Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
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: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 86 of 199
Found at i:30340017 original size:30 final size:30
Alignment explanation
Indices: 30339974--30340097 Score: 203
Period size: 30 Copynumber: 4.1 Consensus size: 30
30339964 TCCATATTTA
* *
30339974 TGGAAAATCAAAGATATGGGTATCAAATAA
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
30340004 TAGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
30340034 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
30340064 TGGAAAGTCAAAGATATGGGTATCGATATAT
1 TGGAAAGTCAAAGATATGGGTATC-AAATAT
30340095 TGG
1 TGG
30340098 CATAATAAAA
Statistics
Matches: 88, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 80 0.91
31 8 0.09
ACGTcount: A:0.44, C:0.06, G:0.23, T:0.27
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:30344682 original size:15 final size:15
Alignment explanation
Indices: 30344662--30344769 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
30344652 TTTATGGAAA
30344662 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* * **
30344677 ATCAAATA-ATAGAA
1 ATCAAAGATATGGGT
30344691 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
30344707 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
30344721 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
30344737 ATCAAATAT-TGGAAA
1 ATCAAAGATATGG-GT
30344752 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
30344767 ATC
1 ATC
30344770 GAGATATTGG
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
14 11 0.16
15 45 0.67
16 11 0.16
ACGTcount: A:0.45, C:0.07, G:0.21, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:30344699 original size:30 final size:30
Alignment explanation
Indices: 30344656--30344779 Score: 194
Period size: 30 Copynumber: 4.1 Consensus size: 30
30344646 TCCATATTTA
*
30344656 TGGAAAATCAAAGATATGGGTATCAAATAA
1 TGGAAAATCAAAGATATGGGTATCAAATAT
* *
30344686 TAGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAATCAAAGATATGGGTATCAAATAT
*
30344716 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAATCAAAGATATGGGTATCAAATAT
*
30344746 TGGAAAATCAAAGATATGGGTATCGAGATAT
1 TGGAAAATCAAAGATATGGGTATC-AAATAT
30344777 TGG
1 TGG
30344780 CATAATAAAA
Statistics
Matches: 87, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
30 79 0.91
31 8 0.09
ACGTcount: A:0.44, C:0.06, G:0.23, T:0.26
Consensus pattern (30 bp):
TGGAAAATCAAAGATATGGGTATCAAATAT
Found at i:30349598 original size:74 final size:74
Alignment explanation
Indices: 30349472--30349616 Score: 245
Period size: 74 Copynumber: 2.0 Consensus size: 74
30349462 TCATGAAATA
* *
30349472 CAGGATTTTATGCAATATGCAAAGCAGATTGACTATCACAAAATAAAGGAATAGCTTTAGGATGA
1 CAGGATTCTATGCAATATGCAAAGCAGATTGACTATCACAAAATAAAGGAATAGATTTAGGATGA
*
30349537 TGAACAGGG
66 AGAACAGGG
* *
30349546 CAGGATTCTATGCAATATGCAAAGCAGATTGACTGTCACAAAATAAATGAATAGATTTAGGATGA
1 CAGGATTCTATGCAATATGCAAAGCAGATTGACTATCACAAAATAAAGGAATAGATTTAGGATGA
30349611 AGAACA
66 AGAACA
30349617 CCTAAGCTCA
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
74 66 1.00
ACGTcount: A:0.42, C:0.12, G:0.21, T:0.24
Consensus pattern (74 bp):
CAGGATTCTATGCAATATGCAAAGCAGATTGACTATCACAAAATAAAGGAATAGATTTAGGATGA
AGAACAGGG
Found at i:30350838 original size:18 final size:17
Alignment explanation
Indices: 30350805--30350843 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
30350795 TTGTATAAAT
30350805 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
30350823 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
30350840 TGTG
1 TGTG
30350844 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:30350975 original size:8 final size:8
Alignment explanation
Indices: 30350962--30350990 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
30350952 CACTAGAGAC
30350962 CAGTGTTA
1 CAGTGTTA
30350970 CAGTGTTA
1 CAGTGTTA
30350978 CAGTGTTA
1 CAGTGTTA
30350986 CAGTG
1 CAGTG
30350991 AGTCCCGGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.34
Consensus pattern (8 bp):
CAGTGTTA
Found at i:30351104 original size:23 final size:23
Alignment explanation
Indices: 30351077--30351174 Score: 171
Period size: 23 Copynumber: 4.3 Consensus size: 23
30351067 AGTGTTATTG
30351077 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
30351100 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
30351123 -TCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
30351145 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
30351168 ATCAGTG
1 ATCAGTG
30351175 TGGCACTTAT
Statistics
Matches: 71, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
22 21 0.30
23 50 0.70
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.33
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:30351142 original size:45 final size:46
Alignment explanation
Indices: 30351077--30351174 Score: 171
Period size: 45 Copynumber: 2.2 Consensus size: 46
30351067 AGTGTTATTG
* *
30351077 ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
30351123 -TCAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
30351168 ATCAGTG
1 ATCAGTG
30351175 TGGCACTTAT
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
45 43 0.88
46 6 0.12
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.33
Consensus pattern (46 bp):
ATCAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
Found at i:30357707 original size:19 final size:19
Alignment explanation
Indices: 30357671--30357722 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
30357661 CTTTAATCAT
*
30357671 TTTAACTT-ATATATTTAA-
1 TTTAACTTAAT-TAATTAAG
30357689 TTTAAACTTAATTAATTAAG
1 TTT-AACTTAATTAATTAAG
*
30357709 TTTAATTTAATTAA
1 TTTAACTTAATTAA
30357723 CCATTAACTA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
18 3 0.10
19 21 0.72
20 5 0.17
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (19 bp):
TTTAACTTAATTAATTAAG
Found at i:30370620 original size:18 final size:18
Alignment explanation
Indices: 30370578--30370623 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
30370568 CTTTCTATAT
* **
30370578 ATATGTATATTTATTTTT
1 ATATATATATTTATTTCC
*
30370596 ATGTATATATTTATTTCC
1 ATATATATATTTATTTCC
30370614 ATATATATAT
1 ATATATATAT
30370624 ACGCATATTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.59
Consensus pattern (18 bp):
ATATATATATTTATTTCC
Found at i:30373379 original size:6 final size:6
Alignment explanation
Indices: 30373370--30373445 Score: 80
Period size: 6 Copynumber: 12.7 Consensus size: 6
30373360 TAACCATTGT
* * * * *
30373370 CACCGC CACCGC CACCAC CACCTC CTCCTC CACCAC CACCTC CACCTC
1 CACCTC CACCTC CACCTC CACCTC CACCTC CACCTC CACCTC CACCTC
* * *
30373418 CACCTC CACCTC TACCTC TACCGC CACC
1 CACCTC CACCTC CACCTC CACCTC CACC
30373446 ACTTCCGTAT
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 61 1.00
ACGTcount: A:0.18, C:0.64, G:0.04, T:0.13
Consensus pattern (6 bp):
CACCTC
Found at i:30373402 original size:18 final size:18
Alignment explanation
Indices: 30373370--30373445 Score: 89
Period size: 18 Copynumber: 4.2 Consensus size: 18
30373360 TAACCATTGT
* *
30373370 CACCGCCACCGCCACCAC
1 CACCTCCACCTCCACCAC
*
30373388 CACCTCCTCCTCCACCAC
1 CACCTCCACCTCCACCAC
*
30373406 CACCTCCACCTCCACCTC
1 CACCTCCACCTCCACCAC
* * *
30373424 CACCTCTACCTCTACCGC
1 CACCTCCACCTCCACCAC
30373442 CACC
1 CACC
30373446 ACTTCCGTAT
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 50 1.00
ACGTcount: A:0.18, C:0.64, G:0.04, T:0.13
Consensus pattern (18 bp):
CACCTCCACCTCCACCAC
Found at i:30373509 original size:15 final size:15
Alignment explanation
Indices: 30373491--30373553 Score: 63
Period size: 15 Copynumber: 4.2 Consensus size: 15
30373481 CTGAGCCATG
*
30373491 TCCACCTCCACTACC
1 TCCACCTCCACCACC
*
30373506 TCCACCTCCGCCACC
1 TCCACCTCCACCACC
* * *
30373521 TCCTCCTCCTCTACC
1 TCCACCTCCACCACC
* *
30373536 ACCGCCTCCACCACC
1 TCCACCTCCACCACC
30373551 TCC
1 TCC
30373554 TACACCATTC
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 38 1.00
ACGTcount: A:0.14, C:0.63, G:0.03, T:0.19
Consensus pattern (15 bp):
TCCACCTCCACCACC
Found at i:30373529 original size:30 final size:30
Alignment explanation
Indices: 30373495--30373554 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
30373485 GCCATGTCCA
* *
30373495 CCTCCACTACCTCCACCTCCGCCACCTCCT
1 CCTCCACTACCACCACCTCCACCACCTCCT
* *
30373525 CCTCCTCTACCACCGCCTCCACCACCTCCT
1 CCTCCACTACCACCACCTCCACCACCTCCT
30373555 ACACCATTCC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.13, C:0.63, G:0.03, T:0.20
Consensus pattern (30 bp):
CCTCCACTACCACCACCTCCACCACCTCCT
Found at i:30373531 original size:9 final size:9
Alignment explanation
Indices: 30373495--30373553 Score: 50
Period size: 9 Copynumber: 6.6 Consensus size: 9
30373485 GCCATGTCCA
30373495 CCTCCA-CT
1 CCTCCACCT
30373503 ACCTCCACCT
1 -CCTCCACCT
*
30373513 CCGCCACCT
1 CCTCCACCT
*
30373522 CCTCCTCCT
1 CCTCCACCT
*
30373531 -CTACCACCG
1 CCT-CCACCT
*
30373540 CCTCCACCA
1 CCTCCACCT
30373549 CCTCC
1 CCTCC
30373554 TACACCATTC
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
8 2 0.05
9 35 0.85
10 4 0.10
ACGTcount: A:0.14, C:0.64, G:0.03, T:0.19
Consensus pattern (9 bp):
CCTCCACCT
Found at i:30373594 original size:12 final size:12
Alignment explanation
Indices: 30373563--30373604 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
30373553 CTACACCATT
*
30373563 CCCATACCCAGA
1 CCCATATCCAGA
* *
30373575 CCCGTATCCGGA
1 CCCATATCCAGA
30373587 CCCATATCCAGA
1 CCCATATCCAGA
30373599 CCCATA
1 CCCATA
30373605 CCCTTGGCCA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.29, C:0.45, G:0.12, T:0.14
Consensus pattern (12 bp):
CCCATATCCAGA
Found at i:30373654 original size:21 final size:21
Alignment explanation
Indices: 30373625--30373665 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
30373615 GAACTAGAGC
* *
30373625 CACCTCCACCTCCTCCTCCTT
1 CACCACCACCACCTCCTCCTT
30373646 CACCACCACCACCTCCTCCT
1 CACCACCACCACCTCCTCCT
30373666 CCTCTACCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.15, C:0.63, G:0.00, T:0.22
Consensus pattern (21 bp):
CACCACCACCACCTCCTCCTT
Found at i:30373731 original size:24 final size:24
Alignment explanation
Indices: 30373704--30373750 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
30373694 CGGAACCCCT
*
30373704 TCCAGAACCAT-ACCCTAAACCATA
1 TCCAGAACC-TGACCCCAAACCATA
30373728 TCCAGAACCTGACCCCAAACCAT
1 TCCAGAACCTGACCCCAAACCAT
30373751 TAGCACCACT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.40, G:0.06, T:0.15
Consensus pattern (24 bp):
TCCAGAACCTGACCCCAAACCATA
Found at i:30374823 original size:19 final size:19
Alignment explanation
Indices: 30374799--30374875 Score: 82
Period size: 19 Copynumber: 3.8 Consensus size: 19
30374789 AATCTTCGTG
30374799 GATATGTAATCTTAGATAT
1 GATATGTAATCTTAGATAT
*
30374818 GATATGCAATCTTAGATAT
1 GATATGTAATCTTAGATAT
* *
30374837 GATATATAATATTAGAAGATAT
1 GATATGTAATCTT---AGATAT
*
30374859 GATTTTGTAATCTTAGA
1 GA-TATGTAATCTTAGA
30374876 GATTTAATTT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
19 28 0.60
20 3 0.06
22 8 0.17
23 8 0.17
ACGTcount: A:0.39, C:0.05, G:0.16, T:0.40
Consensus pattern (19 bp):
GATATGTAATCTTAGATAT
Found at i:30375431 original size:35 final size:35
Alignment explanation
Indices: 30375362--30375431 Score: 83
Period size: 35 Copynumber: 2.0 Consensus size: 35
30375352 TTACAGTTCA
*
30375362 AATTAGTCTTTTTTTCATTTTCTTTATTTTTTATT
1 AATTAGTCTTTTTTTCATTTTCTTTATTTATTATT
30375397 AATTAGT-TTTTTATTC-TTTT-TTATATTTAATTATT
1 AATTAGTCTTTTT-TTCATTTTCTT-TATTT-ATTATT
30375432 TTTAAAAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
33 2 0.06
34 14 0.45
35 15 0.48
ACGTcount: A:0.21, C:0.06, G:0.03, T:0.70
Consensus pattern (35 bp):
AATTAGTCTTTTTTTCATTTTCTTTATTTATTATT
Found at i:30375561 original size:22 final size:22
Alignment explanation
Indices: 30375496--30375556 Score: 70
Period size: 22 Copynumber: 2.6 Consensus size: 22
30375486 TAGTATAATA
*
30375496 TAATTATTATTATTTATTTATATG
1 TAATTATT-TT-TTTATCTATATG
30375520 TAATTATTTTTTTATCTATATG
1 TAATTATTTTTTTATCTATATG
30375542 T-ATATATTTATTTTA
1 TAAT-TATTT-TTTTA
30375557 GTATACATAT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
21 2 0.06
22 17 0.50
23 7 0.21
24 8 0.24
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.64
Consensus pattern (22 bp):
TAATTATTTTTTTATCTATATG
Found at i:30377286 original size:13 final size:12
Alignment explanation
Indices: 30377268--30377310 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 12
30377258 TTGGTTCTCG
*
30377268 AATTTTTTATATT
1 AATTTTTAAT-TT
30377281 AATTTTTAATTT
1 AATTTTTAATTT
30377293 AGATTTTTAATTT
1 A-ATTTTTAATTT
*
30377306 TATTT
1 AATTT
30377311 CGACAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
12 7 0.26
13 20 0.74
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (12 bp):
AATTTTTAATTT
Found at i:30381426 original size:19 final size:19
Alignment explanation
Indices: 30381404--30381485 Score: 55
Period size: 19 Copynumber: 4.3 Consensus size: 19
30381394 TTTTTTAACA
30381404 ATTTTATATTAATTTTAAT
1 ATTTTATATTAATTTTAAT
*
30381423 ATTTTTTATT--TTTT-AT
1 ATTTTATATTAATTTTAAT
* *
30381439 GATTTT-TATAGAATTTTAGT
1 -ATTTTATAT-TAATTTTAAT
* *
30381459 ATGTTTTTATAAATTTTAAAT
1 AT-TTTATATTAATTTT-AAT
30381480 ATTTTA
1 ATTTTA
30381486 AGTATGTTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 15
0.70 0.09 0.21
Matches are distributed among these distances:
16 5 0.10
17 9 0.18
19 15 0.31
20 13 0.27
21 7 0.14
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (19 bp):
ATTTTATATTAATTTTAAT
Found at i:30381436 original size:37 final size:36
Alignment explanation
Indices: 30381384--30381468 Score: 89
Period size: 37 Copynumber: 2.2 Consensus size: 36
30381374 TCTTGTTCAA
*
30381384 ATTTTTATGATTTTTTAACAATTTTATATTAATTTTAAT
1 ATTTTT-T-ATTTTTTAACAATTTTATA-GAATTTTAAT
** * *
30381423 ATTTTTTATTTTTTATGATTTTTATAGAATTTTAGT
1 ATTTTTTATTTTTTAACAATTTTATAGAATTTTAAT
30381459 ATGTTTTTAT
1 AT-TTTTTAT
30381469 AAATTTTAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
36 10 0.25
37 23 0.57
38 1 0.03
39 6 0.15
ACGTcount: A:0.28, C:0.01, G:0.06, T:0.65
Consensus pattern (36 bp):
ATTTTTTATTTTTTAACAATTTTATAGAATTTTAAT
Found at i:30381454 original size:21 final size:20
Alignment explanation
Indices: 30381436--30381476 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 20
30381426 TTTTATTTTT
30381436 TATGATTTTTATAGAATTTTAG
1 TATG-TTTTTATA-AATTTTAG
30381458 TATGTTTTTATAAATTTTA
1 TATGTTTTTATAAATTTTA
30381477 AATATTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.37
21 8 0.42
22 4 0.21
ACGTcount: A:0.32, C:0.00, G:0.10, T:0.59
Consensus pattern (20 bp):
TATGTTTTTATAAATTTTAG
Found at i:30381466 original size:30 final size:30
Alignment explanation
Indices: 30381451--30381515 Score: 89
Period size: 29 Copynumber: 2.2 Consensus size: 30
30381441 TTTTTATAGA
30381451 ATTTT-AGTATGTTTTTATAAATTTTAAAT
1 ATTTTAAGTATGTTTTTATAAATTTTAAAT
*
30381480 ATTTTAAGTATG-TTTTATTAATTTTATAAT
1 ATTTTAAGTATGTTTTTATAAATTTTA-AAT
*
30381510 TTTTTA
1 ATTTTA
30381516 TAATTTATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
29 18 0.56
30 14 0.44
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (30 bp):
ATTTTAAGTATGTTTTTATAAATTTTAAAT
Found at i:30385449 original size:12 final size:13
Alignment explanation
Indices: 30385428--30385456 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
30385418 AAAACAATTA
30385428 AAAAATAACATAT
1 AAAAATAACATAT
30385441 AAAAA-AACATAT
1 AAAAATAACATAT
30385453 AAAA
1 AAAA
30385457 CAGTTTTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.76, C:0.07, G:0.00, T:0.17
Consensus pattern (13 bp):
AAAAATAACATAT
Found at i:30397957 original size:22 final size:22
Alignment explanation
Indices: 30397932--30397974 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
30397922 AATTTTTATC
* * *
30397932 AAATATAAATATTATATTGAAA
1 AAATACAAATATAAAATTGAAA
30397954 AAATACAAATATAAAATTGAA
1 AAATACAAATATAAAATTGAA
30397975 CAAACATTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (22 bp):
AAATACAAATATAAAATTGAAA
Found at i:30410523 original size:16 final size:17
Alignment explanation
Indices: 30410502--30410533 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
30410492 TGTAAATAAA
30410502 TAAAAATAT-TTTATAT
1 TAAAAATATATTTATAT
30410518 TAAAAATATATTTATA
1 TAAAAATATATTTATA
30410534 AAATTATTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TAAAAATATATTTATAT
Found at i:30410783 original size:17 final size:18
Alignment explanation
Indices: 30410752--30410785 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
30410742 TAAAACGTAC
*
30410752 ATAATAAAATTAAAATAT
1 ATAATAAAATCAAAATAT
30410770 ATAA-AAAATCAAAATA
1 ATAATAAAATCAAAATA
30410786 AAGGTTGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (18 bp):
ATAATAAAATCAAAATAT
Found at i:30420234 original size:18 final size:20
Alignment explanation
Indices: 30420201--30420243 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
30420191 GGGATTAAAT
30420201 TGGAAAGATGTTGAA-TTTA
1 TGGAAAGATGTTGAATTTTA
*
30420220 TGGAAA-ATTTTGAATTTTA
1 TGGAAAGATGTTGAATTTTA
30420239 TGGAA
1 TGGAA
30420244 TACATGGATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.37, C:0.00, G:0.23, T:0.40
Consensus pattern (20 bp):
TGGAAAGATGTTGAATTTTA
Found at i:30420685 original size:20 final size:19
Alignment explanation
Indices: 30420660--30420699 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
30420650 CTCGATAAAT
*
30420660 ATGAAATCTCGTTTGAATAC
1 ATGAAAT-TCGATTGAATAC
*
30420680 ATGAAATTCGATTGGATAC
1 ATGAAATTCGATTGAATAC
30420699 A
1 A
30420700 GGGCTCCCGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (19 bp):
ATGAAATTCGATTGAATAC
Found at i:30420936 original size:26 final size:26
Alignment explanation
Indices: 30420901--30420967 Score: 116
Period size: 26 Copynumber: 2.6 Consensus size: 26
30420891 CTGATTATGG
*
30420901 CTCTTCGTGAGCTTCCCGTTAATTGC
1 CTCTTTGTGAGCTTCCCGTTAATTGC
*
30420927 CTCTTTGTGAGCTTCCCGTTAATTGG
1 CTCTTTGTGAGCTTCCCGTTAATTGC
30420953 CTCTTTGTGAGCTTC
1 CTCTTTGTGAGCTTC
30420968 TCAATATGGC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.10, C:0.27, G:0.21, T:0.42
Consensus pattern (26 bp):
CTCTTTGTGAGCTTCCCGTTAATTGC
Found at i:30421336 original size:38 final size:38
Alignment explanation
Indices: 30421294--30421370 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
30421284 TGCAAAAAGT
30421294 ATGATATGTACATGTTCCTTGGAAACTTGAAATGATAA
1 ATGATATGTACATGTTCCTTGGAAACTTGAAATGATAA
30421332 ATGATATGTACATGTTCCTTGGAAACTTGAAATGATAA
1 ATGATATGTACATGTTCCTTGGAAACTTGAAATGATAA
30421370 A
1 A
30421371 CACATGTATG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.38, C:0.10, G:0.18, T:0.34
Consensus pattern (38 bp):
ATGATATGTACATGTTCCTTGGAAACTTGAAATGATAA
Found at i:30423598 original size:95 final size:95
Alignment explanation
Indices: 30423435--30423623 Score: 369
Period size: 95 Copynumber: 2.0 Consensus size: 95
30423425 AGATTTACAC
*
30423435 ATTCATTAGTGTTGTAATTTTAACATGACATAAAATACGACAGAGCGAGCATTGTCTTGACGATG
1 ATTCATTAGTGTTGTAATTTTAACATGACATAAAATACGACAGAGCGAGCATTGTCTCGACGATG
30423500 AGCAACAACCAACCAAACACCAACGAATTT
66 AGCAACAACCAACCAAACACCAACGAATTT
30423530 ATTCATTAGTGTTGTAATTTTAACATGACATAAAATACGACAGAGCGAGCATTGTCTCGACGATG
1 ATTCATTAGTGTTGTAATTTTAACATGACATAAAATACGACAGAGCGAGCATTGTCTCGACGATG
30423595 AGCAACAACCAACCAAACACCAACGAATT
66 AGCAACAACCAACCAAACACCAACGAATT
30423624 AAACATAGGT
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
95 93 1.00
ACGTcount: A:0.39, C:0.21, G:0.16, T:0.24
Consensus pattern (95 bp):
ATTCATTAGTGTTGTAATTTTAACATGACATAAAATACGACAGAGCGAGCATTGTCTCGACGATG
AGCAACAACCAACCAAACACCAACGAATTT
Found at i:30424690 original size:58 final size:58
Alignment explanation
Indices: 30424579--30424740 Score: 227
Period size: 51 Copynumber: 3.0 Consensus size: 58
30424569 ACTGATATTA
30424579 GAAACCAAAGATTATAAACTTTTAA-T--TGAAGTAGAACAAATATACAATATGAGTC
1 GAAACCAAAGATTATAAACTTTTAATTGGTGAAGTAGAACAAATATACAATATGAGTC
30424634 GAAACCAAAGATTATAAACTTTTAATTGGTGAAGTAGAACAAATATACAATATGAGTC
1 GAAACCAAAGATTATAAACTTTTAATTGGTGAAGTAGAACAAATATACAATATGAGTC
* * *
30424692 --TA-CAAAG---A-CAACTTTTAATTGGTGAAGTAGAACAAATATACACTATGAG
1 GAAACCAAAGATTATAAACTTTTAATTGGTGAAGTAGAACAAATATACAATATGAG
30424741 CCTACAAAGA
Statistics
Matches: 101, Mismatches: 3, Indels: 10
0.89 0.03 0.09
Matches are distributed among these distances:
51 39 0.39
52 1 0.01
55 30 0.30
56 2 0.02
58 29 0.29
ACGTcount: A:0.47, C:0.11, G:0.15, T:0.27
Consensus pattern (58 bp):
GAAACCAAAGATTATAAACTTTTAATTGGTGAAGTAGAACAAATATACAATATGAGTC
Found at i:30426304 original size:263 final size:264
Alignment explanation
Indices: 30425837--30426368 Score: 1012
Period size: 263 Copynumber: 2.0 Consensus size: 264
30425827 AATAGTAGGA
*
30425837 TATCTGGTTTGTTGACTATATAAAAGTAGGGTAATACTCAAACCAAGAAAGAACCAACCATTAAA
1 TATCTGGTTTGTTGACTATATAAAAGTAGGATAATACTCAAACCAAGAAAGAACCAACCATTAAA
30425902 AAAAACGAGACTGAACCAGTAAAAACCCAGCTTTATAAATATATTTTTCTTCTTGTTTTCAAAAC
66 AAAAACGAGACTGAACCAGTAAAAACCCAGCTTTATAAATATATTTTTCTTCTTGTTTTCAAAAC
30425967 TTTATTCCTAATCAATGAGATTTGAACCATTAACCTCTTGATTTTATAATAAAGATCTTACCAAT
131 TTTATTCCTAATCAATGAGATTTGAACCATTAACCTCTTGATTTTATAATAAAGATCTTACCAAT
30426032 TACCATTAAGCCAAATGTACTTTGTGTTAATTATAAACCATATTTATTATTTATTATACA-TAAA
196 TACCATTAAGCCAAATGTACTTTGTGTTAATTATAAACCATATTTATTATTTATTATACATTAAA
30426096 ATAG
261 ATAG
*
30426100 TATCTGGTTTGTTGACTATATAAAAGTAGGATAATACTCAAACGAAGAAAGAACCAACCATTAAA
1 TATCTGGTTTGTTGACTATATAAAAGTAGGATAATACTCAAACCAAGAAAGAACCAACCATTAAA
* *
30426165 AAGAACGAGACTGAACCAGTAAAAACCCAGCTTTATAAATATATTTTTCTTCTTGTTTTCAAAGC
66 AAAAACGAGACTGAACCAGTAAAAACCCAGCTTTATAAATATATTTTTCTTCTTGTTTTCAAAAC
*
30426230 TTTATTCCTAATCAATGAGATTTGAACCATTAACCTCTTGATTTTATAATAAAGATCTTATCAAT
131 TTTATTCCTAATCAATGAGATTTGAACCATTAACCTCTTGATTTTATAATAAAGATCTTACCAAT
30426295 TACCATTAAGCCAAATGTACTTTGTGTTAATTATAAACCATATTTATTATTTATTATACATTAAA
196 TACCATTAAGCCAAATGTACTTTGTGTTAATTATAAACCATATTTATTATTTATTATACATTAAA
30426360 ATAG
261 ATAG
30426364 TATCT
1 TATCT
30426369 AGACATAAAA
Statistics
Matches: 263, Mismatches: 5, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
263 250 0.95
264 13 0.05
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.36
Consensus pattern (264 bp):
TATCTGGTTTGTTGACTATATAAAAGTAGGATAATACTCAAACCAAGAAAGAACCAACCATTAAA
AAAAACGAGACTGAACCAGTAAAAACCCAGCTTTATAAATATATTTTTCTTCTTGTTTTCAAAAC
TTTATTCCTAATCAATGAGATTTGAACCATTAACCTCTTGATTTTATAATAAAGATCTTACCAAT
TACCATTAAGCCAAATGTACTTTGTGTTAATTATAAACCATATTTATTATTTATTATACATTAAA
ATAG
Found at i:30429537 original size:13 final size:13
Alignment explanation
Indices: 30429519--30429544 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
30429509 TAAAATAAGA
30429519 AATGAAATATTTT
1 AATGAAATATTTT
30429532 AATGAAATATTTT
1 AATGAAATATTTT
30429545 TTTAGGGACA
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:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (13 bp):
AATGAAATATTTT
Found at i:30432849 original size:3 final size:3
Alignment explanation
Indices: 30432843--30432881 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
30432833 TCGCGGATGA
30432843 TGG TGG TGG TGG TGG T-G TGG TGG TGG TGG TGG TGG TGG T
1 TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG T
30432882 TGTCGTCGAC
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.00, C:0.00, G:0.64, T:0.36
Consensus pattern (3 bp):
TGG
Found at i:30432940 original size:24 final size:24
Alignment explanation
Indices: 30432911--30432958 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
30432901 TCTTGAGTCA
30432911 TTCTAGTTGAATTCTCAGTAACAT
1 TTCTAGTTGAATTCTCAGTAACAT
30432935 TTCTAGTTGAATTCTCAGTAACAT
1 TTCTAGTTGAATTCTCAGTAACAT
30432959 GTGCATGGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (24 bp):
TTCTAGTTGAATTCTCAGTAACAT
Found at i:30435490 original size:25 final size:25
Alignment explanation
Indices: 30435462--30435509 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
30435452 TTACCAAAAA
30435462 TGGAAAATAAAATTGAAGATAACAG
1 TGGAAAATAAAATTGAAGATAACAG
30435487 TGGAAAATAAAATTGAAGATAAC
1 TGGAAAATAAAATTGAAGATAAC
30435510 TTGTAAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.56, C:0.04, G:0.19, T:0.21
Consensus pattern (25 bp):
TGGAAAATAAAATTGAAGATAACAG
Found at i:30436639 original size:34 final size:35
Alignment explanation
Indices: 30436595--30436661 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
30436585 CAGTAAAATA
*
30436595 TTTTCCGTAAAATAATTT-CGGGAAAATGTTTTAC
1 TTTTCCGTAAAATAATTTACGGGAAAATATTTTAC
* * *
30436629 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATAATTTACGGGAAAATATTTT
30436662 CTGGTGTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.33, C:0.09, G:0.13, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATAATTTACGGGAAAATATTTTAC
Found at i:30437609 original size:10 final size:11
Alignment explanation
Indices: 30437594--30437662 Score: 70
Period size: 11 Copynumber: 6.3 Consensus size: 11
30437584 CAACTAAATC
30437594 ATTTCTCTC-A
1 ATTTCTCTCAA
**
30437604 ATTTCTCTCTG
1 ATTTCTCTCAA
30437615 ATATTCTCTCAA
1 AT-TTCTCTCAA
30437627 A-TTCTTCTCAA
1 ATTTC-TCTCAA
*
30437638 ATTCCTCTCAA
1 ATTTCTCTCAA
*
30437649 ATTTCTTTCAA
1 ATTTCTCTCAA
30437660 ATT
1 ATT
30437663 CCTATTTAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
10 12 0.24
11 27 0.55
12 10 0.20
ACGTcount: A:0.25, C:0.26, G:0.01, T:0.48
Consensus pattern (11 bp):
ATTTCTCTCAA
Found at i:30443402 original size:125 final size:126
Alignment explanation
Indices: 30443172--30443461 Score: 456
Period size: 125 Copynumber: 2.3 Consensus size: 126
30443162 CCAAACATGC
30443172 GCTACTGTAGCAAAAGCGCGTCCACATGGGAGCTTCTTTCAGTACTTCTGCTGACAAAACATCCT
1 GCTACTGTAGCAAAAGCGCGTCCACATGGGAGCTTCTTTCAGTACTTCTGCTGACAAAACATCCT
30443237 ACTTAAAGCATTTTTGACACTATTTGCTCAGAAACATCTACTCGAAATT-ATTTTTCAGGA
66 ACTTAAAGCATTTTTGACACTATTTGCTCAGAAACATCTACTCGAAATTAATTTTTCAGGA
* * *
30443297 GCTATTGTAGCAAAAGCGCGTCCACTTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCT
1 GCTACTGTAGCAAAAGCGCGTCCACATGGGAGCTTCTTTCAGTACTTCTGCTGACAAAACATCCT
* * * * *
30443362 GCTTAAAGCGTTTTTGACACTATTTGCTCAGGAACGTCTACTCGAAATTAATTTTTTAGGA
66 ACTTAAAGCATTTTTGACACTATTTGCTCAGAAACATCTACTCGAAATTAATTTTTCAGGA
** * **
30443423 GCTACTGTAGCAAAAGTTCGCCCACGGGGGAGCTTCTTT
1 GCTACTGTAGCAAAAGCGCGTCCACATGGGAGCTTCTTT
30443462 AAATTAACAA
Statistics
Matches: 150, Mismatches: 14, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
125 107 0.71
126 43 0.29
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (126 bp):
GCTACTGTAGCAAAAGCGCGTCCACATGGGAGCTTCTTTCAGTACTTCTGCTGACAAAACATCCT
ACTTAAAGCATTTTTGACACTATTTGCTCAGAAACATCTACTCGAAATTAATTTTTCAGGA
Found at i:30443642 original size:96 final size:95
Alignment explanation
Indices: 30443494--30443774 Score: 348
Period size: 96 Copynumber: 2.9 Consensus size: 95
30443484 AGTAACCCCA
*
30443494 AACCCCAAACCCTAATTTATTTGAGTTTTTACTTAAAAACCCTAAACACTAAACCCTAATCTAAT
1 AACCCTAAACCCTAATTTATTTGA-TTTTTACTTAAAAACCCTAAACACTAAACCCTAATCTAAT
*
30443559 TTTATAAAAAATTATAATTAATTTACTCAAGT
65 TTT-TAAAAATTTATAATTAATTTACTCAAGT
* * * * * * *
30443591 AACCCTGAACTCTAATTTATTTGATTTTTCCTTAAAAACCCTTAACTCTAAACCCTTATCTGATT
1 AACCCTAAACCCTAATTTATTTGATTTTTACTTAAAAACCCTAAACACTAAACCCTAATCTAATT
* * *
30443656 TTTAAATAATTTTTAATTAAATTACTTAAGT
66 TTTAAA-AATTTATAATTAATTTACTCAAGT
* * ** * *
30443687 AACCCTAAACCCTAATTTAATTGATTTTTTCTTAAAAAACAATAAACACGAAA-CCTAATCCAAT
1 AACCCTAAACCCTAATTTATTTGATTTTTACTT-AAAAACCCTAAACACTAAACCCTAATCTAAT
*
30443751 TTTGAAAAATTTATAATTAATTTA
65 TTTTAAAAATTTATAATTAATTTA
30443775 ATTGACAAAC
Statistics
Matches: 155, Mismatches: 27, Indels: 6
0.82 0.14 0.03
Matches are distributed among these distances:
95 19 0.12
96 101 0.65
97 35 0.23
ACGTcount: A:0.41, C:0.18, G:0.04, T:0.38
Consensus pattern (95 bp):
AACCCTAAACCCTAATTTATTTGATTTTTACTTAAAAACCCTAAACACTAAACCCTAATCTAATT
TTTAAAAATTTATAATTAATTTACTCAAGT
Found at i:30445932 original size:19 final size:18
Alignment explanation
Indices: 30445904--30445940 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
30445894 TGAAATTAGA
30445904 AAATAATTTTTCTTTTTCT
1 AAATAA-TTTTCTTTTTCT
*
30445923 AAATACTTTTCTTTTTCT
1 AAATAATTTTCTTTTTCT
30445941 TAAAGATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.24, C:0.14, G:0.00, T:0.62
Consensus pattern (18 bp):
AAATAATTTTCTTTTTCT
Found at i:30446378 original size:28 final size:31
Alignment explanation
Indices: 30446338--30446400 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 31
30446328 CTATTAGCGT
30446338 ATTTTCGTTTTTA-TCAC-CTATG-T-TTAAA
1 ATTTTCGTTTTTAGTCACTC-ATGTTATTAAA
30446366 ATTTTC-TGTTTTAGTCACTCATGTTATTAAA
1 ATTTTCGT-TTTTAGTCACTCATGTTATTAAA
30446397 ATTT
1 ATTT
30446401 AATATTTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
27 1 0.03
28 11 0.37
29 7 0.23
30 2 0.07
31 9 0.30
ACGTcount: A:0.25, C:0.13, G:0.08, T:0.54
Consensus pattern (31 bp):
ATTTTCGTTTTTAGTCACTCATGTTATTAAA
Found at i:30449943 original size:12 final size:12
Alignment explanation
Indices: 30449926--30449950 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
30449916 ACGCTCGTGC
30449926 CCTAGCCCATGT
1 CCTAGCCCATGT
30449938 CCTAGCCCATGT
1 CCTAGCCCATGT
30449950 C
1 C
30449951 TGAACTAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.44, G:0.16, T:0.24
Consensus pattern (12 bp):
CCTAGCCCATGT
Found at i:30450155 original size:65 final size:65
Alignment explanation
Indices: 30450069--30450213 Score: 218
Period size: 65 Copynumber: 2.2 Consensus size: 65
30450059 CATGGCTGTA
* * * *
30450069 TGCTAGGCTGTGTGAAAAATGTTGGGTATACTGACTTGTATCACACGGCCGACCACACACCCGTG
1 TGCTAAGCCGTGTGAAAAATGTTGGGTATACTGACTTATATCACACGGCCAACCACACACCCGTG
* * *
30450134 TGCTAAGTCGTGTGAAAAATGTTGGGTATACTGACTTATGTCACATGGCCAACCACACACCCGTG
1 TGCTAAGCCGTGTGAAAAATGTTGGGTATACTGACTTATATCACACGGCCAACCACACACCCGTG
*
30450199 TGCTAGGCCGTGTGA
1 TGCTAAGCCGTGTGA
30450214 GGCTACTGAC
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
65 71 1.00
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (65 bp):
TGCTAAGCCGTGTGAAAAATGTTGGGTATACTGACTTATATCACACGGCCAACCACACACCCGTG
Found at i:30455145 original size:24 final size:24
Alignment explanation
Indices: 30455118--30455188 Score: 81
Period size: 24 Copynumber: 3.0 Consensus size: 24
30455108 TATGGCTATT
*
30455118 CGGTGCTTCCCGTTAAGTGCTCTC
1 CGGTGCTACCCGTTAAGTGCTCTC
* *
30455142 CGGTGCTACTCGTTAAGTGCTCTT
1 CGGTGCTACCCGTTAAGTGCTCTC
* *
30455166 CAGAGCTACCCGTTATAG-GCTCT
1 CGGTGCTACCCGTTA-AGTGCTCT
30455189 TTGTGAGCTT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
24 38 0.95
25 2 0.05
ACGTcount: A:0.14, C:0.30, G:0.24, T:0.32
Consensus pattern (24 bp):
CGGTGCTACCCGTTAAGTGCTCTC
Found at i:30462161 original size:46 final size:44
Alignment explanation
Indices: 30462036--30462279 Score: 349
Period size: 46 Copynumber: 5.6 Consensus size: 44
30462026 TTTGAGTACT
*
30462036 TCTGATCAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAGTGA-AAAGTGATAAGTGGTAGCATTAGCTACACTTA
*
30462081 TCTGATCA-AGAACAAGTGATAAGTGGTAGCATTAGCTACACTTA
1 TCTGATCAGTGAA-AAGTGATAAGTGGTAGCATTAGCTACACTTA
30462125 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCATTAGCTACACTTA
1 TCTGATC-AGTGA-AAAGTGATAAGTGGTAGCATTAGCTACACTTA
30462171 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCATTAGCTACACTTA
1 TCTGATC-AGTGA-AAAGTGATAAGTGGTAGCATTAGCTACACTTA
30462217 TCTGATC------AAGTGATAAGTGGTAGCATTAGCTACACTTA
1 TCTGATCAGTGAAAAGTGATAAGTGGTAGCATTAGCTACACTTA
* *
30462255 TCTGATCAGGGACAAGTGATAAGTG
1 TCTGATCAGTGAAAAGTGATAAGTG
30462280 ATCACAAGTA
Statistics
Matches: 185, Mismatches: 4, Indels: 21
0.88 0.02 0.10
Matches are distributed among these distances:
38 38 0.21
43 1 0.01
44 51 0.28
45 9 0.05
46 85 0.46
47 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.30
Consensus pattern (44 bp):
TCTGATCAGTGAAAAGTGATAAGTGGTAGCATTAGCTACACTTA
Found at i:30462182 original size:38 final size:38
Alignment explanation
Indices: 30462135--30462262 Score: 175
Period size: 38 Copynumber: 3.2 Consensus size: 38
30462125 TCTGATCAAG
*
30462135 TGATAAAGTGATAAGTGGTAGCATTAGCTACACTTATC
1 TGATCAAGTGATAAGTGGTAGCATTAGCTACACTTATC
30462173 TGATCAAGTGACAAAGTGATAAGTGGTAGCATTAGCTACACTTATC
1 TG----A-T--C-AAGTGATAAGTGGTAGCATTAGCTACACTTATC
30462219 TGATCAAGTGATAAGTGGTAGCATTAGCTACACTTATC
1 TGATCAAGTGATAAGTGGTAGCATTAGCTACACTTATC
30462257 TGATCA
1 TGATCA
30462263 GGGACAAGTG
Statistics
Matches: 81, Mismatches: 1, Indels: 16
0.83 0.01 0.16
Matches are distributed among these distances:
38 41 0.51
39 1 0.01
41 1 0.01
42 2 0.02
43 1 0.01
46 35 0.43
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.30
Consensus pattern (38 bp):
TGATCAAGTGATAAGTGGTAGCATTAGCTACACTTATC
Found at i:30467600 original size:86 final size:87
Alignment explanation
Indices: 30467446--30468106 Score: 945
Period size: 86 Copynumber: 7.6 Consensus size: 87
30467436 AGAAACAAAA
* *
30467446 CCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAAATAGCAGATCTTGCCTTCCTAG-ATTAAT
1 CCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCT-GCATTAAC
* *
30467510 AGCGAAGCAGATCAAAAATGAAG
65 AGCGAAGCAGATCGAAAACGAAG
* * * *
30467533 CCTTGGCTCCATCAGTTGTAGTGGTGCTGGTTAAAGA-AGCAGATCTTGCCTTCCTGCATTAACA
1 CCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTAACA
30467597 GCGAAGCAGATCGAAAACGAAG
66 GCGAAGCAGATCGAAAACGAAG
* *
30467619 CCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGA-AGCAGATTTTGCCTTCCTGCATTAACA
1 CCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTAACA
*
30467683 GCGAAGCAGATCGAAAACAAAG
66 GCGAAGCAGATCGAAAACGAAG
* * *
30467705 CCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTGAAGATAGCAGATGTTGCATTCCTGCATTAACA
1 CCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTAACA
* *
30467770 GCGAAGCAGATCAAAAATGAAG
66 GCGAAGCAGATCGAAAACGAAG
* * *
30467792 CCTTGCCTCCATCGCTTGTAGTGGAGTTGGTTAAAGA-AGCAGATCTTGCCTTCCTGCATTAACA
1 CCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTAACA
* *
30467856 GCGAAGCAGATCAAAAACAAAG
66 GCGAAGCAGATCGAAAACGAAG
* * * * *
30467878 CCTTGCCTCCATCCGTTGCAATGGAGCTGGTTGAAG-TAGCAGATTTTGCCTTCCTACATTAACA
1 CCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTAACA
*
30467942 GCGAAGTAGATCGAAAACGAAG
66 GCGAAGCAGATCGAAAACGAAG
* * *
30467964 CCTTGCCTCCATCGGTTGCAGTGGAGTTGGTTAAAGATAACAGATCTTGCCTTCCTGCGTTAACA
1 CCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTAACA
* * *
30468029 ACGAAGCAGATCGAGAATGAAG
66 GCGAAGCAGATCGAAAACGAAG
* * * *
30468051 CCTTGCTTCCATCGGTTACAGTAGAGCTGGTTAAAGATAGCAGATTTTGCCTTCCT
1 CCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCT
30468107 AAGCACCAGC
Statistics
Matches: 513, Mismatches: 57, Indels: 8
0.89 0.10 0.01
Matches are distributed among these distances:
85 1 0.00
86 311 0.61
87 201 0.39
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (87 bp):
CCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTAACA
GCGAAGCAGATCGAAAACGAAG
Found at i:30467762 original size:173 final size:174
Alignment explanation
Indices: 30467446--30468106 Score: 954
Period size: 173 Copynumber: 3.8 Consensus size: 174
30467436 AGAAACAAAA
* *
30467446 CCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAAATAGCAGATCTTGCCTTCCTAG-ATTAAT
1 CCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCT-GCATTAAC
** * * * *
30467510 AGCGAAGCAGATCAAAAATGAAGCCTTGGCTCCATCAGTTGTAGTGGTGCTGGTTAAAGA-AGCA
65 AGCGAAGCAGATCAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCA
*
30467574 GATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACGAAG
130 GATTTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACGAAG
* *
30467619 CCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGA-AGCAGATTTTGCCTTCCTGCATTAACA
1 CCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTAACA
* *
30467683 GCGAAGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTGAAGATAGCAG
66 GCGAAGCAGATCAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAG
* * * *
30467748 ATGTTGCATTCCTGCATTAACAGCGAAGCAGATCAAAAATGAAG
131 ATTTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACGAAG
* * *
30467792 CCTTGCCTCCATCGCTTGTAGTGGAGTTGGTTAAAGA-AGCAGATCTTGCCTTCCTGCATTAACA
1 CCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTAACA
* * *
30467856 GCGAAGCAGATCAAAAACAAAGCCTTGCCTCCATCCGTTGCAATGGAGCTGGTTGAAG-TAGCAG
66 GCGAAGCAGATCAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAG
* *
30467920 ATTTTGCCTTCCTACATTAACAGCGAAGTAGATCGAAAACGAAG
131 ATTTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACGAAG
* * *
30467964 CCTTGCCTCCATCGGTTGCAGTGGAGTTGGTTAAAGATAACAGATCTTGCCTTCCTGCGTTAACA
1 CCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTAACA
* * * ** * * *
30468029 ACGAAGCAGATCGAGAATGAAGCCTTGCTTCCATCGGTTACAGTAGAGCTGGTTAAAGATAGCAG
66 GCGAAGCAGATCAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAG
30468094 ATTTTGCCTTCCT
131 ATTTTGCCTTCCT
30468107 AAGCACCAGC
Statistics
Matches: 441, Mismatches: 43, Indels: 7
0.90 0.09 0.01
Matches are distributed among these distances:
171 1 0.00
172 153 0.35
173 268 0.61
174 19 0.04
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (174 bp):
CCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTAACA
GCGAAGCAGATCAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAG
ATTTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACGAAG
Found at i:30468126 original size:259 final size:258
Alignment explanation
Indices: 30467438--30468106 Score: 1016
Period size: 259 Copynumber: 2.6 Consensus size: 258
30467428 TGAAAATCAG
* *
30467438 AAACAAAACCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAAATAGCAGATCTTGCCTTCCTA
1 AAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCT-
* * *
30467503 G-ATTAATAGCGAAGCAGATCAAAAATGAAGCCTTGGCTCCATCAGTTGTAGTGGTGCTGGTTAA
65 GCATTAACAGCGAAGCAGATCAAAAATGAAGCCTT-GCTCCATCGGTTGTAGTGGAGCTGGTTAA
* *
30467567 AGAAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACGAAGCCTTGCCTCCATC
129 AGAAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCAAAAACAAAGCCTTGCCTCCATC
* * * *
30467632 GGTTGTAGTGGAGCTGGTTAAAGAAGCAGATTTTGCCTTCCTGCATTAACAGCGAAGCAGATCGA
194 CGTTGCAATGGAGCTGGTTAAAGAAGCAGATTTTGCCTTCCTACATTAACAGCGAAGCAGATCGA
* * *
30467697 AAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTGAAGATAGCAGATGTTGCATTCCTG
1 AAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTG
* *
30467762 CATTAACAGCGAAGCAGATCAAAAATGAAGCCTTGCCTCCATCGCTTGTAGTGGAGTTGGTTAAA
66 CATTAACAGCGAAGCAGATCAAAAATGAAGCCTTG-CTCCATCGGTTGTAGTGGAGCTGGTTAAA
30467827 GAAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCAAAAACAAAGCCTTGCCTCCATCC
130 GAAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCAAAAACAAAGCCTTGCCTCCATCC
* * *
30467892 GTTGCAATGGAGCTGGTTGAAGTAGCAGATTTTGCCTTCCTACATTAACAGCGAAGTAGATCGA
195 GTTGCAATGGAGCTGGTTAAAGAAGCAGATTTTGCCTTCCTACATTAACAGCGAAGCAGATCGA
* * *
30467956 AAACGAAGCCTTGCCTCCATCGGTTGCAGTGGAGTTGGTTAAAGATAACAGATCTTGCCTTCCTG
1 AAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTG
* * * * ** *
30468021 CGTTAACAACGAAGCAGATCGAGAATGAAGCCTTGCTTCCATCGGTTACAGTAGAGCTGGTTAAA
66 CATTAACAGCGAAGCAGATCAAAAATGAAGCCTTGC-TCCATCGGTTGTAGTGGAGCTGGTTAAA
*
30468086 GATAGCAGATTTTGCCTTCCT
130 GA-AGCAGATCTTGCCTTCCT
30468107 AAGCACCAGC
Statistics
Matches: 371, Mismatches: 35, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
258 3 0.01
259 351 0.95
260 17 0.05
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (258 bp):
AAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTG
CATTAACAGCGAAGCAGATCAAAAATGAAGCCTTGCTCCATCGGTTGTAGTGGAGCTGGTTAAAG
AAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCAAAAACAAAGCCTTGCCTCCATCCG
TTGCAATGGAGCTGGTTAAAGAAGCAGATTTTGCCTTCCTACATTAACAGCGAAGCAGATCGA
Found at i:30469103 original size:39 final size:37
Alignment explanation
Indices: 30469036--30469128 Score: 98
Period size: 39 Copynumber: 2.5 Consensus size: 37
30469026 ACCAGAATGG
* *
30469036 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAGTTGA
1 CACCCAGTGCCTCATCGGAAAGTCCGAAG-AA-AGTTGA
* *
30469075 CACCCAGTGTCTCATCGGCAAAG-CCGAAGAAAGTTGG
1 CACCCAGTGCCTCATCGG-AAAGTCCGAAGAAAGTTGA
* *
30469112 TACCCAGTACCTCATCG
1 CACCCAGTGCCTCATCG
30469129 AATCTATCCG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
37 19 0.41
38 2 0.04
39 22 0.48
40 3 0.07
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (37 bp):
CACCCAGTGCCTCATCGGAAAGTCCGAAGAAAGTTGA
Found at i:30469301 original size:20 final size:21
Alignment explanation
Indices: 30469253--30469301 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 21
30469243 TTAATAGGGT
* *
30469253 ATTTAAATCACATATATTCTC
1 ATTTCAATCACATATATTCAC
* *
30469274 AATTCAATCACA-ATTTTCAC
1 ATTTCAATCACATATATTCAC
30469294 ATTTCAAT
1 ATTTCAAT
30469302 TCAATCATTT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.39, C:0.20, G:0.00, T:0.41
Consensus pattern (21 bp):
ATTTCAATCACATATATTCAC
Found at i:30469322 original size:23 final size:24
Alignment explanation
Indices: 30469302--30469346 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 24
30469292 ACATTTCAAT
* *
30469302 TCAATCATT-TTTC-CACCTTCAA
1 TCAATAATTATTTCACAACTTCAA
30469324 TCAATAATTATTTCACAACTTCA
1 TCAATAATTATTTCACAACTTCA
30469347 CACATTTTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 8 0.42
23 4 0.21
24 7 0.37
ACGTcount: A:0.33, C:0.27, G:0.00, T:0.40
Consensus pattern (24 bp):
TCAATAATTATTTCACAACTTCAA
Found at i:30469327 original size:22 final size:25
Alignment explanation
Indices: 30469288--30469346 Score: 63
Period size: 23 Copynumber: 2.5 Consensus size: 25
30469278 CAATCACAAT
* *
30469288 TTTCAC-ATTTCAATTCAATCATT-
1 TTTCACAACTTCAATTCAATAATTA
*
30469311 TTTC-CACCTTCAA-TCAATAATTA
1 TTTCACAACTTCAATTCAATAATTA
30469334 TTTCACAACTTCA
1 TTTCACAACTTCA
30469347 CACATTTTCA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
22 9 0.31
23 13 0.45
24 7 0.24
ACGTcount: A:0.32, C:0.25, G:0.00, T:0.42
Consensus pattern (25 bp):
TTTCACAACTTCAATTCAATAATTA
Found at i:30469488 original size:3 final size:3
Alignment explanation
Indices: 30469480--30469524 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
30469470 ATTCCCACTC
* * * *
30469480 ATA ATA ATA ATA ATA CTA ATA ATA ATA CTA ATA CTA ATA TTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
30469525 CTTACCTCAC
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:30469525 original size:18 final size:18
Alignment explanation
Indices: 30469480--30469526 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
30469470 ATTCCCACTC
*
30469480 ATAATAATAATAATACTA
1 ATAATAATACTAATACTA
30469498 ATAATAATACTAATACTA
1 ATAATAATACTAATACTA
*
30469516 ATATTAATACT
1 ATAATAATACT
30469527 TACCTCACAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (18 bp):
ATAATAATACTAATACTA
Found at i:30469526 original size:12 final size:12
Alignment explanation
Indices: 30469484--30469524 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
30469474 CCACTCATAA
30469484 TAATAATAATAC
1 TAATAATAATAC
30469496 TAATAATAATAC
1 TAATAATAATAC
* *
30469508 TAATACTAATAT
1 TAATAATAATAC
30469520 TAATA
1 TAATA
30469525 CTTACCTCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (12 bp):
TAATAATAATAC
Found at i:30470263 original size:20 final size:20
Alignment explanation
Indices: 30470229--30470268 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
30470219 TTCTATTCTG
*
30470229 TTTCTTTTCTGTTTTGTTTC
1 TTTCTTTTCTGTTTTATTTC
30470249 TTTCTTTTTCT-TTTTATTTC
1 TTTC-TTTTCTGTTTTATTTC
30470269 CTTTTATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.03, C:0.15, G:0.05, T:0.78
Consensus pattern (20 bp):
TTTCTTTTCTGTTTTATTTC
Found at i:30470435 original size:31 final size:28
Alignment explanation
Indices: 30470399--30470466 Score: 73
Period size: 31 Copynumber: 2.3 Consensus size: 28
30470389 TTGTCTTTAT
**
30470399 TTAATTTATTTCTTAATATAATATTTATAA
1 TTAATTTATTTAATAATAT-A-ATTTATAA
* *
30470429 TGTAATTAATTTAATAATATACTTTATAA
1 T-TAATTTATTTAATAATATAATTTATAA
30470458 TTAATTTAT
1 TTAATTTAT
30470467 ATATTTATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
28 7 0.22
29 8 0.25
30 2 0.06
31 15 0.47
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.54
Consensus pattern (28 bp):
TTAATTTATTTAATAATATAATTTATAA
Found at i:30470483 original size:21 final size:20
Alignment explanation
Indices: 30470445--30470483 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
30470435 TAATTTAATA
*
30470445 ATATACTTTATAATTAATTT
1 ATATACTTTATAAATAATTT
*
30470465 ATATATTTATATAAATAAT
1 ATATACTT-TATAAATAAT
30470484 AATATAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (20 bp):
ATATACTTTATAAATAATTT
Found at i:30475426 original size:21 final size:21
Alignment explanation
Indices: 30475384--30475426 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
30475374 TTCACTATAC
*
30475384 ATTCTTTCATCAGTATCATTT
1 ATTCTTTCATCAGCATCATTT
*
30475405 ATTCTTTCTTCAGACATC-TTT
1 ATTCTTTCATCAG-CATCATTT
30475426 A
1 A
30475427 ATCTATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.23, C:0.21, G:0.05, T:0.51
Consensus pattern (21 bp):
ATTCTTTCATCAGCATCATTT
Found at i:30476538 original size:39 final size:37
Alignment explanation
Indices: 30476471--30476563 Score: 98
Period size: 39 Copynumber: 2.5 Consensus size: 37
30476461 ACCAGAATGG
* *
30476471 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAGTTGA
1 CACCCAGTGCCTCATCGGAAAGTCCGAAG-AA-AGTTGA
* *
30476510 CACCCAGTGTCTCATCGGCAAAG-CCGAAGAAAGTTGG
1 CACCCAGTGCCTCATCGG-AAAGTCCGAAGAAAGTTGA
* *
30476547 TACCCAGTACCTCATCG
1 CACCCAGTGCCTCATCG
30476564 AATCTATCCG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
37 19 0.41
38 2 0.04
39 22 0.48
40 3 0.07
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (37 bp):
CACCCAGTGCCTCATCGGAAAGTCCGAAGAAAGTTGA
Found at i:30476926 original size:3 final size:3
Alignment explanation
Indices: 30476918--30476962 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
30476908 ATTCACACTC
* * * *
30476918 ATA ATA ATA ATA ATA CTA ATA ATA ATA CTA ATA CTA ATA TTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
30476963 CTTACCTCAC
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:30476963 original size:18 final size:18
Alignment explanation
Indices: 30476918--30476964 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
30476908 ATTCACACTC
*
30476918 ATAATAATAATAATACTA
1 ATAATAATACTAATACTA
30476936 ATAATAATACTAATACTA
1 ATAATAATACTAATACTA
*
30476954 ATATTAATACT
1 ATAATAATACT
30476965 TACCTCACAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (18 bp):
ATAATAATACTAATACTA
Found at i:30476964 original size:12 final size:12
Alignment explanation
Indices: 30476922--30476962 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
30476912 ACACTCATAA
30476922 TAATAATAATAC
1 TAATAATAATAC
30476934 TAATAATAATAC
1 TAATAATAATAC
* *
30476946 TAATACTAATAT
1 TAATAATAATAC
30476958 TAATA
1 TAATA
30476963 CTTACCTCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (12 bp):
TAATAATAATAC
Found at i:30477701 original size:20 final size:20
Alignment explanation
Indices: 30477667--30477706 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
30477657 TTCTATTCTG
*
30477667 TTTCTTTTCTGTTTTGTTTC
1 TTTCTTTTCTGTTTTATTTC
30477687 TTTCTTTTTCT-TTTTATTTC
1 TTTC-TTTTCTGTTTTATTTC
30477707 CTTTTATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.03, C:0.15, G:0.05, T:0.78
Consensus pattern (20 bp):
TTTCTTTTCTGTTTTATTTC
Found at i:30477873 original size:31 final size:28
Alignment explanation
Indices: 30477837--30477904 Score: 73
Period size: 31 Copynumber: 2.3 Consensus size: 28
30477827 TTGTCTTTAT
**
30477837 TTAATTTATTTCTTAATATAATATTTATAA
1 TTAATTTATTTAATAATAT-A-ATTTATAA
* *
30477867 TGTAATTAATTTAATAATATACTTTATAA
1 T-TAATTTATTTAATAATATAATTTATAA
30477896 TTAATTTAT
1 TTAATTTAT
30477905 ATATTTATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
28 7 0.22
29 8 0.25
30 2 0.06
31 15 0.47
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.54
Consensus pattern (28 bp):
TTAATTTATTTAATAATATAATTTATAA
Found at i:30477921 original size:21 final size:20
Alignment explanation
Indices: 30477883--30477921 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
30477873 TAATTTAATA
*
30477883 ATATACTTTATAATTAATTT
1 ATATACTTTATAAATAATTT
*
30477903 ATATATTTATATAAATAAT
1 ATATACTT-TATAAATAAT
30477922 AATATAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (20 bp):
ATATACTTTATAAATAATTT
Found at i:30479676 original size:54 final size:53
Alignment explanation
Indices: 30479603--30479711 Score: 157
Period size: 54 Copynumber: 2.0 Consensus size: 53
30479593 CTAGGCCATC
30479603 TGAAAAATGGTGAGCATACTGACTTGTGA-CACACGGCCAAGCCACACGCCCGTG
1 TGAAAAATGGTGAGCATACTGACTTGT-ATCACACGGCCAA-CCACACGCCCGTG
* * * *
30479657 TGAAAAATGTTGGGTATACTGACTTGTATCACATGGCCAACCACACGCCCGTG
1 TGAAAAATGGTGAGCATACTGACTTGTATCACACGGCCAACCACACGCCCGTG
30479710 TG
1 TG
30479712 CTAGGCCGTG
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
53 16 0.32
54 34 0.68
ACGTcount: A:0.28, C:0.26, G:0.25, T:0.21
Consensus pattern (53 bp):
TGAAAAATGGTGAGCATACTGACTTGTATCACACGGCCAACCACACGCCCGTG
Found at i:30482603 original size:95 final size:95
Alignment explanation
Indices: 30482494--30482682 Score: 324
Period size: 95 Copynumber: 2.0 Consensus size: 95
30482484 AAATTTTACA
*
30482494 AATTTGGAAATAATTTAATTGAGTCGATTTATTCGATGTGGAATTAAATGAGGTGGTCATGAGAA
1 AATTTGAAAATAATTTAATTGAGTCGATTTATTCGATGTGGAATTAAATGAGGTGGTCATGAGAA
*
30482559 TTATTTAACTAGAGAATTTGATTAAAGAAG
66 TTATTCAACTAGAGAATTTGATTAAAGAAG
* * *
30482589 AATTTGAAAATAATTTAATTGAGTTGATTTATTCGATGTGGAATTAAATTAGGTGGTCGTGAGAA
1 AATTTGAAAATAATTTAATTGAGTCGATTTATTCGATGTGGAATTAAATGAGGTGGTCATGAGAA
*
30482654 TTGTTCAACTAGAGAATTTGATTAAAGAA
66 TTATTCAACTAGAGAATTTGATTAAAGAA
30482683 TTTTCTTAAA
Statistics
Matches: 88, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
95 88 1.00
ACGTcount: A:0.38, C:0.04, G:0.22, T:0.37
Consensus pattern (95 bp):
AATTTGAAAATAATTTAATTGAGTCGATTTATTCGATGTGGAATTAAATGAGGTGGTCATGAGAA
TTATTCAACTAGAGAATTTGATTAAAGAAG
Found at i:30483158 original size:12 final size:12
Alignment explanation
Indices: 30483141--30483199 Score: 54
Period size: 12 Copynumber: 5.1 Consensus size: 12
30483131 TTTTAATAAG
30483141 ATTTAATATTAA
1 ATTTAATATTAA
*
30483153 ATTTAAT-CTAA
1 ATTTAATATTAA
30483164 TATTT-ATA-TAA
1 -ATTTAATATTAA
*
30483175 ATATT-AGATTAA
1 AT-TTAATATTAA
30483187 ATTTAATATTAA
1 ATTTAATATTAA
30483199 A
1 A
30483200 GTGATTAATT
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
10 2 0.05
11 14 0.36
12 23 0.59
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (12 bp):
ATTTAATATTAA
Found at i:30488606 original size:50 final size:50
Alignment explanation
Indices: 30488487--30488726 Score: 268
Period size: 50 Copynumber: 4.7 Consensus size: 50
30488477 AAAGAGATCC
30488487 CATGTAAGACCATGTCTGGGACAT-GCATTGGCATCCTTGAGATCATGAGAGGTC-
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC--GAG---ATGAGAGGTCT
*
30488541 CTATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCT
1 C-ATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCT
* * *
30488592 CATGTAAGACCATGTCTGGGACATGACGTTGGCACCGAGATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCT
** * * * * **
30488642 CCCGTAAGACCATGTCTCGGACATGGAATGGGCACCGATATGAGAATATCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAG-AGGTCT
* *
30488693 CATGTAAGACCATGTTTGGGACATGGCTTTGGCA
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA
30488727 TGTTATGATT
Statistics
Matches: 161, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
50 93 0.58
51 31 0.19
53 3 0.02
54 1 0.01
55 25 0.16
56 8 0.05
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.24
Consensus pattern (50 bp):
CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCT
Found at i:30488658 original size:100 final size:103
Alignment explanation
Indices: 30488481--30488727 Score: 295
Period size: 100 Copynumber: 2.4 Consensus size: 103
30488471 TTGGGTAAAG
* * *
30488481 AGATCCCATGTAAGACCATGTCTGGGACATGCATTGGCATCCTTGAGATCATGAGAGGTCCTATG
1 AGATCTCATGTAAGACCATGTCTGGGACATGCATTGGCATCC-TGAGA--ATGAGAGGTCCCACG
* ** *
30488546 TAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAG-
63 TAAGACCATGTCTCGGACATGGAATGGGCACCGAGATGAGA
* * *
30488586 AGGTCTCATGTAAGACCATGTCTGGGACATGACGTTGGCA-CC-GAG-ATGAGAGGTCCCCCGTA
1 AGATCTCATGTAAGACCATGTCTGGGACATG-CATTGGCATCCTGAGAATGAGAGGTCCCACGTA
*
30488648 AGACCATGTCTCGGACATGGAATGGGCACCGATATGAGA
65 AGACCATGTCTCGGACATGGAATGGGCACCGAGATGAGA
* * *
30488687 ATATCTCATGTAAGACCATGTTTGGGACATGGCTTTGGCAT
1 AGATCTCATGTAAGACCATGTCTGGGACAT-GCATTGGCAT
30488728 GTTATGATTA
Statistics
Matches: 123, Mismatches: 15, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
100 47 0.38
101 34 0.28
102 1 0.01
103 3 0.02
105 31 0.25
106 7 0.06
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (103 bp):
AGATCTCATGTAAGACCATGTCTGGGACATGCATTGGCATCCTGAGAATGAGAGGTCCCACGTAA
GACCATGTCTCGGACATGGAATGGGCACCGAGATGAGA
Found at i:30494144 original size:41 final size:41
Alignment explanation
Indices: 30494028--30494133 Score: 167
Period size: 41 Copynumber: 2.6 Consensus size: 41
30494018 AATGAGATAA
** *
30494028 TTCAGACTTTACGTCTAGCAGGCTTGATGCTGGTGAAATGT
1 TTCAGACTTTACGTCTAGCAGGCTTGATGCCAGTGAAATAT
*
30494069 TTCAGACTTTACGTCTAGCAGGCTTGACGCCAGTGAAATAT
1 TTCAGACTTTACGTCTAGCAGGCTTGATGCCAGTGAAATAT
*
30494110 TTCGGACTTTACGTCTAGCAGGCT
1 TTCAGACTTTACGTCTAGCAGGCT
30494134 AATTGCCAGT
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 60 1.00
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.32
Consensus pattern (41 bp):
TTCAGACTTTACGTCTAGCAGGCTTGATGCCAGTGAAATAT
Found at i:30497963 original size:20 final size:19
Alignment explanation
Indices: 30497928--30497983 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 19
30497918 GACATTAAAA
*
30497928 AATAAAAATCATAAAAGTTAT
1 AATAAAAAT-ATAAAAATT-T
30497949 AA-AAAAATATAAAAATTT
1 AATAAAAATATAAAAATTT
30497967 AATAAAATATATAAAAA
1 AATAAAA-ATATAAAAA
30497984 ATGATAGAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
18 3 0.09
19 12 0.38
20 15 0.47
21 2 0.06
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.27
Consensus pattern (19 bp):
AATAAAAATATAAAAATTT
Found at i:30497975 original size:18 final size:19
Alignment explanation
Indices: 30497931--30498022 Score: 69
Period size: 19 Copynumber: 4.6 Consensus size: 19
30497921 ATTAAAAAAT
*
30497931 AAAAATCATAAAAGTTATAA
1 AAAAAT-ATAAAAATTATAA
30497951 AAAAATATAAAAATT-TAA
1 AAAAATATAAAAATTATAA
* *
30497969 TAAAATATATAAAAAATGATAG
1 -AAAA-ATAT-AAAAATTATAA
*** *
30497991 AATTTTATAAAAATCATAA
1 AAAAATATAAAAATTATAA
30498010 AAAAATTATAAAA
1 AAAAA-TATAAAA
30498023 TGTCAAAAAG
Statistics
Matches: 56, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
18 3 0.05
19 23 0.41
20 20 0.36
21 8 0.14
22 2 0.04
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.28
Consensus pattern (19 bp):
AAAAATATAAAAATTATAA
Found at i:30497980 original size:30 final size:30
Alignment explanation
Indices: 30497938--30498022 Score: 88
Period size: 29 Copynumber: 2.8 Consensus size: 30
30497928 AATAAAAATC
30497938 ATAAAAGT-TATAAAAAAATATAAAAATTTA
1 ATAAAA-TATATAAAAAAATATAAAAATTTA
* *
30497968 ATAAAATATAT-AAAAAATGAT-AGAATTTT
1 ATAAAATATATAAAAAAAT-ATAAAAATTTA
30497997 ATAAAA-ATCATAAAAAAATTATAAAA
1 ATAAAATAT-ATAAAAAAA-TATAAAA
30498023 TGTCAAAAAG
Statistics
Matches: 46, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
28 2 0.04
29 22 0.48
30 19 0.41
31 3 0.07
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (30 bp):
ATAAAATATATAAAAAAATATAAAAATTTA
Found at i:30498022 original size:10 final size:10
Alignment explanation
Indices: 30497931--30498022 Score: 57
Period size: 10 Copynumber: 9.3 Consensus size: 10
30497921 ATTAAAAAAT
*
30497931 AAAAATCAT-
1 AAAAATTATA
*
30497940 AAAAGTTATA
1 AAAAATTATA
*
30497950 AAAAAATAT-
1 AAAAATTATA
30497959 AAAAATT-TA
1 AAAAATTATA
30497968 ATAAAATATATA
1 A-AAAAT-TATA
*
30497980 AAAAATGATA
1 AAAAATTATA
* **
30497990 GAATTTTAT-
1 AAAAATTATA
*
30497999 AAAAATCATAA
1 AAAAATTAT-A
30498010 AAAAATTATA
1 AAAAATTATA
30498020 AAA
1 AAA
30498023 TGTCAAAAAG
Statistics
Matches: 61, Mismatches: 15, Indels: 13
0.69 0.17 0.15
Matches are distributed among these distances:
8 1 0.02
9 19 0.31
10 24 0.39
11 14 0.23
12 3 0.05
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.28
Consensus pattern (10 bp):
AAAAATTATA
Found at i:30498031 original size:29 final size:27
Alignment explanation
Indices: 30497946--30498023 Score: 77
Period size: 30 Copynumber: 2.7 Consensus size: 27
30497936 TCATAAAAGT
30497946 TATAAAAAAA-TATAAAAATTTAATAAAA
1 TATAAAAAAATTAT-AAAATTTAA-AAAA
* *
30497974 TATATAAAAAATGATAGAATTTTATAAAAA
1 TATA-AAAAAATTATA-AAATTTA-AAAAA
30498004 TCATAAAAAAATTATAAAAT
1 T-ATAAAAAAATTATAAAAT
30498024 GTCAAAAAGA
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
28 4 0.10
29 10 0.24
30 23 0.56
31 4 0.10
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.31
Consensus pattern (27 bp):
TATAAAAAAATTATAAAATTTAAAAAA
Found at i:30498178 original size:15 final size:16
Alignment explanation
Indices: 30498160--30498189 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
30498150 ATAAAAAAAT
30498160 AATAAAAT-TTTTTTA
1 AATAAAATATTTTTTA
30498175 AATAAAATATTTTTT
1 AATAAAATATTTTTT
30498190 TATATTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
AATAAAATATTTTTTA
Found at i:30498179 original size:18 final size:17
Alignment explanation
Indices: 30498156--30498191 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
30498146 ATAAATAAAA
30498156 AAATAATAAAATTTTTTT
1 AAATAA-AAAATTTTTTT
*
30498174 AAATAAAATATTTTTTT
1 AAATAAAAAATTTTTTT
30498191 A
1 A
30498192 TATTTTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
AAATAAAAAATTTTTTT
Found at i:30498467 original size:11 final size:11
Alignment explanation
Indices: 30498443--30498485 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 11
30498433 GAAAAAAAAA
30498443 GAGAGAGAGAAAG
1 GAGA-AGAG-AAG
30498456 GAGAAGAGAAG
1 GAGAAGAGAAG
30498467 GAGAAGGAGAAG
1 GAGAA-GAGAAG
*
30498479 AAGAAGA
1 GAGAAGA
30498486 AGAAAGAAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
11 10 0.36
12 14 0.50
13 4 0.14
ACGTcount: A:0.56, C:0.00, G:0.44, T:0.00
Consensus pattern (11 bp):
GAGAAGAGAAG
Found at i:30498675 original size:23 final size:22
Alignment explanation
Indices: 30498649--30498694 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 22
30498639 TGGATTAGAA
30498649 TTTTGTATGAATATTCTAATTTT
1 TTTTGTATGAATATTCT-ATTTT
*
30498672 TTTTGTATGAATATTGTATTTT
1 TTTTGTATGAATATTCTATTTT
30498694 T
1 T
30498695 ATGAATATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 6 0.27
23 16 0.73
ACGTcount: A:0.24, C:0.02, G:0.11, T:0.63
Consensus pattern (22 bp):
TTTTGTATGAATATTCTATTTT
Found at i:30498698 original size:40 final size:41
Alignment explanation
Indices: 30498648--30498855 Score: 139
Period size: 40 Copynumber: 5.0 Consensus size: 41
30498638 TTGGATTAGA
*
30498648 ATTTTGTATGAATATTCTAATTTTTTTTGTATGAATATTGT
1 ATTTTGTATGAATATTGTAATTTTTTTTGTATGAATATTGT
* * * *
30498689 ATTTT-TATGAATATTATAATTATTTTAT-AATTAA-ATTTGT
1 ATTTTGTATGAATATTGTAATT-TTTTTTGTATGAATA-TTGT
* * * * * *
30498729 A--TT-TAT-AGTTTTG-GATCAGTATTTTGTATGAATATTAT
1 ATTTTGTATGAATATTGTAAT--TTTTTTTGTATGAATATTGT
30498767 AATTTTGTATGAATATTGTAA--TTTTTTGTATGAATATTGT
1 -ATTTTGTATGAATATTGTAATTTTTTTTGTATGAATATTGT
30498807 AATTTTTTTGTATGAATATTGTAATTTGTAATTTTGTATGAATATTGT
1 -A---TTTTGTATGAATATTGTAATTT-T--TTTTGTATGAATATTGT
30498855 A
1 A
30498856 ATGTCGGGAT
Statistics
Matches: 128, Mismatches: 19, Indels: 34
0.71 0.10 0.19
Matches are distributed among these distances:
36 2 0.02
37 8 0.06
38 12 0.09
39 3 0.02
40 43 0.34
41 12 0.09
42 3 0.02
43 24 0.19
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 17 0.13
ACGTcount: A:0.31, C:0.01, G:0.12, T:0.56
Consensus pattern (41 bp):
ATTTTGTATGAATATTGTAATTTTTTTTGTATGAATATTGT
Found at i:30498757 original size:101 final size:99
Alignment explanation
Indices: 30498630--30498815 Score: 252
Period size: 101 Copynumber: 1.8 Consensus size: 99
30498620 ATATTTAGTG
* *
30498630 TTTATAGTTTGGATTAGAATTTTGTATGAATATTCTAATTTTTTTTGTATGAATATTGT-A-TTT
1 TTTATAGTTTGGATCAGAATTTTGTATGAATATTATAA----TTTTGTATGAATATTGTAATTTT
30498693 T-TATGAATATTATAATTATTTTATAATTAAATTTGTA
62 TGTATGAATATTATAATTATTTTATAATTAAATTTGTA
*
30498730 TTTATAGTTTTGGATCAGTATTTTGTATGAATATTATAATTTTGTATGAATATTGTAATTTTTTG
1 TTTATAG-TTTGGATCAGAATTTTGTATGAATATTATAATTTTGTATGAATATTGTAA-TTTTTG
* *
30498795 TATGAATATTGTAATTTTTTT
64 TATGAATATTATAATTATTTT
30498816 GTATGAATAT
Statistics
Matches: 76, Mismatches: 5, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
97 17 0.22
98 1 0.01
100 11 0.14
101 47 0.62
ACGTcount: A:0.30, C:0.01, G:0.12, T:0.56
Consensus pattern (99 bp):
TTTATAGTTTGGATCAGAATTTTGTATGAATATTATAATTTTGTATGAATATTGTAATTTTTGTA
TGAATATTATAATTATTTTATAATTAAATTTGTA
Found at i:30498795 original size:21 final size:21
Alignment explanation
Indices: 30498750--30498910 Score: 150
Period size: 21 Copynumber: 7.2 Consensus size: 21
30498740 TGGATCAGTA
*
30498750 TTTTGTATGAATATTATAA--
1 TTTTGTATGAATATTGTAATT
30498769 TTTTGTATGAATATTGTAATT
1 TTTTGTATGAATATTGTAATT
30498790 TTTTGTATGAATATTGTAATTT
1 TTTTGTATGAATATTGTAA-TT
30498812 TTTTGTATGAATATTGTAATTTGT
1 TTTTGTATGAATATTGTAA--T-T
30498836 AATTTTGTATGAATATTGTAATGT
1 --TTTTGTATGAATATTGTAAT-T
*
30498860 CGGGATATAT-TAT-AATATTGTAATT
1 -----T-TTTGTATGAATATTGTAATT
30498885 TTTTGTATGAATATTGTAATT
1 TTTTGTATGAATATTGTAATT
30498906 ATTTT
1 -TTTT
30498911 ATAATTAATT
Statistics
Matches: 124, Mismatches: 4, Indels: 25
0.81 0.03 0.16
Matches are distributed among these distances:
19 20 0.16
20 4 0.03
21 31 0.25
22 25 0.20
23 2 0.02
24 4 0.03
25 1 0.01
26 30 0.24
27 5 0.04
28 2 0.02
ACGTcount: A:0.30, C:0.01, G:0.14, T:0.55
Consensus pattern (21 bp):
TTTTGTATGAATATTGTAATT
Found at i:30498842 original size:101 final size:98
Alignment explanation
Indices: 30498637--30498842 Score: 229
Period size: 101 Copynumber: 2.0 Consensus size: 98
30498627 GTGTTTATAG
* *
30498637 TTTGGATTAGAATTTTGTATGAATATTCTAATTTTTTTTGTATGAATATTGTATTTTTATGAATA
1 TTTGGATCAGAATTTTGTATGAATATTATAA---TTTTTGTATGAATATTGTATTTTTATGAATA
* *
30498702 TTATAATTATTTTATAATTAAATTTGTATTTATAGT
63 TTATAATTATTTTATAATGAAATTTGTATTTATAAT
*
30498738 TTTGGATCAGTATTTTGTATGAATATTATAA-TTTTGTATGAATATTGTAATTTTTTGTATGAAT
1 TTTGGATCAGAATTTTGTATGAATATTATAATTTTTGTATGAATATTGT-A--TTTT-TATGAAT
* * * *
30498802 ATTGTAATTTTTTTGT-ATG-AATATTGTAATTTGTAAT
62 ATTATAATTATTTTATAATGAAAT-TTGT-ATTTATAAT
30498839 TTTG
1 TTTG
30498843 TATGAATATT
Statistics
Matches: 90, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
97 17 0.19
98 1 0.01
99 3 0.03
100 10 0.11
101 59 0.66
ACGTcount: A:0.30, C:0.01, G:0.13, T:0.56
Consensus pattern (98 bp):
TTTGGATCAGAATTTTGTATGAATATTATAATTTTTGTATGAATATTGTATTTTTATGAATATTA
TAATTATTTTATAATGAAATTTGTATTTATAAT
Found at i:30498857 original size:19 final size:19
Alignment explanation
Indices: 30498749--30498833 Score: 116
Period size: 19 Copynumber: 4.2 Consensus size: 19
30498739 TTGGATCAGT
*
30498749 ATTTTGTATGAATATTATA
1 ATTTTGTATGAATATTGTA
30498768 ATTTTGTATGAATATTGTA
1 ATTTTGTATGAATATTGTA
30498787 ATTTTTTGTATGAATATTGTA
1 A--TTTTGTATGAATATTGTA
30498808 ATTTTTTTGTATGAATATTGTA
1 A---TTTTGTATGAATATTGTA
30498830 ATTT
1 ATTT
30498834 GTAATTTTGT
Statistics
Matches: 62, Mismatches: 1, Indels: 6
0.90 0.01 0.09
Matches are distributed among these distances:
19 22 0.35
21 19 0.31
22 21 0.34
ACGTcount: A:0.31, C:0.00, G:0.13, T:0.56
Consensus pattern (19 bp):
ATTTTGTATGAATATTGTA
Found at i:30499161 original size:15 final size:15
Alignment explanation
Indices: 30499120--30499161 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
30499110 GTTAACTCAT
*
30499120 TTAATTTTTATATAA
1 TTAAATTTTATATAA
*
30499135 TGTAACTTTTATATAA
1 T-TAAATTTTATATAA
30499151 TTAAATTTTAT
1 TTAAATTTTAT
30499162 TTGATTTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (15 bp):
TTAAATTTTATATAA
Found at i:30505088 original size:36 final size:36
Alignment explanation
Indices: 30505046--30505127 Score: 87
Period size: 36 Copynumber: 2.3 Consensus size: 36
30505036 TTTAGGATTG
*
30505046 AATTGTAAAATAAG-AAAATATGTG-TTTGAGGAATTA
1 AATTGTAAAAT-AGTAAAATATG-GATTTAAGGAATTA
* * *
30505082 AATTGTAGAATAGTAAAATTTGGATTTAAGGGATTA
1 AATTGTAAAATAGTAAAATATGGATTTAAGGAATTA
*
30505118 AATCGTAAAA
1 AATTGTAAAA
30505128 AATATAACTT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
35 3 0.08
36 35 0.92
ACGTcount: A:0.46, C:0.01, G:0.20, T:0.33
Consensus pattern (36 bp):
AATTGTAAAATAGTAAAATATGGATTTAAGGAATTA
Found at i:30509647 original size:18 final size:17
Alignment explanation
Indices: 30509617--30509650 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
30509607 TCTCTTATAG
*
30509617 TTTGATTTTATTTTAAT
1 TTTGATTTAATTTTAAT
30509634 TTTGAATTTAATTTTAA
1 TTTG-ATTTAATTTTAA
30509651 GAATTAGATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (17 bp):
TTTGATTTAATTTTAAT
Found at i:30512716 original size:21 final size:21
Alignment explanation
Indices: 30512690--30512730 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
30512680 AGACGAGCAA
* *
30512690 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
30512711 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
30512731 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:30520327 original size:26 final size:26
Alignment explanation
Indices: 30520297--30520346 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
30520287 AGATATCCAT
30520297 ATCCACGATTAACATAGATCCTACTA
1 ATCCACGATTAACATAGATCCTACTA
30520323 ATCCACGATTAACATAGATCCTAC
1 ATCCACGATTAACATAGATCCTAC
30520347 AACCACAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.38, C:0.28, G:0.08, T:0.26
Consensus pattern (26 bp):
ATCCACGATTAACATAGATCCTACTA
Found at i:30522120 original size:14 final size:14
Alignment explanation
Indices: 30522101--30522131 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
30522091 TAACTCTTGC
30522101 TAAATTAACAACCT
1 TAAATTAACAACCT
30522115 TAAATTAACAACCT
1 TAAATTAACAACCT
30522129 TAA
1 TAA
30522132 GACCAGGACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.52, C:0.19, G:0.00, T:0.29
Consensus pattern (14 bp):
TAAATTAACAACCT
Found at i:30525866 original size:5 final size:6
Alignment explanation
Indices: 30525848--30525873 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
30525838 ATTTAAACTT
30525848 AATAAA AATAAA AATAAA AATAAA AA
1 AATAAA AATAAA AATAAA AATAAA AA
30525874 CTGTTTTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AATAAA
Found at i:30530191 original size:12 final size:12
Alignment explanation
Indices: 30530176--30530211 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
30530166 TGTTGATATG
30530176 GATGATAGTTAT
1 GATGATAGTTAT
30530188 GATGA-AGATTAT
1 GATGATAG-TTAT
30530200 GATGATAGTTAT
1 GATGATAGTTAT
30530212 AACTACTCTG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 2 0.09
12 18 0.82
13 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.25, T:0.39
Consensus pattern (12 bp):
GATGATAGTTAT
Found at i:30532242 original size:18 final size:17
Alignment explanation
Indices: 30532208--30532247 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
30532198 AAAATATGGA
30532208 ATTAACATTTTTTAATT
1 ATTAACATTTTTTAATT
*
30532225 TTTAACATTTTTTAAATT
1 ATTAACATTTTTT-AATT
30532243 ATTAA
1 ATTAA
30532248 GTAATTTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (17 bp):
ATTAACATTTTTTAATT
Found at i:30535417 original size:43 final size:43
Alignment explanation
Indices: 30535330--30535539 Score: 244
Period size: 43 Copynumber: 4.9 Consensus size: 43
30535320 AGCTCGTACA
* * * *** *
30535330 ATGCCAACATCCCAGACATGGTCTTACATGTATTTACAAATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACAAGTCG
*
30535373 ATGCC-ACTGTCCCAGACAG-GGTCTTACATGTAAACACAAGTCG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAAACACAAGTCG
* * * *
30535416 ATGCCAACATCCCAGATGTGGTCTTACACGTAAACATAAGTAG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACAAGTCG
* * * *
30535459 ATGTCAATGTCCCAGACGTGGTCTTACACATAAACATAAGTCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACAAGTCG
30535502 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACA
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACA
30535540 TATTGAAAAT
Statistics
Matches: 142, Mismatches: 21, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
42 3 0.02
43 137 0.96
44 2 0.01
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.23
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACAAGTCG
Found at i:30536539 original size:114 final size:114
Alignment explanation
Indices: 30536393--30536700 Score: 472
Period size: 114 Copynumber: 2.7 Consensus size: 114
30536383 CTTTCGGGGA
* * * *
30536393 TTTAGCGGCGTTTCTGAGAAAGCACCGCAAAAAAATATAATCCCAACGATGCCGTTTTGTAAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCACCGCAAAAAAATATAAGCCCAACGACGCCGTTTTGTGAGCT
*
30536458 TTCGAGGATTTAGCGACGTTTTTAAGAAAGCGCCGCTAACGCTTAGGGC
66 TTCGAGGATTTAGCGACGTTTTTAAGAAAGCGCCGCTAACGCTCAGGGC
* *
30536507 TTTAGCGGCGTTTTTGAGAAAGCACCGCAAAAAAACATAAGCCCAACGACGACGTTTTGTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCACCGCAAAAAAATATAAGCCCAACGACGCCGTTTTGTGAGCT
* * *
30536572 TTCGAGGGTTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
66 TTCGAGGATTTAGCGACGTTTTTAAGAAAGCGCCGCTAACGCTCAGGGC
* * * * *
30536621 TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAATTCTAAGCCCAACGACGCCGTTTTCTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCACCGCAAAAAAATATAAGCCCAACGACGCCGTTTTGTGAGCT
*
30536686 TTCGGGGATTTAGCG
66 TTCGAGGATTTAGCG
30536701 GCCAAAAATG
Statistics
Matches: 175, Mismatches: 19, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
114 175 1.00
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.26
Consensus pattern (114 bp):
TTTAGCGGCGTTTTTGAGAAAGCACCGCAAAAAAATATAAGCCCAACGACGCCGTTTTGTGAGCT
TTCGAGGATTTAGCGACGTTTTTAAGAAAGCGCCGCTAACGCTCAGGGC
Found at i:30537082 original size:23 final size:24
Alignment explanation
Indices: 30537049--30537104 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
30537039 GGATTTAAGG
* *
30537049 TTTAGGTGTTAGA-GGGTTAGGGA
1 TTTAGGGGTTAGACGGGCTAGGGA
*
30537072 TTTAGGGGTTAGACGTGCTAGGGA
1 TTTAGGGGTTAGACGGGCTAGGGA
*
30537096 TTCAGGGGT
1 TTTAGGGGT
30537105 CGAGTTAGGG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
23 12 0.43
24 16 0.57
ACGTcount: A:0.20, C:0.05, G:0.43, T:0.32
Consensus pattern (24 bp):
TTTAGGGGTTAGACGGGCTAGGGA
Found at i:30537304 original size:14 final size:14
Alignment explanation
Indices: 30537270--30537310 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
30537260 ATTTTAAGGG
* *
30537270 TTAGGGAGTATGGAT
1 TTAGGGATTAT-GAA
30537285 TTAGGGATTATGAA
1 TTAGGGATTATGAA
30537299 TTAGGGATTATG
1 TTAGGGATTATG
30537311 GTTTAAGGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 14 0.58
15 10 0.42
ACGTcount: A:0.29, C:0.00, G:0.34, T:0.37
Consensus pattern (14 bp):
TTAGGGATTATGAA
Found at i:30537336 original size:21 final size:20
Alignment explanation
Indices: 30537302--30537342 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
30537292 TTATGAATTA
*
30537302 GGGATTATGGTTTAAGGGTT
1 GGGATTAAGGTTTAAGGGTT
*
30537322 GGGATTTAAGGTTTAGGGGTT
1 GGGA-TTAAGGTTTAAGGGTT
30537343 AAAGGTTTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.20, C:0.00, G:0.41, T:0.39
Consensus pattern (20 bp):
GGGATTAAGGTTTAAGGGTT
Found at i:30537342 original size:29 final size:30
Alignment explanation
Indices: 30537310--30537397 Score: 87
Period size: 29 Copynumber: 3.0 Consensus size: 30
30537300 TAGGGATTAT
30537310 GGTTTAAGGGTT-GGGATTTAAGGTTTAGG
1 GGTTTAAGGGTTAGGGATTTAAGGTTTAGG
* * *
30537339 GGTTAAAGGTTTAGAGG--TT-AGATGTTAGG
1 GGTTTAAGGGTTAG-GGATTTAAGGT-TTAGG
*
30537368 GG-TTAAGAGTTAGGGATTTAAGGTTTAGG
1 GGTTTAAGGGTTAGGGATTTAAGGTTTAGG
30537397 G
1 G
30537398 ATTCAGGGAT
Statistics
Matches: 46, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
27 2 0.04
28 11 0.24
29 27 0.59
30 4 0.09
31 2 0.04
ACGTcount: A:0.25, C:0.00, G:0.40, T:0.35
Consensus pattern (30 bp):
GGTTTAAGGGTTAGGGATTTAAGGTTTAGG
Found at i:30537398 original size:15 final size:15
Alignment explanation
Indices: 30537312--30537400 Score: 64
Period size: 15 Copynumber: 6.1 Consensus size: 15
30537302 GGGATTATGG
*
30537312 TTTAAGGGTT-GGGA
1 TTTAAGGTTTAGGGA
*
30537326 TTTAAGGTTTAGGGG
1 TTTAAGGTTTAGGGA
*
30537341 TTAAAGGTTTAGAGG-
1 TTTAAGGTTTAG-GGA
*
30537356 -TT-AGATGTTAGGG-
1 TTTAAGGT-TTAGGGA
*
30537369 GTTAAGAG-TTAGGGA
1 TTTAAG-GTTTAGGGA
30537384 TTTAAGGTTTAGGGA
1 TTTAAGGTTTAGGGA
30537399 TT
1 TT
30537401 CAGGGATCGA
Statistics
Matches: 60, Mismatches: 7, Indels: 15
0.73 0.09 0.18
Matches are distributed among these distances:
13 5 0.08
14 23 0.38
15 30 0.50
16 2 0.03
ACGTcount: A:0.26, C:0.00, G:0.37, T:0.37
Consensus pattern (15 bp):
TTTAAGGTTTAGGGA
Found at i:30538144 original size:106 final size:106
Alignment explanation
Indices: 30537950--30538237 Score: 444
Period size: 107 Copynumber: 2.7 Consensus size: 106
30537940 TTTATTTTAT
* *
30537950 AAAA-AAATCAATTTATAAAAAATAAAATAAAATATTTT-TAGCAA-AGCAAAACG-GTACATTT
1 AAAATAAATCAATTTATAAAAAACAAAATAAAAAATTTTAT-G-AATAGCAAAACGCGT-CATTT
*
30538011 TGTTCAAAATGAAATAGCGGCGTTTTTAT-AAAAAACGCCGCAA
63 TGTTCAAAATGAAATAGCGGCATTTTTATAAAAAAACGCCGCAA
*
30538054 AAAATAAATCAATTTATAAAAAACAAAATAAAAAATTTTATGAATAGAAAAACAGCGTCATTTTG
1 AAAATAAATCAATTTATAAAAAACAAAATAAAAAATTTTATGAATAGCAAAAC-GCGTCATTTTG
30538119 TTCAAAATGAAATAGCGGCATTTTTATAAAAAAACGCCGCAA
65 TTCAAAATGAAATAGCGGCATTTTTATAAAAAAACGCCGCAA
30538161 AAAATAAATCAATTTATAAAAAACAAAATAAAAAATTTTTAT-AATAGCAAAACGGCGTCATTTT
1 AAAATAAATCAATTTATAAAAAACAAAATAAAAAA-TTTTATGAATAGCAAAAC-GCGTCATTTT
30538225 GTTCAAAATGAAA
64 GTTCAAAATGAAA
30538238 AATTTTTTGC
Statistics
Matches: 171, Mismatches: 6, Indels: 11
0.91 0.03 0.06
Matches are distributed among these distances:
104 6 0.04
105 40 0.23
106 35 0.20
107 84 0.49
108 6 0.04
ACGTcount: A:0.52, C:0.11, G:0.10, T:0.27
Consensus pattern (106 bp):
AAAATAAATCAATTTATAAAAAACAAAATAAAAAATTTTATGAATAGCAAAACGCGTCATTTTGT
TCAAAATGAAATAGCGGCATTTTTATAAAAAAACGCCGCAA
Found at i:30538464 original size:250 final size:249
Alignment explanation
Indices: 30538023--30538498 Score: 690
Period size: 250 Copynumber: 1.9 Consensus size: 249
30538013 TTCAAAATGA
30538023 AATAGCGGCGTTTTTATAAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAACAAAATAAAAA
1 AATAGCGGCGTTTTTATAAAAAACGCCGC-AAAAATAAATCAATTTATAAAAAACAAAATAAAAA
30538088 ATTTTATGAATAGAAAAACAGCGTCATTTTGTTCAAAATGAAATAGCGGCATTTTTATAAAAAAA
65 ATTTTATGAATAGAAAAACAGCGTCATTTTGTTCAAAATGAAATAGCGGCATTTTTATAAAAAAA
* * *
30538153 CGCCGCAAAAAATAAATCAATTTATAAAAAACAAAATAAAAAATTTTTATAATAGCAAAACGGCG
130 CGCCACAAAAAATAAATCAATTTATAAAAAAAAAAATAAAAAATTTTTATAATAGCAAAACGGAG
*
30538218 TCATTTTGTTCAAAATGAAAAATTTTTTGCGATAAAAACGCCGCTAAAGGTAAGC
195 TCATTTTGTTAAAAATGAAAAATTTTTTGCGATAAAAACGCCGCTAAAGGTAAGC
* * *
30538273 AATAGCGGCGTTTTTATGAAAAACGCCGC-AAAA-AAATGAATTTATAAAAAAATAAAATAAAAA
1 AATAGCGGCGTTTTTATAAAAAACGCCGCAAAAATAAATCAATTTAT-AAAAAACAAAATAAAAA
* * ** * * * * **
30538336 ATTTT-TAGCATAGCAAAATGGTGTCATTTTGTTCAAAATGAAATAGTGGCGTTTTTTTTCTAAA
65 ATTTTAT-GAATAGAAAAACAGCGTCATTTTGTTCAAAATGAAATAGCGGC-ATTTTTATAAAAA
* *
30538400 AATGCTACAAAAAATAAATCAATTTATAAAAAATAAAAATAAAAAA-TTTTATGAATAGCAAAAC
128 AACGCCACAAAAAATAAATCAATTTATAAAAAA-AAAAATAAAAAATTTTTAT-AATAGCAAAAC
*
30538464 GGAGTCATTTTGTTAAAAATGAAAATTTTTTTGCG
191 GGAGTCATTTTGTTAAAAATGAAAAATTTTTTGCG
30538499 GCGTTTTTAT
Statistics
Matches: 201, Mismatches: 20, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
247 12 0.06
248 62 0.31
249 45 0.22
250 82 0.41
ACGTcount: A:0.48, C:0.11, G:0.12, T:0.29
Consensus pattern (249 bp):
AATAGCGGCGTTTTTATAAAAAACGCCGCAAAAATAAATCAATTTATAAAAAACAAAATAAAAAA
TTTTATGAATAGAAAAACAGCGTCATTTTGTTCAAAATGAAATAGCGGCATTTTTATAAAAAAAC
GCCACAAAAAATAAATCAATTTATAAAAAAAAAAATAAAAAATTTTTATAATAGCAAAACGGAGT
CATTTTGTTAAAAATGAAAAATTTTTTGCGATAAAAACGCCGCTAAAGGTAAGC
Found at i:30551572 original size:10 final size:10
Alignment explanation
Indices: 30551557--30551584 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
30551547 TAATTAATGG
30551557 GTTTATTTAT
1 GTTTATTTAT
30551567 GTTTATTTAT
1 GTTTATTTAT
30551577 GTTTATTT
1 GTTTATTT
30551585 TTATTTGGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.18, C:0.00, G:0.11, T:0.71
Consensus pattern (10 bp):
GTTTATTTAT
Found at i:30554413 original size:15 final size:17
Alignment explanation
Indices: 30554392--30554431 Score: 57
Period size: 15 Copynumber: 2.5 Consensus size: 17
30554382 TAACCTTTTA
30554392 AAAATTATAAAAAT-AT
1 AAAATTATAAAAATAAT
*
30554408 -AAATTATTAAAATAAT
1 AAAATTATAAAAATAAT
30554424 AAAATTAT
1 AAAATTAT
30554432 TTTTTATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 12 0.57
16 2 0.10
17 7 0.33
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
AAAATTATAAAAATAAT
Found at i:30558168 original size:174 final size:175
Alignment explanation
Indices: 30557850--30558170 Score: 414
Period size: 174 Copynumber: 1.8 Consensus size: 175
30557840 AATCCTAATA
* * *
30557850 TCTAAACCAACTCAGAGAATATCAAACTAAACAAGTGCACTACTAGCAAGTTAAATTTCACCTTT
1 TCTAAACCAACTCAAAGAATATCAAACTAAACAAGTGCACTAATAGCAAATTAAATTTCACCTTT
* * * * * *
30557915 CCAGCATTTCTCAAGCATCTAAATAAACTAATTAAGAGATTCAAATCTCACAACCAATTTTCCTA
66 CCAGCATTTCTCAAGCAGCCAAATAAACTAATTAAGAGATCCAAATCTCACAACCAATCTTACAA
* *
30557980 GACCTAATGCTAAAATGAGATTCACAGAAAACAAAATTCTTAGCC
131 AACCTAAAGCTAAAATGAGATTCACAGAAAACAAAATTCTTAGCC
* * * ** *
30558025 TCTAAACCAACTCAAAGAA-ATCAAAGTAAAC-AGCTTCATTAATAGCAAATTGCATTTCACTTT
1 TCTAAACCAACTCAAAGAATATCAAACTAAACAAG-TGCACTAATAGCAAATTAAATTTCACCTT
* * * *
30558088 TCCATCATTTCTCAAGCAGCCAAATAAACTGATTAAAGAGATCCTAATCTCACTACCAA-CTTAC
65 TCCAGCATTTCTCAAGCAGCCAAATAAACTAATT-AAGAGATCCAAATCTCACAACCAATCTTAC
30558152 AAAACCTAAAGCTAAAATG
129 AAAACCTAAAGCTAAAATG
30558171 TAATTTTTTT
Statistics
Matches: 123, Mismatches: 21, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
173 2 0.02
174 82 0.67
175 39 0.32
ACGTcount: A:0.42, C:0.23, G:0.09, T:0.26
Consensus pattern (175 bp):
TCTAAACCAACTCAAAGAATATCAAACTAAACAAGTGCACTAATAGCAAATTAAATTTCACCTTT
CCAGCATTTCTCAAGCAGCCAAATAAACTAATTAAGAGATCCAAATCTCACAACCAATCTTACAA
AACCTAAAGCTAAAATGAGATTCACAGAAAACAAAATTCTTAGCC
Found at i:30563603 original size:61 final size:61
Alignment explanation
Indices: 30563538--30563664 Score: 166
Period size: 61 Copynumber: 2.1 Consensus size: 61
30563528 ATCCTAAATA
* * ** *
30563538 TAAAATATTCAACAAAATTAGCCTTCAATGTTTACAA-AATTTGTCATTTTAGTTCGAATTC
1 TAAAAAATTCAACAAAATTAGCCCTCAAAATTTACAATAATTT-TCAATTTAGTTCGAATTC
* * *
30563599 TAAAAAATTCAATAAATTTAGCCCTCAAAATTTACAATAATTTTCAATTTAGTTCTAATTC
1 TAAAAAATTCAACAAAATTAGCCCTCAAAATTTACAATAATTTTCAATTTAGTTCGAATTC
30563660 TAAAA
1 TAAAA
30563665 CAATAAATAA
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
61 52 0.91
62 5 0.09
ACGTcount: A:0.42, C:0.14, G:0.06, T:0.39
Consensus pattern (61 bp):
TAAAAAATTCAACAAAATTAGCCCTCAAAATTTACAATAATTTTCAATTTAGTTCGAATTC
Found at i:30563854 original size:6 final size:7
Alignment explanation
Indices: 30563835--30563864 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
30563825 CCCACCACGT
30563835 GGAAAAA
1 GGAAAAA
30563842 GGAAAAA
1 GGAAAAA
30563849 GGAAAAA
1 GGAAAAA
30563856 GGAAAAA
1 GGAAAAA
30563863 GG
1 GG
30563865 GAATGAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (7 bp):
GGAAAAA
Found at i:30564856 original size:11 final size:11
Alignment explanation
Indices: 30564792--30564889 Score: 52
Period size: 11 Copynumber: 8.5 Consensus size: 11
30564782 GATGTCTCAA
**
30564792 AAAATAATAGC
1 AAAATAATAAT
*
30564803 AAAATTAACAAT
1 AAAA-TAATAAT
*
30564815 AAAATAAGAAT
1 AAAATAATAAT
* * *
30564826 TATATAATATT
1 AAAATAATAAT
30564837 CAAACAATAATAAT
1 --AA-AATAATAAT
*
30564851 AAAATAATAGT
1 AAAATAATAAT
* *
30564862 AACATAATAGT
1 AAAATAATAAT
* *
30564873 AAAATGACAAT
1 AAAATAATAAT
30564884 AAAATA
1 AAAATA
30564890 GTGAGAAATG
Statistics
Matches: 65, Mismatches: 18, Indels: 8
0.71 0.20 0.09
Matches are distributed among these distances:
11 47 0.72
12 10 0.15
13 1 0.02
14 7 0.11
ACGTcount: A:0.63, C:0.06, G:0.05, T:0.26
Consensus pattern (11 bp):
AAAATAATAAT
Found at i:30568775 original size:64 final size:65
Alignment explanation
Indices: 30568698--30568834 Score: 258
Period size: 64 Copynumber: 2.1 Consensus size: 65
30568688 CTTGTAACTA
*
30568698 AATTTTATAAATGTAGCCAATTCCTTTTTCTAGGAAAAATTATAAATTTGAGCAATAAATCGTTT
1 AATTTAATAAATGTAGCCAATTCCTTTTTCTAGGAAAAATTATAAATTTGAGCAATAAATCGTTT
30568763 AATTTAAT-AATGTAGCCAATTCCTTTTTCTAGGAAAAATTATAAATTTGAGCAATAAATCGTTT
1 AATTTAATAAATGTAGCCAATTCCTTTTTCTAGGAAAAATTATAAATTTGAGCAATAAATCGTTT
30568827 AATTTAAT
1 AATTTAAT
30568835 CTTTTCTTTT
Statistics
Matches: 71, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
64 64 0.90
65 7 0.10
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.40
Consensus pattern (65 bp):
AATTTAATAAATGTAGCCAATTCCTTTTTCTAGGAAAAATTATAAATTTGAGCAATAAATCGTTT
Found at i:30570638 original size:24 final size:24
Alignment explanation
Indices: 30570611--30570657 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
30570601 AAATCAATTA
*
30570611 TATGCA-AAACAATTTTAGAAATAC
1 TATGCATAAAAAATTTTA-AAATAC
*
30570635 TATGTATAAAAAATTTTAAAATA
1 TATGCATAAAAAATTTTAAAATA
30570658 AATAAAATGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.34
Consensus pattern (24 bp):
TATGCATAAAAAATTTTAAAATAC
Found at i:30573201 original size:13 final size:13
Alignment explanation
Indices: 30573179--30573245 Score: 62
Period size: 13 Copynumber: 4.9 Consensus size: 13
30573169 TTTATTCTAT
*
30573179 TTTCTATTTTTTC
1 TTTCTTTTTTTTC
*
30573192 GTTCTTTTTTTTCC
1 TTTCTTTTTTTT-C
30573206 TTTTCTTTTTTTTC
1 -TTTCTTTTTTTTC
**
30573220 TTTCCCTTTTTTC
1 TTTCTTTTTTTTC
*
30573233 ATTCTTTTCTTTT
1 TTTCTTTT-TTTT
30573246 TATGTGCTTC
Statistics
Matches: 43, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
13 26 0.60
14 6 0.14
15 11 0.26
ACGTcount: A:0.03, C:0.19, G:0.01, T:0.76
Consensus pattern (13 bp):
TTTCTTTTTTTTC
Done.