Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold281
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: 622278
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
File 3 of 4
Found at i:309396 original size:13 final size:13
Alignment explanation
Indices: 309378--309402 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
309368 CAAAGATCAG
309378 TGTATCGATACAA
1 TGTATCGATACAA
309391 TGTATCGATACA
1 TGTATCGATACA
309403 TTTAAGTGAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:309480 original size:33 final size:33
Alignment explanation
Indices: 309443--309509 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
309433 AGTAGCTTAA
309443 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
309476 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
309509 A
1 A
309510 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:309483 original size:13 final size:13
Alignment explanation
Indices: 309465--309489 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
309455 CAAAAAAATA
309465 TGTATCGATACAT
1 TGTATCGATACAT
309478 TGTATCGATACA
1 TGTATCGATACA
309490 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:311684 original size:13 final size:13
Alignment explanation
Indices: 311666--311691 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
311656 TACACCAAGT
311666 ATGTATCGATACA
1 ATGTATCGATACA
311679 ATGTATCGATACA
1 ATGTATCGATACA
311692 CAAAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:311689 original size:32 final size:33
Alignment explanation
Indices: 311648--311711 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
311638 TAGCCAAACT
* **
311648 TGTATCGATACAC-CAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAAAATGTATCGATACAA
311680 TGTATCGATACACAAAAAAATGTATCGATACA
1 TGTATCGATACACAAAAAAATGTATCGATACA
311712 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 13 0.46
33 15 0.54
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.27
Consensus pattern (33 bp):
TGTATCGATACACAAAAAAATGTATCGATACAA
Found at i:315787 original size:15 final size:15
Alignment explanation
Indices: 315767--315797 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
315757 TAAAAATGTC
*
315767 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
315782 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
315797 C
1 C
315798 CAAACGAAAT
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:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:317898 original size:13 final size:13
Alignment explanation
Indices: 317880--317917 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
317870 CATTTTTCTT
317880 TGTATCGATACAA
1 TGTATCGATACAA
*
317893 TGTATCGATACAC
1 TGTATCGATACAA
317906 TGTATCGATACA
1 TGTATCGATACA
317918 GGGGGATTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:320505 original size:13 final size:13
Alignment explanation
Indices: 320487--320512 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
320477 TACACCAAGT
320487 ATGTATCGATACA
1 ATGTATCGATACA
320500 ATGTATCGATACA
1 ATGTATCGATACA
320513 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:320510 original size:32 final size:33
Alignment explanation
Indices: 320469--320532 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
320459 TAGCCAAACT
* **
320469 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
320501 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
320533 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:322712 original size:20 final size:20
Alignment explanation
Indices: 322686--322777 Score: 75
Period size: 20 Copynumber: 4.8 Consensus size: 20
322676 TTTTACCCAG
*
322686 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTATCA
* * *
322706 CTGTATCGATACATGTATGA
1 ATGTATCGATACATTTATCA
*
322726 ATGTATCGATACA--T-TGA
1 ATGTATCGATACATTTATCA
* *
322743 ACGTATCAATACATTGT-TCA
1 ATGTATCGATACATT-TATCA
*
322763 ATGTATTGATACATT
1 ATGTATCGATACATT
322778 CTGTCTTTTT
Statistics
Matches: 58, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
17 14 0.24
18 1 0.02
20 43 0.74
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATTTATCA
Found at i:322717 original size:51 final size:51
Alignment explanation
Indices: 322635--322827 Score: 152
Period size: 51 Copynumber: 3.7 Consensus size: 51
322625 ACATGTATGA
* * * * *
322635 ATGTATCGATATACTATTCAATATATTGATACATTCTATCTTTTTACCCAG
1 ATGTATCGATACATTTTTCAATGTATCGATACATTCTATCTTTTTACCCAG
* * * ** ***
322686 ATGTATCGATACATTTTTCACTGTATCGATACATGTATGAATGTATCGATACATTG
1 ATGTATCGATACATTTTTCAATGTATCGATACAT-TCT--ATCT-T-TTTACCCAG
* * * * * *
322742 AACGTATCAATACATTGTTCAATGTATTGATACATTCTGTCTTTTTTCCCAG
1 -ATGTATCGATACATTTTTCAATGTATCGATACATTCTATCTTTTTACCCAG
*
322794 ATGTATCGATGCATTTTTCAATGTATCGATACAT
1 ATGTATCGATACATTTTTCAATGTATCGATACAT
322828 CTAGTTAAAA
Statistics
Matches: 104, Mismatches: 32, Indels: 12
0.70 0.22 0.08
Matches are distributed among these distances:
51 57 0.55
52 5 0.05
53 1 0.01
54 5 0.05
55 1 0.01
56 6 0.06
57 29 0.28
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (51 bp):
ATGTATCGATACATTTTTCAATGTATCGATACATTCTATCTTTTTACCCAG
Found at i:322737 original size:71 final size:71
Alignment explanation
Indices: 322604--322740 Score: 177
Period size: 71 Copynumber: 1.9 Consensus size: 71
322594 TATAGTCACA
* * *
322604 TTTTTACCCAGATGTATCGATACATGTATGAATGTATCGATATACTATTCAATATATTGATACAT
1 TTTTTACCCAGATGTATCGATACATGTATCAATGTATCGATACACTATTCAATATATCGATACAT
322669 TCTATC
66 TCTATC
* * * * * *
322675 TTTTTACCCAGATGTATCGATACATTTTTCACTGTATCGATACA-TGTATGAATGTATCGATACA
1 TTTTTACCCAGATGTATCGATACATGTATCAATGTATCGATACACTAT-TCAATATATCGATACA
322739 TT
65 TT
322741 GAACGTATCA
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
70 2 0.04
71 54 0.96
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.41
Consensus pattern (71 bp):
TTTTTACCCAGATGTATCGATACATGTATCAATGTATCGATACACTATTCAATATATCGATACAT
TCTATC
Found at i:322748 original size:17 final size:17
Alignment explanation
Indices: 322708--322758 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 17
322698 ATTTTTCACT
*
322708 GTATCGATACATGTATGAAT
1 GTATCGATACA--T-TGAAC
322728 GTATCGATACATTGAAC
1 GTATCGATACATTGAAC
*
322745 GTATCAATACATTG
1 GTATCGATACATTG
322759 TTCAATGTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 17 0.59
18 1 0.03
20 11 0.38
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (17 bp):
GTATCGATACATTGAAC
Found at i:322826 original size:108 final size:110
Alignment explanation
Indices: 322615--322827 Score: 313
Period size: 108 Copynumber: 1.9 Consensus size: 110
322605 TTTTACCCAG
* * *
322615 ATGTATCGATACATGTATGAATGTATCGATATACTATTCAATATATTGATACATTCTATCTTTTT
1 ATGTATCGATACA-GTATGAACGTATCAATACACTATTCAATATATTGATACATTCTATCTTTTT
*
322680 ACCCAGATGTATCGATACATTTTTCACTGTATCGATACATGTATGA
65 ACCCAGATGTATCGATACATTTTTCAATGTATCGATACATGTATGA
* * * * *
322726 ATGTATCGATACA-T-TGAACGTATCAATACATTGTTCAATGTATTGATACATTCTGTCTTTTTT
1 ATGTATCGATACAGTATGAACGTATCAATACACTATTCAATATATTGATACATTCTATCTTTTTA
*
322789 CCCAGATGTATCGATGCATTTTTCAATGTATCGATACAT
66 CCCAGATGTATCGATACATTTTTCAATGTATCGATACAT
322828 CTAGTTAAAA
Statistics
Matches: 92, Mismatches: 10, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
108 78 0.85
109 1 0.01
111 13 0.14
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.41
Consensus pattern (110 bp):
ATGTATCGATACAGTATGAACGTATCAATACACTATTCAATATATTGATACATTCTATCTTTTTA
CCCAGATGTATCGATACATTTTTCAATGTATCGATACATGTATGA
Found at i:331470 original size:79 final size:78
Alignment explanation
Indices: 331349--331553 Score: 277
Period size: 79 Copynumber: 2.6 Consensus size: 78
331339 CATCTCCCGA
* *
331349 CGAGAAATTTAATATTTT-GGAGATAATAACGGGGTTGAAGTATCCCCTCAAAAATAACGGGGTT
1 CGAGAAA-TTAATATTTTAGGA-ATAA-AGCGGGGTTGGAGTATCCCCTCAAAAATAACGGGGTT
331413 GGAATATCCCCGATTG
63 GGAATATCCCCGATTG
**
331429 CGAGAAATTAATATTTTAGGAATAAAGCTGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGG
1 CGAGAAATTAATATTTTAGGAATAAAGC-GGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGG
*
331494 AGTATCCCCGATTG
65 AATATCCCCGATTG
* * * *
331508 TGAGAAGTCAATATTTTAGGAATAAAGCCGGGGTTAGAGTATCCCC
1 CGAGAAATTAATATTTTAGGAATAAAG-CGGGGTTGGAGTATCCCC
331554 GATTGTGAAA
Statistics
Matches: 113, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
78 2 0.02
79 100 0.88
80 11 0.10
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (78 bp):
CGAGAAATTAATATTTTAGGAATAAAGCGGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGA
ATATCCCCGATTG
Found at i:331553 original size:51 final size:51
Alignment explanation
Indices: 331485--331606 Score: 145
Period size: 51 Copynumber: 2.4 Consensus size: 51
331475 TCGGAAATAA
* * * * * *
331485 CGGGGTTGGAGTATCCCCGATTGTGAGAAGTCAATATTTTAGGAATAAAGC
1 CGGGGTTAGAGTATCCCCGATTGTGAAAAATCAACATTTTAGAAATAAAAC
* * *
331536 CGGGGTTAGAGTATCCCCGATTGTGAAAAATTAACGTTTTAGAAATAAAAT
1 CGGGGTTAGAGTATCCCCGATTGTGAAAAATCAACATTTTAGAAATAAAAC
* *
331587 TGGGGTTTGAGTATCCCCGA
1 CGGGGTTAGAGTATCCCCGA
331607 GATGAAAAAT
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (51 bp):
CGGGGTTAGAGTATCCCCGATTGTGAAAAATCAACATTTTAGAAATAAAAC
Found at i:333994 original size:13 final size:13
Alignment explanation
Indices: 333976--334001 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
333966 ACAAAGATCG
333976 ATGTATCGATACA
1 ATGTATCGATACA
333989 ATGTATCGATACA
1 ATGTATCGATACA
334002 TTCTACAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:334098 original size:21 final size:21
Alignment explanation
Indices: 334056--334115 Score: 79
Period size: 21 Copynumber: 2.9 Consensus size: 21
334046 CGATACACTA
*
334056 TATCGATACA-TTACT-TATG
1 TATCGATACATTTACTGAATG
334075 TATCGATACATTTACTGAATG
1 TATCGATACATTTACTGAATG
*
334096 TATCGATACATATTATTGAA
1 TATCGATACAT-TTACTGAA
334116 ATTCAAAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
19 10 0.28
20 5 0.14
21 14 0.39
22 7 0.19
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (21 bp):
TATCGATACATTTACTGAATG
Found at i:337128 original size:21 final size:21
Alignment explanation
Indices: 337102--337157 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
337092 AAAAATTCCA
337102 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
* *
337123 AATGTATTGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
*
337144 AATGCATCGATACA
1 AATGTATCGATACA
337158 GGGTCCCAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.34, C:0.11, G:0.20, T:0.36
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:337217 original size:19 final size:19
Alignment explanation
Indices: 337193--337260 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
337183 AATTCAACAA
337193 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
337212 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
337227 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
337244 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
337261 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:337232 original size:13 final size:13
Alignment explanation
Indices: 337214--337238 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
337204 ACATAAGTTT
337214 TGTATCGATACAA
1 TGTATCGATACAA
337227 TGTATCGATACA
1 TGTATCGATACA
337239 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:337236 original size:32 final size:32
Alignment explanation
Indices: 337195--337257 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
337185 TTCAACAATT
*
337195 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
337227 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
337258 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:337342 original size:33 final size:33
Alignment explanation
Indices: 337280--337342 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
337270 GCCAAGGAAA
* *
337280 TGTATCGATACATTTTTCTGTGTACCGATATAT
1 TGTATCGATACATGTATCTGTGTACCGATATAT
* *
337313 TGTATCGATACATGTATCTTTGTATCGATA
1 TGTATCGATACATGTATCTGTGTACCGATA
337343 CATTTGGAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.25, C:0.14, G:0.16, T:0.44
Consensus pattern (33 bp):
TGTATCGATACATGTATCTGTGTACCGATATAT
Found at i:340086 original size:202 final size:202
Alignment explanation
Indices: 339717--340086 Score: 546
Period size: 202 Copynumber: 1.8 Consensus size: 202
339707 GGGGATATTC
* * *
339717 CAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGATACTCCAACTCCGATTTTA
1 CAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGATACTCCAACACCGATTTTA
* *
339782 TTTCCAAAAAACACCAATTTCTTCACAATCGGGGACACTCCAACCCCGTTAATCATTAAGGATAC
66 TTTCCAAAAAACACCAATTTCTTCACAATCGAGGACACTCCAACCCCATTAATCATTAAGGATAC
* * * *
339847 TCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATTTCCAAAATATTGATTTTCC
131 TCCAACCCCGTTACTTCCGAGGGAACACTCAAACCCCGACTTTATTTCCAAAATATTGATTTTCC
339912 ATAATCT
196 ATAATCT
* *
339919 CAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACTCCAACACCGATTTT
1 CAACCCCGATTTTATTTTCAAAACACCAATTTT-CTATAATCGGGGATACTCCAACACCGATTTT
* * * * **
339984 ATTTCC-AAAAATACCAATTT-TTCACAATTGAGGATACTCCAACCTCATTAATTCATTGGGGAT
65 ATTTCCAAAAAACACCAATTTCTTCACAATCGAGGACACTCCAACCCCATTAA-TCATTAAGGAT
*
340047 ACTCCAACTCCGTTACTTCCGAGGGAACACTCAAACCCCG
129 ACTCCAACCCCGTTACTTCCGAGGGAACACTCAAACCCCG
340087 TTATTATCTC
Statistics
Matches: 148, Mismatches: 18, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
201 26 0.18
202 87 0.59
203 35 0.24
ACGTcount: A:0.31, C:0.28, G:0.11, T:0.31
Consensus pattern (202 bp):
CAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGATACTCCAACACCGATTTTA
TTTCCAAAAAACACCAATTTCTTCACAATCGAGGACACTCCAACCCCATTAATCATTAAGGATAC
TCCAACCCCGTTACTTCCGAGGGAACACTCAAACCCCGACTTTATTTCCAAAATATTGATTTTCC
ATAATCT
Found at i:342560 original size:20 final size:20
Alignment explanation
Indices: 342537--342609 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
342527 ACAATTCAAA
342537 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
342557 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
342578 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
342598 GTATCGATACAT
1 GTATCGATACAT
342610 AAAAAGGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:342581 original size:21 final size:21
Alignment explanation
Indices: 342555--342630 Score: 93
Period size: 21 Copynumber: 3.7 Consensus size: 21
342545 ACATGTTGCA
342555 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
342576 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
342596 ATGTATCGATACAT-AAAAAGG
1 ATGTATCGATACATGAAAAA-G
342617 ATGTATCGATACAT
1 ATGTATCGATACAT
342631 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
19 1 0.02
20 14 0.31
21 30 0.67
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:342588 original size:41 final size:41
Alignment explanation
Indices: 342537--342630 Score: 172
Period size: 41 Copynumber: 2.3 Consensus size: 41
342527 ACAATTCAAA
342537 GTATCGATACATGTTGCAATGTATCGATACATGAAAAA-GAT
1 GTATCGATACATGTTGCAATGTATCGATACAT-AAAAAGGAT
342578 GTATCGATACATGTTGCAATGTATCGATACATAAAAAGGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAGGAT
342619 GTATCGATACAT
1 GTATCGATACAT
342631 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
40 5 0.10
41 47 0.90
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAGGAT
Found at i:342687 original size:13 final size:13
Alignment explanation
Indices: 342669--342694 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
342659 TACAGCAAGT
342669 ATGTATCGATACA
1 ATGTATCGATACA
342682 ATGTATCGATACA
1 ATGTATCGATACA
342695 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:346776 original size:15 final size:15
Alignment explanation
Indices: 346756--346786 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
346746 TAAAAATGTC
*
346756 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
346771 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
346786 C
1 C
346787 CAAACGAAAT
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:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:348880 original size:20 final size:21
Alignment explanation
Indices: 348801--348879 Score: 72
Period size: 20 Copynumber: 3.7 Consensus size: 21
348791 AATGTCCAAA
*
348801 ATGTATCGATACATGTTTT-T
1 ATGTATCGATACATCTTTTCT
* *
348821 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACATCT----TTTCT
348846 ATGTATCGATACAT-TTTTCT
1 ATGTATCGATACATCTTTTCT
*
348866 TTGTATCGATACAT
1 ATGTATCGATACAT
348880 TGTATCGATA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
20 31 0.65
24 3 0.06
25 14 0.29
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.44
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTCT
Found at i:348884 original size:13 final size:13
Alignment explanation
Indices: 348866--348904 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
348856 ACATTTTTCT
348866 TTGTATCGATACA
1 TTGTATCGATACA
348879 TTGTATCGATACA
1 TTGTATCGATACA
*
348892 CTGTATCGATACA
1 TTGTATCGATACA
348905 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:351385 original size:20 final size:20
Alignment explanation
Indices: 351362--351434 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
351352 ACAATTCAAA
351362 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
351382 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
351403 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
351423 GTATCGATACAT
1 GTATCGATACAT
351435 AAAAAGGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:351406 original size:21 final size:21
Alignment explanation
Indices: 351380--351455 Score: 93
Period size: 21 Copynumber: 3.7 Consensus size: 21
351370 ACATGTTGCA
351380 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
351401 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
351421 ATGTATCGATACAT-AAAAAGG
1 ATGTATCGATACATGAAAAA-G
351442 ATGTATCGATACAT
1 ATGTATCGATACAT
351456 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
19 1 0.02
20 14 0.31
21 30 0.67
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:351413 original size:41 final size:41
Alignment explanation
Indices: 351362--351455 Score: 172
Period size: 41 Copynumber: 2.3 Consensus size: 41
351352 ACAATTCAAA
351362 GTATCGATACATGTTGCAATGTATCGATACATGAAAAA-GAT
1 GTATCGATACATGTTGCAATGTATCGATACAT-AAAAAGGAT
351403 GTATCGATACATGTTGCAATGTATCGATACATAAAAAGGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAGGAT
351444 GTATCGATACAT
1 GTATCGATACAT
351456 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
40 5 0.10
41 47 0.90
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAGGAT
Found at i:351512 original size:13 final size:13
Alignment explanation
Indices: 351494--351519 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
351484 TACAGCAAGT
351494 ATGTATCGATACA
1 ATGTATCGATACA
351507 ATGTATCGATACA
1 ATGTATCGATACA
351520 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:354187 original size:11 final size:11
Alignment explanation
Indices: 354171--354236 Score: 73
Period size: 11 Copynumber: 6.0 Consensus size: 11
354161 TGTCCTTCGT
354171 ACAAAAAAAAA
1 ACAAAAAAAAA
354182 AC--AAAAAAA
1 ACAAAAAAAAA
* *
354191 CCAAGAAAAAA
1 ACAAAAAAAAA
354202 ACAAAAAAAAAA
1 AC-AAAAAAAAA
*
354214 ACAAAAAACAA
1 ACAAAAAAAAA
354225 ACAAACAAAAAA
1 ACAAA-AAAAAA
354237 GGGGTCCAGA
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
9 8 0.18
11 22 0.49
12 15 0.33
ACGTcount: A:0.85, C:0.14, G:0.02, T:0.00
Consensus pattern (11 bp):
ACAAAAAAAAA
Found at i:354190 original size:12 final size:12
Alignment explanation
Indices: 354173--354236 Score: 69
Period size: 12 Copynumber: 5.4 Consensus size: 12
354163 TCCTTCGTAC
*
354173 AAAAAAA-AAAC
1 AAAAAAACAAAA
* *
354184 AAAAAAACCAAG
1 AAAAAAACAAAA
354196 AAAAAAACAAAA
1 AAAAAAACAAAA
354208 AAAAAAAC-AAA
1 AAAAAAACAAAA
*
354219 AAACAAACAAACA
1 AAAAAAACAAA-A
354232 AAAAA
1 AAAAA
354237 GGGGTCCAGA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
11 17 0.39
12 22 0.50
13 5 0.11
ACGTcount: A:0.86, C:0.12, G:0.02, T:0.00
Consensus pattern (12 bp):
AAAAAAACAAAA
Found at i:354199 original size:23 final size:23
Alignment explanation
Indices: 354173--354236 Score: 87
Period size: 23 Copynumber: 2.8 Consensus size: 23
354163 TCCTTCGTAC
*
354173 AAAAAAA-AAACAAAAAAACCAA
1 AAAAAAACAAACAAAAAAAACAA
354195 GAAAAAAACAAA-AAAAAAAACAA
1 -AAAAAAACAAACAAAAAAAACAA
354218 AAAACAAACAAACAAAAAA
1 AAAA-AAACAAACAAAAAA
354237 GGGGTCCAGA
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
22 4 0.11
23 24 0.65
24 9 0.24
ACGTcount: A:0.86, C:0.12, G:0.02, T:0.00
Consensus pattern (23 bp):
AAAAAAACAAACAAAAAAAACAA
Found at i:355516 original size:28 final size:28
Alignment explanation
Indices: 355485--355793 Score: 422
Period size: 28 Copynumber: 10.8 Consensus size: 28
355475 CATTTATCTC
* * *
355485 TTCAAAGCCCGCAAGTCAGTGGCATCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
355513 TTCAAAGCCCACAAGTCAGTGGCACCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
355541 TTCAAAGCCCACACAAATCAGTGGCACCCT
1 TTCAAAG-CC-CACAAGTCAGTGGCACCCT
* *
355571 TCCAAAGCCCATAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
355599 TTCAAAGCCCACAAGTTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
355627 TTCAAAGCCCACAAGTCAGTGGCA-CCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
355654 TTCCAAAGCCCACAAGTCAGTGGCACCCT
1 TT-CAAAGCCCACAAGTCAGTGGCACCCT
*
355683 TTCAAAGCTCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * * *
355711 TTCATAGCCCACAATTCAGTGGTACCCC
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
355739 TTCAAAGCCCACAAGTTAGTGGCATTCCCT
1 TTCAAAGCCCACAAGTCAGTGGCA--CCCT
355769 TTCAAAGCCCACACAAGTCAGTGGC
1 TTCAAAG-CC-CACAAGTCAGTGGC
355794 TTCAAAGCCC
Statistics
Matches: 250, Mismatches: 23, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.02
28 188 0.75
29 9 0.04
30 33 0.13
31 2 0.01
32 13 0.05
ACGTcount: A:0.28, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCACCCT
Found at i:355803 original size:25 final size:25
Alignment explanation
Indices: 355769--355818 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
355759 GGCATTCCCT
355769 TTCAAAGCCCACACAAGTCAGTGGC
1 TTCAAAGCCCACACAAGTCAGTGGC
* *
355794 TTCAAAGCCCACATAAGTTAGTGGC
1 TTCAAAGCCCACACAAGTCAGTGGC
355819 ACCTTGTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.32, C:0.28, G:0.20, T:0.20
Consensus pattern (25 bp):
TTCAAAGCCCACACAAGTCAGTGGC
Found at i:355835 original size:58 final size:55
Alignment explanation
Indices: 355513--355845 Score: 158
Period size: 56 Copynumber: 5.9 Consensus size: 55
355503 GTGGCATCTT
* * * *
355513 TTCAAAGCCCACAAGTCAGTGGCA--CCTTTTCAAAGCCCACACAAATCAGTGGCACCC
1 TTCAAAGCCCACAAGTTAGTGGCATTCCCTTTAAAAGCCCACACAAGTCAGTGG----C
* * * *
355570 TTCCAAAGCCCATAAGTCAGTGGCA--CCCTTTCAAAG-CC-CACAAGTTAGTGGCACCC
1 TT-CAAAGCCCACAAGTTAGTGGCATTCCCTTTAAAAGCCCACACAAGTCAGTGG----C
* *
355626 TTTCAAAGCCCACAAGTCAGTGGCA---CCTTTCCAAAG-CC-CACAAGTCAGTGGCACCC
1 -TTCAAAGCCCACAAGTTAGTGGCATTCCCTTT-AAAAGCCCACACAAGTCAGTGG----C
* * * * *
355682 TTTCAAAGCTCACAAGTCAGTGGCA--CCCTTTCATAG-CC-CACAATTCAGTGGTACCCC
1 -TTCAAAGCCCACAAGTTAGTGGCATTCCCTTTAAAAGCCCACACAAGTCAGTGG-----C
*
355739 TTCAAAGCCCACAAGTTAGTGGCATTCCCTTTCAAAGCCCACACAAGTCAGTGGC
1 TTCAAAGCCCACAAGTTAGTGGCATTCCCTTTAAAAGCCCACACAAGTCAGTGGC
** *
355794 TTCAAAGCCCACATAAGTTAGTGGCACCTT-GTTTTAAAAGCCCACGCAAGTC
1 TTCAAAGCCCAC--AAGTTAGTGGCA--TTCCCTTTAAAAGCCCACACAAGTC
355846 GATGGTAACC
Statistics
Matches: 244, Mismatches: 19, Indels: 25
0.85 0.07 0.09
Matches are distributed among these distances:
55 18 0.07
56 125 0.51
57 26 0.11
58 59 0.24
59 4 0.02
60 12 0.05
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (55 bp):
TTCAAAGCCCACAAGTTAGTGGCATTCCCTTTAAAAGCCCACACAAGTCAGTGGC
Found at i:355991 original size:48 final size:48
Alignment explanation
Indices: 355929--356060 Score: 183
Period size: 48 Copynumber: 2.8 Consensus size: 48
355919 GGCACCTTTA
* *
355929 TTAGCTCAATGTCGCCGGCCTTGAATCAGCATATTGTCCACTTTTCCC
1 TTAGCTCAATGTCGCTGGCCTTGAATCAGCACATTGTCCACTTTTCCC
* ** *
355977 TTAGCTCAATGTCGCTGGCCTTGAATCAGCACATTATTTATTTTTCCC
1 TTAGCTCAATGTCGCTGGCCTTGAATCAGCACATTGTCCACTTTTCCC
* * *
356025 TTAGCTCGATGTCGTTGGCCTTGAATTAGCACATTG
1 TTAGCTCAATGTCGCTGGCCTTGAATCAGCACATTG
356061 GCACTCCTCT
Statistics
Matches: 74, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 74 1.00
ACGTcount: A:0.20, C:0.26, G:0.18, T:0.36
Consensus pattern (48 bp):
TTAGCTCAATGTCGCTGGCCTTGAATCAGCACATTGTCCACTTTTCCC
Found at i:356794 original size:20 final size:20
Alignment explanation
Indices: 356755--357074 Score: 147
Period size: 20 Copynumber: 14.2 Consensus size: 20
356745 TGGAAAAGTC
356755 ACATTTTTACCAAGTGTATCGAT
1 ACATTTTT--CAA-TGTATCGAT
356778 ACATTTTTCAATGTATCGAT
1 ACATTTTTCAATGTATCGAT
* * *
356798 ACATGTATGAATGTATCGAT
1 ACATTTTTCAATGTATCGAT
*
356818 ACATTCTGTCTTTTTACCCAGATATATCGAT
1 ACA-------TTTTT---CA-ATGTATCGAT
*
356849 ACATTCTTT-AATGTTTCGAT
1 ACATT-TTTCAATGTATCGAT
* *
356869 ACATTTATGAATGTATCGAT
1 ACATTTTTCAATGTATCGAT
* **
356889 ACATTTCTGGATGTATCGAT
1 ACATTTTTCAATGTATCGAT
* **
356909 ACATTTATGGATGTATCGAT
1 ACATTTTTCAATGTATCGAT
356929 ACATTCTATCTTTTTACCCAGATGTATCGAT
1 --A--C-A--TTTTT---CA-ATGTATCGAT
356960 ACATTTTTCAATGTATCGAT
1 ACATTTTTCAATGTATCGAT
* * *
356980 ACATGTATGAATGTATCGAT
1 ACATTTTTCAATGTATCGAT
*
357000 ACATTCTTCAATGTATCGAT
1 ACATTTTTCAATGTATCGAT
357020 ACATTCTGTCTTTTTTCCCAGATGTATCGAT
1 ACA--------TTTTT--CA-ATGTATCGAT
357051 ACATTTTTCAATGTATCGAT
1 ACATTTTTCAATGTATCGAT
357071 ACAT
1 ACAT
357075 CTAGTTAAAA
Statistics
Matches: 237, Mismatches: 25, Indels: 73
0.71 0.07 0.22
Matches are distributed among these distances:
19 2 0.01
20 149 0.63
21 8 0.03
22 1 0.00
23 13 0.05
24 8 0.03
25 4 0.02
26 1 0.00
27 8 0.03
28 4 0.02
29 1 0.00
30 3 0.01
31 35 0.15
ACGTcount: A:0.29, C:0.17, G:0.13, T:0.42
Consensus pattern (20 bp):
ACATTTTTCAATGTATCGAT
Found at i:356878 original size:71 final size:70
Alignment explanation
Indices: 356758--356893 Score: 211
Period size: 71 Copynumber: 1.9 Consensus size: 70
356748 AAAAGTCACA
*
356758 TTTTTACCAAGTGTATCGATACATTTTTCAATGTATCGATACATGTATGAATGTATCGATACATT
1 TTTTTACCAAGTATATCGATACATTTTTCAATGTATCGATACATGTATGAATGTATCGATACATT
356823 CTGTC
66 CTGTC
* * *
356828 TTTTTACCCAGATATATCGATACATTCTTT-AATGTTTCGATACATTTATGAATGTATCGATACA
1 TTTTTACCAAG-TATATCGATACATT-TTTCAATGTATCGATACATGTATGAATGTATCGATACA
356892 TT
64 TT
356894 TCTGGATGTA
Statistics
Matches: 60, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
70 10 0.17
71 47 0.78
72 3 0.05
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.43
Consensus pattern (70 bp):
TTTTTACCAAGTATATCGATACATTTTTCAATGTATCGATACATGTATGAATGTATCGATACATT
CTGTC
Found at i:356959 original size:91 final size:91
Alignment explanation
Indices: 356758--357074 Score: 362
Period size: 91 Copynumber: 3.5 Consensus size: 91
356748 AAAAGTCACA
*
356758 TTTTTACCAAG-TGTATCGATACATTTTTCAATGTATCGATACATGTATGAATGTATCGATACAT
1 TTTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACATGTATGAATGTATCGATACAT
** * * * *
356822 TCTGTCTTTTTACCCAGATATA-TCGATAC
66 TCT-TCAATGTA-TC-GATACATTCTAT-C
* * * * * *
356851 ATTCTTT----A-ATGTTTCGATACATTTATGAATGTATCGATACATTTCTGGATGTATCGATAC
1 -TT-TTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACATGTATGAATGTATCGATAC
**
356911 ATT-TATGGATGTATCGATACATTCTATC
64 ATTCT-TCAATGTATCGATACATTCTATC
356939 TTTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACATGTATGAATGTATCGATACAT
1 TTTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACATGTATGAATGTATCGATACAT
*
357004 TCTTCAATGTATCGATACATTCTGTC
66 TCTTCAATGTATCGATACATTCTATC
*
357030 TTTTTTCCCAGATGTATCGATACATTTTTCAATGTATCGATACAT
1 TTTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACAT
357075 CTAGTTAAAA
Statistics
Matches: 190, Mismatches: 24, Indels: 21
0.81 0.10 0.09
Matches are distributed among these distances:
86 3 0.02
87 2 0.01
88 6 0.03
89 5 0.03
90 6 0.03
91 162 0.85
92 1 0.01
94 2 0.01
95 3 0.02
ACGTcount: A:0.28, C:0.16, G:0.13, T:0.42
Consensus pattern (91 bp):
TTTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACATGTATGAATGTATCGATACAT
TCTTCAATGTATCGATACATTCTATC
Found at i:356963 original size:111 final size:111
Alignment explanation
Indices: 356769--357024 Score: 399
Period size: 111 Copynumber: 2.3 Consensus size: 111
356759 TTTTACCAAG
* * *
356769 TGTATCGATACATTTTTCAATGTATCGATACATGTATGAATGTATCGATACATTCTGTCTTTTTA
1 TGTATCGATACATTTCTCAATGTATCGATACATTTATGAATGTATCGATACATTCTATCTTTTTA
* *
356834 CCCAGATATATCGATACATTCTTT-AATGTTTCGATACATTTATGAA
66 CCCAGATATATCGATACATT-TTTCAATGTATCGATACATGTATGAA
** *
356880 TGTATCGATACATTTCTGGATGTATCGATACATTTATGGATGTATCGATACATTCTATCTTTTTA
1 TGTATCGATACATTTCTCAATGTATCGATACATTTATGAATGTATCGATACATTCTATCTTTTTA
*
356945 CCCAGATGTATCGATACATTTTTCAATGTATCGATACATGTATGAA
66 CCCAGATATATCGATACATTTTTCAATGTATCGATACATGTATGAA
356991 TGTATCGATACA-TTCTTCAATGTATCGATACATT
1 TGTATCGATACATTTC-TCAATGTATCGATACATT
357025 CTGTCTTTTT
Statistics
Matches: 132, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
110 6 0.05
111 126 0.95
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (111 bp):
TGTATCGATACATTTCTCAATGTATCGATACATTTATGAATGTATCGATACATTCTATCTTTTTA
CCCAGATATATCGATACATTTTTCAATGTATCGATACATGTATGAA
Found at i:366561 original size:20 final size:19
Alignment explanation
Indices: 366536--366626 Score: 92
Period size: 20 Copynumber: 4.6 Consensus size: 19
366526 ACCCTAGAAA
*
366536 GTATCGATACATATCCAGAT
1 GTATCGATACATATCCA-TT
* *
366556 GTATCGATACATTATGCTTT
1 GTATCGATACA-TATCCATT
* *
366576 GTATCGATACATGTTCATT
1 GTATCGATACATATCCATT
**
366595 GTATCGATACATACTTAATT
1 GTATCGATACATA-TCCATT
366615 GTATCGATACAT
1 GTATCGATACAT
366627 GAAACTGGCA
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
19 17 0.28
20 40 0.66
21 4 0.07
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.38
Consensus pattern (19 bp):
GTATCGATACATATCCATT
Found at i:366681 original size:20 final size:20
Alignment explanation
Indices: 366656--366707 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
366646 CTAAGTGAAA
*
366656 TGTATCGATACATG-GGACAT
1 TGTATCGATACATGAAGA-AT
366676 TGTATCGATACATGAAGAAT
1 TGTATCGATACATGAAGAAT
366696 TGTATCGATACA
1 TGTATCGATACA
366708 ATATGCCTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 28 0.93
21 2 0.07
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.31
Consensus pattern (20 bp):
TGTATCGATACATGAAGAAT
Found at i:370291 original size:65 final size:66
Alignment explanation
Indices: 370212--371106 Score: 627
Period size: 65 Copynumber: 13.6 Consensus size: 66
370202 TAAGTCAACG
* * * * * *
370212 AAAGGCGACTAGGGCGAAACCTAAGTCGAAAAGAAGTTAACTAGGGCAAAACCATTATGTCAAC-
1 AAAGGTGACCAGGGCGAAACCTAAGTCGAAAAGAAGTTGACTAGGGCGAAACCATCACGTCAACA
370276 A
66 A
* * * * * * * * *
370277 AAGGGTAACCAGGGC-AAGAGCTAAGTTGAAATGAAAGGAAGTTGACCATGGTGAAACTATCATG
1 AAAGGTGACCAGGGCGAA-ACCTAAGTCG--A--AAA-GAAGTTGACTAGGGCGAAACCATCACG
370341 TCAAC-A
60 TCAACAA
* * * * * * *
370347 AAAGGTGACCAGGGCAAAACCTACGTTGAAAAGAAGTCGACCAGGGCGAAACCATCATGTCAGC-
1 AAAGGTGACCAGGGCGAAACCTAAGTCGAAAAGAAGTTGACTAGGGCGAAACCATCACGTCAACA
370411 A
66 A
* * * * * * *
370412 AAAGGTGACTAGGGTGAAACCTAAGTCTAAAAAAATTTGACCAAGGCGAAACCATCACGTCAAC-
1 AAAGGTGACCAGGGCGAAACCTAAGTCGAAAAGAAGTTGACTAGGGCGAAACCATCACGTCAACA
370476 A
66 A
* * * * *
370477 AAA-GTGACCAGGGCAAAACCTAAGTCGAAAGGAAGTTGACTAGGGCAAAATCATCACATC-A-A
1 AAAGGTGACCAGGGCGAAACCTAAGTCGAAAAGAAGTTGACTAGGGCGAAACCATCACGTCAACA
*
370539 T
66 A
* * * * * *
370540 AAAGG-GACTATGG-TAAAGCCTTAGTTGAAAAGAAGTTGACTAGGGCAAAACCATCACGTCAAC
1 AAAGGTGACCAGGGCGAAA-CCTAAGTCGAAAAGAAGTTGACTAGGGCGAAACCATCACGTCAAC
*
370603 TA
65 AA
* * * ** * * *
370605 AAAGGTGACTAGGGTGAAACCTTAGTAAAAAAAAAAGTTGCCCT-GGGCAAAACCATCACGTCAA
1 AAAGGTGACCAGGGCGAAACCTAAGT-CGAAAAGAAGTTG-ACTAGGGCGAAACCATCACGTCAA
370669 CAA
64 CAA
* * *** ** * * * *
370672 AAAGATGATC-GAGATAAAACCTAAGTTTAAAAGAGGTTGACTAGGGCAAAATCATCACATCAAC
1 AAAGGTGACCAG-GGCGAAACCTAAGTCGAAAAGAAGTTGACTAGGGCGAAACCATCACGTCAAC
*
370736 TA
65 AA
* ** * * * * *
370738 AAAGGTGACTAAAGTGAAACCTTAGTCGAAAAGAAGTTGACCAAGGCGAAACCATCATGTCAACA
1 AAAGGTGACCAGGGCGAAACCTAAGTCGAAAAGAAGTTGACTAGGGCGAAACCATCACGTCAACA
370803 A
66 A
* * * * *
370804 AAGGGTGACCAAGGCCAAAACCTAAGTCGAAAAGAGGTTGACCAGGGCGAAACCATCACGTCAAC
1 AAAGGTGACC-AGGGCGAAACCTAAGTCGAAAAGAAGTTGACTAGGGCGAAACCATCACGTCAAC
*
370869 TA
65 AA
* * * * * **
370871 AAAGGTGACTAGAGTGAAACCTTAGTTGAAAAGAAGTTGACTAGGGAAAAACCATCACGTCAAC-
1 AAAGGTGACCAGGGCGAAACCTAAGTCGAAAAGAAGTTGACTAGGGCGAAACCATCACGTCAACA
370935 A
66 A
* * * * * *
370936 AAAGTGTGACCAGGGC-AAACCTAAGTCGAAAGGAGGTTGACCAGGGTGAAACCATCATGTTAAC
1 AAAG-GTGACCAGGGCGAAACCTAAGTCGAAAAGAAGTTGACTAGGGCGAAACCATCACGTCAAC
*
371000 TA
65 AA
* * * * * * * *
371002 AAA-GTTACTAGGGTGAAACCTAAGT--AAAATGGAAATTAACTATGGTGAAACCATCATGTCAA
1 AAAGGTGACCAGGGCGAAACCTAAGTCGAAAA--GAAGTTGACTAGGGCGAAACCATCACGTCAA
371064 CAA
64 CAA
* * * *
371067 AAGGGTTACCAGGGCGAAACCTAAGTCGCAAAGAGGTTGA
1 AAAGGTGACCAGGGCGAAACCTAAGTCGAAAAGAAGTTGA
371107 ATAACATTTG
Statistics
Matches: 652, Mismatches: 150, Indels: 55
0.76 0.18 0.06
Matches are distributed among these distances:
62 3 0.00
63 50 0.08
64 57 0.09
65 193 0.30
66 183 0.28
67 108 0.17
68 6 0.01
69 3 0.00
70 47 0.07
71 2 0.00
ACGTcount: A:0.41, C:0.18, G:0.23, T:0.17
Consensus pattern (66 bp):
AAAGGTGACCAGGGCGAAACCTAAGTCGAAAAGAAGTTGACTAGGGCGAAACCATCACGTCAACA
A
Found at i:370485 original size:32 final size:33
Alignment explanation
Indices: 370319--370956 Score: 143
Period size: 32 Copynumber: 19.5 Consensus size: 33
370309 GAAAGGAAGT
* * * *
370319 TGACCATGGTGAAACTATCATGTCAACAAAAGG
1 TGACCAGGGCGAAACCATCACGTCAACAAAAGG
* *
370352 TGACCAGGGCAAAACC-T-ACGTTGAA-AAGAA-G
1 TGACCAGGGCGAAACCATCACG-TCAACAA-AAGG
* *
370383 TCGACCAGGGCGAAACCATCATGTCAGCAAAAGG
1 T-GACCAGGGCGAAACCATCACGTCAACAAAAGG
* * * * **
370417 TGACTAGGGTGAAACC-T-AAGTCTAAAAAAATT
1 TGACCAGGGCGAAACCATCACGTC-AACAAAAGG
*
370449 TGACCAAGGCGAAACCATCACGTCAACAAAA-G
1 TGACCAGGGCGAAACCATCACGTCAACAAAAGG
* * * *
370481 TGACCAGGGCAAAACC-T-AAGTCGAA-AGGAAGT
1 TGACCAGGGCGAAACCATCACGTC-AACA-AAAGG
* * * * *
370513 TGACTAGGGCAAAATCATCACATCAA-TAAAGG
1 TGACCAGGGCGAAACCATCACGTCAACAAAAGG
* * * * * *
370545 -GACTATGG-TAAAGCC-TTA-GTTGAA-AAGAAGT
1 TGACCAGGGCGAAA-CCATCACG-TCAACAA-AAGG
* *
370576 TGACTAGGGCAAAACCATCACGTCAACTAAAAGG
1 TGACCAGGGCGAAACCATCACGTCAAC-AAAAGG
* * * * * *
370610 TGACTAGGGTGAAACC-TTA-GTAAAAAAAAAAGT
1 TGACCAGGGCGAAACCATCACGT--CAACAAAAGG
* * * *
370643 TGCCCTGGGCAAAACCATCACGTCAACAAAAAGA
1 TGACCAGGGCGAAACCATCACGTCAAC-AAAAGG
* *** * * *
370677 TGATC-GAGATAAAACC-T-AAGTTTAA-AAGAGG
1 TGACCAG-GGCGAAACCATCACG-TCAACAAAAGG
* * * *
370708 TTGACTAGGGCAAAATCATCACATCAACTAAAAGG
1 -TGACCAGGGCGAAACCATCACGTCAAC-AAAAGG
* ** * * *
370743 TGACTAAAGTGAAACC-TTA-GTCGAA-AAGAAGT
1 TGACCAGGGCGAAACCATCACGTC-AACAA-AAGG
* *
370775 TGACCAAGGCGAAACCATCATGTCAACAAAAGGG
1 TGACCAGGGCGAAACCATCACGTCAACAAAA-GG
* * * *
370809 TGACCAAGGCCAAAACC-T-AAGTCGAA-AAGAGG
1 TGACC-AGGGCGAAACCATCACGTC-AACAAAAGG
370841 TTGACCAGGGCGAAACCATCACGTCAACTAAAAGG
1 -TGACCAGGGCGAAACCATCACGTCAAC-AAAAGG
* * * * * *
370876 TGACTAGAGTGAAACC-TTA-GTTGAA-AAGAAGT
1 TGACCAGGGCGAAACCATCACG-TCAACAA-AAGG
* **
370908 TGACTAGGGAAAAACCATCACGTCAACAAAAGTG
1 TGACCAGGGCGAAACCATCACGTCAACAAAAG-G
370942 TGACCAGGGC-AAACC
1 TGACCAGGGCGAAACC
370957 TAAGTCGAAA
Statistics
Matches: 433, Mismatches: 116, Indels: 112
0.66 0.18 0.17
Matches are distributed among these distances:
30 14 0.03
31 34 0.08
32 138 0.32
33 121 0.28
34 104 0.24
35 22 0.05
ACGTcount: A:0.42, C:0.19, G:0.22, T:0.17
Consensus pattern (33 bp):
TGACCAGGGCGAAACCATCACGTCAACAAAAGG
Found at i:370741 original size:66 final size:65
Alignment explanation
Indices: 370330--371005 Score: 483
Period size: 66 Copynumber: 10.3 Consensus size: 65
370320 GACCATGGTG
* * * ** * * *
370330 AAACTATCATGTCAAC-AAAAGGTGACCAGGGCAAAACC-TACGTTGAAAAGAAGTCGACCAGGG
1 AAACCATCACGTCAACTAAAAGGTGACTA-GATAAAACCTTA-GTCGAAAAGAAGTTGACTAGGG
*
370393 CG
64 CA
* * * * * * * * * *
370395 AAACCATCATGTCAGC-AAAAGGTGACTAGGGTGAAACCTAAGTCTAAAAAAATTTGACCAAGGC
1 AAACCATCACGTCAACTAAAAGGTGACTA-GATAAAACCTTAGTCGAAAAGAAGTTGACTAGGGC
*
370459 G
65 A
* ** * *
370460 AAACCATCACGTCAAC-AAAA-GTGACCAGGGCAAAACCTAAGTCGAAAGGAAGTTGACTAGGGC
1 AAACCATCACGTCAACTAAAAGGTGACTA-GATAAAACCTTAGTCGAAAAGAAGTTGACTAGGGC
370523 A
65 A
* * * * *
370524 AAATCATCACATCAA-T-AAAGG-GACTATGGTAAAGCCTTAGTTGAAAAGAAGTTGACTAGGGC
1 AAACCATCACGTCAACTAAAAGGTGACTA-GATAAAACCTTAGTCGAAAAGAAGTTGACTAGGGC
370586 A
65 A
* * ** * *
370587 AAACCATCACGTCAACTAAAAGGTGACTAGGGTGAAACCTTAGTAAAAAAAAAAGTTGCCCT-GG
1 AAACCATCACGTCAACTAAAAGGTGACTA-GATAAAACCTTAGT-CGAAAAGAAGTTG-ACTAGG
370651 GCA
63 GCA
* * * * ** *
370654 AAACCATCACGTCAACAAAAAGATGATCGAGATAAAACCTAAGTTTAAAAGAGGTTGACTAGGGC
1 AAACCATCACGTCAACTAAAAGGTGA-CTAGATAAAACCTTAGTCGAAAAGAAGTTGACTAGGGC
370719 A
65 A
* * * * * *
370720 AAATCATCACATCAACTAAAAGGTGACTAAAGTGAAACCTTAGTCGAAAAGAAGTTGACCAAGGC
1 AAACCATCACGTCAACTAAAAGGTGACTAGA-TAAAACCTTAGTCGAAAAGAAGTTGACTAGGGC
*
370785 G
65 A
* * ** * * *
370786 AAACCATCATGTCAAC-AAAAGGGTGACCAAGGCCAAAACCTAAGTCGAAAAGAGGTTGACCAGG
1 AAACCATCACGTCAACTAAAA-GGTGA-CTA-GATAAAACCTTAGTCGAAAAGAAGTTGACTAGG
*
370850 GCG
63 GCA
* * *
370853 AAACCATCACGTCAACTAAAAGGTGACTAGAGTGAAACCTTAGTTGAAAAGAAGTTGACTAGGGA
1 AAACCATCACGTCAACTAAAAGGTGACTAGA-TAAAACCTTAGTCGAAAAGAAGTTGACTAGGGC
370918 A
65 A
* *** * * * * *
370919 AAACCATCACGTCAAC-AAAAGTGTGACCAGGGCAAACCTAAGTCGAAAGGAGGTTGACCAGGGT
1 AAACCATCACGTCAACTAAAAG-GTGACTAGATAAAACCTTAGTCGAAAAGAAGTTGACTAGGGC
*
370983 G
65 A
* *
370984 AAACCATCATGTTAACTAAAAG
1 AAACCATCACGTCAACTAAAAG
371006 TTACTAGGGT
Statistics
Matches: 491, Mismatches: 102, Indels: 35
0.78 0.16 0.06
Matches are distributed among these distances:
63 51 0.10
64 49 0.10
65 128 0.26
66 154 0.31
67 101 0.21
68 8 0.02
ACGTcount: A:0.42, C:0.19, G:0.22, T:0.17
Consensus pattern (65 bp):
AAACCATCACGTCAACTAAAAGGTGACTAGATAAAACCTTAGTCGAAAAGAAGTTGACTAGGGCA
Found at i:370846 original size:33 final size:32
Alignment explanation
Indices: 370754--370857 Score: 93
Period size: 33 Copynumber: 3.2 Consensus size: 32
370744 GACTAAAGTG
* * *
370754 AAACCTTAGTCGAAAAGAAGTTGACCAAGGCG
1 AAACCTAAGTCGAAAAGAGGTTGACCAAGGCA
* * *
370786 AAACCATCATGTC-AACAAAAGGGTGACCAAGGCCA
1 AAACC-T-AAGTCGAA-AAGAGGTTGACCAAGG-CA
* *
370821 AAACCTAAGTCGAAAAGAGGTTGACCAGGGCG
1 AAACCTAAGTCGAAAAGAGGTTGACCAAGGCA
370853 AAACC
1 AAACC
370858 ATCACGTCAA
Statistics
Matches: 56, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
32 11 0.20
33 20 0.36
34 19 0.34
35 6 0.11
ACGTcount: A:0.41, C:0.22, G:0.24, T:0.12
Consensus pattern (32 bp):
AAACCTAAGTCGAAAAGAGGTTGACCAAGGCA
Found at i:370861 original size:199 final size:195
Alignment explanation
Indices: 370374--371030 Score: 715
Period size: 199 Copynumber: 3.4 Consensus size: 195
370364 AACCTACGTT
* *
370374 GAAAAGAAGTCGACCAGGGCGAAACCATCATGTCAGC-AAAAGGTGACTAGGGTGAAACCTAAGT
1 GAAAAGAAGTTGACCAGGGCGAAACCATCATGTCAACTAAAAGGTGACTAGGGTGAAACCTAAGT
* * * ** *
370438 CTAAAAAAATTTGACCAAGGCGAAACCATCACGTCAACAAAAGTGACCAGGGCAAAACCTAAGTC
66 CAAAAAAAAGTTGACCAGGGCGAAACCATCACGTCAACAAAAGTGACCA-GATAAAACCTAAGTT
* **
370503 GAAAGGAAGTTGACTAGGGCAAAATCATCACATCAA-T-AAAGG-GACTATGGT-AAAGCCTTAG
130 GAAAAGAAGTTGACTAGGGCAAAATCATCACATCAACTAAAAGGTGACTAAAGTGAAA-CCTTAG
*
370564 TT
194 TC
* * * *
370566 GAAAAGAAGTTGACTAGGGCAAAACCATCACGTCAACTAAAAGGTGACTAGGGTGAAACCTTAGT
1 GAAAAGAAGTTGACCAGGGCGAAACCATCATGTCAACTAAAAGGTGACTAGGGTGAAACCTAAGT
* * * * *
370631 AAAAAAAAAAGTTGCCCTGGGCAAAACCATCACGTCAACAAAAAGATGATCGAGATAAAACCTAA
66 -CAAAAAAAAGTTGACCAGGGCGAAACCATCACGTCAAC-AAAAG-TGA-CCAGATAAAACCTAA
* *
370696 GTTTAAAAGAGGTTGACTAGGGCAAAATCATCACATCAACTAAAAGGTGACTAAAGTGAAACCTT
127 GTTGAAAAGAAGTTGACTAGGGCAAAATCATCACATCAACTAAAAGGTGACTAAAGTGAAACCTT
370761 AGTC
192 AGTC
* * ***
370765 GAAAAGAAGTTGACCAAGGCGAAACCATCATGTCAAC-AAAAGGGTGACCAAGGCCAAAACCTAA
1 GAAAAGAAGTTGACCAGGGCGAAACCATCATGTCAACTAAAA-GGTGA-CTAGGGTGAAACCTAA
* * * * * *
370829 GTCGAAAAGAGGTTGACCAGGGCGAAACCATCACGTCAACTAAAAGGTGACTAGAGTGAAACCTT
64 GTCAAAAAAAAGTTGACCAGGGCGAAACCATCACGTCAAC-AAAA-GTGACCAGA-TAAAACCTA
* * * * *
370894 AGTTGAAAAGAAGTTGACTAGGGAAAAACCATCACGTCAAC-AAAAGTGTGAC--CAGGGCAAAC
126 AGTTGAAAAGAAGTTGACTAGGGCAAAATCATCACATCAACTAAAAG-GTGACTAAAGTG-AAAC
*
370956 CTAAGTC
189 CTTAGTC
* * * * *
370963 GAAAGGAGGTTGACCAGGGTGAAACCATCATGTTAACTAAAA-GTTACTAGGGTGAAACCTAAGT
1 GAAAAGAAGTTGACCAGGGCGAAACCATCATGTCAACTAAAAGGTGACTAGGGTGAAACCTAAGT
371027 -AAAA
66 CAAAA
371031 TGGAAATTAA
Statistics
Matches: 387, Mismatches: 62, Indels: 29
0.81 0.13 0.06
Matches are distributed among these distances:
192 32 0.08
193 26 0.07
194 31 0.08
195 8 0.02
196 62 0.16
197 9 0.02
198 60 0.16
199 142 0.37
200 17 0.04
ACGTcount: A:0.42, C:0.18, G:0.23, T:0.17
Consensus pattern (195 bp):
GAAAAGAAGTTGACCAGGGCGAAACCATCATGTCAACTAAAAGGTGACTAGGGTGAAACCTAAGT
CAAAAAAAAGTTGACCAGGGCGAAACCATCACGTCAACAAAAGTGACCAGATAAAACCTAAGTTG
AAAAGAAGTTGACTAGGGCAAAATCATCACATCAACTAAAAGGTGACTAAAGTGAAACCTTAGTC
Found at i:371087 original size:131 final size:130
Alignment explanation
Indices: 370212--371106 Score: 605
Period size: 133 Copynumber: 6.8 Consensus size: 130
370202 TAAGTCAACG
* * * * * *
370212 AAAGGCGACTAGGGCGAAACCTAAGTCGAAAAGAAGTTAACTAGGGCA-AAACCATTATGTCAAC
1 AAAGGTGACTAGAGTGAAACCTAAGTTGAAAAGAAATTAACTAGGG-AGAAACCATCATGTCAAC
* * * * * * *
370276 -AAAGGGTAACCAGGGCAAGAGCTAAGTTGAAATGAAAGGAAGTTGACCATGGTGAAACTATCAT
65 AAAAGGGTGACCAGGGCAA-ACCTAAGTCGAAA-G--A-G--GTTGACCAGGGCGAAACCATCAC
370340 GTCAAC-A
123 GTCAACTA
* * ** * * ** * * *
370347 AAAGGTGACCAGGGCAAAACCTACGTTGAAAAGAAGTCGACCAGGGCGAAACCATCATGTCAGCA
1 AAAGGTGACTAGAGTGAAACCTAAGTTGAAAAGAAATTAACTAGGGAGAAACCATCATGTCAACA
* * * * ** *
370412 AAA-GGTGACTAGGGTGAAACCTAAGTCTAAAAAAATTTGACCAAGGCGAAACCATCACGTCAAC
66 AAAGGGTGACCAGGG-CAAACCTAAGTC-GAAAGAGGTTGACCAGGGCGAAACCATCACGTCAAC
370476 -A
129 TA
* * ** * * * * * **
370477 AAA-GTGACCAGGGCAAAACCTAAGTCGAAAGGAAGTTGACTAGGGCA-AAATCATCACATCAA-
1 AAAGGTGACTAGAGTGAAACCTAAGTTGAAAAGAAATTAACTAGGG-AGAAACCATCATGTCAAC
* * * * * * * * *
370539 TAAA-GG-GACTATGGTAAAGCCTTAGTTGAAAAGAAGTTGACTAGGGCAAAACCATCACGTCAA
65 AAAAGGGTGACCAGGGCAAA-CCTAAGTCG-AAAGAGGTTGACCAGGGCGAAACCATCACGTCAA
370602 CTA
128 CTA
* * ** * ** *
370605 AAAGGTGACTAGGGTGAAACCTTAGTAAAAAAAAAAGTTGCCCT-GGGCA-AAACCATCACGTCA
1 AAAGGTGACTAGAGTGAAACCTAAGTTGAAAAGAAA-TT-AACTAGGG-AGAAACCATCATGTCA
* * * *** ** * * * *
370668 ACAAAAAGATGATCGAGATAAAACCTAAGTTTAAAAGAGGTTGACTAGGGCAAAATCATCACATC
63 ACAAAAGGGTGA-CCAGGGCAAACCTAAG-TCGAAAGAGGTTGACCAGGGCGAAACCATCACGTC
370733 AACTA
126 AACTA
* * * * * * * *
370738 AAAGGTGACTAAAGTGAAACCTTAGTCGAAAAGAAGTTGACCAAGGCGAAACCATCATGTCAACA
1 AAAGGTGACTAGAGTGAAACCTAAGTTGAAAAGAAATTAACTAGGGAGAAACCATCATGTCAACA
*
370803 AAAGGGTGACCAAGGCCAAAACCTAAGTCGAAAAGAGGTTGACCAGGGCGAAACCATCACGTCAA
66 AAAGGGTGACC-AGGGC-AAACCTAAGTCG-AAAGAGGTTGACCAGGGCGAAACCATCACGTCAA
370868 CTA
128 CTA
* * * * *
370871 AAAGGTGACTAGAGTGAAACCTTAGTTGAAAAGAAGTTGACTAGGGAAAAACCATCACGTCAACA
1 AAAGGTGACTAGAGTGAAACCTAAGTTGAAAAGAAATTAACTAGGGAGAAACCATCATGTCAACA
* * * *
370936 AAAGTGTGACCAGGGCAAACCTAAGTCGAAAGGAGGTTGACCAGGGTGAAACCATCATGTTAACT
66 AAAGGGTGACCAGGGCAAACCTAAGTCGAAA-GAGGTTGACCAGGGCGAAACCATCACGTCAACT
371001 A
130 A
* * * *
371002 AAA-GTTACTAGGGTGAAACCTAAG-T-AAAATGGAAATTAACTATGGTGAAACCATCATGTCAA
1 AAAGGTGACTAGAGTGAAACCTAAGTTGAAAA--GAAATTAACTAGGGAGAAACCATCATGTCAA
*
371064 CAAAAGGGTTACCAGGGCGAAACCTAAGTCGCAAAGAGGTTGA
64 CAAAAGGGTGACCAGGGC-AAACCTAAGTCG-AAAGAGGTTGA
371107 ATAACATTTG
Statistics
Matches: 617, Mismatches: 117, Indels: 56
0.78 0.15 0.07
Matches are distributed among these distances:
126 3 0.00
127 43 0.07
128 13 0.02
129 72 0.12
130 110 0.18
131 73 0.12
132 38 0.06
133 182 0.29
134 7 0.01
135 68 0.11
136 8 0.01
ACGTcount: A:0.41, C:0.18, G:0.23, T:0.17
Consensus pattern (130 bp):
AAAGGTGACTAGAGTGAAACCTAAGTTGAAAAGAAATTAACTAGGGAGAAACCATCATGTCAACA
AAAGGGTGACCAGGGCAAACCTAAGTCGAAAGAGGTTGACCAGGGCGAAACCATCACGTCAACTA
Found at i:372660 original size:88 final size:88
Alignment explanation
Indices: 372538--372869 Score: 434
Period size: 88 Copynumber: 3.8 Consensus size: 88
372528 GCACATGAGG
* * * *
372538 TGATGTAAATGTAAGCATCAATAAAGTGG-AAATGCATATGAAATGATGCAAATACTAATGTCAT
1 TGATGCAAATGCAAGCATCAATAAAGAGGCAAATGCATATGAAATGATGCAAATACCAATGTCAT
*
372602 CTAAAGTGTAGATGTGCATGAAA
66 CTAAAGTGTAGATGTGCGTGAAA
* *
372625 TGATGCAAATGCAAGCATCAATATAA-AGGCAAATGCATATGAAATAATACAAATACCAATGTCA
1 TGATGCAAATGCAAGCATCAATA-AAGAGGCAAATGCATATGAAATGATGCAAATACCAATGTCA
* * *
372689 TCTAAAATGCACATGTGCGTGAAA
65 TCTAAAGTGTAGATGTGCGTGAAA
* * * ** * *
372713 TGATGCAAATGCAAGTATCAATAAAGTGGAAAATGCATATGAAATGATGCAAACGCTAATGTTAT
1 TGATGCAAATGCAAGCATCAATAAAGAGGCAAATGCATATGAAATGATGCAAATACCAATGTCAT
*
372778 CTAAAGTGTAGATATGCGTGAAA
66 CTAAAGTGTAGATGTGCGTGAAA
* * * * *
372801 TGATGCAAATGCAAGCATTAATAAAGTGGCAAATGCATATGAAATGATTCAAATGCCAATCTCAT
1 TGATGCAAATGCAAGCATCAATAAAGAGGCAAATGCATATGAAATGATGCAAATACCAATGTCAT
372866 CTAA
66 CTAA
372870 TCCTAATTGA
Statistics
Matches: 211, Mismatches: 31, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
87 25 0.12
88 186 0.88
ACGTcount: A:0.43, C:0.13, G:0.19, T:0.26
Consensus pattern (88 bp):
TGATGCAAATGCAAGCATCAATAAAGAGGCAAATGCATATGAAATGATGCAAATACCAATGTCAT
CTAAAGTGTAGATGTGCGTGAAA
Found at i:372749 original size:176 final size:175
Alignment explanation
Indices: 372538--372869 Score: 513
Period size: 176 Copynumber: 1.9 Consensus size: 175
372528 GCACATGAGG
* * *
372538 TGATGTAAATGTAAGCATCAATAAAGTGGAAATGCATATGAAATGATGCAAATACTAATGTCATC
1 TGATGCAAATGCAAGCATCAATAAAGTGGAAATGCATATGAAATGATGCAAACACTAATGTCATC
*
372603 TAAAGTGTAGATGTGCATGAAATGATGCAAATGCAAGCATCAATATAA-AGGCAAATGCATATGA
66 TAAAGTGTAGATATGCATGAAATGATGCAAATGCAAGCATCAATA-AAGAGGCAAATGCATATGA
*
372667 AATAATACAAATACCAATGTCATCTAAAATGCACATGTGCGTGAAA
130 AATAATACAAATACCAATCTCATCTAAAATGCACATGTGCGTGAAA
* * *
372713 TGATGCAAATGCAAGTATCAATAAAGTGGAAAATGCATATGAAATGATGCAAACGCTAATGTTAT
1 TGATGCAAATGCAAGCATCAATAAAGTGG-AAATGCATATGAAATGATGCAAACACTAATGTCAT
* * *
372778 CTAAAGTGTAGATATGCGTGAAATGATGCAAATGCAAGCATTAATAAAGTGGCAAATGCATATGA
65 CTAAAGTGTAGATATGCATGAAATGATGCAAATGCAAGCATCAATAAAGAGGCAAATGCATATGA
* * *
372843 AATGATTCAAATGCCAATCTCATCTAA
130 AATAATACAAATACCAATCTCATCTAA
372870 TCCTAATTGA
Statistics
Matches: 141, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
175 28 0.20
176 113 0.80
ACGTcount: A:0.43, C:0.13, G:0.19, T:0.26
Consensus pattern (175 bp):
TGATGCAAATGCAAGCATCAATAAAGTGGAAATGCATATGAAATGATGCAAACACTAATGTCATC
TAAAGTGTAGATATGCATGAAATGATGCAAATGCAAGCATCAATAAAGAGGCAAATGCATATGAA
ATAATACAAATACCAATCTCATCTAAAATGCACATGTGCGTGAAA
Found at i:372844 original size:44 final size:44
Alignment explanation
Indices: 372538--372856 Score: 171
Period size: 44 Copynumber: 7.3 Consensus size: 44
372528 GCACATGAGG
* * *
372538 TGATGTAAATGTAAGCATCAATAAAGTGG-AAATGCATATGAAA
1 TGATGCAAATGCAAGCATTAATAAAGTGGCAAATGCATATGAAA
* * * * ***
372581 TGATGCAAATACTAATGTCA-T-CTAAAGT-GTAGATGTGCATGAAA
1 TGATGCAAATGC-AA-G-CATTAATAAAGTGGCAAATGCATATGAAA
* *
372625 TGATGCAAATGCAAGCATCAATATAA-AGGCAAATGCATATGAAA
1 TGATGCAAATGCAAGCATTAATA-AAGTGGCAAATGCATATGAAA
* * * * ****
372669 TAATACAAATACCAATGTCATCT-A-AAA-T-GCACATGTGCGTGAAA
1 TGATGCAAAT-GCAA-G-CAT-TAATAAAGTGGCAAATGCATATGAAA
* * *
372713 TGATGCAAATGCAAGTATCAATAAAGTGGAAAATGCATATGAAA
1 TGATGCAAATGCAAGCATTAATAAAGTGGCAAATGCATATGAAA
* * * *
372757 TGATGCAAACGCTAATG--TTATCTAAAGTGTAG-ATATGC--GTGAAA
1 TGATGCAAATGC-AA-GCATTA-ATAAAGTG--GCAAATGCATATGAAA
372801 TGATGCAAATGCAAGCATTAATAAAGTGGCAAATGCATATGAAA
1 TGATGCAAATGCAAGCATTAATAAAGTGGCAAATGCATATGAAA
*
372845 TGATTCAAATGC
1 TGATGCAAATGC
372857 CAATCTCATC
Statistics
Matches: 201, Mismatches: 49, Indels: 51
0.67 0.16 0.17
Matches are distributed among these distances:
41 6 0.03
42 11 0.05
43 27 0.13
44 127 0.63
45 15 0.07
46 10 0.05
47 5 0.02
ACGTcount: A:0.43, C:0.12, G:0.19, T:0.25
Consensus pattern (44 bp):
TGATGCAAATGCAAGCATTAATAAAGTGGCAAATGCATATGAAA
Found at i:373296 original size:51 final size:50
Alignment explanation
Indices: 373236--373335 Score: 130
Period size: 51 Copynumber: 2.0 Consensus size: 50
373226 ATTTCAAAAC
* *
373236 TGGTAGAATACCT-ACCTAATTTTCCTAGGCACGAATGGATCAGATCGTATG
1 TGGTAGAATACATGACCT-ATTCTCCTAGGCACG-ATGGATCAGATCGTATG
* * *
373287 TGGTAGAATACATGCCCTATTCTCTTAGGCATGATGGATCAGATCGTAT
1 TGGTAGAATACATGACCTATTCTCCTAGGCACGATGGATCAGATCGTAT
373336 AAAATATGAA
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
50 16 0.37
51 24 0.56
52 3 0.07
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (50 bp):
TGGTAGAATACATGACCTATTCTCCTAGGCACGATGGATCAGATCGTATG
Found at i:373339 original size:162 final size:163
Alignment explanation
Indices: 373131--373443 Score: 434
Period size: 162 Copynumber: 1.9 Consensus size: 163
373121 AACTGATAGG
* **
373131 ATACATGCCTCATTTTCCTAGGCATGAATGGATCAGATCATATAAAATATGTGTTTCTTCG-AAA
1 ATACATGCCTCATTCTCCTAGGCATGAATGGATCAGATCATATAAAATATGAATTTCTTCGAAAA
* * *
373195 TTTAAACAAATTTGATGCTGTTGGCTTAAAAATTTCAAAACTGGTAGAATACCTACCTAATTTTC
66 TTT-AACAAATTTGATGCTGTTGGCTCAAAAATTTCAAAACTGGTAGAATACATACCCAATTTTC
*
373260 CTAGGCACGAATGGATCAGATCGTATGTGGTAGA
130 CTAGGCACAAATGGATCAGATCGTATGTGGTAGA
* * *
373294 ATACATGCC-CTATTCTCTTAGGCATG-ATGGATCAGATCGTATAAAATATGAATTTCTTTGAAA
1 ATACATGCCTC-ATTCTCCTAGGCATGAATGGATCAGATCATATAAAATATGAATTTCTTCGAAA
* * * * *
373357 ATTTGATAAATTTGATGTTGTTGGCTCAAAAATTTCAAAACTGGTAGAATACATGCCCCATTTTC
65 ATTTAACAAATTTGATGCTGTTGGCTCAAAAATTTCAAAACTGGTAGAATACATACCCAATTTTC
* *
373422 CTAGGCATAAATGGATTAGATC
130 CTAGGCACAAATGGATCAGATC
373444 ATATAAAATA
Statistics
Matches: 131, Mismatches: 17, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
162 103 0.79
163 28 0.21
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (163 bp):
ATACATGCCTCATTCTCCTAGGCATGAATGGATCAGATCATATAAAATATGAATTTCTTCGAAAA
TTTAACAAATTTGATGCTGTTGGCTCAAAAATTTCAAAACTGGTAGAATACATACCCAATTTTCC
TAGGCACAAATGGATCAGATCGTATGTGGTAGA
Found at i:376955 original size:21 final size:21
Alignment explanation
Indices: 376931--376970 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
376921 CCATGTATAA
376931 TATTTAATAAAAGAAATTTAT
1 TATTTAATAAAAGAAATTTAT
*
376952 TATTTCATAAAAGAAATTT
1 TATTTAATAAAAGAAATTT
376971 GGCTTTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (21 bp):
TATTTAATAAAAGAAATTTAT
Found at i:377802 original size:20 final size:20
Alignment explanation
Indices: 377774--377822 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
377764 CAAATTAATG
*
377774 TATTAATACATAAGGGAATA
1 TATTGATACATAAGGGAATA
* *
377794 TATTGATACATAAGTGAATG
1 TATTGATACATAAGGGAATA
377814 TATTGATAC
1 TATTGATAC
377823 TAGACCTTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.43, C:0.06, G:0.16, T:0.35
Consensus pattern (20 bp):
TATTGATACATAAGGGAATA
Found at i:383509 original size:15 final size:15
Alignment explanation
Indices: 383486--383521 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
383476 AGTTTATATA
*
383486 TAAAGTAAAATAATC
1 TAAAATAAAATAATC
383501 TAAAATAAAATAATC
1 TAAAATAAAATAATC
383516 TAAAAT
1 TAAAAT
383522 TAAAGAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.64, C:0.06, G:0.03, T:0.28
Consensus pattern (15 bp):
TAAAATAAAATAATC
Found at i:385605 original size:12 final size:11
Alignment explanation
Indices: 385575--385628 Score: 54
Period size: 12 Copynumber: 4.5 Consensus size: 11
385565 TGAAGAAACC
*
385575 TTTTATTTTTT
1 TTTTCTTTTTT
*
385586 TATTTCTTTCTAT
1 T-TTTCTTT-TTT
385599 TTTTCTTTTTT
1 TTTTCTTTTTT
385610 TTCTTCTTTGTTT
1 TT-TTCTTT-TTT
385623 TTTTCT
1 TTTTCT
385629 GAGAACCAAC
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
11 5 0.14
12 23 0.64
13 8 0.22
ACGTcount: A:0.06, C:0.11, G:0.02, T:0.81
Consensus pattern (11 bp):
TTTTCTTTTTT
Found at i:385607 original size:24 final size:24
Alignment explanation
Indices: 385575--385628 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
385565 TGAAGAAACC
*
385575 TTTTATTTTTTTAT-TTCTTTCTAT
1 TTTTCTTTTTTT-TCTTCTTTCTAT
* *
385599 TTTTCTTTTTTTTCTTCTTTGTTT
1 TTTTCTTTTTTTTCTTCTTTCTAT
385623 TTTTCT
1 TTTTCT
385629 GAGAACCAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 1 0.04
24 25 0.96
ACGTcount: A:0.06, C:0.11, G:0.02, T:0.81
Consensus pattern (24 bp):
TTTTCTTTTTTTTCTTCTTTCTAT
Found at i:385612 original size:17 final size:16
Alignment explanation
Indices: 385578--385628 Score: 50
Period size: 18 Copynumber: 3.1 Consensus size: 16
385568 AGAAACCTTT
385578 TATTTTTTTATTTCTTTC
1 TATTTTTTT-TTT-TTTC
385596 TATTTTTCTTTTTTTTC
1 TATTTTT-TTTTTTTTC
* *
385613 T-TCTTTGTTTTTTTC
1 TATTTTTTTTTTTTTC
385628 T
1 T
385629 GAGAACCAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
15 9 0.30
16 4 0.13
17 5 0.17
18 10 0.33
19 2 0.07
ACGTcount: A:0.06, C:0.12, G:0.02, T:0.80
Consensus pattern (16 bp):
TATTTTTTTTTTTTTC
Found at i:390866 original size:20 final size:20
Alignment explanation
Indices: 390841--390913 Score: 96
Period size: 20 Copynumber: 3.6 Consensus size: 20
390831 AAACCCAGAA
390841 TGTATCGATACAAAGCAAAT
1 TGTATCGATACAAAGCAAAT
**
390861 TGTATCGATAC-ATCCGAGAA-
1 TGTATCGATACAAAGC-A-AAT
390881 TGTATCGATACAAAGCAAAT
1 TGTATCGATACAAAGCAAAT
390901 TGTATCGATACAA
1 TGTATCGATACAA
390914 TTTTTTTACC
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
19 4 0.09
20 37 0.82
21 4 0.09
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.26
Consensus pattern (20 bp):
TGTATCGATACAAAGCAAAT
Found at i:390892 original size:40 final size:40
Alignment explanation
Indices: 390837--390912 Score: 152
Period size: 40 Copynumber: 1.9 Consensus size: 40
390827 TCAAAAACCC
390837 AGAATGTATCGATACAAAGCAAATTGTATCGATACATCCG
1 AGAATGTATCGATACAAAGCAAATTGTATCGATACATCCG
390877 AGAATGTATCGATACAAAGCAAATTGTATCGATACA
1 AGAATGTATCGATACAAAGCAAATTGTATCGATACA
390913 ATTTTTTTAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.42, C:0.16, G:0.17, T:0.25
Consensus pattern (40 bp):
AGAATGTATCGATACAAAGCAAATTGTATCGATACATCCG
Found at i:391818 original size:16 final size:16
Alignment explanation
Indices: 391787--391816 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
391777 AAGAATGTAT
391787 TTATTATTTTATTTTA
1 TTATTATTTTATTTTA
391803 TTATT-TTTTATTTT
1 TTATTATTTTATTTT
391817 TAAAAATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (16 bp):
TTATTATTTTATTTTA
Found at i:393509 original size:163 final size:162
Alignment explanation
Indices: 393217--393732 Score: 484
Period size: 166 Copynumber: 3.1 Consensus size: 162
393207 GTTTAATGAC
* ** * * * * *
393217 AATATTAGATGAATTTTAAAAATTTGAAATCGAGAAACATCCCCCCAAAAACATTTACGGAGTAG
1 AATATTTGATGAATTTTAAAAATTAAAAATCAAGAAAAATCCCCTCAAAAA-A-TTACGAAGTAC
* * * * *
393282 AAAACTT-GATTTTTCAAAAATATGGAGATTTCGAAGAAAAAAAGAAAAACTCATGATAATGAAT
64 AAAACTTCG-TATTTCAAAAATAGGGA-ATTTC-AAGAAAAAATGAAAAACTAATGAAAATGAAT
* **
393346 GAATTTTTAAAAAATAATTTCATATGAAA-TAAATCTT
126 GAATTTTTAAAAAATAATTTAATAT-AAATTAAATAAT
*
393383 AATATTTGATGAATTTTAAAAATTAAAAATCAAGAAAAATCCCCTCAAAAAATTACAAAGTGA-A
1 AATATTTGATGAATTTTAAAAATTAAAAATCAAGAAAAATCCCCTCAAAAAATTACGAAGT-ACA
*
393447 AAACTTCGTATTTCGAAAATAGGGGAATTTCAAGAAAAAATGAAAAA-TGAATGAAAATGAATGA
65 AAACTTCGTATTTCAAAAATA-GGGAATTTCAAGAAAAAATGAAAAACT-AATGAAAATGAATGA
* * *
393511 ATTTTTGAAAATTGATTTAATATAAATTAAATAAT
128 ATTTTTAAAAAATAATTTAATATAAATTAAATAAT
* * * *
393546 AATATTTAATGAGTTTTAAAAATTAAAAA-CTAAGAAAAATCACCTTGAAAGAAATTACGAAGTA
1 AATATTTGATGAATTTTAAAAATTAAAAATC-AAGAAAAATC-CCCTCAAA-AAATTACGAAGTA
* * ** * * * * * *
393610 CAAAACTTCGTATTTTAGAAATAAGAAAATTTCAAGGAAAAATTGAAAAACTCATTAAGATCAGT
63 CAAAACTTCGTATTTCAAAAAT-AGGGAATTTCAA-GAAAAAATGAAAAACTAATGAAAATGAAT
** * * * *
393675 GAATTTTTAAAAGCTGATTTAACATGAATTAGATAAT
126 GAATTTTTAAAAAATAATTTAATATAAATTAAATAAT
* *
393712 AGTATTTAATGAATTTTAAAA
1 AATATTTGATGAATTTTAAAA
393733 TTTTAAAACC
Statistics
Matches: 294, Mismatches: 44, Indels: 24
0.81 0.12 0.07
Matches are distributed among these distances:
162 5 0.02
163 90 0.31
164 37 0.13
165 44 0.15
166 117 0.40
167 1 0.00
ACGTcount: A:0.50, C:0.08, G:0.12, T:0.30
Consensus pattern (162 bp):
AATATTTGATGAATTTTAAAAATTAAAAATCAAGAAAAATCCCCTCAAAAAATTACGAAGTACAA
AACTTCGTATTTCAAAAATAGGGAATTTCAAGAAAAAATGAAAAACTAATGAAAATGAATGAATT
TTTAAAAAATAATTTAATATAAATTAAATAAT
Found at i:393720 original size:166 final size:164
Alignment explanation
Indices: 393309--393763 Score: 426
Period size: 163 Copynumber: 2.8 Consensus size: 164
393299 AAATATGGAG
* * * * * * * * *
393309 ATTTCGAAGAAAAAAAGAAAAACT-CATGATAATGAATGAATTTTTAAAAAATAATTTCATATGA
1 ATTTC-AAGAAAAAATGAAAAA-TGAATGAAAATCAATGAATTTTTGAAAACTGATTTAACAT-A
** *
393373 AA-TAAATCTTAATATTTGATGAATTTTAAAAATTAAAAA-TCAAGAAAAATCCCCTCAAAAAAT
63 AATTAAATAATAATATTTAATGAATTTTAAAAATTAAAAACTCAAGAAAAATCCCCTCAAAAAAT
* * **
393436 TACAAAGTGAAAAACTTCGTATTTCGAAAATAGGGGA
128 TACAAAGTGAAAAACTTCGTATTTAGAAAATAAGAAA
* * *
393473 ATTTCAAGAAAAAATGAAAAATGAATGAAAATGAATGAATTTTTGAAAATTGATTTAATATAAAT
1 ATTTCAAGAAAAAATGAAAAATGAATGAAAATCAATGAATTTTTGAAAACTGATTTAACATAAAT
* * *
393538 TAAATAATAATATTTAATGAGTTTTAAAAATTAAAAACT-AAGAAAAATCACCTTGAAAGAAATT
66 TAAATAATAATATTTAATGAATTTTAAAAATTAAAAACTCAAGAAAAATC-CCCTCAAA-AAATT
*
393602 ACGAAGT-ACAAAACTTCGTATTTTAG-AAATAAGAAA
129 ACAAAGTGA-AAAACTTCGTA-TTTAGAAAATAAGAAA
* * * * * *
393638 ATTTCAAGGAAAAATTGAAAAACT-CATTAAGATCAGTGAATTTTT-AAAAGCTGATTTAACATG
1 ATTTCAA-GAAAAAATGAAAAA-TGAATGAAAATCAATGAATTTTTGAAAA-CTGATTTAACATA
* * * * * *
393701 AATTAGATAATAGTATTTAATGAATTTTAAAATTTTAAAACCCATG-AAAATCCTCC-CAAAAAA
63 AATTAAATAATAATATTTAATGAATTTTAAAAATTAAAAACTCAAGAAAAATCC-CCTCAAAAAA
393764 ATTATGGAGT
Statistics
Matches: 243, Mismatches: 36, Indels: 24
0.80 0.12 0.08
Matches are distributed among these distances:
162 4 0.02
163 90 0.37
164 16 0.07
165 44 0.18
166 86 0.35
167 3 0.01
ACGTcount: A:0.51, C:0.08, G:0.11, T:0.30
Consensus pattern (164 bp):
ATTTCAAGAAAAAATGAAAAATGAATGAAAATCAATGAATTTTTGAAAACTGATTTAACATAAAT
TAAATAATAATATTTAATGAATTTTAAAAATTAAAAACTCAAGAAAAATCCCCTCAAAAAATTAC
AAAGTGAAAAACTTCGTATTTAGAAAATAAGAAA
Found at i:395176 original size:43 final size:43
Alignment explanation
Indices: 395129--395258 Score: 106
Period size: 43 Copynumber: 3.0 Consensus size: 43
395119 GTGAAGGTCG
395129 ACTAGAGACTGAGCTGACAGGTCACCATAGGTGTAAGGTGTTT
1 ACTAGAGACTGAGCTGACAGGTCACCATAGGTGTAAGGTGTTT
* * * * * * * * * *
395172 ACTAGGGACTAAGCCGA-TGAGTGAACA-ATGAGATAAAGT-TTA
1 ACTAGAGACTGAGCTGACAG-GTCACCATAGGTG-TAAGGTGTTT
*
395214 ACTGGAGACTGAGCTGACAGGTCACCATAGGTGTAAGAG-GTTT
1 ACTAGAGACTGAGCTGACAGGTCACCATAGGTGTAAG-GTGTTT
395257 AC
1 AC
395259 CGAGGACTGA
Statistics
Matches: 60, Mismatches: 21, Indels: 12
0.65 0.23 0.13
Matches are distributed among these distances:
42 27 0.45
43 33 0.55
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.23
Consensus pattern (43 bp):
ACTAGAGACTGAGCTGACAGGTCACCATAGGTGTAAGGTGTTT
Found at i:395266 original size:85 final size:83
Alignment explanation
Indices: 394921--395441 Score: 282
Period size: 85 Copynumber: 6.1 Consensus size: 83
394911 AGATTTACTT
* * * * ** * * *
394921 AGGACTGAGCCGATGGGTGAACAATGAGATAGAGGTTGACCAGAGACTAAGCTTACAAGTCACCA
1 AGGACTGAGCCGAT-AGTAAACAA-GAGATAAAGTTTGACTGGAGACTGAGCTGACAGGTCACC-
* * * *
394986 AAAAG-GTAAGGGGTTTATCG
63 ATAGGTGTAAGAGGTTTACCG
** * * * * * * *
395006 AGGACTGAGTTGATAGGTAAATAAGGGATAAAGGGTTGACCGGGGACTAAGCTGACAAGTCACC-
1 AGGACTGAGCCGATA-GTAAACAAGAGATAAA-GTTTGACTGGAGACTGAGCTGACAGGTCACCA
** * *
395070 GGGGGGATAA-AGAGTTTATCG
64 TAGGTG-TAAGAG-GTTTACCG
* * * * * * * * *
395091 GGGACTAAGCCAACAAGTAAACAATGAGGTGAAGGTCGACTAGAGACTGAGCTGACAGGTCACCA
1 AGGACTGAGCCGA-TAGTAAACAA-GAGATAAAGTTTGACTGGAGACTGAGCTGACAGGTCACCA
*
395156 TAGGTGTAAG-GTGTTTA-CT
64 TAGGTGTAAGAG-GTTTACCG
* * *
395175 AGGGACTAAGCCGATGAGTGAACAATGAGATAAAGTTTAACTGGAGACTGAGCTGACAGGTCACC
1 A-GGACTGAGCCGAT-AGTAAACAA-GAGATAAAGTTTGACTGGAGACTGAGCTGACAGGTCACC
395240 ATAGGTGTAAGAGGTTTACCG
63 ATAGGTGTAAGAGGTTTACCG
** * * * * * * * *
395261 AGGACTGAGAGGATAAGTAAACAAGGGATGAAGGGTTGA-TCGGGGACTAAGTTGATAGGTTACC
1 AGGACTGAGCCGAT-AGTAAACAAGAGAT-AAAGTTTGACT-GGAGACTGAGCTGACAGGTCACC
* *
395325 AAAAGG-GTAAGGGGTTTACCG
63 -ATAGGTGTAAGAGGTTTACCG
* * * * * **
395346 AGGACTGAGTCGATAGGTAAACAAGAAGATGAAGTTTGACTGGAGACTTAGTTGACAAGTCATAA
1 AGGACTGAGCCGATA-GTAAACAAG-AGATAAAGTTTGACTGGAGACTGAGCTGACAGGTCACCA
* *
395411 TAAGTGCAAGAGGTTTACCG
64 TAGGTGTAAGAGGTTTACCG
395431 AGGACTGAGCC
1 AGGACTGAGCC
395442 AATGGGTAAA
Statistics
Matches: 336, Mismatches: 80, Indels: 40
0.74 0.18 0.09
Matches are distributed among these distances:
83 1 0.00
84 18 0.05
85 297 0.88
86 20 0.06
ACGTcount: A:0.34, C:0.14, G:0.32, T:0.20
Consensus pattern (83 bp):
AGGACTGAGCCGATAGTAAACAAGAGATAAAGTTTGACTGGAGACTGAGCTGACAGGTCACCATA
GGTGTAAGAGGTTTACCG
Found at i:395282 original size:170 final size:170
Alignment explanation
Indices: 395105--395439 Score: 360
Period size: 170 Copynumber: 2.0 Consensus size: 170
395095 CTAAGCCAAC
* *
395105 AAGTAAACAATGAGG-TGAA-GGTCGA-CTAGAGACTGAGCTGACAGGTCACC-ATAGGTGTAAG
1 AAGTAAACAA-G-GGATGAAGGGTCGATC-AGAGACTAAGCTGACAGGTCACCAAAAGG-GTAAG
* *
395166 GTGTTTACTAG-GGACTAAGCCGAT-GAGTGAACAATG-AGATAAAGTTTAACTGGAGACTGAGC
62 GGGTTTAC-AGAGGACTAAGCCGATAG-GTAAACAA-GAAGATAAAGTTTAACTGGAGACTGAGC
* * * *
395228 TGACAGGTCACCATAGGTGTAAGAGGTTTACCGAGGACTGAGAGGAT
124 TGACAAGTCACAATAAGTGCAAGAGGTTTACCGAGGACTGAGAGGAT
* * * * * *
395275 AAGTAAACAAGGGATGAAGGGTTGATCGGGGACTAAGTTGATAGGTTACCAAAAGGGTAAGGGGT
1 AAGTAAACAAGGGATGAAGGGTCGATCAGAGACTAAGCTGACAGGTCACCAAAAGGGTAAGGGGT
* * * * * * *
395340 TTACCGAGGACTGAGTCGATAGGTAAACAAGAAGATGAAGTTTGACTGGAGACTTAGTTGACAAG
66 TTACAGAGGACTAAGCCGATAGGTAAACAAGAAGATAAAGTTTAACTGGAGACTGAGCTGACAAG
*
395405 TCATAATAAGTGCAAGAGGTTTACCGAGGACTGAG
131 TCACAATAAGTGCAAGAGGTTTACCGAGGACTGAG
395440 CCAATGGGTA
Statistics
Matches: 136, Mismatches: 22, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
168 2 0.01
169 7 0.05
170 121 0.89
171 6 0.04
ACGTcount: A:0.34, C:0.13, G:0.32, T:0.21
Consensus pattern (170 bp):
AAGTAAACAAGGGATGAAGGGTCGATCAGAGACTAAGCTGACAGGTCACCAAAAGGGTAAGGGGT
TTACAGAGGACTAAGCCGATAGGTAAACAAGAAGATAAAGTTTAACTGGAGACTGAGCTGACAAG
TCACAATAAGTGCAAGAGGTTTACCGAGGACTGAGAGGAT
Found at i:396592 original size:16 final size:15
Alignment explanation
Indices: 396571--396600 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
396561 ATTAGCCCAA
396571 CAAGATCAAGGTTCAT
1 CAAGATCAA-GTTCAT
396587 CAAGATCAAGTTCA
1 CAAGATCAAGTTCA
396601 AGAGGATGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.40, C:0.20, G:0.17, T:0.23
Consensus pattern (15 bp):
CAAGATCAAGTTCAT
Found at i:397352 original size:12 final size:12
Alignment explanation
Indices: 397335--397393 Score: 50
Period size: 12 Copynumber: 4.8 Consensus size: 12
397325 CAATATGCCC
397335 CTTTTTCTTTAT
1 CTTTTTCTTTAT
*
397347 CTTTTTCTTAAT
1 CTTTTTCTTTAT
397359 -TTTTCATCTTT-T
1 CTTTT--TCTTTAT
* *
397371 CTTTTGCTTTTT
1 CTTTTTCTTTAT
397383 CTGTTTTCTTT
1 CT-TTTTCTTT
397394 CTTTATCTCA
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
11 8 0.21
12 15 0.39
13 15 0.39
ACGTcount: A:0.07, C:0.17, G:0.03, T:0.73
Consensus pattern (12 bp):
CTTTTTCTTTAT
Found at i:403561 original size:20 final size:20
Alignment explanation
Indices: 403536--403591 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
403526 CTGCCAAGGA
403536 AATGTATCGATACATTATTC
1 AATGTATCGATACATTATTC
*
403556 AATGTATCAATACATTATTC
1 AATGTATCGATACATTATTC
* *
403576 AATGTGTTGATACATT
1 AATGTATCGATACATT
403592 GTATCGATAC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.41
Consensus pattern (20 bp):
AATGTATCGATACATTATTC
Found at i:404555 original size:21 final size:22
Alignment explanation
Indices: 404521--404561 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
404511 TCATGTTAAC
404521 AGCTCATGATTCATGCATTTTG
1 AGCTCATGATTCATGCATTTTG
*
404543 AGCT-ATGTTTCATGCATTT
1 AGCTCATGATTCATGCATTT
404562 ACAGCATGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.22, C:0.17, G:0.17, T:0.44
Consensus pattern (22 bp):
AGCTCATGATTCATGCATTTTG
Found at i:405317 original size:11 final size:10
Alignment explanation
Indices: 405293--405326 Score: 50
Period size: 10 Copynumber: 3.2 Consensus size: 10
405283 CCAGCAGACG
405293 ATTTTTCCAA
1 ATTTTTCCAA
405303 ATTTTTCCAA
1 ATTTTTCCAA
405313 CATTTTTCCTAA
1 -ATTTTTCC-AA
405325 AT
1 AT
405327 GGCACATGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 10 0.45
11 10 0.45
12 2 0.09
ACGTcount: A:0.29, C:0.21, G:0.00, T:0.50
Consensus pattern (10 bp):
ATTTTTCCAA
Found at i:406770 original size:20 final size:20
Alignment explanation
Indices: 406745--406798 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
406735 GTTAGAAGCA
* *
406745 ATGTATCGATACAATTCATC
1 ATGTATCGATACAATGCACC
406765 ATGTATCGATACAATGCACC
1 ATGTATCGATACAATGCACC
406785 ATGTATCGATACAA
1 ATGTATCGATACAA
406799 ATAGTGGTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.37, C:0.20, G:0.13, T:0.30
Consensus pattern (20 bp):
ATGTATCGATACAATGCACC
Found at i:406871 original size:19 final size:19
Alignment explanation
Indices: 406827--406914 Score: 89
Period size: 19 Copynumber: 4.9 Consensus size: 19
406817 CTGCCAGTTT
* **
406827 CATGTATTGATACAATTGTC
1 CATGTATCGATACAA-TGAA
406847 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
406866 CATGTATCGATAC-----A
1 CATGTATCGATACAATGAA
*
406880 -ATGTATTGATACAATGAA
1 CATGTATCGATACAATGAA
406898 CATGTATCGATACAATG
1 CATGTATCGATACAATG
406915 TATCGATACA
Statistics
Matches: 57, Mismatches: 5, Indels: 13
0.76 0.07 0.17
Matches are distributed among these distances:
13 11 0.19
14 1 0.02
18 1 0.02
19 30 0.53
20 14 0.25
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:406885 original size:13 final size:13
Alignment explanation
Indices: 406867--406925 Score: 60
Period size: 13 Copynumber: 5.1 Consensus size: 13
406857 TACAATGAAC
406867 ATGTATCGATACA
1 ATGTATCGATACA
*
406880 ATGTATTGATAC-
1 ATGTATCGATACA
406892 A---AT-GA-AC-
1 ATGTATCGATACA
406899 ATGTATCGATACA
1 ATGTATCGATACA
406912 ATGTATCGATACA
1 ATGTATCGATACA
406925 A
1 A
406926 AGCATATTGT
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
7 3 0.08
8 2 0.05
9 2 0.05
10 2 0.05
11 2 0.05
12 3 0.08
13 25 0.64
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:406891 original size:32 final size:32
Alignment explanation
Indices: 406848--406944 Score: 149
Period size: 32 Copynumber: 3.0 Consensus size: 32
406838 ACAATTGTCC
406848 ATGTATCGATACAATGAACATGTATCGATACA
1 ATGTATCGATACAATGAACATGTATCGATACA
*
406880 ATGTATTGATACAATGAACATGTATCGATACA
1 ATGTATCGATACAATGAACATGTATCGATACA
* * *
406912 ATGTATCGATACAAAGCATATTGTATCGATACA
1 ATGTATCGATACAATGAACA-TGTATCGATACA
406945 TCTGGGTGTG
Statistics
Matches: 59, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
32 47 0.80
33 12 0.20
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.30
Consensus pattern (32 bp):
ATGTATCGATACAATGAACATGTATCGATACA
Found at i:414898 original size:13 final size:13
Alignment explanation
Indices: 414879--414909 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
414869 GCAATTCATC
414879 ATGTATCGATACA
1 ATGTATCGATACA
*
414892 TTGTATCGATACA
1 ATGTATCGATACA
414905 ATGTA
1 ATGTA
414910 CCATGTATCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:414998 original size:19 final size:19
Alignment explanation
Indices: 414954--415009 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
414944 CTGCCAATTT
**
414954 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
414974 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
414993 CATGTATCGATACAATG
1 CATGTATCGATACAATG
415010 TATCGATACA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
19 19 0.56
20 15 0.44
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:415012 original size:13 final size:13
Alignment explanation
Indices: 414994--415020 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
414984 TACAATGAAC
414994 ATGTATCGATACA
1 ATGTATCGATACA
415007 ATGTATCGATACA
1 ATGTATCGATACA
415020 A
1 A
415021 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:415776 original size:21 final size:22
Alignment explanation
Indices: 415750--415795 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 22
415740 ATCACACATC
415750 CAAGGTTGAAAT-ATGCAA-AAA
1 CAAGGTTGAAATCA-GCAAGAAA
415771 CAAGGTTGAAATCAGCAAGAAA
1 CAAGGTTGAAATCAGCAAGAAA
415793 CAA
1 CAA
415796 AATTAAAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 16 0.70
22 7 0.30
ACGTcount: A:0.52, C:0.13, G:0.20, T:0.15
Consensus pattern (22 bp):
CAAGGTTGAAATCAGCAAGAAA
Found at i:416530 original size:166 final size:166
Alignment explanation
Indices: 416297--416720 Score: 532
Period size: 166 Copynumber: 2.6 Consensus size: 166
416287 AAGAGATTTC
* * * * **
416297 GGAAAAAAAGGAAAAACTCAAGAGAATGAATGAATTTTTGAAAAATGATTTAATATGAAACAAAT
1 GGAAAAAAATGAAAAACTCATGAAAATGAGTGAATTTTTGAAAAATGATTTAATATGAATTAAAT
* ** * *
416362 AATAATATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAAATTCCTTTAAAAAAATTACGAAG
66 AATAATATTTGATGAATTTTAAAAATTAAAAACCAAG-AAAAATTCCCCTAAAAAAATAACAAAG
*
416427 TGAAAAACTCCATATTTCAGAAATAAGGGAATTCCAA
130 TGAAAAACTCCATATTTCAGAAATAAGAGAATTCCAA
** * * *
416464 -GAAAATATTTG-AAAATTCATGAAAATGAGTGAATTTTTGAAAACTGATTTACTATGAATTAAA
1 GGAAAA-AAATGAAAAACTCATGAAAATGAGTGAATTTTTGAAAAATGATTTAATATGAATTAAA
*
416527 TAATAATATTTAATGAATTTTAAAAATTAAAAACCAAGAAAAATTCCCCTAAAAAAATAACAAAG
65 TAATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATTCCCCTAAAAAAATAACAAAG
* * * **
416592 TGGAAAACTCCGTATTTTAGAAATAAGAGAATTTTAA
130 TGAAAAACTCCATATTTCAGAAATAAGAGAATTCCAA
* * * *
416629 GGAAAAAAATGAAAAACTCATGAAGATGAGT-ATACTTTTT-AAAAATAATTTAAAATAAATTAA
1 GGAAAAAAATGAAAAACTCATGAAAATGAGTGA-A-TTTTTGAAAAATGATTTAATATGAATTAA
*
416692 ATAATAATATTTGATGAAATTTAAAAATT
64 ATAATAATATTTGATGAATTTTAAAAATT
416721 TTAAACCCAT
Statistics
Matches: 218, Mismatches: 34, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
165 58 0.27
166 153 0.70
167 7 0.03
ACGTcount: A:0.52, C:0.07, G:0.11, T:0.29
Consensus pattern (166 bp):
GGAAAAAAATGAAAAACTCATGAAAATGAGTGAATTTTTGAAAAATGATTTAATATGAATTAAAT
AATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATTCCCCTAAAAAAATAACAAAGT
GAAAAACTCCATATTTCAGAAATAAGAGAATTCCAA
Found at i:417583 original size:13 final size:13
Alignment explanation
Indices: 417565--417590 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
417555 CAATTTTTTG
417565 TGTATCGATACAT
1 TGTATCGATACAT
417578 TGTATCGATACAT
1 TGTATCGATACAT
417591 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:418339 original size:21 final size:21
Alignment explanation
Indices: 418298--418341 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
418288 CTCCCCTTTA
* *
418298 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
418319 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
418340 TC
1 TC
418342 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:420161 original size:13 final size:13
Alignment explanation
Indices: 420143--420181 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
420133 ATAATCACCC
420143 TGTATCGATACAA
1 TGTATCGATACAA
*
420156 TGTATCTATACAA
1 TGTATCGATACAA
420169 TGTATCGATACAA
1 TGTATCGATACAA
420182 GGAAAAAATG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:425062 original size:52 final size:52
Alignment explanation
Indices: 424977--425101 Score: 223
Period size: 52 Copynumber: 2.4 Consensus size: 52
424967 ATATGAAAAG
* *
424977 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
*
425029 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
425081 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
425102 AAGATCAGTG
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
Found at i:425114 original size:52 final size:51
Alignment explanation
Indices: 424977--425121 Score: 211
Period size: 52 Copynumber: 2.8 Consensus size: 51
424967 ATATGAAAAG
*
424977 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
* *
425029 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
*
425081 TTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
425122 ATGTATCGAT
Statistics
Matches: 85, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
51 2 0.02
52 83 0.98
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAAT
Found at i:425128 original size:13 final size:13
Alignment explanation
Indices: 425110--425134 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
425100 CAAAGATCAG
425110 TGTATCGATACAA
1 TGTATCGATACAA
425123 TGTATCGATACA
1 TGTATCGATACA
425135 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:425215 original size:33 final size:33
Alignment explanation
Indices: 425173--425242 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
425163 GGCAGTAGCT
425173 TACATTGTATCGATACAAAAAAATATGTATCGA
1 TACATTGTATCGATACAAAAAAATATGTATCGA
* ***
425206 TACATTGTATCGATACAACATTTTATGTATCGA
1 TACATTGTATCGATACAAAAAAATATGTATCGA
425239 TACA
1 TACA
425243 AATCATTGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.34
Consensus pattern (33 bp):
TACATTGTATCGATACAAAAAAATATGTATCGA
Found at i:425216 original size:13 final size:13
Alignment explanation
Indices: 425198--425222 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
425188 CAAAAAAATA
425198 TGTATCGATACAT
1 TGTATCGATACAT
425211 TGTATCGATACA
1 TGTATCGATACA
425223 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:426112 original size:169 final size:171
Alignment explanation
Indices: 425819--426205 Score: 426
Period size: 169 Copynumber: 2.3 Consensus size: 171
425809 GTCTTGCAGT
* * * * * * *
425819 GTGCCACTGTGCAGATTCAAGGCCTGCCACACTAGACTTAAAGATGATGAGGATGAAGAGCAATG
1 GTGCCAATGTGCTGATTCAAGGCCAGCCACATTGGACTTAAAGATGAAGAGGATGAAAAGCAATG
* *
425884 AAAGGACCAATACGTTGATTCACGGCCAACGATATTGGGTTTAGAGATGAGAAAAAGGA-TAAAG
66 AAAGGACCAATACGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGAGTAAAG
* * *
425948 GAGCCAATATGC-GGCTAGCGATATTGGACTTAAAGAT-AAAG
131 GAGCCAAT-T-CAGGCCAGCGACATTGAACTTAAAGATGAAAG
* * **
425989 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGATGA-GAAAAGTGAT-
1 GTGCCAATGTGCTGATTCAAGGCCAGCCACATTGGACTTAAAGATGAAGAGGATGAAAAGCAATG
* *
426052 AAA-GATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGTC
66 AAAGGA--CCAATACGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGA-GTA
* * ** *
426116 AATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAG
128 AAGGAGCCAATTC-AGGCCAGCGACATTGAACTTAAAGAT-G-AAAG
* * *
426163 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
1 GTGCCAATGTGCTGATTCAAGGCCAGCCACATTGGACTTAAAG
426206 GTGCCAATGT
Statistics
Matches: 182, Mismatches: 26, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
167 2 0.01
168 3 0.02
169 58 0.32
170 46 0.25
171 29 0.16
174 44 0.24
ACGTcount: A:0.36, C:0.16, G:0.26, T:0.22
Consensus pattern (171 bp):
GTGCCAATGTGCTGATTCAAGGCCAGCCACATTGGACTTAAAGATGAAGAGGATGAAAAGCAATG
AAAGGACCAATACGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGAGTAAAG
GAGCCAATTCAGGCCAGCGACATTGAACTTAAAGATGAAAG
Found at i:426206 original size:22 final size:22
Alignment explanation
Indices: 426181--426249 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 22
426171 ATGCTGATTC
426181 AAGGCCAGCTATATTGGACTTA
1 AAGGCCAGCTATATTGGACTTA
* * *
426203 AAGG--TGCCA-ATGTGCTGA-TTC
1 AAGGCCAGCTATAT-TG--GACTTA
426224 AAGGCCAGCTATATTGGACTTA
1 AAGGCCAGCTATATTGGACTTA
426246 AAGG
1 AAGG
426250 TGCCAATGTG
Statistics
Matches: 34, Mismatches: 6, Indels: 14
0.63 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 8 0.24
22 12 0.35
23 5 0.15
24 2 0.06
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.26
Consensus pattern (22 bp):
AAGGCCAGCTATATTGGACTTA
Found at i:426227 original size:21 final size:21
Alignment explanation
Indices: 426203--426270 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
426193 ATTGGACTTA
426203 AAGGTGCCAATGTGCTGATTC
1 AAGGTGCCAATGTGCTGATTC
* * *
426224 AAGGCCAGCTATAT-TG--GACTTA
1 AAGG--TGCCA-ATGTGCTGA-TTC
426246 AAGGTGCCAATGTGCTGATTC
1 AAGGTGCCAATGTGCTGATTC
426267 AAGG
1 AAGG
426271 CCAGCTACAT
Statistics
Matches: 34, Mismatches: 6, Indels: 14
0.63 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 12 0.35
22 8 0.24
23 5 0.15
24 2 0.06
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (21 bp):
AAGGTGCCAATGTGCTGATTC
Found at i:426254 original size:24 final size:24
Alignment explanation
Indices: 426184--426254 Score: 62
Period size: 24 Copynumber: 3.2 Consensus size: 24
426174 CTGATTCAAG
426184 GCCAGCTATATTGGACTTAAAGGT
1 GCCAGCTATATTGGACTTAAAGGT
* * ** *
426208 GCCA-ATGTGCT-GA-TTCAA-G-
1 GCCAGCTATATTGGACTTAAAGGT
426227 GCCAGCTATATTGGACTTAAAGGT
1 GCCAGCTATATTGGACTTAAAGGT
426251 GCCA
1 GCCA
426255 ATGTGCTGAT
Statistics
Matches: 32, Mismatches: 10, Indels: 10
0.62 0.19 0.19
Matches are distributed among these distances:
19 4 0.12
20 4 0.12
21 6 0.19
22 6 0.19
23 4 0.12
24 8 0.25
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (24 bp):
GCCAGCTATATTGGACTTAAAGGT
Found at i:426322 original size:49 final size:47
Alignment explanation
Indices: 426115--427131 Score: 1064
Period size: 49 Copynumber: 21.8 Consensus size: 47
426105 AAAAGGATGT
* * *
426115 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAA-A---AGAA-GTGC
*
426167 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT--AAAG--GTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAAAGAAGTGC
426210 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTT--AAAG--GTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAAAGAAGTGC
*
426253 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAA-AAGAAG-TGC
*
426302 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT--AAAG--GTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAAAGAAGTGC
* * * *
426345 CAATGTTCTGATTCAAGGCTAGCTACATTGGACTTAAAGATGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAA-AAGAAG-TGC
* * * *
426394 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAGTGAAGGGGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAA-AGAA-GTGC
* * * *
426443 CAATGTGCTGAGTCATGGCCAGCTACATTGGTCTTAAAGATA-AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAA-A-AGAA-GTGC
*
426492 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT--AAAG-A-TGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAAAGAAGTGC
* * *
426535 CAATGTGTTGAGTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAA-AAGAA-GTGC
*
426584 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAA-AAGAAG-TGC
*
426633 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT--AAAG--GTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAAAGAAGTGC
* * *
426676 CAATGTTCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTT-AA-A--AAGAA-GTGC
* * *
426728 CAATATGCTTATTCAAGGCCAACTATATTGGACTT--AAAG--GTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAAAGAAGTGC
* * *
426771 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAA-AAGAAG-TGC
* *
426820 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT---AA-AAGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAAAGAAGTGC
* *
426863 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAA-AAGAA-GTGC
* *
426912 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT---AA-AAGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAAAGAAGTGC
* *
426955 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAA-AAGAA-GTGC
** *
427004 CAACATGCTGATTCAAGGCCAGCGATATTGGACTT---AA-AAGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAAAGAAGTGC
* *
427047 CAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAAGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAA-AGAA-GTGC
* *
427096 CAATATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTA
427132 GAAGGGTTGC
Statistics
Matches: 822, Mismatches: 87, Indels: 115
0.80 0.08 0.11
Matches are distributed among these distances:
43 326 0.40
44 9 0.01
45 9 0.01
46 20 0.02
47 7 0.01
48 12 0.01
49 370 0.45
50 3 0.00
52 66 0.08
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.26
Consensus pattern (47 bp):
CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAAAGAAGTGC
Found at i:426342 original size:92 final size:89
Alignment explanation
Indices: 426158--427131 Score: 1042
Period size: 92 Copynumber: 10.5 Consensus size: 89
426148 TTAAAGATGG
426158 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG--GTGCCAATGTGCTGA
1 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAAGTGCCAATGTGCTGA
*
426221 TTCAAGGCCAGCTATATTGGACTT
66 TTCAAGGCCAGCTACATTGGACTT
* * *
426245 -AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGATGCCAATATG
1 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT--A-AAGAAG-TGCCAATGTG
*
426309 CTGATTCAAGGCCAGCTATATTGGACTT
62 CTGATTCAAGGCCAGCTACATTGGACTT
* * * * *
426337 -AAAGGTGCCAATGTTCTGATTCAAGGCTAGCTACATTGGACTTAAAGATGAAGATGCCAATATG
1 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT-AA-A-GAAG-TGCCAATGTG
* *
426401 CTGATTCAAGGCCAGCGATATTGGACTT
62 CTGATTCAAGGCCAGCTACATTGGACTT
* * * * * *
426429 AAAAGTGAAGGGGCCAATGTGCTGAGTCATGGCCAGCTACATTGGTCTTAAAGATAAAGGTGCCA
1 --AA---AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG---AA-GTGCCA
* *
426494 ATATGCTGATTCAAGGCCAGCTATATTGGACTT
57 ATGTGCTGATTCAAGGCCAGCTACATTGGACTT
* * * *
426527 -AAAGATGCCAATGTGTTGAGTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTG
1 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT-AA-A-GAA-GTGCCAATGTG
426591 CTGATTCAAGGCCAGCTACATTGGACTT
62 CTGATTCAAGGCCAGCTACATTGGACTT
426619 AAAGAAGAAGATGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG--GTGCCAATGT
1 -AA-AAG--G-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAAGTGCCAATGT
*
426682 TCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT
61 GCTGATTCAAGGCCAGCTACATTGGAC-T-----T
* *
426717 GAAAAAGGTGCCAATATGCTTATTCAAGGCCAACTATATTGGACTTAAAG--GTGCCAATGTGCT
1 --AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAAGTGCCAATGTGCT
*
426780 GAGTCAAGGCCAGCTACATTGGACTT
64 GATTCAAGGCCAGCTACATTGGACTT
*
426806 AAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AA-AAGTGCCAATGT
1 AAA-A-G--G-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAAGTGCCAATGT
426869 GCTGATTCAAGGCCAGCTACATTGGACTT
61 GCTGATTCAAGGCCAGCTACATTGGACTT
*
426898 AAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AA-AAGTGCCAATGT
1 --A-A--AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAAGTGCCAATGT
426961 GCTGATTCAAGGCCAGCTACATTGGACTT
61 GCTGATTCAAGGCCAGCTACATTGGACTT
* *
426990 AAAGATGAAGGTGCCAACATGCTGATTCAAGGCCAGCGATATTGGACTT-AA-AAGTGCCAATGT
1 --A-A--AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAAGTGCCAATGT
* *
427053 GCTGATTCAAGGCCAGCGATATTGGACTT
61 GCTGATTCAAGGCCAGCTACATTGGACTT
*
427082 AAAAGTGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 --AA---AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTA
427132 GAAGGGTTGC
Statistics
Matches: 799, Mismatches: 40, Indels: 90
0.86 0.04 0.10
Matches are distributed among these distances:
86 41 0.05
87 3 0.00
88 2 0.00
89 5 0.01
90 1 0.00
91 8 0.01
92 519 0.65
93 4 0.01
94 4 0.01
95 85 0.11
96 4 0.01
97 5 0.01
98 114 0.14
99 4 0.01
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.26
Consensus pattern (89 bp):
AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAAGTGCCAATGTGCTGA
TTCAAGGCCAGCTACATTGGACTT
Found at i:426532 original size:141 final size:137
Alignment explanation
Indices: 426110--427131 Score: 1176
Period size: 141 Copynumber: 7.3 Consensus size: 137
426100 TGAGAAAAAG
* * *
426110 GATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAATATGC
1 GATGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT-G--AAGGTGCCAATATGC
*
426175 TGATTCAAGGCCAGCTATATTGGAC-T-TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATAT
63 TGATTCAAGGCCAGCTACATTGGACTTATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATAT
426238 TGGACTTAAA
128 TGGACTTAAA
* * * *
426248 GGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGATGCCAATATGCTGA
1 GATGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATATGCTGA
* * * *
426313 TTCAAGGCCAGCTATATTGGAC-T-TAAAGGTGCCAATGTTCTGATTCAAGGCTAGCTACATTGG
66 TTCAAGGCCAGCTACATTGGACTTATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGG
426376 ACTTAAAGATGAA
131 ACTT----A--AA
* * * *
426389 GATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA-AGTGAAGGGGCCAATGTGCTG
1 GATGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGA-TGAAGGTGCCAATATGCTG
* * * *
426453 AGTCATGGCCAGCTACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTAT
65 ATTCAAGGCCAGCTACATTGGACTT----ATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTAT
426518 ATTGGACTTAAA
126 ATTGGACTTAAA
* * *
426530 GATGCCAATGTGTTGAGTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGA
1 GATGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATATGCTGA
* *
426595 TTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGATGCCAATATGCTGATTCAAGGCCAGCTATA
66 TTCAAGGCCAGCTACATTGGACTTATA-AAG--G-TGCCAATGTGCTGATTCAAGGCCAGCTATA
426660 TTGGACTTAAA
127 TTGGACTTAAA
* * *
426671 GGTGCCAATGTTCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAAAAGGTGCCAATATGC
1 GATGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG---AAGGTGCCAATATGC
* * * * *
426736 TTATTCAAGGCCAACTATATTGGAC-T-TAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACAT
63 TGATTCAAGGCCAGCTACATTGGACTTATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATAT
426799 TGGACTTAAAGATGAA
128 TGGACTT----A--AA
* * *
426815 GATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT--A-A--AA-GTGCCAATGTGCTGA
1 GATGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATATGCTGA
* * *
426874 TTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATA
66 TTCAAGGCCAGCTACATTGGACTT----ATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATA
426939 TTGGACTTAAA
127 TTGGACTTAAA
* *
426950 -AGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAACATGCTG
1 GA-TGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATATGCTG
* * *
427014 ATTCAAGGCCAGCGATATTGGACTTA-AAA-GTGCCAATGTGCTGATTCAAGGCCAGCGATATTG
65 ATTCAAGGCCAGCTACATTGGACTTATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTG
427077 GACTTAAAA
130 GACTT-AAA
* *
427086 GTGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 --G-A--TGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTA
427132 GAAGGGTTGC
Statistics
Matches: 766, Mismatches: 72, Indels: 89
0.83 0.08 0.10
Matches are distributed among these distances:
134 1 0.00
135 189 0.25
136 8 0.01
137 6 0.01
138 81 0.11
139 2 0.00
140 5 0.01
141 354 0.46
142 5 0.01
143 2 0.00
144 73 0.10
147 40 0.05
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.26
Consensus pattern (137 bp):
GATGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATATGCTGA
TTCAAGGCCAGCTACATTGGACTTATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGG
ACTTAAA
Found at i:427174 original size:31 final size:28
Alignment explanation
Indices: 427152--427229 Score: 75
Period size: 33 Copynumber: 2.5 Consensus size: 28
427142 CACCGACTTG
*
427152 TGTGGGCTTTAGAAAGAGTGCCACGGAGT
1 TGTGGGCTTTA-AAAGAGTGCCACCGAGT
*
427181 TGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTAAAAG----A-GTGCCACCGAGT
427214 TGTGGGCTTTGAAAAG
1 TGTGGGCTTT-AAAAG
427230 GGAAAAAGAG
Statistics
Matches: 43, Mismatches: 0, Indels: 7
0.86 0.00 0.14
Matches are distributed among these distances:
28 4 0.09
29 11 0.26
32 1 0.02
33 22 0.51
34 5 0.12
ACGTcount: A:0.28, C:0.12, G:0.36, T:0.24
Consensus pattern (28 bp):
TGTGGGCTTTAAAAGAGTGCCACCGAGT
Found at i:427257 original size:37 final size:34
Alignment explanation
Indices: 427164--427736 Score: 454
Period size: 34 Copynumber: 18.1 Consensus size: 34
427154 TGGGCTTTAG
427164 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAA
427198 AAAG-GTGCCACGGAGTTGTGGGCTTTGAAAAGGGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTT-AAAA--GAA
*
427234 AAAGAGTGCCACGGAGTTATGGGCTTT-----AA
1 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAA
427263 AAAGAGTGCCACGGAGTTGTGGGCTTT-----AA
1 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAA
427292 AAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTT-AAAA--GAA
427329 AAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTT-AAAAGAA
*
427364 GAAG-GTGCCACGGAGTTGTGGGC-TTAAAAG--
1 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAA
* *
427394 ---G-GTGCCACGGAGTTGTGGACTTAAAAATGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAA-GAA
427425 AAA-AGTGCCACGGAGTTGTGGGC-TTAAAAG--
1 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAA
* * *
427455 ---G-GTGCCACGGAGTGGTGGAC-TTAAAGCTGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTTAAA--AGAA
427486 AAA-AGTGCCACGGAGTTGTGGGC-TTAAAAG--
1 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAA
*
427516 ---G-GTGCCACGGAGTTGTGGAC-TTAAAGATGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTTAAA-A-GAA
427547 AAA-AGTGCCACGGAGTTGTGGGC-TTAAAAG--
1 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAA
427577 ---G-GTGCCACGGAGTTGTGGGCTTTGAAAAG--
1 AAAGAGTGCCACGGAGTTGTGGGCTTT-AAAAGAA
* * *
427606 -AAG-GTGCGACGGAGTCGTGGACTTTAAAAG--
1 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAA
*
427636 ---G-GTGCCACGGAGTTGTGGAC-TTAAAGATGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTTAAA-A-GAA
*
427667 AAA-AGTGCCACGGAGTTGTGGGC-TGAAAAGGGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAA--GAA
*
427701 AAAGAGTGCCACGGAGTTGTGGGCTTT-GAAGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAA
427734 AAA
1 AAA
427737 CGCCACTGAG
Statistics
Matches: 460, Mismatches: 25, Indels: 109
0.77 0.04 0.18
Matches are distributed among these distances:
27 88 0.19
28 27 0.06
29 66 0.14
30 5 0.01
31 20 0.04
32 8 0.02
33 37 0.08
34 118 0.26
35 28 0.06
36 8 0.02
37 55 0.12
ACGTcount: A:0.31, C:0.13, G:0.36, T:0.21
Consensus pattern (34 bp):
AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAA
Found at i:427331 original size:66 final size:68
Alignment explanation
Indices: 427169--427727 Score: 361
Period size: 61 Copynumber: 8.8 Consensus size: 68
427159 TTTAGAAAGA
427169 GTGCCACGGAGTTGTGGGCTTTAAAA--GAAAAAG-GTGCCACGGAGTTGTGGGCTTTGAAAAGG
1 GTGCCACGGAGTTGTGGGC-TTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAA--
*
427231 GAAAAAG
62 GAAGAAG
* *
427238 AGTGCCACGGAGTTATGGGCTT------TAAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAA-AA
1 -GTGCCACGGAGTTGTGGGCTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAA
427295 G-A-
65 GAAG
427297 GTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAG
1 GTGCCACGGAGTTGTGGGC-TT-AAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAAG
427362 AAGAAG
63 AAGAAG
* *
427368 GTGCCACGGAGTTGTGGGCTTAAAA--G-----G-GTGCCACGGAGTTGTGGACTTAAAAATGAA
1 GTGCCACGGAGTTGTGGGCTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAA-GAA
* *
427425 AAAA
65 GAAG
* * *
427429 GTGCCACGGAGTTGTGGGCTTAAAA--G-----G-GTGCCACGGAGTGGTGGAC-TTAAAGCTGA
1 GTGCCACGGAGTTGTGGGCTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA--AGA
* *
427485 AAAAA
64 AGAAG
*
427490 GTGCCACGGAGTTGTGGGCTTAAAA--G-----G-GTGCCACGGAGTTGTGGAC-TTAAAGATGA
1 GTGCCACGGAGTTGTGGGCTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA-A-GA
* *
427546 AAAAA
64 AGAAG
*
427551 GTGCCACGGAGTTGTGGGCTTAAAA--G-----G-GTGCCACGGAGTTGTGGGCTTT-GAA-AAG
1 GTGCCACGGAGTTGTGGGCTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAG
427606 AAG
66 AAG
* * * *
427609 GTGCGACGGAGTCGTGGACTTTAAAA--G-----G-GTGCCACGGAGTTGTGGAC-TTAAAGATG
1 GTGCCACGGAGTTGTGGGC-TTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA-A-G
* *
427665 AAAAAA
63 AAGAAG
*
427671 GTGCCACGGAGTTGTGGGCTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
1 GTGCCACGGAGTTGTGGGCTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
427728 GAAGAAAAAC
Statistics
Matches: 425, Mismatches: 31, Indels: 66
0.81 0.06 0.13
Matches are distributed among these distances:
58 40 0.09
59 29 0.07
60 11 0.03
61 187 0.44
62 23 0.05
63 1 0.00
64 3 0.01
65 6 0.01
66 51 0.12
67 1 0.00
68 4 0.01
69 27 0.06
70 23 0.05
71 19 0.04
ACGTcount: A:0.30, C:0.13, G:0.36, T:0.21
Consensus pattern (68 bp):
GTGCCACGGAGTTGTGGGCTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAG
AAG
Found at i:427336 original size:95 final size:95
Alignment explanation
Indices: 427152--427727 Score: 535
Period size: 95 Copynumber: 6.1 Consensus size: 95
427142 CACCGACTTG
* *
427152 TGTGGGCTTTAGAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGT
1 TGTGGGCTTTAAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAA-AAAGA-GTGCCACGGAGTTGT
427217 GGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGT
63 GGGC-TTGAAAAGGGAAAAAGAGTGCCACGGAGT
*
427251 TATGGGCTTTAAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAAAGAGTGCCACGGAGTTGTGGG
1 TGTGGGCTTTAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAAGAGTGCCACGGAGTTGTGGG
427315 CTTTGAAAAGGGAAAAAGAGTGCCACGGAGT
66 C-TTGAAAAGGGAAAAAGAGTGCCACGGAGT
*
427346 TGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGC-TT--AAAAGGGTGCCACGGAGTT
1 TGTGGGCTTT--AAA-AAG-A-GTGCCACGGAGTTGTGGGCTTTAAAAAAGAGTGCCACGGAGTT
* **
427408 GTGGACTT-AAAAATGAAAAA-AGTGCCACGGAGT
61 GTGGGCTTGAAAAGGGAAAAAGAGTGCCACGGAGT
* * * * *
427441 TGTGGGC-TT-AAAAGGGTGCCACGGAGTGGTGGACTTAAAGCTGAAAAAAGTGCCACGGAGTTG
1 TGTGGGCTTTAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA----AAAAGAGTGCCACGGAGTTG
427504 TGGGCTT-AAAA--G-----G-GTGCCACGGAGT
62 TGGGCTTGAAAAGGGAAAAAGAGTGCCACGGAGT
* *
427529 TGTGGACTTAAAGATGAAAAA-AGTGCCACGGAGTTGTGGGC-TT--AAAAGGGTGCCACGGAGT
1 TGTGGGCTT-----T-AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAAGAGTGCCACGGAGT
*
427590 TGTGGGCTTTGAAAA--G---AAG-GTGCGACGGAGT
60 TGTGGGC-TTGAAAAGGGAAAAAGAGTGCCACGGAGT
* * * * * *
427621 CGTGGACTTT-AAAAGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACGGAGTTG
1 TGTGGGCTTTAAAAAGAGTGCCACGGAGTTGTGGGCTT-TA-A--AAAAGAGTGCCACGGAGTTG
427685 TGGGC-TGAAAAGGGAAAAAGAGTGCCACGGAGT
62 TGGGCTTGAAAAGGGAAAAAGAGTGCCACGGAGT
427718 TGTGGGCTTT
1 TGTGGGCTTT
427728 GAAGAAAAAC
Statistics
Matches: 406, Mismatches: 32, Indels: 80
0.78 0.06 0.15
Matches are distributed among these distances:
85 4 0.01
86 18 0.04
87 2 0.00
88 58 0.14
89 4 0.01
90 8 0.02
91 8 0.02
92 20 0.05
93 25 0.06
94 4 0.01
95 123 0.30
96 21 0.05
97 26 0.06
98 26 0.06
99 40 0.10
100 19 0.05
ACGTcount: A:0.30, C:0.13, G:0.36, T:0.21
Consensus pattern (95 bp):
TGTGGGCTTTAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAAGAGTGCCACGGAGTTGTGGG
CTTGAAAAGGGAAAAAGAGTGCCACGGAGT
Found at i:427402 original size:27 final size:27
Alignment explanation
Indices: 427367--427660 Score: 248
Period size: 27 Copynumber: 9.9 Consensus size: 27
427357 AAAAGAAGAA
*
427367 GGTGCCACGGAGTTGTGGGCTTAAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAG
427394 GGTGCCACGGAGTTGTGGACTTAAAAATG
1 GGTGCCACGGAGTTGTGGACTT-AAAA-G
* *
427423 AAAAAAGTGCCACGGAGTTGTGGGCTTAAAAG
1 -----GGTGCCACGGAGTTGTGGACTTAAAAG
*
427455 GGTGCCACGGAGTGGTGGACTT-AAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAG
*
427481 CTGAAAAAAGTGCCACGGAGTTGTGGGCTTAAAAG
1 --G------GTGCCACGGAGTTGTGGACTTAAAAG
427516 GGTGCCACGGAGTTGTGGACTTAAAGATG
1 GGTGCCACGGAGTTGTGGACTTAAA-A-G
* *
427545 AAAAAAGTGCCACGGAGTTGTGGGCTTAAAAG
1 -----GGTGCCACGGAGTTGTGGACTTAAAAG
*
427577 GGTGCCACGGAGTTGTGGGCTTTGAAAAG
1 GGTGCCACGGAGTTGTGGAC-TT-AAAAG
* *
427606 AAGGTGCGACGGAGTCGTGGACTTTAAAAG
1 --GGTGCCACGGAGTTGTGGAC-TTAAAAG
427636 GGTGCCACGGAGTTGTGGACTTAAA
1 GGTGCCACGGAGTTGTGGACTTAAA
427661 GATGAAAAAA
Statistics
Matches: 223, Mismatches: 17, Indels: 54
0.76 0.06 0.18
Matches are distributed among these distances:
26 4 0.02
27 87 0.39
28 26 0.12
29 7 0.03
30 5 0.02
31 20 0.09
32 2 0.01
33 6 0.03
34 62 0.28
35 4 0.02
ACGTcount: A:0.29, C:0.14, G:0.36, T:0.21
Consensus pattern (27 bp):
GGTGCCACGGAGTTGTGGACTTAAAAG
Found at i:427433 original size:61 final size:61
Alignment explanation
Indices: 427328--427698 Score: 540
Period size: 61 Copynumber: 6.1 Consensus size: 61
427318 TGAAAAGGGA
* * * *
427328 AAAAGAGTGCCACGGAGTTGTGGGCTTTGAAA-A-GAAGAAGGTGCCACGGAGTTGTGGGCTT
1 AAAAGGGTGCCACGGAGTTGTGGAC-TT-AAAGATGAAAAAAGTGCCACGGAGTTGTGGGCTT
*
427389 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAATGAAAAAAGTGCCACGGAGTTGTGGGCTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACGGAGTTGTGGGCTT
* *
427450 AAAAGGGTGCCACGGAGTGGTGGACTTAAAGCTGAAAAAAGTGCCACGGAGTTGTGGGCTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACGGAGTTGTGGGCTT
427511 AAAAGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACGGAGTTGTGGGCTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACGGAGTTGTGGGCTT
* * * *
427572 AAAAGGGTGCCACGGAGTTGTGGGCTT-----TGAAAAGAAGGTGCGACGGAGTCGTGGACTTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAA-AA-GTGCCACGGAGTTGTGGGC-TT
*
427631 AAAAGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACGGAGTTGTGGGCTG
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACGGAGTTGTGGGCTT
427692 AAAAGGG
1 AAAAGGG
427699 AAAAAGAGTG
Statistics
Matches: 282, Mismatches: 18, Indels: 20
0.88 0.06 0.06
Matches are distributed among these distances:
56 6 0.02
57 2 0.01
58 16 0.06
59 31 0.11
60 3 0.01
61 200 0.71
62 16 0.06
63 2 0.01
64 6 0.02
ACGTcount: A:0.30, C:0.13, G:0.36, T:0.20
Consensus pattern (61 bp):
AAAAGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACGGAGTTGTGGGCTT
Found at i:427716 original size:35 final size:35
Alignment explanation
Indices: 427631--427725 Score: 131
Period size: 35 Copynumber: 2.7 Consensus size: 35
427621 CGTGGACTTT
* * * *
427631 AAAAGGGTGCCACGGAGTTGTGGACTTAAAGATGA
1 AAAAGAGTGCCACGGAGTTGTGGGCTAAAAGAGGA
427666 AAAA-AGTGCCACGGAGTTGTGGGCTGAAAAG-GGA
1 AAAAGAGTGCCACGGAGTTGTGGGCT-AAAAGAGGA
427700 AAAAGAGTGCCACGGAGTTGTGGGCT
1 AAAAGAGTGCCACGGAGTTGTGGGCT
427726 TTGAAGAAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
34 25 0.46
35 29 0.54
ACGTcount: A:0.33, C:0.13, G:0.37, T:0.18
Consensus pattern (35 bp):
AAAAGAGTGCCACGGAGTTGTGGGCTAAAAGAGGA
Found at i:427742 original size:30 final size:30
Alignment explanation
Indices: 427708--427881 Score: 156
Period size: 31 Copynumber: 5.7 Consensus size: 30
427698 GAAAAAGAGT
* * *
427708 GCCACGGAGTTGTGGGCTTTGAAGAAAAAC
1 GCCACTGAGTCGTGGACTTTGAAGAAAAAC
*
427738 GCCACTGAGTCGTGGACTTTG-AGACAAAAT
1 GCCACTGAGTCGTGGACTTTGAAGA-AAAAC
* *
427768 GCCACTGAGTCGTGGACTTTAAAGAAAAGGAT
1 GCCACTGAGTCGTGGACTTTGAAGAAAA--AC
* **
427800 GCCACTGAGTCGTGGACTTTG-AGCAGAGATT
1 GCCACTGAGTCGTGGACTTTGAAG-A-AAAAC
**
427831 GCCACTGAGTCGTGGACTTTG-AGAAGAGATT
1 GCCACTGAGTCGTGGACTTTGAAGAA-A-AAC
*
427862 GCCACTTAGTCGTGGACTTT
1 GCCACTGAGTCGTGGACTTT
427882 AAAAAGGTAT
Statistics
Matches: 126, Mismatches: 10, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
29 4 0.03
30 46 0.37
31 51 0.40
32 23 0.18
33 2 0.02
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (30 bp):
GCCACTGAGTCGTGGACTTTGAAGAAAAAC
Found at i:427812 original size:62 final size:61
Alignment explanation
Indices: 427707--427881 Score: 212
Period size: 62 Copynumber: 2.8 Consensus size: 61
427697 GGAAAAAGAG
* * * *
427707 TGCCACGGAGTTGTGGGCTTTGAAGAAAA-ACGCCACTGAGTCGTGGACTTTGAGACA-A-AA
1 TGCCACTGAGTCGTGGACTTT-AAGAAAAGATGCCACTGAGTCGTGGACTTTGAG-CAGAGAA
*
427767 TGCCACTGAGTCGTGGACTTTAAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAGCAGAGAT
1 TGCCACTGAGTCGTGGACTTT-AAGAAAA-GATGCCACTGAGTCGTGGACTTTGAGCAGAGAA
* * *
427830 TGCCACTGAGTCGTGGACTTTGAGAAGAGATTGCCACTTAGTCGTGGACTTT
1 TGCCACTGAGTCGTGGACTTTAAGAAAAGA-TGCCACTGAGTCGTGGACTTT
427882 AAAAAGGTAT
Statistics
Matches: 101, Mismatches: 9, Indels: 8
0.86 0.08 0.07
Matches are distributed among these distances:
60 25 0.25
61 4 0.04
62 50 0.50
63 22 0.22
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (61 bp):
TGCCACTGAGTCGTGGACTTTAAGAAAAGATGCCACTGAGTCGTGGACTTTGAGCAGAGAA
Found at i:427837 original size:31 final size:31
Alignment explanation
Indices: 427738--427881 Score: 195
Period size: 31 Copynumber: 4.6 Consensus size: 31
427728 GAAGAAAAAC
*
427738 GCCACTGAGTCGTGGACTTTGAGACA-A-AAT
1 GCCACTGAGTCGTGGACTTTGAGA-AGAGATT
* *
427768 GCCACTGAGTCGTGGACTTTAAAGAAAAGGA-T
1 GCCACTGAGTCGTGGACTTT-GAGAAGA-GATT
*
427800 GCCACTGAGTCGTGGACTTTGAGCAGAGATT
1 GCCACTGAGTCGTGGACTTTGAGAAGAGATT
427831 GCCACTGAGTCGTGGACTTTGAGAAGAGATT
1 GCCACTGAGTCGTGGACTTTGAGAAGAGATT
*
427862 GCCACTTAGTCGTGGACTTT
1 GCCACTGAGTCGTGGACTTT
427882 AAAAAGGTAT
Statistics
Matches: 103, Mismatches: 6, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
30 23 0.22
31 58 0.56
32 21 0.20
33 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (31 bp):
GCCACTGAGTCGTGGACTTTGAGAAGAGATT
Found at i:429123 original size:14 final size:14
Alignment explanation
Indices: 429106--429144 Score: 60
Period size: 14 Copynumber: 2.7 Consensus size: 14
429096 TGCCTTTGCA
429106 TTTTTTTTTGTGTT
1 TTTTTTTTTGTGTT
*
429120 TTTTTTTTTGTTTT
1 TTTTTTTTTGTGTT
429134 TTTGTTTTTTG
1 TTT-TTTTTTG
429145 ACTTCTTCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 16 0.70
15 7 0.30
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (14 bp):
TTTTTTTTTGTGTT
Found at i:429131 original size:12 final size:12
Alignment explanation
Indices: 429106--429141 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
429096 TGCCTTTGCA
*
429106 TTTTTTTTTGTG
1 TTTTTTTTTTTG
429118 TTTTTTTTTTTG
1 TTTTTTTTTTTG
429130 TTTTTTTGTTTT
1 TTTTTTT-TTTT
429142 TTGACTTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 18 0.82
13 4 0.18
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (12 bp):
TTTTTTTTTTTG
Found at i:429170 original size:14 final size:14
Alignment explanation
Indices: 429106--429159 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
429096 TGCCTTTGCA
*
429106 TTTTTTTTTGTGTT
1 TTTTTTTTTGTCTT
*
429120 TTTTTTTTTGTTTT
1 TTTTTTTTTGTCTT
*
429134 TTTGTTTTTTGACTT
1 TTT-TTTTTTGTCTT
429149 CTTCTTTTTTT
1 -TT-TTTTTTT
429160 TTTTGACTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
14 16 0.47
15 9 0.26
16 8 0.24
17 1 0.03
ACGTcount: A:0.02, C:0.06, G:0.09, T:0.83
Consensus pattern (14 bp):
TTTTTTTTTGTCTT
Found at i:436160 original size:52 final size:52
Alignment explanation
Indices: 436075--436199 Score: 223
Period size: 52 Copynumber: 2.4 Consensus size: 52
436065 ATATGAAAAG
* *
436075 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
*
436127 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
436179 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
436200 AAGATCAGTG
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
Found at i:436212 original size:52 final size:51
Alignment explanation
Indices: 436075--436219 Score: 211
Period size: 52 Copynumber: 2.8 Consensus size: 51
436065 ATATGAAAAG
*
436075 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
* *
436127 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
*
436179 TTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
436220 ATGTATCGAT
Statistics
Matches: 85, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
51 2 0.02
52 83 0.98
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAAT
Found at i:436226 original size:13 final size:13
Alignment explanation
Indices: 436208--436232 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
436198 CAAAGATCAG
436208 TGTATCGATACAA
1 TGTATCGATACAA
436221 TGTATCGATACA
1 TGTATCGATACA
436233 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:436313 original size:33 final size:33
Alignment explanation
Indices: 436271--436340 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
436261 GGCAGTAGCT
436271 TACATTGTATCGATACAAAAAAATATGTATCGA
1 TACATTGTATCGATACAAAAAAATATGTATCGA
* ***
436304 TACATTGTATCGATACAACATTTTATGTATCGA
1 TACATTGTATCGATACAAAAAAATATGTATCGA
436337 TACA
1 TACA
436341 AATCGTTGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.34
Consensus pattern (33 bp):
TACATTGTATCGATACAAAAAAATATGTATCGA
Found at i:436314 original size:13 final size:13
Alignment explanation
Indices: 436296--436320 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
436286 CAAAAAAATA
436296 TGTATCGATACAT
1 TGTATCGATACAT
436309 TGTATCGATACA
1 TGTATCGATACA
436321 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Done.