTTACAACTTACATAACATACATTAATTTG
1 ATAACTTACATAAGTTACATAATACATAACTTACAACTTACATAACATACATTAATTTG
* *
15315687 GTAACTTACATAAGTTACATAATACATAACTTACAACTTACATAACATACATTACTTTG
1 ATAACTTACATAAGTTACATAATACATAACTTACAACTTACATAACATACATTAATTTG
*
15315746 ATAACTTACATAAGTTACATAATACACAACTTACA
1 ATAACTTACATAAGTTACATAATACATAACTTACA
15315781 TAGCTTACTT
Statistics
Matches: 148, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
59 124 0.84
62 24 0.16
ACGTcount: A:0.46, C:0.18, G:0.03, T:0.33
Consensus pattern (59 bp):
ATAACTTACATAAGTTACATAATACATAACTTACAACTTACATAACATACATTAATTTG
Found at i:15315788 original size:25 final size:25
Alignment explanation
Indices: 15315748--15315812 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
15315738 TTACTTTGAT
15315748 AACTTACATAAG-TTACATAATACAC
1 AACTTACAT-AGCTTACATAATACAC
* *
15315773 AACTTACATAGCTTACTTAATACAT
1 AACTTACATAGCTTACATAATACAC
* *
15315798 GACTTACATAACTTA
1 AACTTACATAGCTTA
15315813 TACACGTTCA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
24 2 0.06
25 33 0.94
ACGTcount: A:0.43, C:0.20, G:0.05, T:0.32
Consensus pattern (25 bp):
AACTTACATAGCTTACATAATACAC
Found at i:15315796 original size:118 final size:119
Alignment explanation
Indices: 15315529--15315812 Score: 389
Period size: 118 Copynumber: 2.4 Consensus size: 119
15315519 TTAAATATCT
* *
15315529 TACACAACTTACATAACCTACATAATACA-TAACTTACATAACTTACATAACTTACATAATACAT
1 TACACAACTTACAT-ACTTACTTAATACATTAACTTACATAACTTACATAACTTACATAATAC--
15315593 AATAACTTACAACTTACATAACATACATTAATTTGATAACTTACATAAGTTACATAA
63 AATAACTTACAACTTACATAACATACATTAATTTGATAACTTACATAAGTTACATAA
* * *** *
15315650 TACATAACTTACA-ACTTACATAACATACATTAA-TTTGGTAACTTACATAAGTTACATAATAC-
1 TACACAACTTACATACTTAC-TTA-ATACATTAACTTACATAACTTACATAACTTACATAATACA
*
15315712 ATAACTTACAACTTACATAACATACATTACTTTGATAACTTACATAAGTTACATAA
64 ATAACTTACAACTTACATAACATACATTAATTTGATAACTTACATAAGTTACATAA
*
15315768 TACACAACTTACATAGCTTACTTAATACA-TGACTTACATAACTTA
1 TACACAACTTACATA-CTTACTTAATACATTAACTTACATAACTTA
15315813 TACACGTTCA
Statistics
Matches: 142, Mismatches: 15, Indels: 15
0.83 0.09 0.09
Matches are distributed among these distances:
117 2 0.01
118 81 0.57
119 8 0.06
120 6 0.04
121 42 0.30
122 3 0.02
ACGTcount: A:0.45, C:0.19, G:0.03, T:0.33
Consensus pattern (119 bp):
TACACAACTTACATACTTACTTAATACATTAACTTACATAACTTACATAACTTACATAATACAAT
AACTTACAACTTACATAACATACATTAATTTGATAACTTACATAAGTTACATAA
Found at i:15315809 original size:59 final size:59
Alignment explanation
Indices: 15315553--15315812 Score: 335
Period size: 59 Copynumber: 4.4 Consensus size: 59
15315543 AACCTACATA
* *
15315553 ATACATAACTTACATAACTTACATAACTTACATAATACATAATAACTTACAACTTACATAAC
1 ATACATTACTTACATAACTTACATAAGTTACATAATAC---ATAACTTACAACTTACATAAC
* **
15315615 ATACATTAATTTGATAACTTACATAAGTTACATAATACATAACTTACAACTTACATAAC
1 ATACATTACTTACATAACTTACATAAGTTACATAATACATAACTTACAACTTACATAAC
* ***
15315674 ATACATTAATTTGGTAACTTACATAAGTTACATAATACATAACTTACAACTTACATAAC
1 ATACATTACTTACATAACTTACATAAGTTACATAATACATAACTTACAACTTACATAAC
** * *
15315733 ATACATTACTTTGATAACTTACATAAGTTACATAATACACAACTTACATAGCTTAC-TTA-
1 ATACATTACTTACATAACTTACATAAGTTACATAATACATAACTTACA-A-CTTACATAAC
*
15315792 ATACATGACTTACATAACTTA
1 ATACATTACTTACATAACTTA
15315813 TACACGTTCA
Statistics
Matches: 183, Mismatches: 13, Indels: 7
0.90 0.06 0.03
Matches are distributed among these distances:
59 142 0.78
60 3 0.02
61 5 0.03
62 33 0.18
ACGTcount: A:0.45, C:0.18, G:0.03, T:0.33
Consensus pattern (59 bp):
ATACATTACTTACATAACTTACATAAGTTACATAATACATAACTTACAACTTACATAAC
Found at i:15322313 original size:16 final size:16
Alignment explanation
Indices: 15322292--15322330 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
15322282 AATTATGGAG
*
15322292 ATATATGAAAGCATGT
1 ATATATAAAAGCATGT
*
15322308 ATATATAAAAGTATGT
1 ATATATAAAAGCATGT
15322324 ATATATA
1 ATATATA
15322331 TGTATACATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.49, C:0.03, G:0.13, T:0.36
Consensus pattern (16 bp):
ATATATAAAAGCATGT
Found at i:15322316 original size:34 final size:34
Alignment explanation
Indices: 15322268--15322332 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 34
15322258 ATATATATAT
*
15322268 GCATATATACATAAAATTATGGAGATATATGAAA
1 GCATATATACATAAAAGTATGGAGATATATGAAA
* * * *
15322302 GCATGTATATATAAAAGTATGTATATATATG
1 GCATATATACATAAAAGTATGGAGATATATG
15322333 TATACATTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 26 1.00
ACGTcount: A:0.46, C:0.05, G:0.15, T:0.34
Consensus pattern (34 bp):
GCATATATACATAAAAGTATGGAGATATATGAAA
Found at i:15322499 original size:14 final size:14
Alignment explanation
Indices: 15322453--15322499 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
15322443 TTAAAATTAT
*
15322453 TATATAAATATATA
1 TATATAAGTATATA
*
15322467 TAAATAAGTATATA
1 TATATAAGTATATA
* *
15322481 CATATAGGTATATA
1 TATATAAGTATATA
15322495 TATAT
1 TATAT
15322500 GAATCATAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.51, C:0.02, G:0.06, T:0.40
Consensus pattern (14 bp):
TATATAAGTATATA
Found at i:15322528 original size:13 final size:13
Alignment explanation
Indices: 15322510--15322535 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15322500 GAATCATAAA
15322510 ATATAAAATACAT
1 ATATAAAATACAT
15322523 ATATAAAATACAT
1 ATATAAAATACAT
15322536 GTTTTAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
ATATAAAATACAT
Found at i:15323450 original size:21 final size:22
Alignment explanation
Indices: 15323420--15323474 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
15323410 TTTAAGAATT
* * *
15323420 ACAAATAAAAAA-ATAAAAGGA
1 ACAAAAAAAAAAGAAAAAAGAA
15323441 ACAAAAAAAAAAGAAAAAAGAA
1 ACAAAAAAAAAAGAAAAAAGAA
*
15323463 ATAAAAAAAAAA
1 ACAAAAAAAAAA
15323475 CCGGAAATCA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 11 0.38
22 18 0.62
ACGTcount: A:0.84, C:0.04, G:0.07, T:0.05
Consensus pattern (22 bp):
ACAAAAAAAAAAGAAAAAAGAA
Found at i:15324345 original size:44 final size:44
Alignment explanation
Indices: 15324297--15324819 Score: 163
Period size: 44 Copynumber: 12.0 Consensus size: 44
15324287 ATAGGACTAG
* * *
15324297 TGGCTTAAATCTATTTCACTATAATCTCAGGGAGATAAGATCTC
1 TGGCTTAAATCTACTCCACTATAACCTCAGGGAGATAAGATCTC
* * * *
15324341 TGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAA
1 TGGCTTAAATCTACTCCACTATAACCTCAGGGAGATAAGATCT---C
* *** *
15324388 T-TCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGA-C-C
1 TGGCTTAAATCTACTCCACTATAACCTCAGGGAGATAAGATCTC
* *** ** * * *
15324429 T-GATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATC-C
1 TGGCTTAAATCTACTCCACTATAACCTCAGGGAGATAAGATCTC
*** * ** * ** **
15324471 TTTATTTTAATCCGCTCCACTATAACTTCAGGGAGATTGGAT-AG
1 -TGGCTTAAATCTACTCCACTATAACCTCAGGGAGATAAGATCTC
** ** * * *
15324515 TGTATTCGATCTGCTCCGCTATAATCTCAGGGAGATAAGATCTC
1 TGGCTTAAATCTACTCCACTATAACCTCAGGGAGATAAGATCTC
* * * *
15324559 TGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTAAAA
1 TGGCTTAAATCTACTCCACTATAACCTCAGGGAGATAAGATCT---C
* *** *
15324606 T-TCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGA-C-C
1 TGGCTTAAATCTACTCCACTATAACCTCAGGGAGATAAGATCTC
* * *** * * * * *
15324647 T-GATGT-GATCTACTTTGCTGTAACTTAAGAGAGATAAAATC-C
1 TGGCT-TAAATCTACTCCACTATAACCTCAGGGAGATAAGATCTC
*** * ** * * **
15324689 TTTATTTTAATCCGCTCCACTATAACTTCAGGGAGATAGGAT-AG
1 -TGGCTTAAATCTACTCCACTATAACCTCAGGGAGATAAGATCTC
* ** * ** * *
15324733 TGTCTTTGATCTGCTCTGCTGTAATCTCAGGGAGATAAGATCTC
1 TGGCTTAAATCTACTCCACTATAACCTCAGGGAGATAAGATCTC
* * *
15324777 TGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCT
1 TGGCTTAAATCTACTCCACTATAACCTCAGGGAGATAAGATCT
15324820 GAAATTCTTC
Statistics
Matches: 359, Mismatches: 102, Indels: 36
0.72 0.21 0.07
Matches are distributed among these distances:
41 58 0.16
42 5 0.01
43 63 0.18
44 161 0.45
45 2 0.01
46 68 0.19
47 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.31
Consensus pattern (44 bp):
TGGCTTAAATCTACTCCACTATAACCTCAGGGAGATAAGATCTC
Found at i:15324555 original size:218 final size:218
Alignment explanation
Indices: 15324315--15325042 Score: 1287
Period size: 218 Copynumber: 3.3 Consensus size: 218
15324305 ATCTATTTCA
15324315 CTATAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAG
1 CTATAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAG
15324380 ATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCT
66 ATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCT
*
15324445 GCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTATAACTTCAGGGAGATTG
131 GCTGTAACTTAAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTATAACTTCAGGGAGATTG
*
15324510 GATAGTGTATTCGATCTGCTCCG
196 GATAGTGTATTCGATCTGCTCTG
15324533 CTATAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAG
1 CTATAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAG
* * *
15324598 ATCTAAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGTGATCTACTTT
66 ATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCT
* *
15324663 GCTGTAACTTAAGAGAGATAAAATCCTTTATTTTAATCCGCTCCACTATAACTTCAGGGAGATAG
131 GCTGTAACTTAAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTATAACTTCAGGGAGATTG
* *
15324728 GATAGTGTCTTTGATCTGCTCTG
196 GATAGTGTATTCGATCTGCTCTG
*
15324751 CTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAG
1 CTATAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAG
15324816 ATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCT
66 ATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCT
* * * * *
15324881 GCTGTAACTTTAGAGAGATAAGATCCTTTATTTTAATCTGTTCCACTGTAACTTTAGGGAGATAT
131 GCTGTAACTTAAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTATAACTTCAGGGAGAT-T
15324946 -GATAGTGTATTCGATCTGCTCTG
195 GGATAGTGTATTCGATCTGCTCTG
* *
15324969 CTGTAATCTTAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAG
1 CTATAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAG
15325034 ATCTGAAAT
66 ATCTGAAAT
15325043 ATTCACTGAT
Statistics
Matches: 486, Mismatches: 23, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
218 486 1.00
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (218 bp):
CTATAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAG
ATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCT
GCTGTAACTTAAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTATAACTTCAGGGAGATTG
GATAGTGTATTCGATCTGCTCTG
Found at i:15325006 original size:87 final size:87
Alignment explanation
Indices: 15324400--15325031 Score: 236
Period size: 87 Copynumber: 7.3 Consensus size: 87
15324390 CTTCGGTCTA
* ** * *
15324400 CTCCACTGTAACCTCAGGGAGATAAGA-CCTG-ATGCGATCTACTCTGCTGTAACTTCAGAGAGA
1 CTCCACTGTAACCTCAGGGAGATATGATAGTGTATTCGATCTACTCTGCTGTAACTTTAGAGAGA
* * * *
15324463 TAAGATCCTTTATTTTAATCCG
66 TAAGATCCTTGACTTCAATCTG
* * * * * * *
15324485 CTCCACTATAACTTCAGGGAGAT-TGGATAGTGTATTCGATCTGCTCCGCTATAA-TCTCAGGGA
1 CTCCACTGTAACCTCAGGGAGATAT-GATAGTGTATTCGATCTACTCTGCTGTAACT-TTAGAGA
*
15324548 GATAAGAT-CTCTGGCTTCAATCTG
64 GATAAGATCCT-TGACTTCAATCTG
* * * * ** * * *
15324572 CTCCACTGTAACCTCAGGGAGATAAGATCTAAAAT-TCTTCGGTCTACTCCACTGTAACCTCAGG
1 CTCCACTGTAACCTCAGGGAGATATGA--T--AGTGTATTCGATCTACTCTGCTGTAACTTTAGA
* *
15324636 GAGATAAGA-CC-TGA-TGT-GATCTA
62 GAGATAAGATCCTTGACT-TCAATCTG
*** * * * ** ** * ** ** ** * * *
15324659 CTTTGCTGTAACTTAAGAGAGATAAAATCCTTTATTTTAATCCGCTCCACTATAACTTCAGGGAG
1 CTCCACTGTAACCTCAGGGAGATATGATAGTGTA-TTCGATCTACTCTGCTGTAACTTTAGAGAG
* ** * **
15324724 ATAGGAT-AGTGTCTTTGATCTG
65 ATAAGATCCTTGACTTCAATCTG
** * * ** ** * * ** * * *
15324746 CTCTGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAG
1 CTCCACTGTAACCTCAGGGAGATATGAT-AGTGTATTCGATCTACTCTGCTGTAACTTTAGAGAG
** *
15324811 ATAAGAT-C-TGAAATTCTTCGGTCTA
65 ATAAGATCCTTG--A--CTTCAATCTG
* ** *
15324836 CTCCACTGTAACCTCAGGGAGATAAGA-CCTG-ATGCGATCTACTCTGCTGTAACTTTAGAGAGA
1 CTCCACTGTAACCTCAGGGAGATATGATAGTGTATTCGATCTACTCTGCTGTAACTTTAGAGAGA
* * *
15324899 TAAGATCCTTTATTTTAATCTG
66 TAAGATCCTTGACTTCAATCTG
* * * * *
15324921 TTCCACTGTAACTTTAGGGAGATATGATAGTGTATTCGATCTGCTCTGCTGTAA-TCTTAGGGAG
1 CTCCACTGTAACCTCAGGGAGATATGATAGTGTATTCGATCTACTCTGCTGTAACT-TTAGAGAG
*
15324985 ATAAGAT-CTCTGGCTTCAATCTG
65 ATAAGATCCT-TGACTTCAATCTG
15325008 CTCCACTGTAACCTCAGGGAGATA
1 CTCCACTGTAACCTCAGGGAGATA
15325032 AGATCTGAAA
Statistics
Matches: 413, Mismatches: 104, Indels: 58
0.72 0.18 0.10
Matches are distributed among these distances:
83 1 0.00
84 1 0.00
85 80 0.19
86 15 0.04
87 240 0.58
88 9 0.02
89 2 0.00
90 63 0.15
91 2 0.00
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (87 bp):
CTCCACTGTAACCTCAGGGAGATATGATAGTGTATTCGATCTACTCTGCTGTAACTTTAGAGAGA
TAAGATCCTTGACTTCAATCTG
Found at i:15326273 original size:7 final size:7
Alignment explanation
Indices: 15326261--15326307 Score: 62
Period size: 7 Copynumber: 7.0 Consensus size: 7
15326251 TTAGCCTCTC
15326261 CATTTTT
1 CATTTTT
15326268 CA-TTTT
1 CATTTTT
15326274 CATTTTT
1 CATTTTT
15326281 CATTTTT
1 CATTTTT
*
15326288 CA-TTCT
1 CATTTTT
15326294 CATTTTT
1 CATTTTT
*
15326301 TATTTTT
1 CATTTTT
15326308 TTGACTCAGA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
6 11 0.31
7 24 0.69
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (7 bp):
CATTTTT
Found at i:15326279 original size:13 final size:14
Alignment explanation
Indices: 15326261--15326307 Score: 62
Period size: 13 Copynumber: 3.5 Consensus size: 14
15326251 TTAGCCTCTC
15326261 CATTTTTCA-TTTT
1 CATTTTTCATTTTT
15326274 CATTTTTCATTTTT
1 CATTTTTCATTTTT
*
15326288 CA-TTCTCATTTTT
1 CATTTTTCATTTTT
*
15326301 TATTTTT
1 CATTTTT
15326308 TTGACTCAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
13 20 0.69
14 9 0.31
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (14 bp):
CATTTTTCATTTTT
Found at i:15326284 original size:20 final size:20
Alignment explanation
Indices: 15326261--15326307 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
15326251 TTAGCCTCTC
*
15326261 CATTTTTCATTTTCATTTTT
1 CATTTTTCATTCTCATTTTT
15326281 CATTTTTCATTCTCATTTTT
1 CATTTTTCATTCTCATTTTT
*
15326301 TATTTTT
1 CATTTTT
15326308 TTGACTCAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (20 bp):
CATTTTTCATTCTCATTTTT
Found at i:15327151 original size:61 final size:60
Alignment explanation
Indices: 15327082--15327214 Score: 146
Period size: 61 Copynumber: 2.2 Consensus size: 60
15327072 TTCAACTAGA
* * * *
15327082 TTTCTCTTTTTTCATTCTTCTTT-CTTTTTCTCATTTTTATTTTGA-TCTTGATTTTGATTT
1 TTTCTCTTTCTTCATTCTTCTTTGATTTTT-TCATTTTCATTTTAACT-TTGATTTTGATTT
* * *
15327142 TTTCTTCTTTCTTCTTTTTTTTTTGATTTTTTCATTTTCATTTTAACTTTGATTTTGA-TT
1 TTTC-TCTTTCTTCATTCTTCTTTGATTTTTTCATTTTCATTTTAACTTTGATTTTGATTT
*
15327202 TTTCTTTTTCTTC
1 TTTCTCTTTCTTC
15327215 CATTTTTTGA
Statistics
Matches: 62, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
59 8 0.13
60 10 0.16
61 38 0.61
62 6 0.10
ACGTcount: A:0.10, C:0.14, G:0.05, T:0.71
Consensus pattern (60 bp):
TTTCTCTTTCTTCATTCTTCTTTGATTTTTTCATTTTCATTTTAACTTTGATTTTGATTT
Found at i:15328328 original size:12 final size:12
Alignment explanation
Indices: 15328311--15328337 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
15328301 CATTTGGGAT
15328311 AAGGAGGTTGTA
1 AAGGAGGTTGTA
15328323 AAGGAGGTTGTA
1 AAGGAGGTTGTA
15328335 AAG
1 AAG
15328338 TAACGAGGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.37, C:0.00, G:0.41, T:0.22
Consensus pattern (12 bp):
AAGGAGGTTGTA
Found at i:15331023 original size:16 final size:16
Alignment explanation
Indices: 15331002--15331040 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
15330992 ATTTATGGAG
*
15331002 ATATATGAAAGCATGT
1 ATATATGAAAGCATAT
* *
15331018 ATATATAAAAGTATAT
1 ATATATGAAAGCATAT
15331034 ATATATG
1 ATATATG
15331041 TATACGTTAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.49, C:0.03, G:0.13, T:0.36
Consensus pattern (16 bp):
ATATATGAAAGCATAT
Found at i:15331276 original size:13 final size:13
Alignment explanation
Indices: 15331258--15331283 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15331248 GAATCATAAA
15331258 ATATAAAATACAT
1 ATATAAAATACAT
15331271 ATATAAAATACAT
1 ATATAAAATACAT
15331284 GTTTTAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
ATATAAAATACAT
Found at i:15331445 original size:20 final size:19
Alignment explanation
Indices: 15331394--15331446 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
15331384 AGGGTACGTG
15331394 TATATATAT-ATATAGATA
1 TATATATATAATATAGATA
* * *
15331412 GATCATAAAAAATATAGATA
1 TAT-ATATATAATATAGATA
15331432 TTATATATATAATAT
1 -TATATATATAATAT
15331447 GAAAACGCAT
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
18 2 0.08
19 4 0.15
20 18 0.69
21 2 0.08
ACGTcount: A:0.53, C:0.02, G:0.06, T:0.40
Consensus pattern (19 bp):
TATATATATAATATAGATA
Found at i:15333130 original size:43 final size:43
Alignment explanation
Indices: 15333062--15333537 Score: 562
Period size: 43 Copynumber: 11.1 Consensus size: 43
15333052 CAAAATTAGC
** * * * *
15333062 GGCGTTTTTTGGGTAAGCACCGCTAAAGAACACGGCCTATAGT
1 GGCGTTTTTTGTCTAAGCGCCGCTAAAGACCATGGTCTATAGT
* * * * *
15333105 GGCATTTTTCGTATACGCGCTGCTAAAGACCATGGTCTATAGT
1 GGCGTTTTTTGTCTAAGCGCCGCTAAAGACCATGGTCTATAGT
* *
15333148 GGCGTTTTTTGTCTAAGCGTCGCTAAAGACCATGGTATATAGT
1 GGCGTTTTTTGTCTAAGCGCCGCTAAAGACCATGGTCTATAGT
*
15333191 GGCGTTTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
1 GGCGTTTTTTGTCTAAGCGCCGCTAAAGACCATGGTCTATAGT
* * *
15333234 GGCGTTTTTTGTCTAAACGCCGCTAAAGACAATGGCCTATAGT
1 GGCGTTTTTTGTCTAAGCGCCGCTAAAGACCATGGTCTATAGT
* * *
15333277 GGC-TTTTTTTTCCAAGCGCCGCTAAAGACCAGGGTCTATAGT
1 GGCGTTTTTTGTCTAAGCGCCGCTAAAGACCATGGTCTATAGT
* * * *
15333319 GGCGTTTTTTGTCCAATCGCCGCTAAAGAACACGGTCTATAGT
1 GGCGTTTTTTGTCTAAGCGCCGCTAAAGACCATGGTCTATAGT
* * *
15333362 GGCGCTTTTTGTCCAAGCGCCGCTAAAGACCATGGTTTATAGT
1 GGCGTTTTTTGTCTAAGCGCCGCTAAAGACCATGGTCTATAGT
* * *
15333405 GGCGTTTTATGTAC-AAACGCCGCTAAAAGACCATGATCTATAGT
1 GGCGTTTTTTGT-CTAAGCGCCGCT-AAAGACCATGGTCTATAGT
* * * *
15333449 GGCGTTTTTTGTAT-AGCGCCGCGAAAGACTATGGTCTATAGC
1 GGCGTTTTTTGTCTAAGCGCCGCTAAAGACCATGGTCTATAGT
* * * * *
15333491 GGCGTGTTTTGTGTAAGCGCCGCTAAAGACCATAGTTTATTGT
1 GGCGTTTTTTGTCTAAGCGCCGCTAAAGACCATGGTCTATAGT
15333534 GGCG
1 GGCG
15333538 CTTAAAGAGA
Statistics
Matches: 369, Mismatches: 59, Indels: 10
0.84 0.13 0.02
Matches are distributed among these distances:
42 64 0.17
43 276 0.75
44 29 0.08
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (43 bp):
GGCGTTTTTTGTCTAAGCGCCGCTAAAGACCATGGTCTATAGT
Found at i:15333582 original size:257 final size:257
Alignment explanation
Indices: 15333057--15333560 Score: 566
Period size: 257 Copynumber: 2.0 Consensus size: 257
15333047 TCTGCCAAAA
** * *
15333057 TTAGCGGCGTTTTTTGGGTAAGCACCGCTAAAGAACACGGCCTATAGTGGCATTTTTCGTATACG
1 TTAGCGGCGTTTTTTGGCCAAGCACCGCTAAAGAACACGGCCTATAGTGGCATTTTTCGTACAAG
* * * * *
15333122 CGCTGCTAAAGACCATGGTCTATAGTGGCGTTTTTTGTCTAAGCGTCGCTAAAGACCATGGTATA
66 CGCCGCTAAAGACCATGGTCTATAGTGGCGTTTTATGTCTAAACGCCGCTAAAGACCATGATATA
* * *
15333187 TAGTGGCGTTTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGTGGCGTTTTTTGTCTAAAC
131 TAGTGGCGTTTTTTGGCTAAGCGCCGCGAAAGACCATGGTCTATAGCGGCGTGTTTTGTCTAAAC
* ** ***** * * **
15333252 GCCGCTAAAGACAATGGCCTATAGTGGCTTTTTTTTCCAAGCGCCGCTAAAGACCAGGGTCT
196 GCCGCTAAAGACAATAGCCTATAGTGGCGCTTAAAGACAAACGCCGCAAAAGACCAGCATCT
* * * * * * * *
15333314 ATAGTGGCGTTTTTTGTCCAATCGCCGCTAAAGAACACGGTCTATAGTGGCGCTTTTT-GTCCAA
1 TTAGCGGCGTTTTTTGGCCAAGCACCGCTAAAGAACACGGCCTATAGTGGC-ATTTTTCGTACAA
*
15333378 GCGCCGCTAAAGACCATGGTTTATAGTGGCGTTTTATGTAC-AAACGCCGCTAAAAGACCATGAT
65 GCGCCGCTAAAGACCATGGTCTATAGTGGCGTTTTATGT-CTAAACGCCGCT-AAAGACCATGAT
* * *
15333442 CTATAGTGGCGTTTTTT-G-TATAGCGCCGCGAAAGACTATGGTCTATAGCGGCGTGTTTTGTGT
128 ATATAGTGGCGTTTTTTGGCTA-AGCGCCGCGAAAGACCATGGTCTATAGCGGCGTGTTTTGTCT
* * ** * *
15333505 AAGCGCCGCTAAAGACCATAGTTTATTGTGGCGCTTAAAGAGAAACGCCGCAAAAG
192 AAACGCCGCTAAAGACAATAGCCTATAGTGGCGCTTAAAGACAAACGCCGCAAAAG
15333561 GTGTTCATCT
Statistics
Matches: 203, Mismatches: 40, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
256 2 0.01
257 168 0.83
258 33 0.16
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (257 bp):
TTAGCGGCGTTTTTTGGCCAAGCACCGCTAAAGAACACGGCCTATAGTGGCATTTTTCGTACAAG
CGCCGCTAAAGACCATGGTCTATAGTGGCGTTTTATGTCTAAACGCCGCTAAAGACCATGATATA
TAGTGGCGTTTTTTGGCTAAGCGCCGCGAAAGACCATGGTCTATAGCGGCGTGTTTTGTCTAAAC
GCCGCTAAAGACAATAGCCTATAGTGGCGCTTAAAGACAAACGCCGCAAAAGACCAGCATCT
Found at i:15333596 original size:129 final size:129
Alignment explanation
Indices: 15333205--15333604 Score: 290
Period size: 129 Copynumber: 3.1 Consensus size: 129
15333195 TTTTTTGGCT
* * * * * * * * *
15333205 AAGCGCCGCTAAAGACCATGGTCTATAGTGGCGTTTTTTGTCTAAACGCCGCTAAAGACAATGGC
1 AAGCGCCGCGAAAGACTATGGTCTATAGCGGCGCTTTTTGTCCAAGCGCCGCTAAAGACCATAGT
* * **** * * *** * ***
15333270 CTATAGTGGC-TTTTTTTTCCAAGCGCCGCT-AAAGACCAGGGTCTATAGTGGCGTTTTTTGTCC
66 TTATAGTGGCGCTTAAAGTACAAACGCCGCTAAAAGACCATCATCTATAGCGGCGTTTTTT-AAA
* * * * *
15333333 AATCGCCGCTAAAGAAC-ACGGTCTATAGTGGCGCTTTTTGTCCAAGCGCCGCTAAAGACCATGG
1 AAGCGCCGCGAAAG-ACTATGGTCTATAGCGGCGCTTTTTGTCCAAGCGCCGCTAAAGACCATAG
* * * * * **
15333397 TTTATAGTGGCGTTTTATGTACAAACGCCGCTAAAAGACCATGATCTATAGTGGCGTTTTTTGTA
65 TTTATAGTGGCGCTTAAAGTACAAACGCCGCTAAAAGACCATCATCTATAGCGGCGTTTTTTAAA
* **
15333462 TAGCGCCGCGAAAGACTATGGTCTATAGCGGCG-TGTTTTGTGTAAGCGCCGCTAAAGACCATAG
1 AAGCGCCGCGAAAGACTATGGTCTATAGCGGCGCT-TTTTGTCCAAGCGCCGCTAAAGACCATAG
* * **** *
15333526 TTTATTGTGGCGCTTAAAG-AGAAACGCCGC-AAAAGGTGTTCATCTTTAGCGGCGTTTATTATA
65 TTTATAGTGGCGCTTAAAGTACAAACGCCGCTAAAAGACCATCATCTATAGCGGCGTTT-TT-TA
15333589 AA
128 AA
*
15333591 AAGCGCCGCTAAAG
1 AAGCGCCGCGAAAG
15333605 TTAGCGACGC
Statistics
Matches: 224, Mismatches: 41, Indels: 13
0.81 0.15 0.05
Matches are distributed among these distances:
127 20 0.09
128 79 0.35
129 98 0.44
130 27 0.12
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (129 bp):
AAGCGCCGCGAAAGACTATGGTCTATAGCGGCGCTTTTTGTCCAAGCGCCGCTAAAGACCATAGT
TTATAGTGGCGCTTAAAGTACAAACGCCGCTAAAAGACCATCATCTATAGCGGCGTTTTTTAAA
Found at i:15336559 original size:25 final size:25
Alignment explanation
Indices: 15336525--15336576 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
15336515 TAACATCACC
15336525 CATTTTTTACACTCTTTATTGTGGA
1 CATTTTTTACACTCTTTATTGTGGA
15336550 CATTTTTTACACTCTTTATTGTGGA
1 CATTTTTTACACTCTTTATTGTGGA
15336575 CA
1 CA
15336577 AAATCAAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.21, C:0.17, G:0.12, T:0.50
Consensus pattern (25 bp):
CATTTTTTACACTCTTTATTGTGGA
Found at i:15338978 original size:5 final size:5
Alignment explanation
Indices: 15338970--15338999 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
15338960 AATAACATAA
15338970 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
15339000 GACAATAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:15339835 original size:125 final size:124
Alignment explanation
Indices: 15339543--15339912 Score: 382
Period size: 125 Copynumber: 3.0 Consensus size: 124
15339533 TTAGGTTTTT
* * * * **
15339543 TAGGTCCTGTAAGAAAGAATTTCGAGTTGACATTTCTGAGAAAATAGTATAAAATCGCTTTTACC
1 TAGGTCCTG-AAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCAACC
* * * * * * *
15339608 AGGATGCTTTATGAGAAGAATTTGTTAAATCGCGTCCA----G---CGCTTTTGCTATAG
65 AGGATGCTTTACGAGAAGAATGTCTAAAATCACGCCCACGTGGACACGCTTTTGCTACAG
* *
15339661 TAGGTCCTGAAAAAATTATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAT-GCTTCAAGC
1 TAGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTAT-AAAATCGCTTCAACC
* *
15339725 AGGATGCTATT-TGAGAAGAATGTCTAAAATCATG-CCATCGTGGACACGCTTTTGCTACAG
65 AGGATGCT-TTACGAGAAGAATGTCTAAAATCACGCCCA-CGTGGACACGCTTTTGCTACAG
* * * * *
15339785 TTGGTCTTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATTGTATAAAATCGCTTCTACC
1 TAGGTCCT-GAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCAACC
* * * * *
15339850 AGGATGCTTTACGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAG
65 AGGATGCTTTACGAGAAGAATGTCTAAAATCACGCCCACGTGGACACGCTTTTGCTACAG
15339910 TAG
1 TAG
15339913 CATGTTTGGG
Statistics
Matches: 209, Mismatches: 29, Indels: 21
0.81 0.11 0.08
Matches are distributed among these distances:
116 3 0.01
117 67 0.32
118 16 0.08
121 1 0.00
124 26 0.12
125 93 0.44
126 3 0.01
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (124 bp):
TAGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCAACCA
GGATGCTTTACGAGAAGAATGTCTAAAATCACGCCCACGTGGACACGCTTTTGCTACAG
Found at i:15341457 original size:25 final size:25
Alignment explanation
Indices: 15341419--15341565 Score: 164
Period size: 25 Copynumber: 6.1 Consensus size: 25
15341409 GGCGTTAGAG
*
15341419 AATAAACTTATATTTTATTACATCA
1 AATAAACTTCTATTTTATTACATCA
*
15341444 AATAAACTTCTATTATATTACATCA
1 AATAAACTTCTATTTTATTACATCA
** *
15341469 AAT-AA-TATC-A--AAATAAC-TCA
1 AATAAACT-TCTATTTTATTACATCA
*
15341489 AA-AAATTTTCTATTTTATTACATCA
1 AATAAA-CTTCTATTTTATTACATCA
15341514 AATAAACTTCTATTTTATTACATCA
1 AATAAACTTCTATTTTATTACATCA
*
15341539 AATAAACATCTATTTTATTACATCA
1 AATAAACTTCTATTTTATTACATCA
15341564 AA
1 AA
15341566 AAATATCAAA
Statistics
Matches: 104, Mismatches: 9, Indels: 18
0.79 0.07 0.14
Matches are distributed among these distances:
20 7 0.07
21 7 0.07
22 2 0.02
23 2 0.02
24 8 0.08
25 75 0.72
26 3 0.03
ACGTcount: A:0.46, C:0.14, G:0.00, T:0.40
Consensus pattern (25 bp):
AATAAACTTCTATTTTATTACATCA
Found at i:15342020 original size:18 final size:18
Alignment explanation
Indices: 15341997--15342036 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
15341987 GACTCGGAAA
*
15341997 AGGATACATATAAGGGTT
1 AGGATACATATAAGGGCT
*
15342015 AGGATATATATAAGGGCT
1 AGGATACATATAAGGGCT
15342033 AGGA
1 AGGA
15342037 AACGCACCTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.40, C:0.05, G:0.30, T:0.25
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:15342699 original size:7 final size:7
Alignment explanation
Indices: 15342687--15342712 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
15342677 TTATATGCAT
15342687 AATACTA
1 AATACTA
15342694 AATACTA
1 AATACTA
15342701 AATACTA
1 AATACTA
15342708 AATAC
1 AATAC
15342713 CAATCGACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:15342919 original size:20 final size:20
Alignment explanation
Indices: 15342882--15342919 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
15342872 TTTATTTTTA
*
15342882 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
15342902 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
15342920 TACCTCATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:15343958 original size:11 final size:11
Alignment explanation
Indices: 15343944--15344020 Score: 54
Period size: 11 Copynumber: 6.9 Consensus size: 11
15343934 TTAAATATGG
15343944 ATTTGAGAGAA
1 ATTTGAGAGAA
*
15343955 ATTTG-GAAGGA
1 ATTTGAG-AGAA
*
15343966 ATTTAAGAGTAA
1 ATTTGAGAG-AA
15343978 A-TTGAGAGGAA
1 ATTTGAGA-GAA
*
15343989 ATTT-ACAGGAA
1 ATTTGAGA-GAA
15344000 ATTT-AGAGGAA
1 ATTTGAGA-GAA
15344011 ATTTGAGAGA
1 ATTTGAGAGA
15344021 GGATTAGTTT
Statistics
Matches: 54, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
10 1 0.02
11 44 0.81
12 9 0.17
ACGTcount: A:0.44, C:0.01, G:0.27, T:0.27
Consensus pattern (11 bp):
ATTTGAGAGAA
Found at i:15343987 original size:22 final size:22
Alignment explanation
Indices: 15343944--15344020 Score: 70
Period size: 22 Copynumber: 3.5 Consensus size: 22
15343934 TTAAATATGG
*
15343944 ATTTGAGAGAAATTTG-GAAGG-A
1 ATTTAAGAGAAA-TTGAG-AGGAA
15343966 ATTTAAGAGTAAATTGAGAGGAA
1 ATTTAAGAG-AAATTGAGAGGAA
*
15343989 ATTTACAG-GAAATTTAGAGGAA
1 ATTTA-AGAGAAATTGAGAGGAA
*
15344011 ATTTGAGAGA
1 ATTTAAGAGA
15344021 GGATTAGTTT
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
21 2 0.04
22 32 0.68
23 11 0.23
24 2 0.04
ACGTcount: A:0.44, C:0.01, G:0.27, T:0.27
Consensus pattern (22 bp):
ATTTAAGAGAAATTGAGAGGAA
Found at i:15343999 original size:33 final size:34
Alignment explanation
Indices: 15343944--15344019 Score: 88
Period size: 34 Copynumber: 2.3 Consensus size: 34
15343934 TTAAATATGG
*
15343944 ATTTGAGA-GAAATTTGGAAGG-AATTTAAGAGTAA
1 ATTTGAGAGGAAATTT-GAAGGAAATTT-AGAGGAA
15343978 A-TTGAGAGGAAATTT-ACAGGAAATTTAGAGGAA
1 ATTTGAGAGGAAATTTGA-AGGAAATTTAGAGGAA
15344011 ATTTGAGAG
1 ATTTGAGAG
15344020 AGGATTAGTT
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
32 1 0.03
33 16 0.43
34 20 0.54
ACGTcount: A:0.43, C:0.01, G:0.28, T:0.28
Consensus pattern (34 bp):
ATTTGAGAGGAAATTTGAAGGAAATTTAGAGGAA
Found at i:15344592 original size:21 final size:22
Alignment explanation
Indices: 15344549--15344608 Score: 68
Period size: 23 Copynumber: 2.7 Consensus size: 22
15344539 AAATTGCGCA
*
15344549 AGAATATAATAAAAAGGAAAAAT
1 AGAATAAAATAAAAAGG-AAAAT
15344572 AGAATAAAATAAAAAGG-AAAT
1 AGAATAAAATAAAAAGGAAAAT
* *
15344593 AGGATGAAATTAAAAA
1 AGAAT-AAAATAAAAA
15344609 AGGGTAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
21 8 0.24
22 9 0.27
23 16 0.48
ACGTcount: A:0.68, C:0.00, G:0.15, T:0.17
Consensus pattern (22 bp):
AGAATAAAATAAAAAGGAAAAT
Found at i:15346071 original size:94 final size:93
Alignment explanation
Indices: 15345790--15346056 Score: 327
Period size: 94 Copynumber: 2.8 Consensus size: 93
15345780 CAATCCTCTA
* * * * * *
15345790 CAACTTCAGAGGTATATGATTTCTAGCTTCAATCTACTCCACTGTAAATTCAAAGAGATAAGATT
1 CAACTTCAGGGGTATAGGATTTGTAGCTTCAATCTGCTCCACTGTAAATTTAAGGAGATAAGATT
* * *
15345855 CGGTATAGTAGAATCAATCTGACCCACTG
66 CGCTATGGTAGATTCAATCTGA-CCACTG
* * * * * *
15345884 CAACTTCAGGGGTATAAGATTTGTAGTTTCAATTTGCTCTACTGCAATTTTAAGGAGATAAGATT
1 CAACTTCAGGGGTATAGGATTTGTAGCTTCAATCTGCTCCACTGTAAATTTAAGGAGATAAGATT
*
15345949 CGCTATGGTAGATCCAATCTGAGCCACTG
66 CGCTATGGTAGATTCAATCTGA-CCACTG
* * * * *
15345978 TAACTTTAGGGGTATAGGATTTGTAGCTTCAATCTGCTCCACTGTAACTTTAGGGAGATAAAATT
1 CAACTTCAGGGGTATAGGATTTGTAGCTTCAATCTGCTCCACTGTAAATTTAAGGAGATAAGATT
15346043 CGCTATGGTAGATT
66 CGCTATGGTAGATT
15346057 TAGTACGTCT
Statistics
Matches: 146, Mismatches: 27, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
94 146 1.00
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (93 bp):
CAACTTCAGGGGTATAGGATTTGTAGCTTCAATCTGCTCCACTGTAAATTTAAGGAGATAAGATT
CGCTATGGTAGATTCAATCTGACCACTG
Found at i:15346080 original size:94 final size:93
Alignment explanation
Indices: 15345790--15346094 Score: 326
Period size: 94 Copynumber: 3.3 Consensus size: 93
15345780 CAATCCTCTA
* * * * * * *
15345790 CAACTTCAGAGGTATATGATTTCTAGCTTCAATCTACTCCACTGTAAATTCAAAGAGATAAGATT
1 CAACTTTAGGGGTATAGGATTTGTAGCTTCAATCTGCTCCACTGTAAATTTAAGGAGATAAGATT
* * *
15345855 CGGTATAGTAGAATCAATCTGACCCACTG
66 CGCTATGGTAGATTCAATCTGA-CCACTG
* * * * * * *
15345884 CAACTTCAGGGGTATAAGATTTGTAGTTTCAATTTGCTCTACTGCAATTTTAAGGAGATAAGATT
1 CAACTTTAGGGGTATAGGATTTGTAGCTTCAATCTGCTCCACTGTAAATTTAAGGAGATAAGATT
*
15345949 CGCTATGGTAGATCCAATCTGAGCCACTG
66 CGCTATGGTAGATTCAATCTGA-CCACTG
* * * *
15345978 TAACTTTAGGGGTATAGGATTTGTAGCTTCAATCTGCTCCACTGTAACTTTAGGGAGATAAAATT
1 CAACTTTAGGGGTATAGGATTTGTAGCTTCAATCTGCTCCACTGTAAATTTAAGGAGATAAGATT
* * *
15346043 CGCTATGGTAGATTTAGTAC-GTCTCACTG
66 CGCTATGGTAGATTCAAT-CTGAC-CACTG
*
15346072 CAATTTTA-GGGTATAGGATTTGT
1 CAACTTTAGGGGTATAGGATTTGT
15346095 TGTATTTTCA
Statistics
Matches: 177, Mismatches: 32, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
93 16 0.09
94 160 0.90
95 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (93 bp):
CAACTTTAGGGGTATAGGATTTGTAGCTTCAATCTGCTCCACTGTAAATTTAAGGAGATAAGATT
CGCTATGGTAGATTCAATCTGACCACTG
Found at i:15346131 original size:140 final size:138
Alignment explanation
Indices: 15345979--15346326 Score: 387
Period size: 140 Copynumber: 2.5 Consensus size: 138
15345969 GAGCCACTGT
* *
15345979 AACTTTAGGGGTATAGGATTTGTAGCTTCAATCTGCTCCACTGTAACTTTAGGGAGATAAAATTC
1 AACTTTAGGGGTATAGGATTTGTAGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTC
* * * * * * ** * *
15346044 GCTATGGTAGATTTAGTACGTCTCACTGCAATTTTA-GGGTATAGGATTTGTTGTATTTTCAATC
66 GCTATAGTAGAATTAGTACGACTCACTACAACTTCAGGGGTATAAAAATTGTTG---CTTCAATC
15346108 CAACCCACTAC
128 CAACCCACTAC
* * *
15346119 AACTTCAGGGGTATAAGATTTGTAGCTTCAATCTAG-TCCACTGCAACTTCAGGGAGATAAGATT
1 AACTTTAGGGGTATAGGATTTGTAGCTTCAATCT-GCTCCACTGCAACTTTAGGGAGATAAGATT
* * ** ** *
15346183 CACTATAGTAGAATTATTTTGACTCGTTACAACTTCAGGGGTATAAAAATTGTTGCTTCAATCTA
65 CGCTATAGTAGAATTAGTACGACTCACTACAACTTCAGGGGTATAAAAATTGTTGCTTCAATCCA
* *
15346248 ATCCACTGC
130 ACCCACTAC
* *
15346257 AACTTTAGGGATATAGGATTTGTAGCTTC-ATCTTGCTCTACTGCAACTTTAGGGAGATAAGATT
1 AACTTTAGGGGTATAGGATTTGTAGCTTCAATC-TGCTCCACTGCAACTTTAGGGAGATAAGATT
*
15346321 TGCTAT
65 CGCTAT
15346327 CATAGTTTCA
Statistics
Matches: 173, Mismatches: 31, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
137 4 0.02
138 72 0.42
140 82 0.47
141 15 0.09
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.35
Consensus pattern (138 bp):
AACTTTAGGGGTATAGGATTTGTAGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTC
GCTATAGTAGAATTAGTACGACTCACTACAACTTCAGGGGTATAAAAATTGTTGCTTCAATCCAA
CCCACTAC
Found at i:15346160 original size:44 final size:43
Alignment explanation
Indices: 15346112--15346554 Score: 149
Period size: 44 Copynumber: 9.7 Consensus size: 43
15346102 TCAATCCAAC
*
15346112 CCACTACAACTTCAGGGGTATAAGATTTGTAGCTTCAATCTAGT
1 CCACTGCAACTTCAGGGGTATAAGATTTGTAGCTTC-ATCTAGT
* * * *
15346156 CCACTGCAACTTCAGGGAG-ATAAGATTCACTATAGTAGAATT-ATTTTGA
1 CCACTGCAACTTCAGGG-GTATAAGA-T---T-T-GTAG-CTTCATCTAGT
** * * * * *
15346205 CTCGTTACAACTTCAGGGGTATAAAAATTGTTGCTTCAATCTAAT
1 C-CACTGCAACTTCAGGGGTATAAGATTTGTAGCTTC-ATCTAGT
* * * *
15346250 CCACTGCAACTTTAGGGATATAGGATTTGTAGCTTCATCTTGCT
1 CCACTGCAACTTCAGGGGTATAAGATTTGTAGCTTCATCTAG-T
* * * * **
15346294 CTACTGCAACTTTAGGGAG-ATAAGATTTGCTATCATAGTTTCATTCCAAC
1 CCACTGCAACTTCAGGG-GTATAAGATTTG------TAGCTTCA-TCTAGT
* * * *
15346344 CCACTGCAACTTTAGGGATATAATATTTGTAGCTTCATCTTGCT
1 CCACTGCAACTTCAGGGGTATAAGATTTGTAGCTTCATCTAG-T
* * * * * *
15346388 CTACTGCAACTTCAGGGAG-ATAAGATTCACCCTCATAGTTTCATTTCGA
1 CCACTGCAACTTCAGGG-GTATAAGATT-----T-GTAGCTTCATCTAGT
* * * * *
15346437 CCTACTGCAACTTCAGGAGTATATGAATTGTAACTTTAATCT-GAT
1 CC-ACTGCAACTTCAGGGGTATAAGATTTGTAGC-TTCATCTAG-T
* * * * * * *
15346482 CCACTGCGACTTCAAGGATATAGGATTTGTAGTTTTATCTTGCT
1 CCACTGCAACTTCAGGGGTATAAGATTTGTAGCTTCATCTAG-T
* *
15346526 CCACTGCAACTTCAAGGATATAAGATTTG
1 CCACTGCAACTTCAGGGGTATAAGATTTG
15346555 CTATGGTAAG
Statistics
Matches: 290, Mismatches: 74, Indels: 70
0.67 0.17 0.16
Matches are distributed among these distances:
43 14 0.05
44 161 0.56
45 15 0.05
46 1 0.00
48 1 0.00
49 10 0.03
50 84 0.29
51 4 0.01
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (43 bp):
CCACTGCAACTTCAGGGGTATAAGATTTGTAGCTTCATCTAGT
Found at i:15346354 original size:138 final size:138
Alignment explanation
Indices: 15345963--15346380 Score: 405
Period size: 138 Copynumber: 3.0 Consensus size: 138
15345953 ATGGTAGATC
* * * *
15345963 CAATCTGAGCCACTGTAACTTTAGGGGTATAGGATTTGTAGCTTCAATC-TGCTCCACTGTAACT
1 CAATCTAACCCACTGCAACTTTAGGGGTATAGGATTTGTAGCTTCAATCTTGCTCCACTGCAACT
* * * * * **
15346027 TTAGGGAGATAAAATTCGCTATGGTAGATTTAGTACGTCTCACTGCAATTTTA-GGGTATAGGAT
66 TTAGGGAGATAAGATTCGCTAT-ATAGATTTATTACGACTCACTGCAACTTTAGGGGTATAAAAT
*
15346091 TTGTTGTATTTT
130 TTGTTG---CTT
* * * * *
15346103 CAATCCAACCCACTACAACTTCAGGGGTATAAGATTTGTAGCTTCAATCTAG-TCCACTGCAACT
1 CAATCTAACCCACTGCAACTTTAGGGGTATAGGATTTGTAGCTTCAATCTTGCTCCACTGCAACT
* * * ** ** * * *
15346167 TCAGGGAGATAAGATTCACTATAGTAGAATTATTTTGACTCGTTACAACTTCAGGGGTATAAAAA
66 TTAGGGAGATAAGATTCGCTATA-TAGATTTATTACGACTCACTGCAACTTTAGGGGTATAAAAT
15346232 TTGTTGCTT
130 TTGTTGCTT
* * *
15346241 CAATCTAATCCACTGCAACTTTAGGGATATAGGATTTGTAGCTTC-ATCTTGCTCTACTGCAACT
1 CAATCTAACCCACTGCAACTTTAGGGGTATAGGATTTGTAGCTTCAATCTTGCTCCACTGCAACT
* * * * * *
15346305 TTAGGGAGATAAGATTTGCTATCATAG-TTTCATTCCAACCCACTGCAACTTTAGGGATATAATA
66 TTAGGGAGATAAGATTCGCTAT-ATAGATTT-ATTACGACTCACTGCAACTTTAGGGGTATAAAA
*
15346369 TTTGTAGCTT
129 TTTGTTGCTT
15346379 CA
1 CA
15346381 TCTTGCTCTA
Statistics
Matches: 221, Mismatches: 51, Indels: 14
0.77 0.18 0.05
Matches are distributed among these distances:
137 7 0.03
138 107 0.48
139 1 0.00
140 91 0.41
141 15 0.07
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (138 bp):
CAATCTAACCCACTGCAACTTTAGGGGTATAGGATTTGTAGCTTCAATCTTGCTCCACTGCAACT
TTAGGGAGATAAGATTCGCTATATAGATTTATTACGACTCACTGCAACTTTAGGGGTATAAAATT
TGTTGCTT
Found at i:15346411 original size:94 final size:94
Alignment explanation
Indices: 15346250--15346449 Score: 310
Period size: 94 Copynumber: 2.1 Consensus size: 94
15346240 TCAATCTAAT
* *
15346250 CCACTGCAACTTTAGGGATATAGGATTTGTAGCTTCATCTTGCTCTACTGCAACTTTAGGGAGAT
1 CCACTGCAACTTTAGGGATATAAGATTTGTAGCTTCATCTTGCTCTACTGCAACTTCAGGGAGAT
** *
15346315 AAGATTTGCTATCATAGTTTCATTCCAAC
66 AAGATTCACCATCATAGTTTCATTCCAAC
*
15346344 CCACTGCAACTTTAGGGATATAATATTTGTAGCTTCATCTTGCTCTACTGCAACTTCAGGGAGAT
1 CCACTGCAACTTTAGGGATATAAGATTTGTAGCTTCATCTTGCTCTACTGCAACTTCAGGGAGAT
* * *
15346409 AAGATTCACCCTCATAGTTTCATTTCGAC
66 AAGATTCACCATCATAGTTTCATTCCAAC
*
15346438 CTACTGCAACTT
1 CCACTGCAACTT
15346450 CAGGAGTATA
Statistics
Matches: 96, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
94 96 1.00
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.34
Consensus pattern (94 bp):
CCACTGCAACTTTAGGGATATAAGATTTGTAGCTTCATCTTGCTCTACTGCAACTTCAGGGAGAT
AAGATTCACCATCATAGTTTCATTCCAAC
Found at i:15346488 original size:94 final size:94
Alignment explanation
Indices: 15346250--15346495 Score: 237
Period size: 94 Copynumber: 2.6 Consensus size: 94
15346240 TCAATCTAAT
* ** * * * * * *
15346250 CCACTGCAACTTTAGGGATATAGGATTTGTAGCTTCATCTTGCTCTACTGCAACTTTAGGGAGAT
1 CCACTGCAACTTCAGGGATATAATAATTGTAACTTAATCTTGATCCACTGCAACTTCAGGGAGAT
** *
15346315 AAGATTTGCTATCATAGTTTCATTCCAAC
66 AAGATTCACCATCATAGTTTCATTCCAAC
* * * * * *
15346344 CCACTGCAACTTTAGGGATATAATATTTGTAGCTTCATCTTGCTCTACTGCAACTTCAGGGAGAT
1 CCACTGCAACTTCAGGGATATAATAATTGTAACTTAATCTTGATCCACTGCAACTTCAGGGAGAT
* * *
15346409 AAGATTCACCCTCATAGTTTCATTTCGAC
66 AAGATTCACCATCATAGTTTCATTCCAAC
* *
15346438 CTACTGCAACTTCA-GGAGTAT-ATGAATTGTAACTTTAATC-TGATCCACTGCGACTTCA
1 CCACTGCAACTTCAGGGA-TATAAT-AATTGTAAC-TTAATCTTGATCCACTGCAACTTCA
15346496 AGGATATAGG
Statistics
Matches: 132, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
93 5 0.04
94 122 0.92
95 5 0.04
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (94 bp):
CCACTGCAACTTCAGGGATATAATAATTGTAACTTAATCTTGATCCACTGCAACTTCAGGGAGAT
AAGATTCACCATCATAGTTTCATTCCAAC
Found at i:15346586 original size:232 final size:232
Alignment explanation
Indices: 15346100--15346597 Score: 591
Period size: 232 Copynumber: 2.2 Consensus size: 232
15346090 TTTGTTGTAT
* *
15346100 TTTCAA-TCCAACCCACTACAACTTCAGGGGTATAAGATTTGTAGCTTCAATCTAGTCCACTGCA
1 TTTCAATTCCAACCCACTGCAACTTCAGGGATATAAGATTTGTAGCTTCAATCTAGTCCACTGCA
* * *
15346164 ACTTCAGGGAGATAAGATTCACTATAGTAGAATTATTTTGACTCGTTACAACTTCAGGGGTATAA
66 ACTTCAGGGAGATAAGATTCACCATAGTAGAATTATTTCGACTCG-TACAACTTCAGGAGTATAA
** * *
15346229 AAATTGTTGCTTCAATCTAATCCACTGCAACTTTAGGGATATAGGATTTGTAGCTTCATCTTGCT
130 AAATTGTAACTTCAATCTAATCCACTGCAACTTCAAGGATATAGGATTTGTAGCTTCATCTTGCT
* * *
15346294 CTACTGCAACTTTAGGGAGATAAGATTTGCTATCATAG
195 CCACTGCAACTTCAAGGAGATAAGATTTGCTATCATAG
* * * *
15346332 TTTC-ATTCCAACCCACTGCAACTTTAGGGATATAATATTTGTAGCTTC-ATCTTGCTCTACTGC
1 TTTCAATTCCAACCCACTGCAACTTCAGGGATATAAGATTTGTAGCTTCAATCTAG-TCCACTGC
* * *
15346395 AACTTCAGGGAGATAAGATTCACCCTCA-TAG-TTTCATTTCGACCTAC-TGCAACTTCAGGAGT
65 AACTTCAGGGAGATAAGATTCACCAT-AGTAGAATT-ATTTCGA-CT-CGTACAACTTCAGGAGT
** * * * * *
15346457 ATATGAATTGTAACTTTAATCTGATCCACTGCGACTTCAAGGATATAGGATTTGTAGTTTTATCT
126 ATAAAAATTGTAACTTCAATCTAATCCACTGCAACTTCAAGGATATAGGATTTGTAGCTTCATCT
* **
15346522 TGCTCCACTGCAACTTCAAGGATATAAGATTTGCTATGGTAAG
191 TGCTCCACTGCAACTTCAAGGAGATAAGATTTGCTATCAT-AG
*
15346565 -TTCAATTCC-ACCCATTGCAACTTCAAGGG-TATA
1 TTTCAATTCCAACCCACTGCAACTTC-AGGGATATA
15346598 GGATCTGTGG
Statistics
Matches: 226, Mismatches: 31, Indels: 18
0.82 0.11 0.07
Matches are distributed among these distances:
231 8 0.04
232 203 0.90
233 14 0.06
234 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (232 bp):
TTTCAATTCCAACCCACTGCAACTTCAGGGATATAAGATTTGTAGCTTCAATCTAGTCCACTGCA
ACTTCAGGGAGATAAGATTCACCATAGTAGAATTATTTCGACTCGTACAACTTCAGGAGTATAAA
AATTGTAACTTCAATCTAATCCACTGCAACTTCAAGGATATAGGATTTGTAGCTTCATCTTGCTC
CACTGCAACTTCAAGGAGATAAGATTTGCTATCATAG
Found at i:15346597 original size:138 final size:138
Alignment explanation
Indices: 15346344--15346597 Score: 296
Period size: 138 Copynumber: 1.8 Consensus size: 138
15346334 TCATTCCAAC
* * * * *
15346344 CCACTGCAACTTTAGGGATATAATATTTGTAGCTTCATCTTGCTCTACTGCAACTTCAGGGAGAT
1 CCACTGCAACTTCAAGGATATAAGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAAGGAGAT
* * * *
15346409 AAGATTCACCCTCATAGTTTCATTTCGACCTACTGCAACTTCAGGAGTATATGAATTGTAACTTT
66 AAGATTCACCATCATAGTTTCAATTCCACCCACTGCAACTTCAGGAGTATATGAATTGTAACTTT
15346474 AATCTGAT
131 AATCTGAT
* * * * *
15346482 CCACTGCGACTTCAAGGATATAGGATTTGTAGTTTTATCTTGCTCCACTGCAACTTCAAGGATAT
1 CCACTGCAACTTCAAGGATATAAGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAAGGAGAT
** * ** *
15346547 AAGATTTGCTATGGTAAG-TTCAATTCCACCCATTGCAACTTCAAGG-GTATA
66 AAGATTCACCATCAT-AGTTTCAATTCCACCCACTGCAACTTC-AGGAGTATA
15346598 GGATCTGTGG
Statistics
Matches: 94, Mismatches: 20, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
138 89 0.95
139 5 0.05
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (138 bp):
CCACTGCAACTTCAAGGATATAAGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAAGGAGAT
AAGATTCACCATCATAGTTTCAATTCCACCCACTGCAACTTCAGGAGTATATGAATTGTAACTTT
AATCTGAT
Found at i:15350966 original size:25 final size:26
Alignment explanation
Indices: 15350932--15350982 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
15350922 TAATTATAGA
*
15350932 TATACATTGCTGAATTTG-ATTGTTT
1 TATACATTGCTGAATTCGAATTGTTT
*
15350957 TATATATTGCTGAATTCGAATTGTTT
1 TATACATTGCTGAATTCGAATTGTTT
15350983 ATAGTTATAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.25, C:0.08, G:0.16, T:0.51
Consensus pattern (26 bp):
TATACATTGCTGAATTCGAATTGTTT
Found at i:15351007 original size:56 final size:55
Alignment explanation
Indices: 15350897--15351008 Score: 127
Period size: 56 Copynumber: 2.0 Consensus size: 55
15350887 TAAATGTATA
* * * *
15350897 TGTTTTATACATTGCTGGATTTGATTAATTATAGATATACATTGCTGAATTTGAT
1 TGTTTTATACATTGCTGAATTCGATTAATTATAGATATACATTGCTAAAATTGAT
* ** *
15350952 TGTTTTATATATTGCTGAATTCGAATTGTTTATAGTTATACATTG-TCAAAATTGAT
1 TGTTTTATACATTGCTGAATTCG-ATTAATTATAGATATACATTGCT-AAAATTGAT
15351008 T
1 T
15351009 TGCATATGGA
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
55 21 0.45
56 26 0.55
ACGTcount: A:0.29, C:0.07, G:0.15, T:0.48
Consensus pattern (55 bp):
TGTTTTATACATTGCTGAATTCGATTAATTATAGATATACATTGCTAAAATTGAT
Found at i:15351065 original size:61 final size:61
Alignment explanation
Indices: 15350987--15351359 Score: 325
Period size: 61 Copynumber: 6.1 Consensus size: 61
15350977 TTGTTTATAG
* * *
15350987 TTATACATTG-TCAAAATTGATTTGCATATGGATATA-AGTTGCCGAATTGATTTGTATATGA
1 TTATACATTGCT-GAAATTGATTTGTATATGGATATACA-TTGCCGAATTGATTCGTATATGA
* * * **
15351048 TTGTACATTGCTGAAATTAATTTGTATATGGTTATACATTGTTGAAATTGAATT-GTATATGGA
1 TTATACATTGCTGAAATTGATTTGTATATGGATATACATTGCCG-AATTG-ATTCGTATAT-GA
* * * * * * *
15351111 -TATA-AGTTGCCG-AATTGATTTGTATAT-GATTATATATTGCTGAAATTAATTTGTACATGG
1 TTATACA-TTGCTGAAATTGATTTGTATATGGA-TATACATTGCCG-AATTGATTCGTATATGA
* * * *
15351171 TTATACATTGTTGAAATTGAATTGTATATGGATATA-AGTTGCCGAATTGATTCATATATGG
1 TTATACATTGCTGAAATTGATTTGTATATGGATATACA-TTGCCGAATTGATTCGTATATGA
* * *
15351232 TTATACATTGCTGAATTTAATTTGTATAT-GATTATACATTGCCGAACTTGATTCGTATATGG
1 TTATACATTGCTGAAATTGATTTGTATATGGA-TATACATTGCCGAA-TTGATTCGTATATGA
* * * *
15351294 TTATACATTGCCG-AATTGATTTGTATATAGATATACATTGCCAAATTTGGTTCGTATATGA
1 TTATACATTGCTGAAATTGATTTGTATATGGATATACATTGCCGAA-TTGATTCGTATATGA
*
15351355 ATATA
1 TTATA
15351360 TATATCGTTG
Statistics
Matches: 258, Mismatches: 37, Indels: 34
0.78 0.11 0.10
Matches are distributed among these distances:
60 7 0.03
61 170 0.66
62 74 0.29
63 7 0.03
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.42
Consensus pattern (61 bp):
TTATACATTGCTGAAATTGATTTGTATATGGATATACATTGCCGAATTGATTCGTATATGA
Found at i:15351071 original size:31 final size:31
Alignment explanation
Indices: 15351031--15351334 Score: 268
Period size: 31 Copynumber: 9.9 Consensus size: 31
15351021 TAAGTTGCCG
* *
15351031 AATTGATTTGTATATGATTGTACATTGCTGA
1 AATTAATTTGTATATGATTATACATTGCTGA
* *
15351062 AATTAATTTGTATATGGTTATACATTGTTGA
1 AATTAATTTGTATATGATTATACATTGCTGA
*
15351093 AATTGAA-TTGTATATGGA-TATA-AGTTGCCG-
1 AATT-AATTTGTATAT-GATTATACA-TTGCTGA
* *
15351123 AATTGATTTGTATATGATTATATATTGCTGA
1 AATTAATTTGTATATGATTATACATTGCTGA
* * *
15351154 AATTAATTTGTACATGGTTATACATTGTTGA
1 AATTAATTTGTATATGATTATACATTGCTGA
*
15351185 AATTGAA-TTGTATATGGA-TATA-AGTTGCCG-
1 AATT-AATTTGTATAT-GATTATACA-TTGCTGA
* ** *
15351215 AATTGATTCATATATGGTTATACATTGCTGA
1 AATTAATTTGTATATGATTATACATTGCTGA
* *
15351246 ATTTAATTTGTATATGATTATACATTGCCGA
1 AATTAATTTGTATATGATTATACATTGCTGA
* * * * *
15351277 ACTTGATTCGTATATGGTTATACATTGCCG-
1 AATTAATTTGTATATGATTATACATTGCTGA
*
15351307 AATTGATTTGTATATAGA-TATACATTGC
1 AATTAATTTGTATAT-GATTATACATTGC
15351335 CAAATTTGGT
Statistics
Matches: 222, Mismatches: 36, Indels: 31
0.77 0.12 0.11
Matches are distributed among these distances:
29 5 0.02
30 65 0.29
31 146 0.66
32 6 0.03
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.43
Consensus pattern (31 bp):
AATTAATTTGTATATGATTATACATTGCTGA
Found at i:15351082 original size:92 final size:92
Alignment explanation
Indices: 15350956--15351334 Score: 507
Period size: 92 Copynumber: 4.1 Consensus size: 92
15350946 TTTGATTGTT
* * * * * *
15350956 TTATATATTGCTG-AATTCGAA-TTGTTTATAGTTATACATTGTCAAAATTGATTTGCATATGGA
1 TTATACATTGCTGAAATT--AATTTGTATATGGTTATACATTGTCGAAATTGAATTGTATATGGA
15351019 TATAAGTTGCCGAATTGATTTGTATATGA
64 TATAAGTTGCCGAATTGATTTGTATATGA
* *
15351048 TTGTACATTGCTGAAATTAATTTGTATATGGTTATACATTGTTGAAATTGAATTGTATATGGATA
1 TTATACATTGCTGAAATTAATTTGTATATGGTTATACATTGTCGAAATTGAATTGTATATGGATA
15351113 TAAGTTGCCGAATTGATTTGTATATGA
66 TAAGTTGCCGAATTGATTTGTATATGA
* * *
15351140 TTATATATTGCTGAAATTAATTTGTACATGGTTATACATTGTTGAAATTGAATTGTATATGGATA
1 TTATACATTGCTGAAATTAATTTGTATATGGTTATACATTGTCGAAATTGAATTGTATATGGATA
** *
15351205 TAAGTTGCCGAATTGATTCATATATGG
66 TAAGTTGCCGAATTGATTTGTATATGA
* * * * *
15351232 TTATACATTGCTGAATTTAATTTGTATATGATTATACATTGCCGAACTTG-ATTCGTATATGGTT
1 TTATACATTGCTGAAATTAATTTGTATATGGTTATACATTGTCGAAATTGAATT-GTATATGGAT
15351296 ATACA-TTGCCGAATTGATTTGTATATAGA
65 ATA-AGTTGCCGAATTGATTTGTATAT-GA
15351325 -TATACATTGC
1 TTATACATTGC
15351335 CAAATTTGGT
Statistics
Matches: 257, Mismatches: 25, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
91 5 0.02
92 246 0.96
93 6 0.02
ACGTcount: A:0.31, C:0.08, G:0.18, T:0.43
Consensus pattern (92 bp):
TTATACATTGCTGAAATTAATTTGTATATGGTTATACATTGTCGAAATTGAATTGTATATGGATA
TAAGTTGCCGAATTGATTTGTATATGA
Found at i:15351359 original size:31 final size:30
Alignment explanation
Indices: 15351001--15351359 Score: 217
Period size: 31 Copynumber: 11.7 Consensus size: 30
15350991 ACATTGTCAA
* * *
15351001 AATTGATTTGCATATGGATATA-AGTTGCCG
1 AATTGATTCGTATATGAATATACA-TTGCCG
* * * *
15351031 AATTGATTTGTATATGATTGTACATTGCTG
1 AATTGATTCGTATATGAATATACATTGCCG
* * ** **
15351061 AAATTAATTTGTATATGGTTATACATTGTTG
1 -AATTGATTCGTATATGAATATACATTGCCG
*
15351092 AAATTGAATT-GTATATGGATATA-AGTTGCCG
1 -AATTG-ATTCGTATATGAATATACA-TTGCCG
* * * *
15351123 AATTGATTTGTATATGATTATATATTGCTG
1 AATTGATTCGTATATGAATATACATTGCCG
* * * ** **
15351153 AAATTAATTTGTACATGGTTATACATTGTTG
1 -AATTGATTCGTATATGAATATACATTGCCG
*
15351184 AAATTGAATT-GTATATGGATATA-AGTTGCCG
1 -AATTG-ATTCGTATATGAATATACA-TTGCCG
* ** *
15351215 AATTGATTCATATATGGTTATACATTGCTG
1 AATTGATTCGTATATGAATATACATTGCCG
* * *
15351245 AATTTAATTTGTATATGATTATACATTGCCG
1 AA-TTGATTCGTATATGAATATACATTGCCG
**
15351276 AACTTGATTCGTATATGGTTATACATTGCCG
1 AA-TTGATTCGTATATGAATATACATTGCCG
* *
15351307 AATTGATTTGTATAT-AGATATACATTGCCA
1 AATTGATTCGTATATGA-ATATACATTGCCG
*
15351337 AATTTGGTTCGTATATGAATATA
1 AA-TTGATTCGTATATGAATATA
15351360 TATATCGTTG
Statistics
Matches: 270, Mismatches: 44, Indels: 29
0.79 0.13 0.08
Matches are distributed among these distances:
29 6 0.02
30 94 0.35
31 163 0.60
32 7 0.03
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.42
Consensus pattern (30 bp):
AATTGATTCGTATATGAATATACATTGCCG
Found at i:15356121 original size:114 final size:113
Alignment explanation
Indices: 15355911--15356783 Score: 1149
Period size: 114 Copynumber: 7.7 Consensus size: 113
15355901 GACCTTCGAC
* * *
15355911 AAACGCCGCTAAAGTACACCATTAGCGGCGCATTATATAAAGCGCCG-TAAAAATCTTAACCAAA
1 AAACGCCGCTAAAGCACACCATTAGCGGCGCATTATACAAAGCGCCGCAAAAAATCTTAACCAAA
* *
15355975 ACACATCGTTCTGGGTTGAGGTATTTTAGAATTAGTGGCGCTTAAGGCA
66 ACGCATCGTTTTGGGTTGAGGTATTTTAGAATTAGTGGCGCTTAAGG-A
* * ** *
15356024 AAACGCCGCTAAAGCACACCATTCGCGGCGCATCATACAAATTGCCGCAAAAAATCTTAACCGAA
1 AAACGCCGCTAAAGCACACCATTAGCGGCGCATTATACAAAGCGCCGCAAAAAATCTTAACCAAA
* *
15356089 ACGCATCGTTTTGGGTTGAGGTATATTAGAATTAGTGGCGCTTATGGA
66 ACGCATCGTTTTGGGTTGAGGTATTTTAGAATTAGTGGCGCTTAAGGA
* * * *
15356137 TAAATGCCGCTAAAGCACACCATTAGCGACGCATTATACAGAGCGCCGCAAAAAATCATAACCAA
1 -AAACGCCGCTAAAGCACACCATTAGCGGCGCATTATACAAAGCGCCGCAAAAAATCTTAACCAA
* *
15356202 AACGCATCGTTCTGGGTTGAGGTATTTTAGAATTAGTGGCGCTTAAGTAA
65 AACGCATCGTTTTGGGTTGAGGTATTTTAGAATTAGTGGCGCTTAAG-GA
* * * *
15356252 AAACGCCGCTAAAGTAGACCATTAGCGGCGCATCATACAAAGCGCCGGAAAAAATCTTAACCAAA
1 AAACGCCGCTAAAGCACACCATTAGCGGCGCATTATACAAAGCGCCGCAAAAAATCTTAACCAAA
* * * * *
15356317 ACACATCGTTCTGGGTTGATGTACTTTAGAATTAGTGGCGCTTAAGTAA
66 ACGCATCGTTTTGGGTTGAGGTATTTTAGAATTAGTGGCGCTTAAG-GA
* * * *
15356366 AAACGCCGCTAAAGCACACCATTAGCGGTGCATCATACAAAGCGCCACAAAAAATCTTAACCGAA
1 AAACGCCGCTAAAGCACACCATTAGCGGCGCATTATACAAAGCGCCGCAAAAAATCTTAACCAAA
* *
15356431 ACGCATCGTTTTGGGTTGAGGTATATTAGAATTAGTGGCGCTTACGGA
66 ACGCATCGTTTTGGGTTGAGGTATTTTAGAATTAGTGGCGCTTAAGGA
* * * *
15356479 TAAATGCCGCTAAAGCACACCACTAGCGGTGCATTATTCAAAGCGCCGCAAAAAATCTTAACC-A
1 -AAACGCCGCTAAAGCACACCATTAGCGGCGCATTATACAAAGCGCCGCAAAAAATCTTAACCAA
*
15356543 AACGCATCGTTTTGGGTTGAGGTATTTTAGATTTAGTGGCGCTTAAGGA
65 AACGCATCGTTTTGGGTTGAGGTATTTTAGAATTAGTGGCGCTTAAGGA
* * * ** *
15356592 TAAATGCCGCTAAAGAACACCATTAGCGGCACATTATTGAGAGCGCCGCAAAAAATCTTAACCAA
1 -AAACGCCGCTAAAGCACACCATTAGCGGCGCATTATACAAAGCGCCGCAAAAAATCTTAACCAA
* * * ** *
15356657 AACGCGTCATTTTTGGTTGAGGTATTTTAGAATTAGTGGAAC-TATAGTA
65 AACGCATCGTTTTGGGTTGAGGTATTTTAGAATTAGTGGCGCTTA-AGGA
* * * * *
15356706 AAACGCCACTAAAGTACATCATTAGCGGCGCATTATACAAAGCGCTGCGAATAAATCTTAACCAA
1 AAACGCCGCTAAAGCACACCATTAGCGGCGCATTATACAAAGCGCCGC-AAAAAATCTTAACCAA
*
15356771 AACACATCGTTTT
65 AACGCATCGTTTT
15356784 AAACCGAAAC
Statistics
Matches: 670, Mismatches: 83, Indels: 13
0.87 0.11 0.02
Matches are distributed among these distances:
113 188 0.28
114 481 0.72
115 1 0.00
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (113 bp):
AAACGCCGCTAAAGCACACCATTAGCGGCGCATTATACAAAGCGCCGCAAAAAATCTTAACCAAA
ACGCATCGTTTTGGGTTGAGGTATTTTAGAATTAGTGGCGCTTAAGGA
Found at i:15356535 original size:342 final size:340
Alignment explanation
Indices: 15355911--15356783 Score: 1282
Period size: 342 Copynumber: 2.6 Consensus size: 340
15355901 GACCTTCGAC
* *
15355911 AAACGCCGCTAAAGTACACCATTAGCGGCGCATTATATAAAGCGCC-GTAAAAATCTTAACCAAA
1 AAACGCCGCTAAAGTACACCATTAGCGGCGCATTATACAAAGCGCCGGAAAAAATCTTAACCAAA
*
15355975 ACACATCGTTCTGGGTTGAGGTATTTTAGAATTAGTGGCGCTTAAGGCAAAACGCCGCTAAAGCA
66 ACACATCGTTCTGGGTTGAGGTATTTTAGAATTAGTGGCGCTTAA-GTAAAACGCCGCTAAAGCA
* **
15356040 CACCATTCGCGGCGCATCATACAAATTGCCGCAAAAAATCTTAACCGAAACGCATCGTTTTGGGT
130 CACCATTAGCGGCGCATCATACAAAGCGCCGCAAAAAATCTTAACCGAAACGCATCGTTTTGGGT
* *
15356105 TGAGGTATATTAGAATTAGTGGCGCTTATGGATAAATGCCGCTAAAGCACACCATTAGCGACGCA
195 TGAGGTATATTAGAATTAGTGGCGCTTACGGATAAATGCCGCTAAAGCACACCACTAGCGACGCA
*
15356170 TTATACAGAGCGCCGCAAAAAATCATAACCAAAACGCATCGTTCTGGGTTGAGGTATTTTAGAAT
260 TTATACAAAGCGCCGCAAAAAATCATAACC-AAACGCATCGTTCTGGGTTGAGGTATTTTAGAAT
*
15356235 TAGTGGCGCTTAAGTAA
324 TAGTGGCGCTTAAGGAA
* *
15356252 AAACGCCGCTAAAGTAGACCATTAGCGGCGCATCATACAAAGCGCCGGAAAAAATCTTAACCAAA
1 AAACGCCGCTAAAGTACACCATTAGCGGCGCATTATACAAAGCGCCGGAAAAAATCTTAACCAAA
* *
15356317 ACACATCGTTCTGGGTTGATGTACTTTAGAATTAGTGGCGCTTAAGTAAAAACGCCGCTAAAGCA
66 ACACATCGTTCTGGGTTGAGGTATTTTAGAATTAGTGGCGCTTAAGT-AAAACGCCGCTAAAGCA
* *
15356382 CACCATTAGCGGTGCATCATACAAAGCGCCACAAAAAATCTTAACCGAAACGCATCGTTTTGGGT
130 CACCATTAGCGGCGCATCATACAAAGCGCCGCAAAAAATCTTAACCGAAACGCATCGTTTTGGGT
**
15356447 TGAGGTATATTAGAATTAGTGGCGCTTACGGATAAATGCCGCTAAAGCACACCACTAGCGGTGCA
195 TGAGGTATATTAGAATTAGTGGCGCTTACGGATAAATGCCGCTAAAGCACACCACTAGCGACGCA
* * * *
15356512 TTATTCAAAGCGCCGCAAAAAATCTTAACCAAACGCATCGTTTTGGGTTGAGGTATTTTAGATTT
260 TTATACAAAGCGCCGCAAAAAATCATAACCAAACGCATCGTTCTGGGTTGAGGTATTTTAGAATT
*
15356577 AGTGGCGCTTAAGGAT
325 AGTGGCGCTTAAGGAA
* * * ** * *
15356593 AAATGCCGCTAAAGAACACCATTAGCGGCACATTATTGAGAGCGCCGCAAAAAATCTTAACCAAA
1 AAACGCCGCTAAAGTACACCATTAGCGGCGCATTATACAAAGCGCCGGAAAAAATCTTAACCAAA
* * * * * ** * *
15356658 ACGCGTCATTTTTGGTTGAGGTATTTTAGAATTAGTGGAAC-TATAGTAAAACGCCACTAAAGTA
66 ACACATCGTTCTGGGTTGAGGTATTTTAGAATTAGTGGCGCTTA-AGTAAAACGCCGCTAAAGCA
* * * * * *
15356722 CATCATTAGCGGCGCATTATACAAAGCGCTGCGAATAAATCTTAACCAAAACACATCGTTTT
130 CACCATTAGCGGCGCATCATACAAAGCGCCGC-AAAAAATCTTAACCGAAACGCATCGTTTT
15356784 AAACCGAAAC
Statistics
Matches: 477, Mismatches: 51, Indels: 8
0.89 0.10 0.01
Matches are distributed among these distances:
340 44 0.09
341 208 0.44
342 225 0.47
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (340 bp):
AAACGCCGCTAAAGTACACCATTAGCGGCGCATTATACAAAGCGCCGGAAAAAATCTTAACCAAA
ACACATCGTTCTGGGTTGAGGTATTTTAGAATTAGTGGCGCTTAAGTAAAACGCCGCTAAAGCAC
ACCATTAGCGGCGCATCATACAAAGCGCCGCAAAAAATCTTAACCGAAACGCATCGTTTTGGGTT
GAGGTATATTAGAATTAGTGGCGCTTACGGATAAATGCCGCTAAAGCACACCACTAGCGACGCAT
TATACAAAGCGCCGCAAAAAATCATAACCAAACGCATCGTTCTGGGTTGAGGTATTTTAGAATTA
GTGGCGCTTAAGGAA
Found at i:15357473 original size:21 final size:21
Alignment explanation
Indices: 15357449--15357492 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
15357439 AAGGGTACTT
* *
15357449 GGTTTA-ATGGTTTGAGTTTAA
1 GGTTTAGA-GGTTGGAGATTAA
15357470 GGTTTAGAGGTTGGAGATTAA
1 GGTTTAGAGGTTGGAGATTAA
15357491 GG
1 GG
15357493 GATAGGGGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (21 bp):
GGTTTAGAGGTTGGAGATTAA
Found at i:15358427 original size:191 final size:191
Alignment explanation
Indices: 15358089--15358437 Score: 563
Period size: 191 Copynumber: 1.8 Consensus size: 191
15358079 GTAAATCCCT
* ** * * *
15358089 AGACCTTTCACCTTTTCAACGGCGATTTCCCCTCTTCTCGGTCGAATATCGGTTCTCGTCTGGGC
1 AGACCATTCACCCCTTCAACGACGATTTCCCCTCTTCTCGATCGAATATCGCTTCTCGTCTGGGC
* * *
15358154 TGACTGGTAAAAAACTTTCCAAATCCCTAATTTCTCCGTTGACTCCGTATATGGCTATTCATTTT
66 TGACTGGTAAAAAACTTTCCAAATCCCTAATTTATCCGTTGAATACGTATATGGCTATTCATTTT
*
15358219 TATGTTTGATTTTTTCTTTCTGTAATGCCGGCTTTGTTTTTCCTTTCTCTTTAAATTCCAG
131 TATGTTTGATTTTTTCTTTCTCTAATGCCGGCTTTGTTTTTCCTTTCTCTTTAAATTCCAG
* *
15358280 AGACCATTCACCCCTTCAACGACGATTTCCCCTCTTTTCGATCGAATATTGCTTCTCGTCTGGGC
1 AGACCATTCACCCCTTCAACGACGATTTCCCCTCTTCTCGATCGAATATCGCTTCTCGTCTGGGC
* *
15358345 TGACTGGTAAAAATCTTTCCAAATCCCTAATTTATTCGTTGAATACGTATATGGCTATTCATTTT
66 TGACTGGTAAAAAACTTTCCAAATCCCTAATTTATCCGTTGAATACGTATATGGCTATTCATTTT
*
15358410 TCTGTTTGATTTTTTCTTTCTCTAATGC
131 TATGTTTGATTTTTTCTTTCTCTAATGC
15358438 TCGCACAAAT
Statistics
Matches: 143, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
191 143 1.00
ACGTcount: A:0.19, C:0.24, G:0.14, T:0.42
Consensus pattern (191 bp):
AGACCATTCACCCCTTCAACGACGATTTCCCCTCTTCTCGATCGAATATCGCTTCTCGTCTGGGC
TGACTGGTAAAAAACTTTCCAAATCCCTAATTTATCCGTTGAATACGTATATGGCTATTCATTTT
TATGTTTGATTTTTTCTTTCTCTAATGCCGGCTTTGTTTTTCCTTTCTCTTTAAATTCCAG
Found at i:15360336 original size:13 final size:13
Alignment explanation
Indices: 15360315--15360347 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
15360305 TGTTTTAATA
*
15360315 TCTATATAAGTTT
1 TCTAAATAAGTTT
15360328 TCTAAATAAGTTT
1 TCTAAATAAGTTT
15360341 TCTAAAT
1 TCTAAAT
15360348 TTATTTGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.36, C:0.09, G:0.06, T:0.48
Consensus pattern (13 bp):
TCTAAATAAGTTT
Found at i:15360378 original size:15 final size:15
Alignment explanation
Indices: 15360343--15360381 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 15
15360333 ATAAGTTTTC
*
15360343 TAAATTTATTTGTAT
1 TAAATTTATTAGTAT
15360358 TAAAATTTATTAGTAT
1 T-AAATTTATTAGTAT
15360374 TAAATTTA
1 TAAATTTA
15360382 CTTCGTTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (15 bp):
TAAATTTATTAGTAT
Found at i:15360454 original size:9 final size:9
Alignment explanation
Indices: 15360440--15360786 Score: 270
Period size: 9 Copynumber: 37.9 Consensus size: 9
15360430 GTGTATTAAG
15360440 TTACATAAC
1 TTACATAAC
15360449 TTACATAAC
1 TTACATAAC
15360458 TTACATAAAC
1 TTACAT-AAC
* *
15360468 TTGCATAAA
1 TTACATAAC
* *
15360477 TTAAATAAT
1 TTACATAAC
15360486 TTACATAAC
1 TTACATAAC
*
15360495 TTACATAAA
1 TTACATAAC
*
15360504 TTAAATAAC
1 TTACATAAC
*
15360513 TTAAATAA-
1 TTACATAAC
*
15360521 TTGACATAAA
1 TT-ACATAAC
* * *
15360531 TTCCGTGGAC
1 TTACAT-AAC
15360541 TTACATAAC
1 TTACATAAC
15360550 TTACATAAAC
1 TTACAT-AAC
* *
15360560 TTGCATAAA
1 TTACATAAC
*
15360569 TTAAATAAC
1 TTACATAAC
15360578 TTACATAAAC
1 TTACAT-AAC
*
15360588 -TAAATAAC
1 TTACATAAC
15360596 TTACATAAC
1 TTACATAAC
*
15360605 TTACATAAA
1 TTACATAAC
*
15360614 TTAAATAAC
1 TTACATAAC
*
15360623 TTACAAAAC
1 TTACATAAC
15360632 TTACATAAAC
1 TTACAT-AAC
*
15360642 TTACATAAA
1 TTACATAAC
*
15360651 TTAAATAAC
1 TTACATAAC
*
15360660 TTAAATAA-
1 TTACATAAC
*
15360668 TTGACATAAA
1 TT-ACATAAC
* * *
15360678 TTCCGTGGAC
1 TTACAT-AAC
15360688 TTACATAAC
1 TTACATAAC
15360697 TTACATAAAC
1 TTACAT-AAC
* *
15360707 TTGCATAAA
1 TTACATAAC
*
15360716 TTAAATAAC
1 TTACATAAC
15360725 TTACATAAAC
1 TTACAT-AAC
*
15360735 -TAAATAAC
1 TTACATAAC
* *
15360743 CTACATATC
1 TTACATAAC
*
15360752 TTACATAAA
1 TTACATAAC
*
15360761 TTAAATAAC
1 TTACATAAC
*
15360770 TTACATAGC
1 TTACATAAC
15360779 TTACATAA
1 TTACATAA
15360787 TACATAAAAA
Statistics
Matches: 264, Mismatches: 60, Indels: 28
0.75 0.17 0.08
Matches are distributed among these distances:
8 10 0.04
9 201 0.76
10 53 0.20
ACGTcount: A:0.48, C:0.16, G:0.03, T:0.32
Consensus pattern (9 bp):
TTACATAAC
Found at i:15360560 original size:92 final size:89
Alignment explanation
Indices: 15360444--15360735 Score: 287
Period size: 92 Copynumber: 3.3 Consensus size: 89
15360434 ATTAAGTTAC
15360444 ATAACTTACATAACTTACATAAACTTGCATAAATTAAATAATTTACATAACTTACATAAATTAAA
1 ATAACTTACATAACTTACATAAACTTGCATAAATTAAATAA-TTA-ATAACTTACATAAATTAAA
**
15360509 TAACTTAAATAA-TTGACATAAATTCC
64 TAACTTAAATAACTT-ACATAAATTAA
* * *
15360535 GTGGACTTACATAACTTACATAAACTTGCATAAA-T---T-A--AATAACTTACATAAACTAAAT
1 AT-AACTTACATAACTTACATAAACTTGCATAAATTAAATAATTAATAACTTACATAAATTAAAT
*
15360593 AACTTACATAACTTACATAAATTAA
65 AACTTAAATAACTTACATAAATTAA
* * **
15360618 ATAACTTACAAAACTTACATAAACTTACATAAATTAAATAACTTAAATAA-TTGACATAAATTCC
1 ATAACTTACATAACTTACATAAACTTGCATAAATTAAATAA-TT-AATAACTT-ACATAAATTAA
* * * **
15360682 GTGGACTTACATAACTTACATAAACTTGC
63 AT-AACTTAAATAACTTACATAAA-TTAA
* *
15360711 ATAAATTAAATAACTTACATAAACT
1 ATAACTTACATAACTTACATAAACT
15360736 AAATAACCTA
Statistics
Matches: 167, Mismatches: 20, Indels: 26
0.78 0.09 0.12
Matches are distributed among these distances:
82 28 0.17
83 40 0.24
84 3 0.02
86 1 0.01
87 2 0.01
88 1 0.01
90 2 0.01
91 16 0.10
92 50 0.30
93 24 0.14
ACGTcount: A:0.49, C:0.15, G:0.04, T:0.32
Consensus pattern (89 bp):
ATAACTTACATAACTTACATAAACTTGCATAAATTAAATAATTAATAACTTACATAAATTAAATA
ACTTAAATAACTTACATAAATTAA
Found at i:15360643 original size:147 final size:147
Alignment explanation
Indices: 15360444--15360786 Score: 582
Period size: 147 Copynumber: 2.3 Consensus size: 147
15360434 ATTAAGTTAC
** * *
15360444 ATAACTTACATAACTTACATAAACTTGCATAAATTA-AATAATTTACAT-AACTTACATAAATTA
1 ATAACTTACATAACTTACATAAA-TTAAATAACTTACAA-AACTTACATAAACTTACATAAATTA
15360507 AATAACTTAAATAATTGACATAAATTCCGTGGACTTACATAACTTACATAAACTTGCATAAATTA
64 AATAACTTAAATAATTGACATAAATTCCGTGGACTTACATAACTTACATAAACTTGCATAAATTA
15360572 AATAACTTACATAAACTAA
129 AATAACTTACATAAACTAA
15360591 ATAACTTACATAACTTACATAAATTAAATAACTTACAAAACTTACATAAACTTACATAAATTAAA
1 ATAACTTACATAACTTACATAAATTAAATAACTTACAAAACTTACATAAACTTACATAAATTAAA
15360656 TAACTTAAATAATTGACATAAATTCCGTGGACTTACATAACTTACATAAACTTGCATAAATTAAA
66 TAACTTAAATAATTGACATAAATTCCGTGGACTTACATAACTTACATAAACTTGCATAAATTAAA
15360721 TAACTTACATAAACTAA
131 TAACTTACATAAACTAA
* * * *
15360738 ATAACCTACATATCTTACATAAATTAAATAACTTACATAGCTTACATAA
1 ATAACTTACATAACTTACATAAATTAAATAACTTACAAAACTTACATAA
15360787 TACATAAAAA
Statistics
Matches: 186, Mismatches: 8, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
146 17 0.09
147 169 0.91
ACGTcount: A:0.49, C:0.16, G:0.03, T:0.32
Consensus pattern (147 bp):
ATAACTTACATAACTTACATAAATTAAATAACTTACAAAACTTACATAAACTTACATAAATTAAA
TAACTTAAATAATTGACATAAATTCCGTGGACTTACATAACTTACATAAACTTGCATAAATTAAA
TAACTTACATAAACTAA
Found at i:15363485 original size:21 final size:21
Alignment explanation
Indices: 15363459--15363529 Score: 97
Period size: 21 Copynumber: 3.4 Consensus size: 21
15363449 CTACAACTTA
* *
15363459 AAGCAGAGGCGGAAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
*
15363480 AAGCAGCGGCTGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* *
15363501 AAGCGGAGGCTGCAGCGAGAG
1 AAGCAGAGGCTGCAGCGAGGG
15363522 AAGCAGAG
1 AAGCAGAG
15363530 CAGAGCAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.31, C:0.18, G:0.48, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGGG
Found at i:15363933 original size:42 final size:42
Alignment explanation
Indices: 15363852--15364021 Score: 252
Period size: 42 Copynumber: 4.0 Consensus size: 42
15363842 GTATAAAAGT
15363852 GCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAAAAAAGAC
1 GCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAAAAAA-AC
* * *
15363895 TCCGCTAAAGACCATGTTCTTTAGCGACGCTTA-AAAAAAAC
1 GCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAAAAAAAC
*
15363936 GCCGCTAAAGAACATGTTCTTTAGAGGCGCTTAGAAAAAAAC
1 GCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAAAAAAAC
* * * *
15363978 GCCGCTAAAGAACATGTTCTTTAGAGGCACGTAGGAAAAAAC
1 GCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAAAAAAAC
15364020 GC
1 GC
15364022 TGCAAACGTT
Statistics
Matches: 116, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
41 31 0.27
42 55 0.47
43 30 0.26
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.21
Consensus pattern (42 bp):
GCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAAAAAAAC
Found at i:15365147 original size:14 final size:15
Alignment explanation
Indices: 15365119--15365163 Score: 53
Period size: 14 Copynumber: 3.2 Consensus size: 15
15365109 ATACATATTC
15365119 TTTTCTCT-C-TCTG
1 TTTTCTCTGCTTCTG
15365132 TTTTC-CTGCTTCTG
1 TTTTCTCTGCTTCTG
15365146 -TTTCTCTGCTTCTTG
1 TTTTCTCTGCTTC-TG
15365161 TTT
1 TTT
15365164 ATGTTTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
12 2 0.07
13 10 0.37
14 11 0.41
15 2 0.07
16 2 0.07
ACGTcount: A:0.00, C:0.27, G:0.11, T:0.62
Consensus pattern (15 bp):
TTTTCTCTGCTTCTG
Found at i:15375239 original size:65 final size:65
Alignment explanation
Indices: 15375132--15375264 Score: 151
Period size: 65 Copynumber: 2.0 Consensus size: 65
15375122 ATTTTTCTTA
* * * * *
15375132 CTTCTTGGTTTTTCGCCACTATCACCACTGTTACTTCTCTGCCTTTTGCTGCTTTTTGCTTATTG
1 CTTCTTGGTTTTTCGCCACTATCACCACTGCTACTTCCCTGCCTTCTACTGCTTTTCGCTTATTG
* * * * * *
15375197 CTTCTT-GTTTCTTCGCCATTGTCCCCACTGCTGCTTCCCTGCCTTCTACTGGTTTTCGCTTCTT
1 CTTCTTGGTTT-TTCGCCACTATCACCACTGCTACTTCCCTGCCTTCTACTGCTTTTCGCTTATT
15375261 G
65 G
15375262 CTT
1 CTT
15375265 ATTCACCAGT
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
64 4 0.07
65 52 0.93
ACGTcount: A:0.07, C:0.32, G:0.14, T:0.47
Consensus pattern (65 bp):
CTTCTTGGTTTTTCGCCACTATCACCACTGCTACTTCCCTGCCTTCTACTGCTTTTCGCTTATTG
Done.