Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold10
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: 3842500
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.31
Warning! 348197 characters in sequence are not A, C, G, or T
File 11 of 25
Found at i:1534912 original size:17 final size:19
Alignment explanation
Indices: 1534872--1534913 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 19
1534862 GTAATTTATG
*
1534872 ATTTATTTTATTGTTTCTT
1 ATTTATTTTATTGATTCTT
*
1534891 TTTTATTTT-TT-ATTCTT
1 ATTTATTTTATTGATTCTT
1534908 ATTTAT
1 ATTTAT
1534914 GATATCTAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 10 0.50
18 2 0.10
19 8 0.40
ACGTcount: A:0.17, C:0.05, G:0.02, T:0.76
Consensus pattern (19 bp):
ATTTATTTTATTGATTCTT
Found at i:1535520 original size:2 final size:2
Alignment explanation
Indices: 1535513--1535543 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1535503 ATTTTGTGCT
1535513 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1535544 TTGGAGTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1537604 original size:27 final size:29
Alignment explanation
Indices: 1537563--1537628 Score: 75
Period size: 27 Copynumber: 2.4 Consensus size: 29
1537553 ATAATAAGAG
** *
1537563 AAAAATAAT-TAAAATATGATAT-AATAT
1 AAAAATAATATAAAATACAATATGAATAC
1537590 AAAAATAATAT-AAATACAATATGAATAC
1 AAAAATAATATAAAATACAATATGAATAC
*
1537618 ACAAATAATAT
1 AAAAATAATAT
1537629 GTCAAAATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
27 18 0.55
28 15 0.45
ACGTcount: A:0.64, C:0.05, G:0.03, T:0.29
Consensus pattern (29 bp):
AAAAATAATATAAAATACAATATGAATAC
Found at i:1538036 original size:20 final size:20
Alignment explanation
Indices: 1538008--1538082 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
1537998 TTTTACCTTG
1538008 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
1538028 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
1538048 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTTTTCA
1538068 ATGTATCGATACATT
1 ATGTATCGATACATT
1538083 ATGTCTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:1538075 original size:40 final size:39
Alignment explanation
Indices: 1538008--1538085 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
1537998 TTTTACCTTG
* *
1538008 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTACAATATATCGATACAT-TATGA
* *
1538048 ATGTATCGATATATTCTACAATGTATCGATACATTATG
1 ATGTATCGATACATTCTACAATATATCGATACATTATG
1538086 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (39 bp):
ATGTATCGATACATTCTACAATATATCGATACATTATGA
Found at i:1539034 original size:22 final size:23
Alignment explanation
Indices: 1538995--1539050 Score: 105
Period size: 22 Copynumber: 2.5 Consensus size: 23
1538985 AGCCTTTGAC
1538995 CATGCATTTTTTTAATTATGTTT
1 CATGCATTTTTTTAATTATGTTT
1539018 CATGCATTTTTTT-ATTATGTTT
1 CATGCATTTTTTTAATTATGTTT
1539040 CATGCATTTTT
1 CATGCATTTTT
1539051 AACATGTCTA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 20 0.61
23 13 0.39
ACGTcount: A:0.20, C:0.11, G:0.09, T:0.61
Consensus pattern (23 bp):
CATGCATTTTTTTAATTATGTTT
Found at i:1539057 original size:20 final size:21
Alignment explanation
Indices: 1538995--1539057 Score: 65
Period size: 23 Copynumber: 2.9 Consensus size: 21
1538985 AGCCTTTGAC
*
1538995 CATGCATTTTTTTAATTATGTTT
1 CATGCA-TTTTTTAA-CATGTTT
**
1539018 CATGCATTTTTTTATTATGTTT
1 CATGCA-TTTTTTAACATGTTT
1539040 CATGCA-TTTTTAACATGT
1 CATGCATTTTTTAACATGT
1539058 CTAGCATCTC
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
20 10 0.27
22 13 0.35
23 14 0.38
ACGTcount: A:0.22, C:0.11, G:0.10, T:0.57
Consensus pattern (21 bp):
CATGCATTTTTTAACATGTTT
Found at i:1541467 original size:19 final size:20
Alignment explanation
Indices: 1541433--1541471 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
1541423 AAAAAACAAC
*
1541433 CAAATACACTAAATAAAAAA
1 CAAAAACACTAAATAAAAAA
1541453 CAAAAACAC-AAATAAAAAA
1 CAAAAACACTAAATAAAAAA
1541472 TAGCAATCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.74, C:0.15, G:0.00, T:0.10
Consensus pattern (20 bp):
CAAAAACACTAAATAAAAAA
Found at i:1542362 original size:29 final size:28
Alignment explanation
Indices: 1542305--1542362 Score: 64
Period size: 29 Copynumber: 2.0 Consensus size: 28
1542295 GAATTGAATT
*
1542305 AAATTAATTTAAATTATTATTTAATAATA
1 AAATTAATTTAAATTATTA-TTAAAAATA
*
1542334 AAATTTATTTAAATTTACTTA-TAAAAATA
1 AAATTAATTTAAA-TTA-TTATTAAAAATA
1542363 TATAAATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
29 19 0.76
30 3 0.12
31 3 0.12
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (28 bp):
AAATTAATTTAAATTATTATTAAAAATA
Found at i:1542549 original size:28 final size:27
Alignment explanation
Indices: 1542518--1542614 Score: 79
Period size: 28 Copynumber: 3.4 Consensus size: 27
1542508 TAATAATAAT
*
1542518 ATTAAATATGATTATATCATATAAAAAA
1 ATTAAATAT-ATTATATAATATAAAAAA
* * * *
1542546 ATTAAAATATAATATAAAATTTAAAATA
1 ATT-AAATATATTATATAATATAAAAAA
* *
1542574 ATATAAATATATTTATATTTATATAAAAAT
1 AT-TAAATATA-TTATA-TAATATAAAAAA
1542604 ATT-AATATATT
1 ATTAAATATATT
1542615 TAAATTTATA
Statistics
Matches: 54, Mismatches: 11, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
27 2 0.04
28 31 0.57
29 12 0.22
30 9 0.17
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (27 bp):
ATTAAATATATTATATAATATAAAAAA
Found at i:1542576 original size:17 final size:18
Alignment explanation
Indices: 1542543--1542580 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
1542533 ATCATATAAA
1542543 AAAATTAAAATATAATAT
1 AAAATTAAAATATAATAT
*
1542561 AAAATTTAAA-ATAATAT
1 AAAATTAAAATATAATAT
1542578 AAA
1 AAA
1542581 TATATTTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AAAATTAAAATATAATAT
Found at i:1542615 original size:28 final size:28
Alignment explanation
Indices: 1542573--1542686 Score: 110
Period size: 28 Copynumber: 4.0 Consensus size: 28
1542563 AATTTAAAAT
*
1542573 AATATAAATATATTTATATTTATATAAA
1 AATATAAATATATTTAAATTTATATAAA
*
1542601 AATATTAATATATTTAAATTTATATAAA
1 AATATAAATATATTTAAATTTATATAAA
* *
1542629 TATA-AAATAT-TTTAAATATAATTATAATA
1 AATATAAATATATTTAAAT-TTA-TATAA-A
*
1542658 TAATA-AAATATATATAAATATTAT-TAAA
1 -AATATAAATATATTTAAAT-TTATATAAA
1542686 A
1 A
1542687 TACACTTCGG
Statistics
Matches: 73, Mismatches: 8, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
26 7 0.10
27 8 0.11
28 35 0.48
29 4 0.05
30 10 0.14
31 9 0.12
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (28 bp):
AATATAAATATATTTAAATTTATATAAA
Found at i:1542677 original size:20 final size:19
Alignment explanation
Indices: 1542547--1542679 Score: 75
Period size: 20 Copynumber: 7.1 Consensus size: 19
1542537 TATAAAAAAA
1542547 TTAAAATATAATATAAA-AT
1 TTAAAATAT-ATATAAATAT
1542566 TTAAAATA-ATATAAATAT
1 TTAAAATATATATAAATAT
* * * *
1542584 ATTTATATTTATATAAAAAT
1 -TTAAAATATATATAAATAT
*
1542604 ATT--AATATATTTAAAT-T
1 -TTAAAATATATATAAATAT
*
1542621 TATATAA-ATATA-AAATAT
1 T-TAAAATATATATAAATAT
*
1542639 TTTAAATATA-ATTATAATAT
1 TTAAAATATATA-TA-AATAT
*
1542659 AATAAAATATATATAAATAT
1 -TTAAAATATATATAAATAT
1542679 T
1 T
1542680 ATTAAAATAC
Statistics
Matches: 87, Mismatches: 14, Indels: 26
0.69 0.11 0.20
Matches are distributed among these distances:
16 1 0.01
17 17 0.20
18 20 0.23
19 16 0.18
20 22 0.25
21 10 0.11
22 1 0.01
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
TTAAAATATATATAAATAT
Found at i:1545058 original size:39 final size:38
Alignment explanation
Indices: 1545005--1545088 Score: 96
Period size: 38 Copynumber: 2.2 Consensus size: 38
1544995 AGAGTCAAGC
* * * * *
1545005 CTTTAGGGTCATTTAGGCATTTTTATGTTAAAACTAAAT
1 CTTTAGGGTAATTTAAGCA-CTTTATGTCAAAACCAAAT
*
1545044 CTTTTGGGTAATTTAAGCACTTTATGTCAAAACCAAAT
1 CTTTAGGGTAATTTAAGCACTTTATGTCAAAACCAAAT
*
1545082 CCTTAGG
1 CTTTAGG
1545089 TCATTTTAAA
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
38 21 0.57
39 16 0.43
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.39
Consensus pattern (38 bp):
CTTTAGGGTAATTTAAGCACTTTATGTCAAAACCAAAT
Found at i:1547312 original size:2 final size:2
Alignment explanation
Indices: 1547305--1547350 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
1547295 TTGGTTTGGA
*
1547305 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1547347 AT AT
1 AT AT
1547351 TTGTATGTGT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1547355 original size:8 final size:8
Alignment explanation
Indices: 1547306--1547356 Score: 57
Period size: 8 Copynumber: 6.4 Consensus size: 8
1547296 TGGTTTGGAA
*
1547306 TATATATA
1 TATATATG
*
1547314 TATATATA
1 TATATATG
*
1547322 TATATATA
1 TATATATG
*
1547330 TATATATA
1 TATATATG
1547338 TATATATG
1 TATATATG
*
1547346 TATATTTG
1 TATATATG
1547354 TAT
1 TAT
1547357 GTGTGCAAGT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 41 1.00
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (8 bp):
TATATATG
Found at i:1549613 original size:45 final size:45
Alignment explanation
Indices: 1549530--1549615 Score: 129
Period size: 45 Copynumber: 1.9 Consensus size: 45
1549520 AAGCTAAAAT
* *
1549530 AAAATCTTGAATTAAACATAATACCCAAAGTTAAAGTATACAAAG
1 AAAATCTTGAATCAAACATAATACCCAAAGATAAAGTATACAAAG
*
1549575 AAAATCTTGAATCAAACATAATACACCAAA-ATAGAGTATAC
1 AAAATCTTGAATCAAACATAATAC-CCAAAGATAAAGTATAC
1549616 TTCAAGCAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
45 32 0.86
46 5 0.14
ACGTcount: A:0.53, C:0.15, G:0.08, T:0.23
Consensus pattern (45 bp):
AAAATCTTGAATCAAACATAATACCCAAAGATAAAGTATACAAAG
Found at i:1552017 original size:16 final size:16
Alignment explanation
Indices: 1551996--1552026 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1551986 TCAAGCTTTC
*
1551996 AAATTTGATTTTTCTA
1 AAATTTCATTTTTCTA
1552012 AAATTTCATTTTTCT
1 AAATTTCATTTTTCT
1552027 TATGACAAGC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.10, G:0.03, T:0.58
Consensus pattern (16 bp):
AAATTTCATTTTTCTA
Found at i:1561322 original size:16 final size:16
Alignment explanation
Indices: 1561292--1561330 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
1561282 AATAAATAAT
1561292 ATTAAA-TTATTAAAA
1 ATTAAATTTATTAAAA
*
1561307 ATTAAATTTTTTAAAA
1 ATTAAATTTATTAAAA
*
1561323 AATAAATT
1 ATTAAATT
1561331 AAAAAATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 6 0.29
16 15 0.71
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
ATTAAATTTATTAAAA
Found at i:1562209 original size:30 final size:30
Alignment explanation
Indices: 1562168--1562226 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
1562158 AATATGTTCA
**
1562168 AAGTCATATTATTTGAATTTTTTATTTTTT
1 AAGTCATATTATTAAAATTTTTTATTTTTT
*
1562198 AAGTTATATTATTAAAATTTTTTATTTTT
1 AAGTCATATTATTAAAATTTTTTATTTTT
1562227 AATTATTCGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.63
Consensus pattern (30 bp):
AAGTCATATTATTAAAATTTTTTATTTTTT
Found at i:1563256 original size:3 final size:3
Alignment explanation
Indices: 1563248--1563278 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
1563238 ACGTTCTTAA
1563248 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1563279 CATATAATCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:1563644 original size:26 final size:26
Alignment explanation
Indices: 1563614--1563711 Score: 83
Period size: 26 Copynumber: 3.7 Consensus size: 26
1563604 AAATTTTTAT
1563614 AATTTTTTATTTAAATTTAAT-TTAAA
1 AATTTTTTATTTAAA-TTAATATTAAA
*
1563640 AATTTATTTAATATTTAATTAATATTAAAA
1 AATTT-TTT-AT-TTAAATTAATATT-AAA
* *
1563670 AATTTATT-TTTATATTAATATTAAA
1 AATTTTTTATTTAAATTAATATTAAA
* * *
1563695 TATTTTATAATTAAATT
1 AATTTTTTATTTAAATT
1563712 TAAATATTTT
Statistics
Matches: 57, Mismatches: 9, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
25 8 0.14
26 22 0.39
27 4 0.07
28 7 0.12
29 8 0.14
30 8 0.14
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (26 bp):
AATTTTTTATTTAAATTAATATTAAA
Found at i:1563657 original size:30 final size:30
Alignment explanation
Indices: 1563621--1563678 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 30
1563611 TATAATTTTT
1563621 TATTTAAATTTAAT-TT-AAAAATTTATTTAA
1 TATTT-AA-TTAATATTAAAAAATTTATTTAA
1563651 TATTTAATTAATATTAAAAAATTTATTT
1 TATTTAATTAATATTAAAAAATTTATTT
1563679 TTATATTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
28 5 0.19
29 4 0.15
30 17 0.65
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (30 bp):
TATTTAATTAATATTAAAAAATTTATTTAA
Found at i:1563688 original size:30 final size:28
Alignment explanation
Indices: 1563617--1563688 Score: 76
Period size: 30 Copynumber: 2.5 Consensus size: 28
1563607 TTTTTATAAT
1563617 TTTTTAT-TTAAATTTAATTTAAAAATTTA
1 TTTTTATATT-AA-TTAATTTAAAAATTTA
*
1563646 -TTTAATATTTAATTAATATTAAAAAATTTA
1 TTTTTATA-TTAATTAAT-TT-AAAAATTTA
1563676 TTTTTATATTAAT
1 TTTTTATATTAAT
1563689 ATTAAATATT
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
28 10 0.28
29 4 0.11
30 16 0.44
31 6 0.17
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (28 bp):
TTTTTATATTAATTAATTTAAAAATTTA
Found at i:1563700 original size:21 final size:22
Alignment explanation
Indices: 1563674--1563724 Score: 72
Period size: 21 Copynumber: 2.4 Consensus size: 22
1563664 TTAAAAAATT
1563674 TATTTTTAT-ATT-AATATTAAA
1 TATTTTTATAATTAAAT-TTAAA
1563695 TA-TTTTATAATTAAATTTAAA
1 TATTTTTATAATTAAATTTAAA
1563716 TATTTTTAT
1 TATTTTTAT
1563725 TTATGAATAG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
20 6 0.22
21 12 0.44
22 9 0.33
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
TATTTTTATAATTAAATTTAAA
Found at i:1565653 original size:2 final size:2
Alignment explanation
Indices: 1565646--1565682 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
1565636 ATGCTTTACT
1565646 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1565683 TATTAGATCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1568156 original size:2 final size:2
Alignment explanation
Indices: 1568149--1568186 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
1568139 TTTCACTAGG
1568149 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1568187 TATTGCTTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1568503 original size:10 final size:10
Alignment explanation
Indices: 1568485--1568534 Score: 55
Period size: 10 Copynumber: 4.9 Consensus size: 10
1568475 CCTTTTATTT
1568485 TTTAAAATTA
1 TTTAAAATTA
*
1568495 TTTATAATTA
1 TTTAAAATTA
*
1568505 TTAAAAATTAA
1 TTTAAAATT-A
* *
1568516 TTTTAAAGTA
1 TTTAAAATTA
1568526 TTTAAAATT
1 TTTAAAATT
1568535 TTATGTATTT
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
10 24 0.77
11 7 0.23
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (10 bp):
TTTAAAATTA
Found at i:1568536 original size:17 final size:16
Alignment explanation
Indices: 1568514--1568562 Score: 52
Period size: 14 Copynumber: 3.2 Consensus size: 16
1568504 ATTAAAAATT
1568514 AATTTTAAAGTATTTAA
1 AATTTT-AAGTATTTAA
*
1568531 AATTTTATGTATTT--
1 AATTTTAAGTATTTAA
1568545 AATTTT--GTATTTAA
1 AATTTTAAGTATTTAA
1568559 AATT
1 AATT
1568563 GATATAAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
12 6 0.21
14 10 0.34
16 7 0.24
17 6 0.21
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (16 bp):
AATTTTAAGTATTTAA
Found at i:1568544 original size:16 final size:15
Alignment explanation
Indices: 1568523--1568562 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 15
1568513 TAATTTTAAA
1568523 GTATTTAAAATTTTAT
1 GTATTTAAAATTTT-T
1568539 GTATTT--AA-TTTT
1 GTATTTAAAATTTTT
1568551 GTATTTAAAATT
1 GTATTTAAAATT
1568563 GATATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 7
0.75 0.00 0.25
Matches are distributed among these distances:
12 7 0.33
13 3 0.14
14 4 0.19
15 1 0.05
16 6 0.29
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.57
Consensus pattern (15 bp):
GTATTTAAAATTTTT
Found at i:1569360 original size:19 final size:18
Alignment explanation
Indices: 1569332--1569384 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 18
1569322 CAACAATTTT
*
1569332 AAATATAAATTTACAAATA
1 AAATAAAAATTTA-AAATA
1569351 AAATAAAAATTTTAAAATA
1 AAATAAAAA-TTTAAAATA
1569370 ATTAATAAAATATTT
1 A--AATAAAA-ATTT
1569385 TTTGATTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
19 14 0.48
20 4 0.14
21 10 0.34
22 1 0.03
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (18 bp):
AAATAAAAATTTAAAATA
Found at i:1571135 original size:14 final size:14
Alignment explanation
Indices: 1571094--1571144 Score: 50
Period size: 14 Copynumber: 3.5 Consensus size: 14
1571084 GGAATATAAT
1571094 ACAATTATTATATATA
1 ACAATTA-TATAT-TA
*
1571110 AGC-ATTAAATATTA
1 A-CAATTATATATTA
1571124 ACAATTATATATTA
1 ACAATTATATATTA
*
1571138 AAAATTA
1 ACAATTA
1571145 AATTTATTGG
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
13 1 0.03
14 19 0.63
15 4 0.13
16 5 0.17
17 1 0.03
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.39
Consensus pattern (14 bp):
ACAATTATATATTA
Found at i:1571851 original size:11 final size:11
Alignment explanation
Indices: 1571835--1571868 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
1571825 ATTTATATAA
1571835 ATATATAATAT
1 ATATATAATAT
1571846 ATATATAATAT
1 ATATATAATAT
1571857 A-ATATAAT-T
1 ATATATAATAT
1571866 ATA
1 ATA
1571869 AAAAAATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 2 0.09
10 8 0.36
11 12 0.55
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
ATATATAATAT
Found at i:1571868 original size:16 final size:17
Alignment explanation
Indices: 1571837--1571879 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
1571827 TTATATAAAT
1571837 ATATAATAT-ATATATA
1 ATATAATATAATATATA
1571853 ATATAATATAAT-TATA
1 ATATAATATAATATATA
* *
1571869 AAAAAATATAA
1 ATATAATATAA
1571880 AAACAACAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 22 0.92
17 2 0.08
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
ATATAATATAATATATA
Found at i:1571869 original size:11 final size:10
Alignment explanation
Indices: 1571829--1571879 Score: 52
Period size: 11 Copynumber: 5.1 Consensus size: 10
1571819 TTTAAGATTT
1571829 ATATAA-AT-
1 ATATAATATA
1571837 ATATAATATA
1 ATATAATATA
1571847 TATATAATATA
1 -ATATAATATA
1571858 ATATAATTATA
1 ATATAA-TATA
* *
1571869 AAAAAATATA
1 ATATAATATA
1571879 A
1 A
1571880 AAACAACAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
8 6 0.16
9 2 0.05
10 11 0.30
11 18 0.49
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
ATATAATATA
Found at i:1572809 original size:39 final size:38
Alignment explanation
Indices: 1572765--1572838 Score: 96
Period size: 39 Copynumber: 1.9 Consensus size: 38
1572755 ATAATTTATC
* * *
1572765 AATATAATATT-TTTATTCAATAATTTAAAAATAAAAATT
1 AATATAACATTATTT-TTCAAAAATATAAAAA-AAAAATT
1572804 AATATAACATTATTTTTCAAAAATATAAAAAAAAA
1 AATATAACATTATTTTTCAAAAATATAAAAAAAAA
1572839 TTATGATGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
38 4 0.13
39 24 0.77
40 3 0.10
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (38 bp):
AATATAACATTATTTTTCAAAAATATAAAAAAAAAATT
Found at i:1575670 original size:14 final size:15
Alignment explanation
Indices: 1575643--1575671 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
1575633 TATAAAGAAT
1575643 TAATATACAATATTA
1 TAATATACAATATTA
1575658 TAATATA-AATATTA
1 TAATATACAATATTA
1575672 AAAAAATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.41
Consensus pattern (15 bp):
TAATATACAATATTA
Found at i:1575786 original size:22 final size:22
Alignment explanation
Indices: 1575742--1575788 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
1575732 ATTATATCAA
* *
1575742 AAAATATATTTAAAAAATTTTT
1 AAAATATATATAAAAAATATTT
1575764 AAAATATAATATAAAAAA-ATTT
1 AAAATAT-ATATAAAAAATATTT
1575786 AAA
1 AAA
1575789 TAAAGCTAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (22 bp):
AAAATATATATAAAAAATATTT
Found at i:1576285 original size:17 final size:17
Alignment explanation
Indices: 1576263--1576295 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1576253 ATATATTATA
*
1576263 ATAAAATATGATACGAT
1 ATAAAATATAATACGAT
1576280 ATAAAATATAATACGA
1 ATAAAATATAATACGA
1576296 ATACGATACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.06, G:0.09, T:0.27
Consensus pattern (17 bp):
ATAAAATATAATACGAT
Found at i:1580589 original size:21 final size:23
Alignment explanation
Indices: 1580565--1580606 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
1580555 ATCTAAATTC
*
1580565 TTTATTTTTAA-A-ATATTTATA
1 TTTATATTTAATATATATTTATA
1580586 TTTATATTTAATATATATTTA
1 TTTATATTTAATATATATTTA
1580607 AATATAAACG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 10 0.56
22 1 0.06
23 7 0.39
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (23 bp):
TTTATATTTAATATATATTTATA
Found at i:1580976 original size:11 final size:11
Alignment explanation
Indices: 1580955--1580994 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
1580945 TATTGATATT
1580955 TATTA-AATTA
1 TATTATAATTA
1580965 TATTATAATTA
1 TATTATAATTA
1580976 TATT-T-ATTA
1 TATTATAATTA
1580985 TATGTATAAT
1 TAT-TATAAT
1580995 AATAATAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
9 7 0.27
10 7 0.27
11 10 0.38
12 2 0.08
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (11 bp):
TATTATAATTA
Found at i:1581913 original size:3 final size:3
Alignment explanation
Indices: 1581907--1581934 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
1581897 AATATTATAC
1581907 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1581935 TTGAATGTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:1582111 original size:31 final size:31
Alignment explanation
Indices: 1582071--1582133 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
1582061 ATCATTGTAG
* * *
1582071 ATGGGTTAAATTTATATTTTGACATAAATAT
1 ATGGATTAAATTCATATTTTAACATAAATAT
*
1582102 ATGGATTAAATTCGTATTTTAACATAAATAT
1 ATGGATTAAATTCATATTTTAACATAAATAT
1582133 A
1 A
1582134 AATATTAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.41, C:0.05, G:0.11, T:0.43
Consensus pattern (31 bp):
ATGGATTAAATTCATATTTTAACATAAATAT
Found at i:1582141 original size:31 final size:31
Alignment explanation
Indices: 1582076--1582141 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
1582066 TGTAGATGGG
* * **
1582076 TTAAATTTATATTTTGACATAAATATATGGA
1 TTAAATTCATATTTTAACATAAATATAAAGA
* *
1582107 TTAAATTCGTATTTTAACATAAATATAAATA
1 TTAAATTCATATTTTAACATAAATATAAAGA
1582138 TTAA
1 TTAA
1582142 TAATACTATT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.45, C:0.05, G:0.06, T:0.44
Consensus pattern (31 bp):
TTAAATTCATATTTTAACATAAATATAAAGA
Found at i:1582489 original size:25 final size:26
Alignment explanation
Indices: 1582460--1582509 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
1582450 TATTTATATT
*
1582460 TATATTTAAAT-TTAAT-TAATAAAAA
1 TATATATAAATATTAATATAA-AAAAA
1582485 TATATATAAATATTAATATAAAAAA
1 TATATATAAATATTAATATAAAAAA
1582510 TAAATTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 10 0.45
26 9 0.41
27 3 0.14
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (26 bp):
TATATATAAATATTAATATAAAAAAA
Found at i:1582976 original size:6 final size:6
Alignment explanation
Indices: 1582967--1582995 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
1582957 GTTTTGGCTC
1582967 CAATTT CAATTT CAATTT CAATTT CAATT
1 CAATTT CAATTT CAATTT CAATTT CAATT
1582996 CCTACTGCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.17, G:0.00, T:0.48
Consensus pattern (6 bp):
CAATTT
Found at i:1584180 original size:24 final size:24
Alignment explanation
Indices: 1584148--1584231 Score: 97
Period size: 24 Copynumber: 3.7 Consensus size: 24
1584138 TCACATTGAG
*
1584148 GCGCACACACACATCCCCTTGTAT
1 GCGCACACACACATCCCCTGGTAT
*
1584172 GCGCACACACAAATCCCCTGGTAT
1 GCGCACACACACATCCCCTGGTAT
*
1584196 --GCACACACACAT-CCCTGCTAT
1 GCGCACACACACATCCCCTGGTAT
*
1584217 --GCACGCACACATCCC
1 GCGCACACACACATCCC
1584232 TATCTACTAG
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
21 19 0.35
22 13 0.24
24 22 0.41
ACGTcount: A:0.27, C:0.43, G:0.13, T:0.17
Consensus pattern (24 bp):
GCGCACACACACATCCCCTGGTAT
Found at i:1584784 original size:19 final size:19
Alignment explanation
Indices: 1584760--1584827 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
1584750 AATTCAACGA
1584760 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
1584779 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
1584794 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
1584811 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
1584828 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:1584798 original size:32 final size:32
Alignment explanation
Indices: 1584762--1584824 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1584752 TTCAACGATT
*
1584762 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
1584794 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
1584825 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:1584799 original size:13 final size:13
Alignment explanation
Indices: 1584781--1584805 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1584771 ACATAAGTTT
1584781 TGTATCGATACAA
1 TGTATCGATACAA
1584794 TGTATCGATACA
1 TGTATCGATACA
1584806 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:1584885 original size:13 final size:13
Alignment explanation
Indices: 1584867--1584892 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1584857 CATTTTTCTG
1584867 TGTATCGATACAT
1 TGTATCGATACAT
1584880 TGTATCGATACAT
1 TGTATCGATACAT
1584893 GGATCTTTGT
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:1584891 original size:33 final size:33
Alignment explanation
Indices: 1584849--1584913 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
1584839 CAAGGAAATA
***
1584849 TATCGATACATTTTTCTGTGTATCGATACATTG
1 TATCGATACATGGATCTGTGTATCGATACATTG
*
1584882 TATCGATACATGGATCTTTGTATCGATACATT
1 TATCGATACATGGATCTGTGTATCGATACATT
1584914 TGGAAATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.43
Consensus pattern (33 bp):
TATCGATACATGGATCTGTGTATCGATACATTG
Found at i:1587365 original size:53 final size:50
Alignment explanation
Indices: 1587248--1587372 Score: 160
Period size: 51 Copynumber: 2.4 Consensus size: 50
1587238 ATCAATTCTC
* * *
1587248 CACAATCGAGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTT
1 CACAATCGAGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTT
* * *
1587298 CTATAATCGGGGATACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTTT
1 C-ACAATCGAGGATACTCCAACTCCGATTTTATTTCC--AAAACACCAA-TTTT
1587352 CACAATCGAGGATACTCCAAC
1 CACAATCGAGGATACTCCAAC
1587373 CTCGTTATTT
Statistics
Matches: 62, Mismatches: 9, Indels: 5
0.82 0.12 0.07
Matches are distributed among these distances:
50 1 0.02
51 30 0.48
53 26 0.42
54 5 0.08
ACGTcount: A:0.34, C:0.24, G:0.10, T:0.32
Consensus pattern (50 bp):
CACAATCGAGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTT
Found at i:1587392 original size:28 final size:28
Alignment explanation
Indices: 1587356--1587432 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 28
1587346 ATTTTTCACA
* * *
1587356 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
1587384 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
***
1587412 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
1587433 GCTTTATTCC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.23
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:1592619 original size:23 final size:23
Alignment explanation
Indices: 1592591--1592651 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 23
1592581 TTGATTTATC
1592591 TTTTAATTATATAATATATATTA
1 TTTTAATTATATAATATATATTA
1592614 TTTTAA-TAT-T-ATATATATTA
1 TTTTAATTATATAATATATATTA
* *
1592634 -TGTAATT-TATATTATATA
1 TTTTAATTATATAATATATA
1592652 AAGAATAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
19 5 0.15
20 12 0.36
21 7 0.21
22 3 0.09
23 6 0.18
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (23 bp):
TTTTAATTATATAATATATATTA
Found at i:1592624 original size:25 final size:24
Alignment explanation
Indices: 1592592--1592652 Score: 74
Period size: 23 Copynumber: 2.6 Consensus size: 24
1592582 TGATTTATCT
*
1592592 TTTA-ATTATATAATATATAT-TAT
1 TTTATATTATATAATAT-TATGTAA
1592615 TTTAATATTATAT-ATATTATGTAA
1 TTT-ATATTATATAATATTATGTAA
1592639 TTTATATTATATAA
1 TTTATATTATATAA
1592653 AGAATAAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
23 15 0.45
24 11 0.33
25 7 0.21
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (24 bp):
TTTATATTATATAATATTATGTAA
Found at i:1598045 original size:17 final size:18
Alignment explanation
Indices: 1598023--1598069 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 18
1598013 TCTTTTAGTT
1598023 TATTTTTATTATAT-TTA
1 TATTTTTATTATATGTTA
1598040 TA-TTTT-TTATATGTTA
1 TATTTTTATTATATGTTA
*
1598056 TAATTGTTATTATA
1 T-ATTTTTATTATA
1598070 AAAATTAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
15 6 0.24
16 8 0.32
17 3 0.12
18 3 0.12
19 5 0.20
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (18 bp):
TATTTTTATTATATGTTA
Found at i:1598049 original size:15 final size:16
Alignment explanation
Indices: 1598021--1598069 Score: 57
Period size: 15 Copynumber: 3.0 Consensus size: 16
1598011 GTTCTTTTAG
1598021 TTTAT-TTTTATTATA
1 TTTATATTTTATTATA
1598036 TTTATATTTT-TTATA
1 TTTATATTTTATTATA
1598051 TGTTATAATTGTTATTATA
1 T-TTAT-ATT-TTATTATA
1598070 AAAATTAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
15 11 0.38
16 8 0.28
17 3 0.10
18 2 0.07
19 5 0.17
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (16 bp):
TTTATATTTTATTATA
Found at i:1598166 original size:13 final size:13
Alignment explanation
Indices: 1598144--1598181 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
1598134 TAAAGATAAA
1598144 AATATTA-TTTAT
1 AATATTATTTTAT
1598156 AATAGTTATTTTAT
1 AATA-TTATTTTAT
*
1598170 AAAATTATTTTA
1 AATATTATTTTA
1598182 AAATTTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
12 4 0.17
13 11 0.48
14 8 0.35
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (13 bp):
AATATTATTTTAT
Found at i:1598583 original size:23 final size:25
Alignment explanation
Indices: 1598546--1598595 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
1598536 TTAATGTATT
* *
1598546 AATTTTTAATTTTAATAAAA-TAAA
1 AATTTTTAATATTAAAAAAATTAAA
1598570 AATTTTTAA-ATTAAAAAAATTAAA
1 AATTTTTAATATTAAAAAAATTAAA
1598594 AA
1 AA
1598596 GTAAAAGTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 8 0.35
24 15 0.65
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (25 bp):
AATTTTTAATATTAAAAAAATTAAA
Found at i:1600283 original size:146 final size:144
Alignment explanation
Indices: 1600117--1600495 Score: 440
Period size: 146 Copynumber: 2.6 Consensus size: 144
1600107 ACAAAAAGAG
* * *
1600117 ACTTTTAGAAATAAAGATAAATAATGCCTTAAAAATTTAAACTTATATAATCAACCAAAAAACAA
1 ACTTTTACAAATAAAGATAAATAATGCCTTAAAAATTTAAACTTGTATAATCAACCAAAAAATAA
* * *
1600182 ATTTAAATTTCTACGAATAAAAATAAATTATACTATAAAAAATATAAACTCATATAATTATACCT
66 ATTTAAACTTCTACAAATAAAAATAAATTATACTAT-AAAAATATAAACTCATATAATCATACCT
*
1600247 CAAAAAACACATTTAA
130 -AAAAAACAAATTTAA
* * * * * *
1600263 ACTTTTATAAATAAAAATAAAT--TGTACTATCAAAAATTTAAACTCGTATAAGCATACTAAAAA
1 ACTTTTACAAATAAAGATAAATAATG-CCT-T-AAAAATTTAAACTTGTATAATCA-ACCAAAAA
* * * * * *
1600326 ATACATTTAAACTTCTACAAATAAAAATAAATTATATTCTAAAAATTTTAACTCGTATAATCATA
62 ATAAATTTAAACTTCTACAAATAAAAATAAATTATACTATAAAAATATAAACTCATATAATCATA
*
1600391 CCTAAAAAATAAATTTAA
127 CCTAAAAAACAAATTTAA
* * *
1600409 AGTTTTACAAATAAAGATAAATAATACCTTAAAAATTTAAA-TTCGTATAATCAAATCAAAAAAT
1 ACTTTTACAAATAAAGATAAATAATGCCTTAAAAATTTAAACTT-GTATAATC-AACCAAAAAAT
*
1600473 AATAATTAAACTTCTACAAATAA
64 AA-ATTTAAACTTCTACAAATAA
1600496 TGATAAATAA
Statistics
Matches: 194, Mismatches: 30, Indels: 18
0.80 0.12 0.07
Matches are distributed among these distances:
144 3 0.02
145 29 0.15
146 74 0.38
147 46 0.24
148 42 0.22
ACGTcount: A:0.54, C:0.12, G:0.03, T:0.32
Consensus pattern (144 bp):
ACTTTTACAAATAAAGATAAATAATGCCTTAAAAATTTAAACTTGTATAATCAACCAAAAAATAA
ATTTAAACTTCTACAAATAAAAATAAATTATACTATAAAAATATAAACTCATATAATCATACCTA
AAAAACAAATTTAA
Found at i:1600391 original size:72 final size:72
Alignment explanation
Indices: 1600146--1600495 Score: 348
Period size: 73 Copynumber: 4.8 Consensus size: 72
1600136 AATAATGCCT
** * * * *
1600146 TAAAAATTTAAACTTATATAATCA-ACCAAAAAACAAATTTAAATTTCTACGAATAAAAATAAAT
1 TAAAAATTTAAACTCGTATAATCATACTAAAAAATAAATTTAAACTTCTACAAATAAAAATAAAT
* *
1600210 TATACTA
66 TATATTC
* * * * * * *
1600217 TAAAAAATATAAACTCATATAATTATACCTCAAAAAACACATTTAAACTTTTATAAATAAAAATA
1 T-AAAAATTTAAACTCGTATAATCATA-CT-AAAAAATAAATTTAAACTTCTACAAATAAAAATA
*
1600282 AATTGTACTATC
63 AATTATA-T-TC
* *
1600294 -AAAAATTTAAACTCGTATAAGCATACTAAAAAATACATTTAAACTTCTACAAATAAAAATAAAT
1 TAAAAATTTAAACTCGTATAATCATACTAAAAAATAAATTTAAACTTCTACAAATAAAAATAAAT
1600358 TATATTC
66 TATATTC
* * * *
1600365 TAAAAATTTTAACTCGTATAATCATACCTAAAAAATAAATTTAAAGTTTTACAAATAAAGATAAA
1 TAAAAATTTAAACTCGTATAATCATA-CTAAAAAATAAATTTAAACTTCTACAAATAAAAATAAA
* *
1600430 TAATA-CC
65 TTATATTC
* * *
1600437 TTAAAAATTTAAATTCGTATAATCA-AATCAAAAAATAATAATTAAACTTCTACAAATAA
1 -TAAAAATTTAAACTCGTATAATCATACT-AAAAAATAA-ATTTAAACTTCTACAAATAA
1600496 TGATAAATAA
Statistics
Matches: 234, Mismatches: 34, Indels: 20
0.81 0.12 0.07
Matches are distributed among these distances:
71 4 0.02
72 55 0.24
73 115 0.49
74 3 0.01
75 56 0.24
77 1 0.00
ACGTcount: A:0.54, C:0.12, G:0.02, T:0.32
Consensus pattern (72 bp):
TAAAAATTTAAACTCGTATAATCATACTAAAAAATAAATTTAAACTTCTACAAATAAAAATAAAT
TATATTC
Found at i:1600872 original size:3 final size:3
Alignment explanation
Indices: 1600864--1600906 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
1600854 ATAAAAATAT
1600864 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1600907 AAAAAACTGG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:1602251 original size:20 final size:20
Alignment explanation
Indices: 1602226--1602279 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
1602216 CTACTATTAT
**
1602226 TTGTATCGATACATGGC-ATA
1 TTGTATCGATACATAACGA-A
1602246 TTGTATCGATACATAACGAA
1 TTGTATCGATACATAACGAA
1602266 TTGTATCGATACAT
1 TTGTATCGATACAT
1602280 TGTCCCAAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 30 0.97
21 1 0.03
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (20 bp):
TTGTATCGATACATAACGAA
Found at i:1603156 original size:20 final size:20
Alignment explanation
Indices: 1603133--1603205 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1603123 ACAACTCAAA
1603133 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
1603153 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
1603174 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
1603194 GTATCGATACAT
1 GTATCGATACAT
1603206 AAAAAAAGAT
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:1603184 original size:41 final size:42
Alignment explanation
Indices: 1603133--1603227 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 42
1603123 ACAACTCAAA
*
1603133 GTATCGATACATGTTGCAATGTATCGATACAT-GAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
1603174 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
1603216 GTATCGATACAT
1 GTATCGATACAT
1603228 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 32 0.62
42 20 0.38
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.29
Consensus pattern (42 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
Found at i:1603284 original size:13 final size:13
Alignment explanation
Indices: 1603266--1603291 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1603256 TACAGCAAGT
1603266 ATGTATCGATACA
1 ATGTATCGATACA
1603279 ATGTATCGATACA
1 ATGTATCGATACA
1603292 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:1607375 original size:15 final size:15
Alignment explanation
Indices: 1607355--1607393 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
1607345 TAAAAATGTC
*
1607355 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
1607370 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
*
1607385 CCAAATGAA
1 CAAAATGAA
1607394 ATTGATGTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.51, C:0.15, G:0.21, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:1609479 original size:20 final size:21
Alignment explanation
Indices: 1609401--1609478 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 21
1609391 ATGTCCAAAA
*
1609401 TGTATCGATACATGTTTTTG-
1 TGTATCGATACATCTTTTTGT
** *
1609421 TGTATCGATACATCTGGAAATTCT
1 TGTATCGATACATCT---TTTTGT
1609445 ATGTATCGATACAT-TTTTTGT
1 -TGTATCGATACATCTTTTTGT
1609466 TGTATCGATACAT
1 TGTATCGATACAT
1609479 TGTATCGATA
Statistics
Matches: 46, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
20 27 0.59
21 3 0.07
23 2 0.04
24 1 0.02
25 13 0.28
ACGTcount: A:0.26, C:0.13, G:0.17, T:0.45
Consensus pattern (21 bp):
TGTATCGATACATCTTTTTGT
Found at i:1609483 original size:13 final size:13
Alignment explanation
Indices: 1609465--1609503 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1609455 ACATTTTTTG
1609465 TTGTATCGATACA
1 TTGTATCGATACA
1609478 TTGTATCGATACA
1 TTGTATCGATACA
*
1609491 CTGTATCGATACA
1 TTGTATCGATACA
1609504 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:1611350 original size:18 final size:16
Alignment explanation
Indices: 1611309--1611354 Score: 74
Period size: 16 Copynumber: 2.8 Consensus size: 16
1611299 AATTACTTGA
1611309 TTAAGGGGGAGATTTT
1 TTAAGGGGGAGATTTT
1611325 TTAAGGGGGAGATTTT
1 TTAAGGGGGAGATTTT
1611341 TTAAACGGGGGAGA
1 TT-AA-GGGGGAGA
1611355 CAAAGGAGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 18 0.64
17 2 0.07
18 8 0.29
ACGTcount: A:0.28, C:0.02, G:0.39, T:0.30
Consensus pattern (16 bp):
TTAAGGGGGAGATTTT
Found at i:1611984 original size:20 final size:20
Alignment explanation
Indices: 1611961--1612033 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1611951 ACAACTCAAA
1611961 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
1611981 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
1612002 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
1612022 GTATCGATACAT
1 GTATCGATACAT
1612034 AAAAAAAGAT
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:1612012 original size:41 final size:42
Alignment explanation
Indices: 1611961--1612055 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 42
1611951 ACAACTCAAA
*
1611961 GTATCGATACATGTTGCAATGTATCGATACAT-GAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
1612002 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
1612044 GTATCGATACAT
1 GTATCGATACAT
1612056 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 32 0.62
42 20 0.38
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.29
Consensus pattern (42 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
Found at i:1612112 original size:13 final size:13
Alignment explanation
Indices: 1612094--1612119 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1612084 TACAGCAAGT
1612094 ATGTATCGATACA
1 ATGTATCGATACA
1612107 ATGTATCGATACA
1 ATGTATCGATACA
1612120 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:1613925 original size:15 final size:15
Alignment explanation
Indices: 1613905--1613939 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
1613895 AACCATCAAA
1613905 GATGATGAAGATAAT
1 GATGATGAAGATAAT
*
1613920 GATGATGATGATAAT
1 GATGATGAAGATAAT
1613935 GATGA
1 GATGA
1613940 AGTTTACTCG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.29, T:0.29
Consensus pattern (15 bp):
GATGATGAAGATAAT
Found at i:1615884 original size:17 final size:17
Alignment explanation
Indices: 1615859--1615894 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
1615849 TATTAACCAT
*
1615859 AACTTTTCAGCTCCTAG
1 AACTCTTCAGCTCCTAG
*
1615876 AACTCTTCAGCTCTTAG
1 AACTCTTCAGCTCCTAG
1615893 AA
1 AA
1615895 ATCCTCAGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.28, C:0.28, G:0.11, T:0.33
Consensus pattern (17 bp):
AACTCTTCAGCTCCTAG
Found at i:1615902 original size:17 final size:17
Alignment explanation
Indices: 1615865--1615903 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
1615855 CCATAACTTT
* *
1615865 TCAGCTCCTAGAACTCT
1 TCAGCTCCTAGAAATCC
*
1615882 TCAGCTCTTAGAAATCC
1 TCAGCTCCTAGAAATCC
1615899 TCAGC
1 TCAGC
1615904 AAAATAGAGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.26, C:0.33, G:0.13, T:0.28
Consensus pattern (17 bp):
TCAGCTCCTAGAAATCC
Found at i:1617078 original size:16 final size:16
Alignment explanation
Indices: 1617054--1617084 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1617044 AAAGGCTTTC
*
1617054 AAAATTTTTAATAGAA
1 AAAAGTTTTAATAGAA
1617070 AAAAGTTTTAATAGA
1 AAAAGTTTTAATAGA
1617085 GGAAATGTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.35
Consensus pattern (16 bp):
AAAAGTTTTAATAGAA
Found at i:1620637 original size:13 final size:13
Alignment explanation
Indices: 1620619--1620644 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1620609 ACAAAAATCT
1620619 ATGTATCGATACA
1 ATGTATCGATACA
1620632 ATGTATCGATACA
1 ATGTATCGATACA
1620645 TGGAATAATG
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:1624501 original size:20 final size:19
Alignment explanation
Indices: 1624451--1624507 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
1624441 TTGTATCGAT
*
1624451 ACATTGTATCGATATATGC
1 ACATTGTATCGATACATGC
*
1624470 TCATTGTATCGATACATGC
1 ACATTGTATCGATACATGC
*
1624489 ACAATTTTATCGATACATG
1 AC-ATTGTATCGATACATG
1624508 AAACTGGCAG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.37
Consensus pattern (19 bp):
ACATTGTATCGATACATGC
Found at i:1624575 original size:13 final size:13
Alignment explanation
Indices: 1624557--1624581 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1624547 CATGGCACAT
1624557 TGTATCGATACAA
1 TGTATCGATACAA
1624570 TGTATCGATACA
1 TGTATCGATACA
1624582 TAACGAATTG
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:1626872 original size:13 final size:13
Alignment explanation
Indices: 1626854--1626879 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1626844 CAATTTTTTG
1626854 TGTATCGATACAT
1 TGTATCGATACAT
1626867 TGTATCGATACAT
1 TGTATCGATACAT
1626880 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:1626944 original size:21 final size:21
Alignment explanation
Indices: 1626918--1626993 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
1626908 CTGCCAAGAA
*
1626918 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
1626939 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
1626959 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
1626980 ATGTATCGATACAT
1 ATGTATCGATACAT
1626994 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:1626964 original size:20 final size:20
Alignment explanation
Indices: 1626939--1627011 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1626929 CATCTTTTTT
1626939 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
1626959 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
1626980 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
1627000 ATGTATCGATAC
1 ATGTATCGATAC
1627012 TTTGAATTGT
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:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:1626975 original size:41 final size:41
Alignment explanation
Indices: 1626918--1627011 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
1626908 CTGCCAAGAA
*
1626918 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1626959 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1627000 ATGTATCGATAC
1 ATGTATCGATAC
1627012 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:1627679 original size:36 final size:36
Alignment explanation
Indices: 1627635--1627706 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
1627625 TTTATTAATA
*
1627635 AATCTCCCCCTTAATCAAGTAATTCATATCAAAATT
1 AATCTCCCCATTAATCAAGTAATTCATATCAAAATT
1627671 AATCTCCCCATTAATCAAGTAATTCATATCAAAATT
1 AATCTCCCCATTAATCAAGTAATTCATATCAAAATT
1627707 TATTTGCACT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.40, C:0.24, G:0.03, T:0.33
Consensus pattern (36 bp):
AATCTCCCCATTAATCAAGTAATTCATATCAAAATT
Found at i:1629507 original size:13 final size:13
Alignment explanation
Indices: 1629489--1629527 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1629479 ATAATCACCC
*
1629489 TGTATCGATACAG
1 TGTATCGATACAA
1629502 TGTATCGATACAA
1 TGTATCGATACAA
1629515 TGTATCGATACAA
1 TGTATCGATACAA
1629528 AGAAAAATGT
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:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1629538 original size:20 final size:20
Alignment explanation
Indices: 1629513--1629591 Score: 70
Period size: 20 Copynumber: 3.7 Consensus size: 20
1629503 GTATCGATAC
1629513 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
1629533 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
*
1629558 GATGTATCGATACACAA-AAA
1 AATGTATCGATACA-AAGAAA
*
1629578 CATGTATCGATACA
1 AATGTATCGATACA
1629592 TTTTGGACAT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
20 32 0.65
25 16 0.33
26 1 0.02
ACGTcount: A:0.46, C:0.15, G:0.14, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:1631639 original size:15 final size:15
Alignment explanation
Indices: 1631603--1631640 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
1631593 TACATCAATT
* *
1631603 TCATTTGGAGCTTCT
1 TCATTTTGAGCTTCC
1631618 TCATTTTGAGCTTCC
1 TCATTTTGAGCTTCC
1631633 TCATTTTG
1 TCATTTTG
1631641 GACATTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.13, C:0.21, G:0.16, T:0.50
Consensus pattern (15 bp):
TCATTTTGAGCTTCC
Found at i:1635713 original size:13 final size:13
Alignment explanation
Indices: 1635695--1635720 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1635685 CAATTTTTTG
1635695 TGTATCGATACAT
1 TGTATCGATACAT
1635708 TGTATCGATACAT
1 TGTATCGATACAT
1635721 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:1635785 original size:21 final size:21
Alignment explanation
Indices: 1635759--1635834 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
1635749 CTGCCAAGAA
*
1635759 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
1635780 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
1635800 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
1635821 ATGTATCGATACAT
1 ATGTATCGATACAT
1635835 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:1635805 original size:20 final size:20
Alignment explanation
Indices: 1635780--1635852 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1635770 CATCTTTTTT
1635780 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
1635800 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
1635821 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
1635841 ATGTATCGATAC
1 ATGTATCGATAC
1635853 TTTGAATTGT
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:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:1635816 original size:41 final size:41
Alignment explanation
Indices: 1635759--1635852 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
1635749 CTGCCAAGAA
*
1635759 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1635800 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1635841 ATGTATCGATAC
1 ATGTATCGATAC
1635853 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:1637348 original size:13 final size:13
Alignment explanation
Indices: 1637330--1637354 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1637320 TACACCAAGT
1637330 ATGTATCGATACA
1 ATGTATCGATACA
1637343 ATGTATCGATAC
1 ATGTATCGATAC
1637355 TGTCGCAACG
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):
ATGTATCGATACA
Found at i:1638427 original size:80 final size:78
Alignment explanation
Indices: 1638328--1638530 Score: 221
Period size: 79 Copynumber: 2.6 Consensus size: 78
1638318 AATAACAGGG
* * * * *
1638328 TTGGAGTGTTCCCTT-GAAAATAACGGGGCTGGAGTATCCCCGGTTGTGAGAAATCGATGA-TTA
1 TTGGAGT-ATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAAT-ATTTA
*
1638391 GAAATAAAAAATCGGGA
64 GAAAT--AAAACCGGGA
* *
1638408 TTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGG
1 TTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATA-TTTAG
* * *
1638473 GAATAAAGCCGGGG
65 AAATAAAACCGGGA
* * *
1638487 TTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGAT
1 TTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCGAT
1638531 GAAATAACGA
Statistics
Matches: 105, Mismatches: 15, Indels: 7
0.83 0.12 0.06
Matches are distributed among these distances:
79 54 0.51
80 45 0.43
81 6 0.06
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.26
Consensus pattern (78 bp):
TTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTAGA
AATAAAACCGGGA
Found at i:1638522 original size:28 final size:28
Alignment explanation
Indices: 1638482--1638553 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
1638472 GGAATAAAGC
** *
1638482 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
1638510 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
1638538 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
1638554 TCGATTGTGA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:1638611 original size:52 final size:52
Alignment explanation
Indices: 1638542--1638878 Score: 203
Period size: 52 Copynumber: 6.4 Consensus size: 52
1638532 AAATAACGAG
*
1638542 GTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGA
** * ** * *
1638594 GTTGGAGTATCCCCGATTAAAGGAAAATTGG-CGTTTTGAAAATAAAACCAGGA
1 GTTGGAGTATCCCCGATT-GTGAAAAATTGGTATTTTTGGAAATAAAATC-GGA
* * * *
1638647 -TTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCG--ATAAAACCGGA
1 GTTGGAGTATCCCCGATTGT-GAAAAATTGGTATTTTTG-GAAATAAAATCGGA
* **** * * *
1638698 GTTGGAGTATCCCC--TCG-GAAATAACGGGGTTGG-AGTATCCCCGATGAT-TAA-CGGG
1 GTTGGAGTATCCCCGATTGTGAAA-AA-----TTGGTA-T-TTTTGGA-AATAAAATCGGA
*
1638753 GTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAA-AAATTGGT-ATTTTTGGAAATAAAATCGGA
* * * * *
1638807 GTTAGAGTATCCCCGATTAT-AGAAAATTAGT-GTTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGA-AAAATTGGTATTTTTGGAAATAAAATCGGA
*
1638858 GTTGGAATATCCCCGATTGTG
1 GTTGGAGTATCCCCGATTGTG
1638879 GAGAATTGAG
Statistics
Matches: 216, Mismatches: 42, Indels: 54
0.69 0.13 0.17
Matches are distributed among these distances:
48 4 0.02
49 2 0.01
50 2 0.01
51 38 0.18
52 79 0.37
53 33 0.15
54 28 0.13
55 18 0.08
56 2 0.01
57 4 0.02
58 5 0.02
59 1 0.00
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.30
Consensus pattern (52 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGA
Found at i:1638738 original size:28 final size:27
Alignment explanation
Indices: 1638698--1638768 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 27
1638688 TAAAACCGGA
**
1638698 GTTGGAGTATCCCCTCGGAAATAACGGG
1 GTTGGAGTATCCCCGAGG-AATAACGGG
* *
1638726 GTTGGAGTATCCCCGATGATTAACGGG
1 GTTGGAGTATCCCCGAGGAATAACGGG
1638753 GTTGGAGTATCCCCGA
1 GTTGGAGTATCCCCGA
1638769 TTGTGAAGAA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
27 24 0.62
28 15 0.38
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (27 bp):
GTTGGAGTATCCCCGAGGAATAACGGG
Found at i:1638781 original size:107 final size:106
Alignment explanation
Indices: 1638428--1638820 Score: 343
Period size: 107 Copynumber: 3.7 Consensus size: 106
1638418 CCTTCGAAAA
* * * * * * * *
1638428 TAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAG
1 TAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTATTTTTGGAATAAAACCGGAGTTGGAG
* *
1638493 TATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGATGAAA
66 TATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATG-AT
* * * *
1638535 TAACGAGGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGA
1 TAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTATTTTTGG-AATAAAACCGGAGTTGGA
* * ** * ** **
1638600 GTAT-CCC-C-G-ATTAAAGGAAAATTGGCGT-T--TTGAAAAT
65 GTATCCCCTCGGAAATAACGG--GGTTGGAGTATCCCCGATGAT
* * * * *
1638637 AAAACCAGGATTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCG-ATAAAACCGGAGTT
1 -TAA-CGGGGTTGGAGTATCCCCGATTGT-GAAAAATTAGTATTTTTG-GAATAAAACCGGAGTT
1638701 GGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAT
62 GGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAT
* * * *
1638746 TAACGGGGTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTA
1 TAACGGGGTTGGAGTATCCCCGATTGTGAA-AAATTAGT-ATTTTTGG-AATAAAACCGGAGTTG
1638811 GAGTATCCCC
63 GAGTATCCCC
1638821 GATTATAGAA
Statistics
Matches: 220, Mismatches: 48, Indels: 34
0.73 0.16 0.11
Matches are distributed among these distances:
102 1 0.00
103 4 0.02
104 46 0.21
105 20 0.09
106 18 0.08
107 72 0.33
108 32 0.15
109 27 0.12
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.27
Consensus pattern (106 bp):
TAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTATTTTTGGAATAAAACCGGAGTTGGAG
TATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAT
Found at i:1638834 original size:212 final size:212
Alignment explanation
Indices: 1638475--1638880 Score: 647
Period size: 212 Copynumber: 1.9 Consensus size: 212
1638465 TATTTTGGGA
* * *
1638475 ATAAAGCCGGGGTTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGATGAAATAACG
1 ATAAAACCGGAGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAAATAACG
* *
1638540 AGGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATC
66 AGGTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTAGAGTATC
* *
1638605 CCCGATTAAAGGAAAATTGGCGTTTTGAAAATAAAACCAGGA-TTGGAGTATCCCCGATTGTGGA
131 CCCGATTAAAGGAAAATTAGCGTTTTGAAAATAAAACC-GGAGTTGGAATATCCCCGATTGTGGA
1638669 AAAATTAGTGTTTTAGCG
195 AAAATTAGTGTTTTAGCG
*
1638687 ATAAAACCGGAGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATG-ATTAACG
1 ATAAAACCGGAGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAAATAACG
* *
1638751 GGGTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTAGAGTA
66 AGGTTGGAGTATCCCCGATTGTGAA-AAATTGGT-ATTTTTGGAAATAAAATCGGAGTTAGAGTA
* * *
1638816 TCCCCGATTATA-GAAAATTAGTGTTTTGAAAATAAAATCGGAGTTGGAATATCCCCGATTGTGG
129 TCCCCGATTAAAGGAAAATTAGCGTTTTGAAAATAAAACCGGAGTTGGAATATCCCCGATTGTGG
1638880 A
194 A
1638881 GAATTGAGAA
Statistics
Matches: 178, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
211 32 0.18
212 107 0.60
213 39 0.22
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (212 bp):
ATAAAACCGGAGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAAATAACG
AGGTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTAGAGTATC
CCCGATTAAAGGAAAATTAGCGTTTTGAAAATAAAACCGGAGTTGGAATATCCCCGATTGTGGAA
AAATTAGTGTTTTAGCG
Found at i:1638853 original size:51 final size:53
Alignment explanation
Indices: 1638757--1638875 Score: 154
Period size: 51 Copynumber: 2.3 Consensus size: 53
1638747 AACGGGGTTG
* * *
1638757 GAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTA
1 GAGTATCCCCGATTATGAAGAAATTAGTG-TTTTTGAAAATAAAATCGGAGTTA
*
1638811 GAGTATCCCCGATTAT--AGAAAATTAGTG-TTTTGAAAATAAAATCGGAGTTG
1 GAGTATCCCCGATTATGAAG-AAATTAGTGTTTTTGAAAATAAAATCGGAGTTA
*
1638862 GAATATCCCCGATT
1 GAGTATCCCCGATT
1638876 GTGGAGAATT
Statistics
Matches: 59, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
51 34 0.58
52 2 0.03
53 8 0.14
54 15 0.25
ACGTcount: A:0.34, C:0.12, G:0.23, T:0.32
Consensus pattern (53 bp):
GAGTATCCCCGATTATGAAGAAATTAGTGTTTTTGAAAATAAAATCGGAGTTA
Found at i:1641247 original size:13 final size:13
Alignment explanation
Indices: 1641229--1641254 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1641219 ACAAAGATCC
1641229 ATGTATCGATACA
1 ATGTATCGATACA
1641242 ATGTATCGATACA
1 ATGTATCGATACA
1641255 CAGAAAAATG
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:1641250 original size:33 final size:33
Alignment explanation
Indices: 1641208--1641274 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1641198 AAAATTTCCA
***
1641208 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
1641241 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
1641274 A
1 A
1641275 TTTCCTTAGC
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:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:1641318 original size:19 final size:18
Alignment explanation
Indices: 1641294--1641361 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
1641284 CAGTAGCTAA
1641294 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
1641313 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
1641328 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
1641345 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
1641362 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:1641334 original size:13 final size:13
Alignment explanation
Indices: 1641316--1641340 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1641306 ACAATACTTA
1641316 TGTATCGATACAT
1 TGTATCGATACAT
1641329 TGTATCGATACA
1 TGTATCGATACA
1641341 AAACTTATGT
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:1641338 original size:32 final size:32
Alignment explanation
Indices: 1641297--1641359 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1641287 TAGCTAATTA
*
1641297 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
1641329 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
1641360 AATTGTTGAA
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:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:1641441 original size:21 final size:21
Alignment explanation
Indices: 1641417--1641473 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
1641407 CATTTGTAGG
1641417 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
*
1641438 ATGTATCGATACATTCTACAA
1 ATGTATCGATACATTCCACAA
1641459 ATGTATCGATACATT
1 ATGTATCGATACATT
1641474 TGGATAATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACATTCCACAA
Found at i:1641507 original size:14 final size:13
Alignment explanation
Indices: 1641489--1641514 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1641479 AATTTTTTTT
1641489 TTTTTTTTTCAAA
1 TTTTTTTTTCAAA
1641502 TTTTTTTTTCAAA
1 TTTTTTTTTCAAA
1641515 CACTTTATCC
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:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTTTTTTTCAAA
Found at i:1642092 original size:55 final size:55
Alignment explanation
Indices: 1642026--1642957 Score: 1179
Period size: 55 Copynumber: 16.5 Consensus size: 55
1642016 TGATGAGTAA
** * *
1642026 AAAGTGCCACCAACTCATCTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACT-G
1 AAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGG
*
1642080 AAAGGTGCCACCAACTTGTGTAGGCTTT-AAGAGGTGTCCTGCTCTTTGAGGACTGG
1 AAA-GTGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTCCTGCTCTTTGAGGACTGG
* *
1642136 AAAATGCCACCAACTTGGGTGGGCTTT-AAGAGGTGTCCTGCTCTTTGAGGACTGG
1 AAAGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTCCTGCTCTTTGAGGACTGG
*
1642191 AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGG
1 AAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGG
* * *
1642246 -AGGATGCCACCAACATGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGG
1 AAAG-TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGG
* * *
1642301 -AGGATGCCACCAACTTGGGTGGGC-TTCAAGAGGTGTCCTGCTCTTTGAGGACTGG
1 AAAG-TGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTCCTGCTCTTTGAGGACTGG
*
1642356 AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGG
1 AAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGG
* * *
1642411 -AGGATGCCACCAACTTGTGTGGGATTTAAAAGGAGAAGGCGTCCTGCTCTTTGAGGACTGG
1 AAAG-TGCCACCAACTTGTGTGGGCTTT-----GA-AAGGTGTCCTGCTCTTTGAGGACTGG
* * *
1642472 GAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCTCTTTGGGGA-T-G
1 AAAGTGCCACCAACTTGTGTGGGCTTT-----GA-AAGGTGTCCTGCTCTTTGAGGACTGG
*
1642531 AAAGGTGCCACCAACTTGTGTGGGCTTTGAGAGGTGTCCTGCTCTTTGAGGACTGG
1 AAA-GTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGG
*
1642587 AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGG
1 AAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGG
* *
1642642 AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGATTGG
1 AAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGG
*
1642697 AAAATGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCCTGCTCTTTGAGGACTGG
1 AAAGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTCCTGCTCTTTGAGGACTGG
*
1642752 AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGG
1 AAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGG
*
1642807 -AAGATGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCTCTTTGAGGACTGG
1 AAAG-TGCCACCAACTTGTGTGGGCTTT-----GA-AAGGTGTCCTGCTCTTTGAGGACTGG
* * *
1642868 GAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCTCTTTGGGGAC--G
1 AAAGTGCCACCAACTTGTGTGGGCTTT-----GA-AAGGTGTCCTGCTCTTTGAGGACTGG
1642927 AAAGGTGCCACCAACTTGTGTGGGCTTTGAA
1 AAA-GTGCCACCAACTTGTGTGGGCTTTGAA
1642958 GAAAGGTTGC
Statistics
Matches: 809, Mismatches: 39, Indels: 60
0.89 0.04 0.07
Matches are distributed among these distances:
54 35 0.04
55 539 0.67
56 17 0.02
59 6 0.01
60 53 0.07
61 154 0.19
62 5 0.01
ACGTcount: A:0.22, C:0.20, G:0.31, T:0.27
Consensus pattern (55 bp):
AAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGG
Found at i:1642644 original size:27 final size:27
Alignment explanation
Indices: 1642562--1642644 Score: 62
Period size: 27 Copynumber: 3.0 Consensus size: 27
1642552 GGGCTTTGAG
1642562 AGGTGTCCTGCTCTTTGAGGACTGGAA
1 AGGTGTCCTGCTCTTTGAGGACTGGAA
* ** * * * *
1642589 A-ATG-CCACCAACTTGTGTGGGCTTTGAA
1 AGGTGTCCTGC-TCTT-TGAGGAC-TGGAA
1642617 AGGTGTCCTGCTCTTTGAGGACTGGAA
1 AGGTGTCCTGCTCTTTGAGGACTGGAA
1642644 A
1 A
1642645 ATGCCACCAA
Statistics
Matches: 37, Mismatches: 14, Indels: 10
0.61 0.23 0.16
Matches are distributed among these distances:
25 3 0.08
26 5 0.14
27 11 0.30
28 10 0.27
29 5 0.14
30 3 0.08
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.29
Consensus pattern (27 bp):
AGGTGTCCTGCTCTTTGAGGACTGGAA
Found at i:1642782 original size:396 final size:396
Alignment explanation
Indices: 1642055--1642956 Score: 1550
Period size: 396 Copynumber: 2.3 Consensus size: 396
1642045 TGGGCTTTGA
* *
1642055 AAGGCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTAGGCTTT---A--AG-AG
1 AAGGCGTCCTGCTCTTTGAGGACTGGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAG
* * * * *
1642113 GTGTCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGGGTGGGCTTTAAGAGGTGTCCTGC
65 GCGTCCTGCTCTTTGGGGA-T-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAGAGGTGTCCTGC
1642177 TCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGA
128 TCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGA
** **
1642242 CTGGAGGATGCCACCAACATGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGGAGGATG
193 CTGGAAAATGCCACCAACATGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGGAAAATG
1642307 CCACCAACTTGGGTGGGCTTCAAGAGGTGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTT
258 CCACCAACTTGGGTGGGCTTCAAGAGGTGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTT
*
1642372 GTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGGAGGATGCCACCAACTTGTGTGGGATT
323 GTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGGAAGATGCCACCAACTTGTGTGGGATT
1642437 TAAAAGGAG
388 TAAAAGGAG
1642446 AAGGCGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGG
1 AAGGCGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGG
1642511 CGTCCTGCTCTTTGGGGATGAAAGGTGCCACCAACTTGTGTGGGCTTTGAGAGGTGTCCTGCTCT
66 CGTCCTGCTCTTTGGGGATGAAAGGTGCCACCAACTTGTGTGGGCTTTGAGAGGTGTCCTGCTCT
1642576 TTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTG
131 TTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTG
* * *
1642641 GAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGATTGGAAAATGCCA
196 GAAAATGCCACCAACATGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGGAAAATGCCA
* *
1642706 CCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTG
261 CCAACTTGGGTGGGCTTCAAGAGGTGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTG
*
1642771 TGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGGAAGATGCCACCAACTTGTGTGGGCTTTAA
326 TGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGGAAGATGCCACCAACTTGTGTGGGATTTAA
1642836 AAGGAG
391 AAGGAG
1642842 AAGGCGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGG
1 AAGGCGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGG
*
1642907 CGTCCTGCTCTTTGGGGACGAAAGGTGCCACCAACTTGTGTGGGCTTTGA
66 CGTCCTGCTCTTTGGGGATGAAAGGTGCCACCAACTTGTGTGGGCTTTGA
1642957 AGAAAGGTTG
Statistics
Matches: 484, Mismatches: 19, Indels: 11
0.94 0.04 0.02
Matches are distributed among these distances:
391 47 0.10
392 3 0.01
394 1 0.00
395 4 0.01
396 410 0.85
397 19 0.04
ACGTcount: A:0.22, C:0.20, G:0.31, T:0.27
Consensus pattern (396 bp):
AAGGCGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGG
CGTCCTGCTCTTTGGGGATGAAAGGTGCCACCAACTTGTGTGGGCTTTGAGAGGTGTCCTGCTCT
TTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTG
GAAAATGCCACCAACATGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGGAAAATGCCA
CCAACTTGGGTGGGCTTCAAGAGGTGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTG
TGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGGAAGATGCCACCAACTTGTGTGGGATTTAA
AAGGAG
Found at i:1649117 original size:80 final size:78
Alignment explanation
Indices: 1649018--1649220 Score: 221
Period size: 79 Copynumber: 2.6 Consensus size: 78
1649008 AATAACAGGG
* * * * *
1649018 TTGGAGTGTTCCCTT-GAAAATAACGGGGCTGGAGTATCCCCGGTTGTGAGAAATCGATGA-TTA
1 TTGGAGT-ATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAAT-ATTTA
*
1649081 GAAATAAAAAATCGGGA
64 GAAAT--AAAACCGGGA
* *
1649098 TTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGG
1 TTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATA-TTTAG
* * *
1649163 GAATAAAGCCGGGG
65 AAATAAAACCGGGA
* * *
1649177 TTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGAT
1 TTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCGAT
1649221 GAAATAACGA
Statistics
Matches: 105, Mismatches: 15, Indels: 7
0.83 0.12 0.06
Matches are distributed among these distances:
79 54 0.51
80 45 0.43
81 6 0.06
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.26
Consensus pattern (78 bp):
TTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTAGA
AATAAAACCGGGA
Found at i:1649212 original size:28 final size:28
Alignment explanation
Indices: 1649172--1649243 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
1649162 GGAATAAAGC
** *
1649172 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
1649200 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
1649228 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
1649244 TCGATTGTGA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:1649301 original size:52 final size:52
Alignment explanation
Indices: 1649232--1649568 Score: 194
Period size: 52 Copynumber: 6.4 Consensus size: 52
1649222 AAATAACGAG
*
1649232 GTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGA
** * ** * *
1649284 GTTGGAGTATCCCCGATTAAAGGAAAATTGG-CGTTTTGAAAATAAAACCAGGA
1 GTTGGAGTATCCCCGATT-GTGAAAAATTGGTATTTTTGGAAATAAAATC-GGA
* * * *
1649337 -TTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCG--ATAAAACCGGA
1 GTTGGAGTATCCCCGATTGT-GAAAAATTGGTATTTTTG-GAAATAAAATCGGA
* **** * * *
1649388 GTTGGAGTATCCCC--TCG-GAAATAACGGGGTTGG-AGTATCCCCGATGAT-TAA-CGGG
1 GTTGGAGTATCCCCGATTGTGAAA-AA-----TTGGTA-T-TTTTGGA-AATAAAATCGGA
*
1649443 GTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAA-AAATTGGT-ATTTTTGGAAATAAAATCGGA
* * * * **
1649497 GTTAGAGTATCCCCGATTAT-AGAAAATTAGT-GTTTTAAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGA-AAAATTGGTATTTTTGGAAATAAAATCGGA
*
1649548 GTTGGAATATCCCCGATTGTG
1 GTTGGAGTATCCCCGATTGTG
1649569 GAGAATTGAG
Statistics
Matches: 215, Mismatches: 43, Indels: 54
0.69 0.14 0.17
Matches are distributed among these distances:
48 4 0.02
49 2 0.01
50 2 0.01
51 37 0.17
52 79 0.37
53 33 0.15
54 28 0.13
55 18 0.08
56 2 0.01
57 4 0.02
58 5 0.02
59 1 0.00
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.30
Consensus pattern (52 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGA
Found at i:1649428 original size:28 final size:27
Alignment explanation
Indices: 1649388--1649458 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 27
1649378 TAAAACCGGA
**
1649388 GTTGGAGTATCCCCTCGGAAATAACGGG
1 GTTGGAGTATCCCCGAGG-AATAACGGG
* *
1649416 GTTGGAGTATCCCCGATGATTAACGGG
1 GTTGGAGTATCCCCGAGGAATAACGGG
1649443 GTTGGAGTATCCCCGA
1 GTTGGAGTATCCCCGA
1649459 TTGTGAAGAA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
27 24 0.62
28 15 0.38
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (27 bp):
GTTGGAGTATCCCCGAGGAATAACGGG
Found at i:1649471 original size:107 final size:106
Alignment explanation
Indices: 1649118--1649510 Score: 343
Period size: 107 Copynumber: 3.7 Consensus size: 106
1649108 CCTTCGAAAA
* * * * * * * *
1649118 TAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAG
1 TAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTATTTTTGGAATAAAACCGGAGTTGGAG
* *
1649183 TATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGATGAAA
66 TATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATG-AT
* * * *
1649225 TAACGAGGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGA
1 TAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTATTTTTGG-AATAAAACCGGAGTTGGA
* * ** * ** **
1649290 GTAT-CCC-C-G-ATTAAAGGAAAATTGGCGT-T--TTGAAAAT
65 GTATCCCCTCGGAAATAACGG--GGTTGGAGTATCCCCGATGAT
* * * * *
1649327 AAAACCAGGATTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCG-ATAAAACCGGAGTT
1 -TAA-CGGGGTTGGAGTATCCCCGATTGT-GAAAAATTAGTATTTTTG-GAATAAAACCGGAGTT
1649391 GGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAT
62 GGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAT
* * * *
1649436 TAACGGGGTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTA
1 TAACGGGGTTGGAGTATCCCCGATTGTGAA-AAATTAGT-ATTTTTGG-AATAAAACCGGAGTTG
1649501 GAGTATCCCC
63 GAGTATCCCC
1649511 GATTATAGAA
Statistics
Matches: 220, Mismatches: 48, Indels: 34
0.73 0.16 0.11
Matches are distributed among these distances:
102 1 0.00
103 4 0.02
104 46 0.21
105 20 0.09
106 18 0.08
107 72 0.33
108 32 0.15
109 27 0.12
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.27
Consensus pattern (106 bp):
TAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTATTTTTGGAATAAAACCGGAGTTGGAG
TATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAT
Found at i:1649524 original size:212 final size:212
Alignment explanation
Indices: 1649165--1649570 Score: 638
Period size: 212 Copynumber: 1.9 Consensus size: 212
1649155 TATTTTGGGA
* * *
1649165 ATAAAGCCGGGGTTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGATGAAATAACG
1 ATAAAACCGGAGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAAATAACG
* *
1649230 AGGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATC
66 AGGTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTAGAGTATC
* * *
1649295 CCCGATTAAAGGAAAATTGGCGTTTTGAAAATAAAACCAGGA-TTGGAGTATCCCCGATTGTGGA
131 CCCGATTAAAGGAAAATTAGCGTTTTAAAAATAAAACC-GGAGTTGGAATATCCCCGATTGTGGA
1649359 AAAATTAGTGTTTTAGCG
195 AAAATTAGTGTTTTAGCG
*
1649377 ATAAAACCGGAGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATG-ATTAACG
1 ATAAAACCGGAGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAAATAACG
* *
1649441 GGGTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTAGAGTA
66 AGGTTGGAGTATCCCCGATTGTGAA-AAATTGGT-ATTTTTGGAAATAAAATCGGAGTTAGAGTA
* * *
1649506 TCCCCGATTATA-GAAAATTAGTGTTTTAAAAATAAAATCGGAGTTGGAATATCCCCGATTGTGG
129 TCCCCGATTAAAGGAAAATTAGCGTTTTAAAAATAAAACCGGAGTTGGAATATCCCCGATTGTGG
1649570 A
194 A
1649571 GAATTGAGAA
Statistics
Matches: 177, Mismatches: 14, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
211 32 0.18
212 106 0.60
213 39 0.22
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (212 bp):
ATAAAACCGGAGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAAATAACG
AGGTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTAGAGTATC
CCCGATTAAAGGAAAATTAGCGTTTTAAAAATAAAACCGGAGTTGGAATATCCCCGATTGTGGAA
AAATTAGTGTTTTAGCG
Found at i:1651935 original size:13 final size:13
Alignment explanation
Indices: 1651917--1651942 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1651907 ACAAAGATCC
1651917 ATGTATCGATACA
1 ATGTATCGATACA
1651930 ATGTATCGATACA
1 ATGTATCGATACA
1651943 TTTCCTTGGC
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:1651986 original size:19 final size:18
Alignment explanation
Indices: 1651962--1652029 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
1651952 CAGTAGCTAA
1651962 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
1651981 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
1651996 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
1652013 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
1652030 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:1652002 original size:13 final size:13
Alignment explanation
Indices: 1651984--1652008 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1651974 ACAATACTTA
1651984 TGTATCGATACAT
1 TGTATCGATACAT
1651997 TGTATCGATACA
1 TGTATCGATACA
1652009 AAACTTATGT
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.