Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 294 of 344
Found at i:98200508 original size:16 final size:17
Alignment explanation
Indices: 98200487--98200520 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
98200477 AATCTCTAGA
98200487 AAAATTA-TTAATTGAG
1 AAAATTACTTAATTGAG
98200503 AAAATTATCTTAATTGAG
1 AAAATTA-CTTAATTGAG
98200521 GGGTTAATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
18 9 0.56
ACGTcount: A:0.47, C:0.03, G:0.12, T:0.38
Consensus pattern (17 bp):
AAAATTACTTAATTGAG
Found at i:98201661 original size:50 final size:51
Alignment explanation
Indices: 98201584--98201712 Score: 190
Period size: 50 Copynumber: 2.5 Consensus size: 51
98201574 GACCATGGCA
98201584 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGA-AAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGATAAA-TG
* *
98201635 A-AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAATGATAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGATAAATG
* * *
98201685 ACAAGTGAAAAGTGGTAGCTTCAGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
98201713 CTGATCAGTG
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
50 44 0.63
51 26 0.37
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGATAAATG
Found at i:98201726 original size:31 final size:31
Alignment explanation
Indices: 98201688--98201867 Score: 290
Period size: 31 Copynumber: 5.8 Consensus size: 31
98201678 ATAAATGACA
*
98201688 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
98201719 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
98201750 TGTGAAAAGTGGTAG-TTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTT-CGGCTACCTGATC
98201781 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
98201812 AGTGAAAAATGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
98201843 AGTGAATAGTGGTAGCTTTGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
98201868 AAGTGACAAG
Statistics
Matches: 139, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
30 2 0.01
31 135 0.97
32 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:98201962 original size:47 final size:46
Alignment explanation
Indices: 98201892--98202057 Score: 162
Period size: 47 Copynumber: 3.7 Consensus size: 46
98201882 AACTGATTTT
* * *
98201892 CGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTA
1 CGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATA
* *
98201938 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATT
1 C-GTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATA
* * * *
98201985 CGTGTAAGACCATAGCTGCGCTATGGCAT---T--GATATATGAATA
1 CGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATG-ATA
* * * *
98202027 TGTGTAAGACCATAGCTGGGCTATGGCATCA
1 CGTATAAGACCATATCTGGGATATGGCATCA
98202058 TTATGTGAAG
Statistics
Matches: 103, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
41 7 0.07
42 29 0.28
43 1 0.01
46 25 0.24
47 41 0.40
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.30
Consensus pattern (46 bp):
CGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATA
Found at i:98202044 original size:42 final size:43
Alignment explanation
Indices: 98201986--98202097 Score: 147
Period size: 42 Copynumber: 2.7 Consensus size: 43
98201976 TATGTGATTC
* * *
98201986 GTGTAAGACCATAGCTGCGCTATGGCATTGA-TATATGAATAT
1 GTGTAAGACCATAGCTGAGCTATGGCATTCATTATATGAAGAT
* *
98202028 GTGTAAGACCATAGCTGGGCTATGGCA-TCATTATGTGAAGAT
1 GTGTAAGACCATAGCTGAGCTATGGCATTCATTATATGAAGAT
* *
98202070 GTGTAAGACCATAGTTGAACTATGGCAT
1 GTGTAAGACCATAGCTGAGCTATGGCAT
98202098 CGAGAAAACG
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
41 2 0.03
42 59 0.97
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (43 bp):
GTGTAAGACCATAGCTGAGCTATGGCATTCATTATATGAAGAT
Found at i:98202356 original size:27 final size:27
Alignment explanation
Indices: 98202326--98202390 Score: 112
Period size: 29 Copynumber: 2.3 Consensus size: 27
98202316 GATATGGAAT
98202326 AAATTGAACACAAGACAAATAATTATG
1 AAATTGAACACAAGACAAATAATTATG
98202353 AAATTGAAAACACAAGACAAATAATTATG
1 AAATTG--AACACAAGACAAATAATTATG
98202382 AAATTGAAC
1 AAATTGAAC
98202391 TCGGAATACG
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
27 9 0.25
29 27 0.75
ACGTcount: A:0.57, C:0.11, G:0.11, T:0.22
Consensus pattern (27 bp):
AAATTGAACACAAGACAAATAATTATG
Found at i:98202368 original size:29 final size:29
Alignment explanation
Indices: 98202332--98202389 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
98202322 GAATAAATTG
98202332 AACACAAGACAAATAATTATGAAATTGAA
1 AACACAAGACAAATAATTATGAAATTGAA
98202361 AACACAAGACAAATAATTATGAAATTGAA
1 AACACAAGACAAATAATTATGAAATTGAA
98202390 CTCGGAATAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.21
Consensus pattern (29 bp):
AACACAAGACAAATAATTATGAAATTGAA
Found at i:98202536 original size:21 final size:22
Alignment explanation
Indices: 98202511--98202558 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
98202501 CGAAAGAATG
98202511 AAAAATAAAT-AAATTA-GTATA
1 AAAAATAAATAAAATTAGGTA-A
*
98202532 AAAAA-ATATAAAATTAGGTAA
1 AAAAATAAATAAAATTAGGTAA
98202553 AAAAAT
1 AAAAAT
98202559 GAACAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
20 3 0.13
21 17 0.74
22 3 0.13
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.25
Consensus pattern (22 bp):
AAAAATAAATAAAATTAGGTAA
Found at i:98202542 original size:20 final size:20
Alignment explanation
Indices: 98202511--98202558 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 20
98202501 CGAAAGAATG
*
98202511 AAAAATAAATAAATTAGTATAA
1 AAAAATATA-AAATTAG-ATAA
*
98202533 AAAAATATAAAATTAGGTAA
1 AAAAATATAAAATTAGATAA
98202553 AAAAAT
1 AAAAAT
98202559 GAACAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 9 0.38
21 7 0.29
22 8 0.33
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.25
Consensus pattern (20 bp):
AAAAATATAAAATTAGATAA
Found at i:98202776 original size:3 final size:3
Alignment explanation
Indices: 98202768--98202798 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
98202758 ATTTAATAGT
*
98202768 ATA ATA ATA ATA ATA ATA ATA GTA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
98202799 CGATGTGAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:98202927 original size:3 final size:3
Alignment explanation
Indices: 98202921--98203080 Score: 123
Period size: 3 Copynumber: 53.3 Consensus size: 3
98202911 TATTAATAGG
* * * *
98202921 AAT AAT AAT -AT AGACT AAT AAT AAC AAT AAC AAT AA- CAG AAT AAT
1 AAT AAT AAT AAT A-A-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
98202966 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AT AAAT AGT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT
* * * * * *
98203011 AGA- AA- AAC GAT AAT AGT AAT AAC AAT GAT AAT AAT AAAT AAT AAG
1 A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT
* *
98203056 AGT AAT AGT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
98203081 CTCTAAATGT
Statistics
Matches: 124, Mismatches: 24, Indels: 18
0.75 0.14 0.11
Matches are distributed among these distances:
2 8 0.06
3 106 0.85
4 8 0.06
5 2 0.02
ACGTcount: A:0.62, C:0.04, G:0.06, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:98204209 original size:25 final size:25
Alignment explanation
Indices: 98204175--98204226 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
98204165 CTTTTGCAGG
98204175 GATGGCAGAGGAGTTGGTGGTGACA
1 GATGGCAGAGGAGTTGGTGGTGACA
98204200 GATGGCAGAGGAGTTGGTGGTGACA
1 GATGGCAGAGGAGTTGGTGGTGACA
98204225 GA
1 GA
98204227 CCTTGGGCGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.25, C:0.08, G:0.48, T:0.19
Consensus pattern (25 bp):
GATGGCAGAGGAGTTGGTGGTGACA
Found at i:98206783 original size:15 final size:15
Alignment explanation
Indices: 98206763--98206804 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
98206753 AAATTTAAAT
*
98206763 AGAATGTAATT-CTTG
1 AGAATGTAATTAC-TA
98206778 AGAATGTAATTACTA
1 AGAATGTAATTACTA
98206793 AGAATGTAATTA
1 AGAATGTAATTA
98206805 TCAAGAGTAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 24 0.96
16 1 0.04
ACGTcount: A:0.43, C:0.05, G:0.17, T:0.36
Consensus pattern (15 bp):
AGAATGTAATTACTA
Found at i:98206810 original size:15 final size:15
Alignment explanation
Indices: 98206763--98206810 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
98206753 AAATTTAAAT
* **
98206763 AGAATGTAATTCTTG
1 AGAATGTAATTATCA
98206778 AGAATGTAATTA-CTA
1 AGAATGTAATTATC-A
98206793 AGAATGTAATTATCA
1 AGAATGTAATTATCA
98206808 AGA
1 AGA
98206811 GTACATAACA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
15 27 0.96
16 1 0.04
ACGTcount: A:0.44, C:0.06, G:0.17, T:0.33
Consensus pattern (15 bp):
AGAATGTAATTATCA
Found at i:98207042 original size:17 final size:18
Alignment explanation
Indices: 98207020--98207054 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
98207010 AACAAGTAAT
98207020 TTAATATT-TTTATTTTA
1 TTAATATTATTTATTTTA
98207037 TTAATATTATTTATTTTA
1 TTAATATTATTTATTTTA
98207055 AATAAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
TTAATATTATTTATTTTA
Found at i:98207158 original size:28 final size:27
Alignment explanation
Indices: 98207118--98207193 Score: 107
Period size: 28 Copynumber: 2.7 Consensus size: 27
98207108 ACTCTATAAA
98207118 TAAGATCAAGGGTTGACAAGTATCCTAT
1 TAAGA-CAAGGGTTGACAAGTATCCTAT
*
98207146 TAAGACAATGGGTTGACAAGTGTCCTAT
1 TAAGACAA-GGGTTGACAAGTATCCTAT
*
98207174 TAAGACTAAGAGTTGACAAG
1 TAAGAC-AAGGGTTGACAAG
98207194 GGTCTAATAA
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
27 3 0.07
28 39 0.89
29 2 0.05
ACGTcount: A:0.37, C:0.13, G:0.24, T:0.26
Consensus pattern (27 bp):
TAAGACAAGGGTTGACAAGTATCCTAT
Found at i:98207385 original size:15 final size:15
Alignment explanation
Indices: 98207349--98207390 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
98207339 ATTAAACTAG
**
98207349 TATAAATTTTAAATTT
1 TATAAA-TTTAAATCA
98207365 TA-AAATTTAAATCA
1 TATAAATTTAAATCA
98207379 TATAAATTTAAA
1 TATAAATTTAAA
98207391 AATAAATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 9 0.39
15 12 0.52
16 2 0.09
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
TATAAATTTAAATCA
Found at i:98216802 original size:44 final size:44
Alignment explanation
Indices: 98216749--98217811 Score: 1646
Period size: 44 Copynumber: 24.4 Consensus size: 44
98216739 AATCCAAGAT
* *
98216749 GATTTGGCGTCTCTGTAGCGGCAGAAAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
98216793 GATTTGGCGTCTCTGTAGCGACGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
98216837 GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAG---AC-
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
98216877 GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
98216921 GATTTGGCGTCTCTGTAGCGGGGGAGAGCAGATCAAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
98216965 GATTTGGCGTCTCTGTAGCGGCGGATAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
98217009 GATTTGGTGTCTCCGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
98217053 GATTTGGCGTCTCTGTAGCGGCGAAGAGAAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
98217097 GATTTGGCGTCTCCGTAGCGGCAGAGAGCAGATCGAACATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
98217141 GATTTGGCGTCTTTGTAGCGGCAGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
98217185 AATTTGGTGTCTCCGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
98217229 GATTTGGCCTCTCCGTAGCGACGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * * *
98217273 GATCTGACGTCTCTGTAGCGGCGGAGAACAGATTGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
98217317 GATTTGACGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * **
98217361 GATTTGGCGTCTCTGTCGCGGCGGAGAGTAGATCGAATTTAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
98217405 GATTTGGCGTCTCTGTAGCGGTGGAGAGCAGATCGAA-TTAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
98217448 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAATG-TAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAA-GATAACA
98217492 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGAT----
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
98217532 GATTTGGCATCTCTGTAGTGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
98217576 GATTTGACGTCT-TGTAGCGGCGGAGAGCAGATTGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
98217619 GATTTGGTGTCTCCGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
98217663 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
98217707 GATTTGGCGTCTCTGTAGCGGCGGAGAGCATATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
98217751 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACG
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
98217795 GA-TTGAGCGTCTCTGTA
1 GATTTG-GCGTCTCTGTA
98217812 TTAGACGGGG
Statistics
Matches: 937, Mismatches: 69, Indels: 26
0.91 0.07 0.03
Matches are distributed among these distances:
40 76 0.08
41 2 0.00
43 87 0.09
44 772 0.82
ACGTcount: A:0.28, C:0.18, G:0.32, T:0.22
Consensus pattern (44 bp):
GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
Found at i:98218119 original size:8 final size:8
Alignment explanation
Indices: 98218106--98218144 Score: 51
Period size: 8 Copynumber: 4.6 Consensus size: 8
98218096 AACCCAAAAT
98218106 AAAAATAA
1 AAAAATAA
98218114 AAAAATAA
1 AAAAATAA
98218122 AAAAATGAA
1 AAAAAT-AA
*
98218131 GAAAAAGAA
1 -AAAAATAA
98218140 AAAAA
1 AAAAA
98218145 CCTAACCTCT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
8 19 0.68
9 4 0.14
10 5 0.18
ACGTcount: A:0.85, C:0.00, G:0.08, T:0.08
Consensus pattern (8 bp):
AAAAATAA
Found at i:98219336 original size:19 final size:19
Alignment explanation
Indices: 98219312--98219349 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
98219302 TTGAGATTGC
*
98219312 CAACCTATTTGCTTGAAAT
1 CAACCTATTTGCCTGAAAT
98219331 CAACCTATTTGCCTGAAAT
1 CAACCTATTTGCCTGAAAT
98219350 TATTCATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.34
Consensus pattern (19 bp):
CAACCTATTTGCCTGAAAT
Found at i:98225496 original size:21 final size:19
Alignment explanation
Indices: 98225446--98225482 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
98225436 ATGTATTTCC
98225446 ATCTAATTTATATATTTTT
1 ATCTAATTTATATATTTTT
98225465 ATCTAATTTATATATTTT
1 ATCTAATTTATATATTTT
98225483 GTCTTTGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.62
Consensus pattern (19 bp):
ATCTAATTTATATATTTTT
Found at i:98237468 original size:25 final size:25
Alignment explanation
Indices: 98237440--98237489 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
98237430 GAAACTAACT
98237440 AGGAGAGTTTCAAGTTGGAACTCGA
1 AGGAGAGTTTCAAGTTGGAACTCGA
98237465 AGGAGAGTTTCAAGTTGGAACTCGA
1 AGGAGAGTTTCAAGTTGGAACTCGA
98237490 GATTACTTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.32, C:0.12, G:0.32, T:0.24
Consensus pattern (25 bp):
AGGAGAGTTTCAAGTTGGAACTCGA
Found at i:98243041 original size:25 final size:25
Alignment explanation
Indices: 98243013--98243065 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
98243003 GTGACCCTAC
98243013 TTATCTTAAT-TAAAAATCTAAATTA
1 TTAT-TTAATCTAAAAATCTAAATTA
**
98243038 TTATTTAATCTATTAATCTAAATTA
1 TTATTTAATCTAAAAATCTAAATTA
98243063 TTA
1 TTA
98243066 ATTATTTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 5 0.20
25 20 0.80
ACGTcount: A:0.43, C:0.08, G:0.00, T:0.49
Consensus pattern (25 bp):
TTATTTAATCTAAAAATCTAAATTA
Found at i:98243066 original size:13 final size:13
Alignment explanation
Indices: 98243027--98243067 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
98243017 CTTAATTAAA
98243027 AATCTAAATTATT
1 AATCTAAATTATT
*
98243040 -AT-TTAATCTATT
1 AATCTAAAT-TATT
98243052 AATCTAAATTATT
1 AATCTAAATTATT
98243065 AAT
1 AAT
98243068 TATTTTAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
11 4 0.17
12 6 0.26
13 9 0.39
14 4 0.17
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (13 bp):
AATCTAAATTATT
Found at i:98246592 original size:16 final size:17
Alignment explanation
Indices: 98246553--98246601 Score: 66
Period size: 16 Copynumber: 3.0 Consensus size: 17
98246543 CGTCTGGTTC
98246553 ACTGTAATGGAATAG-G
1 ACTGTAATGGAATAGAG
* *
98246569 ACTATAATTGAATAGAG
1 ACTGTAATGGAATAGAG
98246586 -CTGTAATGGAATAGAG
1 ACTGTAATGGAATAGAG
98246602 TTATAATCAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
16 27 0.96
17 1 0.04
ACGTcount: A:0.41, C:0.06, G:0.27, T:0.27
Consensus pattern (17 bp):
ACTGTAATGGAATAGAG
Found at i:98246608 original size:16 final size:16
Alignment explanation
Indices: 98246557--98246608 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
98246547 TGGTTCACTG
98246557 TAATGGAATAG-GACTA
1 TAATGGAATAGAG-CTA
* *
98246573 TAATTGAATAGAGCTG
1 TAATGGAATAGAGCTA
*
98246589 TAATGGAATAGAGTTA
1 TAATGGAATAGAGCTA
98246605 TAAT
1 TAAT
98246609 CAGTAATTGA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
16 29 0.97
17 1 0.03
ACGTcount: A:0.42, C:0.04, G:0.23, T:0.31
Consensus pattern (16 bp):
TAATGGAATAGAGCTA
Found at i:98246824 original size:20 final size:20
Alignment explanation
Indices: 98246799--98246843 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
98246789 ATTATTATTA
98246799 AAAATAATAAATAATTTAAT
1 AAAATAATAAATAATTTAAT
*
98246819 AAAATAATATATAATTTAAT
1 AAAATAATAAATAATTTAAT
98246839 AAAAT
1 AAAAT
98246844 TCTTAATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
AAAATAATAAATAATTTAAT
Found at i:98253241 original size:6 final size:6
Alignment explanation
Indices: 98253230--98253255 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
98253220 AGGAGCAGAG
98253230 AGCTCA AGCTCA AGCTCA AGCTCA AG
1 AGCTCA AGCTCA AGCTCA AGCTCA AG
98253256 TTACAAAGGC
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:0.35, C:0.31, G:0.19, T:0.15
Consensus pattern (6 bp):
AGCTCA
Found at i:98256970 original size:14 final size:14
Alignment explanation
Indices: 98256947--98256976 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
98256937 TTGAAATTAT
98256947 GTTGAATTGGATTG
1 GTTGAATTGGATTG
*
98256961 GTTGATTTGGATTG
1 GTTGAATTGGATTG
98256975 GT
1 GT
98256977 CTCGATATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (14 bp):
GTTGAATTGGATTG
Found at i:98271434 original size:14 final size:14
Alignment explanation
Indices: 98271411--98271440 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
98271401 TTGAAATTAT
98271411 GTTGAATTGGATTG
1 GTTGAATTGGATTG
*
98271425 GTTGATTTGGATTG
1 GTTGAATTGGATTG
98271439 GT
1 GT
98271441 CTCGATATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (14 bp):
GTTGAATTGGATTG
Found at i:98277623 original size:35 final size:35
Alignment explanation
Indices: 98277584--98277654 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
98277574 CGTCGTGCCC
* *
98277584 AGCGTCGTGCCCACGACTCCAGCCGTGACAGAATA
1 AGCGTCGTGCCCACAACTCCAACCGTGACAGAATA
98277619 AGCGTCGTGCCCACAACTCCAACCGTGACAGAATA
1 AGCGTCGTGCCCACAACTCCAACCGTGACAGAATA
98277654 A
1 A
98277655 AAAGAAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.30, C:0.34, G:0.23, T:0.14
Consensus pattern (35 bp):
AGCGTCGTGCCCACAACTCCAACCGTGACAGAATA
Found at i:98278463 original size:11 final size:11
Alignment explanation
Indices: 98278414--98278492 Score: 50
Period size: 11 Copynumber: 6.5 Consensus size: 11
98278404 TTTTGAACTC
* *
98278414 TTTTTTATTTA
1 TTTTTTCTTTT
*
98278425 TTTTTTCTTTC
1 TTTTTTCTTTT
*
98278436 TTTTTTCGAATTAT
1 TTTTTTC---TTTT
98278450 TTTTTTCTTTTT
1 TTTTTTC-TTTT
98278462 TTTTTGTGCTTTT
1 TTTTT-T-CTTTT
*
98278475 TTTGTCTCTTTT
1 TTT-TTTCTTTT
98278487 TTTTTT
1 TTTTTT
98278493 GTTGAACATG
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
11 18 0.33
12 16 0.30
13 9 0.17
14 11 0.20
ACGTcount: A:0.06, C:0.09, G:0.05, T:0.80
Consensus pattern (11 bp):
TTTTTTCTTTT
Found at i:98286700 original size:24 final size:23
Alignment explanation
Indices: 98286644--98286700 Score: 55
Period size: 24 Copynumber: 2.5 Consensus size: 23
98286634 CAAATCATCA
98286644 ATTT-TTTTTTTGAATTATATAT
1 ATTTATTTTTTTGAATTATATAT
* * *
98286666 ATATATATTTTTGAACTCT-TATTT
1 ATTTATTTTTTTGAA-T-TATATAT
98286690 ATTTATTTTTT
1 ATTTATTTTTT
98286701 CTTTCTTTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
22 3 0.11
23 9 0.33
24 14 0.52
25 1 0.04
ACGTcount: A:0.26, C:0.04, G:0.04, T:0.67
Consensus pattern (23 bp):
ATTTATTTTTTTGAATTATATAT
Found at i:98291782 original size:20 final size:20
Alignment explanation
Indices: 98291757--98291817 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
98291747 AAGTGAACCC
98291757 TTAATCGAAAAAACTCCCCT
1 TTAATCGAAAAAACTCCCCT
* **
98291777 TTAATCCAAGTGAA---CCC-
1 TTAATCGAA-AAAACTCCCCT
98291794 TTAATCGAAAAAACTCCCCT
1 TTAATCGAAAAAACTCCCCT
98291814 TTAA
1 TTAA
98291818 CTTCTAATCT
Statistics
Matches: 30, Mismatches: 6, Indels: 10
0.65 0.13 0.22
Matches are distributed among these distances:
16 2 0.07
17 8 0.27
18 3 0.10
19 3 0.10
20 12 0.40
21 2 0.07
ACGTcount: A:0.39, C:0.28, G:0.07, T:0.26
Consensus pattern (20 bp):
TTAATCGAAAAAACTCCCCT
Found at i:98291793 original size:37 final size:37
Alignment explanation
Indices: 98291743--98291817 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
98291733 GTTTCTAAGC
98291743 ATCCAAGTGAACCCTTAATCGAAAAAACTCCCCTTTA
1 ATCCAAGTGAACCCTTAATCGAAAAAACTCCCCTTTA
98291780 ATCCAAGTGAACCCTTAATCGAAAAAACTCCCCTTTA
1 ATCCAAGTGAACCCTTAATCGAAAAAACTCCCCTTTA
98291817 A
1 A
98291818 CTTCTAATCT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.39, C:0.29, G:0.08, T:0.24
Consensus pattern (37 bp):
ATCCAAGTGAACCCTTAATCGAAAAAACTCCCCTTTA
Found at i:98292339 original size:42 final size:43
Alignment explanation
Indices: 98292165--98292399 Score: 305
Period size: 43 Copynumber: 5.5 Consensus size: 43
98292155 GCTTATGAAA
* *
98292165 AAAAACGCCGCTATAGAACATGACCTTTAGCGGTGCTTTTCCC
1 AAAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCC
* *
98292208 AAAAAGCGCCGCTAAAGAACATGGCCTTTAGTGGCGCTTTTCCC
1 AAAAA-CGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCC
* *
98292252 AAAAACGCCGCTAAAGAACATGGCCTTTAGCGACGCTTTTCCC
1 AAAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCC
* * *
98292295 ACAAACACCGCTAAAGAACAT-ACCTTTAGCGGCGCTTTTTCC
1 AAAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCC
* * * * *
98292337 ACAAACGCCACT--ATAATATAGACCTTTAGCGGCGCTTTTCTC
1 AAAAACGCCGCTAAAGAACAT-GACCTTTAGCGGCGCTTTTCCC
98292379 AAAAACGCCGCTAAAGAACAT
1 AAAAACGCCGCTAAAGAACAT
98292400 TTAAAATTAT
Statistics
Matches: 166, Mismatches: 21, Indels: 9
0.85 0.11 0.05
Matches are distributed among these distances:
40 5 0.03
42 57 0.34
43 60 0.36
44 44 0.27
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (43 bp):
AAAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCC
Found at i:98296059 original size:53 final size:51
Alignment explanation
Indices: 98295956--98296059 Score: 138
Period size: 53 Copynumber: 2.0 Consensus size: 51
98295946 CCAACCATAT
*
98295956 ACCTCTTCTTTTTTCCCCACAAGAAACTAGAGTAATCGAACAAATGAAATA
1 ACCTCTTCTTTTTTCCCCACAAGAAACTAGAGTAATCGAACAAATAAAATA
* * *
98296007 ACCTCTTCCCTTTTTTCCCCTCAA-AAACTAAGAGTAATGGAACAAGTAAAATA
1 ACCTCTT--CTTTTTTCCCCACAAGAAACT-AGAGTAATCGAACAAATAAAATA
98296060 TCATTATTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
51 7 0.15
52 5 0.11
53 34 0.74
ACGTcount: A:0.38, C:0.24, G:0.10, T:0.28
Consensus pattern (51 bp):
ACCTCTTCTTTTTTCCCCACAAGAAACTAGAGTAATCGAACAAATAAAATA
Found at i:98296950 original size:15 final size:15
Alignment explanation
Indices: 98296932--98297017 Score: 66
Period size: 15 Copynumber: 5.5 Consensus size: 15
98296922 GACTAAAATA
*
98296932 TTAAATATTAAATTT
1 TTAAATTTTAAATTT
* **
98296947 TTAAGTTTTTTATTT
1 TTAAATTTTAAATTT
*
98296962 TT-AATTTTTAATTT
1 TTAAATTTTAAATTT
*
98296976 TTAGATTTTAAATTTT
1 TTAAATTTTAAA-TTT
98296992 TTGAAGATTTTTATAATTT
1 TT-AA-A-TTTTA-AATTT
98297011 TTAAATT
1 TTAAATT
98297018 AACATATAAA
Statistics
Matches: 56, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
14 12 0.21
15 20 0.36
16 7 0.12
17 2 0.04
18 3 0.05
19 10 0.18
20 2 0.04
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.63
Consensus pattern (15 bp):
TTAAATTTTAAATTT
Found at i:98296967 original size:22 final size:22
Alignment explanation
Indices: 98296939--98296992 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
98296929 ATATTAAATA
*
98296939 TTAAATTTTTAAGTTTTT-TATT
1 TTAAATTTTTAA-TTTTTAGATT
*
98296961 TTTAATTTTTAATTTTTAGATT
1 TTAAATTTTTAATTTTTAGATT
98296983 TTAAATTTTT
1 TTAAATTTTT
98296993 TGAAGATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 5 0.18
22 23 0.82
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.69
Consensus pattern (22 bp):
TTAAATTTTTAATTTTTAGATT
Found at i:98297010 original size:9 final size:8
Alignment explanation
Indices: 98296939--98297017 Score: 67
Period size: 7 Copynumber: 9.9 Consensus size: 8
98296929 ATATTAAATA
98296939 TTAAATTT
1 TTAAATTT
*
98296947 TTAAGTTT
1 TTAAATTT
*
98296955 TT-TATTT
1 TTAAATTT
98296962 TT-AATTT
1 TTAAATTT
98296969 TT-AATTT
1 TTAAATTT
*
98296976 TTAGA-TT
1 TTAAATTT
98296983 TTAAATTTT
1 TTAAA-TTT
98296992 TTGAAGATTT
1 TT-AA-ATTT
98297002 TTATAATTT
1 TTA-AATTT
98297011 TTAAATT
1 TTAAATT
98297018 AACATATAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 12
0.77 0.08 0.16
Matches are distributed among these distances:
7 24 0.41
8 14 0.24
9 12 0.20
10 8 0.14
11 1 0.02
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (8 bp):
TTAAATTT
Found at i:98297896 original size:21 final size:21
Alignment explanation
Indices: 98297850--98297896 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
98297840 TATAAAACAA
* *
98297850 AAAATCATAAACCCTAAACTC
1 AAAACCATAAACCCTAAAATC
*
98297871 TAAACCATAAACCCTAAAATC
1 AAAACCATAAACCCTAAAATC
98297892 AAAAC
1 AAAAC
98297897 TCTAATCACA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.55, C:0.28, G:0.00, T:0.17
Consensus pattern (21 bp):
AAAACCATAAACCCTAAAATC
Found at i:98298569 original size:39 final size:40
Alignment explanation
Indices: 98298463--98298573 Score: 136
Period size: 41 Copynumber: 2.8 Consensus size: 40
98298453 AGATCGAGCA
* *
98298463 TTAGCGGCGTTTTTTAAAAAGCGCCACTAAAGGTGTACCT
1 TTAGCGGCGTTTTTTAAAAAGCGCCGCTAAACGTGTACCT
* * *
98298503 ATAGCGGCGTTTTTTAAAAAAGCGCCGCTAATACTTG-ATCT
1 TTAGCGGCGTTTTTT-AAAAAGCGCCGCTAA-ACGTGTACCT
*
98298544 TTAGTGGCG-TTTTTAAAAAGCGCCGCTAAA
1 TTAGCGGCGTTTTTTAAAAAGCGCCGCTAAA
98298574 GCCACTAAAG
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
38 1 0.02
39 15 0.24
40 19 0.31
41 24 0.39
42 3 0.05
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.31
Consensus pattern (40 bp):
TTAGCGGCGTTTTTTAAAAAGCGCCGCTAAACGTGTACCT
Found at i:98298819 original size:40 final size:40
Alignment explanation
Indices: 98298736--98298820 Score: 116
Period size: 40 Copynumber: 2.1 Consensus size: 40
98298726 CCTATAGGCA
* * *
98298736 TTTTTTGAAAAGCGCCACTAATGTTTATTCTTTAGCAGTG
1 TTTTTTGAAAAGCGCCACTAATGCTCATTCTTTAGCAGCG
* * *
98298776 TTTTTTGAAAAGCGCCACTAATGCTCGTTCTTTTGCGGCG
1 TTTTTTGAAAAGCGCCACTAATGCTCATTCTTTAGCAGCG
98298816 TTTTT
1 TTTTT
98298821 CATTCAAACA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.20, C:0.18, G:0.19, T:0.44
Consensus pattern (40 bp):
TTTTTTGAAAAGCGCCACTAATGCTCATTCTTTAGCAGCG
Found at i:98299301 original size:12 final size:13
Alignment explanation
Indices: 98299269--98299307 Score: 53
Period size: 12 Copynumber: 3.0 Consensus size: 13
98299259 CAAAATTTTC
*
98299269 AAATTAATAATTGT
1 AAATT-ATAATTAT
98299283 AAATTATAATTAT
1 AAATTATAATTAT
98299296 -AATTATAATTAT
1 AAATTATAATTAT
98299308 CACAACTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 12 0.50
13 7 0.29
14 5 0.21
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (13 bp):
AAATTATAATTAT
Found at i:98301357 original size:25 final size:25
Alignment explanation
Indices: 98301329--98301377 Score: 82
Period size: 26 Copynumber: 2.0 Consensus size: 25
98301319 ATATATATCA
98301329 TAAA-ATAGCATATAAAAGAAATAAT
1 TAAACATAGCATATAAAA-AAATAAT
98301354 TAAACATAGCATATAAAAAAATAA
1 TAAACATAGCATATAAAAAAATAA
98301378 AACTATGCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 10 0.43
26 13 0.57
ACGTcount: A:0.65, C:0.06, G:0.06, T:0.22
Consensus pattern (25 bp):
TAAACATAGCATATAAAAAAATAAT
Found at i:98301378 original size:21 final size:23
Alignment explanation
Indices: 98301328--98301377 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 23
98301318 AATATATATC
98301328 ATAAAATAGCATATAAAAGAAATA
1 ATAAAATAGCATAT-AAAGAAATA
*
98301352 ATTAAACATAGCATATAAAAAAATA
1 A-TAAA-ATAGCATATAAAGAAATA
98301377 A
1 A
98301378 AACTATGCAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 1 0.04
25 13 0.57
26 9 0.39
ACGTcount: A:0.66, C:0.06, G:0.06, T:0.22
Consensus pattern (23 bp):
ATAAAATAGCATATAAAGAAATA
Found at i:98301916 original size:19 final size:19
Alignment explanation
Indices: 98301892--98302027 Score: 147
Period size: 19 Copynumber: 6.9 Consensus size: 19
98301882 AATTATATCT
98301892 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
98301911 TCTAAGATTGCCA-ATCATA
1 TCTAAGATTG-CATATCATA
98301930 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
98301947 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
98301966 TCTAAGATTATGATTATTGCAATCATA
1 TCTAAGA-T-TG--CA-T---ATCATA
98301993 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
98302010 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
98302028 TGAATATTAT
Statistics
Matches: 102, Mismatches: 1, Indels: 28
0.78 0.01 0.21
Matches are distributed among these distances:
17 32 0.31
19 46 0.45
20 4 0.04
21 2 0.02
23 1 0.01
24 1 0.01
25 2 0.02
26 1 0.01
27 13 0.13
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:98301962 original size:14 final size:15
Alignment explanation
Indices: 98301906--98301962 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 15
98301896 AGATTGCATA
98301906 TCATATCTAAGATTG
1 TCATATCTAAGATTG
98301921 CCAATCATATCTAAGATTG
1 ----TCATATCTAAGATTG
98301940 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
98301957 -CATATC
1 TCATATC
98301963 ATATCTAAGA
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
19 15 0.41
ACGTcount: A:0.35, C:0.18, G:0.11, T:0.37
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:98302025 original size:14 final size:15
Alignment explanation
Indices: 98301988--98302025 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
98301978 ATTATTGCAA
98301988 TCATATCTAAGATTG
1 TCATATCTAAGATTG
98302003 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
98302020 -CATATC
1 TCATATC
98302026 ATTGAATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.29
17 15 0.71
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:98303332 original size:22 final size:21
Alignment explanation
Indices: 98303289--98303332 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
98303279 AACCATTTAA
* * *
98303289 AATCGAGTTTTGGAAAATGGG
1 AATCGACTTTAGGAAAACGGG
98303310 AATCGACTTTAGGAAAAACGGG
1 AATCGACTTTAGG-AAAACGGG
98303332 A
1 A
98303333 GTCGCCACCA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.39, C:0.09, G:0.30, T:0.23
Consensus pattern (21 bp):
AATCGACTTTAGGAAAACGGG
Found at i:98304299 original size:12 final size:12
Alignment explanation
Indices: 98304284--98304339 Score: 51
Period size: 12 Copynumber: 4.5 Consensus size: 12
98304274 TACAAATAAA
*
98304284 AATATGATATTT
1 AATATAATATTT
98304296 AATAATAAT-TTT
1 AAT-ATAATATTT
*
98304308 AAAATAATATTT
1 AATATAATATTT
*
98304320 AATATACAATATGT
1 AATAT--AATATTT
98304334 AATATA
1 AATATA
98304340 TAATAACAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
11 5 0.14
12 16 0.44
13 4 0.11
14 11 0.31
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.43
Consensus pattern (12 bp):
AATATAATATTT
Found at i:98304313 original size:11 final size:13
Alignment explanation
Indices: 98304290--98304344 Score: 60
Period size: 14 Copynumber: 4.2 Consensus size: 13
98304280 TAAAAATATG
98304290 ATATTTAATAATA
1 ATATTTAATAATA
98304303 AT-TTTAA-AATA
1 ATATTTAATAATA
*
98304314 ATATTTAATATACA
1 ATATTTAATA-ATA
*
98304328 ATATGTAATATATA
1 ATATTTAATA-ATA
98304342 ATA
1 ATA
98304345 ACAAAAAATA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
11 6 0.17
12 10 0.28
13 3 0.08
14 17 0.47
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (13 bp):
ATATTTAATAATA
Found at i:98304392 original size:24 final size:26
Alignment explanation
Indices: 98304339--98304392 Score: 67
Period size: 24 Copynumber: 2.1 Consensus size: 26
98304329 TATGTAATAT
* *
98304339 ATAATAACAAAAAATATTTATGAAAGA
1 ATAATAACAAAAAATA-TTATAAAAAA
98304366 ATAATAA-AAAAAATA-TATAAAAAA
1 ATAATAACAAAAAATATTATAAAAAA
98304390 ATA
1 ATA
98304393 TGTAAAAGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 10 0.40
26 8 0.32
27 7 0.28
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.24
Consensus pattern (26 bp):
ATAATAACAAAAAATATTATAAAAAA
Found at i:98304562 original size:12 final size:11
Alignment explanation
Indices: 98304545--98304644 Score: 54
Period size: 12 Copynumber: 9.2 Consensus size: 11
98304535 TAAAATTATA
98304545 AATAATATAAT
1 AATAATATAAT
98304556 GAATAATA-AA-
1 -AATAATATAAT
98304566 ACATAA-ATAAT
1 A-ATAATATAAT
98304577 -ATAATAGATAAT
1 AATAAT--ATAAT
*
98304589 ATATGATATACAT
1 A-ATAATATA-AT
*
98304602 -ATCATATAAT
1 AATAATATAAT
98304612 AAGTAATAT-AT
1 AA-TAATATAAT
98304623 AATAA-A-AAT
1 AATAATATAAT
*
98304632 AAAAATATAAT
1 AATAATATAAT
98304643 AA
1 AA
98304645 ATGTTAATAA
Statistics
Matches: 70, Mismatches: 4, Indels: 29
0.68 0.04 0.28
Matches are distributed among these distances:
9 13 0.19
10 12 0.17
11 19 0.27
12 20 0.29
13 2 0.03
14 4 0.06
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.31
Consensus pattern (11 bp):
AATAATATAAT
Found at i:98304731 original size:23 final size:22
Alignment explanation
Indices: 98304704--98304766 Score: 60
Period size: 23 Copynumber: 2.9 Consensus size: 22
98304694 AAATAAGATT
*
98304704 TTTTATATAAATAGATAAATAG
1 TTTTATATAAATAAATAAATAG
* *
98304726 TATTTATA-ATAATATATATATAG
1 T-TTTATATA-AATAAATAAATAG
98304749 TTTT-T-TAAATAAATAAAT
1 TTTTATATAAATAAATAAAT
98304767 TATATATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
20 9 0.26
21 2 0.06
22 5 0.15
23 18 0.53
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (22 bp):
TTTTATATAAATAAATAAATAG
Found at i:98306920 original size:207 final size:206
Alignment explanation
Indices: 98306416--98306963 Score: 823
Period size: 205 Copynumber: 2.7 Consensus size: 206
98306406 AAATCTACTT
*
98306416 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCACCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCACCGTAAACAC
* * *
98306481 GTGAAAGCCAAATCAGCTATGTCTTCGATTCGCTCCTTGTAAGCACAAGGATGCCAAATCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* *** * * *
98306546 GGATC-TGCTTCAGTATAAACATCTAAAGGTTGGATTTGCTATGTGTCTGTCCTCCGTCGAAGTG
131 GGATCTTGCTTCAGTATAAACAGCTAAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCAAAGTG
98306610 GAAATGCCAGA
196 GAAATGCCAGA
* * * * *
98306621 CTCCGATTT-TCTCTCT-ACCAATTCAGATATGCCAAATCATCTTAGATTTGCTTTAGCGTAAAC
1 CTTCGATTTGT-TCTCTGA-CAATACAGAGATGCCAAATCATCTTAGATTTGCTTCACCGTAAAC
*
98306684 ACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAATGATGCCAAACCATC
64 ACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATC
* *
98306749 TTGGATCTTGCTTCAGTCTAATCAGCTAAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCAAAG
129 TTGGATCTTGCTTCAGTATAAACAGCTAAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCAAAG
**
98306814 TGGAGCTGCCAGA
194 TGGAAATGCCAGA
* *
98306827 CTTCGATTTGTTCTCTGACAATACAGAGATGCCCAAATCATCTTAGATTTGCTTCATCATAAACA
1 CTTCGATTTGTTCTCTGACAATACAGAGATG-CCAAATCATCTTAGATTTGCTTCACCGTAAACA
* *
98306892 CGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTATAAGCACAAGGATACCAAACCATCT
65 CGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCT
98306957 TGGATCT
130 TGGATCT
98306964 ACTTCGGCAT
Statistics
Matches: 307, Mismatches: 30, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
204 2 0.01
205 121 0.39
206 83 0.27
207 101 0.33
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.31
Consensus pattern (206 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCACCGTAAACAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTTGCTTCAGTATAAACAGCTAAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCAAAGTG
GAAATGCCAGA
Found at i:98315124 original size:13 final size:14
Alignment explanation
Indices: 98315096--98315124 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
98315086 GACGACGATG
98315096 AATACATCAGACTC
1 AATACATCAGACTC
98315110 AATACATCA-ACTC
1 AATACATCAGACTC
98315123 AA
1 AA
98315125 ATTGCCAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.48, C:0.28, G:0.03, T:0.21
Consensus pattern (14 bp):
AATACATCAGACTC
Found at i:98317713 original size:22 final size:21
Alignment explanation
Indices: 98317670--98317713 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
98317660 AACCATTTAA
* * *
98317670 AATCGAGTTTTGGAAAATGGG
1 AATCGACTTTAGGAAAACGGG
98317691 AATCGACTTTAGGAAAAACGGG
1 AATCGACTTTAGG-AAAACGGG
98317713 A
1 A
98317714 GTCGCCACCA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.39, C:0.09, G:0.30, T:0.23
Consensus pattern (21 bp):
AATCGACTTTAGGAAAACGGG
Found at i:98318682 original size:12 final size:13
Alignment explanation
Indices: 98318664--98318718 Score: 51
Period size: 14 Copynumber: 4.2 Consensus size: 13
98318654 TAAAAATATG
98318664 ATATTTAATAATA
1 ATATTTAATAATA
98318677 AT-TTTAA-AATA
1 ATATTTAATAATA
* *
98318688 GTATTTAATATACA
1 ATATTTAATA-ATA
*
98318702 ATATGTAATATATA
1 ATATTTAATA-ATA
98318716 ATA
1 ATA
98318719 ACAAAAAATA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
11 5 0.15
12 10 0.29
13 3 0.09
14 16 0.47
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.44
Consensus pattern (13 bp):
ATATTTAATAATA
Found at i:98318763 original size:15 final size:14
Alignment explanation
Indices: 98318739--98318768 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
98318729 TTTATGAAAG
98318739 AATAATAAAAAAAT
1 AATAATAAAAAAAT
98318753 AATATATAAAAAAAT
1 AATA-ATAAAAAAAT
98318768 A
1 A
98318769 TGTAAAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (14 bp):
AATAATAAAAAAAT
Found at i:98318945 original size:12 final size:11
Alignment explanation
Indices: 98318928--98319027 Score: 54
Period size: 11 Copynumber: 9.2 Consensus size: 11
98318918 TAAAATTATA
98318928 AATAATATAAT
1 AATAATATAAT
98318939 GAATAATA-AA-
1 -AATAATATAAT
98318949 ACATAA-ATAAT
1 A-ATAATATAAT
98318960 -ATAATAGATAAT
1 AATAAT--ATAAT
*
98318972 ATATCATATACAT
1 A-ATAATATA-AT
*
98318985 -ATCATATAAT
1 AATAATATAAT
98318995 AAGTAATAT-AT
1 AA-TAATATAAT
98319006 AATAA-A-AAT
1 AATAATATAAT
*
98319015 AAAAATATAAT
1 AATAATATAAT
98319026 AA
1 AA
98319028 ATGTTAATAA
Statistics
Matches: 71, Mismatches: 3, Indels: 29
0.69 0.03 0.28
Matches are distributed among these distances:
9 13 0.18
10 12 0.17
11 20 0.28
12 20 0.28
13 2 0.03
14 4 0.06
ACGTcount: A:0.62, C:0.04, G:0.03, T:0.31
Consensus pattern (11 bp):
AATAATATAAT
Found at i:98318975 original size:14 final size:13
Alignment explanation
Indices: 98318958--98319078 Score: 50
Period size: 13 Copynumber: 8.7 Consensus size: 13
98318948 AACATAAATA
98318958 ATATAATAGATAAT
1 ATATAATA-ATAAT
98318972 ATATCATATACAT-AT
1 ATAT-A-ATA-ATAAT
98318987 CATATAATAAGTAAT
1 -ATATAATAA-TAAT
*
98319002 ATATAATAAAAAT
1 ATATAATAATAAT
* *
98319015 AAAAATATAATAA-
1 ATATA-ATAATAAT
* *
98319028 ATGTTAATAATAAA
1 AT-ATAATAATAAT
*
98319042 ACATAAT-ATAAAT
1 ATATAATAAT-AAT
*
98319055 ATATAGGAAAATAAT
1 ATATA--ATAATAAT
*
98319070 ATATGATAA
1 ATATAATAA
98319079 ATAAGATTTT
Statistics
Matches: 80, Mismatches: 15, Indels: 25
0.67 0.12 0.21
Matches are distributed among these distances:
12 2 0.03
13 28 0.35
14 25 0.31
15 14 0.17
16 11 0.14
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.32
Consensus pattern (13 bp):
ATATAATAATAAT
Found at i:98318979 original size:26 final size:26
Alignment explanation
Indices: 98318925--98319015 Score: 80
Period size: 26 Copynumber: 3.4 Consensus size: 26
98318915 TTTTAAAATT
* *
98318925 ATAAATAATATAAT-GAATAATAAAAC
1 ATAAATAATATAATAG-ATAATATATC
98318951 ATAAATAATATAATAGATAATATATC
1 ATAAATAATATAATAGATAATATATC
*
98318977 ATATACATATCATATAATA-AGTAATATATA
1 ATA-A-ATA--ATATAATAGA-TAATATATC
98319007 ATAAA-AATA
1 ATAAATAATA
98319016 AAAATATAAT
Statistics
Matches: 56, Mismatches: 3, Indels: 13
0.78 0.04 0.18
Matches are distributed among these distances:
25 3 0.05
26 25 0.45
27 3 0.05
28 4 0.07
29 2 0.04
30 19 0.34
ACGTcount: A:0.60, C:0.04, G:0.03, T:0.32
Consensus pattern (26 bp):
ATAAATAATATAATAGATAATATATC
Found at i:98321047 original size:6 final size:6
Alignment explanation
Indices: 98321036--98321075 Score: 71
Period size: 6 Copynumber: 6.7 Consensus size: 6
98321026 AAAATGAGAC
*
98321036 TATAAA TATAAA TATACA TATAAA TATAAA TATAAA TATA
1 TATAAA TATAAA TATAAA TATAAA TATAAA TATAAA TATA
98321076 TTGTATACAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (6 bp):
TATAAA
Found at i:98322598 original size:137 final size:137
Alignment explanation
Indices: 98322352--98322627 Score: 534
Period size: 137 Copynumber: 2.0 Consensus size: 137
98322342 AGCTCATTCA
98322352 GGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATT
1 GGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATT
*
98322417 CAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAGC
66 CAGATAACAGTATGGCCCATAGCCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAGC
98322482 CCATTTG
131 CCATTTG
*
98322489 GGTAACAGTGGTATTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATT
1 GGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATT
98322554 CAGATAACAGTATGGCCCATAGCCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAGC
66 CAGATAACAGTATGGCCCATAGCCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAGC
98322619 CCATTTG
131 CCATTTG
98322626 GG
1 GG
98322628 AAGACTACTC
Statistics
Matches: 137, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
137 137 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (137 bp):
GGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATT
CAGATAACAGTATGGCCCATAGCCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAGC
CCATTTG
Found at i:98324441 original size:26 final size:26
Alignment explanation
Indices: 98324405--98324488 Score: 125
Period size: 26 Copynumber: 3.2 Consensus size: 26
98324395 CATGAATTTC
98324405 TTATCATGAAACATTTACCTAAACCA
1 TTATCATGAAACATTTACCTAAACCA
* *
98324431 TTATCATGAAACATTTATCTAACCCA
1 TTATCATGAAACATTTACCTAAACCA
*
98324457 TTATCATGGAACATTTACCT-AACCTA
1 TTATCATGAAACATTTACCTAAACC-A
98324483 TTATCA
1 TTATCA
98324489 ATTTGTATCA
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
25 3 0.06
26 49 0.94
ACGTcount: A:0.38, C:0.23, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAAACCA
Found at i:98324448 original size:14 final size:14
Alignment explanation
Indices: 98324405--98324449 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
98324395 CATGAATTTC
98324405 TTATCATGAAACAT
1 TTATCATGAAACAT
*
98324419 TTA-CCT-AAACCA-
1 TTATCATGAAA-CAT
98324431 TTATCATGAAACAT
1 TTATCATGAAACAT
98324445 TTATC
1 TTATC
98324450 TAACCCATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 8
0.71 0.06 0.23
Matches are distributed among these distances:
12 6 0.24
13 8 0.32
14 11 0.44
ACGTcount: A:0.40, C:0.20, G:0.04, T:0.36
Consensus pattern (14 bp):
TTATCATGAAACAT
Found at i:98328508 original size:137 final size:137
Alignment explanation
Indices: 98328262--98328548 Score: 520
Period size: 137 Copynumber: 2.1 Consensus size: 137
98328252 TATTGGGCCT
**
98328262 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
* *
98328327 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATTAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGCCCCATTTCAAAATACATGCAACATCAGTAAA
98328392 CATATGC
131 CATATGC
* *
98328399 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCTCTTTTCAGATTATAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
98328464 AGCCCCTTATTCAGATAACAGTATGGCCCATAGCCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGCCCCATTTCAAAATACATGCAACATCAGTAAA
98328529 CATATGC
131 CATATGC
98328536 AAGCCCATTTGGG
1 AAGCCCATTTGGG
98328549 GAGACTACTC
Statistics
Matches: 144, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
137 144 1.00
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.25
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGCCCCATTTCAAAATACATGCAACATCAGTAAA
CATATGC
Found at i:98330297 original size:26 final size:26
Alignment explanation
Indices: 98330261--98330344 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
98330251 CATGAATTTC
98330261 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
98330287 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
98330313 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
98330339 TTATCA
1 TTATCA
98330345 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:98333926 original size:47 final size:47
Alignment explanation
Indices: 98333771--98333941 Score: 166
Period size: 48 Copynumber: 3.6 Consensus size: 47
98333761 ACCATGGTTA
* * *
98333771 ATGAGATCCCGTGTAAGAACATGTCTAGGACATGGCATCGGCATCGAGT
1 ATGAGATCCCGTATAAGACCATATCT-GGACATGGCATCGGCATCGA-T
* * * *
98333820 -TGAGATCCCGTATAAGACCATATCAAGGATATGGCTTCGGCATCGTT
1 ATGAGATCCCGTATAAGACCATATC-TGGACATGGCATCGGCATCGAT
* * ** * *
98333867 AAGTGATTTCGTATAAGATCATGTCTGGACATGGCATCGGCA-CTGAT
1 ATGAGATCCCGTATAAGACCATATCTGGACATGGCATCGGCATC-GAT
*
98333914 ATGAGATCTCGTATAAGACCATATCTGG
1 ATGAGATCCCGTATAAGACCATATCTGG
98333942 GATATGACAT
Statistics
Matches: 97, Mismatches: 22, Indels: 8
0.76 0.17 0.06
Matches are distributed among these distances:
46 1 0.01
47 40 0.41
48 56 0.58
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (47 bp):
ATGAGATCCCGTATAAGACCATATCTGGACATGGCATCGGCATCGAT
Found at i:98343790 original size:18 final size:18
Alignment explanation
Indices: 98343769--98343898 Score: 73
Period size: 18 Copynumber: 6.7 Consensus size: 18
98343759 TAATAGTTAG
*
98343769 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAATCAA
* * *
98343787 TTATTCAATAATAATCAG
1 TTATTCAGTAACAATCAA
* *
98343805 TTATTTAGTATCAATCAA
1 TTATTCAGTAACAATCAA
*
98343823 TTGATCGGTTATCCAGTAACAGTCAA
1 TT-A-----T-T-CAGTAACAATCAA
*
98343849 TTATTCAGTAAAAATCAGA
1 TTATTCAGTAACAATCA-A
* *
98343868 -TATACAGTAACAATTAAA
1 TTATTCAGTAACAA-TCAA
98343886 TTATTCAGTAACA
1 TTATTCAGTAACA
98343899 GTCGATCTTT
Statistics
Matches: 83, Mismatches: 18, Indels: 21
0.68 0.15 0.17
Matches are distributed among these distances:
18 51 0.61
19 16 0.19
20 1 0.01
24 1 0.01
25 2 0.02
26 12 0.14
ACGTcount: A:0.42, C:0.14, G:0.10, T:0.35
Consensus pattern (18 bp):
TTATTCAGTAACAATCAA
Found at i:98344025 original size:6 final size:6
Alignment explanation
Indices: 98344014--98344044 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
98344004 TCGAAGCTAA
*
98344014 AACAGT AACAGT AACAGT AACAGT AGCAGT A
1 AACAGT AACAGT AACAGT AACAGT AACAGT A
98344045 CGGTACACAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.48, C:0.16, G:0.19, T:0.16
Consensus pattern (6 bp):
AACAGT
Found at i:98344107 original size:47 final size:47
Alignment explanation
Indices: 98344032--98344148 Score: 157
Period size: 47 Copynumber: 2.5 Consensus size: 47
98344022 CAGTAACAGT
* **
98344032 AACAGTAGCAGTACGGTACACATTGTACCTCATCGGAACAAATTCAG-
1 AACAGTAACAGTACGGTACACAGAGTACCTCATCGGAACAAA-TCAGA
*
98344079 AACAGTAACAGTACGGTACACAGAGTACCTCATCGGAACAAATCTGA
1 AACAGTAACAGTACGGTACACAGAGTACCTCATCGGAACAAATCAGA
*
98344126 AATAGTAACAGTAACGGTA-ACAG
1 AACAGTAACAGT-ACGGTACACAG
98344149 TAACAATATC
Statistics
Matches: 63, Mismatches: 5, Indels: 4
0.88 0.07 0.06
Matches are distributed among these distances:
46 3 0.05
47 54 0.86
48 6 0.10
ACGTcount: A:0.40, C:0.21, G:0.20, T:0.19
Consensus pattern (47 bp):
AACAGTAACAGTACGGTACACAGAGTACCTCATCGGAACAAATCAGA
Found at i:98350070 original size:6 final size:6
Alignment explanation
Indices: 98350055--98350094 Score: 71
Period size: 6 Copynumber: 6.7 Consensus size: 6
98350045 AGACCATTGA
*
98350055 TTTTAG TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT
98350095 GCTTTTTGTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (6 bp):
TTTTAT
Found at i:98350100 original size:18 final size:18
Alignment explanation
Indices: 98350055--98350100 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
98350045 AGACCATTGA
*
98350055 TTTTAGTTTTATTTTTAT
1 TTTTACTTTTATTTTTAT
*
98350073 TTTTATTTTTATTTTTAT
1 TTTTACTTTTATTTTTAT
*
98350091 TTTTGCTTTT
1 TTTTACTTTT
98350101 TGTTGTTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.13, C:0.02, G:0.04, T:0.80
Consensus pattern (18 bp):
TTTTACTTTTATTTTTAT
Found at i:98353487 original size:26 final size:26
Alignment explanation
Indices: 98353456--98353563 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
98353446 TGAAATGCCC
*
98353456 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
98353482 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
98353508 ATCATGAAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
98353534 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
98353560 ATCA
1 ATCA
98353564 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:98358466 original size:12 final size:12
Alignment explanation
Indices: 98358449--98358474 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
98358439 GCCGTCCACC
98358449 CATTACTAAGCA
1 CATTACTAAGCA
98358461 CATTACTAAGCA
1 CATTACTAAGCA
98358473 CA
1 CA
98358475 ATGCTGCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.27, G:0.08, T:0.23
Consensus pattern (12 bp):
CATTACTAAGCA
Found at i:98359071 original size:19 final size:20
Alignment explanation
Indices: 98359044--98359081 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
98359034 ATACATATAT
* *
98359044 ATATTAAAACAAGT-ATAAC
1 ATATAAAAAAAAGTGATAAC
98359063 ATATAAAAAAAAGTGATAA
1 ATATAAAAAAAAGTGATAA
98359082 TATTCATTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.63, C:0.05, G:0.08, T:0.24
Consensus pattern (20 bp):
ATATAAAAAAAAGTGATAAC
Found at i:98360721 original size:29 final size:29
Alignment explanation
Indices: 98360679--98360738 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
98360669 CTATTTAAAG
98360679 TTCAACTCTAAAATTCAACAAAAACATCC
1 TTCAACTCTAAAATTCAACAAAAACATCC
98360708 TTCAACTCTAAAATTCAACAAAAACATCC
1 TTCAACTCTAAAATTCAACAAAAACATCC
98360737 TT
1 TT
98360739 TCAAATTAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.47, C:0.27, G:0.00, T:0.27
Consensus pattern (29 bp):
TTCAACTCTAAAATTCAACAAAAACATCC
Found at i:98376422 original size:26 final size:26
Alignment explanation
Indices: 98376376--98376428 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
98376366 AATTAAAATC
*
98376376 AAGCTAAAAAAAATCTAAATTGGGAA
1 AAGCTAAAAAAAATCTAAATTGAGAA
98376402 AAGC-AAAGAAAAATC-ATAATTGAGAA
1 AAGCTAAA-AAAAATCTA-AATTGAGAA
98376428 A
1 A
98376429 TCAAAACCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
25 4 0.17
26 20 0.83
ACGTcount: A:0.60, C:0.08, G:0.15, T:0.17
Consensus pattern (26 bp):
AAGCTAAAAAAAATCTAAATTGAGAA
Found at i:98383667 original size:192 final size:192
Alignment explanation
Indices: 98383340--98383724 Score: 743
Period size: 192 Copynumber: 2.0 Consensus size: 192
98383330 CGACCTCAGA
*
98383340 TTTGTGGTTCTGAAACCACCATTTCTGATTTAGCTAAAATCGGGTTGTTACAAAGGGTATGGAAA
1 TTTGTGGTTCTGAAACCACCATTTCTGATTTAGCTAAAATCGGGTTGTTACAAAAGGTATGGAAA
98383405 AACTTGTGTTTATTTATCATTGAAACCTTTTATGATACCACTATTTTTCTTGTTATTATATTTGC
66 AACTTGTGTTTATTTATCATTGAAACCTTTTATGATACCACTATTTTTCTTGTTATTATATTTGC
98383470 TTGAAATGTCAGTTTCTCATTCAGTTGAATCAAATTAGTACAACTCTTTTTGGGTTTCATTG
131 TTGAAATGTCAGTTTCTCATTCAGTTGAATCAAATTAGTACAACTCTTTTTGGGTTTCATTG
* *
98383532 TTTGTGGTTCTGAAACCACCGTTTCTGATTTAGCTAAAATCGGGTTGTTACAAAAGGTGTGGAAA
1 TTTGTGGTTCTGAAACCACCATTTCTGATTTAGCTAAAATCGGGTTGTTACAAAAGGTATGGAAA
98383597 AACTTGTGTTTATTTATCATTGAAACCTTTTATGATACCACTATTTTTCTTGTTATTATATTTGC
66 AACTTGTGTTTATTTATCATTGAAACCTTTTATGATACCACTATTTTTCTTGTTATTATATTTGC
98383662 TTGAAATGTCAGTTTCTCATTCAGTTGAATCAAATTAGTACAACTCTTTTTGGGTTTCATTG
131 TTGAAATGTCAGTTTCTCATTCAGTTGAATCAAATTAGTACAACTCTTTTTGGGTTTCATTG
98383724 T
1 T
98383725 GGTTTATTTT
Statistics
Matches: 190, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
192 190 1.00
ACGTcount: A:0.26, C:0.14, G:0.16, T:0.43
Consensus pattern (192 bp):
TTTGTGGTTCTGAAACCACCATTTCTGATTTAGCTAAAATCGGGTTGTTACAAAAGGTATGGAAA
AACTTGTGTTTATTTATCATTGAAACCTTTTATGATACCACTATTTTTCTTGTTATTATATTTGC
TTGAAATGTCAGTTTCTCATTCAGTTGAATCAAATTAGTACAACTCTTTTTGGGTTTCATTG
Found at i:98384534 original size:12 final size:12
Alignment explanation
Indices: 98384505--98384558 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
98384495 AGGTTGAGGG
98384505 AGAAGAAAATA-A
1 AGAA-AAAATAGA
98384517 AG-AAAAATATG-
1 AGAAAAAATA-GA
98384528 AGAAAAAATAGA
1 AGAAAAAATAGA
* *
98384540 AGAAAAAAGACA
1 AGAAAAAATAGA
98384552 AGAAAAA
1 AGAAAAA
98384559 TGAGAAAAGT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
10 6 0.17
11 4 0.11
12 26 0.72
ACGTcount: A:0.74, C:0.02, G:0.17, T:0.07
Consensus pattern (12 bp):
AGAAAAAATAGA
Found at i:98384806 original size:30 final size:31
Alignment explanation
Indices: 98384740--98384815 Score: 102
Period size: 31 Copynumber: 2.5 Consensus size: 31
98384730 ATGTTAATGG
98384740 GTGACTGATTTGTCACTTTTCGATAACGTTA
1 GTGACTGATTTGTCACTTTTCGATAACGTTA
* *
98384771 GTGACTGATTTGTTATTTTTCGA-AA-GTTGA
1 GTGACTGATTTGTCACTTTTCGATAACGTT-A
*
98384801 GTGACTAATTTGTCA
1 GTGACTGATTTGTCA
98384816 GCTGCATCAA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
29 3 0.08
30 16 0.40
31 21 0.52
ACGTcount: A:0.24, C:0.12, G:0.21, T:0.43
Consensus pattern (31 bp):
GTGACTGATTTGTCACTTTTCGATAACGTTA
Found at i:98388903 original size:40 final size:40
Alignment explanation
Indices: 98388826--98388903 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
98388816 TGAAAAAGCG
* * * *
98388826 CCGCTAAAGATCGAGCATTAGCGATGCTTTTTGAAAAATA
1 CCGCTAAAGATCAAGCATTAGCGACGCTTTCTAAAAAATA
*
98388866 CCGCTAAAGATCAAGCATTAGCGGCGCTTTCTAAAAAA
1 CCGCTAAAGATCAAGCATTAGCGACGCTTTCTAAAAAA
98388904 CGCCACTATA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.24
Consensus pattern (40 bp):
CCGCTAAAGATCAAGCATTAGCGACGCTTTCTAAAAAATA
Found at i:98389548 original size:15 final size:14
Alignment explanation
Indices: 98389530--98389581 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
98389520 TAGGAATTAT
98389530 GGTTTATGGTTTAA
1 GGTTTATGGTTTAA
* **
98389544 GGGTTGGGGTTTAA
1 GGTTTATGGTTTAA
*
98389558 GCTTTATGGGTTTAA
1 GGTTTAT-GGTTTAA
98389573 GGTTTATGG
1 GGTTTATGG
98389582 GTCGGGGGTC
Statistics
Matches: 29, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
14 16 0.55
15 13 0.45
ACGTcount: A:0.17, C:0.02, G:0.37, T:0.44
Consensus pattern (14 bp):
GGTTTATGGTTTAA
Found at i:98389563 original size:21 final size:21
Alignment explanation
Indices: 98389530--98389569 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
98389520 TAGGAATTAT
* *
98389530 GGTTTATGGTTTAAGGGTTGG
1 GGTTTAAGCTTTAAGGGTTGG
*
98389551 GGTTTAAGCTTTATGGGTT
1 GGTTTAAGCTTTAAGGGTT
98389570 TAAGGTTTAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.15, C:0.03, G:0.38, T:0.45
Consensus pattern (21 bp):
GGTTTAAGCTTTAAGGGTTGG
Found at i:98389582 original size:15 final size:15
Alignment explanation
Indices: 98389530--98389583 Score: 67
Period size: 15 Copynumber: 3.7 Consensus size: 15
98389520 TAGGAATTAT
98389530 GGTTTAT-GGTTTAA
1 GGTTTATGGGTTTAA
* *
98389544 GGGTT-GGGGTTTAA
1 GGTTTATGGGTTTAA
*
98389558 GCTTTATGGGTTTAA
1 GGTTTATGGGTTTAA
98389573 GGTTTATGGGT
1 GGTTTATGGGT
98389584 CGGGGGTCAA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
14 14 0.44
15 18 0.56
ACGTcount: A:0.17, C:0.02, G:0.37, T:0.44
Consensus pattern (15 bp):
GGTTTATGGGTTTAA
Found at i:98389607 original size:29 final size:29
Alignment explanation
Indices: 98389569--98389638 Score: 72
Period size: 29 Copynumber: 2.4 Consensus size: 29
98389559 CTTTATGGGT
*
98389569 TTAA-GGTTTATGGG-TCGGGGGTCAAGGG
1 TTAAGGGTTTATGGGTTAGGGGGTCAA-GG
* * *
98389597 TTAGGGGTTTAAGGGTTAGGGGTTCAAGG
1 TTAAGGGTTTATGGGTTAGGGGGTCAAGG
*
98389626 TTAATGGTTTATG
1 TTAAGGGTTTATG
98389639 TTTTAGGGTT
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
28 3 0.09
29 21 0.64
30 9 0.27
ACGTcount: A:0.20, C:0.04, G:0.41, T:0.34
Consensus pattern (29 bp):
TTAAGGGTTTATGGGTTAGGGGGTCAAGG
Found at i:98389610 original size:15 final size:15
Alignment explanation
Indices: 98389585--98389625 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
98389575 TTTATGGGTC
*
98389585 GGGGGTCAAGGGTTA
1 GGGGTTCAAGGGTTA
*
98389600 GGGGTTTAAGGGTTA
1 GGGGTTCAAGGGTTA
98389615 GGGGTTCAAGG
1 GGGGTTCAAGG
98389626 TTAATGGTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.20, C:0.05, G:0.51, T:0.24
Consensus pattern (15 bp):
GGGGTTCAAGGGTTA
Found at i:98389990 original size:25 final size:23
Alignment explanation
Indices: 98389941--98389994 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
98389931 ATATCATTTT
*
98389941 ATATTTATATATTGCATACATAA
1 ATATTTATATATTGCATACAAAA
* *
98389964 ATATTTATATATATTCAATATAAAA
1 ATATTTATATAT-TGC-ATACAAAA
98389989 ATATTT
1 ATATTT
98389995 TGATGTATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 12 0.46
24 2 0.08
25 12 0.46
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (23 bp):
ATATTTATATATTGCATACAAAA
Found at i:98390315 original size:13 final size:13
Alignment explanation
Indices: 98390299--98390336 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
98390289 AAATCTTCAA
*
98390299 AAAAATTAAAATT
1 AAAAATTAAAAAT
98390312 AAAAATTAAAAAT
1 AAAAATTAAAAAT
*
98390325 AAAAAATAAAAA
1 AAAAATTAAAAA
98390337 AATAAAGAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (13 bp):
AAAAATTAAAAAT
Found at i:98390316 original size:7 final size:7
Alignment explanation
Indices: 98390299--98390352 Score: 56
Period size: 7 Copynumber: 7.6 Consensus size: 7
98390289 AAATCTTCAA
98390299 AAAAATT
1 AAAAATT
98390306 -AAAATT
1 AAAAATT
98390312 AAAAATT
1 AAAAATT
*
98390319 AAAAATA
1 AAAAATT
*
98390326 AAAAATA
1 AAAAATT
*
98390333 AAAAAAT
1 AAAAATT
98390340 AAAGAACTT
1 AAA-AA-TT
98390349 AAAA
1 AAAA
98390353 TTTTAATATT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
6 6 0.15
7 27 0.68
8 3 0.08
9 4 0.10
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (7 bp):
AAAAATT
Found at i:98390498 original size:19 final size:19
Alignment explanation
Indices: 98390459--98390499 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
98390449 TTGAAAAAAA
*
98390459 AAATAGAAAAAAATATGTT
1 AAATAGAAAAAAAAATGTT
98390478 AAATATGAAAAAAAAAT-TT
1 AAATA-GAAAAAAAAATGTT
98390497 AAA
1 AAA
98390500 ATTAAGCAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.68, C:0.00, G:0.07, T:0.24
Consensus pattern (19 bp):
AAATAGAAAAAAAAATGTT
Found at i:98390501 original size:20 final size:20
Alignment explanation
Indices: 98390458--98390501 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
98390448 TTTGAAAAAA
*
98390458 AAAATAGAAAAAAATATGTT
1 AAAATAGAAAAAAAAATGTT
98390478 -AAATATGAAAAAAAAAT-TT
1 AAAATA-GAAAAAAAAATGTT
98390497 AAAAT
1 AAAAT
98390502 TAAGCAATAG
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.68, C:0.00, G:0.07, T:0.25
Consensus pattern (20 bp):
AAAATAGAAAAAAAAATGTT
Found at i:98390574 original size:41 final size:42
Alignment explanation
Indices: 98390497--98390587 Score: 103
Period size: 41 Copynumber: 2.2 Consensus size: 42
98390487 AAAAAAATTT
* * *
98390497 AAAATTAAGCAATAGTGGTGTTTTTGAGAAAAACGCCAC-AA
1 AAAATTAAGCAATAATGGCGTTTTTAAGAAAAACGCCACAAA
* ** * *
98390538 AAAATTAAGCTATAATGGCGTTTTTAAGTTAGACGCCGCAAA
1 AAAATTAAGCAATAATGGCGTTTTTAAGAAAAACGCCACAAA
98390580 AAAATTAA
1 AAAATTAA
98390588 CCTACAGTGA
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
41 31 0.76
42 10 0.24
ACGTcount: A:0.44, C:0.12, G:0.18, T:0.26
Consensus pattern (42 bp):
AAAATTAAGCAATAATGGCGTTTTTAAGAAAAACGCCACAAA
Found at i:98391487 original size:3 final size:3
Alignment explanation
Indices: 98391479--98391504 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
98391469 TACGGAGAGC
98391479 TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TT
98391505 TTAAGGTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:98393235 original size:31 final size:31
Alignment explanation
Indices: 98393200--98393264 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
98393190 AAATAAAGAT
98393200 AAAATAATTTTCTTACTGATTCTTCAAAAAG
1 AAAATAATTTTCTTACTGATTCTTCAAAAAG
*
98393231 AAAATAATTTTGTTACTGATTCTTCAAAAAG
1 AAAATAATTTTCTTACTGATTCTTCAAAAAG
98393262 AAA
1 AAA
98393265 TATATATATA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.45, C:0.11, G:0.08, T:0.37
Consensus pattern (31 bp):
AAAATAATTTTCTTACTGATTCTTCAAAAAG
Found at i:98394852 original size:18 final size:18
Alignment explanation
Indices: 98394792--98394852 Score: 50
Period size: 18 Copynumber: 3.2 Consensus size: 18
98394782 GAATTTTAAT
*
98394792 TTTTTTATATTTTTCATGAC
1 TTTTTTA-AATTTT-ATGAC
* ***
98394812 TTTTATAATATTTTATTTT
1 TTTTTTAA-ATTTTATGAC
98394831 TTTTTTAAATTTTATGAC
1 TTTTTTAAATTTTATGAC
98394849 TTTT
1 TTTT
98394853 AGCGGCGTTT
Statistics
Matches: 31, Mismatches: 9, Indels: 4
0.70 0.20 0.09
Matches are distributed among these distances:
18 11 0.35
19 10 0.32
20 10 0.32
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.69
Consensus pattern (18 bp):
TTTTTTAAATTTTATGAC
Found at i:98395711 original size:20 final size:20
Alignment explanation
Indices: 98395674--98395711 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
98395664 TTTACTTGAT
*
98395674 TTAGGGTTTTAGGGTTAGGG
1 TTAGGGTTTAAGGGTTAGGG
*
98395694 TTAGGGTTTAAGGTTTAG
1 TTAGGGTTTAAGGGTTAG
98395712 AGTTTATGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.00, G:0.39, T:0.42
Consensus pattern (20 bp):
TTAGGGTTTAAGGGTTAGGG
Found at i:98396508 original size:126 final size:126
Alignment explanation
Indices: 98395925--98396572 Score: 895
Period size: 126 Copynumber: 5.1 Consensus size: 126
98395915 TTTTTTATTT
* * * *
98395925 TTTTTCTACAGTAGTATCTGAAAAAATGATTTTGAGAAGACATTTCTAAACAAATAGTGTCTAAA
1 TTTTTCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAAA
* ** * *
98395990 ACACTTCAAACAGGATGCACTGTCAGTAAAATTACTGATAAAAAAAGCTCTCACGTGGATGCTC
66 ACACTTCAAGCAGGATGCACTGTCAACAAAATTACTG---AAAAAAGCTCCCACGTGGACGCTC
*
98396054 TTTTTCTACAGTGGTATCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAAA
1 TTTTTCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAAA
* * * * ** *
98396119 ACGCTTCAAGCAGGATACATTGTCAACAAAATTACTGAAAAAAGCTCCTACGTGGACATTT
66 ACACTTCAAGCAGGATGCACTGTCAACAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* * *
98396180 TTTTTCTAGAGTAGTATCTGAAAAAAATAATTTTGAGAAGACGTTTCTAAACAAATAGTGTTCAA
1 TTTTTCTACAGTAGTATCTG-AAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAA
* * * *
98396245 AACACTTCAAGAAGGATGAATTGTCAACAAAATTACTGAAAAAAGCTCCCATGTGGACGCTC
65 AACACTTCAAGCAGGATGCACTGTCAACAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* * *
98396307 TTTTTCTACAATAATATCT-AAAAAATAATTTTGAGAAGACGCTTT-TGAACAAATAGTGTGCAA
1 TTTTTCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACG-TTTCTGAACAAATAGTGTCCAA
*
98396370 AACACTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
65 AACACTTCAAGCAGGATGCACTGTCAACAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* *
98396432 TTTTTCTACAGTAGTATTTGAAAAAATAGTTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAAA
1 TTTTTCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAAA
* * * * * * * *
98396497 ACGCTTCAAGCAGGATGCACTATTAAAAAAATTACTGAAAAATGTTCCCACGTGGACGTTT
66 ACACTTCAAGCAGGATGCACTGTCAACAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
98396558 TTTTTCTACAGTAGT
1 TTTTTCTACAGTAGT
98396573 TCCTATTTGG
Statistics
Matches: 461, Mismatches: 54, Indels: 11
0.88 0.10 0.02
Matches are distributed among these distances:
125 114 0.25
126 145 0.31
127 111 0.24
129 91 0.20
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.29
Consensus pattern (126 bp):
TTTTTCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAAA
ACACTTCAAGCAGGATGCACTGTCAACAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
Found at i:98400164 original size:18 final size:18
Alignment explanation
Indices: 98400141--98400175 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
98400131 GGAAAATGAA
*
98400141 ACATATAAGGGTTAGGAC
1 ACATATAAGGGCTAGGAC
98400159 ACATATAAGGGCTAGGA
1 ACATATAAGGGCTAGGA
98400176 TACGCACCTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.11, G:0.29, T:0.20
Consensus pattern (18 bp):
ACATATAAGGGCTAGGAC
Found at i:98400266 original size:30 final size:29
Alignment explanation
Indices: 98400232--98400298 Score: 80
Period size: 30 Copynumber: 2.3 Consensus size: 29
98400222 GTTGAAGTGT
* *
98400232 TGGGCCCGGTTACTGTGTTGGCACTGTTGA
1 TGGGCCCGGTGACTGTGTGGGCACTGTT-A
* * *
98400262 TGGGCCCAGTGATTGTGTGGGCGCTGTTA
1 TGGGCCCGGTGACTGTGTGGGCACTGTTA
98400291 TGGGCCCG
1 TGGGCCCG
98400299 CGTCGTCATC
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
29 8 0.26
30 23 0.74
ACGTcount: A:0.09, C:0.21, G:0.40, T:0.30
Consensus pattern (29 bp):
TGGGCCCGGTGACTGTGTGGGCACTGTTA
Found at i:98400807 original size:7 final size:7
Alignment explanation
Indices: 98400795--98400844 Score: 73
Period size: 7 Copynumber: 7.0 Consensus size: 7
98400785 TTATATAAAT
98400795 AATACTA
1 AATACTA
98400802 AATACTA
1 AATACTA
98400809 AATACTA
1 AATACTA
98400816 AATACTA
1 AATACTA
*
98400823 AATATTA
1 AATACTA
*
98400830 AATACGA
1 AATACTA
98400837 AATGACTA
1 AAT-ACTA
98400845 TTTTATTATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
7 35 0.92
8 3 0.08
ACGTcount: A:0.56, C:0.12, G:0.04, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:98402061 original size:25 final size:25
Alignment explanation
Indices: 98402027--98402076 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
98402017 ATTTCATTGA
98402027 GCTCAATTTTAAAACATCAAATATC
1 GCTCAATTTTAAAACATCAAATATC
98402052 GCTCAATTTTAAAACATCAAATATC
1 GCTCAATTTTAAAACATCAAATATC
98402077 CAATCATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.44, C:0.20, G:0.04, T:0.32
Consensus pattern (25 bp):
GCTCAATTTTAAAACATCAAATATC
Found at i:98402209 original size:27 final size:27
Alignment explanation
Indices: 98402179--98402245 Score: 116
Period size: 27 Copynumber: 2.5 Consensus size: 27
98402169 TTGTCACATT
98402179 TCACTTTGCCATATTTGGCACACTTTA
1 TCACTTTGCCATATTTGGCACACTTTA
*
98402206 TCACTTTGCCATGTTTGGCACACTTTA
1 TCACTTTGCCATATTTGGCACACTTTA
*
98402233 TCACTTTGTCATA
1 TCACTTTGCCATA
98402246 GTTCAACTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.21, C:0.25, G:0.12, T:0.42
Consensus pattern (27 bp):
TCACTTTGCCATATTTGGCACACTTTA
Found at i:98404812 original size:26 final size:26
Alignment explanation
Indices: 98404779--98404861 Score: 88
Period size: 26 Copynumber: 3.4 Consensus size: 26
98404769 AAAAATTATA
98404779 AAAT-AAAAATTAATTAAAATTGCAT
1 AAATGAAAAATTAATTAAAATTGCAT
* *
98404804 AAATGAAAAA--AATATTAAATAG--T
1 AAATGAAAAATTAAT-TAAAATTGCAT
*
98404827 -ATTGAAAAATTAATTAAAATTGCAT
1 AAATGAAAAATTAATTAAAATTGCAT
98404852 AAATGAAAAA
1 AAATGAAAAA
98404862 AATATTAATT
Statistics
Matches: 45, Mismatches: 6, Indels: 13
0.70 0.09 0.20
Matches are distributed among these distances:
22 8 0.18
23 7 0.16
24 6 0.13
25 11 0.24
26 13 0.29
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.29
Consensus pattern (26 bp):
AAATGAAAAATTAATTAAAATTGCAT
Found at i:98404835 original size:22 final size:22
Alignment explanation
Indices: 98404807--98404883 Score: 66
Period size: 22 Copynumber: 3.3 Consensus size: 22
98404797 ATTGCATAAA
98404807 TGAAAAAAATATTAAATAGTAT
1 TGAAAAAAATATTAAATAGTAT
* * *
98404829 TGAAAAATTAAT-TAAAATTGCATAAA
1 TGAAAAA--AATATTAAATAG--T-AT
*
98404855 TGAAAAAAATATTAATTAGTAT
1 TGAAAAAAATATTAAATAGTAT
98404877 TGAAAAA
1 TGAAAAA
98404884 TTAAAATTAT
Statistics
Matches: 42, Mismatches: 7, Indels: 12
0.69 0.11 0.20
Matches are distributed among these distances:
22 15 0.36
23 7 0.17
24 6 0.14
25 6 0.14
26 8 0.19
ACGTcount: A:0.58, C:0.01, G:0.09, T:0.31
Consensus pattern (22 bp):
TGAAAAAAATATTAAATAGTAT
Found at i:98404838 original size:48 final size:48
Alignment explanation
Indices: 98404783--98404887 Score: 201
Period size: 48 Copynumber: 2.2 Consensus size: 48
98404773 ATTATAAAAT
98404783 AAAAATTAATTAAAATTGCATAAATGAAAAAAATATTAAATAGTATTG
1 AAAAATTAATTAAAATTGCATAAATGAAAAAAATATTAAATAGTATTG
*
98404831 AAAAATTAATTAAAATTGCATAAATGAAAAAAATATTAATTAGTATTG
1 AAAAATTAATTAAAATTGCATAAATGAAAAAAATATTAAATAGTATTG
98404879 AAAAATTAA
1 AAAAATTAA
98404888 AATTATCACT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 56 1.00
ACGTcount: A:0.59, C:0.02, G:0.08, T:0.31
Consensus pattern (48 bp):
AAAAATTAATTAAAATTGCATAAATGAAAAAAATATTAAATAGTATTG
Found at i:98404868 original size:26 final size:26
Alignment explanation
Indices: 98404791--98404869 Score: 87
Period size: 26 Copynumber: 3.2 Consensus size: 26
98404781 ATAAAAATTA
98404791 ATTAAAATTGCATAAATGAAAAAAAT
1 ATTAAAATTGCATAAATGAAAAAAAT
* * *
98404817 ATT-AAATAG--T-ATTG-AAAAATT
1 ATTAAAATTGCATAAATGAAAAAAAT
98404838 AATTAAAATTGCATAAATGAAAAAAAT
1 -ATTAAAATTGCATAAATGAAAAAAAT
98404865 ATTAA
1 ATTAA
98404870 TTAGTATTGA
Statistics
Matches: 41, Mismatches: 6, Indels: 12
0.69 0.10 0.20
Matches are distributed among these distances:
21 6 0.15
22 6 0.15
23 6 0.15
25 6 0.15
26 11 0.27
27 6 0.15
ACGTcount: A:0.59, C:0.03, G:0.08, T:0.30
Consensus pattern (26 bp):
ATTAAAATTGCATAAATGAAAAAAAT
Found at i:98417233 original size:13 final size:13
Alignment explanation
Indices: 98417215--98417239 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
98417205 GTAAGTTTCC
98417215 AAAAATGGAAATG
1 AAAAATGGAAATG
98417228 AAAAATGGAAAT
1 AAAAATGGAAAT
98417240 TTGCAATCCT
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:0.64, C:0.00, G:0.20, T:0.16
Consensus pattern (13 bp):
AAAAATGGAAATG
Found at i:98420762 original size:12 final size:12
Alignment explanation
Indices: 98420745--98420775 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
98420735 TAATGAAAGT
98420745 ATAAAAGGAAAA
1 ATAAAAGGAAAA
98420757 ATAAAAGGAAAA
1 ATAAAAGGAAAA
*
98420769 AAAAAAG
1 ATAAAAG
98420776 ACATTCATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.77, C:0.00, G:0.16, T:0.06
Consensus pattern (12 bp):
ATAAAAGGAAAA
Found at i:98420972 original size:13 final size:13
Alignment explanation
Indices: 98420954--98421084 Score: 93
Period size: 13 Copynumber: 10.6 Consensus size: 13
98420944 AAATATCTTT
98420954 ACTCCACTAAACC
1 ACTCCACTAAACC
* **
98420967 ACTCCAACCACTCC
1 ACTCC-ACTAAACC
* *
98420981 A-ACCACTCCAACC
1 ACTCCACT-AAACC
*
98420994 ACTCTACTAAACC
1 ACTCCACTAAACC
*
98421007 ACTACACTAAACC
1 ACTCCACTAAACC
98421020 ACTCCACTAAACC
1 ACTCCACTAAACC
98421033 AC-CC-C--AACC
1 ACTCCACTAAACC
*
98421042 AC-CCTACTAAACT
1 ACTCC-ACTAAACC
98421055 ACTCCACTAAACC
1 ACTCCACTAAACC
98421068 AC-CC-C--AACC
1 ACTCCACTAAACC
98421077 ACTCCACT
1 ACTCCACT
98421085 TGCCTACAAA
Statistics
Matches: 91, Mismatches: 16, Indels: 23
0.70 0.12 0.18
Matches are distributed among these distances:
9 14 0.15
10 2 0.02
11 4 0.04
12 6 0.07
13 53 0.58
14 12 0.13
ACGTcount: A:0.37, C:0.49, G:0.00, T:0.15
Consensus pattern (13 bp):
ACTCCACTAAACC
Found at i:98420977 original size:9 final size:9
Alignment explanation
Indices: 98420963--98420997 Score: 70
Period size: 9 Copynumber: 3.9 Consensus size: 9
98420953 TACTCCACTA
98420963 AACCACTCC
1 AACCACTCC
98420972 AACCACTCC
1 AACCACTCC
98420981 AACCACTCC
1 AACCACTCC
98420990 AACCACTC
1 AACCACTC
98420998 TACTAAACCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.34, C:0.54, G:0.00, T:0.11
Consensus pattern (9 bp):
AACCACTCC
Found at i:98421042 original size:35 final size:35
Alignment explanation
Indices: 98421003--98421084 Score: 130
Period size: 35 Copynumber: 2.3 Consensus size: 35
98420993 CACTCTACTA
*
98421003 AACCACTACACTAAACCACTCCACTAAACCACCCC
1 AACCACTCCACTAAACCACTCCACTAAACCACCCC
*
98421038 AACCAC-CCTACTAAACTACTCCACTAAACCACCCC
1 AACCACTCC-ACTAAACCACTCCACTAAACCACCCC
98421073 AACCACTCCACT
1 AACCACTCCACT
98421085 TGCCTACAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
34 1 0.02
35 40 0.93
36 2 0.05
ACGTcount: A:0.38, C:0.49, G:0.00, T:0.13
Consensus pattern (35 bp):
AACCACTCCACTAAACCACTCCACTAAACCACCCC
Found at i:98421494 original size:3 final size:3
Alignment explanation
Indices: 98421483--98421562 Score: 53
Period size: 3 Copynumber: 26.3 Consensus size: 3
98421473 TTTATTTTTT
* *
98421483 TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA TT- TCTCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA T-T-A
98421528 TGTA TATA TTA TTA TT- TATA TTA TTA TTA -TA TTA T
1 T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA TTA T
98421563 ATATGCCATC
Statistics
Matches: 62, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
2 7 0.11
3 46 0.74
4 7 0.11
5 2 0.03
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:98421499 original size:9 final size:9
Alignment explanation
Indices: 98421474--98421562 Score: 56
Period size: 9 Copynumber: 9.4 Consensus size: 9
98421464 GAGCTTTGTT
*
98421474 TTATTTTTT
1 TTATTTTTA
98421483 TTA-TTTTA
1 TTATTTTTA
98421491 TTATTTTTA
1 TTATTTTTA
*
98421500 CTATTATTTA
1 TTATT-TTTA
*
98421510 -TATTATTA
1 TTATTTTTA
*
98421518 TTATTTCTCA
1 TTATTT-TTA
*
98421528 TGTATATATTA
1 T-TAT-TTTTA
*
98421539 TTATTTATA
1 TTATTTTTA
98421548 TTATTATTATA
1 TTATT-TT-TA
98421559 TTAT
1 TTAT
98421563 ATATGCCATC
Statistics
Matches: 62, Mismatches: 10, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
8 10 0.16
9 28 0.45
10 11 0.18
11 12 0.19
12 1 0.02
ACGTcount: A:0.28, C:0.03, G:0.01, T:0.67
Consensus pattern (9 bp):
TTATTTTTA
Found at i:98421504 original size:17 final size:14
Alignment explanation
Indices: 98421472--98421523 Score: 50
Period size: 15 Copynumber: 3.6 Consensus size: 14
98421462 GAGAGCTTTG
98421472 TTTTATTTTTTTTA
1 TTTTATTTTTTTTA
*
98421486 TTTTATTATTTTTA
1 TTTTATTTTTTTTA
* * *
98421500 CTATTATTTATATTA
1 -TTTTATTTTTTTTA
98421515 TTATTATTT
1 TT-TTATTT
98421524 CTCATGTATA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
14 14 0.47
15 16 0.53
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (14 bp):
TTTTATTTTTTTTA
Found at i:98421522 original size:18 final size:18
Alignment explanation
Indices: 98421487--98421566 Score: 67
Period size: 18 Copynumber: 4.4 Consensus size: 18
98421477 TTTTTTTTAT
* *
98421487 TTTATTATTTTTACTATTA
1 TTTA-TATTATTATTATTA
98421506 TTTATATTATTATTATT-
1 TTTATATTATTATTATTA
* *
98421523 TCTCAT-GTATATATTATTA
1 T-TTATATTAT-TATTATTA
98421542 TTTATATTATTATTA-TA
1 TTTATATTATTATTATTA
98421559 TTATATAT
1 TT-TATAT
98421567 GCCATCTCCA
Statistics
Matches: 50, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
17 8 0.16
18 34 0.68
19 8 0.16
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (18 bp):
TTTATATTATTATTATTA
Found at i:98421549 original size:12 final size:12
Alignment explanation
Indices: 98421482--98421562 Score: 78
Period size: 12 Copynumber: 6.8 Consensus size: 12
98421472 TTTTATTTTT
*
98421482 TTTATTTTATTA
1 TTTATATTATTA
* *
98421494 TTTTTACTATTA
1 TTTATATTATTA
98421506 TTTATATTATTA
1 TTTATATTATTA
* *
98421518 -TTAT-TTCTCA
1 TTTATATTATTA
98421528 TGTATATATTATTA
1 T-T-TATATTATTA
98421542 TTTATATTATTA
1 TTTATATTATTA
98421554 -TTATATTAT
1 TTTATATTAT
98421563 ATATGCCATC
Statistics
Matches: 56, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
10 4 0.07
11 13 0.23
12 30 0.54
13 4 0.07
14 5 0.09
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (12 bp):
TTTATATTATTA
Found at i:98421781 original size:12 final size:12
Alignment explanation
Indices: 98421762--98421808 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 12
98421752 ATTTTTGCTA
98421762 TTAT-TATATAT
1 TTATGTATATAT
* *
98421773 TTGTGTATATTT
1 TTATGTATATAT
98421785 TTATGTATATAT
1 TTATGTATATAT
* *
98421797 ATATTTATATAT
1 TTATGTATATAT
98421809 AGTATTGTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
11 3 0.10
12 26 0.90
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (12 bp):
TTATGTATATAT
Done.